Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 49 of 322
Found at i:14949310 original size:103 final size:105
Alignment explanation
Indices: 14949120--14949318 Score: 287
Period size: 103 Copynumber: 1.9 Consensus size: 105
14949110 CCCGATCAAA
* *
14949120 TTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTAGCATA
1 TTTTATAAAAACGACGCAAAAAATAAATCAATTTAT--AAAACAAAATAAAAAATTTTTAGAATA
*
14949185 GCAAAACGACGTCATTTTGTTCAAAATGAAATAGCGGCGTTT
64 GCAAAACGACATCATTTTGTTCAAAATGAAATAGCGGCGTTT
* * * *
14949227 TTTTATTAAAATGACGCAAAAAATAAATCAATTTAT-AAA-AAAATAAAAATTTTTTAGAATAGT
1 TTTTATAAAAACGACGCAAAAAATAAATCAATTTATAAAACAAAATAAAAAATTTTTAGAATAGC
14949290 AAAACTG-CATCATTTTGTTCAAAATGAAA
66 AAAAC-GACATCATTTTGTTCAAAATGAAA
14949319 ATTTCTTTGT
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
103 47 0.56
104 4 0.05
107 33 0.39
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.31
Consensus pattern (105 bp):
TTTTATAAAAACGACGCAAAAAATAAATCAATTTATAAAACAAAATAAAAAATTTTTAGAATAGC
AAAACGACATCATTTTGTTCAAAATGAAATAGCGGCGTTT
Found at i:14952800 original size:43 final size:43
Alignment explanation
Indices: 14952735--14953018 Score: 364
Period size: 43 Copynumber: 6.7 Consensus size: 43
14952725 AGAAGCATCA
* *
14952735 CTAAAGGT-TT-ATTCTATAGCGGCGTTTTTCGATAAAAGCGCCG
1 CTAAAGGTCTTGA-TCTATAGCGGCGTTTGT-GAGAAAAGCGCCG
*
14952778 CTAAAGGTCTTGATCTAT-GCGGCGTTTGT-AGAAAAAGCGCTG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTGTGAG-AAAAGCGCCG
* * *
14952820 CTAAAGGTCTTGATCTACAGCGGCGTTTGTGGGAAAATCGCCG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGAAAAGCGCCG
* *
14952863 CTAAAGGTCTTGAGCTATAGCGGCGTTTGTTG-TAAAAGCGCCG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTG-TGAGAAAAGCGCCG
* *
14952906 CTAAAGATCTTGATCTATAGCGGCGTTTATG-GAAAAGCGCCG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGAAAAGCGCCG
* *
14952948 CTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGGAAAGTGCCG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGAAAAGCGCCG
* *
14952991 CTAAAGGTCATGGTCTATAGCGGCGTTT
1 CTAAAGGTCTTGATCTATAGCGGCGTTT
14953019 ATTTCCAAAA
Statistics
Matches: 213, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.00
42 67 0.31
43 134 0.63
44 10 0.05
45 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
CTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGAAAAGCGCCG
Found at i:14952863 original size:85 final size:84
Alignment explanation
Indices: 14952735--14953020 Score: 371
Period size: 85 Copynumber: 3.4 Consensus size: 84
14952725 AGAAGCATCA
* *
14952735 CTAAAGGT-TT-ATTCTATAGCGGCGTTTTTCGATAAAAGCGCCGCTAAAGGTCTTGATCTAT-G
1 CTAAAGGTCTTGA-TCTATAGCGGCGTTTAT-G-GAAAAGCGCCGCTAAAGGTCTTGATCTATAG
*
14952797 CGGCGTTTGTAGAAAAAGCGCTG
63 CGGCGTTTGT-GAAAAAGCGCCG
* * * *
14952820 CTAAAGGTCTTGATCTACAGCGGCGTTTGTGGGAAAATCGCCGCTAAAGGTCTTGAGCTATAGCG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTAT-GGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCG
*
14952885 GCGTTTGTTGTAAAAGCGCCG
65 GCGTTTG-TGAAAAAGCGCCG
*
14952906 CTAAAGATCTTGATCTATAGCGGCGTTTATGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTATGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGG
* *
14952971 CGTTTGTGAGGAAAGTGCCG
66 CGTTTGTGA-AAAAGCGCCG
* *
14952991 CTAAAGGTCATGGTCTATAGCGGCGTTTAT
1 CTAAAGGTCTTGATCTATAGCGGCGTTTAT
14953021 TTCCAAAAAT
Statistics
Matches: 177, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
84 2 0.01
85 108 0.61
86 65 0.37
87 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (84 bp):
CTAAAGGTCTTGATCTATAGCGGCGTTTATGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGG
CGTTTGTGAAAAAGCGCCG
Found at i:14952942 original size:128 final size:129
Alignment explanation
Indices: 14952747--14953018 Score: 410
Period size: 128 Copynumber: 2.1 Consensus size: 129
14952737 AAAGGTTTAT
* *
14952747 TCTATAGCGGCGTTTTTCGATAAAAGCGCCGCTAAAGGTCTTGATCTATGCGGCGTTTGTAGAAA
1 TCTATAGCGGCGTTTTTCGATAAAAGCGCCGCTAAAGATCTTGATCTATGCGGCGTTTATAGAAA
* *
14952812 AAGCGCTGCTAAAGGTCTTGATCTACAGCGGCGTTTGTG-GGAAAATCGCCGCTAAAGGTCTTGA
66 AAGCGCCGCTAAAGGTCTTGATCTACAGCGGCGTTTGTGAGGAAAAT-GCCGCTAAAGGTCATG-
14952876 G
129 G
*
14952877 -CTATAGCGGCGTTTGTT-G-TAAAAGCGCCGCTAAAGATCTTGATCTATAGCGGCGTTTAT-GG
1 TCTATAGCGGCGTTT-TTCGATAAAAGCGCCGCTAAAGATCTTGATCTAT-GCGGCGTTTATAGA
* *
14952938 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGGAAAGTGCCGCTAAAGGTCATG
64 AAAAGCGCCGCTAAAGGTCTTGATCTACAGCGGCGTTTGTGAGGAAAATGCCGCTAAAGGTCATG
14953003 G
129 G
14953004 TCTATAGCGGCGTTT
1 TCTATAGCGGCGTTT
14953019 ATTTCCAAAA
Statistics
Matches: 131, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
127 1 0.01
128 97 0.74
129 31 0.24
130 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (129 bp):
TCTATAGCGGCGTTTTTCGATAAAAGCGCCGCTAAAGATCTTGATCTATGCGGCGTTTATAGAAA
AAGCGCCGCTAAAGGTCTTGATCTACAGCGGCGTTTGTGAGGAAAATGCCGCTAAAGGTCATGG
Found at i:14958896 original size:25 final size:27
Alignment explanation
Indices: 14958836--14958896 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
14958826 AAAGGTTATC
* *
14958836 AAATGACCGAAATACCCTTGAAGGGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
14958863 AAATGACCAAAATACCC-CGAA-GGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
*
14958888 AAATTACCA
1 AAATGACCA
14958897 TTTTACCCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 12 0.39
26 3 0.10
27 16 0.52
ACGTcount: A:0.46, C:0.21, G:0.16, T:0.16
Consensus pattern (27 bp):
AAATGACCAAAATACCCTCGAAGGGTA
Found at i:14962542 original size:22 final size:21
Alignment explanation
Indices: 14962480--14962542 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
14962470 GGAGGAAGTG
*
14962480 TATGGCTTGTAGCCGTTCTGT
1 TATGGCTTTTAGCCGTTCTGT
* *
14962501 TCAAGGCTTTCT-GCCTTTCTGCT
1 T-ATGGCTTT-TAGCCGTTCTG-T
14962524 TATGGCTTTTAGCCGTTCT
1 TATGGCTTTTAGCCGTTCT
14962543 ATTAACTGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 2 0.06
22 28 0.85
23 3 0.09
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (21 bp):
TATGGCTTTTAGCCGTTCTGT
Found at i:14968270 original size:43 final size:43
Alignment explanation
Indices: 14968222--14968422 Score: 151
Period size: 43 Copynumber: 4.7 Consensus size: 43
14968212 GGACAACAAA
* *
14968222 AAGCAATTATACTGGCACGCGTAGTGCATCATCAGAAAAATCG
1 AAGCAATTATACTGGCACACGTAGTGCATCATCAGAAAAACCG
* * * * * ** *
14968265 GAGCAATTATGCT-G-ACACGTAGCGCATCAACGGATGAACCA
1 AAGCAATTATACTGGCACACGTAGTGCATCATCAGAAAAACCG
* * * ** * *
14968306 AAGAAAATATACTGG-AC-CGTAAGTACATCATTGGATATACCG
1 AAGCAATTATACTGGCACACGT-AGTGCATCATCAGAAAAACCG
**
14968348 AAGCAATTATACTGGCACATATAGTGCATCATCAGAAAAA-CG
1 AAGCAATTATACTGGCACACGTAGTGCATCATCAGAAAAACCG
* **
14968390 AAAGCAGTTATACTGGCACACACAGTGCATCAT
1 -AAGCAATTATACTGGCACACGTAGTGCATCAT
14968423 TGGATAAATC
Statistics
Matches: 120, Mismatches: 33, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
41 31 0.26
42 33 0.28
43 55 0.46
44 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (43 bp):
AAGCAATTATACTGGCACACGTAGTGCATCATCAGAAAAACCG
Found at i:14971469 original size:24 final size:24
Alignment explanation
Indices: 14971340--14971485 Score: 96
Period size: 26 Copynumber: 5.8 Consensus size: 24
14971330 CAGCTCTTAT
* *
14971340 GAGCGTCCCGTTATATGGCTCTTCAT
1 GAGCTTCCCGTTA-ATGGCTCTTC-G
* * *
14971366 GAGCTTCTCGATTAAAGGCTCTTTG
1 GAGCTTCCCG-TTAATGGCTCTTCG
* * *
14971391 TGAGCTTCCTGATTAATCGCTCTCCG
1 -GAGCTTCCCG-TTAATGGCTCTTCG
* * *
14971417 GAGCTTCCCGATATATGGCT-ATCTA
1 GAGCTTCCCGTTA-ATGGCTCTTC-G
*
14971442 GAGCTTCACGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
* *
14971466 GAGCTACCCGTTATTGGCTC
1 GAGCTTCCCGTTAATGGCTC
14971486 GCATGAGCTT
Statistics
Matches: 91, Mismatches: 24, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
24 26 0.29
25 27 0.30
26 35 0.38
27 3 0.03
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTCG
Found at i:14975898 original size:50 final size:50
Alignment explanation
Indices: 14975843--14975943 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
14975833 CCTATTGAGA
14975843 GAGAATTACTTTCTTACTAAAACTAATAAATCATTTTTGGTTTTGTGTTT
1 GAGAATTACTTTCTTACTAAAACTAATAAATCATTTTTGGTTTTGTGTTT
*
14975893 GAGAATTACTTTCTTACTGAAACTAATAAATCATTTTTGGTTTTGTGTTT
1 GAGAATTACTTTCTTACTAAAACTAATAAATCATTTTTGGTTTTGTGTTT
14975943 G
1 G
14975944 GTTCGTAATT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (50 bp):
GAGAATTACTTTCTTACTAAAACTAATAAATCATTTTTGGTTTTGTGTTT
Found at i:14980359 original size:40 final size:40
Alignment explanation
Indices: 14980121--14980345 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
14980111 TTGAATGATG
* * * *
14980121 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
14980161 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
14980201 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
14980240 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
14980280 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
14980321 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
14980346 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:14988276 original size:79 final size:81
Alignment explanation
Indices: 14988140--14988324 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
14988130 TTGAATGATG
*
14988140 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
14988204 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
14988219 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
14988281 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
14988299 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
14988325 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:14988338 original size:40 final size:40
Alignment explanation
Indices: 14988141--14988324 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
14988131 TGAATGATGT
* * * *
14988141 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
14988181 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
14988221 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
14988259 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
14988300 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
14988325 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:14988346 original size:79 final size:79
Alignment explanation
Indices: 14988141--14988357 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
14988131 TGAATGATGT
** * * * **
14988141 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
14988204 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
14988221 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
14988286 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
14988300 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
14988358 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:14996380 original size:15 final size:15
Alignment explanation
Indices: 14996337--14996382 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
14996327 AATATGCAAG
14996337 AAAAT-AAAATAGAAA
1 AAAATAAAAATA-AAA
*
14996352 AAAGTAAAATATAAAA
1 AAAATAAAA-ATAAAA
14996368 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
14996383 TTGGGTTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 10 0.37
16 14 0.52
17 3 0.11
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.15
Consensus pattern (15 bp):
AAAATAAAAATAAAA
Found at i:15003380 original size:67 final size:67
Alignment explanation
Indices: 15003199--15003380 Score: 256
Period size: 67 Copynumber: 2.7 Consensus size: 67
15003189 AGCCCGTCAG
* * * *
15003199 GACATTAAACATGGGGTATATACTATGTAAGAACATAGCTAGGCTATGGCAACAAAGGAAGTCCA
1 GACATTAAACATAGGG--TATACTGTGTAAGACCATAGCTAGGCTATGGCAACAAAAGAAGTCCA
*
15003264 CCAG
64 CCAA
* * * *
15003268 GACATTAAACATATGGTATATTGTGTAAGACCATAGCTAGACTATGGCAACAAAAGAAGTCCGCC
1 GACATTAAACATAGGGTATACTGTGTAAGACCATAGCTAGGCTATGGCAACAAAAGAAGTCCACC
15003333 AA
66 AA
*
15003335 GACATTAAACATAGGGTATACTGTGTAAGACCATAGCTGGGCTATG
1 GACATTAAACATAGGGTATACTGTGTAAGACCATAGCTAGGCTATG
15003381 ATGTCAGGTA
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
67 86 0.86
69 14 0.14
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (67 bp):
GACATTAAACATAGGGTATACTGTGTAAGACCATAGCTAGGCTATGGCAACAAAAGAAGTCCACC
AA
Found at i:15006305 original size:5 final size:5
Alignment explanation
Indices: 15006295--15006327 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
15006285 TATTTAGTAA
15006295 ATATT ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATA
15006328 AAAAATACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:15013343 original size:26 final size:26
Alignment explanation
Indices: 15013287--15013336 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
15013277 ATGGGGACAA
15013287 CAAAAGTCAGGGCTTGCTTATGAAAG
1 CAAAAGTCAGGGCTTGCTTATGAAAG
15013313 CAAAAGTCAGGGCTTGCTTATGAA
1 CAAAAGTCAGGGCTTGCTTATGAA
15013337 GCCAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (26 bp):
CAAAAGTCAGGGCTTGCTTATGAAAG
Found at i:15017255 original size:26 final size:26
Alignment explanation
Indices: 15017216--15017266 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
15017206 TTAGTTACCC
*
15017216 TAATTATAGGTTCTTATTCTACAAGT
1 TAATTATAGGTTCTTAGTCTACAAGT
* *
15017242 TAATTTTAGTTTCTTAGTCTACAAG
1 TAATTATAGGTTCTTAGTCTACAAG
15017267 AATAAAACCC
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:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (26 bp):
TAATTATAGGTTCTTAGTCTACAAGT
Found at i:15018754 original size:15 final size:15
Alignment explanation
Indices: 15018734--15018785 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
15018724 ACTACAAAAC
15018734 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
15018749 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
15018768 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
15018783 ATT
1 ATT
15018786 AATATTGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:15018914 original size:17 final size:18
Alignment explanation
Indices: 15018873--15018905 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15018863 AATATCAAAT
15018873 AATT-TATTAAAATAATA
1 AATTATATTAAAATAATA
15018890 AATTATATT-AAATAAT
1 AATTATATTAAAATAAT
15018906 TTATTATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTATATTAAAATAATA
Found at i:15024212 original size:25 final size:25
Alignment explanation
Indices: 15024184--15024256 Score: 66
Period size: 23 Copynumber: 3.1 Consensus size: 25
15024174 TAATACTACA
15024184 AATTAATAATATTATCCAAGTGCAT
1 AATTAATAATATTATCCAAGTGCAT
* *
15024209 AATTAGTAATA-CA-CCACA-TG-AT
1 AATTAATAATATTATCCA-AGTGCAT
* *
15024231 AACTAA-AATATTGTCCAAGTGCAT
1 AATTAATAATATTATCCAAGTGCAT
15024255 AA
1 AA
15024257 CTAGTATTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
21 4 0.11
22 7 0.19
23 10 0.27
24 6 0.16
25 10 0.27
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (25 bp):
AATTAATAATATTATCCAAGTGCAT
Found at i:15031289 original size:49 final size:49
Alignment explanation
Indices: 15031219--15031316 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
15031209 CGAACAAGGA
15031219 AAGTAATAGGAAAGTAGGGGAGCATTACAAAAACTTATCTATTTCTGAC
1 AAGTAATAGGAAAGTAGGGGAGCATTACAAAAACTTATCTATTTCTGAC
15031268 AAGTAATAGGAAAGTAGGGGAGCATTACAAAAACTTATCTATTTCTGAC
1 AAGTAATAGGAAAGTAGGGGAGCATTACAAAAACTTATCTATTTCTGAC
15031317 GTTCCCAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (49 bp):
AAGTAATAGGAAAGTAGGGGAGCATTACAAAAACTTATCTATTTCTGAC
Found at i:15034811 original size:9 final size:10
Alignment explanation
Indices: 15034794--15034821 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
15034784 AATGAAAGAT
15034794 TTAAAAAAAA
1 TTAAAAAAAA
15034804 TTAAAAAAAA
1 TTAAAAAAAA
15034814 TTAAAAAA
1 TTAAAAAA
15034822 TGAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:15034821 original size:18 final size:17
Alignment explanation
Indices: 15034798--15034836 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
15034788 AAAGATTTAA
*
15034798 AAAAAATTAAAAAAAATT
1 AAAAAATGAAAAAAAA-T
*
15034816 AAAAAATGAAATAAAAT
1 AAAAAATGAAAAAAAAT
15034833 AAAA
1 AAAA
15034837 GTGAATAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAAATGAAAAAAAAT
Found at i:15036511 original size:17 final size:18
Alignment explanation
Indices: 15036491--15036524 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15036481 TTTATTTAGC
15036491 TTTATTT-TTTATTTTTA
1 TTTATTTATTTATTTTTA
*
15036508 TTTATTTATTTGTTTTT
1 TTTATTTATTTATTTTT
15036525 TTCTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTATTTATTTATTTTTA
Found at i:15037109 original size:218 final size:218
Alignment explanation
Indices: 15036812--15037429 Score: 959
Period size: 218 Copynumber: 2.8 Consensus size: 218
15036802 TTGCTTCCTT
* *
15036812 GATCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCCACTTCAGA
1 GATCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGA
* * * * * * *
15036877 GAGATAAGATCTTTTATTTTAATCCACTCCACTGCAACTTCAGAGAGATAGGATTACTAGTTTCA
66 GAGATAAGATCTTTTATTTTAATACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACA
* * * * *
15036942 ATCTACTCTACTACTGCTTAGGGAGATAAGATTTGTCATCTTCAATCTGCTCCACTAATGCTTAA
131 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATCTTCGATCTGCTCCACTAATGCTTAA
15037007 GGAGATAAGATCTGTAATTCTTC
196 GGAGATAAGATCTGTAATTCTTC
*
15037030 -AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTTAG
1 GA-TCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAG
* * **
15037094 AGAGATAATATCTTTTATTTTAATTCGCTCCACTTTAACTTCAGGGAGATAGGATTACTGGCTAC
65 AGAGATAAGATCTTTTATTTTAATACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTAC
* * *
15037159 AATCTGCTCCACTACTGCTTAGGGAGATTAGATCTGCCATCTTCGATCTGCTCCGCTACTGCTTA
130 AATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATCTTCGATCTGCTCCACTAATGCTTA
* *
15037224 GGGAGATAATATCTGTAATTCTTC
195 AGGAGATAAGATCTGTAATTCTTC
* * *
15037248 GATCTGCTCCGCTGCAACTTCAGAGAGATAAGACCTGATGTGATCTACTCTACTGCAACTCCAGA
1 GATCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGA
15037313 GAGATAAGATCTTTTATTTTAATACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACA
66 GAGATAAGATCTTTTATTTTAATACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACA
* *
15037378 ATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCCATCTTCGATCCGCTC
131 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATCTTCGATCTGCTC
15037430 TGCTGCAACT
Statistics
Matches: 365, Mismatches: 33, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
217 1 0.00
218 363 0.99
219 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (218 bp):
GATCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGA
GAGATAAGATCTTTTATTTTAATACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACA
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATCTTCGATCTGCTCCACTAATGCTTAA
GGAGATAAGATCTGTAATTCTTC
Found at i:15037454 original size:173 final size:173
Alignment explanation
Indices: 15037204--15037625 Score: 666
Period size: 173 Copynumber: 2.4 Consensus size: 173
15037194 GCCATCTTCG
* * * * *
15037204 ATCTGCTCCGCTACTGCTTAGGGAGATAATATCTGTAATTCTTCGATCTGCTCCGCTGCAACTTC
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCA-TCTTCGATCTGCTCTGCTGCAACTTT
* * *
15037269 AGAGAGATAAGACCTGATGTGATCTACTCTACTGCAACTCCAGAGAGATAAGATCTTTTATTTTA
65 AGGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCCAGAGAGATAAGATCTTTTATTTTA
15037334 ATACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACA
130 ATACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACA
* * *
15037378 ATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCCATCTTCGATCCGCTCTGCTGCAACTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGATCTGCTCTGCTGCAACTTTA
*
15037443 GGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCCAGAGAGATAATATCTTTTATTTTAA
66 GGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCCAGAGAGATAAGATCTTTTATTTTAA
*
15037508 TCCGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACA
131 TACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACA
* * * **
15037551 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTTGATTTGCTCTGCTACTGC-TTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGATCTGCTCTGCTGCAACTTTA
15037615 GGGAGATAAGA
66 GGGAGATAAGA
15037626 TCTGTAATTC
Statistics
Matches: 227, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
172 14 0.06
173 180 0.79
174 33 0.15
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (173 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGATCTGCTCTGCTGCAACTTTA
GGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCCAGAGAGATAAGATCTTTTATTTTAA
TACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACA
Found at i:15037474 original size:391 final size:392
Alignment explanation
Indices: 15036984--15037753 Score: 1292
Period size: 391 Copynumber: 2.0 Consensus size: 392
15036974 TTGTCATCTT
* *
15036984 CAATCTGCTCCACTAATGCTTAAGGAGATAAGATCTGTAATTCTTCAGTCTGCTCCGCTGCAACT
1 CAATCTGCTCCACTAATGCTTAAGGAGATAAGATCTGCAATTCTTCAGTCCGCTCCGCTGCAACT
* **
15037049 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTTAGAGAGATAATATCTTTTATTT
66 TCAGGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCCAGAGAGATAATATCTTTTATTT
* **
15037114 TAATTCGCTCCACTTTAACTTCAGGGAGATAGGATTACTGGCTACAATCTGCTCCACTACTGCTT
131 TAATCCGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACAATCTGCTCCACTACTGCTT
* *
15037179 AGGGAGATTAGATCTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAATATCTGTAATT
196 AGGGAGATAAGATCTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATT
*
15037244 CTTCGATCTGCTCCGCTGCAACTTCAGAGAGATAAGACCTGATGTGATCTACTCTACTGCAACTC
261 CTTCGATCTGCTCCGCTGCAACTTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGCAACTC
15037309 CAGAGAGATAAGATCTTTTATTTTAATACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGC
326 CAGAGAGATAAGATCTTTTATTTTAATACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGC
15037374 TA
391 TA
* * * * *
15037376 CAATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCCA-TCTTC-GATCCGCTCTGCTGCAAC
1 CAATCTGCTCCACTAATGCTTAAGGAGATAAGATCTGCAATTCTTCAG-TCCGCTCCGCTGCAAC
*
15037439 TTTAGGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCCAGAGAGATAATATCTTTTATT
65 TTCAGGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCCAGAGAGATAATATCTTTTATT
15037504 TTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACAATCTGCTCCACTACTGCT
130 TTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACAATCTGCTCCACTACTGCT
* * * *
15037569 TAGGGAGATAAGATCTGTCATCTTTGATTTGCTCTGCTACTGCTTAGGGAGATAAGATCTGTAAT
195 TAGGGAGATAAGATCTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAAT
*
15037634 TCTTCGGTCTGCTCCGCTGCAACTTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGCAACT
260 TCTTCGATCTGCTCCGCTGCAACTTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGCAACT
* * *
15037699 TCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
325 CCAGAGAGATAAGATCTTTTATTTTAATACGCTCCACTACAACTTCAGGGAGATA
15037754 AGACATGATG
Statistics
Matches: 352, Mismatches: 25, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
390 1 0.00
391 316 0.90
392 35 0.10
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (392 bp):
CAATCTGCTCCACTAATGCTTAAGGAGATAAGATCTGCAATTCTTCAGTCCGCTCCGCTGCAACT
TCAGGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCCAGAGAGATAATATCTTTTATTT
TAATCCGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTACAATCTGCTCCACTACTGCTT
AGGGAGATAAGATCTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATT
CTTCGATCTGCTCCGCTGCAACTTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGCAACTC
CAGAGAGATAAGATCTTTTATTTTAATACGCTCCACTACAACTTCAGGGAGATAGGATTACTGGC
TA
Found at i:15037707 original size:41 final size:41
Alignment explanation
Indices: 15037650--15037797 Score: 163
Period size: 41 Copynumber: 3.5 Consensus size: 41
15037640 GTCTGCTCCG
*
15037650 CTGCAACTTCAGAGAGATAAGACCTGATGCGATCTACTCTA
1 CTGCAACTTCAGAGAGATAAGACATGATGCGATCTACTCTA
* * *** ** *
15037691 CTGCAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCA
1 CTGCAACTTCAGAGAGATAAGA-C-ATGA-TGCGATCTACTCTA
*
15037735 CTGCAACTTCAGGGAGATAAGACATGATGCGATCTACTCTA
1 CTGCAACTTCAGAGAGATAAGACATGATGCGATCTACTCTA
15037776 CTGCAAC-TCTAGAGAGATAAGA
1 CTGCAACTTC-AGAGAGATAAGA
15037798 TCTTTTATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
40 2 0.02
41 48 0.56
42 3 0.04
43 3 0.04
44 29 0.34
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (41 bp):
CTGCAACTTCAGAGAGATAAGACATGATGCGATCTACTCTA
Found at i:15037741 original size:85 final size:85
Alignment explanation
Indices: 15037644--15037838 Score: 347
Period size: 85 Copynumber: 2.3 Consensus size: 85
15037634 TCTTCGGTCT
* * *
15037644 GCTCCGCTGCAACTTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGCAACT-TCAGAGAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCT-AGAGAGA
15037708 TAAGATCTTTTATTTTAATCC
65 TAAGATCTTTTATTTTAATCC
15037729 GCTCCACTGCAACTTCAGGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCTAGAGAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCTAGAGAGAT
15037794 AAGATCTTTTATTTTAATCC
66 AAGATCTTTTATTTTAATCC
15037814 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
15037839 GGATTTGTAA
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
85 105 0.99
86 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (85 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACATGATGCGATCTACTCTACTGCAACTCTAGAGAGAT
AAGATCTTTTATTTTAATCC
Found at i:15037753 original size:44 final size:44
Alignment explanation
Indices: 15036813--15037838 Score: 324
Period size: 44 Copynumber: 23.7 Consensus size: 44
15036803 TGCTTCCTTG
* * * * *
15036813 ATCTGCTCCGCTGCAACCTCAGGGAGATAAGA-C-CTGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
* * * * * *
15036854 ATCTACTCTACTGCCACTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
** * * *
15036898 ATCCACTCCACTGCAACTTCAGAGAGATAGGAT-TACT-AGTTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-TTGA-TTTCA
* * * ** *
15036942 ATCTACTCTACTACTGCTT-AGGGAGATAAGAT-TTGTCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTT-TGAT-TTCA
* * *
15036986 ATCTGCTCCACT--AATGCTT-AAGGAGATAAGATCTGTAATTCTTCA
1 ATCTGCTCCACTGCAA--CTTCAGGGAGATAAGATCTTTGA-T-TTCA
* * * * *
15037031 GTCTGCTCCGCTGCAACTTCAGGGAGATAAGA-C-CTGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
* * * * * * *
15037072 ATCTACTCTACTGCAACTTTAGAGAGATAATATCTTTTATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
** * * ** *
15037116 AT-TCGCTCCACTTTAACTTCAGGGAGATAGGAT-TACTGGCTACA
1 ATCT-GCTCCACTGCAACTTCAGGGAGATAAGATCT-TTGATTTCA
* ** * *** *
15037160 ATCTGCTCCACTACTGCTT-AGGGAGATTAGATCTGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGAT-TTCA
* * ** * * * *
15037204 ATCTGCTCCGCTACTGCTT-AGGGAGATAATATCTGTAATTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGA-T-TTCA
* * * * *
15037249 ATCTGCTCCGCTGCAACTTCAGAGAGATAAGA-C-CTGATGT-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
* * * * * *
15037290 ATCTACTCTACTGCAACTCCAGAGAGATAAGATCTTTTATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
* * * ** *
15037334 ATAC-GCTCCACTACAACTTCAGGGAGATAGGAT-TACTGGCTACA
1 AT-CTGCTCCACTGCAACTTCAGGGAGATAAGATCT-TTGATTTCA
* * ** *** *
15037378 ATCTGTTCCACTACTGCTT-AGGGAGATAAGATCTGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGAT-TTCA
* ** * * * *
15037422 ATCCGCTCTGCTGCAACTTTAGGGAGATAAGA-C-ATGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
* * * * * * *
15037463 ATCTACTCTACTGCAACTCCAGAGAGATAATATCTTTTATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
* * * * ** *
15037507 ATCCGCTCCACTACAACTTCAGGGAGATAGGAT-TACTGGCTACA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-TTGATTTCA
* ** * * **
15037551 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGTCATCTTTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGAT-TTCA
* ** * ** * * *
15037595 ATTTGCTCTGCTACTGCTT-AGGGAGATAAGATCTGTAATTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGA-T-TTCA
* * * * * *
15037640 GTCTGCTCCGCTGCAACTTCAGAGAGATAAGA-C-CTGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
* * * * *
15037681 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
* * * *
15037725 ATCCGCTCCACTGCAACTTCAGGGAGATAAGA-C-ATGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
* * * * *
15037766 ATCTACTCTACTGCAAC-TCTAGAGAGATAAGATCTTTTATTTTA
1 ATCTGCTCCACTGCAACTTC-AGGGAGATAAGATCTTTGATTTCA
*
15037810 ATCCGCTCCACTGCAACTTCAGGGAGATA
1 ATCTGCTCCACTGCAACTTCAGGGAGATA
15037839 GGATTTGTAA
Statistics
Matches: 719, Mismatches: 216, Indels: 97
0.70 0.21 0.09
Matches are distributed among these distances:
40 2 0.00
41 167 0.23
42 9 0.01
43 74 0.10
44 354 0.49
45 79 0.11
46 32 0.04
47 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTCA
Found at i:15038021 original size:44 final size:45
Alignment explanation
Indices: 15037930--15038034 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 45
15037920 CTACATCGTT
* * *
15037930 AGGGAAGTAAGATTTGCTATTCTCAGTCTGCCCCACTGCAACTTC
1 AGGGAAATAAGACTTGCTATTCTCAGTCTGCCCCACTGCAACCTC
** * * * *
15037975 AGGGGGATAAGACTTGCT-TTCTCAGTTTGCTCCGCTGTAACCTC
1 AGGGAAATAAGACTTGCTATTCTCAGTCTGCCCCACTGCAACCTC
15038019 AGGGAAATAAGACTTG
1 AGGGAAATAAGACTTG
15038035 ATGTGATCCA
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
44 35 0.71
45 14 0.29
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (45 bp):
AGGGAAATAAGACTTGCTATTCTCAGTCTGCCCCACTGCAACCTC
Found at i:15038202 original size:44 final size:44
Alignment explanation
Indices: 15038152--15038374 Score: 123
Period size: 44 Copynumber: 5.1 Consensus size: 44
15038142 CAGTACAAGA
*
15038152 AGGCAAGATCTGGTGCTTTCAACCTGCTCCACTGCAACCCAGGG
1 AGGCAAGATCTGGTGCTTTCAACCTGCTCCGCTGCAACCCAGGG
* * * * *** *
15038196 AGGCAAG-GCTGGTGTCTTT-GATCTGCTTCGCTGCCATTGCAGGA
1 AGGCAAGATCTGGTG-CTTTCAACCTGCTCCGCTG-CAACCCAGGG
* * *
15038240 AGGCAAGATCTGCT-ATCTTCAACCTGCTCTGCTGCAACCCAGGG
1 AGGCAAGATCTGGTGCT-TTCAACCTGCTCCGCTGCAACCCAGGG
* * * * * * * ** *
15038284 AGGAAAG-GCTAGTG-TCTTCGATCTGCTTCGCTGTCGATGCAGGA
1 AGGCAAGATCTGGTGCT-TTCAACCTGCTCCGCTG-CAACCCAGGG
* ** * *
15038328 AGGCAAGATCTGCTATTTTTAACCTACTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGGTGCTTTCAACCTGCTCCGCTGCAACCCAGGG
15038372 AGG
1 AGG
15038375 AAAGTCTAGT
Statistics
Matches: 124, Mismatches: 46, Indels: 18
0.66 0.24 0.10
Matches are distributed among these distances:
43 35 0.28
44 59 0.48
45 29 0.23
46 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.25
Consensus pattern (44 bp):
AGGCAAGATCTGGTGCTTTCAACCTGCTCCGCTGCAACCCAGGG
Found at i:15038222 original size:43 final size:43
Alignment explanation
Indices: 15038175--15038396 Score: 129
Period size: 44 Copynumber: 5.1 Consensus size: 43
15038165 TGCTTTCAAC
* *
15038175 CTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGAT
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGAT
* *** * * * * * *
15038218 CTGCTTCGCTGCCATTGCAGGAAGGCAAGATCTGCTATCTTCAAC
1 CTGCTCCGCTG-CAACCCAGGGAGGCAAG-GCTGGTGTCTTCGAT
* * *
15038263 CTGCTCTGCTGCAACCCAGGGAGGAAAGGCTAGTGTCTTCGAT
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGAT
* * ** * * * * * ** *
15038306 CTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAAC
1 CTGCTCCGCTG-CAACCCAGGGAGGCAAG-GCTGGTGTCTTCGAT
* * * *
15038351 CTACTCCGCTGCAACCCAGGGAGGAAAGTCTAGTGTCTTCGAT
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGAT
15038394 CTG
1 CTG
15038397 TTTCACAGTC
Statistics
Matches: 120, Mismatches: 55, Indels: 8
0.66 0.30 0.04
Matches are distributed among these distances:
43 37 0.31
44 49 0.41
45 34 0.28
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.26
Consensus pattern (43 bp):
CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGAT
Found at i:15038242 original size:88 final size:87
Alignment explanation
Indices: 15038123--15038480 Score: 430
Period size: 88 Copynumber: 4.1 Consensus size: 87
15038113 GGATTATTGG
** * * * * *
15038123 CTTCGATCTGCTTCATTGACAGTACAAGAAGGCAAGATCTGGT-GCTTTCAACCTGCTCCACTGC
1 CTTCGATCTGCTTCGCTGCCA-TGCAGGAAGGCAAGATCTGCTATC-TTCAACCTGCTCCACTGC
* *
15038187 AACCCAGGGAGGCAAGGCTGGTGT
64 AACCCAGGGAGGAAAGGCTAGTGT
* **
15038211 CTTTGATCTGCTTCGCTGCCATTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCTGCTGCA
1 CTTCGATCTGCTTCGCTGCCA-TGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCA
15038276 ACCCAGGGAGGAAAGGCTAGTGT
65 ACCCAGGGAGGAAAGGCTAGTGT
* * * * *
15038299 CTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTGCA
1 CTTCGATCTGCTTCGCTG-CCATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCA
*
15038364 ACCCAGGGAGGAAAGTCTAGTGT
65 ACCCAGGGAGGAAAGGCTAGTGT
* * * * **
15038387 CTTCGATCTGTTTCACAGTCAGTATAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCA
1 CTTCGATCTGCTTCGCTGCCA-TGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCA
* *
15038452 ACCCAAGGAGGCAAGGCTAGTGT
65 ACCCAGGGAGGAAAGGCTAGTGT
15038475 CTTCGA
1 CTTCGA
15038481 CCTACTCCAC
Statistics
Matches: 233, Mismatches: 34, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
87 1 0.00
88 229 0.98
89 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (87 bp):
CTTCGATCTGCTTCGCTGCCATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAA
CCCAGGGAGGAAAGGCTAGTGT
Found at i:15038466 original size:44 final size:44
Alignment explanation
Indices: 15038147--15038466 Score: 111
Period size: 44 Copynumber: 7.3 Consensus size: 44
15038137 ATTGACAGTA
* * * *
15038147 CAAGAAGGCAAGATCTGGT-GCTTTCAACCTGCTCCACTGCAACC
1 CAAGGAGGCAAGATCTGCTATC-TTCAACCTGCTCCGCTGCAACC
* * * * ** * * ***
15038191 CAGGGAGGCAAG-GCTGGTGTCTTTGATCTGCTTCGCTGCCATTG
1 CAAGGAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTG-CAACC
*
15038235 C-AGGAAGGCAAGATCTGCTATCTTCAACCTGCTCTGCTGCAACC
1 CAAGG-AGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACC
* * * * * * * * **
15038279 CAGGGAGGAAAG-GCTAG-TGTCTTCGATCTGCTTCGCTGTCGATG
1 CAAGGAGGCAAGATCT-GCTATCTTCAACCTGCTCCGCTG-CAACC
* * *
15038323 C-AGGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTGCAACC
1 CAAGG-AGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACC
* * * * * * * * * *
15038367 CAGGGAGGAAAG-TCTAG-TGTCTTCGATCTGTTTCACAGTC-A-G
1 CAAGGAGGCAAGATCT-GCTATCTTCAACCTGCTCCGCTG-CAACC
* *
15038409 TATAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACC
1 CA-AGG-AGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACC
15038455 CAAGGAGGCAAG
1 CAAGGAGGCAAG
15038467 GCTAGTGTCT
Statistics
Matches: 185, Mismatches: 72, Indels: 38
0.63 0.24 0.13
Matches are distributed among these distances:
42 1 0.01
43 56 0.30
44 67 0.36
45 60 0.32
46 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.24
Consensus pattern (44 bp):
CAAGGAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACC
Found at i:15038525 original size:88 final size:87
Alignment explanation
Indices: 15038150--15038538 Score: 392
Period size: 88 Copynumber: 4.4 Consensus size: 87
15038140 GACAGTACAA
* ** * * *
15038150 GAAGGCAAGATCTGGTGCTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTT
1 GAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGAAAGGCTAGTGTCTTC
* *
15038215 GATCTGCTTCGCTGC-CATTGCAG
66 GATCTGCTTCACTACTCATT--AG
* **
15038238 GAAGGCAAGATCTGCTATCTTCAACCTGCTCTGCTGCAACCCAGGGAGGAAAGGCTAGTGTCTTC
1 GAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGAAAGGCTAGTGTCTTC
* * *
15038303 GATCTGCTTCGCT-GTCGATGCAG
66 GATCTGCTTCACTACTC-AT-TAG
* * * *
15038326 GAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTGCAACCCAGGGAGGAAAGTCTAGTGTCTTC
1 GAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGAAAGGCTAGTGTCTTC
* *
15038391 GATCTGTTTCAC-AGTCAGTATAG
66 GATCTGCTTCACTACTCA-T-TAG
* * *
15038414 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCCAAGGAGGCAAGGCTAGTGTCTTC
1 GAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGAAAGGCTAGTGTCTTC
* * *
15038479 GACCTACTCCACTACTGC-TTAG
66 GATCTGCTTCACTACT-CATTAG
** * *
15038501 GAAGATAAGATCTG-TAATTTTTCAACCTACTACACTGC
1 GAAGGCAAGATCTGCT-A-TTTTCAACCTGCTCCACTGC
15038539 TTCTCGAAGA
Statistics
Matches: 255, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
86 1 0.00
87 17 0.07
88 232 0.91
89 4 0.02
90 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (87 bp):
GAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGAAAGGCTAGTGTCTTC
GATCTGCTTCACTACTCATTAG
Found at i:15038530 original size:176 final size:176
Alignment explanation
Indices: 15038168--15038538 Score: 453
Period size: 176 Copynumber: 2.1 Consensus size: 176
15038158 GATCTGGTGC
* * * * * * *
15038168 TTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCAT
1 TTTCAACCTACTCCACTGCAACCCAGGGAGGAAAGGCTAGTGTCTTCGATCTGCTTCACAGCCAG
* ** *
15038233 TGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCTGCTGCAACCCAGGGAGGAAAGGCTAGTG
66 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCCAAGGAGGAAAGGCTAGTG
* * * * * *
15038298 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATT
131 TCTTCGACCTACTCCACTGAC-ATGCAGGAAGACAAGATCTGCTATT
* * * *
15038345 TTT-AACCTACTCCGCTGCAACCCAGGGAGGAAAGTCTAGTGTCTTCGATCTGTTTCACAGTCAG
1 TTTCAACCTACTCCACTGCAACCCAGGGAGGAAAGGCTAGTGTCTTCGATCTGCTTCACAGCCAG
* *
15038409 TATAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCCAAGGAGGCAAGGCTAGTG
66 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCCAAGGAGGAAAGGCTAGTG
*
15038474 TCTTCGACCTACTCCACT-AC-TGCTTAGGAAGATAAGATCTG-TAATT
131 TCTTCGACCTACTCCACTGACATGC--AGGAAGACAAGATCTGCT-ATT
*
15038520 TTTCAACCTACTACACTGC
1 TTTCAACCTACTCCACTGC
15038539 TTCTCGAAGA
Statistics
Matches: 164, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
173 3 0.02
174 1 0.01
175 21 0.13
176 136 0.83
177 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (176 bp):
TTTCAACCTACTCCACTGCAACCCAGGGAGGAAAGGCTAGTGTCTTCGATCTGCTTCACAGCCAG
TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCCAAGGAGGAAAGGCTAGTG
TCTTCGACCTACTCCACTGACATGCAGGAAGACAAGATCTGCTATT
Found at i:15043336 original size:40 final size:39
Alignment explanation
Indices: 15043146--15043329 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
15043136 CGAATGATGT
* * * *
15043146 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
15043186 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
15043226 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15043264 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15043305 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
15043330 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15043352 original size:79 final size:79
Alignment explanation
Indices: 15043198--15043362 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
15043188 GGACTAAGAT
* **
15043198 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
15043263 ATCCGAGTTAAGTC
66 ATCCGAGTTAAATC
* * *
15043277 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
15043340 TATATCCG-GTTAAATT
63 TAAATCCGAGTTAAATC
15043356 CCGAAGG
1 CCGAAGG
15043363 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:15054693 original size:9 final size:10
Alignment explanation
Indices: 15054676--15054703 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
15054666 AATGAAAGAT
15054676 TTAAAAAAAA
1 TTAAAAAAAA
15054686 TTAAAAAAAA
1 TTAAAAAAAA
15054696 TTAAAAAA
1 TTAAAAAA
15054704 TGAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:15054703 original size:18 final size:17
Alignment explanation
Indices: 15054680--15054718 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
15054670 AAAGATTTAA
*
15054680 AAAAAATTAAAAAAAATT
1 AAAAAATGAAAAAAAA-T
*
15054698 AAAAAATGAAATAAAAT
1 AAAAAATGAAAAAAAAT
15054715 AAAA
1 AAAA
15054719 GTGAATAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAAATGAAAAAAAAT
Found at i:15056134 original size:19 final size:19
Alignment explanation
Indices: 15056112--15056160 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
15056102 GTGTGGAGAA
15056112 GATGCACGCGCCTGGTGGT
1 GATGCACGCGCCTGGTGGT
15056131 GATGCACGCGCCTGGTGGT
1 GATGCACGCGCCTGGTGGT
15056150 GATGCACGCGC
1 GATGCACGCGC
15056161 GAAGTCTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.12, C:0.29, G:0.41, T:0.18
Consensus pattern (19 bp):
GATGCACGCGCCTGGTGGT
Found at i:15056403 original size:17 final size:16
Alignment explanation
Indices: 15056369--15056418 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
15056359 TGGACCTTTA
*
15056369 ATTTTTTATTTGGTTTT
1 ATTTTTTATTT-TTTTT
15056386 ATTTTTTATTTTTATTT
1 ATTTTTTATTTTT-TTT
*
15056403 ATTTATTTGTTTTTTT
1 ATTT-TTTATTTTTTT
15056419 CTTTTTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 1 0.03
17 20 0.69
18 8 0.28
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (16 bp):
ATTTTTTATTTTTTTT
Found at i:15059651 original size:27 final size:27
Alignment explanation
Indices: 15059621--15059675 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
15059611 TATTATAAAA
*
15059621 TTAATTAAAATTT-AATATTTTAATAAT
1 TTAAGTAAAATTTAAATATTTT-ATAAT
15059648 TTAAGTAAAATTTAAATATTTTATAAT
1 TTAAGTAAAATTTAAATATTTTATAAT
15059675 T
1 T
15059676 ATATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
TTAAGTAAAATTTAAATATTTTATAAT
Found at i:15066103 original size:121 final size:121
Alignment explanation
Indices: 15065885--15066126 Score: 387
Period size: 121 Copynumber: 2.0 Consensus size: 121
15065875 TATATAAACC
* *
15065885 AAATGGCATGCGTCTAAATGCAAGTGTATCGCATGGGCATGTGAATGTTGTTTTGTGTTGATCTT
1 AAATGACATGCGTCTAAATGCAAATGTATCGCATGGGCATGTGAATGTTGTTTTGTGTTGATCTT
* * * *
15065950 CTAGCGCTATTATAATCTGATTATATCCCAAGTATCCATTGAGAAAATAGTAATAG
66 CTAGCGCTACTATAATCTGATTATATCCCAAGTATCCATCGAGAAAACAATAATAG
* * *
15066006 AAATGACATGCGTCTAAGTGCAAATGTATCGTATGGGCATGTGAATGTTGTTTTTTGTTGATCTT
1 AAATGACATGCGTCTAAATGCAAATGTATCGCATGGGCATGTGAATGTTGTTTTGTGTTGATCTT
15066071 CTAGCGCTACTATAATCTGATTATA-CCACAAGTATCCATCGAGAAAACAATAATAG
66 CTAGCGCTACTATAATCTGATTATATCC-CAAGTATCCATCGAGAAAACAATAATAG
15066127 TCTCGCCCTA
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
120 2 0.02
121 109 0.98
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (121 bp):
AAATGACATGCGTCTAAATGCAAATGTATCGCATGGGCATGTGAATGTTGTTTTGTGTTGATCTT
CTAGCGCTACTATAATCTGATTATATCCCAAGTATCCATCGAGAAAACAATAATAG
Found at i:15070211 original size:25 final size:25
Alignment explanation
Indices: 15070147--15070261 Score: 103
Period size: 25 Copynumber: 4.6 Consensus size: 25
15070137 CGGACACACC
15070147 ATAGCTCGTATGAGCTTACCGATTT
1 ATAGCTCGTATGAGCTTACCGATTT
* * *
15070172 GTAGTTCATGA-GAGCTTACCGATTCT
1 ATAGCTCGT-ATGAGCTTACCGATT-T
*
15070198 -TAGCTCGTATGAGCTTACTGATTT
1 ATAGCTCGTATGAGCTTACCGATTT
* * *
15070222 ATAGCTTGT-TAGAGCATACC-TTTT
1 ATAGCTCGTAT-GAGCTTACCGATTT
15070246 CATAGCTCGTATGAGC
1 -ATAGCTCGTATGAGC
15070262 ATACGTGCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
24 6 0.08
25 63 0.88
26 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (25 bp):
ATAGCTCGTATGAGCTTACCGATTT
Found at i:15070236 original size:50 final size:50
Alignment explanation
Indices: 15070146--15070261 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 50
15070136 GCGGACACAC
* *
15070146 CATAGCTCGTATGAGCTTACCGATTTGTAGTTCATGAGAGCTTACCGATT
1 CATAGCTCGTATGAGCTTACCGATTTATAGTTCATGAGAGCATACCGATT
* * * * **
15070196 CTTAGCTCGTATGAGCTTACTGATTTATAGCTT-GTTAGAGCATACCTTTT
1 CATAGCTCGTATGAGCTTACCGATTTATAG-TTCATGAGAGCATACCGATT
15070246 CATAGCTCGTATGAGC
1 CATAGCTCGTATGAGC
15070262 ATACGTGCAC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 54 0.96
51 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (50 bp):
CATAGCTCGTATGAGCTTACCGATTTATAGTTCATGAGAGCATACCGATT
Found at i:15070429 original size:37 final size:37
Alignment explanation
Indices: 15070388--15070472 Score: 125
Period size: 37 Copynumber: 2.2 Consensus size: 37
15070378 GTTTGATAGG
* *
15070388 AACTATTGCAGGTATATATATGCATGAAATACATGGA
1 AACTATTACAGGTATATATATACATGAAATACATGGA
*
15070425 AACTATTATAGGTATATATATACATGAAATACATGGAA
1 AACTATTACAGGTATATATATACATGAAATACATGG-A
15070463 AATCTATTAC
1 AA-CTATTAC
15070473 TTGATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
37 33 0.79
38 3 0.07
39 6 0.14
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (37 bp):
AACTATTACAGGTATATATATACATGAAATACATGGA
Found at i:15078319 original size:50 final size:50
Alignment explanation
Indices: 15078243--15078338 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
15078233 CACACCACAG
* *
15078243 CTCGTATGAGATTACCGATTTGCAGCTCATGAGAGCTTACCAATTCTCAA
1 CTCGTATGAGATTACCGATTTACAGCTCATGAGAGCATACCAATTCTCAA
* * *
15078293 CTCGTATGAGCTTACCGATTTACAGCTCGTGAGAGCATACCGATTC
1 CTCGTATGAGATTACCGATTTACAGCTCATGAGAGCATACCAATTC
15078339 ATAGCTCAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (50 bp):
CTCGTATGAGATTACCGATTTACAGCTCATGAGAGCATACCAATTCTCAA
Found at i:15078328 original size:25 final size:25
Alignment explanation
Indices: 15078239--15078337 Score: 96
Period size: 25 Copynumber: 4.0 Consensus size: 25
15078229 CAGACACACC
*
15078239 ACAGCTCGTATGAGATTACCGATTT
1 ACAGCTCGTATGAGCTTACCGATTT
* * *
15078264 GCAGCTCATGA-GAGCTTACCAATTCT
1 ACAGCTCGT-ATGAGCTTACCGATT-T
*
15078290 -CAACTCGTATGAGCTTACCGATTT
1 ACAGCTCGTATGAGCTTACCGATTT
*
15078314 ACAGCTCGTGA-GAGCATACCGATT
1 ACAGCTCGT-ATGAGCTTACCGATT
15078338 CATAGCTCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
24 2 0.03
25 55 0.92
26 3 0.05
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (25 bp):
ACAGCTCGTATGAGCTTACCGATTT
Found at i:15090217 original size:3 final size:3
Alignment explanation
Indices: 15090161--15090205 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
15090151 GAGTTTTTTG
* *
15090161 ATA ATA ATA ATA ATA ATA ATA AGA ATA ATA AGA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15090206 TACTTATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:15090967 original size:70 final size:70
Alignment explanation
Indices: 15090854--15090988 Score: 216
Period size: 70 Copynumber: 1.9 Consensus size: 70
15090844 TGTATAATAG
* *
15090854 GAAACTTGAAAAACAACGAACGACGAAAGCCAAAATTAGGGCCTATCGACGCCACACGACCGTGT
1 GAAACTCGAAAAACAACGAACGACAAAAGCCAAAATTAGGGCCTATCGACGCCACACGACCGTGT
15090919 AACAA
66 AACAA
* * * *
15090924 GAAACTCGAAAAACAACGAATGACAAAAGCCAAAATTGGGGCCTATCGATGCCACACGGCCGTGT
1 GAAACTCGAAAAACAACGAACGACAAAAGCCAAAATTAGGGCCTATCGACGCCACACGACCGTGT
15090989 GCCAGGCCAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.13
Consensus pattern (70 bp):
GAAACTCGAAAAACAACGAACGACAAAAGCCAAAATTAGGGCCTATCGACGCCACACGACCGTGT
AACAA
Found at i:15091017 original size:29 final size:29
Alignment explanation
Indices: 15090976--15091038 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
15090966 CTATCGATGC
* * *
15090976 CACACGGCCGTGTGCCAGGCCATGTGCGA
1 CACACGGCAGTGTGACAGGCCATGTACGA
* *
15091005 CACACGGCAGTGTGACAGGTCATGTATGA
1 CACACGGCAGTGTGACAGGCCATGTACGA
15091034 CACAC
1 CACAC
15091039 AATCTAGGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (29 bp):
CACACGGCAGTGTGACAGGCCATGTACGA
Found at i:15098208 original size:28 final size:27
Alignment explanation
Indices: 15098144--15098240 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
15098134 ATATTAAGTC
* *
15098144 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
15098171 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* *
15098199 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
15098226 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15098241 GCACAATTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 39 0.60
28 26 0.40
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15116805 original size:18 final size:18
Alignment explanation
Indices: 15116782--15116828 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
15116772 TCTATAAACA
15116782 AGTTTAGAGAGGGTTT-AG
1 AGTTTAGAGA-GGTTTAAG
15116800 AGTTTAGAGA-GTTTAGAG
1 AGTTTAGAGAGGTTTA-AG
15116818 AGTTTAGAGAG
1 AGTTTAGAGAG
15116829 CTCTCTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.15
18 22 0.85
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (18 bp):
AGTTTAGAGAGGTTTAAG
Found at i:15116819 original size:11 final size:9
Alignment explanation
Indices: 15116798--15116828 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
15116788 GAGAGGGTTT
15116798 AGAGTTTAG
1 AGAGTTTAG
15116807 AGAGTTTAG
1 AGAGTTTAG
15116816 AGAGTTTAG
1 AGAGTTTAG
15116825 AGAG
1 AGAG
15116829 CTCTCTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (9 bp):
AGAGTTTAG
Found at i:15128278 original size:24 final size:24
Alignment explanation
Indices: 15128251--15128302 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15128241 TTAGTAAGTC
*
15128251 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
15128275 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
15128299 AAAT
1 AAAT
15128303 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:15130516 original size:3 final size:3
Alignment explanation
Indices: 15130502--15130538 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
15130492 CTAAAAACTC
*
15130502 TCT TCT TAT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
15130539 TTATACTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:15131149 original size:308 final size:305
Alignment explanation
Indices: 15130569--15131265 Score: 710
Period size: 308 Copynumber: 2.3 Consensus size: 305
15130559 TAATTAATCA
* * **
15130569 ATTAAATATGAGTT-AATCTTTAGACATGTTAATTTTAGTTCTTTTATTTAAAGACGGTATAAAA
1 ATTAAACATG-GTTCAATCTTTAGACATGTTAATTTTAGTTCTTTTATTTAAAAACTATATAAAA
* * * * *
15130633 TTATGAAAAAACAAAAAGCTACCAAAATAATAATAGTAGTCATTTAATAAAATAGTAAATTAGTC
65 GTATGAAAAGACTAAAAGCTACCAAAATAATAATAGTAGTAATTTAATAAAAGAGTAAATTAGTC
* ** * ** *
15130698 ATTTTTTAACCAAGTTGGTACTTGGTTAACCCGTGACATCAGCTCAGTCAAGAGTTTTATTAATA
130 ATTTCTTAACCAAGTTGGTACCCGATTAACCCGCAACATCAGCTCAGTCAAGAGCTTTATTAATA
** * *
15130763 GTATAGATATATATACAAATTTAATGAGAGAAAACATTTTATGTCAAAAGTTTTTATTAAAGCGT
195 ACATAGA-ATACATA-AAATTTAATGAGAGAAAACATTTCATGTCAAAAGTTTTTATTAAAGCGT
* * *
15130828 ACTTAAGAATTAATATTAGTGTGGTGGTAA-AGTTTTTTATGGTTAACCC
258 ACTCAAGAATTAATATTAGTGTGGTGGTAAGAG-TTTGT-TGATTAACCC
* *
15130877 ATTATACACT-GTTCAAT-TATTAGACATGTTAATTTTAGTTCTTTTATTTAAAAATTATATAAA
1 ATTAAACA-TGGTTCAATCT-TTAGACATGTTAATTTTAGTTCTTTTATTTAAAAACTATATAAA
* * * * *
15130940 AGTATGAAAAGACTAAAAGGTCATCAAAATAATAATTGTAGTAATTTAATAAAGGAGTATATTAG
64 AGTATGAAAAGACTAAAAGCT-ACCAAAATAATAATAGTAGTAATTTAATAAAAGAGTAAATTAG
* * * * *
15131005 TCATTTCTTAATCGAGTTGGTACCCGATTAACCCGCAACACTC-TCTCGGT-AAGGGCTTTATTA
128 TCATTTCTTAACCAAGTTGGTACCCGATTAACCCGCAACA-TCAGCTCAGTCAAGAGCTTTATTA
** * * *
15131068 ATAACATAG-ATACAT-AAATTTGGTGAGAGAAAACATTTCATGTTAAAAGTTATTCTTTTTGTA
192 ATAACATAGAATACATAAAATTTAATGAGAGAAAACATTTCATGTCAAAAG-T-TT-TTATT-AA
* ** * *
15131131 TGTTTACTCAATAATTAATATTGGTGTGGTGGTAAGGAGTTTGTTGATTAACCC
253 AGCGTACTCAAGAATTAATATTAGTGTGGTGGTAA-GAGTTTGTTGATTAACCC
* *** * * * *
15131185 ATTAAACATGGGTTTAATCTTCCTATATGTTAATTTTAATTATTTTACTTAAAAACTATATAAAA
1 ATTAAACAT-GGTTCAATCTTTAGACATGTTAATTTTAGTTCTTTTATTTAAAAACTATATAAAA
*
15131250 GTATGGAAAGA-TAAAA
65 GTATGAAAAGACTAAAA
15131266 AAAATTATTA
Statistics
Matches: 319, Mismatches: 56, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
304 30 0.09
305 1 0.00
306 7 0.02
307 9 0.03
308 135 0.42
309 132 0.41
310 5 0.02
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (305 bp):
ATTAAACATGGTTCAATCTTTAGACATGTTAATTTTAGTTCTTTTATTTAAAAACTATATAAAAG
TATGAAAAGACTAAAAGCTACCAAAATAATAATAGTAGTAATTTAATAAAAGAGTAAATTAGTCA
TTTCTTAACCAAGTTGGTACCCGATTAACCCGCAACATCAGCTCAGTCAAGAGCTTTATTAATAA
CATAGAATACATAAAATTTAATGAGAGAAAACATTTCATGTCAAAAGTTTTTATTAAAGCGTACT
CAAGAATTAATATTAGTGTGGTGGTAAGAGTTTGTTGATTAACCC
Found at i:15133575 original size:17 final size:16
Alignment explanation
Indices: 15133535--15133575 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
15133525 GAATTTAAAA
*
15133535 TAATTTTTTAAAATTT
1 TAATTTTATAAAATTT
15133551 TAAGTTTTATAAAATTT
1 TAA-TTTTATAAAATTT
15133568 TGAATTTT
1 T-AATTTT
15133576 TAATACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 17 0.77
18 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
TAATTTTATAAAATTT
Found at i:15133621 original size:15 final size:16
Alignment explanation
Indices: 15133601--15133630 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15133591 GAATTTGAAG
15133601 TTTATTTTG-AATTTA
1 TTTATTTTGTAATTTA
15133616 TTTATTTTGTAATTT
1 TTTATTTTGTAATTT
15133631 TGTTTGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
TTTATTTTGTAATTTA
Found at i:15134488 original size:18 final size:17
Alignment explanation
Indices: 15134461--15134494 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15134451 AATCAAAACC
*
15134461 TAAAATAATTATATAATT
1 TAAAAAAATTA-ATAATT
15134479 TAAAAAAATTAATAAT
1 TAAAAAAATTAATAAT
15134495 ACCAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAAAAATTAATAATT
Found at i:15137381 original size:77 final size:77
Alignment explanation
Indices: 15137223--15137778 Score: 983
Period size: 77 Copynumber: 7.2 Consensus size: 77
15137213 ATGTAAACCC
* * *
15137223 AAGGCTCAACTCACATCTCGCAATATGAGTTGA-T-TTTTGAAAAGCAGAAATTGAAAA-CGCCT
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAG-CT
** * *
15137285 CAGCGTGTGACCC
65 CAGCACGTGAGCA
* * *
15137298 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATAGCTC
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
15137363 AGCACGTGAGCA
66 AGCACGTGAGCA
15137375 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
15137440 AGCACGTGAGCA
66 AGCACGTGAGCA
15137452 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
15137517 AGCACGTGAGCA
66 AGCACGTGAGCA
15137529 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
15137594 AGCACGTGAGCA
66 AGCACGTGAGCA
15137606 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
15137671 AGCACGTGAGCA
66 AGCACGTGAGCA
15137683 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
15137748 AGCACGTGAGCA
66 AGCACGTGAGCA
*
15137760 AAGGCTCAACTCACTTCTC
1 AAGGCTCAACTCACCTCTC
15137779 GCAAAAGTAG
Statistics
Matches: 467, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
75 31 0.07
76 1 0.00
77 434 0.93
78 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (77 bp):
AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
AGCACGTGAGCA
Found at i:15137890 original size:14 final size:14
Alignment explanation
Indices: 15137854--15137904 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
15137844 GAGTTGATTT
* *
15137854 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
15137868 TTGAAAAAAACAGAAA
1 TTG--AAAAACAGAAA
*
15137884 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
15137898 TT-AAAAA
1 TTGAAAAA
15137905 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
16 12 0.39
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:15138020 original size:76 final size:76
Alignment explanation
Indices: 15137884--15138128 Score: 377
Period size: 76 Copynumber: 3.2 Consensus size: 76
15137874 AAAACAGAAA
* * * *
15137884 TTGAAAAGCAGAAA-TTAAAAAGACCTCAGCATGTGAGCC-GAGACTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAAT
15137947 ATGAGTTGATTTTT
63 ATGAGTTGATTTTT
*
15137961 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
15138026 AGTTGATTTTT
66 AGTTGATTTTT
15138037 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
15138102 AGTTGATTTTT
66 AGTTGATTTTT
* **
15138113 TTTACGAACAGAAATT
1 TTGAAAAACAGAAATT
15138129 GAAGAACAGA
Statistics
Matches: 157, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
75 2 0.01
76 127 0.81
77 13 0.08
78 15 0.10
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (76 bp):
TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTT
Found at i:15138137 original size:14 final size:14
Alignment explanation
Indices: 15138118--15138145 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15138108 TTTTTTTTAC
15138118 GAACAGAAATTGAA
1 GAACAGAAATTGAA
15138132 GAACAGAAATTGAA
1 GAACAGAAATTGAA
15138146 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:15138191 original size:91 final size:88
Alignment explanation
Indices: 15138037--15138221 Score: 248
Period size: 89 Copynumber: 2.1 Consensus size: 88
15138027 GTTGATTTTT
* *
15138037 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
15138102 AGTTGATTTTTTTTACGAACAGAAA
66 AGTT-A-ATTTTTGACAAACAGAAA
* *
15138127 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
15138190 ATGAGTTAATTTTTGACAAACAGAAA
63 ATGAGTTAATTTTTGACAAACAGAAA
15138216 TTGAAA
1 TTGAAA
15138222 TTACCTCAGC
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
89 34 0.40
90 14 0.17
91 34 0.40
92 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (88 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTGACAAACAGAAA
Found at i:15138260 original size:73 final size:74
Alignment explanation
Indices: 15138127--15138295 Score: 232
Period size: 73 Copynumber: 2.3 Consensus size: 74
15138117 CGAACAGAAA
* *
15138127 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATAT
15138192 GAGTTAATTT
65 GAGTTAATTT
* ** * *
15138202 TTGACAAACAGAAATTGAAATTACCTCAGC-GTGTCCCGAGGCTCAACTCACCTTTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
15138266 AGTTGATTT
66 AGTTAATTT
* *
15138275 TTGAAAAATATAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
15138296 AACAGAAATT
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
73 56 0.68
75 26 0.32
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTT
Found at i:15138423 original size:78 final size:76
Alignment explanation
Indices: 15138294--15138476 Score: 262
Period size: 78 Copynumber: 2.4 Consensus size: 76
15138284 ATAAATTGAA
* * *
15138294 AAAACAGAAATT-AAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATATGAG
1 AAAACAGAAATTGAAAAACACCTCAGCATGTAAGCCAAGACTCAACTCACCTCTCACAATATGAG
15138358 TTGATTTTTTTG
66 TTGA-TTTTTTG
* * * *
15138370 ACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGA
1 A-AAACAGAAATTGAAAAACACCTCAGCATGTAAGCCAAGACTCAACTCACCTCTCACAATATGA
15138435 GTTGATTTTTTG
65 GTTGATTTTTTG
15138447 AAAACTAGAAATTG-AAAACACCTCAGCATG
1 AAAAC-AGAAATTGAAAAACACCTCAGCATG
15138477 GCAATATGAG
Statistics
Matches: 96, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
76 19 0.20
77 27 0.28
78 50 0.52
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (76 bp):
AAAACAGAAATTGAAAAACACCTCAGCATGTAAGCCAAGACTCAACTCACCTCTCACAATATGAG
TTGATTTTTTG
Found at i:15138490 original size:51 final size:52
Alignment explanation
Indices: 15138426--15138529 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 52
15138416 CTCACCTCTC
*
15138426 GCAATATGAGTTGA-TTTTTT-GAAAACTAGAAATTGAAAACACCTCAGCATG
1 GCAATATGAGTTGATTTTTTTAAAAAAC-AGAAATTGAAAACACCTCAGCATG
*
15138477 GCAATATGAGTTGATTTTTTTTAAAAAACAGAAATTGAAAATACCTCAGCATG
1 GCAATATGAGTTGA-TTTTTTTAAAAAACAGAAATTGAAAACACCTCAGCATG
15138530 TGAACCGAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
51 14 0.29
53 29 0.60
54 5 0.10
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (52 bp):
GCAATATGAGTTGATTTTTTTAAAAAACAGAAATTGAAAACACCTCAGCATG
Found at i:15138606 original size:78 final size:76
Alignment explanation
Indices: 15138477--15138747 Score: 347
Period size: 78 Copynumber: 3.6 Consensus size: 76
15138467 CCTCAGCATG
* *
15138477 GCAATATGAGTTGATTTTTTTTAAAAAACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCT
1 GCAATATGAGTTGA-TTTTTTTAAAAAACAGAAATTGAAAATACCTCAGCATGTG-ACTGAGGTT
15138542 CAACTCACCTCTC
64 CAACTCACCTCTC
* *
15138555 GCAATATGAGTTGATTTTTTTTAAAAAACAGAAATTGAAAATACCTCAGCATTGGGTCTGAGGTT
1 GCAATATGAGTTGA-TTTTTTTAAAAAACAGAAATTGAAAATACCTCAGCA-TGTGACTGAGGTT
15138620 CAACTCACCTCTC
64 CAACTCACCTCTC
* ** *
15138633 GCAATATGAGTTGA-TTTTTT---GATGATAAATTGAAAATACCTCA--ATGTGACTTGAGGTTC
1 GCAATATGAGTTGATTTTTTTAAAAAACAGAAATTGAAAATACCTCAGCATGTGAC-TGAGGTTC
15138692 AACTCACCTCTC
65 AACTCACCTCTC
* *
15138704 ACAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAATA
1 GCAATATGAGTTGATTTTTTTAA--AAAACAGAAATTGAAAATA
15138748 GAAATGGAAA
Statistics
Matches: 169, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
70 4 0.02
71 34 0.20
72 5 0.03
73 19 0.11
76 6 0.04
77 14 0.08
78 84 0.50
79 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (76 bp):
GCAATATGAGTTGATTTTTTTAAAAAACAGAAATTGAAAATACCTCAGCATGTGACTGAGGTTCA
ACTCACCTCTC
Found at i:15139038 original size:77 final size:77
Alignment explanation
Indices: 15138841--15139298 Score: 431
Period size: 77 Copynumber: 5.9 Consensus size: 77
15138831 AAAAAGAAAT
* ** *
15138841 TAAAAATAGAATTTGAAAGGACCTC-GACGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATG
1 TAAAAATAGAAATTGAAAATACCTCAG-CGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATG
*
15138905 AGTTGATTCTTTT-A
63 AGTTGATTTTTTTGA
* * *
15138919 -AAAAGTAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAGT
1 TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
15138983 TGATTTTTTTGA
66 TGATTTTTTTGA
* * *
15138995 TAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
15139060 TGA--TTTTTGA
66 TGATTTTTTTGA
* * * ** *
15139070 CAAACA-A-AAATTGAAATTACCTCAGC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGT
1 TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
15139131 TGATTTTTTTTGAAACATAAA
66 TGA-TTTTTTTG--------A
* * *
15139152 TTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAACTCTCGCAATATG
1 -TAAAAATA-G-AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
**
15139217 AGTTGA---AATT-A
63 AGTTGATTTTTTTGA
* * * * * *
15139228 -AAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGC
1 TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
15139292 TGATTTT
66 TGATTTT
15139299 GAAAAAGTAG
Statistics
Matches: 318, Mismatches: 38, Indels: 51
0.78 0.09 0.13
Matches are distributed among these distances:
71 36 0.11
72 54 0.17
73 16 0.05
74 12 0.04
75 51 0.16
76 2 0.01
77 85 0.27
78 1 0.00
82 1 0.00
83 4 0.01
84 1 0.00
85 2 0.01
87 18 0.06
89 35 0.11
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (77 bp):
TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGA
Found at i:15139267 original size:72 final size:73
Alignment explanation
Indices: 15139149--15139290 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 73
15139139 TTTGAAACAT
* * *
15139149 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAACTCTCGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCAACTCTCGCAAT
15139214 ATGAGTTG
66 ATGAGTTG
* * *
15139222 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCAACTCTCGCAAT
15139286 ATGAG
66 ATGAG
15139291 CTGATTTTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 58 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.22
Consensus pattern (73 bp):
AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCAACTCTCGCAAT
ATGAGTTG
Found at i:15139317 original size:160 final size:157
Alignment explanation
Indices: 15138882--15139304 Score: 465
Period size: 160 Copynumber: 2.7 Consensus size: 157
15138872 TGGCCCGAGA
* ** * *
15138882 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTAAAAAGTAAAAATTGAAAATACCTCAGCG
1 CTCAACTCAACTCTCGCAATATGAGTTGA-TAATTGAAAAA-CAAAAATTGAAAATACCTCAGC-
* * ** *
15138947 TGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT------TTGA-TAAAAATA-G
63 -GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAATAAATTAAAAAAACG
* *
15139004 -AATTTGAAAATATCTCAGCGTGTCCTGAGG
127 AAAATTGAAAATACCTCAGCGTGTCCTGAGG
* ** * *
15139034 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTC
1 CTCAACTCAACTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTC
** * * *
15139099 TTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAAACGA
66 CCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA---TTTTTGAAAAATAAATTAAAAAAACGA
15139164 AAATTGAAAATACCTCAGCGTGTCCTGAGG
128 AAATTGAAAATACCTCAGCGTGTCCTGAGG
15139194 CTCAACTCAACTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAATACCTCAGCGT
1 CTCAACTCAACTCTCGCAATATGAGTTGATAATTGAAAA-ACAAAAATTGAAAATACCTCAGCGT
*
15139257 GCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA-TTTTGAAAAA
65 --CCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAA
15139305 GTAGAAATTA
Statistics
Matches: 231, Mismatches: 25, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
148 34 0.15
150 20 0.09
151 13 0.06
152 29 0.13
157 11 0.05
158 10 0.04
159 27 0.12
160 56 0.24
161 31 0.13
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (157 bp):
CTCAACTCAACTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTC
CCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAATAAATTAAAAAAACGAAAA
TTGAAAATACCTCAGCGTGTCCTGAGG
Found at i:15139750 original size:76 final size:75
Alignment explanation
Indices: 15139444--15139861 Score: 574
Period size: 76 Copynumber: 5.5 Consensus size: 75
15139434 AGTGTGTAAT
* * *
15139444 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT-TAAAACAGAAATTGAAATTAC
*
15139509 CTCAGCATGTGAAC
65 CTCAGC--GTG-TC
* * *
15139523 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTTAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTT-AAAACAGAAATTGAAATTA
*
15139587 CCTCAACGTGTC
64 CCTCAGCGTGTC
* ** * * *
15139599 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA---ATTTTGAAAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAATTACC
15139661 TCAGCGTGTC
66 TCAGCGTGTC
**
15139671 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAA-AACAGAAATTGAAATTAC
15139736 CTCAGCGTGTC
65 CTCAGCGTGTC
*
15139747 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAA-AACAGAAATTGAAATTAC
15139812 CTCAGCGTGTC
65 CTCAGCGTGTC
*
15139823 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
15139862 GAAAAACAAA
Statistics
Matches: 311, Mismatches: 21, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
72 61 0.20
73 4 0.01
75 6 0.02
76 142 0.46
77 34 0.11
78 31 0.10
79 33 0.11
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (75 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAATTACC
TCAGCGTGTC
Found at i:15140024 original size:73 final size:74
Alignment explanation
Indices: 15139914--15140056 Score: 218
Period size: 73 Copynumber: 1.9 Consensus size: 74
15139904 GAGTCAATTT
**
15139914 AAAACATAAACTAAAAATACCTCGGCGTGTCCCGAGGCTCAACTCA-CTTCTCGCAATATGAGTT
1 AAAACATAAACTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCATC-TCTCGCAATATGAGTT
15139978 GATTTTGAAA
65 GATTTTGAAA
* **
15139988 AAAACA-AAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTG
15140052 ATTTT
66 ATTTT
15140057 CCTTGGAAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
73 56 0.89
74 7 0.11
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.28
Consensus pattern (74 bp):
AAAACATAAACTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTG
ATTTTGAAA
Found at i:15152447 original size:14 final size:16
Alignment explanation
Indices: 15152428--15152460 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
15152418 CTTTAATCTC
15152428 TTTTCTTG-T-TATGA
1 TTTTCTTGATATATGA
15152442 TTTTCTTGATATATGA
1 TTTTCTTGATATATGA
15152458 TTT
1 TTT
15152461 ATACATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.64
Consensus pattern (16 bp):
TTTTCTTGATATATGA
Found at i:15156403 original size:24 final size:24
Alignment explanation
Indices: 15156372--15156433 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
15156362 TAAATACCTT
15156372 TTGT-TTCATGATGA-GCTTCACCA
1 TTGTATTCATGAT-ACGCTTCACCA
15156395 TTGTATTCATGATACGCTTCACCA
1 TTGTATTCATGATACGCTTCACCA
*
15156419 TTGTATTCGTGATAC
1 TTGTATTCATGATAC
15156434 AATTACAACG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 5 0.14
24 31 0.86
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (24 bp):
TTGTATTCATGATACGCTTCACCA
Found at i:15161054 original size:41 final size:41
Alignment explanation
Indices: 15160937--15161055 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 41
15160927 ATATTAATGC
* * * **
15160937 ATCATGCTTTATGCCTAGCAGGCTTTATGCCGGTGAAATGT
1 ATCAAGCTTTATGCCTAGCAGGCTTCATGCCGGTGTAACCT
*
15160978 ATCAAGCTTTATGCCTAGCAGGCTTCATGCCGGTGTACCCT
1 ATCAAGCTTTATGCCTAGCAGGCTTCATGCCGGTGTAACCT
* * **
15161019 ATCAGGCTTTATGCCTAGTAGGCTTGGTGCCGGTGTA
1 ATCAAGCTTTATGCCTAGCAGGCTTCATGCCGGTGTA
15161056 TCATTTTTGG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (41 bp):
ATCAAGCTTTATGCCTAGCAGGCTTCATGCCGGTGTAACCT
Found at i:15162915 original size:10 final size:10
Alignment explanation
Indices: 15162900--15162925 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15162890 AGAAATGTAA
15162900 ATATATATAC
1 ATATATATAC
15162910 ATATATATAC
1 ATATATATAC
15162920 ATATAT
1 ATATAT
15162926 GTATATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATATAC
Found at i:15163327 original size:75 final size:75
Alignment explanation
Indices: 15163246--15163404 Score: 300
Period size: 75 Copynumber: 2.1 Consensus size: 75
15163236 ATCTACAAGA
*
15163246 AAATATATATTTTATAAGCATAAAGAATATATATAAGTATATATTTATGGAAATGGAGCATGGGT
1 AAATATATATTTTAAAAGCATAAAGAATATATATAAGTATATATTTATGGAAATGGAGCATGGGT
15163311 GTAGATATAT
66 GTAGATATAT
15163321 AAATATATATTTTAAAAGCATAAAGAATATATATAAGTATATATTTATGGAAATGGAGCATGGGT
1 AAATATATATTTTAAAAGCATAAAGAATATATATAAGTATATATTTATGGAAATGGAGCATGGGT
15163386 GTAGATATAT
66 GTAGATATAT
*
15163396 AAGTATATA
1 AAATATATA
15163405 AGTTATGAAA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 82 1.00
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (75 bp):
AAATATATATTTTAAAAGCATAAAGAATATATATAAGTATATATTTATGGAAATGGAGCATGGGT
GTAGATATAT
Found at i:15163415 original size:41 final size:41
Alignment explanation
Indices: 15163274--15163404 Score: 159
Period size: 41 Copynumber: 3.4 Consensus size: 41
15163264 CATAAAGAAT
15163274 ATATATAAGTATATATTTATGGAAATGGAGCATGGGTGTAG
1 ATATATAAGTATATATTTATGGAAATGGAGCATGGGTGTAG
* *** * *
15163315 ATATATAAATATATATTT-T--AAA---AGCAT-AAAGAAT
1 ATATATAAGTATATATTTATGGAAATGGAGCATGGGTGTAG
15163349 ATATATAAGTATATATTTATGGAAATGGAGCATGGGTGTAG
1 ATATATAAGTATATATTTATGGAAATGGAGCATGGGTGTAG
15163390 ATATATAAGTATATA
1 ATATATAAGTATATA
15163405 AGTTATGAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
34 19 0.27
35 6 0.08
37 3 0.04
38 3 0.04
40 6 0.08
41 34 0.48
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (41 bp):
ATATATAAGTATATATTTATGGAAATGGAGCATGGGTGTAG
Found at i:15163630 original size:26 final size:27
Alignment explanation
Indices: 15163580--15163644 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
15163570 AAATATAACA
* *
15163580 AAAACATATGTATATATATAAATTAT-
1 AAAATATATGTACATATATAAATTATC
**
15163606 AAAATATATGTACATATATGTATTATC
1 AAAATATATGTACATATATAAATTATC
*
15163633 AAAATGTATGTA
1 AAAATATATGTA
15163645 TGTATACATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 22 0.67
27 11 0.33
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (27 bp):
AAAATATATGTACATATATAAATTATC
Found at i:15164146 original size:116 final size:112
Alignment explanation
Indices: 15163838--15164264 Score: 446
Period size: 114 Copynumber: 3.8 Consensus size: 112
15163828 GCGTTTTTCA
* * * *
15163838 TAAAGCGCCGC-AAAATACCTAATCCCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTAGTGGC
1 TAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGATTTAGTGGC
* * *
15163902 GTTTTTTAAGAAAGCGCTGCTAAAGCTCAGGGCTTTAGCGGCGTTTTTGA
66 G-TTTTTAAGTAAGCGCCGCTAAAGCTCAGGGCTTTAGC-GCG-TTTTGG
* ** * * * *
15163952 AAAAGCGCAACAGAAAAACGTAAGCCCAACGACGTCG-TTTCTAAGCTTTCGGGGATTTAGCGGC
1 TAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGATTTAGTGGC
* *
15164016 GTTTTTAAGTAAGCGCCGTTAACGCTCAGGGCTTTAGCGCCGTTTATGG
66 GTTTTTAAGTAAGCGCCGCTAAAGCTCAGGGCTTTAGCG-CGTTT-TGG
* *
15164065 TAAAGCGCCGCAAAAAGAACCTAAGCCCAGCGACGCCGTTTTCTAAGCTTTTCGGGGATTTGGTG
1 TAAAGCGCCGCAAAAA-AACCTAAGCCCAACGACGCCGTTTTCTAAGC-TTTCGGGGATTTAGTG
* * *
15164130 GTGTTTTT-AGTCAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTTG
64 GCGTTTTTAAGT-AAGCGCCGCTAAAGCTCAGGGCTTTAGC-GCGTTTTGG
* * * * * * * * * **
15164180 TGAATGCGCCGCGAAAATACCTAAGCCTAACGACGCCATTTTTTGAGCTTTTGGCGATTTAACGG
1 T-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGATTTAGTGG
*
15164245 CGTTTTTAAGTAAGTGCCGC
65 CGTTTTTAAGTAAGCGCCGC
15164265 AAAAATACCT
Statistics
Matches: 259, Mismatches: 44, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
112 4 0.02
113 49 0.19
114 77 0.30
115 63 0.24
116 65 0.25
117 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (112 bp):
TAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGATTTAGTGGC
GTTTTTAAGTAAGCGCCGCTAAAGCTCAGGGCTTTAGCGCGTTTTGG
Found at i:15164290 original size:73 final size:73
Alignment explanation
Indices: 15164187--15164330 Score: 209
Period size: 73 Copynumber: 2.0 Consensus size: 73
15164177 TTGTGAATGC
* ** * *
15164187 GCCGCGAAAATACCTAAGCCTAACGACGCCATTTTTTGAGCTTTT-GGCGATTTAACGGCGTTTT
1 GCCGCAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCTTTTAAG-GATTTAACGGCATTTT
15164251 TAAGTAAGT
65 TAAGTAAGT
**
15164260 GCCGCAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCTTTTAAGGATTTAGTGGCATTTTT
1 GCCGCAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCTTTTAAGGATTTAACGGCATTTTT
15164325 AAGTAA
66 AAGTAA
15164331 ACATCGCTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
73 62 0.98
74 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (73 bp):
GCCGCAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCTTTTAAGGATTTAACGGCATTTTT
AAGTAAGT
Found at i:15164453 original size:114 final size:112
Alignment explanation
Indices: 15164237--15164657 Score: 497
Period size: 114 Copynumber: 3.7 Consensus size: 112
15164227 CTTTTGGCGA
* * * * * *
15164237 TTTAACGGCGTTTTTAAGTAAGTGCCGCAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCT
1 TTTAGCGGCATTTTTGAG-AAGCGCCGCAAAAATACCTAAGCCCAACGACGCCATTTTCTGAGCT
*** * * ** *
15164302 TTTAAGGATTTAGTGGCATTTTTAAGTAAACATCGCTAACGCCCAGGGC
65 TTCGGGGATTTAG-GACGTTTTTAAGTAAACGCCGCTAATGCCCAGGGC
**
15164351 TTTAGCGGCATTTTTGAGACAGCGCCGCAAAAATACCTAAGCCCAACGATACCATTTTCTGAGCT
1 TTTAGCGGCATTTTTGAGA-AGCGCCGCAAAAATACCTAAGCCCAACGACGCCATTTTCTGAGCT
* *
15164416 TTCGGGGATTTAGCGACGTTTTT-AGTCAAGCGCCGCTAATGCTCAGGGC
65 TTCGGGGATTTAG-GACGTTTTTAAGT-AAACGCCGCTAATGCCCAGGGC
* * * *
15164465 TTTAGCGGCGTTTTTGGGAATGCGCCGCAAAAATACCTAAGCCTAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCATTTTTGAGAA-GCGCCGCAAAAATACCTAAGCCCAACGACGCCATTTTCTGAGCT
* *
15164530 TTCGGGGATTTAGTAGTGTTTTTAAGTAAACGCCGCTAATGCCCAGGGC
65 TTCGGGGATTTAGGA-CGTTTTTAAGTAAACGCCGCTAATGCCCAGGGC
*
15164579 TTTAGCGGCGA-TTTTGAGAAG-GCAGCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAG
1 TTTAGCGGC-ATTTTTGAGAAGCGC--CGCAAAAATACCTAAGCCCAACGACGCCATTTTCTGAG
15164642 CTTTCAGGGGATTTAG
63 CTTTC-GGGGATTTAG
15164658 TGGCGTTTAT
Statistics
Matches: 266, Mismatches: 32, Indels: 17
0.84 0.10 0.05
Matches are distributed among these distances:
112 2 0.01
113 7 0.03
114 244 0.92
115 13 0.05
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (112 bp):
TTTAGCGGCATTTTTGAGAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCATTTTCTGAGCTT
TCGGGGATTTAGGACGTTTTTAAGTAAACGCCGCTAATGCCCAGGGC
Found at i:15164553 original size:301 final size:303
Alignment explanation
Indices: 15164004--15164558 Score: 792
Period size: 301 Copynumber: 1.8 Consensus size: 303
15163994 AAGCTTTCGG
* * * * * *
15164004 GGATTTAGCGGCGTTTTTAAGTAAGCGCCGTTAACGCTCAGGGCTTTAGCGCCGTTTATGGTAAA
1 GGATTTAGCGGCATTTTTAAGTAAACACCGCTAACGCCCAGGGCTTTAGCGCCATTTATGGTAAA
* * * * * **
15164069 GCGCCGCAAAAAGAACCTAAGCCCAGCGACGCCGTTTTCTAAGCTTTTCGGGGATTTGGTGGTGT
66 GCGCCGCAAAAAGAACCTAAGCCCAACGACACCATTTTCTAAGCTTTTCGGGGATTTAGCGACGT
* *
15164134 TTTTAGTCAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGTGAATGCGCCGCGAAAATA
131 TTTTAGTCAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGGGAATGCGCCGCAAAAATA
* * *
15164199 CCTAAGCCTAACGACGCCATTTTTTGAGCTTTTGGCGATTTAACGGCGTTTTTAAGTAAGTGCCG
196 CCTAAGCCTAACGACGCCATTTTCTGAGCTTTCGGCGATTTAACAGCGTTTTTAAGTAAGTGCCG
15164264 CAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCTTTTAA
261 CAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCTTTTAA
* * * * *
15164307 GGATTTAGTGGCATTTTTAAGTAAACATCGCTAACGCCCAGGGCTTTAGCGGCATTTTTGAG-AC
1 GGATTTAGCGGCATTTTTAAGTAAACACCGCTAACGCCCAGGGCTTTAGCGCCATTTATG-GTAA
* * *
15164371 AGCGCCGCAAAAA-TACCTAAGCCCAACGATACCATTTTCTGAGC-TTTCGGGGATTTAGCGACG
65 AGCGCCGCAAAAAGAACCTAAGCCCAACGACACCATTTTCTAAGCTTTTCGGGGATTTAGCGACG
*
15164434 TTTTTAGTCAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAATGCGCCGCAAAAAT
130 TTTTTAGTCAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGGGAATGCGCCGCAAAAAT
* * ** *
15164499 ACCTAAGCCTAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTAGTGTTTTTAAGTAA
195 ACCTAAGCCTAACGACGCCATTTTCTGAGCTTTCGGCGATTTAACAGCGTTTTTAAGTAA
15164559 ACGCCGCTAA
Statistics
Matches: 219, Mismatches: 32, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
301 129 0.59
302 25 0.11
303 64 0.29
304 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (303 bp):
GGATTTAGCGGCATTTTTAAGTAAACACCGCTAACGCCCAGGGCTTTAGCGCCATTTATGGTAAA
GCGCCGCAAAAAGAACCTAAGCCCAACGACACCATTTTCTAAGCTTTTCGGGGATTTAGCGACGT
TTTTAGTCAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGGGAATGCGCCGCAAAAATA
CCTAAGCCTAACGACGCCATTTTCTGAGCTTTCGGCGATTTAACAGCGTTTTTAAGTAAGTGCCG
CAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCTTTTAA
Found at i:15164554 original size:228 final size:228
Alignment explanation
Indices: 15164260--15164727 Score: 622
Period size: 228 Copynumber: 2.0 Consensus size: 228
15164250 TTAAGTAAGT
* *
15164260 GCCGCAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCTTTTAAGGATTTAGTGGCATTTTT
1 GCCGCAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCTTTCAAGGATTTAGTAGCATTTTT
*
15164325 AAGTAAACATCGCTAACGCCCAGGGCTTTAGCGGC-ATTTTTGAGACAGCGC-CGCAAAAATACC
66 AAGTAAACACCGCTAACGCCCAGGGCTTTAGCGGCGA-TTTTGAGA-AG-GCACGCAAAAATACC
* *
15164388 TAAGCCCAACGATACCATTTTCTGAGCTTTC-GGGGATTTAGCGACGTTT-TTAGTCAAGCGCCG
128 TAAGCCCAACGACACCATTTTCTGAGCTTTCAGGGGATTTAGCGACGTTTATGAGT-AAGCGCCG
* **
15164451 CTAATGCTCAGGG-CTTTAGCGGCGTTTTTGGGAATGC
192 CTAATGCTC-GGGTCTTTAGCAGCGTTTTTGACAATGC
* * ** **
15164488 GCCGCAAAAATACCTAAGCCTAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTAGTGTTTTT
1 GCCGCAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCTTTCAAGGATTTAGTAGCATTTTT
* *
15164553 AAGTAAACGCCGCTAATGCCCAGGGCTTTAGCGGCGATTTTGAGAAGGCAGCGCAAAAATACCTA
66 AAGTAAACACCGCTAACGCCCAGGGCTTTAGCGGCGATTTTGAGAAGGCA-CGCAAAAATACCTA
* * * * *
15164618 AGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGGATTTAGTGGCGTTTATGGGTAAGCGCCGCTA
130 AGCCCAACGACACCATTTTCTGAGCTTTCAGGGGATTTAGCGACGTTTATGAGTAAGCGCCGCTA
* * *
15164683 TTGTTCGGGTTTTTAGCAGCGTTTTTGACAATGC
195 ATGCTCGGGTCTTTAGCAGCGTTTTTGACAATGC
*
15164717 GCCGTAAAAAT
1 GCCGCAAAAAT
15164728 CATTTTATCT
Statistics
Matches: 209, Mismatches: 25, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
226 2 0.01
227 2 0.01
228 140 0.67
229 62 0.30
230 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (228 bp):
GCCGCAAAAATACCTAAGCCTAACGACGCCATTTGCTGAGCTTTCAAGGATTTAGTAGCATTTTT
AAGTAAACACCGCTAACGCCCAGGGCTTTAGCGGCGATTTTGAGAAGGCACGCAAAAATACCTAA
GCCCAACGACACCATTTTCTGAGCTTTCAGGGGATTTAGCGACGTTTATGAGTAAGCGCCGCTAA
TGCTCGGGTCTTTAGCAGCGTTTTTGACAATGC
Found at i:15167571 original size:22 final size:22
Alignment explanation
Indices: 15167543--15167616 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
15167533 ATTTTTCGCT
15167543 ATATATTACATTACTTACCGAA
1 ATATATTACATTACTTACCGAA
* *** *
15167565 ATATATTACATAACTTAAATAT
1 ATATATTACATTACTTACCGAA
*
15167587 ATAAATT-CATTACTTACCGAA
1 ATATATTACATTACTTACCGAA
*
15167608 ATACATTAC
1 ATATATTAC
15167617 TTATAATAAC
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
21 15 0.38
22 24 0.62
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (22 bp):
ATATATTACATTACTTACCGAA
Found at i:15167825 original size:9 final size:9
Alignment explanation
Indices: 15167792--15168248 Score: 430
Period size: 9 Copynumber: 53.3 Consensus size: 9
15167782 AATAACATAG
*
15167792 TAACTAACA
1 TAACTTACA
15167801 TAA--TACA
1 TAACTTACA
* *
15167808 TAGCCTACA
1 TAACTTACA
15167817 TAACTTACA
1 TAACTTACA
15167826 TAACTTACA
1 TAACTTACA
*
15167835 TAAATTACA
1 TAACTTACA
15167844 TAACTTACA
1 TAACTTACA
15167853 TAACTTACA
1 TAACTTACA
15167862 TAACTTACA
1 TAACTTACA
*
15167871 TAACTTAAA
1 TAACTTACA
15167880 TAACTTACA
1 TAACTTACA
15167889 TAA--TACA
1 TAACTTACA
*
15167896 TAACCTTTC-
1 TAA-CTTACA
15167905 TAACTTACA
1 TAACTTACA
* *
15167914 TTATTTACA
1 TAACTTACA
15167923 TAA--TACA
1 TAACTTACA
* *
15167930 TTACCTACA
1 TAACTTACA
15167939 TAACTTACA
1 TAACTTACA
15167948 T-A--T--A
1 TAACTTACA
15167952 TAACTTACA
1 TAACTTACA
* *
15167961 TAAATTAAA
1 TAACTTACA
15167970 TAACTTACA
1 TAACTTACA
15167979 TAACTTACA
1 TAACTTACA
15167988 TAACTTACA
1 TAACTTACA
*
15167997 TAAATTA-A
1 TAACTTACA
15168005 TTAACTTACA
1 -TAACTTACA
15168015 TAACTTACA
1 TAACTTACA
* *
15168024 TAAATTAAA
1 TAACTTACA
*
15168033 TAACTTCCA
1 TAACTTACA
*
15168042 TGACTTACA
1 TAACTTACA
*
15168051 TAACTTAAA
1 TAACTTACA
15168060 TAACTTACA
1 TAACTTACA
15168069 TAACTTACA
1 TAACTTACA
15168078 TAACTTACA
1 TAACTTACA
* *
15168087 TAAATTAAA
1 TAACTTACA
15168096 TAACTTACA
1 TAACTTACA
15168105 TAA--TACA
1 TAACTTACA
*
15168112 TAACCTT-CT
1 TAA-CTTACA
15168121 TAACTTACA
1 TAACTTACA
*
15168130 TTA--TACA
1 TAACTTACA
*
15168137 CAACTTACA
1 TAACTTACA
15168146 TAA-TTA-A
1 TAACTTACA
*
15168153 T-ATTATACA
1 TAACT-TACA
*
15168162 CAACTTACA
1 TAACTTACA
15168171 TAA--TACA
1 TAACTTACA
*
15168178 TTACTTACA
1 TAACTTACA
15168187 TAACTTACA
1 TAACTTACA
*
15168196 TTACTTACA
1 TAACTTACA
15168205 GT-ACTTACA
1 -TAACTTACA
15168214 TAA--TACA
1 TAACTTACA
15168221 TAA--TACA
1 TAACTTACA
15168228 TAACTTACA
1 TAACTTACA
15168237 TAACTTACA
1 TAACTTACA
15168246 TAA
1 TAA
15168249 TACATAAAAA
Statistics
Matches: 369, Mismatches: 48, Indels: 62
0.77 0.10 0.13
Matches are distributed among these distances:
4 2 0.01
5 1 0.00
6 2 0.01
7 54 0.15
8 15 0.04
9 288 0.78
10 7 0.02
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
TAACTTACA
Found at i:15167954 original size:13 final size:13
Alignment explanation
Indices: 15167938--15167962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15167928 CATTACCTAC
15167938 ATAACTTACATAT
1 ATAACTTACATAT
15167951 ATAACTTACATA
1 ATAACTTACATA
15167963 AATTAAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAACTTACATAT
Found at i:15168192 original size:50 final size:51
Alignment explanation
Indices: 15167792--15168255 Score: 225
Period size: 50 Copynumber: 9.4 Consensus size: 51
15167782 AATAACATAG
* * * *
15167792 TAACTAACATAA-TACATAGCCTACATAACTTACATAACTTACATAAATTACA
1 TAACTTACATAACTACATAACTTACATAACTTACATAA-TTACATATA-TACA
*
15167844 TAACTTACATAACTTACATAACTTACATAACTTAAATAACTTACATA-ATACA
1 TAACTTACATAAC-TACATAACTTACATAACTTACATAA-TTACATATATACA
* * *
15167896 TAAC---C-T---TTC-TAACTTACATTATTTACATAA-TACAT-TACCTACA
1 TAACTTACATAACTACATAACTTACATAACTTACATAATTACATATA--TACA
* *
15167939 TAACTTACAT-A-T--ATAACTTACATAAATTAAATAACTTACATA-ACTTACA
1 TAACTTACATAACTACATAACTTACATAACTTACATAA-TTACATATA--TACA
*
15167988 TAACTTACATAAATTA-ATTAACTTACATAACTTACAT-A--A-AT-TA-A-A
1 TAACTTACAT-AACTACA-TAACTTACATAACTTACATAATTACATATATACA
* * *
15168033 TAACTTCCATGACTTACATAACTTAAATAACTTACATAACTTACATA-ACTTACA
1 TAACTTACATAAC-TACATAACTTACATAACTTACATAA-TTACATATA--TACA
* * *
15168087 TAAATTAAATAACTTACATAA--TACATAACCTT-CTTAACTTACAT-TATACA
1 TAACTTACATAAC-TACATAACTTACATAA-CTTACATAA-TTACATATATACA
* * * *
15168137 CAACTTACATAATTA-AT-ATTATACACAACTTACATAA-TACAT-TACTTACA
1 TAACTTACATAACTACATAACT-TACATAACTTACATAATTACATATA--TACA
*
15168187 TAACTTACATTACTTACAGT-ACTTACATAA--TACATAA-TACATA-ACTTACA
1 TAACTTACATAAC-TACA-TAACTTACATAACTTACATAATTACATATA--TACA
15168237 TAACTTACATAA-TACATAA
1 TAACTTACATAACTACATAA
15168256 AAATATATCA
Statistics
Matches: 331, Mismatches: 36, Indels: 94
0.72 0.08 0.20
Matches are distributed among these distances:
41 6 0.02
43 26 0.08
44 3 0.01
45 30 0.09
46 4 0.01
47 21 0.06
48 16 0.05
49 31 0.09
50 71 0.21
51 3 0.01
52 45 0.14
53 10 0.03
54 65 0.20
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (51 bp):
TAACTTACATAACTACATAACTTACATAACTTACATAATTACATATATACA
Found at i:15168222 original size:7 final size:7
Alignment explanation
Indices: 15168210--15168255 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
15168200 TTACAGTACT
15168210 TACATAA
1 TACATAA
15168217 TACATAA
1 TACATAA
15168224 TACATAA
1 TACATAA
15168231 CTTACATAA
1 --TACATAA
15168240 CTTACATAA
1 --TACATAA
15168249 TACATAA
1 TACATAA
15168256 AAATATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.57
9 16 0.43
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:15179451 original size:39 final size:40
Alignment explanation
Indices: 15179347--15179531 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
15179337 TTGAATGATG
* * *
15179347 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * * * *
15179386 ATCTGGACTAAGAT-CCGAAGGTATTTGTGCGAGATGCTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
15179427 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
15179466 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
15179505 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
15179532 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.28
40 76 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:15179491 original size:79 final size:81
Alignment explanation
Indices: 15179347--15179531 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
15179337 TTGAATGATG
* * *
15179347 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGTATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
15179411 TGTGCGAGATGCTA-A
66 TGTGCGAGATACTATA
* * * **
15179426 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
15179488 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
15179506 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15179532 AACGAGGAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 33 0.37
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:15179553 original size:79 final size:79
Alignment explanation
Indices: 15179400--15179564 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
15179390 GGACTAAGAT
* * * ** *
15179400 CCGAAGGTATTTGTGCGAGATGCTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
15179465 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
15179479 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
* *
15179542 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
15179558 CCGAAGG
1 CCGAAGG
15179565 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.62
80 25 0.35
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:15186762 original size:16 final size:16
Alignment explanation
Indices: 15186744--15186785 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
15186734 GTAAAGAGAA
*
15186744 AAAAT-AAAATAAAAT
1 AAAATAAAAATAAAAC
*
15186759 AAAATAAAAACAAAAC
1 AAAATAAAAATAAAAC
*
15186775 AAAATATAAAT
1 AAAATAAAAAT
15186786 TCCACAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATAAAAATAAAAC
Found at i:15187363 original size:16 final size:16
Alignment explanation
Indices: 15187344--15187376 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15187334 TTGCTAAGTG
15187344 TTAATTTTGCAACTCT
1 TTAATTTTGCAACTCT
15187360 TTAATTTTGCAACTCT
1 TTAATTTTGCAACTCT
15187376 T
1 T
15187377 GATTTACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (16 bp):
TTAATTTTGCAACTCT
Found at i:15196653 original size:26 final size:26
Alignment explanation
Indices: 15196632--15196696 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
15196622 TAAATTCTTT
*
15196632 TTGAGTTTTCTTTTCAATAATTTCTC
1 TTGAGTTTTCTTTTCAAGAATTTCTC
*
15196658 TTGAGTTTTTTTTTCAAGAATTTCTC
1 TTGAGTTTTCTTTTCAAGAATTTCTC
15196684 TTGAG-TTTCTTTT
1 TTGAGTTTTCTTTT
15196697 AGAAAAGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 7 0.19
26 29 0.81
ACGTcount: A:0.17, C:0.12, G:0.11, T:0.60
Consensus pattern (26 bp):
TTGAGTTTTCTTTTCAAGAATTTCTC
Found at i:15198356 original size:63 final size:63
Alignment explanation
Indices: 15198256--15198382 Score: 168
Period size: 63 Copynumber: 2.0 Consensus size: 63
15198246 CTGTGTGACC
* * *
15198256 GTGTAACTCACTATTTGTGAATTAGGGTTACATGGGCCAGAGATATA-G-GCACGTGTCCAGGCT
1 GTGTAACTCACTATTTGTGAATTAGAGTTAAACGGGCC--AGATATACGAGCACGTGTCCAGGCT
* * *
15198319 GTGTAACTCACTGTTTGTGAATTAGAGTTAAACGGGCCATATATACGAGCATGTGTCCAGGCT
1 GTGTAACTCACTATTTGTGAATTAGAGTTAAACGGGCCAGATATACGAGCACGTGTCCAGGCT
15198382 G
1 G
15198383 CGTGAGACAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
61 6 0.11
62 1 0.02
63 49 0.88
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (63 bp):
GTGTAACTCACTATTTGTGAATTAGAGTTAAACGGGCCAGATATACGAGCACGTGTCCAGGCT
Found at i:15204856 original size:174 final size:174
Alignment explanation
Indices: 15204566--15204921 Score: 631
Period size: 174 Copynumber: 2.0 Consensus size: 174
15204556 TTTCTTCTAC
* * *
15204566 GTTCTTTTCTAGGTTTTGGTTACTATTTTTTTTTCGCTTTTGGTTTTCTTTCTACTTGTCCCCGT
1 GTTCTTTTCTAGGTTCTAGTTACTATTTTTTTTTCACTTTTGGTTTTCTTTCTACTTGTCCCCGT
* *
15204631 GATTTTACTATTGAATTAAATTGAAGGTTCAGCGTTGTTCATTATTCAATTGAAGGGGTTCTGCG
66 GATTTTACTATTGAATTAAATTGAAGGTTCAGCATTGTTCATTATTCAATTGAAGGGGTTCTGCA
15204696 TAAGTTGTTCTTGTTGTCTACTTCTAATTCGTGAGATTTCATCT
131 TAAGTTGTTCTTGTTGTCTACTTCTAATTCGTGAGATTTCATCT
* *
15204740 GTTCTTTTCTAGGTTCTAGTTACTGTTTTTTTTTCACTTTTGGTTTTCTTTTTACTTGTCCCCGT
1 GTTCTTTTCTAGGTTCTAGTTACTATTTTTTTTTCACTTTTGGTTTTCTTTCTACTTGTCCCCGT
*
15204805 GATTTTACTATTGAATTAAATTGAAGGTTCAGCATTGTTCATTGTTCAATTGAAGGGGTTCTGCA
66 GATTTTACTATTGAATTAAATTGAAGGTTCAGCATTGTTCATTATTCAATTGAAGGGGTTCTGCA
15204870 TAAGTTGTTCTTGTTGTCTACTTCTAATTCGTGAGATTTCATCT
131 TAAGTTGTTCTTGTTGTCTACTTCTAATTCGTGAGATTTCATCT
*
15204914 ATTCTTTT
1 GTTCTTTT
15204922 TTAGATTGAG
Statistics
Matches: 173, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 173 1.00
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.51
Consensus pattern (174 bp):
GTTCTTTTCTAGGTTCTAGTTACTATTTTTTTTTCACTTTTGGTTTTCTTTCTACTTGTCCCCGT
GATTTTACTATTGAATTAAATTGAAGGTTCAGCATTGTTCATTATTCAATTGAAGGGGTTCTGCA
TAAGTTGTTCTTGTTGTCTACTTCTAATTCGTGAGATTTCATCT
Found at i:15208614 original size:12 final size:12
Alignment explanation
Indices: 15208597--15208626 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15208587 TGTCACATGC
15208597 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
15208609 CCGTGTGTTAGG
1 CCGTGTGCTAGG
15208621 CCGTGT
1 CCGTGT
15208627 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:15214154 original size:40 final size:41
Alignment explanation
Indices: 15214004--15214155 Score: 193
Period size: 40 Copynumber: 3.8 Consensus size: 41
15213994 TATTACCACA
* * * *
15214004 AGCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
* * *
15214044 CGCACGAATGCCTTCGGGTCTTAGCTCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
* *
15214084 CGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
*
15214124 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATC
15214156 TCATTCACAT
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
40 94 0.96
41 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.23
Consensus pattern (41 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
Found at i:15218411 original size:41 final size:43
Alignment explanation
Indices: 15218353--15218456 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 43
15218343 GTCTGCTCCG
* *
15218353 CTGCAACTACAGGGAGATAAGACCTG-A-TGCGATCCACTCTA
1 CTGCAACTTCAGGGAGATAAGACCTGTACTGCAATCCACTCTA
* * ** *
15218394 CTGCAACTTCAGTGAGATAAGATCTGTTACTTTAATCCGCTCTA
1 CTGCAACTTCAGGGAGATAAGACCTG-TACTGCAATCCACTCTA
15218438 CTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGGGAGATA
15218457 GGATTAGTGG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
41 23 0.44
43 1 0.02
44 28 0.54
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (43 bp):
CTGCAACTTCAGGGAGATAAGACCTGTACTGCAATCCACTCTA
Found at i:15235651 original size:6 final size:6
Alignment explanation
Indices: 15235642--15235668 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15235632 CTTTTTTACA
15235642 CCTAAC CCTAAC CCTAAC CCTAAC CCT
1 CCTAAC CCTAAC CCTAAC CCTAAC CCT
15235669 TTTTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.19
Consensus pattern (6 bp):
CCTAAC
Found at i:15241964 original size:13 final size:13
Alignment explanation
Indices: 15241946--15241970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15241936 CCGAAACTAG
15241946 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
15241959 AAAGAAAAAAAA
1 AAAGAAAAAAAA
15241971 ATGCTCATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:15245738 original size:49 final size:51
Alignment explanation
Indices: 15245684--15245782 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 51
15245674 GGTGGAAGTA
* * * *
15245684 AGTGGCAGTTTATCTGCAAATTAGTAGTGGGTTGTCCAC-AA-GGTGTTTC
1 AGTGGCAGTATATCTGCAAATCAGTAGTGGCTTGGCCACAAATGGTGTTTC
* *
15245733 AGTGGCAGTATATCTGCATATCAGTGGTGGCTTGGCCACAAATGGTGTTT
1 AGTGGCAGTATATCTGCAAATCAGTAGTGGCTTGGCCACAAATGGTGTTT
15245783 TGGATGGACG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 33 0.79
50 2 0.05
51 7 0.17
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.33
Consensus pattern (51 bp):
AGTGGCAGTATATCTGCAAATCAGTAGTGGCTTGGCCACAAATGGTGTTTC
Found at i:15246152 original size:28 final size:29
Alignment explanation
Indices: 15246095--15246152 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 29
15246085 TTTAAATATA
* * *
15246095 TATGGACTTTTATTTATGATTTGGATTTT
1 TATGGACTTTTATTTATCATTAGGAATTT
15246124 TATGGAC-TTTATTT-TCATTAAGGAATTT
1 TATGGACTTTTATTTATCATT-AGGAATTT
15246152 T
1 T
15246153 TATGTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.16
28 14 0.56
29 7 0.28
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.55
Consensus pattern (29 bp):
TATGGACTTTTATTTATCATTAGGAATTT
Found at i:15248737 original size:18 final size:18
Alignment explanation
Indices: 15248714--15248765 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
15248704 TATAAAAACG
15248714 GTTTTTATAAAAACAACT
1 GTTTTTATAAAAACAACT
* **
15248732 GTTTTTCTAAAATTAACT
1 GTTTTTATAAAAACAACT
15248750 GTTTTTA-AGAAAACAA
1 GTTTTTATA-AAAACAA
15248766 ACCCGGTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (18 bp):
GTTTTTATAAAAACAACT
Found at i:15250519 original size:59 final size:61
Alignment explanation
Indices: 15250443--15250559 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
15250433 ATCACTTTAA
* * *
15250443 TATTAAATTAATATAATATTTA-T-CAAGAAAAATAATAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATATAATATTTACTACAAGAAAAACAATAAATTAAATTTAATATTAAATCT
* *
15250502 TATTAAAATAATATAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATATAATATTTA-CTACAAGAAAAACAATAAATTAAATTTAATATTAA
15250560 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
61 1 0.02
62 28 0.56
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (61 bp):
TATTAAAATAATATAATATTTACTACAAGAAAAACAATAAATTAAATTTAATATTAAATCT
Found at i:15250822 original size:204 final size:203
Alignment explanation
Indices: 15250464--15250877 Score: 720
Period size: 204 Copynumber: 2.0 Consensus size: 203
15250454 TATAATATTT
15250464 ATCAAGAAAAATAATAGATTAAATTTAATATTAAATCTTATTAAAATAATATAATATTTATCTAC
1 ATCAA-AAAAATAATAGATTAAATTTAATATTAAATCTTATTAAAATAATATAATATTTATCTAC
** *
15250529 AAGATAAACATTAAATTAAATTTAATATTAAGATAATCACTTTAATATTAGATTAATAAAATACT
65 AAGATAAACATTAAATTAAATTTAATATTAAGATAAAAACTTTAATATTAAATTAATAAAATACT
* *
15250594 ATTAAAATAAGTATTACATTAAATTTAATATTAAAATATTAAAATAAGATTATTTTTGTAATAGT
130 ATTAAAATAAGTATTACATTAAATTTAATATTAAAAGATTAAAATAAGATTATTTCTGTAATAGT
15250659 TAATCTAAA
195 TAATCTAAA
* *
15250668 ATCAAAATAAATAATAGGTTAAATTTAATATTAAATCTTATTAAAATAATATAATTTTTATCTAC
1 ATCAAAA-AAATAATAGATTAAATTTAATATTAAATCTTATTAAAATAATATAATATTTATCTAC
15250733 AAGATAAACATTAAATTAAATTTAATATTAAGATAAAAACTTTAATATTAAATTAATAAAATACT
65 AAGATAAACATTAAATTAAATTTAATATTAAGATAAAAACTTTAATATTAAATTAATAAAATACT
* *
15250798 ATTAAAATAAGTATTACATTAAATTTAATATTAAAAGATTAAAATAATATTATTTCTGTAATGGT
130 ATTAAAATAAGTATTACATTAAATTTAATATTAAAAGATTAAAATAAGATTATTTCTGTAATAGT
*
15250863 TAATCTGAA
195 TAATCTAAA
15250872 ATCAAA
1 ATCAAA
15250878 TTCCCTAGTA
Statistics
Matches: 199, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
203 2 0.01
204 197 0.99
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (203 bp):
ATCAAAAAAATAATAGATTAAATTTAATATTAAATCTTATTAAAATAATATAATATTTATCTACA
AGATAAACATTAAATTAAATTTAATATTAAGATAAAAACTTTAATATTAAATTAATAAAATACTA
TTAAAATAAGTATTACATTAAATTTAATATTAAAAGATTAAAATAAGATTATTTCTGTAATAGTT
AATCTAAA
Found at i:15252298 original size:16 final size:16
Alignment explanation
Indices: 15252277--15252307 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15252267 CTATGTATGT
*
15252277 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
15252293 AAAATACAAAAGACA
1 AAAATACAAAAGACA
15252308 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:15255285 original size:33 final size:35
Alignment explanation
Indices: 15255190--15255286 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
15255180 TTAATATTTT
*
15255190 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
15255225 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
15255258 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
15255287 ATATAACCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:15260703 original size:16 final size:16
Alignment explanation
Indices: 15260684--15260734 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 16
15260674 ATTAAATTTT
15260684 AATAAAATTATT-ATTA
1 AATAAAATT-TTAATTA
15260700 AAT-AAATTTTAATTA
1 AATAAAATTTTAATTA
*
15260715 AATAAAA-TTTAATAA
1 AATAAAATTTTAATTA
15260730 AATAA
1 AATAA
15260735 TATATAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 2 0.06
15 24 0.75
16 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAAAATTTTAATTA
Found at i:15260732 original size:26 final size:26
Alignment explanation
Indices: 15260676--15260730 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
15260666 TTATTGTTAT
**
15260676 TAAATTTTAATAAAATTATTATTAAA
1 TAAATTTTAATAAAATTAAAATTAAA
* *
15260702 TAAATTTTAATTAAA-TAAAATTTAA
1 TAAATTTTAATAAAATTAAAATTAAA
15260727 TAAA
1 TAAA
15260731 ATAATATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TAAATTTTAATAAAATTAAAATTAAA
Found at i:15260802 original size:24 final size:24
Alignment explanation
Indices: 15260768--15260824 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
15260758 ATATAATTAT
*
15260768 TAATAAAATATGAAT-TAATAAAAA
1 TAATAATATAT-AATATAATAAAAA
* *
15260792 TTATAATATATAATATTATAAAAA
1 TAATAATATATAATATAATAAAAA
15260816 TAAT-ATATA
1 TAATAATATA
15260825 ACCTACTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
TAATAATATATAATATAATAAAAA
Found at i:15261401 original size:69 final size:68
Alignment explanation
Indices: 15261322--15261456 Score: 189
Period size: 68 Copynumber: 2.0 Consensus size: 68
15261312 TAATTAAACT
* * *
15261322 TAATCGCTTTAATAATAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATAATAAATTAATAAAATA-TTATCAAGATAAATATTAAATTAAATTTAATATT
15261387 AAGA
65 AAGA
** * * *
15261391 TAATCACTTTAATTTTAAATTAATAAAATATTATTAATATAAGTATTAAATTAAATTTAATATTA
1 TAATCACTTTAATAATAAATTAATAAAATATTATCAAGATAAATATTAAATTAAATTTAATATTA
15261456 A
66 A
15261457 ACTATTAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 32 0.55
69 26 0.45
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (68 bp):
TAATCACTTTAATAATAAATTAATAAAATATTATCAAGATAAATATTAAATTAAATTTAATATTA
AGA
Found at i:15263019 original size:44 final size:44
Alignment explanation
Indices: 15262956--15263043 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
15262946 CTGAAGTAAG
*
15262956 TTGTCTTTTTCGCAATGTAAATGTTCTTACAATGTCACTTATCT
1 TTGTCTTTTTCGCAATGTAAACGTTCTTACAATGTCACTTATCT
15263000 TTGTCTTTTTCGCAATGTAAACGTTCTTACAATGTCACTTATCT
1 TTGTCTTTTTCGCAATGTAAACGTTCTTACAATGTCACTTATCT
15263044 CCAGTTTGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (44 bp):
TTGTCTTTTTCGCAATGTAAACGTTCTTACAATGTCACTTATCT
Found at i:15264534 original size:29 final size:28
Alignment explanation
Indices: 15264492--15264546 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
15264482 TGAGAGAAAT
15264492 GGCCCAGTCCGGTAAATAATTAAAAAACC
1 GGCCCAGTCCGGTAAAT-ATTAAAAAACC
* * *
15264521 GGCCCATTTCGGTAAATTTTAAAAAA
1 GGCCCAGTCCGGTAAATATTAAAAAA
15264547 AACCGGCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (28 bp):
GGCCCAGTCCGGTAAATATTAAAAAACC
Done.