Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 149 of 190
Found at i:43744533 original size:3 final size:3
Alignment explanation
Indices: 43744525--43744549 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43744515 TTTGTTTGTG
43744525 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
43744550 CGTGTACTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:43745650 original size:9 final size:9
Alignment explanation
Indices: 43745636--43745664 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
43745626 TTATAAAAAA
43745636 TTTTATTTT
1 TTTTATTTT
43745645 TTTTA-TTT
1 TTTTATTTT
43745653 TTTTATTTT
1 TTTTATTTT
43745662 TTT
1 TTT
43745665 AGCTCTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTATTTT
Found at i:43745653 original size:8 final size:8
Alignment explanation
Indices: 43745636--43745665 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
43745626 TTATAAAAAA
43745636 TTTTATTTT
1 TTTTA-TTT
43745645 TTTTATTT
1 TTTTATTT
43745653 TTTTATTT
1 TTTTATTT
43745661 TTTTA
1 TTTTA
43745666 GCTCTTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTATTT
Found at i:43748928 original size:2 final size:2
Alignment explanation
Indices: 43748889--43748918 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43748879 TGACAAGGCC
43748889 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43748919 CAAAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43749686 original size:25 final size:25
Alignment explanation
Indices: 43749582--43749725 Score: 109
Period size: 25 Copynumber: 5.8 Consensus size: 25
43749572 CATGTAACGA
* * *
43749582 GAAGCTCTTGCGAGCCAATTATCGG
1 GAAGCTCATGAGAGCCAAATATCGG
* *
43749607 GAAGCTCAT-ACGAACCATAA-A-CGA
1 GAAGCTCATGA-GAGCCA-AATATCGG
* * *
43749631 GAAGCTCAAGAAAGCCTTAAT-T-GG
1 GAAGCTCATGAGAGCC-AAATATCGG
43749655 GAAGCTCATGAGAGCCAAATATCGG
1 GAAGCTCATGAGAGCCAAATATCGG
* *
43749680 GAAGCTCATGAGAGCCATATAACGG
1 GAAGCTCATGAGAGCCAAATATCGG
* * *
43749705 GATGCTCATAAGAGCTAAATA
1 GAAGCTCATGAGAGCCAAATA
43749726 ACAGAACGCT
Statistics
Matches: 92, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
23 3 0.03
24 31 0.34
25 57 0.62
26 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCAAATATCGG
Found at i:43751303 original size:51 final size:51
Alignment explanation
Indices: 43751227--43751332 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
43751217 AAAACCTATT
43751227 TTAAAACCTTTTAGCAATCAATACCAAATCGTAATTCAAACATTTATAATC
1 TTAAAACCTTTTAGCAATCAATACCAAATCGTAATTCAAACATTTATAATC
43751278 TTAAAACCTTTTAGCAATCAATACCAAATCGTAATTCAAACATTTATAATC
1 TTAAAACCTTTTAGCAATCAATACCAAATCGTAATTCAAACATTTATAATC
43751329 TTAA
1 TTAA
43751333 CATTATGACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (51 bp):
TTAAAACCTTTTAGCAATCAATACCAAATCGTAATTCAAACATTTATAATC
Found at i:43753320 original size:26 final size:26
Alignment explanation
Indices: 43753291--43753341 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
43753281 CGGAGAGTCA
**
43753291 TTAATCAGGAAGCTCACAAAGAGCCT
1 TTAATCAGGAAAATCACAAAGAGCCT
*
43753317 TTAATCAGGAAAATCACGAAGAGCC
1 TTAATCAGGAAAATCACAAAGAGCC
43753342 ATATATCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (26 bp):
TTAATCAGGAAAATCACAAAGAGCCT
Found at i:43760867 original size:17 final size:17
Alignment explanation
Indices: 43760847--43760879 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
43760837 TATATTTTTA
43760847 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
43760864 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
43760880 TATTAAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:43763473 original size:18 final size:19
Alignment explanation
Indices: 43763432--43763473 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
43763422 CTACGTTCTA
*
43763432 CTCAATTTGAACTTTCTTT
1 CTCAATTTGAACTATCTTT
*
43763451 C-CAATTT-ATCTATCTTT
1 CTCAATTTGAACTATCTTT
43763468 CTCAAT
1 CTCAAT
43763474 AATCATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.45
18 10 0.50
19 1 0.05
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (19 bp):
CTCAATTTGAACTATCTTT
Found at i:43764572 original size:23 final size:23
Alignment explanation
Indices: 43764528--43764648 Score: 124
Period size: 23 Copynumber: 5.3 Consensus size: 23
43764518 ATAAGTGCCA
*
43764528 CACTAATAT-TAGCCG-AAGCTAC
1 CACTGATATGTAGCCGTAA-CTAC
* *
43764550 CCCTGATATGTAGCTGTAACTAC
1 CACTGATATGTAGCCGTAACTAC
*
43764573 CACTGAAATGTAGCCG-AAGCTAC
1 CACTGATATGTAGCCGTAA-CTAC
*
43764596 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGTAACTAC
* *
43764619 CATTGAAATGTAGCCG-AAGCTAC
1 CACTGATATGTAGCCGTAA-CTAC
43764642 CACTGAT
1 CACTGAT
43764649 CAATAACGCT
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
22 10 0.12
23 68 0.84
24 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGTAACTAC
Found at i:43764604 original size:46 final size:46
Alignment explanation
Indices: 43764537--43764648 Score: 188
Period size: 46 Copynumber: 2.4 Consensus size: 46
43764527 ACACTAATAT
* *
43764537 TAGCCGAAGCTACCCCTGATATGTAGCTGTAACTACCACTGAAATG
1 TAGCCGAAGCTACCACTGATATGTAGCCGTAACTACCACTGAAATG
* *
43764583 TAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCATTGAAATG
1 TAGCCGAAGCTACCACTGATATGTAGCCGTAACTACCACTGAAATG
43764629 TAGCCGAAGCTACCACTGAT
1 TAGCCGAAGCTACCACTGAT
43764649 CAATAACGCT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
TAGCCGAAGCTACCACTGATATGTAGCCGTAACTACCACTGAAATG
Found at i:43764892 original size:18 final size:17
Alignment explanation
Indices: 43764866--43764904 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
43764856 ATTTTCCTTC
43764866 CACATTC-AATAGTAATT
1 CACATTCAAATA-TAATT
43764883 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
43764901 CACA
1 CACA
43764905 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:43766047 original size:12 final size:12
Alignment explanation
Indices: 43766030--43766054 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43766020 TCGAATAAGC
43766030 ATGTATATATAT
1 ATGTATATATAT
43766042 ATGTATATATAT
1 ATGTATATATAT
43766054 A
1 A
43766055 ATGCTAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:43766414 original size:20 final size:21
Alignment explanation
Indices: 43766389--43766427 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
43766379 AAGTTTGAAT
43766389 ATGTACATATA-TGTATATAA
1 ATGTACATATATTGTATATAA
*
43766409 ATGTACATCTATTGTATAT
1 ATGTACATATATTGTATAT
43766428 TTGATGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (21 bp):
ATGTACATATATTGTATATAA
Found at i:43766919 original size:41 final size:41
Alignment explanation
Indices: 43766857--43766967 Score: 186
Period size: 41 Copynumber: 2.7 Consensus size: 41
43766847 GACTTTAAGT
**
43766857 CTAGCAGGCTAATTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
43766898 CTAGTAGGCTACGTGCTGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
43766939 CTAGCAGGCTACGTGCCGGTGATCTGAAT
1 CTAGCAGGCTACGTGCCGGTGATCTGAAT
43766968 TAACCTATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:43766977 original size:41 final size:41
Alignment explanation
Indices: 43766857--43767006 Score: 183
Period size: 41 Copynumber: 3.6 Consensus size: 41
43766847 GACTTTAAGT
*
43766857 CTAGCAGGCTAATTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
43766898 CTAGTAGGCTACGTGCTGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *** **
43766939 CTAGCAGGCTACGTGCCGGTGATCTGAATTAACCTATAAGT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
43766980 CTAGCAGGCTAAGTGCCGTTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
43767007 TTTTAATTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 89 0.95
42 5 0.05
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:43770981 original size:12 final size:12
Alignment explanation
Indices: 43770945--43770986 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
43770935 TTTAAAAAAG
43770945 CATTATTATTAT
1 CATTATTATTAT
43770957 -ATTATATATTAT
1 CATTAT-TATTAT
*
43770969 CATTATTACTAT
1 CATTATTATTAT
43770981 CATTAT
1 CATTAT
43770987 CTTTGTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (12 bp):
CATTATTATTAT
Found at i:43771311 original size:16 final size:17
Alignment explanation
Indices: 43771279--43771313 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
43771269 CCACTCTCAT
43771279 ATTTTATAATGCATATAC
1 ATTTTATAA-GCATATAC
43771297 ATTTTATAA-CATATAC
1 ATTTTATAAGCATATAC
43771313 A
1 A
43771314 CCTTCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (17 bp):
ATTTTATAAGCATATAC
Found at i:43773180 original size:17 final size:16
Alignment explanation
Indices: 43773150--43773189 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
43773140 TAAAAGTTAC
43773150 AAAAA-ATAAAAAAAT
1 AAAAATATAAAAAAAT
*
43773165 ATAAATATAAATAAAAT
1 AAAAATATAAA-AAAAT
43773182 AAAAATAT
1 AAAAATAT
43773190 TAATTACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 4 0.19
16 5 0.24
17 12 0.57
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATATAAAAAAAT
Found at i:43774655 original size:58 final size:58
Alignment explanation
Indices: 43774586--43774719 Score: 216
Period size: 58 Copynumber: 2.3 Consensus size: 58
43774576 AAAGATGAAT
* *
43774586 TTGATGCGATCTACTCTATTCTTCAGTCTGCTCCATTGTAAAC-TCAGGGAGATAAGAC
1 TTGATGCGATCTACTCTATTCTTCAGTCTACTCCACTGT-AACTTCAGGGAGATAAGAC
43774644 TTGATGCGATCTACTCTATTCTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGAC
1 TTGATGCGATCTACTCTATTCTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGAC
* *
43774702 TTGATGTGATCTCCTCTA
1 TTGATGCGATCTACTCTA
43774720 CTACAACTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 3 0.04
58 68 0.96
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (58 bp):
TTGATGCGATCTACTCTATTCTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGAC
Found at i:43775265 original size:45 final size:45
Alignment explanation
Indices: 43775214--43775337 Score: 151
Period size: 45 Copynumber: 2.8 Consensus size: 45
43775204 TTGTTTATTT
* * *
43775214 AGTCTGCCCCACTGCAATTTCAAGGG-GATAAGACTTACTTCCTTG
1 AGTCTGCTCCACTGCAACTTC-AGGGAGATAAGACTCACTTCCTTG
* * * * *
43775259 AGTCTGCTCTACTACAACTTCAGGGAAATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTTCCTTG
*
43775304 GGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
43775338 CCGATGTGAT
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 4 0.06
45 62 0.94
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTTCCTTG
Found at i:43775417 original size:44 final size:41
Alignment explanation
Indices: 43775309--43775422 Score: 104
Period size: 44 Copynumber: 2.7 Consensus size: 41
43775299 TCTTGGGTCT
* * * *
43775309 GCTCCACTGCAACTTCAGGGAGATAAGACCCGATGTGATCT
1 GCTCTACTGCAACTTCAGGGAGATAAGATCCGATGTAATCC
* * * * *
43775350 ACTCTACTGTACCCTCAGAGAGATAAGATCCG-TGGTTTTAATCC
1 GCTCTACTGCAACTTCAGGGAGATAAGATCCGAT-G---TAATCC
43775394 GCTCTACTGCAACTTCAGGGAGATAAGAT
1 GCTCTACTGCAACTTCAGGGAGATAAGAT
43775423 TTGCCATCAT
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
40 1 0.02
41 26 0.47
44 28 0.51
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (41 bp):
GCTCTACTGCAACTTCAGGGAGATAAGATCCGATGTAATCC
Found at i:43775538 original size:82 final size:84
Alignment explanation
Indices: 43775427--43775634 Score: 276
Period size: 82 Copynumber: 2.5 Consensus size: 84
43775417 TAAGATTTGC
* * *
43775427 CATCATTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTG
1 CATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
* *
43775492 CTGAATAGGGAGATAGG-G
66 CTGAACAGGGAGATAGGTA
* * * *
43775510 C-TCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTG
1 CATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
*
43775574 CTGACCAGGGAGATAGGATTCA
66 CTGAACAGGGAGATAGG--T-A
43775596 CAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG
1 C-ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG
43775635 GCTAGGGTCA
Statistics
Matches: 107, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
82 72 0.67
83 1 0.01
86 1 0.01
88 33 0.31
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (84 bp):
CATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
CTGAACAGGGAGATAGGTA
Found at i:43775633 original size:44 final size:44
Alignment explanation
Indices: 43775409--43775634 Score: 284
Period size: 44 Copynumber: 5.3 Consensus size: 44
43775399 ACTGCAACTT
* ** * * *
43775409 CAGGGAGATAAGATTTGCCATCATTAACCTATTCCACTGCTGTC
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
*
43775453 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAA
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
* * * *
43775497 TAGGGAGATAGG----GC--TCTTTAATCTATTCCACTGCTGCC
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
* * *
43775535 CAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGAC
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
43775579 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
43775623 CAGGGAGATAGG
1 CAGGGAGATAGG
43775635 GCTAGGGTCA
Statistics
Matches: 155, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
38 31 0.20
40 1 0.01
42 1 0.01
44 122 0.79
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
Found at i:43775695 original size:88 final size:88
Alignment explanation
Indices: 43775645--43776127 Score: 768
Period size: 88 Copynumber: 5.5 Consensus size: 88
43775635 GCTAGGGTCA
* * * ** *
43775645 TCGATCTACTTCGCTGTTGGTGCAGGAAGGCAATATCTATTATTTTTAACCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
43775710 TCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
43775733 TCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
43775798 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
43775821 TCGATCTGCTTCGCTGTCGGTGCAAGAAGACAAGATCTACTATTTTTAGCCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
43775886 CCAGGGAGGCAAGGCTGGTGTTT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
43775909 TCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
43775974 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
43775997 TCGATCTACTTTGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
43776062 CCAGGAAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
43776085 TCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTAT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
43776128 ATTCACTGAT
Statistics
Matches: 368, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 368 1.00
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:43782082 original size:34 final size:34
Alignment explanation
Indices: 43782018--43782084 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
43782008 TTATGTACCT
* *
43782018 AAAAAATAATAACATATAAAAGTTACAAAAAATA
1 AAAAAATAATAACATATAAAAGATAAAAAAAATA
43782052 AAAAAAT-ATAA-ATATAAATAAGATAAAAAAAAT
1 AAAAAATAATAACATAT-AA-AAGATAAAAAAAAT
43782085 TAATTACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 4 0.14
33 6 0.21
34 19 0.66
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (34 bp):
AAAAAATAATAACATATAAAAGATAAAAAAAATA
Found at i:43783793 original size:29 final size:29
Alignment explanation
Indices: 43783757--43783817 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
43783747 TTCCCTGTGC
43783757 ATTCATTTTCATCATGATATGTTTGCATG
1 ATTCATTTTCATCATGATATGTTTGCATG
43783786 ATTCATTTTCATCATGATATGTTTGCATG
1 ATTCATTTTCATCATGATATGTTTGCATG
43783815 ATT
1 ATT
43783818 GGACCAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (29 bp):
ATTCATTTTCATCATGATATGTTTGCATG
Found at i:43784252 original size:17 final size:17
Alignment explanation
Indices: 43784226--43784261 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
43784216 GTGTGTTTTG
*
43784226 TTTTGGCTGCATGACAT
1 TTTTGACTGCATGACAT
*
43784243 TTTTGACTGCATGGCAT
1 TTTTGACTGCATGACAT
43784260 TT
1 TT
43784262 CATCATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (17 bp):
TTTTGACTGCATGACAT
Found at i:43787017 original size:7 final size:7
Alignment explanation
Indices: 43786992--43787033 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
43786982 GTGATGTGAA
43786992 AAAAATG
1 AAAAATG
43786999 AAAAGATG
1 AAAA-ATG
43787007 -AAAATG
1 AAAAATG
43787013 AAAAATG
1 AAAAATG
43787020 AAAAA-G
1 AAAAATG
43787026 TAAAAATG
1 -AAAAATG
43787034 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:43787031 original size:21 final size:21
Alignment explanation
Indices: 43786992--43787033 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
43786982 GTGATGTGAA
*
43786992 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
43787013 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
43787034 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:43788451 original size:44 final size:44
Alignment explanation
Indices: 43788310--43788944 Score: 610
Period size: 44 Copynumber: 14.4 Consensus size: 44
43788300 GCTAAAAAGC
* * * *
43788310 AGCAGATCTTGTCTTTATGTATTGGCGTCAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
*** * **
43788354 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC-GAAGAT
1 AGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCAG-AGAT
*** * * *
43788399 AATTGATCTTGTCTTCATATATTGACATGGAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
*
43788443 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
* * *
43788487 AGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
*** *
43788531 AATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
* * *
43788575 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-GAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAG-AGAT
* * *
43788619 AGCATATCTTGTCTTCATGTACTGGCATGAAGTAGATC-GAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAG-AGAT
* * * *
43788663 AGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCAGAGAT
* * *
43788708 AACAGATCTTGTCTTC-TCATACTGGTGGCA--AAGTAGATC-GAAGAA
1 AGCAGATCTTGTCTTCAT-GTA-T--TGGCATGAAGTAGATCAG-AGAT
* * *
43788753 AGCAGATCTTGTCTTCATGTTTTAGCGTGAAGTAGATC-GAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAG-AGAT
* *
43788797 AGCAGATCTTGTCTTCATGCATTGGCATGAAGTAGATGA-AGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
* **
43788840 AGCAGATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATC-GAAGAT
1 AGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTAGATCAG-AGAT
* * * *
43788885 AGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAATAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
43788929 AGCAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
43788945 CCATACTGGT
Statistics
Matches: 495, Mismatches: 73, Indels: 46
0.81 0.12 0.07
Matches are distributed among these distances:
42 8 0.02
43 23 0.05
44 341 0.69
45 113 0.23
46 5 0.01
48 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
Found at i:43788569 original size:132 final size:132
Alignment explanation
Indices: 43788310--43788944 Score: 676
Period size: 132 Copynumber: 4.8 Consensus size: 132
43788300 GCTAAAAAGC
* * * * ***
43788310 AGCAGATCTTGTCTTTATGTATTGGCGTCAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTA
* ** * * *
43788375 CTGGTGGTGAAGTAGATCGAAGATAATTGATCTTGTCTTCATATATTGACATGGAGTAGATCAGA
66 -TTGACGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGA
43788440 GAT
130 GAT
* *
43788443 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGATAGCAGATCTTATCTTCATGT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGA-AGATAGCAGATCTTGTCTTCATGT
* * *
43788507 ATTGACATGAAGTAGATCAAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGA
65 ATTGACGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGA
43788572 GAT
130 GAT
* * * *
43788575 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGAAAGCATATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTA
* * * * * * *
43788640 CTGGCATGAAGTAGATCGAAGA-AAGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAA
66 TTGACGTGAAGTAGATCGAAGATAA-TAGATCTTGTCTTCATGTATTGACA-TGAAGTAGATCAG
43788704 AGAT
129 AGAT
* * *
43788708 AACAGATCTTGTCTTC-TCATACTGGTGGCA--AAGTAGATCGAAGAAAGCAGATCTTGTCTTCA
1 AGCAGATCTTGTCTTCAT-GTA-T--TGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCA
* ** * *
43788770 TGT-TTTAGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGCATTGGCATGAAGTAGAT
62 TGTATTGA-CGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGAT
*
43788834 GA-AGAT
126 CAGAGAT
* ** *
43788840 AGCAGATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATCGAAGATAGCAGATCTTATCTTCAT
1 AGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCAT
* * * **
43788903 GTATTGGCGTGAAGTAGATCAAATATAGCAGATCTTGTCTTC
63 GTATTGACGTGAAGTAGATCGAAGATAATAGATCTTGTCTTC
43788945 CCATACTGGT
Statistics
Matches: 431, Mismatches: 56, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
131 2 0.00
132 246 0.57
133 103 0.24
134 73 0.17
135 3 0.01
136 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (132 bp):
AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTA
TTGACGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAG
AT
Found at i:43788964 original size:266 final size:266
Alignment explanation
Indices: 43788472--43788967 Score: 674
Period size: 266 Copynumber: 1.9 Consensus size: 266
43788462 TATTGACATG
* **
43788472 AAGTAGATCAGAGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCAAAGATAATGGA
1 AAGTAGATCAGAGAAAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCAAAGATAACAGA
* **
43788537 TCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTACTGGCG
66 TCTTGTCTTCATGCATTGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCACATACTGGCG
* * * * *
43788602 TGAAGTAGATCGAAGAAAGCATATCTTGTCTTCATGTACTGGCATGAAGTAGATCGAAGAAAGTA
131 CGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGAAAGCA
** *
43788667 GATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCTCATACTG
196 GATCTTGTCTTCCCATACTGGCAGCGAAGTAGATCAAAGATAACAGATCTTGTCTTCTCATACTG
43788732 GTGGCA
261 GTGGCA
* * * * *
43788738 AAGTAGATC-GAAGAAAGCAGATCTTGTCTTCATGT-TTTAGCGTGAAGTAGATCGAAGATAGCA
1 AAGTAGATCAG-AGAAAGCAGATCTTATCTTCATGTATTGA-CATGAAGTAGATCAAAGATAACA
* * *
43788801 GATCTTGTCTTCATGCATTGGCATGAAGTAGATGA-AGATAGCAGATCTTGTCTTCCCATACTGG
64 GATCTTGTCTTCATGCATTGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCACATACTGG
* * * * * *
43788865 TGGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAATATA
129 -CGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGAAA
**
43788930 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
193 GCAGATCTTGTCTTCCCATACTGGCAGCGAAGTAGATC
43788968 GAATATACCA
Statistics
Matches: 197, Mismatches: 30, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
265 30 0.15
266 167 0.85
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (266 bp):
AAGTAGATCAGAGAAAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCAAAGATAACAGA
TCTTGTCTTCATGCATTGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCACATACTGGCG
CGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGAAAGCA
GATCTTGTCTTCCCATACTGGCAGCGAAGTAGATCAAAGATAACAGATCTTGTCTTCTCATACTG
GTGGCA
Found at i:43790505 original size:31 final size:31
Alignment explanation
Indices: 43790470--43790531 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
43790460 TTTTTTTTGT
*
43790470 CTTTTGTTCAATTTAATCCAT-TTTTTAAAAA
1 CTTTTATTCAATTTAAT-CATATTTTTAAAAA
** *
43790501 CTTTTATTTTATTTAATTATATTTTTAAAAA
1 CTTTTATTCAATTTAATCATATTTTTAAAAA
43790532 AGCATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (31 bp):
CTTTTATTCAATTTAATCATATTTTTAAAAA
Found at i:43790570 original size:12 final size:12
Alignment explanation
Indices: 43790534--43790575 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
43790524 TTTAAAAAAG
43790534 CATTATTATTAT
1 CATTATTATTAT
43790546 -ATTATATATTAT
1 CATTAT-TATTAT
*
43790558 CATTATTACTAT
1 CATTATTATTAT
43790570 CATTAT
1 CATTAT
43790576 CTTTGTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (12 bp):
CATTATTATTAT
Found at i:43794345 original size:2 final size:2
Alignment explanation
Indices: 43794338--43794401 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
43794328 AAACTTAAAG
43794338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
43794380 AT AT AT AT AG AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
43794402 TGAAATTTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43795028 original size:26 final size:26
Alignment explanation
Indices: 43794999--43795050 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
43794989 CCTCCCTTGT
43794999 GATCTCCTGTACATAGCCTTTTCTGA
1 GATCTCCTGTACATAGCCTTTTCTGA
43795025 GATCTCCTGTACATAGCCTTTTCTGA
1 GATCTCCTGTACATAGCCTTTTCTGA
43795051 TTCGTCATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.38
Consensus pattern (26 bp):
GATCTCCTGTACATAGCCTTTTCTGA
Found at i:43799296 original size:48 final size:47
Alignment explanation
Indices: 43799197--43799300 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 47
43799187 GTATTTATTT
* * * *
43799197 AATTGAGATTCATTGCAACATTAAAAATATAACAAACTTTGTAATTTA
1 AATT-AGATTAATTGCAACATTAAAAATAGAACAAAATTTGTAATATA
43799245 AATTAGATTAATTGCAACATT-AAAATGAGGAACAAAATTTGTAATATA
1 AATTAGATTAATTGCAACATTAAAAAT-A-GAACAAAATTTGTAATATA
43799293 AATTAGAT
1 AATTAGAT
43799301 ACATTGGAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 5 0.10
47 17 0.34
48 28 0.56
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.34
Consensus pattern (47 bp):
AATTAGATTAATTGCAACATTAAAAATAGAACAAAATTTGTAATATA
Found at i:43808165 original size:22 final size:22
Alignment explanation
Indices: 43808137--43808205 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
43808127 TATGCACTAT
*
43808137 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAATGTGC
* *
43808159 TATACAGAGAGCACGAATGTGC
1 TAAACAGAGAGCACTAATGTGC
43808181 TAAACAGAGAGCACTAATGTGC
1 TAAACAGAGAGCACTAATGTGC
43808203 TAA
1 TAA
43808206 TAATCGGAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (22 bp):
TAAACAGAGAGCACTAATGTGC
Found at i:43808223 original size:19 final size:19
Alignment explanation
Indices: 43808199--43808236 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43808189 GAGCACTAAT
*
43808199 GTGCTAATAATCGGAGAGC
1 GTGCTAATAATCAGAGAGC
*
43808218 GTGCTAGTAATCAGAGAGC
1 GTGCTAATAATCAGAGAGC
43808237 ACTGACGTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.21
Consensus pattern (19 bp):
GTGCTAATAATCAGAGAGC
Found at i:43808245 original size:25 final size:24
Alignment explanation
Indices: 43808141--43808438 Score: 267
Period size: 25 Copynumber: 12.4 Consensus size: 24
43808131 CACTATTAAA
* *
43808141 CAGAGAGCACTAAAGTGCTAT-A-
1 CAGAGAGCACTGACGTGCTATAAT
*
43808163 CAGAGAGCAC-GAATGTGCTA-AA-
1 CAGAGAGCACTG-ACGTGCTATAAT
* *
43808185 CAGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACTGACGTGCT-ATAAT
43808210 C-G-GAG-A--G-CGTGCTAGTAAT
1 CAGAGAGCACTGACGTGCTA-TAAT
43808229 CAGAGAGCACTGACGTGCTAATAAT
1 CAGAGAGCACTGACGTGCT-ATAAT
* *
43808254 CAGGGAGCACAGACGTGCTAGTAAT
1 CAGAGAGCACTGACGTGCTA-TAAT
43808279 CAGAGAGCACTGACGTGCTAGTAAT
1 CAGAGAGCACTGACGTGCTA-TAAT
*
43808304 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCTATA-AT
** *
43808329 CAGAGAGCACCAACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCTATA-AT
** *
43808354 CAGAGAGCACCAACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCTATA-AT
**
43808379 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACTGACGTGCT-ATAAT
*
43808404 CAGAGAGCACTGATGTGCTAATAAT
1 CAGAGAGCACTGACGTGCT-ATAAT
43808429 CAGAGAGCAC
1 CAGAGAGCAC
43808439 GCTAAACTCC
Statistics
Matches: 243, Mismatches: 16, Indels: 31
0.84 0.06 0.11
Matches are distributed among these distances:
18 1 0.00
19 10 0.04
20 1 0.00
21 3 0.01
22 37 0.15
23 4 0.02
24 6 0.02
25 178 0.73
26 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (24 bp):
CAGAGAGCACTGACGTGCTATAAT
Found at i:43808276 original size:50 final size:49
Alignment explanation
Indices: 43808141--43808438 Score: 300
Period size: 50 Copynumber: 6.2 Consensus size: 49
43808131 CACTATTAAA
* *
43808141 CAGAGAGCACTAAAGTGCT-AT-A-CAGAGAGCAC-GAATGTGCTA-AA-
1 CAGAGAGCACTAACGTGCTAATAATCAGAGAGCACAG-ACGTGCTATAAT
*
43808185 CAGAGAGCACTAATGTGCTAATAATC-G-GAG---AG-CGTGCTAGTAAT
1 CAGAGAGCACTAACGTGCTAATAATCAGAGAGCACAGACGTGCTA-TAAT
* *
43808229 CAGAGAGCACTGACGTGCTAATAATCAGGGAGCACAGACGTGCTAGTAAT
1 CAGAGAGCACTAACGTGCTAATAATCAGAGAGCACAGACGTGCTA-TAAT
* * * *
43808279 CAGAGAGCACTGACGTGCTAGTAATCAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTAACGTGCTAATAATCAGAGAGCACAGACGTGCTATA-AT
* *
43808329 CAGAGAGCACCAACGTGCTAA-ATATCAGAGAGCACCA-ACGTGCTAAATAT
1 CAGAGAGCACTAACGTGCTAATA-ATCAGAGAGCA-CAGACGTGCTATA-AT
* * *
43808379 CAGAGAGCACCAACGTGCTAATAATCAGAGAGCACTGATGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAATCAGAGAGCACAGACGTGCT-ATAAT
43808429 CAGAGAGCAC
1 CAGAGAGCAC
43808439 GCTAAACTCC
Statistics
Matches: 220, Mismatches: 15, Indels: 32
0.82 0.06 0.12
Matches are distributed among these distances:
41 6 0.03
43 3 0.01
44 42 0.19
45 6 0.03
46 5 0.02
47 1 0.00
49 5 0.02
50 148 0.67
51 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (49 bp):
CAGAGAGCACTAACGTGCTAATAATCAGAGAGCACAGACGTGCTATAAT
Found at i:43810079 original size:21 final size:21
Alignment explanation
Indices: 43810055--43810116 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 21
43810045 AGCTGAACAA
*
43810055 AAGCCCATAAGGGTTAAACTG
1 AAGCCCATAAGGGTTAAACGG
* * ** *
43810076 AAGCTCAAAATAGCTAAACGG
1 AAGCCCATAAGGGTTAAACGG
* *
43810097 AAACCCATTAGGGTTAAACG
1 AAGCCCATAAGGGTTAAACG
43810117 AAAACTCATA
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (21 bp):
AAGCCCATAAGGGTTAAACGG
Found at i:43810079 original size:42 final size:41
Alignment explanation
Indices: 43809997--43810126 Score: 125
Period size: 42 Copynumber: 3.1 Consensus size: 41
43809987 CAGAGAAACA
* * * *
43809997 CATAAGTGCTAAACAGAAACCCATAAAGGTTGAAGGGAAGCT
1 CATAAGAGCTAAACA-AAACCCATAAGGGTTAAACGGAAGCT
* *
43810039 CATAAGAGCTGAACAAAAGCCCATAAGGGTTAAACTGAAGCT
1 CATAAGAGCTAAACAAAA-CCCATAAGGGTTAAACGGAAGCT
* * * * * *
43810081 CAAAATAGCTAAACGGAAACCCATTAGGGTTAAACGAAAACT
1 CATAAGAGCTAAAC-AAAACCCATAAGGGTTAAACGGAAGCT
43810123 CATA
1 CATA
43810127 TGAGTTAACT
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 3 0.04
42 65 0.92
43 3 0.04
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (41 bp):
CATAAGAGCTAAACAAAACCCATAAGGGTTAAACGGAAGCT
Found at i:43811559 original size:11 final size:11
Alignment explanation
Indices: 43811543--43811582 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
43811533 GCTGTTACAC
43811543 AAAATTAATTA
1 AAAATTAATTA
43811554 AAAATTAATTA
1 AAAATTAATTA
*
43811565 AAAATTAATAA
1 AAAATTAATTA
43811576 AAAATTA
1 AAAATTA
43811583 CATTCATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:43811638 original size:17 final size:18
Alignment explanation
Indices: 43811612--43811650 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
43811602 CACAATAAAC
43811612 ATTAAACTAAACA-AAAA
1 ATTAAACTAAACACAAAA
* *
43811629 ATTAACCTAATCACAAAA
1 ATTAAACTAAACACAAAA
43811647 ATTA
1 ATTA
43811651 CAAACAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (18 bp):
ATTAAACTAAACACAAAA
Found at i:43811644 original size:19 final size:20
Alignment explanation
Indices: 43811599--43811647 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
43811589 TAACGTAACA
43811599 AATCACAATAAACATTAAACT
1 AATCACAA-AAACATTAAACT
*
43811620 AA--ACAAAAA-ATTAACCT
1 AATCACAAAAACATTAAACT
43811637 AATCACAAAAA
1 AATCACAAAAA
43811648 TTACAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 11 0.44
21 2 0.08
ACGTcount: A:0.63, C:0.18, G:0.00, T:0.18
Consensus pattern (20 bp):
AATCACAAAAACATTAAACT
Found at i:43811682 original size:113 final size:113
Alignment explanation
Indices: 43811541--43811744 Score: 320
Period size: 113 Copynumber: 1.8 Consensus size: 113
43811531 AGGCTGTTAC
* *
43811541 ACAAAATTAATTAAAAATTAATTAAAAATTAATAAAAAATTACATTCATAACGTAACAAATCACA
1 ACAAAATTAATTAAAAATAAATTAAAAATTAATAAAAAATTACATTCATAACCTAACAAATCACA
43811606 ATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
66 ATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
* * * * *
43811654 ACAAAA-TAAGTTTAAAATAAATTGAAAATTAATAAAAATTTATATTTATAACCTAACAAATCAC
1 ACAAAATTAA-TTAAAAATAAATTAAAAATTAATAAAAAATTACATTCATAACCTAACAAATCAC
*
43811718 AATAAACATTAAACTAAACAAATAATT
65 AATAAACATTAAACTAAACAAAAAATT
43811745 TATAATAGTT
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
112 3 0.04
113 79 0.96
ACGTcount: A:0.60, C:0.12, G:0.01, T:0.27
Consensus pattern (113 bp):
ACAAAATTAATTAAAAATAAATTAAAAATTAATAAAAAATTACATTCATAACCTAACAAATCACA
ATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
Found at i:43813729 original size:17 final size:17
Alignment explanation
Indices: 43813707--43813739 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
43813697 ATATTTAATA
43813707 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
43813724 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
43813740 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:43814705 original size:2 final size:2
Alignment explanation
Indices: 43814698--43814727 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43814688 GATTTGTTGA
43814698 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43814728 TTCTATAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43817768 original size:34 final size:34
Alignment explanation
Indices: 43817692--43817771 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
43817682 ATCACAATGC
* * **
43817692 CAGTAATCAGTAGGGCCTTTGCCCAATTTCAGTAA
1 CAGT-ATCAGTGGGGCCTTGGCCCAATAACAGTAA
*
43817727 TAGTATCAGTGGGGCCTTGGCCC-ATAACAGTAA
1 CAGTATCAGTGGGGCCTTGGCCCAATAACAGTAA
43817760 CAGATATCAGTG
1 CAG-TATCAGTG
43817772 ATGTAGTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 10 0.26
34 25 0.66
35 3 0.08
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTGGGGCCTTGGCCCAATAACAGTAA
Found at i:43818451 original size:134 final size:134
Alignment explanation
Indices: 43818313--43818562 Score: 340
Period size: 134 Copynumber: 1.9 Consensus size: 134
43818303 TATTTCGATC
* *
43818313 ATTTTACCTTATGGGGGTATTTCAGTCATTCTACCATATAGGGGTATTTC-AGTCACTCTACCAT
1 ATTTTACCCTATGAGGGTATTTCAGTCATTCTACCATATAGGGGTATTTCGA-TCACTCTACCAT
** *
43818377 ATGGGGGTATTTCGGTCATTTTACCCTATGAGAGTATTTCAATCATTTTACCCTATGAGCTATTT
65 ATAAGGGTATTTCGGTCATTTTACCATATGAGAGTATTTCAATCATTTTACCCTATGAGCTATTT
43818442 CAGTA
130 CAGTA
* * * * * *
43818447 ATTTTACCCTATGAGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTA
1 ATTTTACCCTATGAGGGTATTTCAGTCATTCTACCATATAGGGGTATTTCGATCACTCTACCATA
* * * * *
43818512 TAAGGGTATTTCGGTTATTTTACTATATGTGGGTATTTCAGTCATTTTACC
66 TAAGGGTATTTCGGTCATTTTACCATATGAGAGTATTTCAATCATTTTACC
43818563 TATTTTGGGG
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
134 98 0.99
135 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (134 bp):
ATTTTACCCTATGAGGGTATTTCAGTCATTCTACCATATAGGGGTATTTCGATCACTCTACCATA
TAAGGGTATTTCGGTCATTTTACCATATGAGAGTATTTCAATCATTTTACCCTATGAGCTATTTC
AGTA
Found at i:43818565 original size:107 final size:105
Alignment explanation
Indices: 43818221--43818562 Score: 409
Period size: 107 Copynumber: 3.2 Consensus size: 105
43818211 ATCTCCTAGA
* * * * *
43818221 GGTATTACAGTCATTTGACCCTATGAGTGTATTTCGATCATTCTACCTTATGGGGGTATTTCGGT
1 GGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCATATGGGGGTATTTCGGT
*
43818286 TATTTTACCC-ATAGGGATATTTCGATCATTTTACCTTATGGG
66 CATTTTACCCTATAGGG-TATTTCGATCATTTTA-CTTAT-GG
* * * *
43818328 GGTATTTCAGTCATTCTACCATAT-AGGGGTATTTCAGTCACTCTACCATATGGGGGTATTTCGG
1 GGTATTTCAGTCATTTTACCCTATGA-GGGTATTTCGGTCATTCTACCATATGGGGGTATTTCGG
* * * *
43818392 TCATTTTACCCTATGAGAGTATTTCAATCATTTTACCCTATGA
65 TCATTTTACCCTAT-AGGGTATTTCGATCATTTTA-CTTATGG
* * * *
43818435 GCTATTTCAGTAATTTTACCCTATGAGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGAT
1 GGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCATATGGGGGTATTTCGGT
* *
43818500 CATTTTACCCTATAAGGGTATTTCGGTTATTTTACTATATGTG
66 CATTTTACCCTAT-AGGGTATTTCGATCATTTTACT-TATG-G
43818543 GGTATTTCAGTCATTTTACC
1 GGTATTTCAGTCATTTTACC
43818563 TATTTTGGGG
Statistics
Matches: 198, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
106 2 0.01
107 152 0.77
108 41 0.21
109 3 0.02
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (105 bp):
GGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCATATGGGGGTATTTCGGT
CATTTTACCCTATAGGGTATTTCGATCATTTTACTTATGG
Found at i:43818571 original size:27 final size:27
Alignment explanation
Indices: 43818221--43818562 Score: 320
Period size: 27 Copynumber: 12.7 Consensus size: 27
43818211 ATCTCCTAGA
* *
43818221 GGTATTACAGTCATTTGACCCTATGAG
1 GGTATTTCAGTCATTTTACCCTATGAG
* * * *
43818248 TGTATTTC-GATCATTCTACCTTATGGG
1 GGTATTTCAG-TCATTTTACCCTATGAG
* *
43818275 GGTATTTCGGTTATTTTACCC-AT-AG
1 GGTATTTCAGTCATTTTACCCTATGAG
* *
43818300 GGATATTTC-GATCATTTTACCTTATGGG
1 GG-TATTTCAG-TCATTTTACCCTATGAG
* *
43818328 GGTATTTCAGTCATTCTACCATAT-AGG
1 GGTATTTCAGTCATTTTACCCTATGA-G
* * * *
43818355 GGTATTTCAGTCACTCTACCATATGGG
1 GGTATTTCAGTCATTTTACCCTATGAG
*
43818382 GGTATTTCGGTCATTTTACCCTATGAG
1 GGTATTTCAGTCATTTTACCCTATGAG
* *
43818409 AGTATTTCAATCATTTTACCCTATGA-
1 GGTATTTCAGTCATTTTACCCTATGAG
* *
43818435 GCTATTTCAGTAATTTTACCCTATGAG
1 GGTATTTCAGTCATTTTACCCTATGAG
* * *
43818462 GGTATTTCGGTCATTCTACCCTATGGG
1 GGTATTTCAGTCATTTTACCCTATGAG
*
43818489 GGTATTTC-GATCATTTTACCCTATAAG
1 GGTATTTCAG-TCATTTTACCCTATGAG
* * ** *
43818516 GGTATTTCGGTTATTTTACTATATGTG
1 GGTATTTCAGTCATTTTACCCTATGAG
43818543 GGTATTTCAGTCATTTTACC
1 GGTATTTCAGTCATTTTACC
43818563 TATTTTGGGG
Statistics
Matches: 256, Mismatches: 47, Indels: 24
0.78 0.14 0.07
Matches are distributed among these distances:
25 4 0.02
26 41 0.16
27 205 0.80
28 6 0.02
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTATTTCAGTCATTTTACCCTATGAG
Found at i:43819605 original size:33 final size:33
Alignment explanation
Indices: 43819563--43819637 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
43819553 AGAAGAGGTT
*
43819563 TTCGGCAAACGCAATGAATGGAGAGAAGTAAAA
1 TTCGGCAAACGCAATGAACGGAGAGAAGTAAAA
* ** * *
43819596 TTCGACAAACTTAATGAACGGGGAGAAGTAATA
1 TTCGGCAAACGCAATGAACGGAGAGAAGTAAAA
43819629 TTCGGCAAA
1 TTCGGCAAA
43819638 GGGAACAACT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (33 bp):
TTCGGCAAACGCAATGAACGGAGAGAAGTAAAA
Found at i:43822502 original size:74 final size:72
Alignment explanation
Indices: 43822396--43822536 Score: 237
Period size: 74 Copynumber: 1.9 Consensus size: 72
43822386 TATATATCTA
43822396 TATATATATAATGTGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
1 TATATATATAATGTGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
43822461 AACCCAT
66 AACCCAT
* * *
43822468 TATATATATAATGTGGCTTAGTGGCACTAATTCAGAGCAGATCACTTCCTCTTTCACAAATATCC
1 TATATATATAATGTGGCTTA--GCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCC
43822533 TAAA
64 TAAA
43822537 TTCATGCAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
72 20 0.31
74 44 0.69
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (72 bp):
TATATATATAATGTGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
AACCCAT
Found at i:43823704 original size:36 final size:38
Alignment explanation
Indices: 43823664--43823755 Score: 93
Period size: 39 Copynumber: 2.5 Consensus size: 38
43823654 TCAAGTATTG
* *
43823664 AAACAAGCAAAAAT-ATAA-AAGAAGAAGAAAAGAAAA
1 AAACAAGAAAAAATAAGAATAAGAAGAAGAAAAGAAAA
* *
43823700 AAACAAAGAAAAAATAAGAATAAGAATAAGAAAGGAAAGA
1 AAAC-AAGAAAAAATAAGAATAAGAAGAAGAAAAGAAA-A
*
43823740 AAA-AGGAAAAAA-AAGA
1 AAACAAGAAAAAATAAGA
43823756 TGATAGAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
36 4 0.09
37 13 0.28
38 11 0.23
39 15 0.32
40 4 0.09
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.05
Consensus pattern (38 bp):
AAACAAGAAAAAATAAGAATAAGAAGAAGAAAAGAAAA
Found at i:43824647 original size:27 final size:26
Alignment explanation
Indices: 43824613--43824668 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
43824603 ACCAAAATGT
43824613 TATAAATTTTTTTATTTACCAAAAAA
1 TATAAATTTTTTTATTTACCAAAAAA
*
43824639 TATATAATTTTTTTATTTACCAAAATA
1 TATA-AATTTTTTTATTTACCAAAAAA
43824666 TAT
1 TAT
43824669 CAAAAAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (26 bp):
TATAAATTTTTTTATTTACCAAAAAA
Found at i:43824765 original size:27 final size:27
Alignment explanation
Indices: 43824727--43824830 Score: 181
Period size: 27 Copynumber: 3.9 Consensus size: 27
43824717 CCCTGGGTGG
*
43824727 AGGGAACACTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
43824754 AGGGAACCCTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
43824781 AGGGAACCCTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
**
43824808 AGGGTTCCCTGTTGGCGGCACCA
1 AGGGAACCCTGTTGGCGGCACCA
43824831 CTCGTGTTAT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.31, T:0.13
Consensus pattern (27 bp):
AGGGAACCCTGTTGGCGGCACCAAACA
Found at i:43825125 original size:3 final size:3
Alignment explanation
Indices: 43825117--43825152 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
43825107 AATTTTATAG
43825117 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
43825153 GAAGATGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:43825928 original size:18 final size:18
Alignment explanation
Indices: 43825884--43825928 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
43825874 TTGATATGGT
* *
43825884 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
* *
43825902 CGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
43825920 TGGTGGCGA
1 TGGTGGCGA
43825929 TTATTGGGAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.47, T:0.18
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:43828226 original size:21 final size:21
Alignment explanation
Indices: 43828188--43828228 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43828178 AAAAAATTTC
*
43828188 TGTTTTTTTATTATTATTTTT
1 TGTTTTTTTATGATTATTTTT
43828209 TGTTTTTTT-TGATATATTTT
1 TGTTTTTTTATGAT-TATTTT
43828229 GGTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (21 bp):
TGTTTTTTTATGATTATTTTT
Found at i:43828284 original size:29 final size:28
Alignment explanation
Indices: 43828224--43828290 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
43828214 TTTTTGATAT
* *
43828224 ATTTTGGTAAATAAAAAAATTTATATAT
1 ATTTTGGTAAATAAAAAAAGTTATATAC
43828252 ATTTTGGTAAATAAAAAAAAAGTTATA-AC
1 ATTTTGGTAAAT--AAAAAAAGTTATATAC
43828281 ATTTTGGTAA
1 ATTTTGGTAA
43828291 TTTTTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 12 0.34
29 11 0.31
30 12 0.34
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (28 bp):
ATTTTGGTAAATAAAAAAAGTTATATAC
Found at i:43828364 original size:5 final size:5
Alignment explanation
Indices: 43828356--43828453 Score: 53
Period size: 5 Copynumber: 20.2 Consensus size: 5
43828346 TTTTCTCTTC
* * * *
43828356 TCCTT TCCTT TTCTT TCCTT AT--TT TTCTT T-CTT TCCTC CCCTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
* * * * * *
43828404 TTCTT T-CAT TCTTT TTCTT T-CTT TCCTC TCCTC TCCTT TCCTTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCC-TT TCCTT
43828453 T
1 T
43828454 TTTTTTCTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
3 1 0.01
4 13 0.18
5 52 0.72
6 6 0.08
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (5 bp):
TCCTT
Found at i:43828373 original size:10 final size:10
Alignment explanation
Indices: 43828358--43828476 Score: 58
Period size: 10 Copynumber: 12.5 Consensus size: 10
43828348 TTCTCTTCTC
43828358 CTTTCCTTTT
1 CTTTCCTTTT
43828368 CTTTCCTTATT
1 CTTTCCTT-TT
43828379 -TTT-C-TTT
1 CTTTCCTTTT
***
43828386 CTTTCCTCCC
1 CTTTCCTTTT
43828396 CTTTCCTTTT
1 CTTTCCTTTT
*
43828406 CTTTCATTCTT
1 CTTTCCTT-TT
43828417 -TTT-C-TTT
1 CTTTCCTTTT
* *
43828424 CTTTCCTCTC
1 CTTTCCTTTT
* *
43828434 CTCTCCTTTC
1 CTTTCCTTTT
43828444 CTTTTCCTTTT
1 C-TTTCCTTTT
* *
43828455 TTTTTC-TTT
1 CTTTCCTTTT
43828464 C-TTCC-TTT
1 CTTTCCTTTT
43828472 CTTTC
1 CTTTC
43828477 TTCTTCTTCC
Statistics
Matches: 81, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
7 4 0.05
8 15 0.19
9 9 0.11
10 42 0.52
11 11 0.14
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.66
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:43828399 original size:38 final size:38
Alignment explanation
Indices: 43828357--43828466 Score: 148
Period size: 38 Copynumber: 2.8 Consensus size: 38
43828347 TTTCTCTTCT
43828357 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
1 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
* * *
43828395 CCTTTCCTTTTCTTTCATTCTTTTTCTTTCTTTCCTCT
1 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
* * *
43828433 CCTCTCCTTTCCTTTTCCTTTTTTTTTCTTTCTT
1 CCTTTCCTTTTC-TTTCC-TTATTTTTCTTTCTT
43828467 CCTTTCTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
38 45 0.71
39 4 0.06
40 14 0.22
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (38 bp):
CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
Found at i:43828571 original size:27 final size:28
Alignment explanation
Indices: 43828533--43828601 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
43828523 AATTCAAGGG
* *
43828533 TGGTGTCGCCAACAGGGA-ACCATTGTT
1 TGGTGCCGCCAACAGGGATACCATTATT
* *
43828560 TGGTGCCGCCAACA-GGATTCCCTTATT
1 TGGTGCCGCCAACAGGGATACCATTATT
*
43828587 TGGTGGCGCCAACAG
1 TGGTGCCGCCAACAG
43828602 TGTTCCCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.25
Consensus pattern (28 bp):
TGGTGCCGCCAACAGGGATACCATTATT
Found at i:43828607 original size:27 final size:27
Alignment explanation
Indices: 43828558--43828609 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
43828548 GGAACCATTG
43828558 TTTGGTGCCGCCAACAGGATTCCCTTA
1 TTTGGTGCCGCCAACAGGATTCCCTTA
*
43828585 TTTGGTGGCGCCAACAGTG-TTCCCT
1 TTTGGTGCCGCCAACAG-GATTCCCT
43828610 CTACCTAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (27 bp):
TTTGGTGCCGCCAACAGGATTCCCTTA
Found at i:43828695 original size:28 final size:28
Alignment explanation
Indices: 43828658--43828727 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
43828648 TCTATTTTTT
43828658 TATATATTTTGGTAAATAAAAAAAATTA
1 TATATATTTTGGTAAATAAAAAAAATTA
*
43828686 TATATATTTTGGTAAATAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAATTA
43828714 TA-ATATTTTGGTAA
1 TATATATTTTGGTAA
43828728 TTTTTTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 12 0.29
28 29 0.71
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAATTA
Found at i:43835472 original size:25 final size:26
Alignment explanation
Indices: 43835411--43835472 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 26
43835401 ATACATACAT
43835411 TTATAATAATTATTACTTATTATTTAAG
1 TTATAATAATTATTAC-TATTATTT-AG
43835439 -TA-AAT-ATTATTA-TATTATATT-G
1 TTATAATAATTATTACTATTAT-TTAG
43835461 TTATAATAATTA
1 TTATAATAATTA
43835473 AAACATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
22 1 0.03
23 8 0.27
24 5 0.17
25 11 0.37
26 3 0.10
27 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (26 bp):
TTATAATAATTATTACTATTATTTAG
Found at i:43835561 original size:12 final size:12
Alignment explanation
Indices: 43835488--43835579 Score: 70
Period size: 12 Copynumber: 7.8 Consensus size: 12
43835478 TAAAATAAAT
43835488 GAAAGAAAAAGA
1 GAAAGAAAAAGA
*
43835500 -ATAG-AAAA-A
1 GAAAGAAAAAGA
43835509 -AAAGAACAAAGTA
1 GAAAGAA-AAAG-A
* *
43835522 GAACGAAATAGA
1 GAAAGAAAAAGA
43835534 G-AAGAAAACGAGA
1 GAAAGAAAA--AGA
43835547 GAAAGAAAAAGA
1 GAAAGAAAAAGA
43835559 GAAAGAAAAATGA
1 GAAAGAAAAA-GA
43835572 GAAA-AAAA
1 GAAAGAAAA
43835580 TTAGGGTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
9 4 0.06
10 5 0.08
11 11 0.17
12 19 0.29
13 14 0.22
14 12 0.18
ACGTcount: A:0.71, C:0.03, G:0.22, T:0.04
Consensus pattern (12 bp):
GAAAGAAAAAGA
Found at i:43835568 original size:13 final size:13
Alignment explanation
Indices: 43835509--43835579 Score: 51
Period size: 13 Copynumber: 5.6 Consensus size: 13
43835499 AATAGAAAAA
*
43835509 AAAGAACAAAGTAG
1 AAAGAAAAAAG-AG
* *
43835523 AACG-AAATAGAG
1 AAAGAAAAAAGAG
*
43835535 -AAGAAAACGAGAG
1 AAAGAAAA-AAGAG
43835548 AAAG-AAAAAGAG
1 AAAGAAAAAAGAG
*
43835560 AAAGAAAAATGAG
1 AAAGAAAAAAGAG
43835573 AAA-AAAA
1 AAAGAAAA
43835580 TTAGGGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 2 0.04
12 17 0.37
13 21 0.46
14 6 0.13
ACGTcount: A:0.69, C:0.04, G:0.23, T:0.04
Consensus pattern (13 bp):
AAAGAAAAAAGAG
Found at i:43844147 original size:22 final size:25
Alignment explanation
Indices: 43844121--43844173 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
43844111 TTAAAAATTC
43844121 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
43844143 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
43844168 AATTTA
1 AATTTA
43844174 TTCAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:43847479 original size:43 final size:43
Alignment explanation
Indices: 43847409--43847662 Score: 321
Period size: 43 Copynumber: 5.7 Consensus size: 43
43847399 CTCGCTAATT
43847409 CTAAAGGTCTT-GTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
* * *
43847451 CTAAAGGTCATGGTCTTTAGTGGGGTTTGTGGTAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
* *
43847494 CTGAAGGTCTTGGTCTTTAGTGGCGTTTGTGGTAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
*
43847537 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAA-----GC----G-CC--G
* *
43847592 CTAAAGGTCATGGTCTTTAGCGGCATTTGTGGTAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
43847635 CTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTT
43847663 ATTTATAAAA
Statistics
Matches: 185, Mismatches: 14, Indels: 25
0.83 0.06 0.11
Matches are distributed among these distances:
42 10 0.05
43 130 0.70
45 2 0.01
46 1 0.01
48 2 0.01
50 2 0.01
52 1 0.01
53 2 0.01
55 35 0.19
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (43 bp):
CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
Found at i:43847621 original size:55 final size:55
Alignment explanation
Indices: 43847536--43847640 Score: 183
Period size: 55 Copynumber: 1.9 Consensus size: 55
43847526 TAAAAGCGCC
* *
43847536 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCAT
1 GCTAAAGGTCATGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGACCAT
*
43847591 GCTAAAGGTCATGGTCTTTAGCGGCATTTGTGGTAAAAGCGCCGCTAAAG
1 GCTAAAGGTCATGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAG
43847641 GTCTTGGTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (55 bp):
GCTAAAGGTCATGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGACCAT
Found at i:43849641 original size:18 final size:18
Alignment explanation
Indices: 43849587--43849644 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 18
43849577 CTTTACACCA
43849587 CATTGTGGATAAAACCACACAT
1 CATTGTGGAT-AAA-C-CAC-T
* **
43849609 TATTGTGGACGAACCACT
1 CATTGTGGATAAACCACT
43849627 CATTGTGGATAAACCACT
1 CATTGTGGATAAACCACT
43849645 AGTGATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 16 0.53
19 3 0.10
20 1 0.03
21 2 0.07
22 8 0.27
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (18 bp):
CATTGTGGATAAACCACT
Found at i:43849797 original size:46 final size:45
Alignment explanation
Indices: 43849744--43849851 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
43849734 TTACATATTG
* *
43849744 AAGTTGCTAAAACAATGTGGTCAAA-CCACTCAAACAATGCAGATAA
1 AAGTTGCTCAAACAATGTGG-AAAACCCA-TCAAACAATGCAGATAA
* * * *
43849790 AAGTTGCTCAAACGATATGGAAAACCCATTAAACATTGCAGATAA
1 AAGTTGCTCAAACAATGTGGAAAACCCATCAAACAATGCAGATAA
43849835 AAGTTGCTCAAACAATG
1 AAGTTGCTCAAACAATG
43849852 CAGATAAAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
45 33 0.62
46 20 0.38
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (45 bp):
AAGTTGCTCAAACAATGTGGAAAACCCATCAAACAATGCAGATAA
Found at i:43849847 original size:24 final size:24
Alignment explanation
Indices: 43849820--43849869 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
43849810 AAAACCCATT
*
43849820 AAACATTGCAGATAAAAGTTGCTC
1 AAACAATGCAGATAAAAGTTGCTC
43849844 AAACAATGCAGATAAAAGTTGCTC
1 AAACAATGCAGATAAAAGTTGCTC
43849868 AA
1 AA
43849870 TGTAGATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (24 bp):
AAACAATGCAGATAAAAGTTGCTC
Found at i:43850031 original size:34 final size:34
Alignment explanation
Indices: 43849993--43850057 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
43849983 CATTACGGTA
* *
43849993 GCAATCATTATGCTTATAATAGTTTGATTCAGTG
1 GCAATCATTATGCCTATAACAGTTTGATTCAGTG
* *
43850027 GCAATTATTATGCCTATAACATTTTGATTCA
1 GCAATCATTATGCCTATAACAGTTTGATTCA
43850058 ATAGCAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (34 bp):
GCAATCATTATGCCTATAACAGTTTGATTCAGTG
Found at i:43850603 original size:8 final size:8
Alignment explanation
Indices: 43850590--43850614 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43850580 TTTTAAATAA
43850590 TATTTTAT
1 TATTTTAT
43850598 TATTTTAT
1 TATTTTAT
43850606 TATTTTAT
1 TATTTTAT
43850614 T
1 T
43850615 GTTTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:43857135 original size:18 final size:18
Alignment explanation
Indices: 43857112--43857149 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
43857102 GCTCCACGAC
43857112 TTTTTTAAGCAGGTTCTA
1 TTTTTTAAGCAGGTTCTA
*
43857130 TTTTTTAAGTAGGTTCTA
1 TTTTTTAAGCAGGTTCTA
43857148 TT
1 TT
43857150 GTTGGTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (18 bp):
TTTTTTAAGCAGGTTCTA
Found at i:43869989 original size:19 final size:21
Alignment explanation
Indices: 43869965--43870003 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
43869955 TATTTTAAAC
43869965 ATTTTGTTA-ATTA-AAATAA
1 ATTTTGTTATATTATAAATAA
43869984 ATTTTGTTATATTATAAATA
1 ATTTTGTTATATTATAAATA
43870004 TTTTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTTTGTTATATTATAAATAA
Found at i:43870006 original size:19 final size:19
Alignment explanation
Indices: 43869953--43870012 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
43869943 TATATATATA
* *
43869953 TATATTTTAAACATTTTGT
1 TATATTATAAATATTTTGT
43869972 TA-ATTA-AAATAAATTTTGT
1 TATATTATAAAT--ATTTTGT
*
43869991 TATATTATAAATATTTTTT
1 TATATTATAAATATTTTGT
43870010 TAT
1 TAT
43870013 TTAAAACATC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 20 0.59
20 4 0.12
21 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (19 bp):
TATATTATAAATATTTTGT
Found at i:43874526 original size:22 final size:22
Alignment explanation
Indices: 43874498--43874541 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
43874488 TAGACTCAAC
43874498 GATATTATCAAAAAGTACCAAA
1 GATATTATCAAAAAGTACCAAA
43874520 GATATTATCAAAAAGTACCAAA
1 GATATTATCAAAAAGTACCAAA
43874542 TTAGTTGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.23
Consensus pattern (22 bp):
GATATTATCAAAAAGTACCAAA
Found at i:43882013 original size:43 final size:43
Alignment explanation
Indices: 43881877--43882017 Score: 176
Period size: 43 Copynumber: 3.3 Consensus size: 43
43881867 CGAGCATGTT
* * *
43881877 GTGGCGTTTGTAGCTAGAATCACCA-CAAAAGATCATGTTCTTTA
1 GTGGCGTTTGTAG-TAAAAGCA-CAGCTAAAGATCATGTTCTTTA
* * * *
43881921 GTGACATTTGTAGTAAAAGCGCCGCTAAAGATCATGTTCTTTA
1 GTGGCGTTTGTAGTAAAAGCACAGCTAAAGATCATGTTCTTTA
* *
43881964 GCGGCGTTTGTAGTAAAAGCACAGCTAAAGATAATGTTCTTTA
1 GTGGCGTTTGTAGTAAAAGCACAGCTAAAGATCATGTTCTTTA
43882007 GTGGCGTTTGT
1 GTGGCGTTTGT
43882018 GGGACCACTA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.85
44 11 0.13
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
GTGGCGTTTGTAGTAAAAGCACAGCTAAAGATCATGTTCTTTA
Found at i:43882342 original size:12 final size:12
Alignment explanation
Indices: 43882325--43882349 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43882315 TATTTTCTTG
43882325 TGCTGCCTTTAC
1 TGCTGCCTTTAC
43882337 TGCTGCCTTTAC
1 TGCTGCCTTTAC
43882349 T
1 T
43882350 TCCTTCACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.32, G:0.16, T:0.44
Consensus pattern (12 bp):
TGCTGCCTTTAC
Found at i:43884036 original size:29 final size:30
Alignment explanation
Indices: 43884003--43884061 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
43883993 TTAGATTTTC
* *
43884003 ATGTATATAATTGC-ATTAAATTAAAGTTT
1 ATGTATACAATTGCAATTAAATCAAAGTTT
43884032 ATGTATACAATTGCAGATTAAATCAAAGTT
1 ATGTATACAATTGCA-ATTAAATCAAAGTT
43884062 CATGCATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 13 0.50
31 13 0.50
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (30 bp):
ATGTATACAATTGCAATTAAATCAAAGTTT
Found at i:43884072 original size:29 final size:27
Alignment explanation
Indices: 43884009--43884072 Score: 65
Period size: 31 Copynumber: 2.2 Consensus size: 27
43883999 TTTCATGTAT
* * *
43884009 ATAATTGCATTAAATTAAAGTTTATGT
1 ATAATTGCATTAAATCAAAGTTCATGC
43884036 ATACAATTGCAGATTAAATCAAAGTTCATGC
1 AT--AATTGC--ATTAAATCAAAGTTCATGC
43884067 ATAATT
1 ATAATT
43884073 TGTTAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.07
29 10 0.33
31 18 0.60
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (27 bp):
ATAATTGCATTAAATCAAAGTTCATGC
Found at i:43884787 original size:14 final size:14
Alignment explanation
Indices: 43884756--43884800 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
43884746 TTAGCCCATC
*
43884756 GCAGTATCAG-TA-
1 GCAGTAACAGATAT
43884768 GCAGTAACAGATAT
1 GCAGTAACAGATAT
43884782 GCAGTAACAGATAT
1 GCAGTAACAGATAT
43884796 GCAGT
1 GCAGT
43884801 CACAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 9 0.30
13 2 0.07
14 19 0.63
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (14 bp):
GCAGTAACAGATAT
Found at i:43888233 original size:24 final size:24
Alignment explanation
Indices: 43888206--43888257 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
43888196 ATATGTAAGT
*
43888206 ATAATTATAATACTATATAAT-ATA
1 ATAATGATAATACTA-ATAATAATA
*
43888230 ATAATGATAATAGTAATAATAATA
1 ATAATGATAATACTAATAATAATA
43888254 ATAA
1 ATAA
43888258 CAAAAACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (24 bp):
ATAATGATAATACTAATAATAATA
Found at i:43888249 original size:3 final size:3
Alignment explanation
Indices: 43888206--43888257 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
43888196 ATATGTAAGT
* * * *
43888206 ATA ATT ATA ATA CTA TATA AT- ATA ATA ATG ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
43888251 ATA ATA A
1 ATA ATA A
43888258 CAAAAACTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:43890018 original size:44 final size:45
Alignment explanation
Indices: 43889923--43890018 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 45
43889913 AAGACTTGTA
** * * *
43889923 TCTTCGATCTACTTCACCACCAATATGGGAAGAGAAGATCTGTTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATATGCTT
* * *
43889968 TTTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATATGCTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATATGCTT
43890012 TCTTCGA
1 TCTTCGA
43890019 CCGATTCCAC
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 27 0.64
45 15 0.36
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATATGCTT
Found at i:43890200 original size:132 final size:132
Alignment explanation
Indices: 43890022--43890560 Score: 848
Period size: 132 Copynumber: 4.1 Consensus size: 132
43890012 TCTTCGACCG
* ** * * *
43890022 ATTCCACTGCTGACTGGAGGAA-TAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGA
1 ATTCCACTGCTGCCCAG-GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA
*
43890086 GGTAAAA-TCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCA
65 GGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCA
*
43890150 ATTT
129 ATCT
*
43890154 ATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
* * * *
43890219 GTAAAATTCACCATCATTGATCTGCTCCACTATTGCTTGGGGAGACAAGATCTGAAGTCTTCAAT
66 GTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
43890284 CT
131 CT
* *
43890286 ATTCCTACTGTTGCCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA
1 ATTCC-ACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA
*
43890351 GGTAAAATTCACCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
65 GGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
43890416 TCT
130 TCT
* *
43890419 ATTCCACTACTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGAGAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
* *
43890484 GTAAAATTCACCATATTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTAAAATCTTCAAT
66 GTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
43890549 CT
131 CT
*
43890551 ATTCAACTGC
1 ATTCCACTGC
43890561 AATGTTAGGG
Statistics
Matches: 374, Mismatches: 30, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
131 3 0.01
132 245 0.66
133 126 0.34
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
GTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
CT
Found at i:43890385 original size:265 final size:264
Alignment explanation
Indices: 43890040--43890554 Score: 872
Period size: 265 Copynumber: 1.9 Consensus size: 264
43890030 GCTGACTGGA
* *
43890040 GGAATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTT
1 GGAATAGAATTACTGGCTTCAATATACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTT
* * *
43890105 GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATTTATTCCACTGCTGCCCA
66 GATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCA
*
43890170 GGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCA
131 GGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATTCACCAT-A
* * * *
43890235 -TTGATCTGCTCCACTATTGCTTGGGGAGACAAGATCTGAAGTCTTCAATCTATTCCTACTGTTG
195 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTAAAATCTTCAATCTATTCCTACTGTTG
43890299 CCTAG
260 CCTAG
* *
43890304 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCT
1 GGAA-TAGAATTACTGGCTTCAATATACTCCACTGCAACCACAGGGAGGTAAAATCT-ACCATCT
43890368 TTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCC
64 TTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCC
*
43890433 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATTCACCAT
129 CAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATTCACCAT
43890498 ATTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTAAAATCTTCAATCTATTC
194 ATTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTAAAATCTTCAATCTATTC
43890555 AACTGCAATG
Statistics
Matches: 235, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
264 6 0.03
265 229 0.97
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (264 bp):
GGAATAGAATTACTGGCTTCAATATACTCCACTGCAACCACAGGGAGGTAAAATCTACCATCTTT
GATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCA
GGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATTCACCATAT
TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTAAAATCTTCAATCTATTCCTACTGTTGC
CTAG
Found at i:43890599 original size:50 final size:50
Alignment explanation
Indices: 43890542--43891048 Score: 267
Period size: 50 Copynumber: 10.1 Consensus size: 50
43890532 GATCTAAAAT
* * *
43890542 CTTCAATCTATTCAACTGCAATGTTAGGGAAACCAGATTCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACAAGATCCGCCGTCGTAG
* * ** * ** * *
43890592 CTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACAAGATCCGCCGTCGTAG
* * * * ** * *
43890642 CTTCAATCTTTTTAATTGCAATGTTCGAAAAACTAGATCCGCTGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACAAGATCCGCCGTCGTAG
* * * * ** * ** ** * *
43890692 TTTCAATCTATTCCATTGCGCTGCTAAAGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACAAGATCCGCCGTCGTAG
* * * * * * * * *
43890742 CTTCAATCTTTTTAATTACAATATCAGGGAAACCAGATCTGCCATCGTAG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACAAGATCCGCCGTCGTAG
* * * * ** * *
43890792 CTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACAAGATCCGCCGTCGTAG
* * * * * *
43890842 CTTCAATCTTTTTAATTGCAATATTAAGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACAAGATCCGCCGTCGTAG
* * * * ** * * * *
43890892 CTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCACCATTGTGG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACAAGATCCGCCGTCGTAG
* * * * * * * *
43890942 CTTCAATTTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCATAG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACAAGATCCGCCGTCGTAG
* * * * ** * * *
43890992 CTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCGCCATTGTGG
1 CTTCAATCTGTTCAACTGCAATGTTAGGGAAACAAGATCCGCCGTCGTAG
43891042 CTTCAAT
1 CTTCAAT
43891049 TTTTNNNNNN
Statistics
Matches: 315, Mismatches: 142, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
50 315 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCAATGTTAGGGAAACAAGATCCGCCGTCGTAG
Found at i:43890649 original size:100 final size:100
Alignment explanation
Indices: 43890542--43891052 Score: 729
Period size: 100 Copynumber: 5.1 Consensus size: 100
43890532 GATCTAAAAT
* * * * *
43890542 CTTCAATCTATTCAACTGCAATGTTAGGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
* * *
43890607 CCGCACCG-TCAGGGAAGTAAGATCCGCCGTTGTGG
66 CTGCACTGCT-AAGGAAGTAAGATCCGCCGTTGTGG
* * ** * * * *
43890642 CTTCAATCTTTTTAATTGCAATGTTCGAAAAACTAGATCCGCTGTCGTAGTTTCAATCTATTCCA
1 CTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
* * *
43890707 TTGCGCTGCTAAAGAAGTAAGATCCGCCGTTGTGG
66 CTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGG
* * * *
43890742 CTTCAATCTTTTTAATTACAATATCAGGGAAACCAGATCTGCCATCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
43890807 CTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGG
66 CTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGG
*
43890842 CTTCAATCTTTTTAATTGCAATATTAAGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
* *
43890907 CTGCACTGCTAAGGAAGTAAGATCCACCATTGTGG
66 CTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGG
* * *
43890942 CTTCAATTTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCATAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
*
43891007 CTGCACTGCTAAGGAAGTAAGATCCGCCATTGTGG
66 CTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGG
43891042 CTTCAAT-TTTT
1 CTTCAATCTTTT
43891053 NNNNNNNNNN
Statistics
Matches: 366, Mismatches: 44, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
99 4 0.01
100 361 0.99
101 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
CTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGG
Found at i:43892560 original size:7 final size:7
Alignment explanation
Indices: 43892550--43892584 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
43892540 CCGGTTTTAC
43892550 TTTTTCA
1 TTTTTCA
43892557 TTTTTCA
1 TTTTTCA
43892564 -TTTTCA
1 TTTTTCA
43892570 TCTTTTCA
1 T-TTTTCA
43892578 TTTTTCA
1 TTTTTCA
43892585 CATCACTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:43892567 original size:14 final size:15
Alignment explanation
Indices: 43892550--43892584 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
43892540 CCGGTTTTAC
43892550 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
43892564 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
43892578 TTTTTCA
1 TTTTTCA
43892585 CATCACTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 6 0.32
15 6 0.32
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:43898603 original size:19 final size:20
Alignment explanation
Indices: 43898561--43898604 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
43898551 ATTTTTTACG
* *
43898561 ATTTTTATAAAATTTATTGT
1 ATTTTTATAAAAGTTATTAT
43898581 -TTTTTATAAAAGTT-TTAT
1 ATTTTTATAAAAGTTATTAT
43898599 ATTTTT
1 ATTTTT
43898605 TTCTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
ATTTTTATAAAAGTTATTAT
Found at i:43898633 original size:18 final size:19
Alignment explanation
Indices: 43898594--43898645 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
43898584 TTATAAAAGT
* *
43898594 TTTATATTTTT-TTCTAAT
1 TTTAAATTTTTATTCTAAA
43898612 TTTAAATTTTTATT-TAAA
1 TTTAAATTTTTATTCTAAA
43898630 TTTAACAATTTTTATT
1 TTT-A-AATTTTTATT
43898646 GATTTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 16 0.55
19 3 0.10
20 10 0.34
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTAAATTTTTATTCTAAA
Found at i:43908501 original size:18 final size:20
Alignment explanation
Indices: 43908448--43908503 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 20
43908438 AACTTTAAAA
*
43908448 ATTAAAAAAATATTAATAATC
1 ATTAAAAAAAT-TAAATAATC
**
43908469 ATTTAAAAATTTTAAAT-AT-
1 A-TTAAAAAAATTAAATAATC
43908488 ATTAAAAAAATTAAAT
1 ATTAAAAAAATTAAAT
43908504 TTTAGTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 13 0.45
19 1 0.03
20 2 0.07
21 5 0.17
22 8 0.28
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTAAAAAAATTAAATAATC
Found at i:43909507 original size:10 final size:11
Alignment explanation
Indices: 43909494--43909540 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
43909484 TTTTTTTTTC
43909494 AATTTTTT-AT
1 AATTTTTTAAT
43909504 AATTCTTTTAAT
1 AATT-TTTTAAT
*
43909516 AA-TTATTAAT
1 AATTTTTTAAT
43909526 -ATTTTTTAAT
1 AATTTTTTAAT
43909536 AATTT
1 AATTT
43909541 CTAAATTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
9 1 0.03
10 17 0.55
11 9 0.29
12 4 0.13
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
AATTTTTTAAT
Found at i:43909664 original size:22 final size:21
Alignment explanation
Indices: 43909635--43909676 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
43909625 TTATTTTATA
**
43909635 ATTTTTAATTTTTTTAAAAAT
1 ATTTTTAATCATTTTAAAAAT
43909656 ATTTATTAATCATTTTAAAAA
1 ATTT-TTAATCATTTTAAAAA
43909677 AAAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTAATCATTTTAAAAAT
Found at i:43916752 original size:6 final size:7
Alignment explanation
Indices: 43916733--43916759 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
43916723 ATTTTTAAAA
43916733 TATTTTT
1 TATTTTT
43916740 TATTTTT
1 TATTTTT
43916747 TATTTTT
1 TATTTTT
43916754 TATTTT
1 TATTTT
43916760 AATATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:43925071 original size:19 final size:20
Alignment explanation
Indices: 43925049--43925093 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
43925039 ATTTATATAC
*
43925049 ATATCAAACACA-ATTTCGA
1 ATATCAAACACATATTTCAA
* *
43925068 ATATTAATCACATATTTCAA
1 ATATCAAACACATATTTCAA
43925088 ATATCA
1 ATATCA
43925094 CCAATCAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATCAAACACATATTTCAA
Found at i:43933325 original size:3 final size:3
Alignment explanation
Indices: 43933317--43933350 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
43933307 TTTTTAATCC
43933317 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
43933351 ATTCTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:43937391 original size:57 final size:57
Alignment explanation
Indices: 43937292--43937400 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
43937282 GATCCTATCC
*
43937292 TGATATAGCCCTCCCGAAGAATATGTGTGAAAAAGATCTAGCCAGGATGGGTGATCT
1 TGATATAGCCCTCCCGAAGAATATGTGTGAAAAAGATCTAGCCAGGACGGGTGATCT
* * * *
43937349 TGATATATCCCTCCCGAAGAATATGTG-GAAAATGGATTTAGCCCGGACGGGT
1 TGATATAGCCCTCCCGAAGAATATGTGTGAAAA-AGATCTAGCCAGGACGGGT
43937401 AATTCGAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 5 0.11
57 41 0.89
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (57 bp):
TGATATAGCCCTCCCGAAGAATATGTGTGAAAAAGATCTAGCCAGGACGGGTGATCT
Found at i:43943074 original size:19 final size:17
Alignment explanation
Indices: 43943034--43943082 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 17
43943024 TAAAAAAATT
*
43943034 ATAATAAATAATAATAATA
1 ATAATAAA-AA-AATAACA
43943053 ATATATAACAAAAATAACA
1 ATA-ATAA-AAAAATAACA
43943072 ATAATAAAAAA
1 ATAATAAAAAA
43943083 TAGAGAGGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 4 0.15
18 4 0.15
19 12 0.44
20 6 0.22
21 1 0.04
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAATAAAAAAATAACA
Found at i:43945137 original size:89 final size:89
Alignment explanation
Indices: 43944400--43945109 Score: 876
Period size: 89 Copynumber: 8.0 Consensus size: 89
43944390 ACAAGTCTTC
* * *
43944400 CCTCCCTGGGTTTGCAACGGAGCAGACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGA
1 CCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGA
*
43944465 AGCAGATC---G--ACCAGTCTTG
66 AGCAGATCGAAGACACCAGCCTTG
* * * *
43944484 CCTTCCTAGGTTTGTAGCGGAGCAGACTGAAGATAGCATATCTTGCCTTCCTGTACTGGCAGCGA
1 CCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGA
* * *
43944549 AACAGATTGAAGACACTAGCCTTG
66 AGCAGATCGAAGACACCAGCCTTG
* * *
43944573 CCTCCCTGGGTTTGCGGCGGAGCAGACTG-ATATAGCAGATCTTGCCTTCCTGTACTGACAGCGA
1 CCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGA
* * *
43944637 AGTAGATGGAAGACACCAGCCTTA
66 AGCAGATCGAAGACACCAGCCTTG
* *
43944661 CCTCTCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGCACTGGCAGCGA
1 CCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGA
*
43944726 AGCAGATCGAAGACACCAGTCTTG
66 AGCAGATCGAAGACACCAGCCTTG
** * * ** * * **
43944750 CCTCCCTGGGTTTGCAGCGGATTAAACTGAAAACCGCAGATCTTGCCTTTCTATACTGATAGCGA
1 CCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGA
*
43944815 AGCAGATCGAAGACACCACCCTTG
66 AGCAGATCGAAGACACCAGCCTTG
* * * * ** * * * **
43944839 CCTCCCTGGATTTGCAGTGGAGCAAACTGAAAACCGTAGATATTGCCTTCCTATACTGATAGCGA
1 CCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGA
43944904 AGCAGATCGAAGACACCAGCCTTG
66 AGCAGATCGAAGACACCAGCCTTG
* * * *
43944928 CATCCCTGAGTTTGCAGCGGAACAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGA
1 CCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGA
* * *
43944993 AGCAGATTGAAGACACCAACTTTG
66 AGCAGATCGAAGACACCAGCCTTG
* * * * *
43945017 CCTCACTGGGTTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTGTCTTCCTGTACTGGCAGCGA
1 CCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGA
43945082 AGCAGATCGACA-ACACCAGCCTTG
66 AGCAGATCGA-AGACACCAGCCTTG
43945106 CCTC
1 CCTC
43945110 TCTGAGTTCA
Statistics
Matches: 535, Mismatches: 84, Indels: 9
0.85 0.13 0.01
Matches are distributed among these distances:
84 64 0.12
87 1 0.00
88 78 0.15
89 391 0.73
90 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (89 bp):
CCTCCCTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGA
AGCAGATCGAAGACACCAGCCTTG
Found at i:43946730 original size:22 final size:24
Alignment explanation
Indices: 43946679--43946736 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
43946669 ATAATAAACT
*
43946679 ATTATTTTT-AAATTATTACTAAC
1 ATTATTTTTAAAATTATCACTAAC
43946702 A-TA-TTTTAAAATTATCA-T-AC
1 ATTATTTTTAAAATTATCACTAAC
43946722 ATTATTTTTTAAAAT
1 ATTA-TTTTTAAAAT
43946737 CCATTATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 3 0.10
21 7 0.23
22 10 0.33
23 10 0.33
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTATTTTTAAAATTATCACTAAC
Found at i:43948225 original size:29 final size:29
Alignment explanation
Indices: 43948193--43948251 Score: 66
Period size: 30 Copynumber: 2.0 Consensus size: 29
43948183 ATAAAAAATA
43948193 CAAAAAAAT-AAAAATTATGTTTTGGCCCC
1 CAAAAAAATCAAAAATTATGTTTT-GCCCC
****
43948222 CAAACTTTTCAAAAATTATGTTTTGCCCC
1 CAAAAAAATCAAAAATTATGTTTTGCCCC
43948251 C
1 C
43948252 TAACTTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.32
Consensus pattern (29 bp):
CAAAAAAATCAAAAATTATGTTTTGCCCC
Found at i:43948267 original size:29 final size:30
Alignment explanation
Indices: 43948202--43948259 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
43948192 ACAAAAAAAT
43948202 AAAAATTATGTTTTGGCCCCCAAACTTTTC
1 AAAAATTATGTTTTGGCCCCCAAACTTTTC
*
43948232 AAAAATTATGTTTT-GCCCCCTAACTTTT
1 AAAAATTATGTTTTGGCCCCCAAACTTTT
43948260 TCTAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (30 bp):
AAAAATTATGTTTTGGCCCCCAAACTTTTC
Found at i:43948953 original size:25 final size:25
Alignment explanation
Indices: 43948925--43948978 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
43948915 AGGAGGGAAG
* *
43948925 AAGAAAGGAGAGAAAA-AAATAGAAA
1 AAGAAAGAAAAGAAAATAAA-AGAAA
*
43948950 AAGAAAGAAAAGAAAATAAAATAAA
1 AAGAAAGAAAAGAAAATAAAAGAAA
43948975 AAGA
1 AAGA
43948979 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.06
Consensus pattern (25 bp):
AAGAAAGAAAAGAAAATAAAAGAAA
Found at i:43948985 original size:17 final size:17
Alignment explanation
Indices: 43948957--43948992 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
43948947 AAAAAGAAAG
43948957 AAAAGAAAAT-AAAATA
1 AAAAGAAAATAAAAATA
43948973 AAAAGATAAATAAAAATA
1 AAAAGA-AAATAAAAATA
43948991 AA
1 AA
43948993 TCAGTCGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 8 0.44
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAAGAAAATAAAAATA
Found at i:43949144 original size:17 final size:18
Alignment explanation
Indices: 43949111--43949146 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
43949101 AGCCCAAGAG
43949111 AAAAAAAACAAGCAGCAAA
1 AAAAAAAACAA-CAGCAAA
43949130 AAAAAAAACAA-AGCAAA
1 AAAAAAAACAACAGCAAA
43949147 GCAGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.78, C:0.14, G:0.08, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAACAGCAAA
Found at i:43949773 original size:17 final size:17
Alignment explanation
Indices: 43949746--43949791 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
43949736 AAAAAAATCG
43949746 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
*
43949763 TGTCTTCAAAATTTCTCG
1 TGT-TTCAAAATTTCTCA
43949781 TGTTTCAAAAT
1 TGTTTCAAAAT
43949792 AATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:43949912 original size:17 final size:17
Alignment explanation
Indices: 43949883--43949933 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
43949873 TTTTCAAAAA
43949883 AAAAATTTCTCGTGTTTC
1 AAAAATTT-TCGTGTTTC
*
43949901 AAAAATTTTCGTATTTTC
1 AAAAATTTTCGT-GTTTC
*
43949919 -AAAATTTTCATGTTT
1 AAAAATTTTCGTGTTT
43949934 TCGTGTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 3 0.10
17 14 0.48
18 12 0.41
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:43950050 original size:18 final size:18
Alignment explanation
Indices: 43949883--43950331 Score: 104
Period size: 18 Copynumber: 23.8 Consensus size: 18
43949873 TTTTCAAAAA
43949883 AAAAATTTCTCGTG-TTTC
1 AAAAATTT-TCGTGTTTTC
*
43949901 AAAAATTTTCGTATTTTC
1 AAAAATTTTCGTGTTTTC
43949919 AAAATTTTCATGTTTTCGTGTTTTC
1 AAAA-----A--TTTTCGTGTTTTC
* * *
43949944 AAAAAATTCTCTTGTTTTTTTA
1 -AAAAATT-T-TCG-TGTTTTC
*** *
43949966 AAAAAAACTCGTG-TTTA
1 AAAAATTTTCGTGTTTTC
* *
43949983 AAAAAATTT-ATGTTTTC
1 AAAAATTTTCGTGTTTTC
*
43950000 -AAAACTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
** *
43950017 AAAAATTTTTATGTTTTT
1 AAAAATTTTCGTGTTTTC
*
43950035 AAAAATTTTCGCGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
43950053 AAAAAAAAAATCTCGTG-TTTC
1 ----AAAAATTTTCGTGTTTTC
43950074 --AAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
43950090 AAAAATTTCTCGT-ATTTC
1 AAAAATTT-TCGTGTTTTC
* *
43950108 AAAAAATTTCACTTTTTGTGTTTGTA
1 --AAAA----A-TTTTCGTGTTT-TC
43950134 AAAAATTTTTCGTG-TTTC
1 AAAAA-TTTTCGTGTTTTC
**
43950152 AAAAATATTCTCG-CATTTC
1 AAAAAT-TT-TCGTGTTTTC
* *
43950171 AAAATTTTTTAAATCATG-TTTC
1 AAAA--ATTT---TCGTGTTTTC
* *
43950193 AAAAAAAATGTCGTGTTTT-
1 --AAAAATTTTCGTGTTTTC
*
43950212 AAAAATTTTCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
* * *
43950229 TAAAATTTCCCTGTTTT-
1 AAAAATTTTCGTGTTTTC
** *
43950246 AAAAATTCCCGTGTTTTTAA
1 AAAAATTTTCGTG-TTTT-C
* *
43950266 AAAAAATGTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
43950283 AAAAATTTTCGTG-TTT-
1 AAAAATTTTCGTGTTTTC
* *
43950299 ACAAATTCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
43950317 AAAAATTCTCGTGTT
1 AAAAATTTTCGTGTT
43950332 AAAAAAAAAC
Statistics
Matches: 317, Mismatches: 64, Indels: 100
0.66 0.13 0.21
Matches are distributed among these distances:
15 9 0.03
16 27 0.09
17 72 0.23
18 86 0.27
19 25 0.08
20 28 0.09
21 13 0.04
22 22 0.07
23 1 0.00
24 12 0.04
25 17 0.05
26 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:43950155 original size:19 final size:19
Alignment explanation
Indices: 43950077--43950156 Score: 54
Period size: 19 Copynumber: 3.9 Consensus size: 19
43950067 GTGTTTCAAA
43950077 TTTTCGTGTTTTC-AAAAAT
1 TTTTCGTG-TTTCAAAAAAT
* *
43950096 TTCTCGTATTTCAAAAAATTT
1 TTTTCGTGTTTCAAAAAA--T
* *
43950117 CACTTTTTGTGTTTGTAAAAAAT
1 ---TTTTCGTGTTT-CAAAAAAT
43950140 TTTTCGTGTTTCAAAAA
1 TTTTCGTGTTTCAAAAA
43950157 TATTCTCGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
18 4 0.09
19 16 0.35
20 10 0.22
21 1 0.02
23 1 0.02
24 8 0.17
25 6 0.13
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (19 bp):
TTTTCGTGTTTCAAAAAAT
Found at i:43950217 original size:16 final size:16
Alignment explanation
Indices: 43950196--43950331 Score: 87
Period size: 17 Copynumber: 7.9 Consensus size: 16
43950186 ATGTTTCAAA
*
43950196 AAAAATGTCGTGTTTT
1 AAAAATTTCGTGTTTT
*
43950212 AAAAATTTTCGTATTTCT
1 AAAAA-TTTCGTGTTT-T
*
43950230 -AAAATTTCCCTGTTTT
1 AAAAATTT-CGTGTTTT
*
43950246 AAAAATTCCCGTGTTTTT
1 AAAAATT-TCGTG-TTTT
* *
43950264 AAAAAAAATGTCGTGTTTC
1 ---AAAAATTTCGTGTTTT
43950283 AAAAATTTTCGTG-TTT
1 AAAAA-TTTCGTGTTTT
*
43950299 ACAAATTCTCGTGTTTT
1 AAAAATT-TCGTGTTTT
43950316 CAAAAATTCTCGTGTT
1 -AAAAATT-TCGTGTT
43950332 AAAAAAAAAC
Statistics
Matches: 94, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
15 2 0.02
16 25 0.27
17 35 0.37
18 19 0.20
19 3 0.03
20 4 0.04
21 6 0.06
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (16 bp):
AAAAATTTCGTGTTTT
Done.