Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 93 of 279
Found at i:30273554 original size:63 final size:62
Alignment explanation
Indices: 30273366--30273554 Score: 209
Period size: 63 Copynumber: 3.0 Consensus size: 62
30273356 TGTGGCCCAT
* * * * *
30273366 ACAGCTTGGACACACGTCCGTGTCTCTGACCCGTGTGACTCAAATTCTAAACTAATATGTTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCAAAAATAGTA-GTTAC
* * * * * *
30273429 AC-GGTTGGACACACGTCCGTTTCTCTAACTCGTGTGACTTAAATTCCAAAACAGTAAATTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCAAAAATAGT-AGTTAC
* * * *
30273491 ACAGCCTGGACACACGCCCGTGTCTCTAACCCATGTGAATTAAATTCAAAAATAGTGAGTTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCAAAAATAGT-AGTTAC
30273554 A
1 A
30273555 TATCCTACCA
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
62 50 0.49
63 53 0.51
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (62 bp):
ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCAAAAATAGTAGTTAC
Found at i:30274222 original size:47 final size:47
Alignment explanation
Indices: 30274141--30274239 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
30274131 TTGTGTGTCA
** * *
30274141 TACTGTTACTGTTTCTTCGGTTTAATCCGATGAGGTACTAAGTACCG
1 TACTGTTACTGTTTCTTCGGTCAAAGCCGATGAGGCACTAAGTACCG
* **
30274188 TACTGTTACTGTTTACTTCGG-CAAAGCCGTTGAGGCACTAAGTGTCG
1 TACTGTTACTGTTT-CTTCGGTCAAAGCCGATGAGGCACTAAGTACCG
30274235 TACTG
1 TACTG
30274240 GTGTGTTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 38 0.86
48 6 0.14
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (47 bp):
TACTGTTACTGTTTCTTCGGTCAAAGCCGATGAGGCACTAAGTACCG
Found at i:30274330 original size:18 final size:18
Alignment explanation
Indices: 30274303--30274369 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
30274293 TAAACTACTG
*
30274303 TACTGTATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
30274321 TACTGAATAACTAAATTACT
1 TACTGAATAA-TTGA-TAGT
*
30274341 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
*
30274360 TATTGAATAA
1 TACTGAATAA
30274370 CTAAACTACT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 19 0.50
19 5 0.13
20 5 0.13
21 9 0.24
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Found at i:30274341 original size:39 final size:39
Alignment explanation
Indices: 30274293--30274443 Score: 205
Period size: 39 Copynumber: 3.9 Consensus size: 39
30274283 TTAATAGGGG
*
30274293 TAAACTACTGTACTGTATAATTGATAGTTACTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * *
30274332 TAAATTACTGTATTGAATAATTGATAGTTATTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* *
30274371 TAAACTACTGCACTGAATATTTGATAGTTACTGAA-AGAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATA-AC
* * *
30274410 TAAATTACTGTACTGAATAACTGATTGTTACTGA
1 TAAACTACTGTACTGAATAATTGATAGTTACTGA
30274444 TTAAATATGA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 1 0.01
39 96 0.99
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (39 bp):
TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
Found at i:30274348 original size:21 final size:20
Alignment explanation
Indices: 30274324--30274380 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 20
30274314 TGATAGTTAC
30274324 TGAATAACTAAATTACTGTAT
1 TGAATAACTAAA-TACTGTAT
** *
30274345 TGAATAA-TTGATAGT-TAT
1 TGAATAACTAAATACTGTAT
30274363 TGAATAACTAAACTACTG
1 TGAATAACTAAA-TACTG
30274381 CACTGAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
18 10 0.37
19 5 0.19
20 5 0.19
21 7 0.26
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (20 bp):
TGAATAACTAAATACTGTAT
Found at i:30275654 original size:29 final size:30
Alignment explanation
Indices: 30275621--30275679 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
30275611 TACGGTTTAA
*
30275621 TGTGCAATTGTATACAT-AAACTTTGATTT
1 TGTGCAATTGTATACATGAAAATTTGATTT
* *
30275650 TGTGCAATTTTATATATGAAAATTTGATTT
1 TGTGCAATTGTATACATGAAAATTTGATTT
30275680 GATCAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAAATTTGATTT
Found at i:30315072 original size:48 final size:48
Alignment explanation
Indices: 30314949--30315183 Score: 371
Period size: 48 Copynumber: 4.9 Consensus size: 48
30314939 GGTTAAGTGA
* *
30314949 GATCCCATGTAAGACCATGTTTGGGACGTGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* *
30314997 GAGTTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGATATGT
1 GA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
30315047 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGGTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
30315095 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGGTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * *
30315143 GATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
30315184 TTATTATGTG
Statistics
Matches: 177, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
48 131 0.74
50 46 0.26
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:30318371 original size:19 final size:19
Alignment explanation
Indices: 30318347--30318383 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
30318337 GTTTTTAAAC
*
30318347 TTTATTTTTTGGTTTTTGT
1 TTTATTTGTTGGTTTTTGT
30318366 TTTATTTGTTGGTTTTTG
1 TTTATTTGTTGGTTTTTG
30318384 GGTGTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.00, G:0.19, T:0.76
Consensus pattern (19 bp):
TTTATTTGTTGGTTTTTGT
Found at i:30319528 original size:30 final size:30
Alignment explanation
Indices: 30319485--30319545 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30319475 CACAAGTTGG
* * *
30319485 CACATGGGTGTGTGACCTGCCCGTGTGGAT
1 CACATGGGCGTGTGACCTGCCCATGTAGAT
* *
30319515 CACATTGGCGTGTGGCCTGCCCATGTAGAT
1 CACATGGGCGTGTGACCTGCCCATGTAGAT
30319545 C
1 C
30319546 CTGAAAACTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.26
Consensus pattern (30 bp):
CACATGGGCGTGTGACCTGCCCATGTAGAT
Found at i:30320368 original size:12 final size:11
Alignment explanation
Indices: 30320351--30320380 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
30320341 ACATAAATGT
30320351 TTTTTTTTTCA
1 TTTTTTTTTCA
30320362 CTTTTTTTTTCA
1 -TTTTTTTTTCA
30320374 TTTTTTT
1 TTTTTTT
30320381 AGAATAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTCA
Found at i:30321485 original size:22 final size:22
Alignment explanation
Indices: 30321453--30321513 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
30321443 TTGTAATGGT
30321453 AATAGTAAAAATAAAAAAATACG
1 AATAG-AAAAATAAAAAAATACG
* *
30321476 AA-AGAAAAAAGAAAAAAATAGG
1 AATAG-AAAAATAAAAAAATACG
*
30321498 AATAGCAAAATAAAAA
1 AATAGAAAAATAAAAA
30321514 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.74, C:0.03, G:0.11, T:0.11
Consensus pattern (22 bp):
AATAGAAAAATAAAAAAATACG
Found at i:30321513 original size:6 final size:6
Alignment explanation
Indices: 30321504--30321533 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
30321494 TAGGAATAGC
30321504 AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA
30321534 TTAAAAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:30321557 original size:33 final size:32
Alignment explanation
Indices: 30321515--30321577 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
30321505 AAATAAAAAT
*
30321515 AAAAATAAAA-ATAAAAATATTAAAAGTATATA
1 AAAAATAAAATATAAAAA-ATTAAAAATATATA
30321547 AAAAATTAAAATATAAAAAATTAAAAATATA
1 AAAAA-TAAAATATAAAAAATTAAAAATATA
30321578 AGTATAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 5 0.18
33 16 0.57
34 7 0.25
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAAATAAAATATAAAAAATTAAAAATATATA
Found at i:30321581 original size:39 final size:37
Alignment explanation
Indices: 30321509--30321583 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 37
30321499 ATAGCAAAAT
30321509 AAAAATAAAAATAAAAATAAAAATATTAAAAGTATATA
1 AAAAATAAAAATAAAAATAAAAATATT-AAAGTATATA
30321547 AAAAATTAAAATATAAAAAATTAAAAATA-T-AAGTATA
1 AAAAA-TAAAA-AT-AAAAA-TAAAAATATTAAAGTATA
30321584 AGAATACTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
38 5 0.15
39 12 0.36
40 2 0.06
41 6 0.18
42 8 0.24
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (37 bp):
AAAAATAAAAATAAAAATAAAAATATTAAAGTATATA
Found at i:30321629 original size:22 final size:20
Alignment explanation
Indices: 30321611--30321662 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
30321601 AACTAATTAG
30321611 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAATA
*
30321631 TAACAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAATA
30321653 TAAAATAAAA
1 TAAAATAAAA
30321663 TTGGGGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 17 0.59
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAAATAATA
Found at i:30321832 original size:30 final size:31
Alignment explanation
Indices: 30321789--30321850 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
30321779 ATGTGAAATC
* *
30321789 CCACACGCCCGTGTGGCCAGGCCGTGT-GCT
1 CCACACACCCGTGTGGCCAGACCGTGTAGCT
* *
30321819 CCACACACTCGTGTGGTCAGACCGTGTAGCT
1 CCACACACCCGTGTGGCCAGACCGTGTAGCT
30321850 C
1 C
30321851 TTCGACTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.15, C:0.37, G:0.29, T:0.19
Consensus pattern (31 bp):
CCACACACCCGTGTGGCCAGACCGTGTAGCT
Found at i:30325363 original size:28 final size:28
Alignment explanation
Indices: 30325332--30325412 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 28
30325322 CTGGTAGCTA
*
30325332 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
*
30325360 TGCCACAAATTATCTGTTTTGGTGGCAC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
** *
30325388 TGTTACAAAATATCTGTATCTGGTG
1 TGCCACAAATTATCTGT-TCTGGTG
30325413 ACTCTGTCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 40 0.87
29 6 0.13
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (28 bp):
TGCCACAAATTATCTGTTCTGGTGGCAC
Found at i:30325419 original size:29 final size:28
Alignment explanation
Indices: 30325335--30325423 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
30325325 GTAGCTATGC
* *
30325335 CACAAATTATCTGTTCTGGTGGCCCTGC
1 CACAAATTATCTGTTCTGGTGGCACTGT
*
30325363 CACAAATTATCTGTTTTGGTGGCACTGT
1 CACAAATTATCTGTTCTGGTGGCACTGT
* * * *
30325391 TACAAAATATCTGTATCTGGTGACTCTGT
1 CACAAATTATCTGT-TCTGGTGGCACTGT
30325420 CACA
1 CACA
30325424 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
28 37 0.73
29 14 0.27
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (28 bp):
CACAAATTATCTGTTCTGGTGGCACTGT
Found at i:30326923 original size:26 final size:26
Alignment explanation
Indices: 30326893--30326972 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 26
30326883 TGAAATTCCC
30326893 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
30326919 ATCATGGTAA-A--TGCCTAACCCATT
1 ATCATGG-AACATTTACCTAACCCATT
*
30326943 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACCCATT
30326969 ATCA
1 ATCA
30326973 ATTTGTATCA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
23 2 0.04
24 20 0.43
26 23 0.49
27 2 0.04
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30327185 original size:26 final size:26
Alignment explanation
Indices: 30327151--30327234 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
30327141 ATTTTCACAT
30327151 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
30327177 TTATCATGAAACAATTGCCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
30327203 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
30327229 TTATCA
1 TTATCA
30327235 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:30327399 original size:262 final size:260
Alignment explanation
Indices: 30326893--30327412 Score: 898
Period size: 262 Copynumber: 2.0 Consensus size: 260
30326883 TGAAATTCCC
* **
30326893 ATCATGGAACATTTACCTAACCCATTATCATGGTAAATGCCTAACCCATTATCATGGAACATTTA
1 ATCATGAAACATTTACCTAACCCATTATCATGAAAAATGCCTAACCCATTATCATGGAACATTTA
30326958 CCTAACACATTATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTGCACATTTTGT
66 CCTAACACATTATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTGCACATTTTGT
* *
30327023 CTACAACAACATGATGGCTGGCCACTTCATGTAAAATGGCGGGTTTGTCATGCAAATCCTCCTAT
131 CTACAACAACATGATGGCTGACCACTTCATGTAAAATGGCGGGTTTGCCATGCAAATCCTCCTAT
* *
30327088 TTTGTACTCCTATTTATTTGGCCACTTCAATTTAGCCTATAGCATTTTCAAACATTTTCACATTT
196 TTTGCACTCCTATTTATTTGGCCACTTCAATTTAACCTATAGCATTTTCAAACATTTTCACATTT
30327153 ATCATGAAACATTTACCTAACCCATTATCATGAAACAATTGCCTAACCCATTATCATGGAACATT
1 ATCATGAAACATTTACCTAACCCATTATCATGAAA-AA-TGCCTAACCCATTATCATGGAACATT
*
30327218 TACCTAACCCATTATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTGCACATTTT
64 TACCTAACACATTATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTGCACATTTT
* *
30327283 GTCTACAACAACATGATGGCTGACCACTTCTTTTAAAATGG-GAGGTTTGCCATGCAAATCCTCC
129 GTCTACAACAACATGATGGCTGACCACTTCATGTAAAATGGCG-GGTTTGCCATGCAAATCCTCC
* *
30327347 TATTTTGCACTCCTATTTATTTGGCCACTTTAATTTAACCTATAGTATTTTCAAACATTTTCACA
193 TATTTTGCACTCCTATTTATTTGGCCACTTCAATTTAACCTATAGCATTTTCAAACATTTTCACA
30327412 T
258 T
30327413 AGGTCCTATT
Statistics
Matches: 245, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
260 32 0.13
261 3 0.01
262 210 0.86
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (260 bp):
ATCATGAAACATTTACCTAACCCATTATCATGAAAAATGCCTAACCCATTATCATGGAACATTTA
CCTAACACATTATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTGCACATTTTGT
CTACAACAACATGATGGCTGACCACTTCATGTAAAATGGCGGGTTTGCCATGCAAATCCTCCTAT
TTTGCACTCCTATTTATTTGGCCACTTCAATTTAACCTATAGCATTTTCAAACATTTTCACATTT
Found at i:30329391 original size:27 final size:28
Alignment explanation
Indices: 30329346--30329419 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 28
30329336 GAATATCCAA
*
30329346 CCCAAACACACTCGGAATAAT-ATAAATCCT
1 CCCAAACACAC-C--AATAATAATAAAGCCT
*
30329376 -CCATAACACACCAAT-ATAATATAGCCT
1 CCCA-AACACACCAATAATAATAAAGCCT
30329403 CCCAAACACACCAATAA
1 CCCAAACACACCAATAA
30329420 GGCATTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
26 2 0.05
27 21 0.55
28 4 0.11
29 4 0.11
30 7 0.18
ACGTcount: A:0.46, C:0.32, G:0.04, T:0.18
Consensus pattern (28 bp):
CCCAAACACACCAATAATAATAAAGCCT
Found at i:30335310 original size:26 final size:26
Alignment explanation
Indices: 30335272--30335326 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
30335262 CATGAAATTC
30335272 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
30335298 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
30335324 TTA
1 TTA
30335327 CAATTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:30335847 original size:106 final size:106
Alignment explanation
Indices: 30335662--30335857 Score: 365
Period size: 106 Copynumber: 1.8 Consensus size: 106
30335652 GGGCGTTACA
* *
30335662 AATGTTTTGGCTGAAAATGATATTTTTAGATTTCACGATTTCAAAAGCTAGGATTAAATTTCTGA
1 AATGTTTTGGCTGAAAATGATATTTTTAGATTTCACGATTCCAAAAGCTAGGATTAAACTTCTGA
30335727 GTTTTTAAAACAAACTAATGTAATTTCCAAAATAACATGTC
66 GTTTTTAAAACAAACTAATGTAATTTCCAAAATAACATGTC
*
30335768 AATGTTTTGGCTGAAAATGATATTTTTAGATTTCATGATTCCAAAAGCTAGGATTAAACTTCTGA
1 AATGTTTTGGCTGAAAATGATATTTTTAGATTTCACGATTCCAAAAGCTAGGATTAAACTTCTGA
30335833 GTTTTTAAAACAAACTAATGTAATT
66 GTTTTTAAAACAAACTAATGTAATT
30335858 CCTCCGGATT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 87 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (106 bp):
AATGTTTTGGCTGAAAATGATATTTTTAGATTTCACGATTCCAAAAGCTAGGATTAAACTTCTGA
GTTTTTAAAACAAACTAATGTAATTTCCAAAATAACATGTC
Found at i:30337000 original size:24 final size:24
Alignment explanation
Indices: 30336949--30337006 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
30336939 AATAAATTTC
*
30336949 AATATATATTTATTTAAAAAATTC
1 AATATATATTTATTTAAAAAATTA
* *
30336973 AATATATATTTATTT-TAATATATA
1 AATATATATTTATTTAAAAAAT-TA
30336997 AATATATATT
1 AATATATATT
30337007 CCCCTCATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
AATATATATTTATTTAAAAAATTA
Found at i:30340650 original size:14 final size:14
Alignment explanation
Indices: 30340631--30340665 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
30340621 TTGATTTTTT
*
30340631 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
30340645 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
30340659 TTGAAAA
1 TTGAAAA
30340666 TACCTTGACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:30340789 original size:88 final size:88
Alignment explanation
Indices: 30340561--30340894 Score: 445
Period size: 88 Copynumber: 3.8 Consensus size: 88
30340551 TTTTTTTGAC
* * * * *
30340561 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-
* * * * *
30340626 TTTTTTTGAAAGACAGAA-ATTGAAA
65 -TTCTTTCAAAAACATAATAATG-AA
* * * * * *
30340651 AACGGAAATTGAAAATACCTTGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTG
1 AACAGAAATTGAAAATACCTCG--GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
30340716 ATTCTTTCAAAAACATAATAATGAA
64 ATTCTTTCAAAAACATAATAATGAA
* *
30340741 AACAGAGATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTTGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
30340806 TCTTTCAAAAACATAATAATGAA
66 TCTTTCAAAAACATAATAATGAA
*
30340829 GACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
30340894 T
66 T
30340895 TTGAAAAAGT
Statistics
Matches: 216, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
88 124 0.57
90 52 0.24
91 3 0.01
92 37 0.17
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (88 bp):
AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TCTTTCAAAAACATAATAATGAA
Found at i:30341069 original size:72 final size:73
Alignment explanation
Indices: 30340919--30341101 Score: 219
Period size: 72 Copynumber: 2.5 Consensus size: 73
30340909 ATTAAAAGGT
* ** * * * * * *
30340919 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
*
30340984 CCTGAGGC
66 CCCGAGGC
30340992 TCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAATACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTG
30341055 CCCCGAGGC
65 CCCCGAGGC
* * *
30341064 TCAACTCACCTCTTGCAATATGAGCTGAT-TTTGAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAA
30341102 GTAGAAATTA
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
71 3 0.03
72 60 0.64
73 31 0.33
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
CCCGAGGC
Found at i:30341140 original size:126 final size:125
Alignment explanation
Indices: 30340988--30341344 Score: 422
Period size: 127 Copynumber: 2.9 Consensus size: 125
30340978 TCGTGTCCTG
30340988 AGGC-TCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGC
1 AGGCTTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAA-ACAAAAATTGAAAATACCTCAGC
* * * * *
30341052 GTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAA
65 GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAAAAATTAAA
* ** * * * *
30341114 AGG-TTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAT
1 AGGCTTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAAACAAAAATTGAAAATACCTCAG
* *
30341178 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
64 CGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* * * *
30341240 AGGCTT-AACTCACCTCTCGCAATATGAG-T-CAATTTAAAACATAAACT--AAATACCTCAGCA
1 AGGCTTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAACAAAAATTGAAAATACCTCAGC-
* * *
30341300 TGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
65 -GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
30341345 TTTTTTGAAA
Statistics
Matches: 197, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
120 10 0.05
122 48 0.24
123 2 0.01
125 1 0.01
126 63 0.32
127 70 0.36
128 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (125 bp):
AGGCTTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAACAAAAATTGAAAATACCTCAGCG
TGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:30341527 original size:74 final size:74
Alignment explanation
Indices: 30341308--30342538 Score: 2297
Period size: 74 Copynumber: 16.6 Consensus size: 74
30341298 CATGTGAACC
* * *
30341308 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAA-AACAGAAATTGAAAATAC
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGA---TTTTTTT-AACAACAGAAATTGAAATTAC
* **
30341372 CTCAACGTGTATT
62 CTCAGCGTGTCCT
* ** * * *
30341385 GAGGCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAA-AACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30341448 GCGTGTCCT
66 GCGTGTCCT
30341457 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30341522 GCGTGTCCT
66 GCGTGTCCT
30341531 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30341596 GCGTGTCCT
66 GCGTGTCCT
30341605 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30341670 GCGTGTCCT
66 GCGTGTCCT
30341679 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30341744 GCGTGTCCT
66 GCGTGTCCT
30341753 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30341818 GCGTGTCCT
66 GCGTGTCCT
30341827 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30341892 GCGTGTCCT
66 GCGTGTCCT
30341901 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30341966 GCGTGTCCT
66 GCGTGTCCT
30341975 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30342040 GCGTGTCCT
66 GCGTGTCCT
30342049 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30342114 GCGTGTCCT
66 GCGTGTCCT
30342123 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30342188 GCGTGTCCT
66 GCGTGTCCT
30342197 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30342262 GCGTGTCCT
66 GCGTGTCCT
30342271 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30342336 GCGTGTCCT
66 GCGTGTCCT
30342345 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30342410 GCGTGTCCT
66 GCGTGTCCT
30342419 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
30342484 GCGTGTCCT
66 GCGTGTCCT
30342493 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAAC
1 GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAAC
30342539 CAGTGTGTAA
Statistics
Matches: 1138, Mismatches: 14, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
72 58 0.05
73 10 0.01
74 1039 0.91
77 31 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (74 bp):
GAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
GCGTGTCCT
Found at i:30347598 original size:30 final size:30
Alignment explanation
Indices: 30347562--30347622 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
30347552 TTTGAAAAAT
30347562 AGAAATT-AAAAGACTCAACTCAACTCTCGC
1 AGAAATTAAAAAG-CTCAACTCAACTCTCGC
*
30347592 AGAAATTAAAAAGCTCAACTCACCTCTCGC
1 AGAAATTAAAAAGCTCAACTCAACTCTCGC
30347622 A
1 A
30347623 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.20
Consensus pattern (30 bp):
AGAAATTAAAAAGCTCAACTCAACTCTCGC
Found at i:30347940 original size:77 final size:77
Alignment explanation
Indices: 30347744--30347985 Score: 250
Period size: 79 Copynumber: 3.1 Consensus size: 77
30347734 AAAATAGATT
* ** * * * * * *
30347744 TTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTAAGTTAATTTTTTT
1 TTGAAAATACCTCAACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
30347809 GAAAAATATAAA
66 GAAAGACAGAAA
* * * * * **
30347821 TTGAAAAAATACCTCAATGTGTGATCTAAAGCTCAACTCACCTCTTACAATATGAGTTGATTTTT
1 TTG--AAAATACCTCAACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
30347886 TTGAAAGACAGAAA
64 TTGAAAGACAGAAA
* *
30347900 TTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
*
30347965 TTGAAAGGCAGAAA
64 TTGAAAGACAGAAA
30347979 TTGAAAA
1 TTGAAAA
30347986 ACAGAAATTG
Statistics
Matches: 135, Mismatches: 26, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
77 49 0.36
79 86 0.64
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (77 bp):
TTGAAAATACCTCAACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAAGACAGAAA
Found at i:30347984 original size:14 final size:14
Alignment explanation
Indices: 30347973--30347999 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30347963 TTTTGAAAGG
30347973 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
30347987 CAGAAATTGAAAA
1 CAGAAATTGAAAA
30348000 TACCTTGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:30347996 original size:93 final size:93
Alignment explanation
Indices: 30347886--30348057 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
30347876 GTTGATTTTT
* * *
30347886 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGA-CCTAAGGCTCAACTCACCTCTCACAATA
*
30347950 TGAGTTGATTTTTTTTTGAAAGGCAGAAA
65 CGAGTTGATTTTTTTTTGAAAGGCAGAAA
** * * *
30347979 TTGAAAAACAGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAGGCTCAACTCACCTCTCACAATAC
30348044 GAGTTGATTTTTTT
66 GAGTTGATTTTTTT
30348058 GACAACAGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (93 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTGAAAGGCAGAAA
Found at i:30348101 original size:244 final size:243
Alignment explanation
Indices: 30347601--30348151 Score: 682
Period size: 244 Copynumber: 2.2 Consensus size: 243
30347591 CAGAAATTAA
* *
30347601 AAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAAGAAATTGAAAATAG
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG--AAAGACAGAAATTGAAAATAG
* *
30347666 CTCAGCACGTGAGCTAAGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTGAAAACAGAATC
63 CTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAACAGAATC
* ** * **
30347731 TGAAAAATAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTA
128 TGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCACAATACA
* * *
30347796 AGTTAATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAATGTGTGATCT
193 AGTTAATTTTTTTGAAAAACAGAAATTG-AAAAATACCTCAATGCGTGATCT
**
30347848 AAAGCTCAACTCACCTCTTACAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTC
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTC
* * *
30347913 AGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAA
66 AGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTT-A---ATTTTTGAAA-ACAG-A
* * * * * *
30347978 AT-TGAAAAACAGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAAT
125 ATCTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCACAAT
* * * *
30348042 ACGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTACCTC-A-GCGTG-TCCT
190 ACAAGTTAATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAATGCGTGAT-CT
* *
30348092 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAA
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGAAAA
30348152 ACGGAAATTG
Statistics
Matches: 264, Mismatches: 32, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
243 1 0.00
244 97 0.37
245 28 0.11
246 18 0.07
247 30 0.11
248 19 0.07
249 68 0.26
250 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (243 bp):
AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTC
AGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAACAGAATCTGA
AAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCACAATACAAGT
TAATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAATGCGTGATCT
Found at i:30348116 original size:74 final size:76
Alignment explanation
Indices: 30347983--30348151 Score: 243
Period size: 76 Copynumber: 2.2 Consensus size: 76
30347973 CAGAAATTGA
** *
30347983 AAAACAGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCACAATACGAGT
30348048 TGA-TTTTTTTG
65 TGATTTTTTTTG
* * * *
30348059 ACAACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCACAATACGAGTT
30348123 GATTTTTTTTG
66 GATTTTTTTTG
30348134 AAAGACAGAAATTGAAAA
1 AAA-ACAGAAATTGAAAA
30348152 ACGGAAATTG
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
74 33 0.40
75 10 0.12
76 39 0.48
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (76 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCACAATACGAGTT
GATTTTTTTTG
Found at i:30348150 original size:14 final size:14
Alignment explanation
Indices: 30348131--30348165 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
30348121 TTGATTTTTT
*
30348131 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
30348145 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
30348159 TTGAAAA
1 TTGAAAA
30348166 TACCTTGACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:30348289 original size:88 final size:88
Alignment explanation
Indices: 30348061--30348570 Score: 770
Period size: 88 Copynumber: 5.8 Consensus size: 88
30348051 TTTTTTTGAC
* * * *
30348061 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-
* * * * *
30348126 TTTTTTTGAAAGACAGAA-ATTGAAA
65 -TTCTTTCAAAAACATAATAATG-AA
* * * * * *
30348151 AACGGAAATTGAAAATACCTTGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTG
1 AACAGAAATTGAAAATACCTCG--GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
30348216 ATTCTTTCAAAAACATAATAATGAA
64 ATTCTTTCAAAAACATAATAATGAA
* *
30348241 AACAGAGATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTTGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
30348306 TCTTTCAAAAACATAATAATGAA
66 TCTTTCAAAAACATAATAATGAA
* *
30348329 GACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTTGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
30348394 TCTTTCAAAAACATAATAATGAA
66 TCTTTCAAAAACATAATAATGAA
* *
30348417 GACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTTGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
30348482 TCTTTCAAAAACATAATAATGAA
66 TCTTTCAAAAACATAATAATGAA
*
30348505 GACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
30348570 T
66 T
30348571 TTGAAAAAGT
Statistics
Matches: 393, Mismatches: 24, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
88 300 0.76
90 52 0.13
91 3 0.01
92 38 0.10
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (88 bp):
AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TCTTTCAAAAACATAATAATGAA
Found at i:30348832 original size:127 final size:127
Alignment explanation
Indices: 30348506--30348825 Score: 579
Period size: 127 Copynumber: 2.5 Consensus size: 127
30348496 AATAATGAAG
* * ** *
30348506 ACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAGATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
30348571 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAA
66 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAA
30348633 ACAGAAATTGAGATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAGATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
30348698 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAA
66 TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAA
*
30348760 ACAGAAATTGAGATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAG-TGATT
1 ACAGAAATTGAGATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
30348824 TT
66 TT
30348826 TTAAAAAAAA
Statistics
Matches: 187, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 7 0.04
127 180 0.96
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (127 bp):
ACAGAAATTGAGATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
TTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAA
Found at i:30348939 original size:72 final size:72
Alignment explanation
Indices: 30348722--30349048 Score: 388
Period size: 72 Copynumber: 4.5 Consensus size: 72
30348712 ATTAAAAGGT
* * * * *
30348722 TCAACCCACCTCTCGCAATATGAGTTG-ATTCTTGACAAACAGAAATTGAGATTACCTCATCGTG
1 TCAACTCACCTCTCGCAATATAAGTTGAATT-TTGA-AAACAGAAATTGAAAATACCTCAACGTG
*
30348786 TCCTGAGGC
64 TACTGAGGC
* *
30348795 TCAACTCACCTCTCGCAATATAAG-TGATTTTTTAAAAAAAAAACAGAAATTGAAAATACCTCAA
1 TCAACTCACCTCTCGCAATATAAGTTGA-ATTTT-----GAAAACAGAAATTGAAAATACCTCAA
*
30348859 CGTGTATTGAGGC
60 CGTGTACTGAGGC
**
30348872 TCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTA
1 TCAACTCACCTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTA
*
30348937 TTGAGGC
66 CTGAGGC
** * * *
30348944 TCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
1 TCAACTCACCTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTA
30349009 CTGAGGC
66 CTGAGGC
* * *
30349016 TCAACCCACCTCTCGCAATATGAGTTGATTTTT
1 TCAACTCACCTCTCGCAATATAAGTTGAATTTT
30349049 TTTACGAACA
Statistics
Matches: 224, Mismatches: 22, Indels: 17
0.85 0.08 0.06
Matches are distributed among these distances:
72 136 0.61
73 24 0.11
74 2 0.01
77 58 0.26
78 4 0.02
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTA
CTGAGGC
Found at i:30349073 original size:14 final size:14
Alignment explanation
Indices: 30349054--30349081 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30349044 TTTTTTTTAC
30349054 GAACAGAAATTGAA
1 GAACAGAAATTGAA
30349068 GAACAGAAATTGAA
1 GAACAGAAATTGAA
30349082 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:30349089 original size:89 final size:87
Alignment explanation
Indices: 30348975--30349157 Score: 244
Period size: 89 Copynumber: 2.1 Consensus size: 87
30348965 AAGTTGAATT
** *
30348975 TTGAAAACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACCCACCTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-GAGGCTCAACCCACCTCTCGCAATATG
* * *
30349038 AGTTGATTTTTTTTACGAACAGAAA
65 AGTT-A-ATTTTTGACAAACAGAAA
*
30349063 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAA-AACAGAAATTGAAAAGACCTCAGCA-GTGAGCCGAGGCTCAACCCACCTCTCGCAATAT
30349128 GAGTTAATTTTTGACAAACAGAAA
64 GAGTTAATTTTTGACAAACAGAAA
30349152 TTGAAA
1 TTGAAA
30349158 TTACCTCAGC
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
88 6 0.07
89 42 0.50
90 1 0.01
91 33 0.39
92 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (87 bp):
TTGAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGGCTCAACCCACCTCTCGCAATATGA
GTTAATTTTTGACAAACAGAAA
Found at i:30349181 original size:164 final size:160
Alignment explanation
Indices: 30348903--30349212 Score: 478
Period size: 164 Copynumber: 1.9 Consensus size: 160
30348893 AAGTTGAATT
* * ** **
30348903 TTGAAAACAGAAATTGAAAATACCTCAACGTGTATTGAGGCTCAACTCATTTCTCGCAATATAAG
1 TTGAAAACAGAAATTGAAAAGACCTCAACATGTACCGAGGCTCAACTCACCTCTCGCAATATAAG
*
30348968 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACCCACCTCTCGCA
66 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACCCACCTCTCGCA
30349033 ATATGAGTTGATTTTTTTTACGAACAGAAA
131 ATATGAGTTGATTTTTTTTACGAACAGAAA
*
30349063 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAA-AACAGAAATTGAAAAGACCTCAACATGT-A-CCGAGGCTCAACTCACCTCTCGCAATAT
* *
30349128 GAGTT-AATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTC
63 AAGTTGAA-TTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACCCACCTC
30349192 TCGCAATATGAGTTGATTTTT
126 TCGCAATATGAGTTGATTTTT
30349213 GAAAATAGAA
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
160 5 0.04
161 25 0.19
162 3 0.02
163 34 0.25
164 68 0.50
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (160 bp):
TTGAAAACAGAAATTGAAAAGACCTCAACATGTACCGAGGCTCAACTCACCTCTCGCAATATAAG
TTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACCCACCTCTCGCA
ATATGAGTTGATTTTTTTTACGAACAGAAA
Found at i:30349264 original size:72 final size:72
Alignment explanation
Indices: 30349063--30349450 Score: 497
Period size: 72 Copynumber: 5.3 Consensus size: 72
30349053 CGAACAGAAA
** ***
30349063 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAA-AACAGAAATTGAAATTACCTCAGC--GTCTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
30349128 GAGTTAATTT
63 GAGTTGATTT
*
30349138 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAATTACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGA
30349203 GTTGATTT
65 GTTGATTT
* * *
30349211 TTGAAAATAGAAACTGAAATTACCTCAGTGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
30349276 TTGATTTTT
66 TTGA--TTT
* * * * ** **
30349285 TTGAAAAACAAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTG-AAAAC-AGAAATTGAAATTACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATG
*
30349350 AGTTGAATT
64 AGTTGATTT
* *
30349359 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
30349424 TCGATTT
66 TTGATTT
30349431 TTGAAAAACAGAAATTGAAA
1 TTG-AAAACAGAAATTGAAA
30349451 ACCAGAAATT
Statistics
Matches: 278, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
72 120 0.43
73 65 0.23
74 11 0.04
75 30 0.11
76 52 0.19
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTT
Found at i:30349342 original size:148 final size:145
Alignment explanation
Indices: 30349100--30350478 Score: 753
Period size: 162 Copynumber: 8.8 Consensus size: 145
30349090 AGCATGTGAG
* * *
30349100 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTC
* * *
30349165 AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAAACTGAAA
66 AGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAACTGAAA
*
30349230 TTACCTCAGTGTCTC
131 TTACCTCAGCGTCTC
*
30349245 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAAATTGAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAC-AGAAATTGAAAATAC
** ** *
30349310 CTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
63 CTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAACTG
*
30349375 AAATTACCTCAGCGTGTC
128 AAATTACCTCAGCGTCTC
* *
30349393 CTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACCAGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--------G--A---AAAA-CAGAA
* * * * *
30349458 ATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCT-AATTTTT
52 ATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTT
* * * * ** *
30349522 GATGAACATAAATTAAAACCACCTCAGCGTGTC
114 GA-AAACAGAAACTGAAATTACCTCAGCGTCTC
* *
30349555 CTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACCAGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--------G--A---AAAA-CAGAA
* * * * *
30349620 ATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCT-AATTTTT
52 ATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTT
* * * * ** *
30349684 GATGAACATAAATTAAAACCACCTCAGCGTGTC
114 GA-AAACAGAAACTGAAATTACCTCAGCGTCTC
* *
30349717 CTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACCAGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--------G--A---AAAA-CAGAA
* * * * *
30349782 ATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCT-AATTTTT
52 ATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTT
* * * * ** *
30349846 GATGAACATAAATTAAAACCACCTCAGCGTGTC
114 GA-AAACAGAAACTGAAATTACCTCAGCGTCTC
* *
30349879 CTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACCAGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--------G--A---AAAA-CAGAA
* * * * *
30349944 ATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCT-AATTTTT
52 ATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTT
* * * * ** *
30350008 GATGAACATAAATTAAAACCACCTCAGCGTGTC
114 GA-AAACAGAAACTGAAATTACCTCAGCGTCTC
* *
30350041 CTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACCAGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--------G--A---AAAA-CAGAA
* * * * *
30350106 ATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCT-AATTTTT
52 ATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTT
* * * * ** *
30350170 GATGAACATAAATTAAAACCACCTCAGCGTGTC
114 GA-AAACAGAAACTGAAATTACCTCAGCGTCTC
* * * *
30350203 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTC
** * *
30350268 AGC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAA
66 AGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---ATTTTG------------A
* * * *
30350331 AAAAACGAAAATTGAAAATACCTCAGCGTGTC
116 AAACA-G-AAACTGAAATTACCTCAGCGTCTC
* ** *
30350363 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACAGAAATTGAAAATACCT
* * * *
30350426 CAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTG-ATTTTGAAAA
65 CAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAA
30350479 AGTAGAAATT
Statistics
Matches: 1132, Mismatches: 60, Indels: 84
0.89 0.05 0.07
Matches are distributed among these distances:
144 27 0.02
145 39 0.03
146 7 0.01
147 16 0.01
148 139 0.12
149 3 0.00
152 1 0.00
154 2 0.00
156 1 0.00
157 5 0.00
158 6 0.01
159 52 0.05
160 59 0.05
161 63 0.06
162 712 0.63
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (145 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTC
AGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAACTGAAA
TTACCTCAGCGTCTC
Found at i:30349450 original size:14 final size:14
Alignment explanation
Indices: 30349431--30349465 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
30349421 GAGTCGATTT
30349431 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
30349445 TTGAAAACCAGAAA
1 TTGAAAAACAGAAA
30349459 TTGAAAA
1 TTGAAAA
30349466 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:30349510 original size:89 final size:87
Alignment explanation
Indices: 30349359--30349542 Score: 241
Period size: 89 Copynumber: 2.1 Consensus size: 87
30349349 GAGTTGAATT
* *
30349359 TTGAAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
*
30349423 G-TCGATTTTTGAAAAACAGAAA
66 GCT-AATTTTTGAAAAACAGAAA
*
30349445 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTCTTGCAATA
1 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGT---CCTAAGGCTCAACTCACCTCTCGCAATA
** *
30349509 TGAGCTAATTTTTGATGAACATAAA
63 TGAGCTAATTTTTGAAAAACAGAAA
30349534 TT-AAAACCA
1 TTGAAAACCA
30349543 CCTCAGCGTG
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
86 7 0.08
87 25 0.29
88 7 0.08
89 44 0.51
90 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (87 bp):
TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
GCTAATTTTTGAAAAACAGAAA
Found at i:30349565 original size:162 final size:162
Alignment explanation
Indices: 30349324--30350260 Score: 1743
Period size: 162 Copynumber: 5.8 Consensus size: 162
30349314 GCATGTCTTG
** * * * * * **
30349324 AGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGA-AAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTTGCAATATGAGCT-AATTTTTGATGAACATAAATTAAAACCACCTCAG
30349387 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAA
65 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAA
30349452 CCAGAAATTGAAAATACCTCAGCGTGTGAGCCA
130 CCAGAAATTGAAAATACCTCAGCGTGTGAGCCA
30349485 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
1 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
30349550 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
66 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
30349615 CAGAAATTGAAAATACCTCAGCGTGTGAGCCA
131 CAGAAATTGAAAATACCTCAGCGTGTGAGCCA
30349647 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
1 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
30349712 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
66 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
30349777 CAGAAATTGAAAATACCTCAGCGTGTGAGCCA
131 CAGAAATTGAAAATACCTCAGCGTGTGAGCCA
30349809 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
1 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
30349874 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
66 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
30349939 CAGAAATTGAAAATACCTCAGCGTGTGAGCCA
131 CAGAAATTGAAAATACCTCAGCGTGTGAGCCA
30349971 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
1 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
30350036 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
66 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
30350101 CAGAAATTGAAAATACCTCAGCGTGTGAGCCA
131 CAGAAATTGAAAATACCTCAGCGTGTGAGCCA
30350133 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
1 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
* * *
30350198 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAA
66 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAA
30350261 TTACCTCAGC
Statistics
Matches: 762, Mismatches: 12, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
160 2 0.00
161 32 0.04
162 728 0.96
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (162 bp):
AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
CAGAAATTGAAAATACCTCAGCGTGTGAGCCA
Found at i:30349612 original size:14 final size:14
Alignment explanation
Indices: 30349593--30349627 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
30349583 GAGTCGATTT
30349593 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
30349607 TTGAAAACCAGAAA
1 TTGAAAAACAGAAA
30349621 TTGAAAA
1 TTGAAAA
30349628 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:30349774 original size:14 final size:14
Alignment explanation
Indices: 30349755--30349789 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
30349745 GAGTCGATTT
30349755 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
30349769 TTGAAAACCAGAAA
1 TTGAAAAACAGAAA
30349783 TTGAAAA
1 TTGAAAA
30349790 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:30349925 original size:486 final size:479
Alignment explanation
Indices: 30349138--30350260 Score: 1754
Period size: 486 Copynumber: 2.3 Consensus size: 479
30349128 GAGTTAATTT
* * * *
30349138 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATA
1 TTGA-AAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATA
* * * * * * * ** * * *
30349200 TGAGTTGATTTTTGA-AAATAGAAACTGAAATTACCTCAGTGTCTCCCGAGGCTCAACTCACCTC
65 TGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
30349264 TCGCAATATGAGTTGATTTTTTTGAAAAAC---------AAAAAATTGAAAATACCTCAGCATGT
130 TCGCAATATGAGTTGA--TTTTTGAAAAACAAAATTGAAAAAAAATTGAAAATACCTCAGCATGT
** ** * * **
30349320 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTC
193 CTCAAGGCTCAACTCACCTCTCGCAATATGAGCTGAATTTTGAAAACAGAAATTAAAACCACCTC
30349385 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAA
258 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAA
30349450 AACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCT
323 AACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCT
30349515 AATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
388 AATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
30349580 TATGAGTCGATTTTTGAAAAACAGAAA
453 TATGAGTCGATTTTTGAAAAACAGAAA
30349607 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
30349672 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
66 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* *
30349737 CGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGCGTG
131 CGCAATATGAGTTGATTTTTGAAAAACA-AAATTGAAAA--A-AAATTGAAAATACCTCAGCATG
* * *
30349802 TGAGC-CAAGGCTCAACTCACCTCTTGCAATATGAGCT-AATTTTTGATGAACATAAATTAAAAC
192 T---CTCAAGGCTCAACTCACCTCTCGCAATATGAGCTGAA-TTTTGA-AAACAGAAATTAAAAC
30349865 CACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAA
252 CACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAA
30349930 ATTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATA
317 ATTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATA
30349995 TGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
382 TGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
30350060 TCGCAATATGAGTCGATTTTTGAAAAACAGAAA
447 TCGCAATATGAGTCGATTTTTGAAAAACAGAAA
30350093 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
30350158 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
66 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
30350223 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAA
131 CGCAATATGAGTTGATTTTTGAAAAAC-AAAATTGAAA
30350261 TTACCTCAGC
Statistics
Matches: 600, Mismatches: 31, Indels: 29
0.91 0.05 0.04
Matches are distributed among these distances:
468 3 0.00
469 29 0.05
470 12 0.02
471 38 0.06
472 54 0.09
480 2 0.00
482 1 0.00
483 22 0.04
484 2 0.00
485 32 0.05
486 404 0.67
487 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (479 bp):
TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTGAAAAACAAAATTGAAAAAAAATTGAAAATACCTCAGCATGTCTC
AAGGCTCAACTCACCTCTCGCAATATGAGCTGAATTTTGAAAACAGAAATTAAAACCACCTCAGC
GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
CAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAAT
TTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTCGATTTTTGAAAAACAGAAA
Found at i:30349936 original size:14 final size:14
Alignment explanation
Indices: 30349917--30349951 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
30349907 GAGTCGATTT
30349917 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
30349931 TTGAAAACCAGAAA
1 TTGAAAAACAGAAA
30349945 TTGAAAA
1 TTGAAAA
30349952 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:30349969 original size:324 final size:324
Alignment explanation
Indices: 30349138--30350260 Score: 1759
Period size: 324 Copynumber: 3.5 Consensus size: 324
30349128 GAGTTAATTT
* * * *
30349138 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATA
1 TTGA-AAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATA
* * * * * * * ** * * *
30349200 TGAGTTGATTTTTGA-AAATAGAAACTGAAATTACCTCAGTGTCTCCCGAGGCTCAACTCACCTC
65 TGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
30349264 TCGCAATATGAGTTGATTTTTTTGAAAAAC----------AA--A-AAATTGAAAATACCTCAGC
130 TCGCAATATGAGTCGA--TTTTTGAAAAACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGC
* ** ** * * * * *
30349316 ATGT---CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGA-AAACAGAAATTGA
193 GTGTGAGC-CAAGGCTCAACTCACCTCTTGCAATATGAGCT-AATTTTTGATGAACATAAATTAA
**
30349376 AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACA
256 AACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACA
30349441 GAAA
321 GAAA
30349445 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
30349510 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
66 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
30349575 CGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGCGTG
131 CGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGCGTG
30349640 TGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCA
196 TGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCA
30349705 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAA
261 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAA
30349769 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
30349834 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
66 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
30349899 CGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGCGTG
131 CGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGCGTG
30349964 TGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCA
196 TGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCA
30350029 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAA
261 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAA
30350093 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
30350158 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
66 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* * *
30350223 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAA
131 CGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAA
30350261 TTACCTCAGC
Statistics
Matches: 762, Mismatches: 32, Indels: 27
0.93 0.04 0.03
Matches are distributed among these distances:
306 3 0.00
307 29 0.04
308 12 0.02
309 38 0.05
310 54 0.07
318 2 0.00
320 1 0.00
321 22 0.03
322 2 0.00
323 32 0.04
324 567 0.74
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (324 bp):
TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGCGTG
TGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCA
CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAA
Found at i:30350098 original size:14 final size:14
Alignment explanation
Indices: 30350079--30350113 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
30350069 GAGTCGATTT
30350079 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
30350093 TTGAAAACCAGAAA
1 TTGAAAAACAGAAA
30350107 TTGAAAA
1 TTGAAAA
30350114 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:30350442 original size:72 final size:73
Alignment explanation
Indices: 30350324--30350465 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 73
30350314 TTTGAAACAT
* * *
30350324 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
30350389 ATGAGTTG
66 ATGAGTTG
* *
30350397 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
30350461 ATGAG
66 ATGAG
30350466 CTGATTTTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 59 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (73 bp):
AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTG
Found at i:30350492 original size:160 final size:157
Alignment explanation
Indices: 30350190--30350479 Score: 415
Period size: 160 Copynumber: 1.8 Consensus size: 157
30350180 AATTAAAACC
** *
30350190 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAA
* ** * *
30350255 TTGAAATTACCTCAGCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAA
66 TTGAAAATACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA---TTTTTGAA
*
30350320 ACATAAATTAAAAAAACGAAAATTGAAAAT
128 AAATAAATTAAAAAAACGAAAATTGAAAAT
30350350 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAA-ACAAAA
*
30350413 ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA-TTTTGAA
65 ATTGAAAATACCTCAGCGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAA
30350477 AAA
128 AAA
30350480 GTAGAAATTA
Statistics
Matches: 117, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
157 9 0.08
158 3 0.03
159 26 0.22
160 48 0.41
161 31 0.26
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (157 bp):
ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAA
TTGAAAATACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAA
TAAATTAAAAAAACGAAAATTGAAAAT
Found at i:30350713 original size:72 final size:72
Alignment explanation
Indices: 30350623--30350834 Score: 307
Period size: 76 Copynumber: 2.9 Consensus size: 72
30350613 GTGATTTGAA
*
30350623 GCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
30350688 TCCCGAG
66 TCCCGAG
* *
30350695 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAAC-AGAAATTGAAATTACCTCAG
* **
30350760 CATGTCTTGAG
62 CGTGTCCCGAG
** *
30350771 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
30350835 AATTTTTTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
72 49 0.40
73 5 0.04
74 11 0.09
75 5 0.04
76 54 0.44
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCCGAG
Found at i:30350921 original size:112 final size:113
Alignment explanation
Indices: 30350725--30350946 Score: 401
Period size: 112 Copynumber: 2.0 Consensus size: 113
30350715 TATGAGTTGA
30350725 TTTTTTTGAAAAACAAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
1 TTTTTTTGAAAAACAAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
* *
30350790 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTAAT
66 ATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCAGCGTAAT
* *
30350838 TTTTTTTTAAAAAC-AGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
1 TTTTTTTGAAAAACAAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
30350902 ATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCAGCGT
66 ATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCAGCGT
30350947 GTCCTGAGGC
Statistics
Matches: 105, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
112 92 0.88
113 13 0.12
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (113 bp):
TTTTTTTGAAAAACAAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
ATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCAGCGTAAT
Found at i:30350958 original size:72 final size:73
Alignment explanation
Indices: 30350841--30352278 Score: 1215
Period size: 72 Copynumber: 19.2 Consensus size: 73
30350831 GCGTAATTTT
* * * * **
30350841 TTTTTAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
30350906 GAGTT-AA
66 GAGTTGAA
** * *
30350913 AATTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAGTAT
1 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
30350978 GAGTTGATT
66 GAGTTGA-A
* * * * * **
30350987 TTTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
30351052 TGAGTT-AA
65 TGAGTTGAA
** *
30351060 AATTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
30351125 GAGTTGAT
66 GAGTTGAA
* *
30351133 TTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
*
30351198 TGAGTTGAT
65 TGAGTTGAA
* * *
30351207 TTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAGTA
1 TTTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
*
30351272 TGAGTTGATT
65 TGAGTTGA-A
* * * * * * **
30351282 TTTTTGAAAGACAAAAATTAAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
30351347 TGAGTTGAA
65 TGAGTTGAA
* *
30351356 -TTTTGAAAACAGAAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
30351420 GAGTTG-A
66 GAGTTGAA
* * * *
30351427 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTCCCGAGGATCAACTCAGCTCTCGCAATAT
1 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
30351492 GAGTTGATT
66 GAGTTGA-A
*
30351501 TTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
30351566 GAGTTG-A
66 GAGTTGAA
* * *
30351573 TTTTTGAAAACAGAAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTTGCAATAT
1 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
30351638 GAGCTG-A
66 GAGTTGAA
* * * *** * ** * *
30351645 -TTTTGAAAA-AGTAAAAATTAAAAGGTTCAACC-CA-CCTCT-C-GCAATATGAGTTGA-TTCT
1 TTTTTGAAAACAG---AAATTGAAA--TT--ACCTCAGCGTGTCCTG-AGGCTCAACTCACCTCT
* * *
30351703 TGACAA-ACAGAAATTGAAA
58 CG-CAATA-TG-AGTTG-AA
* **** * *** * * * * ** ***
30351722 TTACCTCATCGTGTCCTGAGGCTCAACTCACCTC-TCGTTGTTTCTGCTTCCGAGTTTGTTTCTT
1 TT---T--TTGAAAACAGAAATTGAAATTACCTCAGCG-TG--TC--C-T--GAGGCT-CAAC-T
* *** * *
30351786 CACCAAGGCTCG-AGGCTCAAGTTGATTTTT
51 CACC---TCTCGCAATAT-GAGTTGA----A
* * * **
30351816 TGTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 T-TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
*
30351881 TAAGTTGAA
65 TGAGTTGAA
** *
30351890 -TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTTGCAATAT
1 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
30351954 GAGTTGATTT
66 GAGTTGA--A
* *
30351964 TTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
*
30352029 TGAGTTGATT
65 TGAGTTGA-A
* * * * **
30352039 TTTTTGAAAAACAAAAAATTGAAAATACCTCAGGGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
1 TTTTTG-AAAAC-AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
**
30352104 ACAAGTTGAA
64 ATGAGTTGAA
* ** *
30352114 -TTTTGAAAACAGAAATTGAAATCACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTTGCAATAT
1 TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
30352178 GAGTTGATTT
66 GAGTTGA--A
* *
30352188 TTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATA
1 TTTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
30352253 TGAGTTG-A
65 TGAGTTGAA
*
30352261 -TTTTGAAAAACAAAAATT
1 TTTTTG-AAAACAGAAATT
30352279 AAAAGGCTTA
Statistics
Matches: 1111, Mismatches: 187, Indels: 136
0.77 0.13 0.09
Matches are distributed among these distances:
70 2 0.00
71 10 0.01
72 430 0.39
73 44 0.04
74 225 0.20
75 145 0.13
76 174 0.16
77 7 0.01
78 14 0.01
79 4 0.00
81 9 0.01
82 1 0.00
83 6 0.01
84 2 0.00
85 1 0.00
87 3 0.00
88 3 0.00
89 2 0.00
90 16 0.01
91 7 0.01
92 1 0.00
93 3 0.00
94 1 0.00
95 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (73 bp):
TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGAA
Found at i:30351264 original size:148 final size:146
Alignment explanation
Indices: 30350839--30351648 Score: 1099
Period size: 146 Copynumber: 5.5 Consensus size: 146
30350829 CAGCGTAATT
* * * *
30350839 TTTTTTTAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAAT
1 TTTTTTT-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAAT
***
30350904 ATGAGTT-AAAATTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
65 ATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
* *
30350968 CTCACAGTATGAGTTGA
130 CTCGCAATATGAGTTGA
* * * * * *
30350985 TTTTTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
1 TTTTTTT-AAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAA
*** *
30351050 TATGAGTT-AAAATTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACC
64 TATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
30351114 TCTCGCAATATGAGTTGA
129 TCTCGCAATATGAGTTGA
* *
30351132 TTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTTTTTAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAAT
* *
30351197 ATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACC
65 ATGAGTTGATTTTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
*
30351262 TCTCGCAGTATGAGTTGA
129 TCTCGCAATATGAGTTGA
* * * * * * *
30351280 TTTTTTTGAAAGACAAAAATTAAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
1 TTTTTTT-AAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAA
* * *
30351345 TATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCACC
64 TATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
30351409 TCTCGCAATATGAGTTGA
129 TCTCGCAATATGAGTTGA
* * * * *
30351427 -TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTCCCGAGGATCAACTCAGCTCTCGCAATA
1 TTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATA
*
30351491 TGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
66 TGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
30351556 CTCGCAATATGAGTTGA
130 CTCGCAATATGAGTTGA
* * * * *
30351573 -TTTTTGAAAACAGAAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTTGCAATA
1 TTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATA
*
30351637 TGAGCTGATTTT
66 TGAGTTGATTTT
30351649 GAAAAAGTAA
Statistics
Matches: 596, Mismatches: 60, Indels: 17
0.89 0.09 0.03
Matches are distributed among these distances:
144 52 0.09
145 7 0.01
146 204 0.34
147 202 0.34
148 75 0.13
149 56 0.09
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (146 bp):
TTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATA
TGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
TCGCAATATGAGTTGA
Found at i:30351513 original size:367 final size:367
Alignment explanation
Indices: 30350839--30352264 Score: 1221
Period size: 367 Copynumber: 4.0 Consensus size: 367
30350829 CAGCGTAATT
* * **
30350839 TTTTTTTAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAAT
1 TTTTTTT-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
*** * * * * *
30350904 ATGAGTT-A-AAATTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
65 ATGAGTTGATTTTTTTGAAAACAAAAATTAAAAATACATCAACGTGTCCTGAGGCTCAACTCACC
* * **
30350967 TCTCACAGTATGAGTTGATTTTTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTCTTGAGGC
130 TCTCACAATATGAGTTGA-TATTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTCCCGAGGC
** *
30351032 TCAACTCATTTCTCGCAATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
194 TCAACTCACCTCTCGCAATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCAGCGTCTC
*
30351097 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCT
259 CCGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCT
30351162 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
324 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
30351206 TTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAGT
1 TTTTTTTAA-AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
* *
30351271 ATGAGTTGATTTTTTTGAAAGACAAAAATTAAAAATACATCAACGTGTCTTGAGGCTCAACTCAT
65 ATGAGTTGATTTTTTTGAAA-ACAAAAATTAAAAATACATCAACGTGTCCTGAGGCTCAACTCAC
* * * * * * *
30351336 TTCTCGCAATATGAGTTGA-ATTTTGAAA-ACAGAAATTGAAATTACCTTAGCGTGTCCCGAGGC
129 CTCTCACAATATGAGTTGATATTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTCCCGAGGC
* **
30351399 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTC
194 TCAACTCACCTCTCGCAATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCAGCGTCTC
* *
30351464 CCGAGGATCAACTCAGCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
259 CCGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCT
*
30351529 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
324 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * ** *
30351573 -TTTTTGAAAACAGAAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTTGCAATA
1 TTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
* * *
30351637 TGAGCTGA---TTTTG-----AAAAAGTAAAAATTA-A--AA-G-G---T-----TCAACCCACC
66 TGAGTTGATTTTTTTGAAAACAAAAATTAAAAA-TACATCAACGTGTCCTGAGGCTCAACTCACC
* * * * * * *
30351681 TCTCGCAATATGAGTTGAT-TCTTGACAA-ACAGAAATTGAAATTACCTCATCGTGTCCTGAGGC
130 TCTCACAATATGAGTTGATATTTTGA-AAGACAAAAATTAAAAATACCTCAACGTGTCCCGAGGC
* *** * ** * * * *
30351744 TCAACTCACCTCTCG---T-T--GTT----TCTG-CTTCCGAGTTTG---TTTCTTCACCAAGGC
194 TCAACTCACCTCTCGCAATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCAGC--GTC
** * * ** ***** **
30351795 T--CGAGG-----CTCAAGT-T-G-ATTTTTTGTT--TTGAAAACAGA-AATTG-AA----AA-T
257 TCCCGAGGATCAACTCACCTCTCGCAATATGAGTTGATT-TTTTTA-ACAACAGAAATTGAAATT
* ** ** *
30351841 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA
320 ACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * ** *
30351889 -ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTTGCAATA
1 TTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
* * * * * * *
30351953 TGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCAC
66 TGAGTTGA-TTTTTTTGAA-AACAAAAATTAAAAATACATCAACGTGTCCTGAGGCTCAACTCAC
* * * * ** **
30352018 CTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAAATTGAAAATACCTCAGGGTGTCTTGAG
129 CTCTCACAATATGAGTTGA-TATTTTGAAAGAC-AAAAATTAAAAATACCTCAACGTGTCCCGAG
** ** * * * *
30352083 GCTCAACTCATTTCTCGCAATACAAGTTGAATTTTGAAAACAGAAATTGAAATCACCTCAGCGTG
192 GCTCAACTCACCTCTCGCAATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCAGCGTC
* * ** *
30352148 TCCTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATT
257 TCCCGAGGATCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTAACAACAGAAATTGAAATT
* *
30352213 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
320 ACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
30352261 TTTT
1 TTTT
30352265 GAAAAACAAA
Statistics
Matches: 846, Mismatches: 139, Indels: 142
0.75 0.12 0.13
Matches are distributed among these distances:
316 110 0.13
317 2 0.00
320 4 0.00
321 4 0.00
322 3 0.00
323 7 0.01
324 1 0.00
325 3 0.00
326 13 0.02
328 1 0.00
329 1 0.00
330 1 0.00
331 12 0.01
333 3 0.00
334 6 0.01
335 3 0.00
338 27 0.03
339 6 0.01
340 7 0.01
341 42 0.05
342 1 0.00
344 31 0.04
345 49 0.06
347 3 0.00
349 1 0.00
351 3 0.00
352 7 0.01
353 3 0.00
354 2 0.00
355 10 0.01
356 12 0.01
357 2 0.00
360 5 0.01
361 1 0.00
362 6 0.01
363 6 0.01
365 59 0.07
366 13 0.02
367 260 0.31
368 9 0.01
369 7 0.01
370 53 0.06
371 2 0.00
372 43 0.05
373 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (367 bp):
TTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTGAAAACAAAAATTAAAAATACATCAACGTGTCCTGAGGCTCAACTCACCT
CTCACAATATGAGTTGATATTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTCCCGAGGCTC
AACTCACCTCTCGCAATATGAGTTAAAATTTGAAAACAGAAATTGAAATTACCTCAGCGTCTCCC
GAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCA
GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
Found at i:30351988 original size:76 final size:75
Alignment explanation
Indices: 30351813--30352264 Score: 603
Period size: 76 Copynumber: 6.1 Consensus size: 75
30351803 CAAGTTGATT
* * *
30351813 TTTTGTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
1 TTTT-TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCA
*
30351878 ATATAAGTTGA
65 ATATGAGTTGA
* *
30351889 ---ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTTGCAA
1 TTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAA
30351951 TATGAGTTGA
66 TATGAGTTGA
* * **
30351961 TTTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
1 TTTTTTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCA
30352026 ATATGAGTTGA
65 ATATGAGTTGA
* * * *
30352037 -TTTTTTTGAAAAACAAAAAATTGAAAATACCTCAGGGTGTCTTGAGGCTCAACTCATTTCTCGC
1 TTTTTTTTG-AAAAC-AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGC
**
30352101 AATACAAGTTGA
64 AATATGAGTTGA
* * *
30352113 ---ATTTTGAAAACAGAAATTGAAATCACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTTGCAA
1 TTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAA
30352175 TATGAGTTGA
66 TATGAGTTGA
* ** *
30352185 TTTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCA
1 TTTTTTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCA
30352250 ATATGAGTTGA
65 ATATGAGTTGA
30352261 TTTT
1 TTTT
30352265 GAAAAACAAA
Statistics
Matches: 329, Mismatches: 37, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
72 119 0.36
73 5 0.02
74 5 0.02
75 22 0.07
76 178 0.54
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (75 bp):
TTTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAA
TATGAGTTGA
Found at i:30351992 original size:148 final size:148
Alignment explanation
Indices: 30351805--30352264 Score: 595
Period size: 148 Copynumber: 3.1 Consensus size: 148
30351795 TCGAGGCTCA
* * *
30351805 AGTTGATTTTTTGTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAT
1 AGTTGA-TTTTT-TTTT-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAT
* *
30351870 TTCTCGCAATATAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
63 TTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
*
30351934 CAACTCATTTCTTGCAATATG
128 CAACTCATTTCTAGCAATATG
* **
30351955 AGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCT
1 AGTTGATTTTTTTTTAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTT
* * * *
30352020 CTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAAATTGAAAATACCTCAGGGTGTCTTGAGGC
65 CTCGCAATATGAGTTGA-TTTTTTG-AAAAC-AGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
* **
30352085 TCAACTCATTTCTCGCAATACA
127 TCAACTCATTTCTAGCAATATG
* * *
30352107 AGTTGA---ATTTTGAAAACAGAAATTGAAATCACCTCAGCGTGTCCTGAGGCTCAACTCATTTC
1 AGTTGATTTTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTC
* *
30352169 TTGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
66 TCGCAATATGAGTTGA--TTTTTTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
**
30352234 CAACTCACCTCTAGCAATATG
128 CAACTCATTTCTAGCAATATG
30352255 AGTTGATTTT
1 AGTTGATTTT
30352265 GAAAAACAAA
Statistics
Matches: 267, Mismatches: 33, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
147 2 0.01
148 174 0.65
149 21 0.08
150 11 0.04
151 5 0.02
152 54 0.20
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (148 bp):
AGTTGATTTTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTC
TCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
CTCATTTCTAGCAATATG
Found at i:30352430 original size:71 final size:70
Alignment explanation
Indices: 30352282--30352457 Score: 212
Period size: 71 Copynumber: 2.5 Consensus size: 70
30352272 AAAAATTAAA
* * * * * * **
30352282 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
30352346 CCCCG
66 CCCCG
*
30352351 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAAAAAAAACTAAAAATACCTCAACGT
* **
30352416 GTCTTG
65 GCCCCG
30352422 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
30352458 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.07
71 60 0.65
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:30359474 original size:50 final size:50
Alignment explanation
Indices: 30359415--30359517 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
30359405 GGAGGCGGTG
30359415 TTTGGTAGTAAGGGGTTTGAGGAGGGTAATAGAAATTCGGAGGTGGATAA
1 TTTGGTAGTAAGGGGTTTGAGGAGGGTAATAGAAATTCGGAGGTGGATAA
30359465 TTTGGTAGTAAGGGGTTTGAGGAGGGTAATAGAAATTCGGAGGTGGATAA
1 TTTGGTAGTAAGGGGTTTGAGGAGGGTAATAGAAATTCGGAGGTGGATAA
30359515 TTT
1 TTT
30359518 CGAGGTCGGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.29, C:0.02, G:0.39, T:0.30
Consensus pattern (50 bp):
TTTGGTAGTAAGGGGTTTGAGGAGGGTAATAGAAATTCGGAGGTGGATAA
Found at i:30363065 original size:26 final size:26
Alignment explanation
Indices: 30363001--30363064 Score: 105
Period size: 25 Copynumber: 2.5 Consensus size: 26
30362991 TTTTTTTGGG
30363001 GGGTTAGG-TTTTTCTTTTTCTTTTT
1 GGGTTAGGTTTTTTCTTTTTCTTTTT
30363026 GGGTTAGGTTTTTTCTTTTT-TTTTT
1 GGGTTAGGTTTTTTCTTTTTCTTTTT
*
30363051 TGGTTAGGTTTTTT
1 GGGTTAGGTTTTTT
30363065 TTTGGGGGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
25 26 0.70
26 11 0.30
ACGTcount: A:0.05, C:0.05, G:0.22, T:0.69
Consensus pattern (26 bp):
GGGTTAGGTTTTTTCTTTTTCTTTTT
Found at i:30365034 original size:61 final size:61
Alignment explanation
Indices: 30364961--30365125 Score: 312
Period size: 61 Copynumber: 2.7 Consensus size: 61
30364951 AGCCTATATT
*
30364961 TATATACTTGCATTAATTTACATTCTATAAATTTCAATATATATTTATTTAAAAAATTCAA
1 TATATACATGCATTAATTTACATTCTATAAATTTCAATATATATTTATTTAAAAAATTCAA
30365022 TATATACATGCATTAATTTACATTCTATAAATTTCAATATATATTTATTTAAAAAATTCAA
1 TATATACATGCATTAATTTACATTCTATAAATTTCAATATATATTTATTTAAAAAATTCAA
*
30365083 TATATACATGCATTAATTTACATTCTATAAAATTCAATATATA
1 TATATACATGCATTAATTTACATTCTATAAATTTCAATATATA
30365126 CATGCATTAA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 102 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (61 bp):
TATATACATGCATTAATTTACATTCTATAAATTTCAATATATATTTATTTAAAAAATTCAA
Found at i:30365115 original size:37 final size:37
Alignment explanation
Indices: 30365074--30365162 Score: 169
Period size: 37 Copynumber: 2.4 Consensus size: 37
30365064 ATTTATTTAA
30365074 AAAATTCAATATATACATGCATTAATTTACATTCTAT
1 AAAATTCAATATATACATGCATTAATTTACATTCTAT
30365111 AAAATTCAATATATACATGCATTAATTTACATTCTAT
1 AAAATTCAATATATACATGCATTAATTTACATTCTAT
*
30365148 AAATTTCAATATATA
1 AAAATTCAATATATA
30365163 TTTATTTAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (37 bp):
AAAATTCAATATATACATGCATTAATTTACATTCTAT
Found at i:30375506 original size:20 final size:21
Alignment explanation
Indices: 30375477--30375517 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
30375467 ACACCTTCAA
30375477 TTTTCCCTTTTTC-TTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
*
30375497 TTTTCTCTTTTTCTTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
30375518 CTTCCCCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCCCTTTTTCTTTCTTTC
Found at i:30375959 original size:19 final size:21
Alignment explanation
Indices: 30375913--30375959 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
30375903 TATAATAAAT
* *
30375913 TAATTTAATATCATTTATTAC
1 TAATTAAATATCATATATTAC
30375934 TAA-TAAATAT-ATATATTA-
1 TAATTAAATATCATATATTAC
30375952 TAATTAAA
1 TAATTAAA
30375960 ATCTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 6 0.26
21 3 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTAAATATCATATATTAC
Found at i:30376357 original size:128 final size:127
Alignment explanation
Indices: 30376129--30376384 Score: 329
Period size: 128 Copynumber: 2.0 Consensus size: 127
30376119 AAATTCACTT
* * *
30376129 AATTAAACTCTAATTAACCACTCAATTAACTTTTAAATATTTTTGATAAATATTTACGGATCCAT
1 AATTAAACTCTAATTAACCACTCAATTAACTTGTAAATATTTTTAATAAATATTTACGAATCCAT
* * * * *
30376194 TTTTTTAGTAACATAGACTTGAAAATACACTTTTTCGATAACCG-TAAAATTCGGGTTATTACA
66 TTTTATAG-AACAGAGACTCGAAAATACACTTTTTCAAT-ACCGATAAAATTCGGGTCATTACA
* *
30376257 AATTAAACTCTAATTAACCACTCATTTTACTTCGTAAATATTTTTAATAAATATTTACGAATCCA
1 AATTAAACTCTAATTAACCACTCAATTAACTT-GTAAATATTTTTAATAAATATTTACGAATCCA
* * *
30376322 TTTTTCATA-AACAGAGA-TCCGAAATTACATTTTTTCAATATCGATAAAATTCGGGTCATTACA
65 TTTTT-ATAGAACAGAGACT-CGAAAATACACTTTTTCAATACCGATAAAATTCGGGTCATTACA
30376385 TATTTTCACT
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
127 4 0.04
128 71 0.64
129 34 0.31
130 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (127 bp):
AATTAAACTCTAATTAACCACTCAATTAACTTGTAAATATTTTTAATAAATATTTACGAATCCAT
TTTTATAGAACAGAGACTCGAAAATACACTTTTTCAATACCGATAAAATTCGGGTCATTACA
Found at i:30377708 original size:30 final size:29
Alignment explanation
Indices: 30377624--30377766 Score: 128
Period size: 30 Copynumber: 4.9 Consensus size: 29
30377614 AAAAAATTAT
*
30377624 ATTTTGACCCCTAAACTTTTTGTAAATTAC
1 ATTTTGACCCCTAAACTTTTT-TAAATTTC
*
30377654 ATTTTAACCCCTAAACTTTTTTTAAATTTC
1 ATTTTGACCCCTAAAC-TTTTTTAAATTTC
* *
30377684 ATTTTGACCCCTAGACTTTATTTAAACTTC
1 ATTTTGACCCCTAAACTTT-TTTAAATTTC
* ** ** *
30377714 AATTCAACCCCTAAACTGTCCTTAAATTAC
1 ATTTTGACCCCTAAACT-TTTTTAAATTTC
* *
30377744 AATTTGA-CCTTAAA-TTTTTTAAA
1 ATTTTGACCCCTAAACTTTTTTAAA
30377767 AATTACACTT
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
27 6 0.07
28 1 0.01
29 9 0.10
30 70 0.76
31 6 0.07
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (29 bp):
ATTTTGACCCCTAAACTTTTTTAAATTTC
Found at i:30377739 original size:60 final size:60
Alignment explanation
Indices: 30377617--30377752 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 60
30377607 AAAATAAAAA
* * * * **
30377617 AAATTATATTTTGACCCCTAAACTTTTTGTAAATTACATTTTAACCCCTAAACTTTTTTT
1 AAATTACATTTTGACCCCTAAACTTTTTGTAAATTACAATTCAACCCCTAAACTGTCCTT
* *
30377677 AAATTTCATTTTGACCCCTAGACTTTATT-TAAACTT-CAATTCAACCCCTAAACTGTCCTT
1 AAATTACATTTTGACCCCTAAACTTT-TTGTAAA-TTACAATTCAACCCCTAAACTGTCCTT
*
30377737 AAATTACAATTTGACC
1 AAATTACATTTTGACC
30377753 TTAAATTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 60 0.94
61 4 0.06
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.41
Consensus pattern (60 bp):
AAATTACATTTTGACCCCTAAACTTTTTGTAAATTACAATTCAACCCCTAAACTGTCCTT
Found at i:30378807 original size:14 final size:15
Alignment explanation
Indices: 30378783--30378811 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30378773 TATATCATGT
30378783 ATATATATATTTTTA
1 ATATATATATTTTTA
30378798 ATAT-TATATTTTTA
1 ATATATATATTTTTA
30378812 TGTACCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATATATATTTTTA
Found at i:30378904 original size:26 final size:27
Alignment explanation
Indices: 30378846--30378906 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
30378836 TATCACATTA
30378846 TTCATACATTTTATTATATGAGTATAT
1 TTCATACATTTTATTATATGAGTATAT
*
30378873 AT-ATAC-TTTTA-TATAT-AGTATTATT
1 TTCATACATTTTATTATATGAGTA-TA-T
30378898 TTCATACAT
1 TTCATACAT
30378907 CATTATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.14
24 7 0.25
25 7 0.25
26 8 0.29
27 2 0.07
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.52
Consensus pattern (27 bp):
TTCATACATTTTATTATATGAGTATAT
Found at i:30378977 original size:22 final size:22
Alignment explanation
Indices: 30378950--30379017 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
30378940 TATTATCATT
30378950 TATTTTAATATTATTATGTATA
1 TATTTTAATATTATTATGTATA
* *
30378972 TATTTTAACATTACTA-GTTATA
1 TATTTTAATATTATTATG-TATA
* *
30378994 TATTTTTACTA-TCTTATGTATA
1 TA-TTTTAATATTATTATGTATA
30379016 TA
1 TA
30379018 CTTCAAACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 29 0.78
23 7 0.19
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (22 bp):
TATTTTAATATTATTATGTATA
Found at i:30384968 original size:4 final size:4
Alignment explanation
Indices: 30384961--30384989 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
30384951 CATTTATTTG
30384961 TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
30384990 GCATATCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:30392459 original size:44 final size:44
Alignment explanation
Indices: 30392391--30392508 Score: 175
Period size: 44 Copynumber: 2.7 Consensus size: 44
30392381 TTATGCCTAA
* *
30392391 AAAAAAGATCAAGGTGAAATCCCGAAAAGGGCGTCTTGGTTAAC
1 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAAC
30392435 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAAC
1 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAAC
* * *
30392479 ACAAAAGAT-TAGGATAAAAACCCGAAAAGG
1 AAAAAAGATCAAGG-TGAAAACCCGAAAAGG
30392509 CTTTCTAATG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
43 3 0.04
44 65 0.96
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (44 bp):
AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAAC
Found at i:30394564 original size:48 final size:48
Alignment explanation
Indices: 30394488--30394661 Score: 294
Period size: 48 Copynumber: 3.6 Consensus size: 48
30394478 CAAGATAAAT
30394488 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* ** *
30394536 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAT
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
30394584 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
30394632 ATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATATATATATGTGGTAAAGCCGAATGGCTA
30394662 NNNNNNNNNN
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:30394643 original size:96 final size:96
Alignment explanation
Indices: 30394486--30394661 Score: 343
Period size: 96 Copynumber: 1.8 Consensus size: 96
30394476 TACAAGATAA
30394486 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
30394551 AAAGCCGAATGGCTAACATGAAATATGTATG
66 AAAGCCGAATGGCTAACATGAAATATGTATG
*
30394582 ATATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
30394647 AAAGCCGAATGGCTA
66 AAAGCCGAATGGCTA
30394662 NNNNNNNNNN
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (96 bp):
ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAACATGAAATATGTATG
Found at i:30396574 original size:76 final size:75
Alignment explanation
Indices: 30396471--30396734 Score: 295
Period size: 76 Copynumber: 3.5 Consensus size: 75
30396461 TCTGTTCGTT
* * *
30396471 AAAATAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
30396536 GTCTTTCGAAA
66 GTCTTTC-AAA
* * * * * *
30396547 AAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGCTGAAGTAATTTT-AATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTC
* * *
30396611 TTTACTCATAAAA
65 TGT-CT-TTCAAA
**
30396624 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACACGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACACGCTGAGGTATTTTCAATT
30396688 TCTGT-TTTC--A
63 TCTGTCTTTCAAA
*
30396698 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
30396735 GGGCCACATG
Statistics
Matches: 158, Mismatches: 23, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
71 1 0.01
73 1 0.01
74 35 0.22
76 52 0.33
77 44 0.28
78 7 0.04
79 18 0.11
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
GTCTTTCAAA
Found at i:30396722 original size:74 final size:74
Alignment explanation
Indices: 30396471--30396769 Score: 274
Period size: 74 Copynumber: 4.0 Consensus size: 74
30396461 TCTGTTCGTT
* ** *
30396471 AAAATAAACTCATATTGCA-AGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATT
1 AAAATCAACTCATATTG-AGAGAGGTGAGTTGAGCCT-TGGCCACACGCTGAGGTATTTTCAATT
30396533 TCTGTCTTTCGAAA
64 TCTGT-TTTC--AA
* * * *
30396547 AAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTTAGG--ACACGCTGAAGTAATTTT-AATT
1 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTT-GGCCACACGCTGAGGT-ATTTTCAATT
30396609 T-T-TTTACTCATAAAA
64 TCTGTTT--TC----AA
*
30396624 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTTGGC-CACACGCTGAGGTATTTTCAATTT
30396689 CTGTTTTC-A
65 CTGTTTTCAA
* * **
30396698 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGCCACATGCCAAGGTATTTTCAATTT
1 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCT-TGGCCACACGCTGAGGTATTTTCAATTT
*
30396763 TTGTTTT
65 CTGTTTT
30396770 TAATTTCCGT
Statistics
Matches: 191, Mismatches: 18, Indels: 30
0.80 0.08 0.13
Matches are distributed among these distances:
73 2 0.01
74 64 0.34
75 6 0.03
76 49 0.26
77 43 0.23
78 5 0.03
79 18 0.09
80 1 0.01
81 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTTGGCCACACGCTGAGGTATTTTCAATTTC
TGTTTTCAA
Found at i:30397016 original size:77 final size:77
Alignment explanation
Indices: 30396802--30397079 Score: 285
Period size: 80 Copynumber: 3.5 Consensus size: 77
30396792 ATATATATAT
* *
30396802 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATT
30396867 TCTGTTTTTCAAAAAA
66 TCTGTTTTT----AAA
* * * *
30396883 AAAAT-AACTCATATTACGAGAGGTGAATTGAGGCTCGGGTCACATGCCGAGATATTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATT
30396947 TCTGTCTTTT-AA
66 TCTGT-TTTTAAA
* * * * *
30396959 AAAATCAACTCATATTGCGAGAGTTGAGTTAAGCCTCAGGTCACACGCTGAGGTA-TTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAA--
* *
30397023 TTTTTTGCTTTTT-CA
64 -TTTCTG-TTTTTAAA
* * * * *
30397038 AAGATCAACTCATAATCCGAGAGGTGAGTTGAACTTCGGGTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
30397080 GCATCCCAAC
Statistics
Matches: 166, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
76 14 0.08
77 40 0.24
79 44 0.27
80 59 0.36
81 9 0.05
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (77 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATT
TCTGTTTTTAAA
Found at i:30397336 original size:30 final size:29
Alignment explanation
Indices: 30397296--30397433 Score: 93
Period size: 30 Copynumber: 4.6 Consensus size: 29
30397286 AAAAATAAAA
*
30397296 AAATTATATTTTAACCCTTAAACTTTT-TGT
1 AAATT-TATTTTGACCCTTAAACTTTTCT-T
*
30397326 AAATTGTATTTTGA-CCTCTAACCTTTTCTT
1 AAATT-TATTTTGACCCT-TAAACTTTTCTT
*
30397356 AAATTTCATTTTGACCCCTAAACTTTAT-TT
1 AAATTT-ATTTTGACCCTTAAACTTT-TCTT
* * * * * *
30397386 AAACTTCACTTCGACCCCTAAAATTTCCTT
1 AAA-TTTATTTTGACCCTTAAACTTTTCTT
*
30397416 AAATTATAATTTGACCCT
1 AAATT-TATTTTGACCCT
30397434 AAATATTTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
29 6 0.07
30 74 0.86
31 6 0.07
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.44
Consensus pattern (29 bp):
AAATTTATTTTGACCCTTAAACTTTTCTT
Found at i:30398700 original size:27 final size:25
Alignment explanation
Indices: 30398635--30398705 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 25
30398625 TTATCATTTA
*
30398635 TTTT-AATA-TTATTATGTATATAT
1 TTTTCAATATTTATTATGTATACAT
* *
30398658 TTTTC-ATATATGTTATGTACATACAT
1 TTTTCAATATTTATTATGT--ATACAT
*
30398684 TTTTCAATATTTATTATATATA
1 TTTTCAATATTTATTATGTATA
30398706 TATTATGTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
23 7 0.19
24 7 0.19
25 3 0.08
26 10 0.27
27 10 0.27
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTTCAATATTTATTATGTATACAT
Found at i:30414000 original size:3 final size:3
Alignment explanation
Indices: 30413977--30414087 Score: 82
Period size: 3 Copynumber: 37.7 Consensus size: 3
30413967 AAATATATAT
* * * * * * * *
30413977 ATA ATA GTA ATA AAA AAA ATA ATA GTA ATA ATA ATT ACA AAA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
30414025 ATA A-A GTA A-A ATG ATA ATA ATA CTA ATG TTA ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30414071 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
30414088 TGGACATAAA
Statistics
Matches: 81, Mismatches: 25, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
2 3 0.04
3 78 0.96
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:30418168 original size:27 final size:25
Alignment explanation
Indices: 30418128--30418198 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
30418118 ATTCTAAATT
*
30418128 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATAT-TTAATA
* *
30418153 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
*
30418178 CTATATTATTTATATATATTT
1 CTATATTATGTATATATATTT
30418199 TTTTCTACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 2 0.05
25 37 0.95
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:30418266 original size:25 final size:24
Alignment explanation
Indices: 30418216--30418278 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
30418206 CATGTTATCT
*
30418216 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
30418242 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
30418267 TACATATTTTTT
1 TATGTATTTTTT
30418279 TTATATCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:30418316 original size:79 final size:78
Alignment explanation
Indices: 30418142--30418316 Score: 185
Period size: 79 Copynumber: 2.2 Consensus size: 78
30418132 ATTACGTATA
* * * * *
30418142 TATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATATATTTTTTTCTAC
1 TATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATATTTTTTTATAC
*
30418207 ATGTTATCTTATG
66 ATGTTATCATATG
* * * * *
30418220 TATATATTTTAATTATATTATGTATGTATTTTTTACACTATATTATGTACATAT-TTTTTTTATA
1 TATATATTAT-ACTATATTATGTATATATCTTTAACACTATATTATGTACATATATTTTTTTATA
30418284 TCTAT-TTCATACATATG
65 -C-ATGTT-AT-CATATG
30418301 TATATATTATA-TATAT
1 TATATATTATACTATAT
30418317 CTTAACATTA
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
78 18 0.22
79 43 0.54
80 5 0.06
81 14 0.17
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (78 bp):
TATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATATTTTTTTATAC
ATGTTATCATATG
Found at i:30418368 original size:25 final size:24
Alignment explanation
Indices: 30418340--30418395 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
30418330 GTTATATTTT
*
30418340 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
30418365 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
30418388 CACTATTA
1 CACTATTA
30418396 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:30419519 original size:17 final size:15
Alignment explanation
Indices: 30419489--30419528 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
30419479 ATTAAAAATA
30419489 TTAAATAAATGAATT
1 TTAAATAAATGAATT
30419504 TTAAATTAATATGAATT
1 TTAAA-TAA-ATGAATT
30419521 TT-AATAAA
1 TTAAATAAA
30419529 AAAATACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 8 0.35
16 5 0.22
17 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
TTAAATAAATGAATT
Found at i:30429457 original size:19 final size:18
Alignment explanation
Indices: 30429404--30429457 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
30429394 TAAACTTATT
30429404 AAAAAACATTATATTTTTTA
1 AAAAAAC-TTATA-TTTTTA
** *
30429424 AATTAATTTATATTTTTA
1 AAAAAACTTATATTTTTA
30429442 AAAAAACTTATCATTT
1 AAAAAACTTAT-ATTT
30429458 ATGTATAACA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 14 0.52
19 9 0.33
20 4 0.15
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAAAACTTATATTTTTA
Found at i:30431760 original size:9 final size:9
Alignment explanation
Indices: 30431746--30431824 Score: 65
Period size: 9 Copynumber: 9.0 Consensus size: 9
30431736 TGAAGGAATG
30431746 ATTTATTTT
1 ATTTATTTT
30431755 ATTTATTTT
1 ATTTATTTT
* * *
30431764 GTTGATGTT
1 ATTTATTTT
* *
30431773 AATAATTTAT
1 ATTTATTT-T
30431783 ATTTATTTT
1 ATTTATTTT
* *
30431792 -GTT-CTTT
1 ATTTATTTT
30431799 -TTTATTTT
1 ATTTATTTT
30431807 ATTTATTTT
1 ATTTATTTT
30431816 ATTTATTTT
1 ATTTATTTT
30431825 TTTTCTTTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
7 5 0.09
8 5 0.09
9 37 0.69
10 7 0.13
ACGTcount: A:0.22, C:0.01, G:0.05, T:0.72
Consensus pattern (9 bp):
ATTTATTTT
Found at i:30431833 original size:9 final size:9
Alignment explanation
Indices: 30431782--30431835 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
30431772 TAATAATTTA
*
30431782 TATTTATTT
1 TATTTTTTT
*
30431791 TGTTCTTTTT
1 TATT-TTTTT
*
30431801 TATTTTATT
1 TATTTTTTT
*
30431810 TATTTTATT
1 TATTTTTTT
30431819 TATTTTTTT
1 TATTTTTTT
*
30431828 TCTTTTTT
1 TATTTTTT
30431836 CTTTCTTTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
9 31 0.82
10 7 0.18
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (9 bp):
TATTTTTTT
Found at i:30432634 original size:22 final size:22
Alignment explanation
Indices: 30432606--30432676 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
30432596 TGTGTCTTAG
* *
30432606 TCACACGGTCGTGTGCCTCTCT
1 TCACACGGCCGTGTGCCTCTCA
* * * *
30432628 TCACACGACCGTATTCCTCT-G
1 TCACACGGCCGTGTGCCTCTCA
*
30432649 TCACACGGCCGTGTGCCCCTCA
1 TCACACGGCCGTGTGCCTCTCA
30432671 TCACAC
1 TCACAC
30432677 AGGCTTTTGA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 16 0.42
22 22 0.58
ACGTcount: A:0.15, C:0.41, G:0.18, T:0.25
Consensus pattern (22 bp):
TCACACGGCCGTGTGCCTCTCA
Found at i:30437580 original size:14 final size:14
Alignment explanation
Indices: 30437561--30437587 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30437551 ACAATAAATC
30437561 ATAATTCAAAATAT
1 ATAATTCAAAATAT
30437575 ATAATTCAAAATA
1 ATAATTCAAAATA
30437588 GTCCTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTCAAAATAT
Found at i:30437659 original size:37 final size:37
Alignment explanation
Indices: 30437618--30437694 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
30437608 TTTATACTTG
30437618 TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
1 TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
*
30437655 TTATCAACTAATGTTTATTAGTAAAATTACATTTACA
1 TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
30437692 TTA
1 TTA
30437695 AAAATCTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (37 bp):
TTATCAACTAATGTTTATTAGTAAAATTACAATTACA
Found at i:30442218 original size:20 final size:20
Alignment explanation
Indices: 30442195--30442233 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30442185 TGTGATACCT
*
30442195 ACTAAATGAGTATGATCTGC
1 ACTAAATGAATATGATCTGC
**
30442215 ACTATCTGAATATGATCTG
1 ACTAAATGAATATGATCTG
30442234 AATCTGTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (20 bp):
ACTAAATGAATATGATCTGC
Found at i:30443223 original size:19 final size:20
Alignment explanation
Indices: 30443199--30443237 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30443189 AATTTAAGAG
30443199 ATTTT-AATAAAGATGAGAA
1 ATTTTAAATAAAGATGAGAA
*
30443218 ATTTTAGAATAAGGATGAGA
1 ATTTTA-AATAAAGATGAGA
30443238 GTTGTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (20 bp):
ATTTTAAATAAAGATGAGAA
Found at i:30444823 original size:25 final size:25
Alignment explanation
Indices: 30444781--30444835 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
30444771 TATTAAATAT
*
30444781 TAAAATAATAATATAAATATTCTTTC
1 TAAAATAATAATAAAAATATT-TTTC
30444807 TAAAA-AATAATAAAAATATTTTTC
1 TAAAATAATAATAAAAATATTTTTC
30444831 -AAAAT
1 TAAAAT
30444836 TTTTTAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 4 0.15
24 4 0.15
25 14 0.52
26 5 0.19
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAATAATAATAAAAATATTTTTC
Found at i:30446678 original size:25 final size:25
Alignment explanation
Indices: 30446649--30446705 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
30446639 CACTAATCAA
30446649 AGTTTAAGT-GTGAAACTAAAAACAG
1 AGTTTAAGTAG-GAAACTAAAAACAG
*
30446674 AGTTTAAGTAGGAAACTAAAAATAG
1 AGTTTAAGTAGGAAACTAAAAACAG
30446699 AGTTTAA
1 AGTTTAA
30446706 CTGGGAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.26
Consensus pattern (25 bp):
AGTTTAAGTAGGAAACTAAAAACAG
Found at i:30451843 original size:48 final size:46
Alignment explanation
Indices: 30451776--30452003 Score: 239
Period size: 48 Copynumber: 4.9 Consensus size: 46
30451766 CGTTCGGGTT
* *
30451776 AGATGTGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCTTAG
1 AGATGTGTGCCAGTGTAAGA-CATGTATGGGACATGGCATCGGC-TAG
* *
30451824 AGATGTGTGCCAGTGTAAGATCATGTTTGGGACATGGCATCGACGTAG
1 AGATGTGTGCCAGTGTAAGA-CATGTATGGGACATGGCATCGGC-TAG
* * * **
30451872 AGATGAGTGCCAGTGTAAGACATATCTGGGACAT-GCATCGGCCTCT
1 AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATCGG-CTAG
** *
30451918 AGATGTAAGCCAGTGTAAGACATGTATGGGACA-AGCATCGGCTACG
1 AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATCGGCTA-G
* * *
30451964 AGACGTGT--CAGTGTAAGACAAGTATGGGACATGACATCGG
1 AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATCGG
30452004 TAACTTGGCC
Statistics
Matches: 152, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
44 22 0.14
45 8 0.05
46 47 0.31
47 13 0.09
48 62 0.41
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
AGATGTGTGCCAGTGTAAGACATGTATGGGACATGGCATCGGCTAG
Found at i:30454139 original size:3 final size:3
Alignment explanation
Indices: 30454131--30454174 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
30454121 TATATACACG
30454131 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
30454175 GATTGTACAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:30454997 original size:3 final size:3
Alignment explanation
Indices: 30454989--30455028 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
30454979 TGGTGTAGAG
30454989 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
30455029 GAAATTCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:30459670 original size:32 final size:32
Alignment explanation
Indices: 30459634--30459694 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
30459624 AAACTCGAAT
* *
30459634 TTCGAGTTAA-TCAAATCAAGTCGTTTGAATTA
1 TTCGAGTAAACTCAAAT-AAGTAGTTTGAATTA
30459666 TTCGAGTAAACTCAAATAAGTAGTTTGAA
1 TTCGAGTAAACTCAAATAAGTAGTTTGAA
30459695 CCGAGTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (32 bp):
TTCGAGTAAACTCAAATAAGTAGTTTGAATTA
Found at i:30459823 original size:18 final size:19
Alignment explanation
Indices: 30459788--30459825 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30459778 CAAAAATTAA
30459788 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
30459807 AAAAATTCCAAAT-TTTAT
1 AAAAATTCAAAATATTTAT
30459825 A
1 A
30459826 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:30465216 original size:20 final size:21
Alignment explanation
Indices: 30465171--30465222 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
30465161 ATGTGAAAAA
*
30465171 TAAATAAATAATTCATGAAGT
1 TAAATAAATAACTCATGAAGT
* *
30465192 TAAATAAATAACTC-TTAATT
1 TAAATAAATAACTCATGAAGT
30465212 TAAATAAATAA
1 TAAATAAATAA
30465223 TTATTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (21 bp):
TAAATAAATAACTCATGAAGT
Found at i:30466286 original size:18 final size:17
Alignment explanation
Indices: 30466254--30466289 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
30466244 TGTTTTAAAA
30466254 AATTAAATAAAAATATT
1 AATTAAATAAAAATATT
*
30466271 AATTAATATAATAATATT
1 AATTAA-ATAAAAATATT
30466289 A
1 A
30466290 GGCTTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTAAATAAAAATATT
Found at i:30466803 original size:13 final size:11
Alignment explanation
Indices: 30466777--30466814 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
30466767 GATATTTCAG
30466777 TAACATTTTTC
1 TAACATTTTTC
30466788 TAACATTTATTCC
1 TAACATTT-TT-C
30466801 TAACATTTTTC
1 TAACATTTTTC
30466812 TAA
1 TAA
30466815 AATATAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 12 0.48
12 4 0.16
13 9 0.36
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (11 bp):
TAACATTTTTC
Found at i:30467020 original size:20 final size:19
Alignment explanation
Indices: 30466987--30467047 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
30466977 TTATCTCAAT
30466987 TAATCTAAAATAATATGAGA
1 TAATC-AAAATAATATGAGA
*
30467007 TAATCAAAATTAATA-GAGTT
1 TAATCAAAA-TAATATGAG-A
30467027 TAATC--AATAATATGAGA
1 TAATCAAAATAATATGAGA
30467044 TAAT
1 TAAT
30467048 AATAATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 9 0.25
18 5 0.14
19 7 0.19
20 15 0.42
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (19 bp):
TAATCAAAATAATATGAGA
Found at i:30467050 original size:20 final size:19
Alignment explanation
Indices: 30466995--30467053 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
30466985 ATTAATCTAA
30466995 AATAATATGAGATAATCAA-
1 AATAATATGAGATAAT-AAT
*
30467014 AATTAATA-GAG-T-TTAAT
1 AA-TAATATGAGATAATAAT
30467031 CAATAATATGAGATAATAAT
1 -AATAATATGAGATAATAAT
30467051 AAT
1 AAT
30467054 TATTAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 2 0.06
17 6 0.19
18 6 0.19
19 9 0.28
20 9 0.28
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.32
Consensus pattern (19 bp):
AATAATATGAGATAATAAT
Found at i:30475044 original size:253 final size:253
Alignment explanation
Indices: 30474596--30475101 Score: 1012
Period size: 253 Copynumber: 2.0 Consensus size: 253
30474586 ACTACCCAAA
30474596 TATGGTAGTTTTCATTATTAAAAACTGATGGTGGAGAAGGTGTAAAGCTAGTAAAAGATATTATA
1 TATGGTAGTTTTCATTATTAAAAACTGATGGTGGAGAAGGTGTAAAGCTAGTAAAAGATATTATA
30474661 GAAAAAATAACAAGAAACCAGAGGTTGTTCTTTCTTTTTTAACAACTCAAAGGCCTTCAAAGACG
66 GAAAAAATAACAAGAAACCAGAGGTTGTTCTTTCTTTTTTAACAACTCAAAGGCCTTCAAAGACG
30474726 GCTGGCTCTAGATACCAATTGTTGGTTCTTTTTTCTAAGAAAGAAAATATGGATAGATCAAACTT
131 GCTGGCTCTAGATACCAATTGTTGGTTCTTTTTTCTAAGAAAGAAAATATGGATAGATCAAACTT
30474791 TAGCAATCAAAATTGACTTGCTGTTCTTTTTTTTCCATTTTAATGCATTTGTTTACAT
196 TAGCAATCAAAATTGACTTGCTGTTCTTTTTTTTCCATTTTAATGCATTTGTTTACAT
30474849 TATGGTAGTTTTCATTATTAAAAACTGATGGTGGAGAAGGTGTAAAGCTAGTAAAAGATATTATA
1 TATGGTAGTTTTCATTATTAAAAACTGATGGTGGAGAAGGTGTAAAGCTAGTAAAAGATATTATA
30474914 GAAAAAATAACAAGAAACCAGAGGTTGTTCTTTCTTTTTTAACAACTCAAAGGCCTTCAAAGACG
66 GAAAAAATAACAAGAAACCAGAGGTTGTTCTTTCTTTTTTAACAACTCAAAGGCCTTCAAAGACG
30474979 GCTGGCTCTAGATACCAATTGTTGGTTCTTTTTTCTAAGAAAGAAAATATGGATAGATCAAACTT
131 GCTGGCTCTAGATACCAATTGTTGGTTCTTTTTTCTAAGAAAGAAAATATGGATAGATCAAACTT
30475044 TAGCAATCAAAATTGACTTGCTGTTCTTTTTTTTCCATTTTAATGCATTTGTTTACAT
196 TAGCAATCAAAATTGACTTGCTGTTCTTTTTTTTCCATTTTAATGCATTTGTTTACAT
30475102 ACAAATATAC
Statistics
Matches: 253, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
253 253 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (253 bp):
TATGGTAGTTTTCATTATTAAAAACTGATGGTGGAGAAGGTGTAAAGCTAGTAAAAGATATTATA
GAAAAAATAACAAGAAACCAGAGGTTGTTCTTTCTTTTTTAACAACTCAAAGGCCTTCAAAGACG
GCTGGCTCTAGATACCAATTGTTGGTTCTTTTTTCTAAGAAAGAAAATATGGATAGATCAAACTT
TAGCAATCAAAATTGACTTGCTGTTCTTTTTTTTCCATTTTAATGCATTTGTTTACAT
Found at i:30484883 original size:16 final size:16
Alignment explanation
Indices: 30484862--30484895 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30484852 ATCTTTCAAC
30484862 TAAGGTCTAACTTATT
1 TAAGGTCTAACTTATT
30484878 TAAGGTCTAACTTATT
1 TAAGGTCTAACTTATT
30484894 TA
1 TA
30484896 GGCGTATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
TAAGGTCTAACTTATT
Found at i:30489386 original size:3 final size:3
Alignment explanation
Indices: 30489378--30489707 Score: 153
Period size: 3 Copynumber: 110.0 Consensus size: 3
30489368 AAAAGAAAAT
* * * *
30489378 ATA ATA ATA ATA ATA ATG ATG ATA A-A GATA GTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * * * * *
30489423 ATA AAA ATG ATT GTA ATA ATA ATG GTA ATA ATA ATAA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * *
30489469 ATA ATA CATTA ATA AGA ATA ATG ATA GTA A-A TTA ATA ATA ACA ATA
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
30489515 ATA A-A A-A ATA ATA GAAA ATA ATA ATA ATA A-A CTA AGGA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
* * * * * * *
30489559 AAA ATA CTA ACA ATA AT- ATAA ATA ATA ATA AAA ACA ACA AGA GA-A
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * **
30489604 ATA GTA ACA ATA ATA GTA ATA AAA AGG ATA A-A AGTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* *
30489649 ATA ACA ATA ATA ATA A-A ATTA ATA ATA A-A ATA A-A ATTA ATCA ATT
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA A-TA AT-A ATA
*
30489694 TTA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA
30489708 GCAAATTAAC
Statistics
Matches: 243, Mismatches: 61, Indels: 46
0.69 0.17 0.13
Matches are distributed among these distances:
2 20 0.08
3 199 0.82
4 22 0.09
5 2 0.01
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:30489467 original size:10 final size:10
Alignment explanation
Indices: 30489449--30489590 Score: 82
Period size: 10 Copynumber: 14.2 Consensus size: 10
30489439 TAATAATGGT
30489449 AATAATAATA
1 AATAATAATA
*
30489459 AATAGTAAT-
1 AATAATAATA
*
30489468 AATAATACATT
1 AATAATA-ATA
*
30489479 AATAAGAAT-
1 AATAATAATA
* *
30489488 AATGATAGTA
1 AATAATAATA
30489498 AATTAATAATAA
1 AA-TAATAAT-A
*
30489510 CAATAATAAAA
1 -AATAATAATA
30489521 AATAATAGA-A
1 AATAATA-ATA
30489531 AATAATAAT-
1 AATAATAATA
**
30489540 AATAAACTAAGG
1 AAT-AA-TAATA
30489552 AATAATAA-A
1 AATAATAATA
* *
30489561 AATACTAA-C
1 AATAATAATA
30489570 AATAAT-ATA
1 AATAATAATA
30489579 AATAATAATA
1 AATAATAATA
30489589 AA
1 AA
30489591 AACAACAAGA
Statistics
Matches: 104, Mismatches: 15, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
8 1 0.01
9 34 0.33
10 39 0.38
11 18 0.17
12 10 0.10
13 2 0.02
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.27
Consensus pattern (10 bp):
AATAATAATA
Found at i:30489523 original size:23 final size:23
Alignment explanation
Indices: 30489454--30489589 Score: 94
Period size: 23 Copynumber: 5.8 Consensus size: 23
30489444 ATGGTAATAA
* *
30489454 TAATAAATAGTAATAATAATACAT
1 TAATAAA-AATAATAATAATAAAT
* * *
30489478 TAATAAGAATAATGATAGTAAAT
1 TAATAAAAATAATAATAATAAAT
* * *
30489501 TAATAATAACAATAATAA-AAAA
1 TAATAAAAATAATAATAATAAAT
*
30489523 TAATAGAAAATAATAATAATAAAC
1 TAATA-AAAATAATAATAATAAAT
* * * * *
30489547 TAAGGAATAATAAAAATACTAACAA
1 TAA-TAAAAATAATAATAATAA-AT
*
30489572 TAATATAAATAATAATAA
1 TAATAAAAATAATAATAA
30489590 AAACAACAAG
Statistics
Matches: 85, Mismatches: 23, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
22 8 0.09
23 37 0.44
24 35 0.41
25 5 0.06
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (23 bp):
TAATAAAAATAATAATAATAAAT
Found at i:30490402 original size:17 final size:16
Alignment explanation
Indices: 30490382--30490422 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
30490372 AGATTTGAAA
30490382 CGAAAACAAAAAGAGAT
1 CGAAAA-AAAAAGAGAT
30490399 CGAAAAAAAAAGAGA-
1 CGAAAAAAAAAGAGAT
*
30490414 AGAAAAAAA
1 CGAAAAAAA
30490423 CCAAAATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.35
16 9 0.39
17 6 0.26
ACGTcount: A:0.73, C:0.07, G:0.17, T:0.02
Consensus pattern (16 bp):
CGAAAAAAAAAGAGAT
Found at i:30496072 original size:3 final size:3
Alignment explanation
Indices: 30496064--30496161 Score: 187
Period size: 3 Copynumber: 32.7 Consensus size: 3
30496054 TTTGGTAACC
*
30496064 TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
30496112 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
30496160 TC
1 TC
30496162 AGTAGTGTAG
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:30507004 original size:25 final size:25
Alignment explanation
Indices: 30506941--30507016 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 25
30506931 ATGTTAACAA
30506941 AATATTCAAAAT-ATATTTTAT-ATT
1 AATATT-AAAATAATATTTTATAATT
*
30506965 AATATTAATATTAATATTTTATAATT
1 AATATTAA-AATAATATTTTATAATT
*
30506991 AA-ATTTAAAATAATATATTTGTAATT
1 AATA-TTAAAATAATAT-TTTATAATT
30507017 TTTTTATTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
23 2 0.05
24 8 0.18
25 17 0.39
26 17 0.39
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (25 bp):
AATATTAAAATAATATTTTATAATT
Found at i:30507876 original size:20 final size:21
Alignment explanation
Indices: 30507848--30507894 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
30507838 AAAGCCATAT
*
30507848 GAAACAGAAAGAA-AAAAAGA
1 GAAAGAGAAAGAAGAAAAAGA
**
30507868 GAAAGAGAAAGAAGAAAGGGA
1 GAAAGAGAAAGAAGAAAAAGA
30507889 GAAAGA
1 GAAAGA
30507895 AGGTTCAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (21 bp):
GAAAGAGAAAGAAGAAAAAGA
Done.