Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 116 of 218
Found at i:34178525 original size:14 final size:14
Alignment explanation
Indices: 34178501--34178570 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
34178491 CTTTTTCAAT
* *
34178501 CATCACTCATCCCT
1 CATCCCTCATCCCC
*
34178515 CATCCCCCATCCCC
1 CATCCCTCATCCCC
* *
34178529 CATCCCCCAACCCC
1 CATCCCTCATCCCC
34178543 CATCCCTCATCCCTC
1 CATCCCTCATCCC-C
*
34178558 TCATCTCTCATCC
1 -CATCCCTCATCC
34178571 TTTCTCTCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
14 35 0.74
15 1 0.02
16 11 0.23
ACGTcount: A:0.17, C:0.60, G:0.00, T:0.23
Consensus pattern (14 bp):
CATCCCTCATCCCC
Found at i:34178525 original size:21 final size:21
Alignment explanation
Indices: 34178501--34178557 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
34178491 CTTTTTCAAT
* *
34178501 CATCACTCATCCCTCATCCCC
1 CATCCCTCATCCCTCAACCCC
* *
34178522 CATCCCCCATCCCCCAACCCC
1 CATCCCTCATCCCTCAACCCC
34178543 CATCCCTCATCCCTC
1 CATCCCTCATCCCTC
34178558 TCATCTCTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.63, G:0.00, T:0.19
Consensus pattern (21 bp):
CATCCCTCATCCCTCAACCCC
Found at i:34189090 original size:21 final size:21
Alignment explanation
Indices: 34189064--34189106 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
34189054 ATACTATGCA
34189064 TATTGCAGTAACTCACCCGAC
1 TATTGCAGTAACTCACCCGAC
*
34189085 TATTGCAGTAACTCACCTGAC
1 TATTGCAGTAACTCACCCGAC
34189106 T
1 T
34189107 TATACTTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (21 bp):
TATTGCAGTAACTCACCCGAC
Found at i:34189363 original size:43 final size:43
Alignment explanation
Indices: 34189299--34189420 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 43
34189289 ATATCAAAAC
* * * * *
34189299 AACTATACTGGCATACACAGTGCATCATCAGATATACTGAGGT
1 AACTATACTAGCACACACAGTGCATCATCAAATATACCGAAGT
*
34189342 AACTATACTAGCACACGCAGTGCATCATCAAATATACCGAAGT
1 AACTATACTAGCACACACAGTGCATCATCAAATATACCGAAGT
* * *
34189385 AACTATACTAGCACACACAGCGCACCATCGAATATA
1 AACTATACTAGCACACACAGTGCATCATCAAATATA
34189421 TCGTAGGCAC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (43 bp):
AACTATACTAGCACACACAGTGCATCATCAAATATACCGAAGT
Found at i:34189485 original size:43 final size:43
Alignment explanation
Indices: 34189428--34189593 Score: 163
Period size: 43 Copynumber: 3.9 Consensus size: 43
34189418 ATATCGTAGG
* * * * *
34189428 CACATAGTGTATCATCAGATATACTGAAGTAACTGTACTGGCA
1 CACACAGTGCATCATCAGATATACCGAAGTAACTATACTAGCA
* * **
34189471 CACATAGTGCATCATTAGATATACCCCAGTAACTATACTAGCA
1 CACACAGTGCATCATCAGATATACCGAAGTAACTATACTAGCA
* * *
34189514 CACACAGTGCATCATC-GAATATACCAAAGTAACTATACTTGAA
1 CACACAGTGCATCATCAG-ATATACCGAAGTAACTATACTAGCA
* * * * *
34189557 CATACAGTGTATTATCAGATATACGGAAGTAATTATA
1 CACACAGTGCATCATCAGATATACCGAAGTAACTATA
34189594 TTGCCACTTG
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 100 0.98
44 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (43 bp):
CACACAGTGCATCATCAGATATACCGAAGTAACTATACTAGCA
Found at i:34189530 original size:116 final size:116
Alignment explanation
Indices: 34189317--34189536 Score: 332
Period size: 116 Copynumber: 1.9 Consensus size: 116
34189307 TGGCATACAC
* * *
34189317 AGTGCATCATCAGATATACTGAGGTAACTATACTAGCACACGCAGTGCATCATCAAATATACCGA
1 AGTGCATCATCAGATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCAAATATACCCA
34189382 AGTAACTATACTAGCACACACAGCGCACCATCGAATATATCGTAGGCACAT
66 AGTAACTATACTAGCACACACAGCGCACCATCGAATATATCGTAGGCACAT
* * * * * * *
34189433 AGTGTATCATCAGATATACTGAAGTAACTGTACTGGCACACATAGTGCATCATTAGATATACCCC
1 AGTGCATCATCAGATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCAAATATACCCA
* *
34189498 AGTAACTATACTAGCACACACAGTGCATCATCGAATATA
66 AGTAACTATACTAGCACACACAGCGCACCATCGAATATA
34189537 CCAAAGTAAC
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
116 92 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (116 bp):
AGTGCATCATCAGATATACTGAAGTAACTATACTAGCACACACAGTGCATCATCAAATATACCCA
AGTAACTATACTAGCACACACAGCGCACCATCGAATATATCGTAGGCACAT
Found at i:34192176 original size:43 final size:43
Alignment explanation
Indices: 34192101--34192371 Score: 224
Period size: 43 Copynumber: 6.3 Consensus size: 43
34192091 GGGATGCTAC
* * * *
34192101 ATATACCAAAGTAACTATACTTGAACATACAATGCATCATCAG
1 ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
* * **
34192144 ATACACCGAAGTAACTATACTGGCACACACAATGCATCATTGG
1 ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
* * * *
34192187 ATATATCGAAGTAACTATACTAGAACATACAATGCATCATCGG
1 ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
* * * * * *
34192230 ATATACCAAAGTAACTATACCACCAGACATAGTGCATCATCAG
1 ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
* * * * * *
34192273 ATATATCGAAGTAACTATACTGGCACAAATAGTTCATCATCAG
1 ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
** * * * *
34192316 ATATATTGATA-TAACTATA-TTGATACATACAGTGCATCATC-G
1 ATATACCGA-AGTAACTATACTAG-CACACACAATGCATCATCAG
34192358 TATATACCGAAGTA
1 -ATATACCGAAGTA
34192372 TAACCTGGAT
Statistics
Matches: 185, Mismatches: 39, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
42 4 0.02
43 180 0.97
44 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (43 bp):
ATATACCGAAGTAACTATACTAGCACACACAATGCATCATCAG
Found at i:34192246 original size:86 final size:86
Alignment explanation
Indices: 34192109--34192293 Score: 262
Period size: 86 Copynumber: 2.2 Consensus size: 86
34192099 ACATATACCA
* * ***
34192109 AAGTAACTATACTTGAACATACAATGCATCATCAGATACACCGAAGTAACTATACTGGCACACAC
1 AAGTAACTATACTAGAACATACAATGCATCATCAGATACACCAAAGTAACTATACCACCACACAC
**
34192174 AATGCATCATTGGATATATCG
66 AATGCATCATCAGATATATCG
* * * *
34192195 AAGTAACTATACTAGAACATACAATGCATCATCGGATATACCAAAGTAACTATACCACCAGACAT
1 AAGTAACTATACTAGAACATACAATGCATCATCAGATACACCAAAGTAACTATACCACCACACAC
*
34192260 AGTGCATCATCAGATATATCG
66 AATGCATCATCAGATATATCG
34192281 AAGTAACTATACT
1 AAGTAACTATACT
34192294 GGCACAAATA
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (86 bp):
AAGTAACTATACTAGAACATACAATGCATCATCAGATACACCAAAGTAACTATACCACCACACAC
AATGCATCATCAGATATATCG
Found at i:34192331 original size:129 final size:128
Alignment explanation
Indices: 34192101--34192371 Score: 332
Period size: 129 Copynumber: 2.1 Consensus size: 128
34192091 GGGATGCTAC
* *
34192101 ATATACCAAAGTAACTATACTTGAACATACAATGCATCATCAGATACACCGAAGTAACTATACTG
1 ATATACCAAAGTAACTATAC-TCAACAGACAATGCATCATCAGATACACCGAAGTAACTATACTG
* **
34192166 GCACACACAATGCATCATTGGATATATCGAAGTAACTATACTAGA-ACATACAATGCATCATCGG
65 GCACAAACAATGCATCATCAGATATATCGAAGTAACTATA-TAGATACATACAATGCATCATCGG
* * *
34192230 ATATACCAAAGTAACTATAC-CACCAGACATAGTGCATCATCAGATATATCGAAGTAACTATACT
1 ATATACCAAAGTAACTATACTCAACAGACA-A-TGCATCATCAGATACACCGAAGTAACTATACT
* * * * * *
34192294 GGCACAAATAGTTCATCATCAGATATATTGATA-TAACTATATTGATACATACAGTGCATCATCG
64 GGCACAAACAATGCATCATCAGATATATCGA-AGTAACTATATAGATACATACAATGCATCATCG
*
34192358 T
128 G
*
34192359 ATATACCGAAGTA
1 ATATACCAAAGTA
34192372 TAACCTGGAT
Statistics
Matches: 122, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
127 6 0.05
128 4 0.03
129 111 0.91
130 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (128 bp):
ATATACCAAAGTAACTATACTCAACAGACAATGCATCATCAGATACACCGAAGTAACTATACTGG
CACAAACAATGCATCATCAGATATATCGAAGTAACTATATAGATACATACAATGCATCATCGG
Found at i:34192334 original size:86 final size:86
Alignment explanation
Indices: 34192109--34192320 Score: 253
Period size: 86 Copynumber: 2.5 Consensus size: 86
34192099 ACATATACCA
* * * * *** * *
34192109 AAGTAACTATACTTGAACATACAATGCATCATCAGATACACCGAAGTAACTATACTGGCACACAC
1 AAGTAACTATACTAGAACAAACAATGCATCATCAGATATACCAAAGTAACTATACCACCAGACAT
* **
34192174 AATGCATCATTGGATATATCG
66 AGTGCATCATCAGATATATCG
* *
34192195 AAGTAACTATACTAGAACATACAATGCATCATCGGATATACCAAAGTAACTATACCACCAGACAT
1 AAGTAACTATACTAGAACAAACAATGCATCATCAGATATACCAAAGTAACTATACCACCAGACAT
34192260 AGTGCATCATCAGATATATCG
66 AGTGCATCATCAGATATATCG
* * * * *
34192281 AAGTAACTATACTGGCACAAATAGTTCATCATCAGATATA
1 AAGTAACTATACTAGAACAAACAATGCATCATCAGATATA
34192321 TTGATATAAC
Statistics
Matches: 107, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 107 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (86 bp):
AAGTAACTATACTAGAACAAACAATGCATCATCAGATATACCAAAGTAACTATACCACCAGACAT
AGTGCATCATCAGATATATCG
Found at i:34193499 original size:33 final size:33
Alignment explanation
Indices: 34193462--34193527 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
34193452 TCGCGAGGTG
34193462 TGCATTATAACTAACCGCCTTCAGACATACTAA
1 TGCATTATAACTAACCGCCTTCAGACATACTAA
34193495 TGCATTATAACTAACCGCCTTCAGACATACTAA
1 TGCATTATAACTAACCGCCTTCAGACATACTAA
34193528 CGTCCCGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.27
Consensus pattern (33 bp):
TGCATTATAACTAACCGCCTTCAGACATACTAA
Found at i:34193528 original size:19 final size:19
Alignment explanation
Indices: 34193471--34193528 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
34193461 GTGCATTATA
34193471 ACTAACCGCCTTCAGACAT
1 ACTAACCGCCTTCAGACAT
* * *
34193490 ACTAA-TGCATT---ATA-
1 ACTAACCGCCTTCAGACAT
34193504 ACTAACCGCCTTCAGACAT
1 ACTAACCGCCTTCAGACAT
34193523 ACTAAC
1 ACTAAC
34193529 GTCCCGAGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 10
0.64 0.14 0.23
Matches are distributed among these distances:
14 5 0.18
15 6 0.21
18 6 0.21
19 11 0.39
ACGTcount: A:0.36, C:0.31, G:0.09, T:0.24
Consensus pattern (19 bp):
ACTAACCGCCTTCAGACAT
Found at i:34197034 original size:17 final size:17
Alignment explanation
Indices: 34197012--34197044 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34197002 CTTTTTAACA
34197012 TTTGATTGATCTTTCTG
1 TTTGATTGATCTTTCTG
34197029 TTTGATTGATCTTTCT
1 TTTGATTGATCTTTCT
34197045 AATATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.61
Consensus pattern (17 bp):
TTTGATTGATCTTTCTG
Found at i:34202306 original size:4 final size:4
Alignment explanation
Indices: 34202280--34202330 Score: 52
Period size: 4 Copynumber: 12.5 Consensus size: 4
34202270 GTAAAATAAT
*
34202280 AATA AAT- AATA TAACA AAT- AATA AATA AATA AATA AATAA AATAA AATA
1 AATA AATA AATA -AATA AATA AATA AATA AATA AATA AAT-A AAT-A AATA
34202329 AA
1 AA
34202331 GAAAAGGGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 6 0.15
4 23 0.56
5 12 0.29
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:34202317 original size:19 final size:18
Alignment explanation
Indices: 34202273--34202319 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
34202263 TAGATCAGTA
34202273 AAAT-AATAATAAATAAT
1 AAATAAATAATAAATAAT
*
34202290 ATAACAAATAATAAATAAAT
1 A-AATAAATAATAAAT-AAT
34202310 AAATAAATAA
1 AAATAAATAA
34202320 AATAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.04
18 2 0.08
19 18 0.72
20 4 0.16
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAATAATAAATAAT
Found at i:34202327 original size:22 final size:24
Alignment explanation
Indices: 34202271--34202330 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 24
34202261 AATAGATCAG
34202271 TAAAATAATAATAAATAATATAACA
1 TAAAATAA-AATAAATAATATAACA
34202296 -AATAAT-AAATAAATAA-ATAA-A
1 TAA-AATAAAATAAATAATATAACA
34202317 TAAAATAAAATAAA
1 TAAAATAAAATAAA
34202331 GAAAAGGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
21 4 0.12
22 13 0.41
23 9 0.28
24 3 0.09
25 3 0.09
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAATAAAATAAATAATATAACA
Found at i:34204995 original size:94 final size:92
Alignment explanation
Indices: 34204887--34205055 Score: 257
Period size: 94 Copynumber: 1.8 Consensus size: 92
34204877 CATGTTCCTT
** * *
34204887 CATTAACTAGCTTTAATGTATCAGCTGGATGCATGAATTTCCAGCTGAAAAAAATAGCTCCCTTT
1 CATTAACTAGCTTTAATGTATCAGCTAAATACATGAATTTCCAGCCG-AAAAAA-AGCTCCCTTT
34204952 GTTCAAGCACATTCGGGTACATTGCTCTC
64 GTTCAAGCACATTCGGGTACATTGCTCTC
* *
34204981 CATTAAGTAGCTTTAATGTATCAGCTAAATACATGAATTTCCAGCCGCAAAAAAGCTCCCTTTGT
1 CATTAACTAGCTTTAATGTATCAGCTAAATACATGAATTTCCAGCCGAAAAAAAGCTCCCTTTGT
*
34205046 TCATGCACAT
66 TCAAGCACAT
34205056 GTGGGTGTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 21 0.31
93 5 0.07
94 42 0.62
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (92 bp):
CATTAACTAGCTTTAATGTATCAGCTAAATACATGAATTTCCAGCCGAAAAAAAGCTCCCTTTGT
TCAAGCACATTCGGGTACATTGCTCTC
Found at i:34215715 original size:37 final size:37
Alignment explanation
Indices: 34215665--34215743 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
34215655 TTATTACGAA
* *
34215665 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
34215702 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
34215739 GTCTT
1 GTCTT
34215744 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:34215979 original size:47 final size:47
Alignment explanation
Indices: 34215862--34216242 Score: 629
Period size: 47 Copynumber: 8.1 Consensus size: 47
34215852 CCCTTCGGGA
* * * * * * *
34215862 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
34215909 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34215955 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34216002 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34216049 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34216096 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34216143 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34216190 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34216239 CTTA
1 CTTA
34216243 CTATCATTTC
Statistics
Matches: 316, Mismatches: 15, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
46 37 0.12
47 237 0.75
49 42 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34219356 original size:33 final size:33
Alignment explanation
Indices: 34219319--34219388 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
34219309 GGTTAGGGTT
*
34219319 TTATCATCAAGATGCCATAGCCCAGCTATGGTC
1 TTATCATCAAGATGCCATAGCCCAGCTATGGCC
* * * *
34219352 TTATCATCAGGATGCCATTGGCTAGCTATGGCC
1 TTATCATCAAGATGCCATAGCCCAGCTATGGCC
34219385 TTAT
1 TTAT
34219389 GTATATACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (33 bp):
TTATCATCAAGATGCCATAGCCCAGCTATGGCC
Found at i:34257469 original size:51 final size:52
Alignment explanation
Indices: 34257253--34257590 Score: 295
Period size: 51 Copynumber: 6.7 Consensus size: 52
34257243 TTTTATCATT
* * ** *
34257253 CGATACACGTAATAGCCTTCACATAGTACTACACACGTGGTC--AGTTTTAC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTAC
* * * * *
34257303 AG-TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTAC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTAC
* * * *
34257353 GGCT-CACGTAGTAGCCTTCACATAGTACTACATATGTGACCAAAGCTTT-T
1 CGATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTAC
* * * * * **
34257403 CGGTATC-CATTGTAGCCTTCACTTAGTACTACACATGTAACCGTAG-TTTAC
1 CGATA-CACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTAC
* * *
34257454 CGATACACGTAGTAGCATTCACACAGTACTACACATGTG-CTCAAAGCTTT-T
1 CGATACACGTAGTAGCCTTCACATAGTACTACACATGTGAC-CAAAGCTTTAC
* * * *
34257505 CGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TTTAT
1 CGATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTTAC
* *
34257556 CGATACACGTAGTAGCCTCCACACAGTACTACACA
1 CGATACACGTAGTAGCCTTCACATAGTACTACACA
34257591 CGTGTTCATC
Statistics
Matches: 237, Mismatches: 39, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
49 36 0.15
50 54 0.23
51 141 0.59
52 6 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (52 bp):
CGATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTAC
Found at i:34257492 original size:102 final size:101
Alignment explanation
Indices: 34257253--34257590 Score: 368
Period size: 102 Copynumber: 3.3 Consensus size: 101
34257243 TTTTATCATT
* * * * * *
34257253 CGATACACGTAATAGCCTTCACATAGTACTACACACGTGGTC--AG-TTTTAC-AGTTCACGTAG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACATGTGCTCAAAGCTTTT-CGA-TACACATAG
* * * *
34257314 TAGCCTTCACATAGTACTACACACGTGATCAAGTTTTAC
64 TAGCCTTCACTTAGTACTACACATGTGACCTAG-TTTAC
* * * * * *
34257353 GGCT-CACGTAGTAGCCTTCACATAGTACTACATATGTGAC-CAAAGCTTTTCGGTATC-CATTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACATGTG-CTCAAAGCTTTTCGATA-CACATAG
*
34257415 TAGCCTTCACTTAGTACTACACATGTAACCGTAGTTTAC
64 TAGCCTTCACTTAGTACTACACATGTGACC-TAGTTTAC
*
34257454 CGATACACGTAGTAGCATTCACACAGTACTACACATGTGCTCAAAGCTTTTCGATACACATAGTA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACATGTGCTCAAAGCTTTTCGATACACATAGTA
*
34257519 GCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT
66 GCCTTCACTTAGTACTACACATGTGACC--TAGTTTAC
*
34257556 CGATACACGTAGTAGCCTCCACACAGTACTACACA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACA
34257591 CGTGTTCATC
Statistics
Matches: 200, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
99 32 0.16
100 2 0.01
101 42 0.21
102 122 0.61
103 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (101 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACATGTGCTCAAAGCTTTTCGATACACATAGTA
GCCTTCACTTAGTACTACACATGTGACCTAGTTTAC
Found at i:34257571 original size:153 final size:149
Alignment explanation
Indices: 34257251--34257593 Score: 365
Period size: 153 Copynumber: 2.3 Consensus size: 149
34257241 ATTTTTATCA
* * *
34257251 TTCGATACACGTAATAGCCTTCACATAGTACTACACACGTGGTCAGTTTTACAGTTCACGTAGTA
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCGTCAGTTTTACAGTACACGTAGTA
* * * *
34257316 GCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCTCACGTAGTAGCCTTCACATAGTAC
66 GCATTCACACAGTACTACACACGTGATCAAGTTTTACGGATCACATAGTAGCCTTCACATAGTAC
*
34257381 TACATATGTGACCAAAGCTT
131 TACACATGTGACCAAA-CTT
* * * * * *
34257401 TTCGGTATC-CATTGTAGCCTTCACTTAGTACTACACATGTAACCGT-AG-TTTACCGATACACG
1 TTCGATA-CACGTAGTAGCCTTCACATAGTACTACACACGT---CGTCAGTTTTACAG-TACACG
* *
34257463 TAGTAGCATTCACACAGTACTACACATGTGCTCAAAGCTTTT-C-GATACACATAGTAGCCTTCA
61 TAGTAGCATTCACACAGTACTACACACGTGATC-AAG-TTTTACGGAT-CACATAGTAGCCTTCA
* *
34257526 CTTAGTACTACACATGTGACCATTA-TT
123 CATAGTACTACACATGTGACCA-AACTT
* *
34257553 TATCGATACACGTAGTAGCCTCCACACAGTACTACACACGT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGT
34257594 GTTCATCGAC
Statistics
Matches: 157, Mismatches: 25, Indels: 19
0.78 0.12 0.09
Matches are distributed among these distances:
150 32 0.20
151 7 0.04
152 42 0.27
153 71 0.45
154 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (149 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCGTCAGTTTTACAGTACACGTAGTA
GCATTCACACAGTACTACACACGTGATCAAGTTTTACGGATCACATAGTAGCCTTCACATAGTAC
TACACATGTGACCAAACTT
Found at i:34257712 original size:15 final size:17
Alignment explanation
Indices: 34257692--34257724 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34257682 GTGACGAAAC
34257692 ATAACAA-A-AATAATT
1 ATAACAATATAATAATT
34257707 ATAACAATATAATAATT
1 ATAACAATATAATAATT
34257724 A
1 A
34257725 CATACAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAACAATATAATAATT
Found at i:34258835 original size:12 final size:12
Alignment explanation
Indices: 34258820--34258864 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
34258810 AAAATTAATC
34258820 AAAATTTATTAT
1 AAAATTTATTAT
*
34258832 AAAA-TTAAT-T
1 AAAATTTATTAT
34258842 AAAATTTATTAT
1 AAAATTTATTAT
*
34258854 AAAATTAATTA
1 AAAATTTATTA
34258865 AAATTCAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 5 0.18
11 8 0.29
12 15 0.54
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAAATTTATTAT
Found at i:34258838 original size:22 final size:22
Alignment explanation
Indices: 34258810--34258869 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
34258800 GAATCTTGAA
*
34258810 AAAATTAATCAAAATTTATTAT
1 AAAATTAATTAAAATTTATTAT
34258832 AAAATTAATTAAAATTTATTAT
1 AAAATTAATTAAAATTTATTAT
34258854 AAAATTAATTAAAATT
1 AAAATTAATTAAAATT
34258870 CAACATGTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATTAATTAAAATTTATTAT
Found at i:34261547 original size:12 final size:12
Alignment explanation
Indices: 34261530--34261555 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34261520 ACCTCAAAGA
34261530 TTTTATAAATAT
1 TTTTATAAATAT
34261542 TTTTATAAATAT
1 TTTTATAAATAT
34261554 TT
1 TT
34261556 ATGGAGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTATAAATAT
Found at i:34263291 original size:51 final size:51
Alignment explanation
Indices: 34263215--34263376 Score: 279
Period size: 51 Copynumber: 3.2 Consensus size: 51
34263205 GATCAGTAAT
* *
34263215 AAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGAC
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAC
*
34263266 AAGTGATAATTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAC
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAC
* *
34263317 AAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGTTCAGTGACAAGTGAC
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAC
34263368 AAGTGATAA
1 AAGTGATAA
34263377 ATGTGATGTA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 105 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (51 bp):
AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAC
Found at i:34264669 original size:25 final size:26
Alignment explanation
Indices: 34264641--34264695 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
34264631 TAATTAGTAT
*
34264641 AAAATATT-AATAATTCAATAAAATG
1 AAAATATTAAATAATTAAATAAAATG
34264666 AAAA-ATTAAATAATTAAATAAAATG
1 AAAATATTAAATAATTAAATAAAATG
*
34264691 GAAAT
1 AAAAT
34264696 TTATGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (26 bp):
AAAATATTAAATAATTAAATAAAATG
Found at i:34265392 original size:21 final size:18
Alignment explanation
Indices: 34265357--34265394 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
34265347 TATAAAGTTG
34265357 ATAATAATTAATATATAT
1 ATAATAATTAATATATAT
34265375 ATAATAAATATAAT-TATAT
1 ATAAT-AAT-TAATATATAT
34265394 A
1 A
34265395 CTAGTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATAATTAATATATAT
Found at i:34269292 original size:50 final size:51
Alignment explanation
Indices: 34269193--34269292 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 51
34269183 ACTTAATTGA
* * **
34269193 ATGATGCAGGCTTAAACTAACATGGGAGTTACATAATGCATGTCATTATTT
1 ATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATAACATTATTT
* * *
34269244 ATGATGCATACTT-AACTATCATGGAAGTTACATAATGCATAACTTTATT
1 ATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATAACATTATT
34269293 AAATCCAGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 31 0.74
51 11 0.26
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (51 bp):
ATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATAACATTATTT
Found at i:34275250 original size:33 final size:33
Alignment explanation
Indices: 34275213--34275282 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
34275203 AACATGGAAC
* * *
34275213 AGAGATAGTCTGTTGGGATAGTAAACACAAAAT
1 AGAGATACTCTGCTGGGACAGTAAACACAAAAT
* *
34275246 AGAGATACTTTGCTGGGACAGTAAACACAGAAT
1 AGAGATACTCTGCTGGGACAGTAAACACAAAAT
34275279 AGAG
1 AGAG
34275283 TAAGTCCATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.21
Consensus pattern (33 bp):
AGAGATACTCTGCTGGGACAGTAAACACAAAAT
Found at i:34277094 original size:13 final size:13
Alignment explanation
Indices: 34277078--34277106 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34277068 ATAATGTTAT
34277078 ATTTTAATAATTC
1 ATTTTAATAATTC
34277091 ATTTTAATAATTC
1 ATTTTAATAATTC
34277104 ATT
1 ATT
34277107 AATAAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTTAATAATTC
Found at i:34277543 original size:16 final size:17
Alignment explanation
Indices: 34277518--34277552 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
34277508 CAATCATCCT
34277518 TCATCCCTCATCC-CTC
1 TCATCCCTCATCCTCTC
*
34277534 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
34277551 TC
1 TC
34277553 TCAAATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:34284398 original size:16 final size:17
Alignment explanation
Indices: 34284371--34284405 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
34284361 AGAGAGTTGA
34284371 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
34284388 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
34284404 GA
1 GA
34284406 TTGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:34286388 original size:45 final size:45
Alignment explanation
Indices: 34286324--34286410 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
34286314 TAGATACTCG
*
34286324 GTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCT
1 GTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTCCT
* *
34286369 GTGGAATCAGCACATAGCAACCGCCTTATTAATTAATGATGT
1 GTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGT
34286411 TCGGTTCACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTCCT
Found at i:34286479 original size:51 final size:50
Alignment explanation
Indices: 34286421--34286603 Score: 179
Period size: 51 Copynumber: 3.6 Consensus size: 50
34286411 TCGGTTCACA
* *
34286421 TAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCTGATACACG
* * * * ** * *
34286472 TAGTAGCCTACACATAGTACTACACACGTGATCAAAACTATCCAATACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCTGATACACG
* * * * * * *
34286523 TAGTAGCCTGCACATAGTACTGCACATGCGACC-TATCATTTCGGTATACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCT-GATACACG
34286573 TAGTAGCCTGCACATAGTACTACACACGTGA
1 TAGTAGCCTGCACATAGTACTACACACGTGA
34286604 TCATCACTTT
Statistics
Matches: 102, Mismatches: 28, Indels: 5
0.76 0.21 0.04
Matches are distributed among these distances:
49 3 0.03
50 32 0.31
51 65 0.64
52 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGATACACG
Found at i:34286598 original size:101 final size:101
Alignment explanation
Indices: 34286419--34286606 Score: 279
Period size: 101 Copynumber: 1.9 Consensus size: 101
34286409 GTTCGGTTCA
* *
34286419 CATAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATCTGATACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCTGATACACGTAGTAGCCTACA
34286484 CATAGTACTACACACGTGATCAAAACTATCCAATACG
65 CATAGTACTACACACGTGATCAAAACTATCCAATACG
* * * * * *
34286521 CATAGTAGCCTGCACATAGTACTGCACATGCGACC-TATCATTTCGGTATACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCT-GATACACGTAGTAGCCTACA
34286585 CATAGTACTACACACGTGATCA
65 CATAGTACTACACACGTGATCA
34286607 TCACTTTCAC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 6 0.08
101 39 0.51
102 32 0.42
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCTGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCAAAACTATCCAATACG
Found at i:34294326 original size:50 final size:50
Alignment explanation
Indices: 34294251--34294545 Score: 383
Period size: 50 Copynumber: 5.9 Consensus size: 50
34294241 TTTCTTGTAT
* * * ** * *
34294251 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* ** * *** * *
34294301 TGCCCATACCATGTCCCAAACATGGTCTTATGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* *
34294351 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
*
34294401 TGCCAACGCCATGTCCCAGACATGGTCTTACATAAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
*
34294451 TGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * *
34294501 TGCCAACGCCATGTCCCAGACATGGTCTAACATGGGGCCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT
34294546 AATCTCAATG
Statistics
Matches: 214, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 214 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
Found at i:34294542 original size:100 final size:99
Alignment explanation
Indices: 34294251--34294590 Score: 367
Period size: 100 Copynumber: 3.3 Consensus size: 99
34294241 TTTCTTGTAT
* * * ** * * * **
34294251 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATACCATGTC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTC
* * *
34294316 CCAAACATGGTCT-TATGGGGGACCTCTCATCTTGG
66 CCAGACATGGTCTACAT-GGGG-CCTCTCATCTCGG
* * * *
34294351 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTC
** *
34294416 CCAGACATGGTCTTACATAAGACCTCTCATCTCGG
66 CCAGACATGGTC-TACATGGGGCCTCTCATCTCGG
*
34294451 TGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTC
*
34294516 CCAGACATGGTCTAACATGGGGCCTCTCATAATCTCAATGA
66 CCAGACATGGTCT-ACATGGGGCCTCTC---ATCTC---GG
* *
34294557 TGCCAATGCCATATCCCAAACATAGTCTTACATG
1 TGCCAACGCCATATCCCAAACATGGTCTTACATG
34294591 GGATCTCTTT
Statistics
Matches: 203, Mismatches: 28, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
99 1 0.00
100 161 0.79
101 2 0.01
102 2 0.01
103 5 0.02
106 32 0.16
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (99 bp):
TGCCAACGCCATATCCCAAACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTC
CCAGACATGGTCTACATGGGGCCTCTCATCTCGG
Found at i:34297660 original size:7 final size:7
Alignment explanation
Indices: 34297612--34297648 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
34297602 ACTTTTTCAA
34297612 TCATCCC
1 TCATCCC
34297619 TCATCCC
1 TCATCCC
34297626 TCATCCC
1 TCATCCC
34297633 TCATCCC
1 TCATCCC
34297640 TCATCCC
1 TCATCCC
34297647 TC
1 TC
34297649 TCATCTCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.14, C:0.57, G:0.00, T:0.30
Consensus pattern (7 bp):
TCATCCC
Found at i:34300160 original size:131 final size:131
Alignment explanation
Indices: 34299926--34300188 Score: 402
Period size: 131 Copynumber: 2.0 Consensus size: 131
34299916 AATGGTCAAG
* * *
34299926 AGAAAAACTTGGGTATTAGGAGTTGTAGGGAAAAACACACTCTAGTATTTTATTTAAGTGAAGAA
1 AGAAAAACTTGGGTAATAGGAGTTGTAGGGAAAAACACACTCCAATATTTTATTTAAGTGAAGAA
* * * *
34299991 AAGAAATATAAGAGAAGAGGTGGAATGATAATTTGGAAATGGATCAAGTAGAGGACTTGAAGAAG
66 AAGAAATATAAGAGAAGAGGTGGAAGGACAATTTGGAAAGGGATCAAGTAGAGGACTTGAAAAAG
34300056 T
131 T
* **
34300057 AGAAAAACATT-GGTAATAGGAGTTGTAGGGGAAATTACACTCCAATATTTTATTTAAGTGAAGA
1 AGAAAAAC-TTGGGTAATAGGAGTTGTAGGGAAAAACACACTCCAATATTTTATTTAAGTGAAGA
* *
34300121 AAAGAAATATAGGAGAAGAGGTGGAAGGACAATTTGGAAAGGGATCAAGTAGAGTACTTGAAAAA
65 AAAGAAATATAAGAGAAGAGGTGGAAGGACAATTTGGAAAGGGATCAAGTAGAGGACTTGAAAAA
34300186 GT
130 GT
34300188 A
1 A
34300189 TGGACTTCCT
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
131 117 0.98
132 2 0.02
ACGTcount: A:0.43, C:0.06, G:0.27, T:0.24
Consensus pattern (131 bp):
AGAAAAACTTGGGTAATAGGAGTTGTAGGGAAAAACACACTCCAATATTTTATTTAAGTGAAGAA
AAGAAATATAAGAGAAGAGGTGGAAGGACAATTTGGAAAGGGATCAAGTAGAGGACTTGAAAAAG
T
Found at i:34302383 original size:19 final size:19
Alignment explanation
Indices: 34302359--34302404 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
34302349 AAGGATCAAA
34302359 TAAAAAAACCAAAAAAATT
1 TAAAAAAACCAAAAAAATT
**
34302378 TAAAAAAA-CATGAAAATT
1 TAAAAAAACCAAAAAAATT
*
34302396 TGAAAAAAC
1 TAAAAAAAC
34302405 AAATAGGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.17
Consensus pattern (19 bp):
TAAAAAAACCAAAAAAATT
Found at i:34313378 original size:51 final size:50
Alignment explanation
Indices: 34313298--34313394 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 50
34313288 GCCTTTCCAT
* * *
34313298 CTTTTATTCCCTATGTTCATACCTTTACACCTTTAAACAATTTTTATTCA
1 CTTTTATTCCCCAAGTTCATACCTTTACACCTTTAAACAATCTTTATTCA
*
34313348 CTTTCTATTCCCCAAGTTCGTACCTTTACACCTTTAAACAATCTTTA
1 CTTT-TATTCCCCAAGTTCATACCTTTACACCTTTAAACAATCTTTA
34313395 CTCCACAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 4 0.10
51 38 0.90
ACGTcount: A:0.26, C:0.27, G:0.03, T:0.44
Consensus pattern (50 bp):
CTTTTATTCCCCAAGTTCATACCTTTACACCTTTAAACAATCTTTATTCA
Found at i:34316472 original size:26 final size:26
Alignment explanation
Indices: 34316415--34316476 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
34316405 TTTTACTTTG
* **
34316415 GTAAAATTTTGACGATTTTTCCCTTC
1 GTAAAATTTTGACGATTTTACCCTAA
34316441 GATAAAATTTTGACGATTTTACCCTAA
1 G-TAAAATTTTGACGATTTTACCCTAA
34316468 GTAAAATTT
1 GTAAAATTT
34316477 CAAGAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (26 bp):
GTAAAATTTTGACGATTTTACCCTAA
Found at i:34320653 original size:43 final size:43
Alignment explanation
Indices: 34320587--34320847 Score: 234
Period size: 43 Copynumber: 6.0 Consensus size: 43
34320577 AAGAAGGAAG
* * * * *
34320587 TTACTGACAGTTTATCTGCAATTATTGGTGGTTTATCCACAAA
1 TTACTGGCAGTTTATCTGTAATTACTGGTGGTTTATCCATAAC
* * * * *
34320630 TTACTGGCAATTTATCTATAATTACTAGTGATTTATTCATAAC
1 TTACTGGCAGTTTATCTGTAATTACTGGTGGTTTATCCATAAC
* * * * * *
34320673 TTACTGGTAGTTTTTTTTTTTGCAATTAGTGGTGGTTTATGCATAAC
1 TTACTGGCAG----TTTATCTGTAATTACTGGTGGTTTATCCATAAC
* * ** *
34320720 TTACTGGAAATTTATCTAAAATTACTGGTGGTTTATCCACAAC
1 TTACTGGCAGTTTATCTGTAATTACTGGTGGTTTATCCATAAC
* * * *
34320763 TTACTGACAGTTTATTTGCAATTCCTGGTGGTTTATCCATAAC
1 TTACTGGCAGTTTATCTGTAATTACTGGTGGTTTATCCATAAC
* * *
34320806 TTACTAGCAGTTTATTTGTAATTAATGGTGGTTTATCCATAA
1 TTACTGGCAGTTTATCTGTAATTACTGGTGGTTTATCCATAA
34320848 TGCAATGTAT
Statistics
Matches: 172, Mismatches: 42, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
43 139 0.81
47 33 0.19
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (43 bp):
TTACTGGCAGTTTATCTGTAATTACTGGTGGTTTATCCATAAC
Found at i:34320736 original size:90 final size:86
Alignment explanation
Indices: 34320587--34320810 Score: 268
Period size: 90 Copynumber: 2.6 Consensus size: 86
34320577 AAGAAGGAAG
* * * * * *
34320587 TTACTGACAGTTTATCTGCAATTATTGGTGGTTTATCCACAAATTACTGGCAATTTATCTATAAT
1 TTACTGACAGTTTATTTGCAATTACTGGTGGTTTATCCATAACTTACTGGAAATTTATCTAAAAT
* *
34320652 TACTAGTGATTTATTCATAAC
66 TACTAGTGATTTATCCACAAC
** * * *
34320673 TTACTGGTAGTTTTTTTTTTTGCAATTAGTGGTGGTTTATGCATAACTTACTGGAAATTTATCTA
1 TTACTGACAG----TTTATTTGCAATTACTGGTGGTTTATCCATAACTTACTGGAAATTTATCTA
* *
34320738 AAATTACTGGTGGTTTATCCACAAC
62 AAATTACTAGTGATTTATCCACAAC
*
34320763 TTACTGACAGTTTATTTGCAATTCCTGGTGGTTTATCCATAACTTACT
1 TTACTGACAGTTTATTTGCAATTACTGGTGGTTTATCCATAACTTACT
34320811 AGCAGTTTAT
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
86 42 0.37
90 72 0.63
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (86 bp):
TTACTGACAGTTTATTTGCAATTACTGGTGGTTTATCCATAACTTACTGGAAATTTATCTAAAAT
TACTAGTGATTTATCCACAAC
Found at i:34320768 original size:22 final size:22
Alignment explanation
Indices: 34320702--34320810 Score: 69
Period size: 22 Copynumber: 5.0 Consensus size: 22
34320692 TTGCAATTAG
* *
34320702 TGGTGGTTTATGCATAACTTAC
1 TGGTGGTTTATCCACAACTTAC
*** * *
34320724 TGGAAATTTATCTA-AAATTAC
1 TGGTGGTTTATCCACAACTTAC
34320745 TGGTGGTTTATCCACAACTTAC
1 TGGTGGTTTATCCACAACTTAC
*** *** *
34320767 TGACAGTTTATTTGCAA-TTCC
1 TGGTGGTTTATCCACAACTTAC
*
34320788 TGGTGGTTTATCCATAACTTAC
1 TGGTGGTTTATCCACAACTTAC
34320810 T
1 T
34320811 AGCAGTTTAT
Statistics
Matches: 59, Mismatches: 26, Indels: 4
0.66 0.29 0.04
Matches are distributed among these distances:
21 29 0.49
22 30 0.51
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (22 bp):
TGGTGGTTTATCCACAACTTAC
Found at i:34320848 original size:21 final size:21
Alignment explanation
Indices: 34320788--34320848 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 21
34320778 TTGCAATTCC
*
34320788 TGGTGGTTTATCCATAACTTAC
1 TGGTGGTTTATCCATAA-TTAA
* ** ***
34320810 TAGCAGTTTATTTGTAATTAA
1 TGGTGGTTTATCCATAATTAA
34320831 TGGTGGTTTATCCATAAT
1 TGGTGGTTTATCCATAAT
34320849 GCAATGTATA
Statistics
Matches: 26, Mismatches: 13, Indels: 1
0.65 0.32 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.44
Consensus pattern (21 bp):
TGGTGGTTTATCCATAATTAA
Found at i:34329045 original size:219 final size:217
Alignment explanation
Indices: 34328771--34329189 Score: 716
Period size: 219 Copynumber: 1.9 Consensus size: 217
34328761 AGAGCATCAG
*
34328771 TCTTGCTGACAATTGCTGAATGACATTAAGAATTTCCTTTTCTTGAACATTTATTAGGAAGAAGT
1 TCTTGCTGACAATTGCTGAATGACATGAAGAATTTCCTTTTCTTGAACATTTATTAGGAAGAAGT
34328836 GTTGGAATGACATAAATGAGAAAAATAAAAGATAATGCATTTTGC-AAAAAAAAAAAAAATCGTT
66 GTTGGAATGACATAAATGAGAAAAATAAAAGATAATGCATTTTGCAAAAAAAAAAAAAAATCGTT
* * *
34328900 GGAAGTGGGTTGTGATAGTTTCAGATGTGTCAGTTGC-TTAGGTATTCTGTATTGCTGACGGCTA
131 GGAAGTGGGTTGTGATAGTTTCAGA--TGTCAATTGCTTTA-GTATTCTATATTGCAGACGGCTA
*
34328964 GTGTTAGGTTTCCATGGCCGCATAT
193 CTGTTAGGTTTCCATGGCCGCATAT
34328989 TCTTGCTGACAAATTGCTGAATGACATGAAGAATTTCCTTTTCTTGAACATTTATTAGGAAGAAG
1 TCTTGCTGAC-AATTGCTGAATGACATGAAGAATTTCCTTTTCTTGAACATTTATTAGGAAGAAG
34329054 TGTTGGAATGACATAAATGAGAAAAATAAAAGATAATGCATTTTGCAAAAAAAAAAAAAAATCGT
65 TGTTGGAATGACATAAATGAGAAAAATAAAAGATAATGCATTTTGCAAAAAAAAAAAAAAATCGT
* * *
34329119 TGGAAGTGGGTTGTGTTTGTTTCAGATGTCAATTGCTTTAGTATTCTATATTGCAGATGGCTACT
130 TGGAAGTGGGTTGTGATAGTTTCAGATGTCAATTGCTTTAGTATTCTATATTGCAGACGGCTACT
34329184 GTTAGG
195 GTTAGG
34329190 CTTTGATGTC
Statistics
Matches: 190, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
218 46 0.24
219 102 0.54
220 42 0.22
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.34
Consensus pattern (217 bp):
TCTTGCTGACAATTGCTGAATGACATGAAGAATTTCCTTTTCTTGAACATTTATTAGGAAGAAGT
GTTGGAATGACATAAATGAGAAAAATAAAAGATAATGCATTTTGCAAAAAAAAAAAAAAATCGTT
GGAAGTGGGTTGTGATAGTTTCAGATGTCAATTGCTTTAGTATTCTATATTGCAGACGGCTACTG
TTAGGTTTCCATGGCCGCATAT
Found at i:34340573 original size:17 final size:16
Alignment explanation
Indices: 34340544--34340585 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
34340534 TTACTTTTAT
34340544 AATTTATAATTTAATAC
1 AATTT-TAATTTAATAC
34340561 AATTTTAATTTTAATAC
1 AATTTTAA-TTTAATAC
*
34340578 TATTTTAA
1 AATTTTAA
34340586 CAATTTAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTTAATTTAATAC
Found at i:34341010 original size:44 final size:44
Alignment explanation
Indices: 34340939--34341028 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
34340929 TTTGAAATAA
* * * *
34340939 AATAAAAGTTGTGATAATTATATATTTAAAAATAATTATAATTT
1 AATAAAAGTTGTGATAACTACACATTTAAAAATAATTAGAATTT
* *
34340983 AATAGAAGTTGTGATAACTACACATTTAAAAGTAATTAGAATTT
1 AATAAAAGTTGTGATAACTACACATTTAAAAATAATTAGAATTT
34341027 AA
1 AA
34341029 ATTAAATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (44 bp):
AATAAAAGTTGTGATAACTACACATTTAAAAATAATTAGAATTT
Found at i:34343898 original size:35 final size:35
Alignment explanation
Indices: 34343859--34343927 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
34343849 CTAAATTGTA
34343859 AAAATTTCAAAATTAAAGAGTAGAATTGAAAATAT
1 AAAATTTCAAAATTAAAGAGTAGAATTGAAAATAT
* *
34343894 AAAATTTCAAAATTAAGGGGTAGAATTGAAAATA
1 AAAATTTCAAAATTAAAGAGTAGAATTGAAAATA
34343928 GAGAGCTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.55, C:0.03, G:0.14, T:0.28
Consensus pattern (35 bp):
AAAATTTCAAAATTAAAGAGTAGAATTGAAAATAT
Found at i:34344769 original size:20 final size:19
Alignment explanation
Indices: 34344744--34344790 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
34344734 TATAAGATGG
34344744 GAAATGAAATATGAA-ATGAT
1 GAAATGAAATATGAATAT--T
*
34344764 GAAATGAGATATGAATATT
1 GAAATGAAATATGAATATT
34344783 GAAATGAA
1 GAAATGAA
34344791 GTCATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.33
20 14 0.58
21 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (19 bp):
GAAATGAAATATGAATATT
Found at i:34345281 original size:25 final size:24
Alignment explanation
Indices: 34345255--34345303 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
34345245 TGAGACTATG
*
34345255 TTTGATATGATAGCTTAGTTTAATGT
1 TTTGATAT-AT-GCTTAGCTTAATGT
*
34345281 TTTGGTATATGCTTAGCTTAATG
1 TTTGATATATGCTTAGCTTAATG
34345304 CTTGGTAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 2 0.10
26 7 0.33
ACGTcount: A:0.24, C:0.06, G:0.20, T:0.49
Consensus pattern (24 bp):
TTTGATATATGCTTAGCTTAATGT
Found at i:34345789 original size:54 final size:54
Alignment explanation
Indices: 34345704--34345831 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 54
34345694 CACGGCCTAC
* * * * * * * *
34345704 GACACGGCCGTGTGACCCAAGTCAGTGAGTTACCCGGGCAGAGACATGGGCTGA
1 GACACGACCGTGTGTCCCAAGTAAGTAAGTTACACGGGCAGAGACACGAGATGA
*
34345758 GACACGACCGTGTGTCCCAAGTAAGTAAGTTACATGGGCAGAGACACGAGATGA
1 GACACGACCGTGTGTCCCAAGTAAGTAAGTTACACGGGCAGAGACACGAGATGA
*
34345812 GACAC-AGCCATGTGTCCCAA
1 GACACGA-CCGTGTGTCCCAA
34345832 CTTCAAAAGT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 62 0.98
ACGTcount: A:0.29, C:0.25, G:0.30, T:0.16
Consensus pattern (54 bp):
GACACGACCGTGTGTCCCAAGTAAGTAAGTTACACGGGCAGAGACACGAGATGA
Found at i:34347427 original size:27 final size:26
Alignment explanation
Indices: 34347370--34347491 Score: 118
Period size: 27 Copynumber: 4.5 Consensus size: 26
34347360 GTTCACCATT
* * * *
34347370 TTGGCTTGCACTTGGACTATCCTCCC
1 TTGGCTTGTACTTGGACTGTCCGCAC
34347396 TTTGGCTTGTACTTGGACTGTCCGACAC
1 -TTGGCTTGTACTTGGACTGTCCG-CAC
* **
34347424 TTGGCTTGTACTTGGATTGTTTGCCAC
1 TTGGCTTGTACTTGGACTGTCCG-CAC
* *
34347451 TTGGCTTGCACTTGGACTGTCCGCTATT
1 TTGGCTTGTACTTGGACTGTCCGC-A-C
34347479 TTGGCTTGTACTT
1 TTGGCTTGTACTT
34347492 TTGTCTTGTA
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 63 0.81
28 14 0.18
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (26 bp):
TTGGCTTGTACTTGGACTGTCCGCAC
Found at i:34347439 original size:54 final size:55
Alignment explanation
Indices: 34347370--34347491 Score: 135
Period size: 54 Copynumber: 2.2 Consensus size: 55
34347360 GTTCACCATT
* *
34347370 TTGGCTTGCACTTGGACTATCCT-CC-CTTTGGCTTGTACTTGGACTGTCCGAC-A-C
1 TTGGCTTGTACTTGGACTAT-CTGCCAC-TTGGCTTGCACTTGGACTGTCCG-CTATC
* * * *
34347424 TTGGCTTGTACTTGGATTGTTTGCCACTTGGCTTGCACTTGGACTGTCCGCTATT
1 TTGGCTTGTACTTGGACTATCTGCCACTTGGCTTGCACTTGGACTGTCCGCTATC
34347479 TTGGCTTGTACTT
1 TTGGCTTGTACTT
34347492 TTGTCTTGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
53 2 0.03
54 42 0.72
55 14 0.24
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (55 bp):
TTGGCTTGTACTTGGACTATCTGCCACTTGGCTTGCACTTGGACTGTCCGCTATC
Found at i:34347499 original size:13 final size:13
Alignment explanation
Indices: 34347477--34347507 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34347467 CTGTCCGCTA
34347477 TTTTGGCTTGTAC
1 TTTTGGCTTGTAC
*
34347490 TTTTGTCTTGTAC
1 TTTTGGCTTGTAC
34347503 TTTTG
1 TTTTG
34347508 CATCTCGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.13, G:0.19, T:0.61
Consensus pattern (13 bp):
TTTTGGCTTGTAC
Found at i:34349911 original size:28 final size:28
Alignment explanation
Indices: 34349841--34349936 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 28
34349831 TGGCCGCTAT
* * *
34349841 TTTGGGTTGCACTTGGATTGT-TCGCCAC
1 TTTGGCTTGCACTTGGACTATCT-GCCAC
* * *
34349869 -TTAGCTTGTACTTGGACTATCTGCCAT
1 TTTGGCTTGCACTTGGACTATCTGCCAC
34349896 TTTGGCTTGCACTTGGACTATCTGCCAC
1 TTTGGCTTGCACTTGGACTATCTGCCAC
34349924 TTTGGCTTGCACT
1 TTTGGCTTGCACT
34349937 GTCCACCATT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
27 19 0.33
28 38 0.67
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.40
Consensus pattern (28 bp):
TTTGGCTTGCACTTGGACTATCTGCCAC
Found at i:34354743 original size:23 final size:23
Alignment explanation
Indices: 34354702--34354748 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
34354692 AAAATTTAAC
* *
34354702 AAGTACCAAATCGAAAAAAGATT
1 AAGTACCAAATCAAAAAAAAATT
34354725 AAGTACCAAAT-AAAGAAAAAATT
1 AAGTACCAAATCAAA-AAAAAATT
34354748 A
1 A
34354749 TCAAATTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.17
Consensus pattern (23 bp):
AAGTACCAAATCAAAAAAAAATT
Found at i:34356591 original size:27 final size:25
Alignment explanation
Indices: 34356560--34356609 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
34356550 ACATATATTC
*
34356560 TTTATATTCTATAATCTATATACATTT
1 TTTATATTC-AT-ATATATATACATTT
*
34356587 TTTATTTTCATATATATATACAT
1 TTTATATTCATATATATATACAT
34356610 ACGTACTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 2 0.10
27 8 0.38
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTATATTCATATATATATACATTT
Found at i:34356649 original size:56 final size:53
Alignment explanation
Indices: 34356574--34356681 Score: 146
Period size: 56 Copynumber: 2.0 Consensus size: 53
34356564 TATTCTATAA
* *
34356574 TCTATATACATTTTTTATTTTCA-TATATATATACATACGTACTCATATATTTTTG
1 TCTATATACATTTTCTATTTTCACGA-ATATATACATACGTA-T-ATATATTTTTG
*
34356629 TCTATATACATCTTTCTATTTTCACGAATATATACATACTTATATATATTTTT
1 TCTATATACAT-TTTCTATTTTCACGAATATATACATACGTATATATATTTTT
34356682 TATATTTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
54 10 0.21
55 12 0.25
56 25 0.52
57 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.03, T:0.52
Consensus pattern (53 bp):
TCTATATACATTTTCTATTTTCACGAATATATACATACGTATATATATTTTTG
Found at i:34366267 original size:33 final size:33
Alignment explanation
Indices: 34366225--34366288 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
34366215 TAGAGTTACC
*
34366225 TTACACTACACCAAAACAGGCTTTTAGCGGCAT
1 TTACACTACAACAAAACAGGCTTTTAGCGGCAT
* *
34366258 TTACACTACAACAGAACAGGTTTTTAGCGGC
1 TTACACTACAACAAAACAGGCTTTTAGCGGC
34366289 GTTTTTTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (33 bp):
TTACACTACAACAAAACAGGCTTTTAGCGGCAT
Found at i:34366299 original size:21 final size:21
Alignment explanation
Indices: 34366275--34366317 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34366265 ACAACAGAAC
* *
34366275 AGGTTTTTAGCGGCGTTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
34366296 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
34366317 A
1 A
34366318 ACGCCACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.14, G:0.28, T:0.47
Consensus pattern (21 bp):
AGGTCTTTAGCGGCGCTTTTT
Found at i:34366474 original size:43 final size:42
Alignment explanation
Indices: 34366427--34366530 Score: 136
Period size: 42 Copynumber: 2.5 Consensus size: 42
34366417 GCTAAAGATC
** *
34366427 ATGTTCTTTAGCGGCGCTTCGGAGGAAAACGCCTCTAAAAGTA
1 ATGTTCTTTAGCGGCGCTT-GGACAAAAACGCCACTAAAAGTA
* **
34366470 ATGTTCTATAGCGGCGCTTGTTCAAAAACGCCACTAAAAGTA
1 ATGTTCTTTAGCGGCGCTTGGACAAAAACGCCACTAAAAGTA
*
34366512 GTGTTCTTTAGCGGCGCTT
1 ATGTTCTTTAGCGGCGCTT
34366531 ATTTCACAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 35 0.66
43 18 0.34
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (42 bp):
ATGTTCTTTAGCGGCGCTTGGACAAAAACGCCACTAAAAGTA
Found at i:34366669 original size:15 final size:15
Alignment explanation
Indices: 34366649--34366682 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34366639 CCTGCAACAA
*
34366649 CAAATCAAAAGTAAC
1 CAAATCAAAACTAAC
*
34366664 CAAATCTAAACTAAC
1 CAAATCAAAACTAAC
34366679 CAAA
1 CAAA
34366683 AACAATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.24, G:0.03, T:0.15
Consensus pattern (15 bp):
CAAATCAAAACTAAC
Found at i:34372522 original size:9 final size:9
Alignment explanation
Indices: 34372508--34372758 Score: 149
Period size: 9 Copynumber: 29.8 Consensus size: 9
34372498 AAGTTATTTA
34372508 TTATGTAAG
1 TTATGTAAG
*
34372517 TTATGTAAC
1 TTATGTAAG
*
34372526 TTGTGTAAG
1 TTATGTAAG
34372535 TTATGTAAG
1 TTATGTAAG
* *
34372544 CTGTGTAAG
1 TTATGTAAG
*
34372553 TTGTGT-A-
1 TTATGTAAG
** *
34372560 TTATCAAAC
1 TTATGTAAG
34372569 TTATGTAAG
1 TTATGTAAG
*
34372578 TTGTGT-A-
1 TTATGTAAG
34372585 TTATGTAAG
1 TTATGTAAG
*
34372594 TTATGTCAG
1 TTATGTAAG
*
34372603 TTGTGT-A-
1 TTATGTAAG
* *
34372610 TTATGAAAC
1 TTATGTAAG
34372619 TTATGTAAG
1 TTATGTAAG
*
34372628 TTATGT--C
1 TTATGTAAG
34372635 TTATGTAAG
1 TTATGTAAG
* *
34372644 TGATGTAAA
1 TTATGTAAG
*
34372653 ATATGT-A-
1 TTATGTAAG
34372660 TTATGTAAG
1 TTATGTAAG
*
34372669 TTATGTCAG
1 TTATGTAAG
* *
34372678 GTGTGT-A-
1 TTATGTAAG
*
34372685 TTATGTAAA
1 TTATGTAAG
34372694 TTATGT-A-
1 TTATGTAAG
34372701 TTATGTAAG
1 TTATGTAAG
*
34372710 TTATGTAAT
1 TTATGTAAG
*
34372719 TTGTGT-A-
1 TTATGTAAG
*
34372726 TTATGTAAC
1 TTATGTAAG
* *
34372735 TTATTTAAT
1 TTATGTAAG
34372744 TTATGTAAG
1 TTATGTAAG
34372753 -TATGTA
1 TTATGTA
34372759 TTATTCACTA
Statistics
Matches: 186, Mismatches: 40, Indels: 33
0.72 0.15 0.13
Matches are distributed among these distances:
7 38 0.20
8 20 0.11
9 128 0.69
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:34372575 original size:25 final size:25
Alignment explanation
Indices: 34372497--34372700 Score: 151
Period size: 25 Copynumber: 8.1 Consensus size: 25
34372487 GATTTAGGAA
* * * *
34372497 TAAGTTATTTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAACTTATG
* * *
34372522 TAACTTGTGTAAGTTATGTAAGC-TGTG
1 TAAGTTGTGT-A-TTATG-AAACTTATG
*
34372549 TAAGTTGTGTATTATCAAACTTATG
1 TAAGTTGTGTATTATGAAACTTATG
* *
34372574 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAACTTATG
*
34372599 TCAGTTGTGTATTATGAAACTTATG
1 TAAGTTGTGTATTATGAAACTTATG
* * * * *
34372624 TAAGTTATGTCTTATGTAAGTGATG
1 TAAGTTGTGTATTATGAAACTTATG
** * * *
34372649 TAAAATATGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAACTTATG
* *
34372674 TCAGGTGTGTATTATGTAAA-TTATG
1 TAAGTTGTGTATTATG-AAACTTATG
34372699 TA
1 TA
34372701 TTATGTAAGT
Statistics
Matches: 141, Mismatches: 33, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
24 3 0.02
25 116 0.82
26 4 0.03
27 17 0.12
28 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (25 bp):
TAAGTTGTGTATTATGAAACTTATG
Found at i:34372588 original size:16 final size:16
Alignment explanation
Indices: 34372569--34372716 Score: 106
Period size: 16 Copynumber: 9.0 Consensus size: 16
34372559 ATTATCAAAC
*
34372569 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
34372585 TTATGTAAGTTATGTCA
1 TTATGTAAGTTATGT-A
* *
34372602 GTTGTGT-A-TTATGAAA
1 -TTATGTAAGTTATG-TA
*
34372618 CTTATGTAAGTTATGTC
1 -TTATGTAAGTTATGTA
*
34372635 TTATGTAAGTGATGTAAA
1 TTATGTAAGTTATGT--A
*
34372653 ATATGT-A-TTATGTAA
1 TTATGTAAGTTATGT-A
* * *
34372668 GTTATGTCAGGTGTGTA
1 -TTATGTAAGTTATGTA
*
34372685 TTATGTAAATTATGTA
1 TTATGTAAGTTATGTA
34372701 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
34372717 ATTTGTGTAT
Statistics
Matches: 103, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
15 2 0.02
16 76 0.74
17 6 0.06
18 19 0.18
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:34372610 original size:50 final size:50
Alignment explanation
Indices: 34372497--34372700 Score: 210
Period size: 50 Copynumber: 4.0 Consensus size: 50
34372487 GATTTAGGAA
* * * * * * *
34372497 TAAGTTATTTATTATGTAAGTTATGTAACTTGTGTAAGTTATGTAAGCTGTG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGT-A-TTATGTAAGTTATG
*
34372549 TAAGTTGTGTATTATCAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
* * * *
34372599 TCAGTTGTGTATTATGAAACTTATGTAAGTTATGTCTTATGTAAGTGATG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
** * * * * * *
34372649 TAAAATATGTATTATGTAAGTTATGTCAGGTGTGTATTATGTAAATTATG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
34372699 TA
1 TA
34372701 TTATGTAAGT
Statistics
Matches: 127, Mismatches: 25, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
50 97 0.76
51 1 0.01
52 29 0.23
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (50 bp):
TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
Found at i:34372614 original size:41 final size:41
Alignment explanation
Indices: 34372569--34372757 Score: 173
Period size: 41 Copynumber: 4.8 Consensus size: 41
34372559 ATTATCAAAC
* *
34372569 TTATGTAAGTTGTGTATTATGTAAGTTATGTCAGTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
34372610 TTATG--AA--A---CTTATGTAAGTTATGTC--TTATGTAA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGT-A
* * *
34372643 GTGATGTAAAATATGTATTATGTAAGTTATGTCAGGTGTGTA
1 -TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
34372685 TTATGTAAATTATGTATTATGTAAGTTATGTAATTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
34372726 TTATGTAACTTATTTAATTTATGTAAG-TATGT
1 TTATGTAAATTATGT-A-TTATGTAAGTTATGT
34372758 ATTATTCACT
Statistics
Matches: 120, Mismatches: 15, Indels: 25
0.75 0.09 0.16
Matches are distributed among these distances:
32 5 0.04
33 1 0.01
34 20 0.17
36 2 0.02
38 1 0.01
39 1 0.01
41 70 0.58
42 7 0.06
43 13 0.11
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.48
Consensus pattern (41 bp):
TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
Found at i:34372713 original size:25 final size:25
Alignment explanation
Indices: 34372685--34372750 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
34372675 CAGGTGTGTA
* *
34372685 TTATGTAAATTATGTATTATGTAAG
1 TTATGTAATTTATGTATTATGTAAC
*
34372710 TTATGTAATTTGTGTATTATGTAAC
1 TTATGTAATTTATGTATTATGTAAC
*
34372735 TTATTTAATTTATGTA
1 TTATGTAATTTATGTA
34372751 AGTATGTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.53
Consensus pattern (25 bp):
TTATGTAATTTATGTATTATGTAAC
Found at i:34372911 original size:24 final size:24
Alignment explanation
Indices: 34372865--34372913 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
34372855 TTATTATGTA
* ** *
34372865 AGTTATTTATTATGTTTGTTATAT
1 AGTTATGTATTATGTAAGATATAT
34372889 AGTTATGTATTATGTAAGATATAT
1 AGTTATGTATTATGTAAGATATAT
34372913 A
1 A
34372914 AGCTTATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (24 bp):
AGTTATGTATTATGTAAGATATAT
Found at i:34373077 original size:42 final size:42
Alignment explanation
Indices: 34373031--34373257 Score: 108
Period size: 42 Copynumber: 5.2 Consensus size: 42
34373021 TTAAAACATA
*
34373031 TTTATAATACTAATATAGATATTAAAACAATATTTATAAAAT
1 TTTATAAAACTAATATAGATATTAAAACAATATTTATAAAAT
** *
34373073 TTTATAAATTTAATAGTA-ATAAATTTAATACTAATATAGAAACCTTAT-AAA-
1 TTTATAAAACTAATA-TAGAT--A-TTAAAAC-AATAT-------TTATAAAAT
* * *
34373124 TTTAGAAAACTTATATAGATATTAAAACAATATTTAT-AATT
1 TTTATAAAACTAATATAGATATTAAAACAATATTTATAAAAT
* * * * * *** *
34373165 ATTTAGAAAACT--TTTAAAT-TTTATAGGTTATATTAAAACAAT
1 -TTTATAAAACTAATATAGATATTAAAACAATAT-TTATAA-AAT
*
34373207 ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAAT
1 -TTTATAAAACTAATATAGATATTAAAACAATATTTATAAAAT
34373250 TTTATAAA
1 TTTATAAA
34373258 TTTAATAGTA
Statistics
Matches: 134, Mismatches: 30, Indels: 42
0.65 0.15 0.20
Matches are distributed among these distances:
39 7 0.05
40 14 0.10
41 1 0.01
42 44 0.33
43 5 0.04
44 11 0.08
45 13 0.10
46 5 0.04
47 5 0.04
48 6 0.04
49 1 0.01
50 2 0.01
51 13 0.10
52 3 0.02
53 4 0.03
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (42 bp):
TTTATAAAACTAATATAGATATTAAAACAATATTTATAAAAT
Found at i:34373096 original size:15 final size:15
Alignment explanation
Indices: 34373076--34373108 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
34373066 ATAAAATTTT
*
34373076 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
34373091 ATAAATTTAATACTA
1 ATAAATTTAATACTA
34373106 ATA
1 ATA
34373109 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:34373180 original size:21 final size:21
Alignment explanation
Indices: 34373123--34373184 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
34373113 AACCTTATAA
*
34373123 ATTTAGAAAACTTATATAGA-T
1 ATTTAGAAAACTTTTATA-ATT
*
34373144 A-TTA-AAACAATATTTATAATT
1 ATTTAGAAA-ACT-TTTATAATT
34373165 ATTTAGAAAACTTTTA-AATT
1 ATTTAGAAAACTTTTATAATT
34373185 TTATAGGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
19 3 0.09
20 10 0.30
21 12 0.36
22 5 0.15
23 3 0.09
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTTAGAAAACTTTTATAATT
Found at i:34373246 original size:177 final size:176
Alignment explanation
Indices: 34372966--34373351 Score: 754
Period size: 177 Copynumber: 2.2 Consensus size: 176
34372956 AATAAATTTA
*
34372966 ATATTAAAACAATATTTATAATTATTTTGAAAACTTTTAAATTTTATAGGTTATATTAAAACATA
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACATA
34373031 TTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAAA
66 TTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAAA
34373096 TTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
131 TTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
34373142 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAAC-AT
34373207 ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
65 ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
34373272 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
130 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
34373319 ATATTAAAACAATATTTATAATTATTTAGAAAA
1 ATATTAAAACAATATTTATAATTATTTAGAAAA
34373352 TGTTATCATT
Statistics
Matches: 208, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
176 61 0.29
177 147 0.71
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (176 bp):
ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACATA
TTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAAA
TTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
Found at i:34373273 original size:15 final size:15
Alignment explanation
Indices: 34373253--34373285 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
34373243 ATAAAATTTT
*
34373253 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
34373268 ATAAATTTAATACTA
1 ATAAATTTAATACTA
34373283 ATA
1 ATA
34373286 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:34375353 original size:23 final size:23
Alignment explanation
Indices: 34375304--34375353 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
34375294 GGCGAATAGG
* *
34375304 AATTGGGGGAAATGAAATCGGGG
1 AATTGGGGGAAACGAAATCGGGA
34375327 AATTGGGGGAATACGAAAT-GGGA
1 AATTGGGGGAA-ACGAAATCGGGA
34375350 AATT
1 AATT
34375354 AGGGAATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.38, T:0.20
Consensus pattern (23 bp):
AATTGGGGGAAACGAAATCGGGA
Found at i:34376987 original size:266 final size:266
Alignment explanation
Indices: 34376513--34377319 Score: 1296
Period size: 266 Copynumber: 3.1 Consensus size: 266
34376503 GTATTTTGCT
*
34376513 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCATT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* *
34376578 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAGCATAGCTTAAGACAAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA
* *
34376643 ACACTGCGTTTTGTTAAGATACGTTGCGGCGC-TT-GATCCAAAGCGCCGCTAAAGCTATTCTTT
131 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCT-C-AAGCGCCGCTAATGCTATTCTTT
* *
34376706 AACGGCATTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGCTTTAG
194 AACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG
34376771 TTAAGATA
259 TTAAGATA
*
34376779 TTTTTGCGGCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* *
34376844 TTGCTTCAGATATTTTGCGGTGTTTTCCTATACA-CGCCACTAAATGTAACATAGCTTAAGACCA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATA-AGCGCCACTAAATGTAACATAGCTTAAGACCA
* * *
34376908 AACACTGTGTTTTGTTAAGATACTTTGCGGCACTTTGGCTCAAGCGCCGCTAATGCTATTCTTTA
130 AACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAATGCTATTCTTTA
*
34376973 ACGGCGTTTTCTAGTAAGCGCCAC-----TAA-TATA-ATCAAAATTAAAACTATGCGTTTTAGT
195 ACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGT
34377031 TAAGATA
260 TAAGATA
*
34377038 TTTTTGCGGCGTTTTAACGTCAGCACCACTAATTGAAAGTATACATCGAGACCAAAACGGTGCGT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTG-AAGTATACATCGAGACCAAAACGGTGCGT
* * *
34377103 TTTGGTTCAGATTTTTTACGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGTTTAAGACCA
65 TTTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCA
34377168 AACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAAAT-CTATTCTTT
130 AACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCT-AATGCTATTCTTT
*
34377232 AACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCATTTTAG
194 AACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG
*
34377297 TAAAGATA
259 TTAAGATA
34377305 -TTTTGCGGCGCTTTT
1 TTTTTGCGGCG-TTTT
34377320 TACGAAACGC
Statistics
Matches: 500, Mismatches: 27, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
259 66 0.13
260 173 0.35
261 6 0.01
265 3 0.01
266 211 0.42
267 39 0.08
268 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (266 bp):
TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA
ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAATGCTATTCTTTAA
CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
AAGATA
Found at i:34377963 original size:41 final size:41
Alignment explanation
Indices: 34377901--34378101 Score: 294
Period size: 41 Copynumber: 4.9 Consensus size: 41
34377891 TGAGTTTTTG
* * * *
34377901 GGGCATTTAGCGACGTTTTTGAAAAAGCGCCACTAGTGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
34377942 GGGCCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * * *
34377983 TGACCTTTAGCGGCATTTTTGAAAAAGTGTCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
34378024 TGGCCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
34378065 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
34378102 AATAATAAAA
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 144 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:34379088 original size:7 final size:7
Alignment explanation
Indices: 34379033--34379131 Score: 57
Period size: 7 Copynumber: 14.7 Consensus size: 7
34379023 ATTAAATAAT
34379033 GTTTAGG
1 GTTTAGG
*
34379040 GGTTAGG
1 GTTTAGG
34379047 GATTT-GG
1 G-TTTAGG
*
34379054 GGTT-GG
1 GTTTAGG
*
34379060 G-TTAGA
1 GTTTAGG
*
34379066 GTTTAGA
1 GTTTAGG
34379073 GTTTAGG
1 GTTTAGG
34379080 GTTTAGG
1 GTTTAGG
**
34379087 GTTTAAA
1 GTTTAGG
*
34379094 GATTAGG
1 GTTTAGG
34379101 GATTTAGG
1 G-TTTAGG
*
34379109 G-TT-GA
1 GTTTAGG
34379114 G-TTAGG
1 GTTTAGG
34379120 GTTTAGG
1 GTTTAGG
*
34379127 ATTTA
1 GTTTA
34379132 TGATTTAGAT
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
5 6 0.08
6 11 0.15
7 47 0.65
8 8 0.11
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (7 bp):
GTTTAGG
Found at i:34379090 original size:21 final size:21
Alignment explanation
Indices: 34379061--34379139 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
34379051 TGGGGTTGGG
*
34379061 TTAGAGTTTAGAGTTTAGGGT
1 TTAGGGTTTAGAGTTTAGGGT
* *
34379082 TTAGGGTTTAAAGATTAGGGAT
1 TTAGGGTTTAGAGTTTAGGG-T
34379104 TTAGGG-TT-GAG-TTAGGGT
1 TTAGGGTTTAGAGTTTAGGGT
*
34379122 TTAGGATTTATGA-TTTAG
1 TTAGGGTTTA-GAGTTTAG
34379140 ATTAATTAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
18 6 0.12
19 8 0.17
20 2 0.04
21 25 0.52
22 7 0.15
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (21 bp):
TTAGGGTTTAGAGTTTAGGGT
Found at i:34379251 original size:143 final size:141
Alignment explanation
Indices: 34378992--34379254 Score: 336
Period size: 143 Copynumber: 1.8 Consensus size: 141
34378982 CATGTTATAG
* * * *
34378992 TTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGATTTGGGGT
1 TTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAAGGGTTAGGGATTAGGAGT
* * *
34379057 TGGGTTAGAGTTTAGAGTTTAGGGTTTAGGGTTTAAAGATTAGGGATTTAGGGTTGAGTTAGGGT
66 TGGG-T-GAGTTAAGAGTTTAGGATTTAGGGTTTAAAGATTAGGGAGTTAGGGTTGAGTTAGGGT
34379122 TTAGGATTTATGA
129 TTAGGATTTATGA
*
34379135 TTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAAGGGTTAGTGG-TTAGGAG
1 TTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAAGGGTTAG-GGATTAGGAG
* *
34379199 TTTGG-G-GTTAAGAG-TTAGTGATTTAGGGTTTAGAGATTCGAGGTCGAGTTAGGGTT
65 TTGGGTGAGTTAAGAGTTTAG-GATTTAGGGTTTAAAGATT--AGG--GAGTTAGGGTT
34379255 TAAGGTTTAG
Statistics
Matches: 104, Mismatches: 10, Indels: 12
0.83 0.08 0.10
Matches are distributed among these distances:
138 4 0.04
139 24 0.23
140 1 0.01
141 3 0.03
143 70 0.67
144 2 0.02
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.43
Consensus pattern (141 bp):
TTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAAGGGTTAGGGATTAGGAGT
TGGGTGAGTTAAGAGTTTAGGATTTAGGGTTTAAAGATTAGGGAGTTAGGGTTGAGTTAGGGTTT
AGGATTTATGA
Found at i:34380364 original size:21 final size:21
Alignment explanation
Indices: 34380339--34380384 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
34380329 CCCTCCCCCC
*
34380339 TCCCCCC-GAAATCCCCAACTT
1 TCCCCCCTAAAATCCCCAA-TT
*
34380360 TCCCCCCTAAAATCCCTAATT
1 TCCCCCCTAAAATCCCCAATT
34380381 TCCC
1 TCCC
34380385 ACATCCAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.24, C:0.50, G:0.02, T:0.24
Consensus pattern (21 bp):
TCCCCCCTAAAATCCCCAATT
Found at i:34383158 original size:43 final size:43
Alignment explanation
Indices: 34383103--34383203 Score: 132
Period size: 43 Copynumber: 2.3 Consensus size: 43
34383093 AAGGACAAAC
* * *
34383103 CTTTAGTGGCGTTTGT-GATAAAAGCGCCGCTAAAAGTCATGGT
1 CTTTAGCGGCGTTT-TCGAGAAAAGCACCGCTAAAAGTCATGGT
* *
34383146 CTTTAGCGGCGTTTTCGAGAAAAGTACCGCTAAAGGTCATGGT
1 CTTTAGCGGCGTTTTCGAGAAAAGCACCGCTAAAAGTCATGGT
*
34383189 CTATAGCGGCGTTTT
1 CTTTAGCGGCGTTTT
34383204 TGGGAAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTCGAGAAAAGCACCGCTAAAAGTCATGGT
Found at i:34387623 original size:19 final size:18
Alignment explanation
Indices: 34387583--34387630 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
34387573 ACAAAAATAT
*
34387583 TATAAAATATTCAAAAAT
1 TATAAAATATTCAAAAAG
34387601 TATAAAATTACTTC-AAAAG
1 TATAAAA-TA-TTCAAAAAG
*
34387620 TATATAATATT
1 TATAAAATATT
34387631 ATTGATACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.08
18 9 0.35
19 12 0.46
20 3 0.12
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (18 bp):
TATAAAATATTCAAAAAG
Found at i:34387631 original size:21 final size:20
Alignment explanation
Indices: 34387576--34387618 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
34387566 AAAAAATACA
34387576 AAAATATTATAAAA-TA-TTC
1 AAAA-ATTATAAAATTACTTC
34387595 AAAAATTATAAAATTACTTC
1 AAAAATTATAAAATTACTTC
34387615 AAAA
1 AAAA
34387619 GTATATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 6 0.27
20 7 0.32
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTATAAAATTACTTC
Found at i:34390579 original size:22 final size:22
Alignment explanation
Indices: 34390547--34390592 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
34390537 CCTTGTTTGA
*
34390547 ATGTTATATGGCCTGGCTATGT
1 ATGTTACATGGCCTGGCTATGT
34390569 ATGTTACATGGCCTGGCTATGT
1 ATGTTACATGGCCTGGCTATGT
34390591 AT
1 AT
34390593 TTTTGCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.26, T:0.39
Consensus pattern (22 bp):
ATGTTACATGGCCTGGCTATGT
Found at i:34390958 original size:36 final size:36
Alignment explanation
Indices: 34390913--34390992 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
34390903 CGATCTTAAA
* *
34390913 TCAACGAGCCTTAGTAAAATCAGTTGTGAATGTAGG
1 TCAACGAGCCTTAATAAAATCAGCTGTGAATGTAGG
* * *
34390949 TCAATGAGCCTTAATAACATTAGCTGTGAATGTAGG
1 TCAACGAGCCTTAATAAAATCAGCTGTGAATGTAGG
*
34390985 TCAGCGAG
1 TCAACGAG
34390993 TTGTTAGGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (36 bp):
TCAACGAGCCTTAATAAAATCAGCTGTGAATGTAGG
Found at i:34391103 original size:104 final size:104
Alignment explanation
Indices: 34390828--34391174 Score: 310
Period size: 104 Copynumber: 3.3 Consensus size: 104
34390818 CAAGCTGTCT
* * * * * * * *
34390828 GAAGGCTGCGATCTTAAATCAGCGAACCTTAGTAAAATTAGCTATGAATGTAAGTTAGCGAGCTG
1 GAAGGTTGCGATCTTAAATCAGCGAGCCTTAATAATATTAGCTGTGAACGTACGTCAGCGAGCTG
* ** *
34390893 TTAGGAGTTGCGATCTTAAATCAACGA-GCCTTAGTAA-AATC
66 TTAGGAGTTGCGATATTAAATC-A-GATAACTCA--AATAATC
* * ** ** * * * *
34390934 --A-GTTGTGAAT-GTAGGTCAATGAGCCTTAATAACATTAGCTGTGAATGTAGGTCAGCGAGTT
1 GAAGGTTGCG-ATCTTAAATCAGCGAGCCTTAATAATATTAGCTGTGAACGTACGTCAGCGAGCT
*
34390995 GTTAGGAGTTGCGATCTTAAATCAGATAACTCAAATAATC
65 GTTAGGAGTTGCGATATTAAATCAGATAACTCAAATAATC
* * * * * *
34391035 GGAGGTTGCGATCTTAAATTAGCGAGCCTTAGTAATATTCGTTGTGAACGTACGTCAGTGAGCTG
1 GAAGGTTGCGATCTTAAATCAGCGAGCCTTAATAATATTAGCTGTGAACGTACGTCAGCGAGCTG
* * *
34391100 TTAGGAGTTGGGGTATTAAATCAGCTAACTCAAATAATC
66 TTAGGAGTTGCGATATTAAATCAGATAACTCAAATAATC
*
34391139 GAAGGTTGCTATCTTAAATCAGCGAGCCTTAATAAT
1 GAAGGTTGCGATCTTAAATCAGCGAGCCTTAATAAT
34391175 GGAAACTAAC
Statistics
Matches: 194, Mismatches: 40, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
100 2 0.01
101 6 0.03
102 4 0.02
103 69 0.36
104 113 0.58
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (104 bp):
GAAGGTTGCGATCTTAAATCAGCGAGCCTTAATAATATTAGCTGTGAACGTACGTCAGCGAGCTG
TTAGGAGTTGCGATATTAAATCAGATAACTCAAATAATC
Found at i:34402133 original size:17 final size:16
Alignment explanation
Indices: 34402102--34402135 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
34402092 AAATATTATG
34402102 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
34402118 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
34402135 A
1 A
34402136 CGCTATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:34406423 original size:9 final size:9
Alignment explanation
Indices: 34406409--34406464 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
34406399 TTTTGGTACC
34406409 ATAATTTTT
1 ATAATTTTT
34406418 ATAATTTTTTT
1 ATAA--TTTTT
34406429 ATGAA-TTTT
1 AT-AATTTTT
*
34406438 ATATTTCTTT
1 ATAATT-TTT
*
34406448 ATATTTTTT
1 ATAATTTTT
34406457 ATAATTTT
1 ATAATTTT
34406465 CTTACGATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 1 0.03
9 21 0.52
10 9 0.22
11 7 0.17
12 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (9 bp):
ATAATTTTT
Found at i:34406545 original size:10 final size:10
Alignment explanation
Indices: 34406409--34406560 Score: 63
Period size: 10 Copynumber: 15.4 Consensus size: 10
34406399 TTTTGGTACC
34406409 ATAA-TTTTT
1 ATAATTTTTT
34406418 ATAATTTTTTT
1 ATAA-TTTTTT
34406429 ATGAA--TTTT
1 AT-AATTTTTT
34406438 AT-ATTTCTTT
1 ATAATTT-TTT
34406448 AT-ATTTTTT
1 ATAATTTTTT
34406457 ATAATTTTCTT
1 ATAATTTT-TT
** *
34406468 ACGA--TTAT
1 ATAATTTTTT
**
34406476 ATAAAATTTT
1 ATAATTTTTT
34406486 ATAATTTATTT
1 ATAATTT-TTT
* *
34406497 CT-ATGTTTCT
1 ATAAT-TTTTT
*
34406507 AT-ATATTTT
1 ATAATTTTTT
34406516 ATAATTTTTT
1 ATAATTTTTT
*
34406526 TTACGA-TTTTT
1 ATA--ATTTTTT
34406537 ATAATTTTTT
1 ATAATTTTTT
* *
34406547 CTAATTTTTA
1 ATAATTTTTT
34406557 ATAA
1 ATAA
34406561 ACTTTAAATA
Statistics
Matches: 108, Mismatches: 19, Indels: 31
0.68 0.12 0.20
Matches are distributed among these distances:
7 1 0.01
8 3 0.03
9 24 0.22
10 53 0.49
11 24 0.22
12 3 0.03
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:34406573 original size:20 final size:20
Alignment explanation
Indices: 34406548--34406597 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
34406538 TAATTTTTTC
*
34406548 TAATTTTTAATAAACTTTAA
1 TAATTTTTAATAAAATTTAA
*
34406568 -ATATTTTTATTAAAATTTAA
1 TA-ATTTTTAATAAAATTTAA
34406588 TAATTTTTAA
1 TAATTTTTAA
34406598 AACTTTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATTTTTAATAAAATTTAA
Found at i:34407345 original size:27 final size:27
Alignment explanation
Indices: 34407294--34407345 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
34407284 CTCATCTTAG
** *
34407294 TTTAATTAATAAGTGTTTTTGTTAAAC
1 TTTAATTAATAAGTGTTGCTCTTAAAC
*
34407321 TTTATTTAATAAGTGTTGCTCTTAA
1 TTTAATTAATAAGTGTTGCTCTTAA
34407346 TTAATCTAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (27 bp):
TTTAATTAATAAGTGTTGCTCTTAAAC
Found at i:34411457 original size:52 final size:50
Alignment explanation
Indices: 34411342--34411459 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 50
34411332 TAATAAAGTT
*
34411342 ATGCATTATGTAACTTCCATGCTAGTTAAGTATGCATCATAAATAATGAC
1 ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
* * *
34411392 ATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATCATTAAATTAA-GTC
1 ATGCATTATGTAACTCCCATGCTAG-TTAAGTATGCATCA-TAAA-TAATGAC
* *
34411444 TTGCATTAAGTAACTC
1 ATGCATTATGTAACTC
34411460 TTTTGTTCAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
50 23 0.39
51 13 0.22
52 20 0.34
53 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (50 bp):
ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
Found at i:34413729 original size:13 final size:13
Alignment explanation
Indices: 34413711--34413750 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
34413701 TCTGATACTC
34413711 TGTTTTCAAGATA
1 TGTTTTCAAGATA
*
34413724 TGTTTTCAAGTTA
1 TGTTTTCAAGATA
34413737 TGTTTT-AA-ATA
1 TGTTTTCAAGATA
34413748 TGT
1 TGT
34413751 GTTTTACGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 5 0.20
12 2 0.08
13 18 0.72
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (13 bp):
TGTTTTCAAGATA
Found at i:34416999 original size:27 final size:27
Alignment explanation
Indices: 34416969--34417033 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
34416959 GACCATCTTG
34416969 TGTTTATTATCCCGAAAAACAACCCCA
1 TGTTTATTATCCCGAAAAACAACCCCA
* * * ** * *
34416996 TGTTTACTGTCTCGGTACACTACCCCA
1 TGTTTATTATCCCGAAAAACAACCCCA
34417023 TGTTTATTATC
1 TGTTTATTATC
34417034 TCGGCAGACT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (27 bp):
TGTTTATTATCCCGAAAAACAACCCCA
Found at i:34423287 original size:27 final size:27
Alignment explanation
Indices: 34423231--34423288 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
34423221 CCCCAAAGTA
*
34423231 ACCCCATGATTATTGTCCCAATGAATT
1 ACCCCATGATTATTGTCCCAATGAACT
* * * *
34423258 ACCCCATGTTTATTTTCCTAATGGACT
1 ACCCCATGATTATTGTCCCAATGAACT
34423285 ACCC
1 ACCC
34423289 TGTGTTTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34
Consensus pattern (27 bp):
ACCCCATGATTATTGTCCCAATGAACT
Found at i:34433470 original size:24 final size:26
Alignment explanation
Indices: 34433417--34433470 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
34433407 TGCGTTATTG
*
34433417 TAATTAATATAATTTATTTATTATAA
1 TAATTAATATAATTTATTAATTATAA
34433443 -AATT-ATATAATTT-TATAATTA-AA
1 TAATTAATATAATTTAT-TAATTATAA
34433466 TAATT
1 TAATT
34433471 TTTACACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.12
24 18 0.72
25 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TAATTAATATAATTTATTAATTATAA
Found at i:34436842 original size:22 final size:20
Alignment explanation
Indices: 34436814--34436858 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
34436804 GATTTGATGG
34436814 TGAAGAATTACCCAAATGAAGA
1 TGAAGAATTA-CCAAATG-AGA
*
34436836 TGAAGAATTATCAAATGAGA
1 TGAAGAATTACCAAATGAGA
34436856 TGA
1 TGA
34436859 GTTTTGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.22
Consensus pattern (20 bp):
TGAAGAATTACCAAATGAGA
Found at i:34437157 original size:8 final size:9
Alignment explanation
Indices: 34437135--34437177 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
34437125 TTGAATCAGG
34437135 ATTTTTAAA
1 ATTTTTAAA
34437144 ATTTTTAAA
1 ATTTTTAAA
*
34437153 ATTTTTTAA
1 ATTTTTAAA
*
34437162 TTTTTTAATA
1 ATTTTTAA-A
34437172 ATTTTT
1 ATTTTT
34437178 TAATCCGACC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 23 0.79
10 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:34437160 original size:19 final size:20
Alignment explanation
Indices: 34437136--34437180 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
34437126 TGAATCAGGA
34437136 TTTTTAAAATTTTTAA-AAT
1 TTTTTAAAATTTTTAATAAT
*
34437155 TTTTT-AATTTTTTAATAAT
1 TTTTTAAAATTTTTAATAAT
34437174 TTTTTAA
1 TTTTTAA
34437181 TCCGACCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 13 0.57
20 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTAAAATTTTTAATAAT
Found at i:34437181 original size:19 final size:18
Alignment explanation
Indices: 34437135--34437181 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
34437125 TTGAATCAGG
* *
34437135 ATTTTTAAAATTTTTAAA
1 ATTTTTTAATTTTTTAAA
34437153 ATTTTTTAATTTTTTAATA
1 ATTTTTTAATTTTTTAA-A
34437172 ATTTTTTAAT
1 ATTTTTTAAT
34437182 CCGACCGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTTTAATTTTTTAAA
Found at i:34438355 original size:19 final size:20
Alignment explanation
Indices: 34438328--34438370 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
34438318 AAAATAATTA
34438328 AAATAATTT-TCAAAAATTCT
1 AAATAATTTAT-AAAAATTCT
34438348 AAAT-ATTTATAAAAATTCT
1 AAATAATTTATAAAAATTCT
34438367 AAAT
1 AAAT
34438371 TTTCATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATAATTTATAAAAATTCT
Found at i:34441694 original size:14 final size:14
Alignment explanation
Indices: 34441675--34441705 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
34441665 GCTCGTCGAA
34441675 GATCAGTAGTTTTT
1 GATCAGTAGTTTTT
34441689 GATCAGTAGTTTTT
1 GATCAGTAGTTTTT
34441703 GAT
1 GAT
34441706 GTTTTGACCA
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:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (14 bp):
GATCAGTAGTTTTT
Found at i:34448972 original size:11 final size:11
Alignment explanation
Indices: 34448956--34448986 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
34448946 GTGCTGGTCT
34448956 TGCAAATGACA
1 TGCAAATGACA
34448967 TGCAAATGACA
1 TGCAAATGACA
34448978 TGCAAATGA
1 TGCAAATGA
34448987 TGGATGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (11 bp):
TGCAAATGACA
Found at i:34449510 original size:17 final size:16
Alignment explanation
Indices: 34449488--34449519 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
34449478 TTATAGATTA
34449488 TTGGAAGCTCGATCAGT
1 TTGGAAGCTCG-TCAGT
34449505 TTGGAAGCTCGTCAG
1 TTGGAAGCTCGTCAG
34449520 AGACCTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (16 bp):
TTGGAAGCTCGTCAGT
Found at i:34468319 original size:95 final size:93
Alignment explanation
Indices: 34468153--34468342 Score: 265
Period size: 95 Copynumber: 2.0 Consensus size: 93
34468143 TCTTCTCTTA
* * * *
34468153 TTGGATATTTAATTGGACATTGGAAACCTTTATGATCTTTTGAACTACACCAATAACATTGCATG
1 TTGGATATTTAATTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCATC
* * *
34468218 AAAGGTGATAGCTCAATCTTATCTCACTCT
66 AAAGGTGAAAGATCAATCGTA-CTC-CTCT
* *
34468248 TTGGATATTTAATTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCGATAACATTTCA-C
1 TTGGATATTTAATTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCATC
34468312 AACAGGTGAAAGATCAATCGTACTCCTCT
66 AA-AGGTGAAAGATCAATCGTACTCCTCT
34468341 TT
1 TT
34468343 TCATTTGACC
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
93 6 0.07
94 5 0.06
95 74 0.87
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (93 bp):
TTGGATATTTAATTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCATC
AAAGGTGAAAGATCAATCGTACTCCTCT
Found at i:34473809 original size:190 final size:190
Alignment explanation
Indices: 34473486--34473856 Score: 575
Period size: 190 Copynumber: 2.0 Consensus size: 190
34473476 TGTAGATGAA
*
34473486 TATGAATGGTAAGTTAATTTTCAATATACGAACTTACTAAGCATTAAATACTTACTCAATTTTTC
1 TATGAATGGTAAGTTAATTTTCAATATACGAACTCACTAAGCATTAAATACTTACTCAATTTTTC
* * *
34473551 TTTCCTTTATTTTATAATACTCGGAAGCTCGTAAAGGTTAGAAGCGGGTTGGAGCAAGATCACAC
66 TTTCCTCTATTTTATAATACTCGGAAGCTCGTAAAGGTTAGAAGCGGCTCGGAGCAAGATCACAC
* *
34473616 TATCCT-TCAGCTCACCTTGGTATAATTAGTAAAATTACTTTTGGTATAATGCTTACTTGG
131 TATCCTAT-AGCTCACCTTGGTATAATTAGTAAAATAACTTTTGATATAATGCTTACTTGG
** ** *
34473676 TATGAATGGTAAGTTAA-TTTCTGTTATACGAACTCACTAAGCATTAAATGTTTACTCATTTTTT
1 TATGAATGGTAAGTTAATTTTC-AATATACGAACTCACTAAGCATTAAATACTTACTCAATTTTT
* * * *
34473740 CTTTCCTCTGTTTTATAGTACTCGGAAGCTTGTAAAGGTTGGAAGCGGCTCGGAGCAAGATCACA
65 CTTTCCTCTATTTTATAATACTCGGAAGCTCGTAAAGGTTAGAAGCGGCTCGGAGCAAGATCACA
34473805 CTATCCTATAGCTCACCTTGGTATAATTAGTAAAATAACTTTTGATATAATG
130 CTATCCTATAGCTCACCTTGGTATAATTAGTAAAATAACTTTTGATATAATG
34473857 GCAAGTATAG
Statistics
Matches: 164, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
189 4 0.02
190 159 0.97
191 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (190 bp):
TATGAATGGTAAGTTAATTTTCAATATACGAACTCACTAAGCATTAAATACTTACTCAATTTTTC
TTTCCTCTATTTTATAATACTCGGAAGCTCGTAAAGGTTAGAAGCGGCTCGGAGCAAGATCACAC
TATCCTATAGCTCACCTTGGTATAATTAGTAAAATAACTTTTGATATAATGCTTACTTGG
Found at i:34475101 original size:6 final size:6
Alignment explanation
Indices: 34475090--34475129 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
34475080 AACAAGAGCA
34475090 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
34475130 TGGAATTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:34488877 original size:11 final size:11
Alignment explanation
Indices: 34488861--34488892 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
34488851 TTGTATTCAA
34488861 ATAATAATAAC
1 ATAATAATAAC
34488872 ATAATAATAAC
1 ATAATAATAAC
34488883 ATAATAATAA
1 ATAATAATAA
34488893 AAGCTAGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAATAAC
Found at i:34494584 original size:18 final size:19
Alignment explanation
Indices: 34494561--34494599 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
34494551 GAAATAAAAC
*
34494561 ATGTATAATAAA-ATTAAA
1 ATGTATAAAAAATATTAAA
34494579 ATGTATAAAAAATATTAAA
1 ATGTATAAAAAATATTAAA
34494598 AT
1 AT
34494600 AAAATTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
ATGTATAAAAAATATTAAA
Found at i:34507381 original size:15 final size:15
Alignment explanation
Indices: 34507363--34507393 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34507353 TTAGTTCTAG
34507363 TTTGAGTTAAATTCT
1 TTTGAGTTAAATTCT
34507378 TTTGAGTTAAATTCT
1 TTTGAGTTAAATTCT
34507393 T
1 T
34507394 CATTAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (15 bp):
TTTGAGTTAAATTCT
Found at i:34510175 original size:9 final size:9
Alignment explanation
Indices: 34510157--34510234 Score: 77
Period size: 9 Copynumber: 8.7 Consensus size: 9
34510147 TTTGGTTAAA
34510157 AATTAACCG
1 AATTAACCG
*
34510166 AATTACCCG
1 AATTAACCG
34510175 AATTAACCG
1 AATTAACCG
*
34510184 AATTAACTG
1 AATTAACCG
* **
34510193 GATTGCCCG
1 AATTAACCG
*
34510202 AATTAACTG
1 AATTAACCG
34510211 AATT-ACCAG
1 AATTAACC-G
*
34510220 AATTAACGG
1 AATTAACCG
34510229 AATTAA
1 AATTAA
34510235 TTGAATTGAA
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
8 2 0.04
9 50 0.93
10 2 0.04
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:34510180 original size:18 final size:18
Alignment explanation
Indices: 34510157--34510234 Score: 86
Period size: 18 Copynumber: 4.3 Consensus size: 18
34510147 TTTGGTTAAA
* *
34510157 AATTAACCGAATTACCCG
1 AATTAACCGAATTAACTG
34510175 AATTAACCGAATTAACTG
1 AATTAACCGAATTAACTG
* **
34510193 GATTGCCCGAATTAACTG
1 AATTAACCGAATTAACTG
*
34510211 AATT-ACCAGAATTAACGG
1 AATTAACC-GAATTAACTG
34510229 AATTAA
1 AATTAA
34510235 TTGAATTGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
17 2 0.04
18 47 0.94
19 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (18 bp):
AATTAACCGAATTAACTG
Found at i:34510189 original size:27 final size:27
Alignment explanation
Indices: 34510157--34510234 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
34510147 TTTGGTTAAA
34510157 AATTAACCGAATTACCCGAATTAACCG
1 AATTAACCGAATTACCCGAATTAACCG
* * * *
34510184 AATTAACTGGATTGCCCGAATTAACTG
1 AATTAACCGAATTACCCGAATTAACCG
* *
34510211 AATT-ACCAGAATTAACGGAATTAA
1 AATTAACC-GAATTACCCGAATTAA
34510235 TTGAATTGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 2 0.05
27 39 0.95
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (27 bp):
AATTAACCGAATTACCCGAATTAACCG
Found at i:34514711 original size:10 final size:10
Alignment explanation
Indices: 34514698--34514743 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
34514688 CTGTGACTAA
*
34514698 ATGTGGTTAT
1 ATGTGATTAT
*
34514708 ATGTAATTAT
1 ATGTGATTAT
34514718 ATGTGATTAT
1 ATGTGATTAT
34514728 ATGTGATTGAT
1 ATGTGATT-AT
34514739 ATGTG
1 ATGTG
34514744 TTGGAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
10 25 0.78
11 7 0.22
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (10 bp):
ATGTGATTAT
Done.