Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 133 of 172
Found at i:38272342 original size:27 final size:27
Alignment explanation
Indices: 38272055--38272343 Score: 95
Period size: 27 Copynumber: 10.7 Consensus size: 27
38272045 CAAAAAGGTT
* *
38272055 GTTAAATGACCGAAATACCCTCGA-CGG
1 GTTAAATGACCGAAATACCC-CCATAGG
* * * *
38272082 GTAAAATTATCGAAATACCCCTA-ATGG
1 GTTAAATGACCGAAATACCCCCATA-GG
* * * * **
38272109 GTAAAATTACCGAAATACCCTCAAAAA
1 GTTAAATGACCGAAATACCCCCATAGG
* * *
38272136 GTAAAATTACCGAAATACCTCCGA-AGG
1 GTTAAATGACCGAAATACC-CCCATAGG
* * * * *
38272163 GTAAAATTACTGAAATACCCCTATAAG
1 GTTAAATGACCGAAATACCCCCATAGG
* * ** **
38272190 GTAAAATTACTAAAATACCCTTATAGG
1 GTTAAATGACCGAAATACCCCCATAGG
* * ** *
38272217 G-TAGAATGAGCAAAATACCCTTATTAGT
1 GTTA-AATGACCGAAATACCCCCA-TAGG
** * * * *
38272245 GCAAAATAACCAAAATACCCTCACAGG
1 GTTAAATGACCGAAATACCCCCATAGG
* * *
38272272 GTAAAATGATCGAAATACCTCCATAGG
1 GTTAAATGACCGAAATACCCCCATAGG
*
38272299 G-TAAAAGAACC-ATAATACCCCCATAGG
1 GTTAAATG-ACCGA-AATACCCCCATAGG
*
38272326 GTTAAATGGCCGAAATAC
1 GTTAAATGACCGAAATAC
38272344 TCCTGTAAGG
Statistics
Matches: 207, Mismatches: 44, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
26 11 0.05
27 166 0.80
28 29 0.14
29 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (27 bp):
GTTAAATGACCGAAATACCCCCATAGG
Found at i:38272472 original size:24 final size:24
Alignment explanation
Indices: 38272407--38272496 Score: 108
Period size: 24 Copynumber: 3.8 Consensus size: 24
38272397 CCCTCAAGTG
* * * *
38272407 TAAATGATTGATTTGTCCGTGGTG
1 TAAATGACTGATTTGTCTGTGATT
38272431 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
*
38272455 TAAATGACTGATTTGTCTGTGAAT
1 TAAATGACTGATTTGTCTGTGATT
***
38272479 GGTATGACTGATTTGTCT
1 TAAATGACTGATTTGTCT
38272497 ATTATTTGTA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.23, C:0.09, G:0.24, T:0.43
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATT
Found at i:38272507 original size:24 final size:24
Alignment explanation
Indices: 38272434--38272515 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
38272424 CGTGGTGTAA
**
38272434 ATGACTGATTTGTCTGTGATTTAA
1 ATGACTGATTTGTCTGTGATTTGT
* *
38272458 ATGACTGATTTGTCTGTGAATGGT
1 ATGACTGATTTGTCTGTGATTTGT
* *
38272482 ATGACTGATTTGTCTATTATTTGT
1 ATGACTGATTTGTCTGTGATTTGT
*
38272506 ATGATTGATT
1 ATGACTGATT
38272516 CTGAGTATGG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.23, C:0.07, G:0.22, T:0.48
Consensus pattern (24 bp):
ATGACTGATTTGTCTGTGATTTGT
Found at i:38272755 original size:32 final size:32
Alignment explanation
Indices: 38272684--38272761 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
38272674 TTTGCTACGA
* * *
38272684 TGCTACTGATGGCTTTGTGTCGATCATATTAC
1 TGCTATTGATGGCTGTGTGTCGATCATATCAC
***
38272716 CATTATTGATGGCTGTGTG-CTGATCATATCAC
1 TGCTATTGATGGCTGTGTGTC-GATCATATCAC
38272748 TGCTATTGATGGCT
1 TGCTATTGATGGCT
38272762 TTGTCCCAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
31 1 0.03
32 35 0.97
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (32 bp):
TGCTATTGATGGCTGTGTGTCGATCATATCAC
Found at i:38283303 original size:17 final size:17
Alignment explanation
Indices: 38283262--38283314 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
38283252 ATAGAAAGTC
* *
38283262 AAAGATATGGGTATTAG
1 AAAGATATGGGTATCAA
* *
38283279 AAATATATAGGTATCAA
1 AAAGATATGGGTATCAA
38283296 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
38283313 AA
1 AA
38283315 TCTGAGATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (17 bp):
AAAGATATGGGTATCAA
Found at i:38296146 original size:76 final size:76
Alignment explanation
Indices: 38296016--38296166 Score: 257
Period size: 76 Copynumber: 2.0 Consensus size: 76
38296006 AATAGTGACA
* *
38296016 TGCGTGAAGATGGTTCTCGGATGCATACAAAACTGTGGCAGAACAAGATGGATGCCTTATGTAGG
1 TGCGTGAAGATGGTTCTCGGATGCATACAAAACCGTGGCAGAACAAGATAGATGCCTTATGTAGG
38296081 GATGTTCAGGT
66 GATGTTCAGGT
* * *
38296092 TGCGTGAAGATGGTTCTCGGATGCATGCAAAACCGTGGCAGAACGAGATAGATGCCTTGTGTAGG
1 TGCGTGAAGATGGTTCTCGGATGCATACAAAACCGTGGCAGAACAAGATAGATGCCTTATGTAGG
38296157 GATGTTCAGG
66 GATGTTCAGG
38296167 CTTTGCATCG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.25
Consensus pattern (76 bp):
TGCGTGAAGATGGTTCTCGGATGCATACAAAACCGTGGCAGAACAAGATAGATGCCTTATGTAGG
GATGTTCAGGT
Found at i:38297786 original size:31 final size:31
Alignment explanation
Indices: 38297751--38297927 Score: 216
Period size: 31 Copynumber: 5.7 Consensus size: 31
38297741 GTATATGTTT
*
38297751 TATACATTG-CTGAATTTGATTTGTATATAGA
1 TATACATTGTC-GAATTTGATTTGTATATGGA
*
38297782 TATACATTGTCGAATTTGATTTGTATAT-AA
1 TATACATTGTCGAATTTGATTTGTATATGGA
* *
38297812 CCATACATTGTCGAATTTGATTTGTATATGGT
1 -TATACATTGTCGAATTTGATTTGTATATGGA
* *
38297844 TATACATTGTCAAATTTAATTTGTATATGGA
1 TATACATTGTCGAATTTGATTTGTATATGGA
* * *
38297875 TATTCATTGCCGAATTTGATTTATATATGGA
1 TATACATTGTCGAATTTGATTTGTATATGGA
* *
38297906 TATATATTGCCGAA-TTGATTTG
1 TATACATTGTCGAATTTGATTTG
38297928 AGCATTGGAT
Statistics
Matches: 127, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
30 8 0.06
31 118 0.93
32 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (31 bp):
TATACATTGTCGAATTTGATTTGTATATGGA
Found at i:38305277 original size:31 final size:31
Alignment explanation
Indices: 38305242--38305418 Score: 216
Period size: 31 Copynumber: 5.7 Consensus size: 31
38305232 GTATATGTTT
*
38305242 TATACATTG-CTGAATTTGATTTGTATATAGA
1 TATACATTGTC-GAATTTGATTTGTATATGGA
*
38305273 TATACATTGTCGAATTTGATTTGTATAT-AA
1 TATACATTGTCGAATTTGATTTGTATATGGA
* *
38305303 CCATACATTGTCGAATTTGATTTGTATATGGT
1 -TATACATTGTCGAATTTGATTTGTATATGGA
* *
38305335 TATACATTGTCAAATTTAATTTGTATATGGA
1 TATACATTGTCGAATTTGATTTGTATATGGA
* * *
38305366 TATTCATTGCCGAATTTGATTTATATATGGA
1 TATACATTGTCGAATTTGATTTGTATATGGA
* *
38305397 TATATATTGCCGAA-TTGATTTG
1 TATACATTGTCGAATTTGATTTG
38305419 AGCATTGGAT
Statistics
Matches: 127, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
30 8 0.06
31 118 0.93
32 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (31 bp):
TATACATTGTCGAATTTGATTTGTATATGGA
Found at i:38309839 original size:24 final size:24
Alignment explanation
Indices: 38309812--38309859 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38309802 ATACCTCAAC
38309812 AACAACAACAATTATTATTATTAT
1 AACAACAACAATTATTATTATTAT
***
38309836 AACAACAATTGTTATTATTATTAT
1 AACAACAACAATTATTATTATTAT
38309860 TATTATTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (24 bp):
AACAACAACAATTATTATTATTAT
Found at i:38309841 original size:21 final size:21
Alignment explanation
Indices: 38309815--38309856 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
38309805 CCTCAACAAC
38309815 AACAACAATTATTATTATTAT
1 AACAACAATTATTATTATTAT
*
38309836 AACAACAATTGTTATTATTAT
1 AACAACAATTATTATTATTAT
38309857 TATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (21 bp):
AACAACAATTATTATTATTAT
Found at i:38313125 original size:18 final size:17
Alignment explanation
Indices: 38313104--38313141 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
38313094 TATTAAAGAA
*
38313104 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
38313122 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
38313139 TTT
1 TTT
38313142 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:38313166 original size:120 final size:118
Alignment explanation
Indices: 38312985--38313642 Score: 907
Period size: 120 Copynumber: 5.5 Consensus size: 118
38312975 GAATATAATG
* * *
38312985 ATTTGATTAAATTATATATTTTTATTAAATTATATTTAAAAATAATTAATTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
38313050 TAGTATTATATATTATGATTTTAGTAAATTC-TAAGAATATTTAATATTAAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTCTTAAGAATATTTAATATT-AAGA
*
38313103 ATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTT
1 ATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATTTTAAATTATATTT
38313168 TATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
64 TATAGTATTATATATTATGATTTTAGTAAATTC--TTAAGAATATTTAATATTAAGA
*
38313225 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
38313290 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTC--TTAAGAATATTT-AATATTAAGA
*
38313346 ATTTTATTAAATTATATATTTCTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
* *
38313411 TAGTATTATATATTATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTC-T-TAAGAATATTTAATATTAAGA
* *
38313466 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATCTTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
* * * * ** * *
38313531 -A--ATTATTTA-T-TG-TTAATAATAATTTACCAAAACAAATTTCTGCTAATTATTAAGA
66 TAGTATTATATATTATGATT-TTAGTAAATT--CTTAA-GAATAT-T--TAA-TATTAAGA
* * *
38313586 ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT-TTTAAAT
38313643 ATGATTAAAT
Statistics
Matches: 497, Mismatches: 27, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
114 2 0.00
115 10 0.02
116 5 0.01
117 9 0.02
118 32 0.06
119 4 0.01
120 263 0.53
121 119 0.24
122 36 0.07
123 17 0.03
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (118 bp):
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
TAGTATTATATATTATGATTTTAGTAAATTCTTAAGAATATTTAATATTAAGA
Found at i:38313373 original size:18 final size:17
Alignment explanation
Indices: 38313346--38313500 Score: 74
Period size: 18 Copynumber: 9.0 Consensus size: 17
38313336 AATATTAAGA
38313346 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
38313363 ATTTCTATTAAA-T-TAT
1 ATTT-TATTAAATTATAT
* *
38313379 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
38313393 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
38313412 AGTATTA-TATATTATA-
1 A-TTTTATTAAATTATAT
38313428 ATTTTATTAAATTCATAT
1 ATTTTATTAAATT-ATAT
*** *
38313446 AAGAATATTTAATATTA-AGA
1 -ATTTTA-TTAA-ATTATA-T
38313466 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
38313483 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
38313501 TTAATAATAA
Statistics
Matches: 102, Mismatches: 18, Indels: 35
0.66 0.12 0.23
Matches are distributed among these distances:
13 2 0.02
14 5 0.05
15 10 0.10
16 10 0.10
17 23 0.23
18 32 0.31
19 9 0.09
20 8 0.08
21 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:38313417 original size:22 final size:23
Alignment explanation
Indices: 38313392--38313434 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
38313382 TAATAATAAT
*
38313392 TATTTTAAATTAT-ATTTTATAG
1 TATTATAAATTATAATTTTATAG
*
38313414 TATTATATATTATAATTTTAT
1 TATTATAAATTATAATTTTAT
38313435 TAAATTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTATAAATTATAATTTTATAG
Found at i:38313476 original size:241 final size:239
Alignment explanation
Indices: 38312985--38313530 Score: 934
Period size: 241 Copynumber: 2.3 Consensus size: 239
38312975 GAATATAATG
* * *
38312985 ATTTGATTAAATTATATATTTTTATTAAATTATATTTAAAAATAATTAATTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
38313050 TAGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAAGAATTTTATTAAAT
66 TAGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAAGAATTTTATTAAAT
*
38313115 TATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTTTATAGTATTATA
131 TATATATTTCTACTAAATTATA-TTTTAATAATAATTATTTTAAATTATATTTTATAGTATTATA
* *
38313180 TATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
195 TATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
*
38313225 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
38313290 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATT-AAGAATTTTATT
66 TAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTT-AATATTAAAGAATTTTATT
*
38313354 AAATTATATATTTCTATTAAATTATA-TTTAATAATAATTATTTTAAATTATATTTTATAGTATT
127 AAATTATATATTTCTACTAAATTATATTTTAATAATAATTATTTTAAATTATATTTTATAGTATT
*
38313418 ATATATTATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGA
192 ATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
* *
38313466 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATCTTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
38313531 AATTATTTAT
Statistics
Matches: 290, Mismatches: 12, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
240 92 0.32
241 145 0.50
243 47 0.16
244 6 0.02
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (239 bp):
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
TAGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAAGAATTTTATTAAAT
TATATATTTCTACTAAATTATATTTTAATAATAATTATTTTAAATTATATTTTATAGTATTATAT
ATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
Found at i:38313614 original size:18 final size:17
Alignment explanation
Indices: 38313586--38313620 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38313576 ATTATTAAGA
*
38313586 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
38313603 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
38313621 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:38313620 original size:16 final size:16
Alignment explanation
Indices: 38313586--38313640 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
38313576 ATTATTAAGA
38313586 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
38313603 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
38313619 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
38313633 ATGTTTAA
1 AT-TTTAA
38313641 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:38313642 original size:241 final size:233
Alignment explanation
Indices: 38312985--38313642 Score: 797
Period size: 241 Copynumber: 2.7 Consensus size: 233
38312975 GAATATAATG
* *
38312985 ATTTGATTAAATTATATATTTTTATTAAATTATATTTAAAAATAATTAATTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT-ATTTAAATTATATTTTA
* * * * * *
38313050 TAGTATTATATATTATGATTTTAGTAAATT-C-TAA-GAATATTTAATATTAAAGAATTTTATTA
65 -A--ATTATTTA-TATG-TTATAATAATTTACAAAACAAATATTTAATATT-AAGAATTTTATTA
* *
38313112 AATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTTTATAGTATT
124 AATTATATA-TTTTATTAAA--ATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
* *
38313177 ATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
186 ATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
*
38313225 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTA
* * * * * *
38313290 TAGTATTATATATTATGATTTTAGTAAATT-CATTTAA-GAATATTTAAATATTAAGAATTTTAT
65 -A--ATTATTTA-TATG-TTATAATAATTTACA--AAACAAATATTT-AATATTAAGAATTTTAT
*
38313353 TAAATTATATATTTCTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
122 TAAATTATATATTT-TATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
*
38313418 ATATATTATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGA
186 ATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
*
38313466 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATCTTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT-TTAAATTATATTTTA
*
38313531 AATTATTTAT-TGTTAATAATAATTTACCAAAACAAATTTCTGCTAATTATTAAGAATTTTATTA
65 AATTATTTATATGTT-ATAATAATTTA-CAAAACAAATAT-T--TAA-TATTAAGAATTTTATTA
*
38313595 AATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
124 AATTATATATTTT-ATTAAAATATATTTAATAATAATTAT-TTTAAAT
38313643 ATGATTAAAT
Statistics
Matches: 381, Mismatches: 20, Indels: 33
0.88 0.05 0.08
Matches are distributed among these distances:
235 2 0.01
236 11 0.03
237 5 0.01
238 10 0.03
239 4 0.01
240 147 0.39
241 154 0.40
242 3 0.01
243 39 0.10
244 6 0.02
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (233 bp):
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTAA
ATTATTTATATGTTATAATAATTTACAAAACAAATATTTAATATTAAGAATTTTATTAAATTATA
TATTTTATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATA
ATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
Found at i:38313877 original size:16 final size:16
Alignment explanation
Indices: 38313856--38313924 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
38313846 GATTTGCTAT
38313856 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38313872 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
38313889 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
38313905 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38313921 TACA
1 TACA
38313925 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 35 0.70
17 15 0.30
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:38313899 original size:33 final size:32
Alignment explanation
Indices: 38313856--38313924 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
38313846 GATTTGCTAT
38313856 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
38313889 TACACTTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
38313921 TACA
1 TACA
38313925 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:38314272 original size:25 final size:25
Alignment explanation
Indices: 38314233--38314285 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
38314223 TGGAAACTTC
*
38314233 TTTACTTTTTTAA-TTATTTTTAAT
1 TTTACTTTTCTAATTTATTTTTAAT
*
38314257 TTTACATTTTCTAATTTCTTTTTAAT
1 TTTAC-TTTTCTAATTTATTTTTAAT
38314283 TTT
1 TTT
38314286 CAACAGCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.20
25 7 0.28
26 13 0.52
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTACTTTTCTAATTTATTTTTAAT
Found at i:38321152 original size:17 final size:18
Alignment explanation
Indices: 38321116--38321158 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
38321106 TATTATTTAT
*
38321116 TTAATTTACTTAACTAAA
1 TTAATTTACTCAACTAAA
*
38321134 TTAATTT-CTCAATTAAA
1 TTAATTTACTCAACTAAA
*
38321151 TTATTTTA
1 TTAATTTA
38321159 TTAACCCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATTTACTCAACTAAA
Found at i:38326610 original size:34 final size:34
Alignment explanation
Indices: 38326540--38326611 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
38326530 AAATAAAAAC
* ***
38326540 AAATTAAACCCAATATCCAAATATAATTTTGGAA
1 AAATTAAACCCAATATCAAAATATAATTTAACAA
*
38326574 AAATTAAAACCCAAT-TCAAAATTTAATTTAACAA
1 AAATT-AAACCCAATATCAAAATATAATTTAACAA
38326608 AAAT
1 AAAT
38326612 AATATTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 23 0.72
35 9 0.28
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (34 bp):
AAATTAAACCCAATATCAAAATATAATTTAACAA
Found at i:38331852 original size:31 final size:29
Alignment explanation
Indices: 38331787--38331852 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
38331777 CTCAAATTAT
* *
38331787 ATTTTAGTCACTTATGTTTAAAATGTTAC
1 ATTTTAGTCACTTACGTTTAAAATGTAAC
38331816 ATTTTAGTCACTTACG-TTAACATATTGTAAC
1 ATTTTAGTCACTTACGTTTAA-A-A-TGTAAC
38331847 ATTTTA
1 ATTTTA
38331853 ATCATTAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 4 0.12
29 16 0.50
30 1 0.03
31 11 0.34
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (29 bp):
ATTTTAGTCACTTACGTTTAAAATGTAAC
Found at i:38337393 original size:18 final size:19
Alignment explanation
Indices: 38337380--38337417 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
38337370 TTTATTTTTA
38337380 ATCAAATATATA-TTATAT
1 ATCAAATATATATTTATAT
*
38337398 ATTAAATATATATTTA-AT
1 ATCAAATATATATTTATAT
38337416 AT
1 AT
38337418 GGGCAGGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
ATCAAATATATATTTATAT
Found at i:38337615 original size:16 final size:16
Alignment explanation
Indices: 38337594--38337650 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
38337584 TTTGGTTCGC
*
38337594 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
38337610 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
38337626 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
38337642 TGTAATGGA
1 TGTAATGGA
38337651 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:38337917 original size:18 final size:17
Alignment explanation
Indices: 38337896--38337930 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38337886 TTATTATTAA
*
38337896 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38337914 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38337931 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38338067 original size:16 final size:16
Alignment explanation
Indices: 38338030--38338071 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38338020 TTAATCATAT
*
38338030 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
38338046 TT-AAATATATTATAA
1 TTAAAATATATTATAA
38338061 TTAAAATATAT
1 TTAAAATATAT
38338072 AATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:38338069 original size:154 final size:156
Alignment explanation
Indices: 38337783--38338080 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
38337773 TAGAATACCC
38337783 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
38337848 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
38337913 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
38337940 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
38338003 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
38338068 ATATAATTTAATA
131 ATATAATTTAATA
38338081 TGAATTTACT
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 60 0.43
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:38338078 original size:14 final size:15
Alignment explanation
Indices: 38338039--38338173 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
38338029 TTTAAACATA
*
38338039 ATTATTATTAAATAT
1 ATTATAATTAAATAT
38338054 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
38338068 A-TATAATTTAATAT
1 ATTATAATTAAATAT
*
38338082 GAATTTACTCAAATCATAATAT
1 --A-TTA-T--AATTA-AATAT
* *
38338104 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
38338119 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
38338132 ATTATTATTAAATAT
1 ATTATAATTAAATAT
38338147 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
38338161 A-TATAATTTAATA
1 ATTATAATTAAATA
38338174 AAATTCTTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
12 3 0.03
13 22 0.24
14 16 0.17
15 30 0.33
16 5 0.05
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
21 3 0.03
22 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:38338137 original size:154 final size:155
Alignment explanation
Indices: 38337822--38338137 Score: 401
Period size: 154 Copynumber: 2.0 Consensus size: 155
38337812 ATTGTTATTG
38337822 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTA-TATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
* *
38337887 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATT
65 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAGCATAAATA
** * * *** **
38337952 TGTTTTGGTAAATTATTATTGTTATTG
129 TGTACTGGTAAAATATAATTAACATAA
38337979 TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAACATAATT
1 TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
* * *
38338042 ATTATTAAATATATTATAATTAAAATATATAATTTAATATGAA-T-TTACTCAA-ATCATAATAT
66 ATTATTAAATATATTATAATTAAAATATATAATTTAATA-AAATTCTTAAT-AATAGCATAA-AT
38338104 ATGATACT-GTAAAATATAAATTAACATAA
128 ATG-TACTGGTAAAATAT-AATTAACATAA
38338133 TTATT
1 TTATT
38338138 ATTAAATATA
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
152 6 0.04
153 16 0.11
154 92 0.66
155 3 0.02
157 23 0.16
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (155 bp):
TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAGCATAAATATG
TACTGGTAAAATATAATTAACATAA
Found at i:38338188 original size:44 final size:43
Alignment explanation
Indices: 38338099--38338189 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
38338089 CTCAAATCAT
* * *
38338099 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
38338142 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
38338186 AATA
1 AATA
38338190 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:38338214 original size:120 final size:119
Alignment explanation
Indices: 38338079--38338297 Score: 336
Period size: 120 Copynumber: 1.8 Consensus size: 119
38338069 TATAATTTAA
* * * *
38338079 TATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAATTATTATTA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA-ATAATTAATATCA
38338142 AATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
64 AATATGATT-TAATT-AAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
38338199 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
*
38338264 TATGATTTAATTAAATATATGATTTAATAAAATT
66 TATGATTTAATTAAATATATAATTTAATAAAATT
38338298 TAAAATTATT
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
119 24 0.26
120 62 0.68
121 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (119 bp):
TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
TATGATTTAATTAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
Found at i:38338283 original size:17 final size:17
Alignment explanation
Indices: 38338263--38338296 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38338253 TTAATATCAA
*
38338263 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
38338280 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
38338297 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:38338439 original size:93 final size:92
Alignment explanation
Indices: 38338329--38338523 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
38338319 GATTATAGTT
* * *
38338329 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
38338392 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
38338422 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
38338487 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
38338514 TATGAATTTA
1 TATGAATTTA
38338524 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:38340128 original size:34 final size:34
Alignment explanation
Indices: 38340085--38340152 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
38340075 TCTGAAATTC
38340085 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
38340119 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
38340153 CTACATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (34 bp):
AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
Found at i:38340425 original size:78 final size:78
Alignment explanation
Indices: 38340296--38340452 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
38340286 TATTAGTCAA
* * *
38340296 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
* *
38340361 GGCAGCGACACTC
66 GACAGCAACACTC
** * * * *
38340374 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
38340439 GACAGCAACACTC
66 GACAGCAACACTC
38340452 G
1 G
38340453 AAACTTGCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GACAGCAACACTC
Found at i:38343267 original size:9 final size:9
Alignment explanation
Indices: 38343253--38343308 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
38343243 CATTTCTTCA
38343253 CTTCTTGTT
1 CTTCTTGTT
38343262 CTTCTTGTT
1 CTTCTTGTT
*
38343271 C-TCGTTTTT
1 CTTC-TTGTT
*
38343280 GTTCTTGTT
1 CTTCTTGTT
*
38343289 CTTCTTTTT
1 CTTCTTGTT
*
38343298 C-TCTTCTT
1 CTTCTTGTT
38343306 CTT
1 CTT
38343309 TTACTGTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 9 0.24
9 27 0.71
10 2 0.05
ACGTcount: A:0.00, C:0.23, G:0.09, T:0.68
Consensus pattern (9 bp):
CTTCTTGTT
Found at i:38343296 original size:18 final size:18
Alignment explanation
Indices: 38343253--38343308 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
38343243 CATTTCTTCA
*
38343253 CTTCTTGTTCTTCTTGTT
1 CTTCTTTTTCTTCTTGTT
*
38343271 C-TCGTTTTTGTTCTTGTT
1 CTTC-TTTTTCTTCTTGTT
*
38343289 CTTCTTTTTC-TCTTCTT
1 CTTCTTTTTCTTCTTGTT
38343306 CTT
1 CTT
38343309 TTACTGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 11 0.34
18 19 0.59
19 2 0.06
ACGTcount: A:0.00, C:0.23, G:0.09, T:0.68
Consensus pattern (18 bp):
CTTCTTTTTCTTCTTGTT
Found at i:38353449 original size:40 final size:40
Alignment explanation
Indices: 38353405--38353482 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
38353395 AAAACATTTG
38353405 AAATATT-TTAATATAATTTAATAATATTTTTATTAAATAA
1 AAATATTATTAA-ATAATTTAATAATATTTTTATTAAATAA
* * **
38353445 AAATATTATTAAATTATTTATTTTTATTTTTATTAAAT
1 AAATATTATTAAATAATTTAATAATATTTTTATTAAAT
38353483 TATATTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (40 bp):
AAATATTATTAAATAATTTAATAATATTTTTATTAAATAA
Found at i:38357312 original size:42 final size:42
Alignment explanation
Indices: 38357262--38357357 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
38357252 CTATACGAAT
* *
38357262 GGCACTAAGTGTGTGAAACTAAAATGACAATGGTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAACGACAATGGTGAATAACG
* *
38357304 GGTACTAAGTGTGCGAAACTAAAACGACAATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAACGACAATGGTGAATAACG
38357346 GGCACTAAGTGT
1 GGCACTAAGTGT
38357358 ATGCTACCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAACGACAATGGTGAATAACG
Found at i:38361167 original size:17 final size:18
Alignment explanation
Indices: 38361145--38361180 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
38361135 TATAAAAGTT
38361145 TCAATTATAT-TTTATTA
1 TCAATTATATATTTATTA
*
38361162 TCAATTATTTATTTATTA
1 TCAATTATATATTTATTA
38361180 T
1 T
38361181 TTTATGCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
TCAATTATATATTTATTA
Found at i:38367182 original size:5 final size:5
Alignment explanation
Indices: 38367168--38367206 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
38367158 GATTTATTTA
38367168 TAAA- TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
38367207 ATATAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TAAAT
Found at i:38370625 original size:25 final size:25
Alignment explanation
Indices: 38370597--38370667 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
38370587 ATTTTAGCGC
*
38370597 GCTATCTGATTATTAGCACGTTGGT
1 GCTATTTGATTATTAGCACGTTGGT
38370622 GCTATTTGATTATTAGCACGTTGGT
1 GCTATTTGATTATTAGCACGTTGGT
* *
38370647 ACTCTTTGATTATTAGCACGT
1 GCTATTTGATTATTAGCACGT
38370668 CAGTGCTCTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (25 bp):
GCTATTTGATTATTAGCACGTTGGT
Found at i:38370676 original size:25 final size:25
Alignment explanation
Indices: 38370603--38370676 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
38370593 GCGCGCTATC
*
38370603 TGATTATTAGCACGTTGGTGCTATT
1 TGATTATTAGCACGTTGGTGCTCTT
*
38370628 TGATTATTAGCACGTTGGTACTCTT
1 TGATTATTAGCACGTTGGTGCTCTT
**
38370653 TGATTATTAGCACGTCAGTGCTCT
1 TGATTATTAGCACGTTGGTGCTCT
38370677 CTGTTTAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (25 bp):
TGATTATTAGCACGTTGGTGCTCTT
Found at i:38370695 original size:22 final size:22
Alignment explanation
Indices: 38370667--38370725 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
38370657 TATTAGCACG
38370667 TCAGTGCTCTCTGTTTAGAACA
1 TCAGTGCTCTCTGTTTAGAACA
* * * *
38370689 TCTGTGCTCTCTGTATAGCACT
1 TCAGTGCTCTCTGTTTAGAACA
38370711 TCAGTGCTCTCTGTT
1 TCAGTGCTCTCTGTT
38370726 CATTAGTGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (22 bp):
TCAGTGCTCTCTGTTTAGAACA
Found at i:38377296 original size:46 final size:45
Alignment explanation
Indices: 38377204--38377296 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 45
38377194 GGTTAAGTAA
** *
38377204 CAGAAGCAATTTCAATTCACATACAGAACATATCAGCTACATATG
1 CAGAAGCAATTTCAATTCACATACAGAACATATCAAATACAAATG
* * * *
38377249 CAGAAGCAATTTTAGTTTCATATACAGAACATATCAAATTCAAATG
1 CAGAAGCAATTTCA-ATTCACATACAGAACATATCAAATACAAATG
38377295 CA
1 CA
38377297 ATTATTCCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 13 0.32
46 27 0.68
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (45 bp):
CAGAAGCAATTTCAATTCACATACAGAACATATCAAATACAAATG
Found at i:38379338 original size:14 final size:14
Alignment explanation
Indices: 38379316--38379354 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
38379306 GTCTGGGCCC
38379316 AAACAAAAAAAAACA
1 AAAC-AAAAAAAACA
* *
38379331 AAACAAAATAAATA
1 AAACAAAAAAAACA
38379345 AAACAAAAAA
1 AAACAAAAAA
38379355 CAATTAAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (14 bp):
AAACAAAAAAAACA
Found at i:38380795 original size:67 final size:65
Alignment explanation
Indices: 38380643--38380796 Score: 175
Period size: 67 Copynumber: 2.3 Consensus size: 65
38380633 TTTAATATTA
* * *
38380643 CTTTATTTATTTATTTATTTATTCTTTTACTTTTTAAATACTTAAATTTAACATTATTTGTTTTT
1 CTTTATTTATTTATTTA-TTATTCTTTTACTTTTTAAATACTTAAATTTAACATTACTT-ATCTT
38380708 CC
64 CC
* * * * *
38380710 TATTTATTTATTTATTTATTATTCTTTTATTTTTTAAATATTTAAATTTGATATTACTTATACTT
1 -CTTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAACATTACTTAT-CTT
38380775 CC
64 CC
38380777 CTTTCATTTCATTT-TTTATT
1 CTTT-ATTT-ATTTATTTATT
38380797 TTTTATTTGA
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
66 4 0.05
67 50 0.68
68 20 0.27
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.64
Consensus pattern (65 bp):
CTTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAACATTACTTATCTTCC
Found at i:38390110 original size:7 final size:7
Alignment explanation
Indices: 38390098--38390122 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38390088 TTTTTTCTTT
38390098 AAAATAG
1 AAAATAG
38390105 AAAATAG
1 AAAATAG
38390112 AAAATAG
1 AAAATAG
38390119 AAAA
1 AAAA
38390123 AGCCCAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAATAG
Found at i:38390846 original size:18 final size:18
Alignment explanation
Indices: 38390811--38390844 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38390801 GTCATTCACT
*
38390811 CTTTCTTTTTCAGTTTTA
1 CTTTATTTTTCAGTTTTA
38390829 CTTTATTTTT-AGTTTT
1 CTTTATTTTTCAGTTTT
38390845 TAATTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.71
Consensus pattern (18 bp):
CTTTATTTTTCAGTTTTA
Found at i:38398113 original size:6 final size:6
Alignment explanation
Indices: 38398102--38398132 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
38398092 TATCCTAGTG
*
38398102 GTCCCA GTCCCA GTCCCA GTCCCA GTTCCA G
1 GTCCCA GTCCCA GTCCCA GTCCCA GTCCCA G
38398133 AGCTCTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.45, G:0.19, T:0.19
Consensus pattern (6 bp):
GTCCCA
Found at i:38405000 original size:19 final size:19
Alignment explanation
Indices: 38404978--38405014 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38404968 AAATTATAAT
*
38404978 AATAAAATTAAATCCAAAC
1 AATAAAACTAAATCCAAAC
38404997 AATAAAACTAAATCCAAA
1 AATAAAACTAAATCCAAA
38405015 TTAATTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (19 bp):
AATAAAACTAAATCCAAAC
Found at i:38405548 original size:18 final size:19
Alignment explanation
Indices: 38405525--38405566 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
38405515 TGTTTTAAAG
38405525 TTTATAG-T-TTAATTTTAT
1 TTTATAGTTATTAATTTT-T
38405543 TTTATAGTTATTAATTTTT
1 TTTATAGTTATTAATTTTT
38405562 TTTAT
1 TTTAT
38405567 CTTTTAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTATAGTTATTAATTTTT
Found at i:38407593 original size:42 final size:42
Alignment explanation
Indices: 38407532--38407652 Score: 161
Period size: 42 Copynumber: 2.9 Consensus size: 42
38407522 TGCTAACTCA
* * *
38407532 TATGAGTTTCCGTTTAGCTCTTTTGAGCTTCAGTTTAACCCT
1 TATGGGTTTCCGTTTAGCTCTTATGAGCTTCAGTTCAACCCT
* * *
38407574 TATGGGTTTCCGTTAAGCTCTTACGAGCTTCCGTTCAACCCT
1 TATGGGTTTCCGTTTAGCTCTTATGAGCTTCAGTTCAACCCT
* * *
38407616 CATGGGTTTCCGTTTAGCTCTCATGAGCTTCTGTTCA
1 TATGGGTTTCCGTTTAGCTCTTATGAGCTTCAGTTCA
38407653 GCCTTCAGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (42 bp):
TATGGGTTTCCGTTTAGCTCTTATGAGCTTCAGTTCAACCCT
Found at i:38407596 original size:21 final size:21
Alignment explanation
Indices: 38407532--38407642 Score: 73
Period size: 21 Copynumber: 5.3 Consensus size: 21
38407522 TGCTAACTCA
*
38407532 TATGAGTTTCCGTTTAGCTCT
1 TATGAGTTTCCGTTAAGCTCT
* * * *
38407553 TTTGAGCTTCAGTTTAA-CCCT
1 TATGAGTTTCCG-TTAAGCTCT
*
38407574 TATGGGTTTCCGTTAAGCTCT
1 TATGAGTTTCCGTTAAGCTCT
* * *
38407595 TACGAGCTTCCGTTCAA-CCCT
1 TATGAGTTTCCGTT-AAGCTCT
* * *
38407616 CATGGGTTTCCGTTTAGCTCT
1 TATGAGTTTCCGTTAAGCTCT
*
38407637 CATGAG
1 TATGAG
38407643 CTTCTGTTCA
Statistics
Matches: 65, Mismatches: 21, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
20 5 0.08
21 55 0.85
22 5 0.08
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (21 bp):
TATGAGTTTCCGTTAAGCTCT
Found at i:38416307 original size:18 final size:19
Alignment explanation
Indices: 38416286--38416322 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
38416276 AAAAAATTAT
*
38416286 GAATTTTATTAT-TTTTTA
1 GAATTTTATCATATTTTTA
38416304 GAATTTTATCATATTTTTA
1 GAATTTTATCATATTTTTA
38416323 TATTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (19 bp):
GAATTTTATCATATTTTTA
Found at i:38432916 original size:21 final size:21
Alignment explanation
Indices: 38432891--38433039 Score: 149
Period size: 21 Copynumber: 7.1 Consensus size: 21
38432881 TTGTGTTTGC
*
38432891 TTTCAGTTTAGCTCTTATGAG
1 TTTCAGTTTAACTCTTATGAG
* *
38432912 CTTCAG-TTAACTCATATGAG
1 TTTCAGTTTAACTCTTATGAG
* *
38432932 TTTCAGTTTAACCCTT-TTAGG
1 TTTCAGTTTAACTCTTATGA-G
* *
38432953 TTTCAGTTTAGCTCTTTTGAG
1 TTTCAGTTTAACTCTTATGAG
* * *
38432974 CTTCAGTTTAACCCTTATGGG
1 TTTCAGTTTAACTCTTATGAG
* *
38432995 TTTCTGTTCAACTCTTATGAG
1 TTTCAGTTTAACTCTTATGAG
* *
38433016 TTTCTGTTTAACTCTTATGGG
1 TTTCAGTTTAACTCTTATGAG
38433037 TTT
1 TTT
38433040 TTGTTTAGCA
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
20 19 0.18
21 82 0.80
22 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (21 bp):
TTTCAGTTTAACTCTTATGAG
Found at i:38432931 original size:20 final size:20
Alignment explanation
Indices: 38432892--38432939 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
38432882 TGTGTTTGCT
* *
38432892 TTCAGTTTAGCTCTTATGAGC
1 TTCAG-TTAACTCATATGAGC
*
38432913 TTCAGTTAACTCATATGAGT
1 TTCAGTTAACTCATATGAGC
38432933 TTCAGTT
1 TTCAGTT
38432940 TAACCCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (20 bp):
TTCAGTTAACTCATATGAGC
Found at i:38433031 original size:63 final size:62
Alignment explanation
Indices: 38432891--38433034 Score: 173
Period size: 63 Copynumber: 2.3 Consensus size: 62
38432881 TTGTGTTTGC
* * *
38432891 TTTCAGTTTAGCTCTTATGAGCTTCAGTTAACTCATATGAGTTTCAGTTTAACCCTTTTAGG
1 TTTCAGTTTAGCTCTTATGAGCTTCAGTTAACCCATATGAGTTTCAGTTCAACCCTTTGAGG
* * * * *
38432953 TTTCAGTTTAGCTCTTTTGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTCAACTCTTATGA-G
1 TTTCAGTTTAGCTCTTATGAGCTTCAG-TTAACCCATATGAGTTTCAGTTCAACCCTT-TGAGG
* *
38433016 TTTCTGTTTAACTCTTATG
1 TTTCAGTTTAGCTCTTATG
38433035 GGTTTTTGTT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
62 26 0.38
63 41 0.59
64 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (62 bp):
TTTCAGTTTAGCTCTTATGAGCTTCAGTTAACCCATATGAGTTTCAGTTCAACCCTTTGAGG
Found at i:38438076 original size:26 final size:26
Alignment explanation
Indices: 38438026--38438107 Score: 137
Period size: 27 Copynumber: 3.1 Consensus size: 26
38438016 ATTCTTTGTC
*
38438026 AAAAATCAAATGATATAACTCTTGATT
1 AAAAATCAAAAGATATAACT-TTGATT
38438053 AAAAATCAAAAGATATAACTTTGATT
1 AAAAATCAAAAGATATAACTTTGATT
38438079 AAAAATCAAAAGATATAACTTTTGATT
1 AAAAATCAAAAGATATAAC-TTTGATT
38438106 AA
1 AA
38438108 TTACACCCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
26 25 0.47
27 28 0.53
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (26 bp):
AAAAATCAAAAGATATAACTTTGATT
Found at i:38446345 original size:18 final size:18
Alignment explanation
Indices: 38446304--38446338 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38446294 CACAATTAGG
38446304 ATTAGATTAGTGAGCATA
1 ATTAGATTAGTGAGCATA
38446322 ACTTAGATTA-TGAGCAT
1 A-TTAGATTAGTGAGCAT
38446339 TTATTAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (18 bp):
ATTAGATTAGTGAGCATA
Found at i:38447771 original size:2 final size:2
Alignment explanation
Indices: 38447764--38447802 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
38447754 TGGTAATAAT
38447764 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
38447803 TACTAGTGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:38449393 original size:17 final size:19
Alignment explanation
Indices: 38449371--38449405 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
38449361 AGATACTAAA
38449371 TTAAACAA-AAA-AAAAAC
1 TTAAACAATAAATAAAAAC
38449388 TTAAACAATAAATAAAAA
1 TTAAACAATAAATAAAAA
38449406 ATATCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (19 bp):
TTAAACAATAAATAAAAAC
Found at i:38455313 original size:11 final size:11
Alignment explanation
Indices: 38455297--38455330 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
38455287 TCAAATATTT
38455297 TCTCAATTTCC
1 TCTCAATTTCC
*
38455308 TCTCAATTTGC
1 TCTCAATTTCC
38455319 TCTCAATTTCC
1 TCTCAATTTCC
38455330 T
1 T
38455331 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:38455325 original size:22 final size:22
Alignment explanation
Indices: 38455293--38455346 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
38455283 TCTCTCAAAT
38455293 ATTT-TCTCAATTTCC-TCTC-A
1 ATTTCTCTCAATTTCCTTC-CAA
38455313 ATTTGCTCTCAATTTCCTTCCAA
1 ATTT-CTCTCAATTTCCTTCCAA
38455336 ATTTCTCTCAA
1 ATTTCTCTCAA
38455347 ATCCATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.13
22 19 0.63
23 7 0.23
ACGTcount: A:0.22, C:0.30, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTTCCAA
Found at i:38455379 original size:49 final size:52
Alignment explanation
Indices: 38455310--38455411 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 52
38455300 CAATTTCCTC
38455310 TCAATTTGCTCTCAATTTCCT-TCCAAATTTCTCTCAAAT-CC-ATATTTAATT
1 TCAATTTGC-CTCAATTTCCTCT-CAAATTTCTCTCAAATACCTATATTTAATT
* * *
38455361 TCAATTTG-CTCAATTTCCTCTTAAATTTCTCTTAAATACCTATTTTTAATT
1 TCAATTTGCCTCAATTTCCTCTCAAATTTCTCTCAAATACCTATATTTAATT
38455412 ATTTTTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
49 25 0.56
50 3 0.07
51 17 0.38
ACGTcount: A:0.27, C:0.23, G:0.02, T:0.48
Consensus pattern (52 bp):
TCAATTTGCCTCAATTTCCTCTCAAATTTCTCTCAAATACCTATATTTAATT
Found at i:38455450 original size:21 final size:22
Alignment explanation
Indices: 38455426--38455481 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
38455416 TTAAAAAAAG
38455426 TTAACTTAAAAACCCTAAA-CC
1 TTAACTTAAAAACCCTAAACCC
38455447 TTAACTTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
38455469 TTAACTTAAAAAC
1 TTAACTTAAAAAC
38455482 TTAAAAACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 19 0.56
22 15 0.44
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (22 bp):
TTAACTTAAAAACCCTAAACCC
Found at i:38455485 original size:30 final size:30
Alignment explanation
Indices: 38455449--38455511 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
38455439 CCTAAACCTT
38455449 AACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACTTAAAAACCCTAAACCCTTAACTTAAA
38455479 AACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACTTAAAAACCCTAAACCCTTAACTTAAA
38455509 AAC
1 AAC
38455512 CCTAAACCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (30 bp):
AACTTAAAAACCCTAAACCCTTAACTTAAA
Found at i:38455507 original size:22 final size:22
Alignment explanation
Indices: 38455479--38455538 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
38455469 TTAACTTAAA
*
38455479 AACTTAAAAACCCTAAACCCTT
1 AACTTAAAAACCCTAAACCATT
38455501 AACTTAAAAACCCTAAACCATT
1 AACTTAAAAACCCTAAACCATT
*
38455523 AACTTAAAAACTCTAA
1 AACTTAAAAACCCTAA
38455539 CCGTAACCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (22 bp):
AACTTAAAAACCCTAAACCATT
Found at i:38455515 original size:52 final size:51
Alignment explanation
Indices: 38455428--38455559 Score: 200
Period size: 52 Copynumber: 2.6 Consensus size: 51
38455418 AAAAAAAGTT
*
38455428 AACTTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACTTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACCATTAACTTAAA
38455479 AACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCATTAACTTAAA
1 AACTTAAAAACCCTAAA-CCTTAACTTAAAAACCCTAAACCATTAACTTAAA
*
38455531 AACTCT---AACCGT-AACCTTAACTTAAAAAC
1 AACT-TAAAAACCCTAAACCTTAACTTAAAAAC
38455560 TAAAAACCTT
Statistics
Matches: 77, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
48 15 0.19
49 2 0.03
50 5 0.06
51 17 0.22
52 37 0.48
53 1 0.01
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.23
Consensus pattern (51 bp):
AACTTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACCATTAACTTAAA
Found at i:38455567 original size:21 final size:22
Alignment explanation
Indices: 38455479--38455571 Score: 77
Period size: 22 Copynumber: 4.1 Consensus size: 22
38455469 TTAACTTAAA
*
38455479 AACTTAAAAACCCT-AAACCCTT
1 AACTTAAAAA-CCTAAAAACCTT
38455501 AACTTAAAAACCCT--AAACCATT
1 AACTTAAAAA-CCTAAAAACC-TT
*
38455523 AACTTAAAAACTCTAACCGTAACCTT
1 AACTTAAAAAC-CTAA---AAACCTT
38455549 AACTTAAAAA-CTAAAAACCTT
1 AACTTAAAAACCTAAAAACCTT
38455570 AA
1 AA
38455572 ACACTAACCC
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
21 13 0.21
22 28 0.46
24 4 0.07
26 12 0.20
27 4 0.07
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (22 bp):
AACTTAAAAACCTAAAAACCTT
Found at i:38455595 original size:22 final size:21
Alignment explanation
Indices: 38455559--38455599 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
38455549 AACTTAAAAA
**
38455559 CTAAAAACCTTAAACACTAACC
1 CTAAAAACCCAAAAC-CTAACC
38455581 CTAAAAACCCAAAACCTAA
1 CTAAAAACCCAAAACCTAA
38455600 TGTGGGAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.15
Consensus pattern (21 bp):
CTAAAAACCCAAAACCTAACC
Found at i:38455715 original size:40 final size:40
Alignment explanation
Indices: 38455639--38455716 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
38455629 AGGGGTGCGC
* * *
38455639 TACGTGGCAGCAAAACACGTCCACGCCAGCGTGCTTTGCA
1 TACGTGGCAACAAAACACGTCCACGCAAGCGCGCTTTGCA
* * **
38455679 TACGTGGCAACAAAGCGCGTCCACTTAAGCGCGCTTTG
1 TACGTGGCAACAAAACACGTCCACGCAAGCGCGCTTTG
38455717 TTGCCACGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (40 bp):
TACGTGGCAACAAAACACGTCCACGCAAGCGCGCTTTGCA
Found at i:38457234 original size:2 final size:2
Alignment explanation
Indices: 38457229--38457265 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
38457219 CTAAAGAAAT
38457229 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
38457266 TACTTGTGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:38458841 original size:30 final size:30
Alignment explanation
Indices: 38458805--38458879 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
38458795 TAATGTGTCA
*
38458805 GTGATCAACTTGTAACTTTCGAATAGTTCG
1 GTGATCAACTTGTAACTTTCAAATAGTTCG
* *
38458835 GTGATCAACTTATAACTTTCAAATAGTTTG
1 GTGATCAACTTGTAACTTTCAAATAGTTCG
* *
38458865 GTGAACAAATTGTAA
1 GTGATCAACTTGTAA
38458880 TTTTTTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (30 bp):
GTGATCAACTTGTAACTTTCAAATAGTTCG
Found at i:38463771 original size:24 final size:24
Alignment explanation
Indices: 38463737--38463788 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
38463727 TTTCTAGAAG
* *
38463737 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
38463761 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
38463785 ATTT
1 ATTT
38463789 TACTCTGATT
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:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:38468214 original size:24 final size:24
Alignment explanation
Indices: 38468151--38468202 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
38468141 TTTCTAAAAG
* * *
38468151 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
38468175 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
38468199 ATTT
1 ATTT
38468203 GACTTTGATT
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:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:38471969 original size:22 final size:22
Alignment explanation
Indices: 38471940--38472002 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
38471930 GCAACCATGA
38471940 AGCAGCCCCATACCTCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
38471962 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
*
38471984 AGCAGTCCCATACCTCCAC
1 AGCAGCCCCATACCTCCAC
38472003 AGCCCTTGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.51, G:0.11, T:0.13
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:38482926 original size:403 final size:398
Alignment explanation
Indices: 38482147--38482948 Score: 1507
Period size: 403 Copynumber: 2.0 Consensus size: 398
38482137 CCTTCGATAA
38482147 GATAAAACGGTATCTGTCTAATCCTCCTGTGCTAGTACCACGACCCCTGGAAAACCCTTAATTTT
1 GATAAAACGGTATCTGTCTAATCCTCCTGTGCTAGTACCACGACCCCTGGAAAACCCTTAATTTT
*
38482212 GTACCTGACCGTGTTTGAAAACTCAATGGGTTGCGTACTGGGCAACATGATGAGTCAGGGAGAAA
66 GTACCTGACCGTGTTTGAAAACTCAATGGATTGCGTACTGGGCAACATGATGAGTCAGGGAGAAA
38482277 AGAAAAGGCGATCTACTACCTCAGCAAAAAGTTCACTGAATATGAGGCAAAATATTCGTCCATTG
131 AGAAAAGGCGATCTACTACCTCAGCAAAAAGTTCACTGAATATGAGGCAAAATATTCGTCCATTG
*
38482342 AGAAATATTGTTACGCTCTGGTTTGGGTAGCTCGGAGACTCAGACAATATATGTTGTATCACACG
196 AGAAATATTGTTACGCTCTAGTTTGGGTAGCTCGGAGACTCAGACAATATATGTTGTATCACACG
38482407 ACATGGCTAATTTCAAAGCTGGACCCAATAAAATACATGATGGAATCGCCGGCACTATCAGGAAG
261 ACATGGCTAATTTCAAAGCTGGACCCAATAAAATACATGATGGAATCGCCGGCACTATCAGGAAG
38482472 AATGGCACGATGGCAGCTCCTCCTTTCGGAATATGACATTGCCTATGTAAGTCAGAAGTCAATAA
326 AATGGCACGATGGCAGCTCCTCCTTTCGGAATATGACATTGCCTATGTAAGTCAGAAGTCAATAA
38482537 AAGGGAGC
391 AAGGGAGC
38482545 GATAAAACGGTATCTGTCTAATCAACTCCTGTGACTGAGTACCACCGA-CCCTGGAAAACCCTTA
1 GATAAAACGGTATCTGTCTAATC--CTCCTGTG-CT-AGTACCA-CGACCCCTGGAAAACCCTTA
38482609 ATTTTGTACCTGACCGTGTTTGAAAACTCAATGGATTGCGTACTGGGGCAACATGATGAGTCAGG
61 ATTTTGTACCTGACCGTGTTTGAAAACTCAATGGATTGCGTACT-GGGCAACATGATGAGTCAGG
38482674 GAGAAAAGAAAAGGCGATCTACTACCTCAGCAAAAAGTTCACTGAATATGAGGCAAAATATTCGT
125 GAGAAAAGAAAAGGCGATCTACTACCTCAGCAAAAAGTTCACTGAATATGAGGCAAAATATTCGT
* *
38482739 CCATTGAGAAATATTGTTGCGCTCTAGTTTGGGTAGCTCGGAGACTCAGACAATATATTTTGTAT
190 CCATTGAGAAATATTGTTACGCTCTAGTTTGGGTAGCTCGGAGACTCAGACAATATATGTTGTAT
38482804 CACACGACATGGCTAATTTCAAAGCTGGACCCAATAAAATACATGATGGAATCGCCGGCACTATC
255 CACACGACATGGCTAATTTCAAAGCTGGACCCAATAAAATACATGATGGAATCGCCGGCACTATC
38482869 AGGAAGAATGGCACGATGGCAGCTCCTCCTTTCGGAATATGACATTGCCTATGTAAGTCAGAAGT
320 AGGAAGAATGGCACGATGGCAGCTCCTCCTTTCGGAATATGACATTGCCTATGTAAGTCAGAAGT
38482934 CAATAAAAGGGAGC
385 CAATAAAAGGGAGC
38482948 G
1 G
38482949 CAATAGCTGA
Statistics
Matches: 394, Mismatches: 4, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
398 23 0.06
400 8 0.02
401 2 0.01
402 66 0.17
403 295 0.75
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (398 bp):
GATAAAACGGTATCTGTCTAATCCTCCTGTGCTAGTACCACGACCCCTGGAAAACCCTTAATTTT
GTACCTGACCGTGTTTGAAAACTCAATGGATTGCGTACTGGGCAACATGATGAGTCAGGGAGAAA
AGAAAAGGCGATCTACTACCTCAGCAAAAAGTTCACTGAATATGAGGCAAAATATTCGTCCATTG
AGAAATATTGTTACGCTCTAGTTTGGGTAGCTCGGAGACTCAGACAATATATGTTGTATCACACG
ACATGGCTAATTTCAAAGCTGGACCCAATAAAATACATGATGGAATCGCCGGCACTATCAGGAAG
AATGGCACGATGGCAGCTCCTCCTTTCGGAATATGACATTGCCTATGTAAGTCAGAAGTCAATAA
AAGGGAGC
Found at i:38485807 original size:72 final size:74
Alignment explanation
Indices: 38485684--38485828 Score: 215
Period size: 72 Copynumber: 2.0 Consensus size: 74
38485674 CTTTCCAAGG
**
38485684 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
38485748 -TTTTAAAA
66 GTTTTAAAA
* * *
38485756 AAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGAGGCACGCCGAGGTATTTTTAGTTTA
1 AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
38485820 TGTTTTAAA
65 TGTTTTAAA
38485829 TTGACTCATA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
71 1 0.02
72 56 0.86
73 1 0.02
74 7 0.11
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTTAAAA
Found at i:38485860 original size:69 final size:68
Alignment explanation
Indices: 38485684--38485860 Score: 203
Period size: 72 Copynumber: 2.5 Consensus size: 68
38485674 CTTTCCAAGG
* **
38485684 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
38485749 TTT
66 TTT
* * * *
38485752 AAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCCGAGGTATTTTTAGT
1 ----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAT
38485817 TTATGTTTT
62 TT-T-TTTT
** *
38485826 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
38485861 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
69 31 0.34
72 56 0.61
73 1 0.01
74 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
TTT
Found at i:38486067 original size:72 final size:72
Alignment explanation
Indices: 38485864--38486244 Score: 584
Period size: 72 Copynumber: 5.2 Consensus size: 72
38485854 TAAGCCTTTT
* * * **
38485864 AATTTTTGTTTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
38485928 GTAATTTC
65 GTAATTTC
* * * * *
38485936 AATTTCTGTTGTTAAAAAAAAATCAACTCATATCGCGAGAAATGAGTTGAGCCTTAGGACACGCT
1 AATTTCTGTT-TT---CAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCT
38486001 GAGGTAATTTC
62 GAGGTAATTTC
38486012 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
38486077 TAATTTC
66 TAATTTC
38486084 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
38486149 TAATTTC
66 TAATTTC
* * *
38486156 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTAAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
*
38486221 TATTTTC
66 TAATTTC
38486228 AATTTCTGTTTTCAAAA
1 AATTTCTGTTTTCAAAA
38486245 AAAAAAAATC
Statistics
Matches: 288, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
71 2 0.01
72 221 0.77
75 6 0.02
76 59 0.20
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:38486329 original size:79 final size:72
Alignment explanation
Indices: 38485864--38487226 Score: 852
Period size: 73 Copynumber: 18.2 Consensus size: 72
38485854 TAAGCCTTTT
* ** * * **
38485864 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
38485929 TAATTTC
66 TAATTTC
* * *
38485936 AATTTCTGTTGTTAAAAAAAAATCAACTCATATCGCGAGAAATGAGTTGAGCCTTAGGACACGCT
1 AATTTCTGTT-TT---AAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCT
38486001 GAGGTAATTTC
62 GAGGTAATTTC
* *
38486012 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
38486077 TAATTTC
66 TAATTTC
* *
38486084 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
38486149 TAATTTC
66 TAATTTC
* * * * *
38486156 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTAAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
*
38486221 TATTTTC
66 TAATTTC
* ** *
38486228 AATTTCTGTTTTCAAAAAAAAAAAATCAACTTATATTGTGAGAGGTGAGTTGAACCTC-GGTTCA
1 AATTTCTGTTTT-------AAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGG---A
* *
38486292 CATGCTGAGGTATTTTC
56 CACGCTGAGGTAATTTC
* ** * *
38486309 AATTTCTGTTTTAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACAC
1 AATTTCTGTTTT-----AAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAG--GACAC
* * *
38486374 ACTGTGGT-ATTTT
59 GCTGAGGTAATTTC
*** * * * * * * ** * * *
38486387 AATTTC--AACT-CATATTGCGAGAGGTGA-GTT--GAG-CCTCAGGTCA-CAC-CGAGGTATTT
1 AATTTCTGTTTTAAAAAAT-C-A-A-CTTATATTGCGAGAAATGAGTTGAGC-CTC-AGG-A---
** ***
38486443 TC-CATTTCTGT--TTTC
56 -CACGCTGAGGTAATTTC
* * * * * **
38486458 ATTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTG
1 AAT-TTCTG-TTTT-AAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
38486523 AGGTAATTTC
63 AGGTAATTTC
* * * * *
38486533 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
*
38486598 TATTTTC
66 TAATTTC
* * *
38486605 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
38486670 GTAATTTC
65 GTAATTTC
* * ** * **
38486678 AATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAG
1 AATTTCTGTT-TTAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
*
38486743 GTATTTTC
65 GTAATTTC
* ** * *
38486751 AATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
1 AATTTCTG-TTTT-AA-AAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
38486816 AGGTATTTTCAATTCCTGTTC
63 AGG-----T-AA----T-TTC
* * * **
38486837 AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
38486902 GTAATTTC
65 GTAATTTC
* * ** * * *
38486910 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAG
1 AATTTCTG-TTTTAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
*
38486975 GTATTTTC
65 GTAATTTC
* * * * * * *
38486983 AAATTCTACTTTCAAAAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCT-TGGCTCACG-T
1 AATTTCT-GTTT-TAAAAAATCAACTTATATTGCGAGAA-ATGAGTTGAGCCTCAGG-ACACGCT
* *
38487045 GTTGAGTCACTTTC
62 G-AG-GT-AATTTC
** * ** *
38487059 AATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 AATTTCTG-TTTTA----------AAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGG
* *
38487124 GCACGCTGAGGTATTTTC
55 ACACGCTGAGGTAATTTC
* ** * * * ** *
38487142 AATTACTGTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAG
1 AATTTCTGTTT-TAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
*
38487207 GTATTTTC
65 GTAATTTC
*
38487215 CATTTCTGTTTT
1 AATTTCTGTTTT
38487227 TCAATTTATG
Statistics
Matches: 1067, Mismatches: 143, Indels: 162
0.78 0.10 0.12
Matches are distributed among these distances:
69 3 0.00
70 10 0.01
71 9 0.01
72 290 0.27
73 294 0.28
74 53 0.05
75 63 0.06
76 83 0.08
77 11 0.01
78 14 0.01
79 82 0.08
80 2 0.00
81 29 0.03
82 3 0.00
83 12 0.01
84 51 0.05
85 39 0.04
86 19 0.02
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (72 bp):
AATTTCTGTTTTAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:38486566 original size:377 final size:364
Alignment explanation
Indices: 38485878--38487481 Score: 1222
Period size: 377 Copynumber: 4.2 Consensus size: 364
38485868 TTTGTTTTTC
* *
38485878 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGGTAATTTCAATTT
* ** * * *
38485941 CTGTTGTTAAAAAAAAATCAACTCATATCGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGT
65 CTGTT-TT--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGT
* * ** * *
38486006 AATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
127 ATTTTCAA-------TTT----A-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACA
* * * *
38486071 CTGAGG-----T-AA----T-TTCAATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATG
180 CCGAGGTATTTTCAATTCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAATG
*
38486124 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCG
245 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCG
*
38486189 AGAAATGAGTTAAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAAAA
310 AGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTC-----AAA
* * * *
38486249 AAAATCAACTTATATTGTGAGAGGTGAGTTGAACCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCACATGCTGAGGTAATTTCAATTT
* * *
38486314 CTGTTTTAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGT
65 CTGTTTT----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACACTGA
* *
38486379 GGTATTTT-AA-TT-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTAT
124 GGTATTTTCAATTTATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACCGAGGTAT
* * * *
38486441 TTTCCATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTG
189 TTTCAATTCCTG--TTCAAT-TTATGTTTTTCAAA-AATCAACTCATATTGCGAGAAATGAGTTG
* **
38486506 AGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAA
250 AGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAA
38486571 TGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTTTC--A
315 TGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTTCAAA
* ** *
38486620 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGGTAATTTCAATTT
* * *
38486683 CTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATT
65 CTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATT
*
38486748 TTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
130 TTCAA--------TTT-------ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACA
** **
38486813 TTGAGGTATTTTCAATTCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
180 CCGAGGTATTTTCAATTCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAATG
*
38486878 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGC
245 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGC
** ** * ** * **
38486943 GAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTACTTTCAAA
309 GAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAA
* * * * *
38486999 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCACGTGTTGA-GTCACTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCACATGCTGAGGT-AATTTCAATT
*** ** *
38487063 TCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
64 TCTG-TTTTA---------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* * *
38487128 GCTGAGGTATTTTCAATTACTGTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCT
119 ACTGAGGTATTTTC-A--A---TTT-------ATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* ** * * * *
38487193 CAGGACATGCTGAGGTATTTTCCATTTCTGTTTTTCAATTTATG-TTTTCAAAAATCAATTCATA
171 CAAGACACACCGAGGTATTTTCAATTCCTG---TTCAATTTATGTTTTTCAAAAATCAACTCATA
** ** * * * *
38487257 TTGTTAGAGGTGAATGGAGCCTCAGGTCATACGCCGAGGTATTTTCAATAGATGTTTTTTCCAAT
233 TTGCGAGAAATGAGTTGAGCCTCAGG--ACACGCTGAGG---------TA-A-----TTT-CAAT
*
38487322 TTCTGCTTCTCAAAAAAAAATT-AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
280 TTCTG-TTTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
*
38487386 AGGTATTTTCAAGTTCTGCTTTTCAAAAAAA
339 AGGTATTTTCAATTTCTG-TTTTC----AAA
* * * *
38487417 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCACATGCTGAGGTAATTTCAATTT
38487482 TTCGTTTTTT
Statistics
Matches: 1007, Mismatches: 131, Indels: 143
0.79 0.10 0.11
Matches are distributed among these distances:
361 41 0.04
363 15 0.01
364 3 0.00
365 39 0.04
366 1 0.00
367 3 0.00
369 27 0.03
370 2 0.00
371 66 0.07
372 4 0.00
373 28 0.03
374 43 0.04
375 6 0.01
376 21 0.02
377 192 0.19
378 82 0.08
379 38 0.04
380 2 0.00
381 74 0.07
382 3 0.00
389 62 0.06
391 93 0.09
392 12 0.01
393 9 0.01
394 1 0.00
402 2 0.00
403 1 0.00
408 3 0.00
409 13 0.01
413 51 0.05
414 9 0.01
418 59 0.06
419 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (364 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCTGAGGTAATTTCAATTTC
TGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTT
TCAATTTATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTCAAT
TCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC
TCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAA
Found at i:38486946 original size:232 final size:228
Alignment explanation
Indices: 38486477--38487230 Score: 928
Period size: 232 Copynumber: 3.3 Consensus size: 228
38486467 TTTTTGAAAG
** * *
38486477 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTG-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGC
* **
38486541 TTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
66 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
* * **
38486605 AA---T-TTC----TGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
131 AATTCTGTTCTTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
38486662 ACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAA
196 ACGCTGAGGTAATTTCAATTTCTGTTTGTC-AAA
*
38486695 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGC
38486760 TTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
66 TTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
38486825 CAATTCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
130 CAATT-CTGTTC--TTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
38486890 GGACACGCTGAGGTAATTTCAATTTCTGTTTTTCAAA
192 GGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAA
** * * * * *
38486927 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTAC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGC
* ** *
38486992 -TTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACGTGTTGA-GTCA
66 TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACAC--GTTGAGGT-A
* *
38487054 CTTTCAATTTCTGTT-TTTATGTCTGTTTTC-TAAATCAACTCATATTGCGAGAGGTGAGTTGAG
126 TTTTCAA-TTCTGTTCTTTATG--T-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * * * *
38487117 CCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGGCAAA
187 CCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAA
* * * ** * *
38487159 AACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGC
38487224 TTTTCAA
66 TTTTCAA
38487231 TTTATGTTTT
Statistics
Matches: 470, Mismatches: 41, Indels: 36
0.86 0.07 0.07
Matches are distributed among these distances:
218 61 0.13
219 5 0.01
220 1 0.00
221 57 0.12
225 1 0.00
226 3 0.01
230 7 0.01
231 42 0.09
232 261 0.56
233 30 0.06
234 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (228 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGC
TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
AATTCTGTTCTTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTTCAATTTCTGTTTGTCAAA
Found at i:38486997 original size:159 final size:159
Alignment explanation
Indices: 38486674--38487478 Score: 561
Period size: 159 Copynumber: 5.0 Consensus size: 159
38486664 GCTGAGGTAA
* * **
38486674 TTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACAT
1 TTTCAATTTATGTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
38486739 TGAGGTATTTTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65 TGAGGTATTTTCAATTTCTGTTTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
** * *
38486804 CAAGACACGTTGAGGTATTTTC-AATTC--C
129 CGGGGCACGCTGAGGTATTTTCAAATTCTAC
*
38486832 TGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 T-TTCAATTTATG-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
38486897 CTGAGGTAATTTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64 CTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
38486961 CGGGGCACGCCGAGGTATTTTCAAATTCTAC
129 CGGGGCACGCTGAGGTATTTTCAAATTCTAC
* * *
38486992 TTTC-A---A-------AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-
1 TTTCAATTTATGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGC
* * ***
38487044 TGTTGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGT
65 TG-AG-GT-ATTTTCAATTTCTG--TTT-T-TC-----AAAAAATCAACTCATATTGCGAGAGGT
38487109 GAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC-AA-T-TAC
118 GAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAAATTCTAC
* * * *
38487148 --T---GTT-TG--G-CAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCT
1 TTTCAATTTATGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * **
38487204 GAGGTATTTTCCATTTCTGTTTTTCAATTTATGTTTTCAAAAATCAATTCATATTGTTAGAGGTG
66 GAGGTATTTTCAATTTCTGTTTTTC-----A-------AAAAATCAACTCATATTGCGAGAGGTG
* * * * * * * **
38487269 AATGGAGCCTCAGGTCATACGCCGAGGTATTTTCAATAGATGTTT
119 AGTTGAGCCTCGGGGC--ACGCTGAGGTATTTTCAA-A-TTCTAC
* * * ** *
38487314 TTTCCAATTTCTGCTTCTCAAAAAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
1 TTT-CAATTTATG-TTGTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * *
38487379 CACGTTGAGGTATTTTCAAGTTCTGCTTTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGA
60 CACGCTGAGGTATTTTCAATTTCTGTTTTTC-----AAAAAATCAACTCATATTGCGAGAGGTGA
* *
38487444 GTTGAGCCTTGGCTCGCACGCTGAGGTATTTTCAA
120 GTTGAGCCTCGG--GGCACGCTGAGGTATTTTCAA
38487479 TTTTTCGTTT
Statistics
Matches: 518, Mismatches: 70, Indels: 102
0.75 0.10 0.15
Matches are distributed among these distances:
146 4 0.01
147 41 0.08
148 2 0.00
149 13 0.03
151 3 0.01
152 6 0.01
153 3 0.01
154 4 0.01
155 1 0.00
156 15 0.03
157 56 0.11
158 48 0.09
159 175 0.34
160 6 0.01
161 15 0.03
162 1 0.00
163 1 0.00
165 1 0.00
166 1 0.00
168 1 0.00
172 2 0.00
173 2 0.00
174 50 0.10
176 1 0.00
177 1 0.00
181 65 0.13
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (159 bp):
TTTCAATTTATGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
GGGCACGCTGAGGTATTTTCAAATTCTAC
Found at i:38487669 original size:89 final size:90
Alignment explanation
Indices: 38487502--38487669 Score: 223
Period size: 89 Copynumber: 1.9 Consensus size: 90
38487492 CAATTTATGC
* * * * * *
38487502 TTTTCAAATTCTACTTTCCAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
*
38487567 ATGTCGAGGTATTTTCAAAATCTGT
66 ATGTCGAGCTATTTTCAAAATCTGT
* *
38487592 TTTTCAAATT-AAGTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCAC
1 TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
*
38487656 GTG-CTGAGCTATTT
66 ATGTC-GAGCTATTT
38487670 CTGTTTTAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
88 1 0.01
89 56 0.84
90 10 0.15
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (90 bp):
TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
ATGTCGAGCTATTTTCAAAATCTGT
Found at i:38488379 original size:22 final size:22
Alignment explanation
Indices: 38488350--38488412 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
38488340 GCAACCATGA
38488350 AGCAGCCCCATACCTCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
38488372 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
*
38488394 AGCAGTCCCATACCTCCAC
1 AGCAGCCCCATACCTCCAC
38488413 AGCCCTCGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.51, G:0.11, T:0.13
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:38489375 original size:107 final size:104
Alignment explanation
Indices: 38489176--38489389 Score: 392
Period size: 107 Copynumber: 2.0 Consensus size: 104
38489166 AAAGATTGGA
38489176 TCCGCATTCTTTTGTTTCAAATGGGCTAATGGCGCATTTGGTCCTTCTCTTTTGCGTCAATTTTC
1 TCCGCATTCTTTTGTTTCAAATGGGCTAATGGCGCATTTGGTCCTTCTCTTTTGCGTCAATTTTC
38489241 AATTGACTTCTATTTGTACTTGGTTTATTTTTTAAATGT
66 AATTGACTTCTATTTGTACTTGGTTTATTTTTTAAATGT
38489280 TCCGCATTCTTTATAAGTTTCAAATGGGCTAATGGCGCATTTGGTCCTTCTCTTTTGCGTCAATT
1 TCCGCATTCTTT-T--GTTTCAAATGGGCTAATGGCGCATTTGGTCCTTCTCTTTTGCGTCAATT
*
38489345 TTCAATTGACTTCTATTTGTACTTTGTTTATTTTTTAAATGT
63 TTCAATTGACTTCTATTTGTACTTGGTTTATTTTTTAAATGT
38489387 TCC
1 TCC
38489390 CTAATATTTA
Statistics
Matches: 106, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
104 12 0.11
105 1 0.01
107 93 0.88
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (104 bp):
TCCGCATTCTTTTGTTTCAAATGGGCTAATGGCGCATTTGGTCCTTCTCTTTTGCGTCAATTTTC
AATTGACTTCTATTTGTACTTGGTTTATTTTTTAAATGT
Found at i:38492542 original size:22 final size:22
Alignment explanation
Indices: 38492495--38492542 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
38492485 ATTATGGAAT
* * *
38492495 TTATGAATTAAAAATCAGAGAT
1 TTATAAATTAAAAATCAGAAAA
38492517 TTATAAATTAAAAAT-ATGAAAA
1 TTATAAATTAAAAATCA-GAAAA
38492539 TTAT
1 TTAT
38492543 GGTATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (22 bp):
TTATAAATTAAAAATCAGAAAA
Found at i:38495856 original size:2 final size:2
Alignment explanation
Indices: 38495849--38495897 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
38495839 CACCCACAAG
38495849 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
38495891 CT CT CT C
1 CT CT CT C
38495898 ACAAATACCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:38503202 original size:20 final size:20
Alignment explanation
Indices: 38503174--38503211 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38503164 AAACTATTAG
*
38503174 TTAATTATTAAATTTTTTAT
1 TTAACTATTAAATTTTTTAT
*
38503194 TTAACTATTTAATTTTTT
1 TTAACTATTAAATTTTTT
38503212 TGAAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTAACTATTAAATTTTTTAT
Found at i:38508454 original size:20 final size:21
Alignment explanation
Indices: 38508430--38508528 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 21
38508420 AAAATTACAA
*
38508430 AAAAATTAAAAAATAGTTTTT
1 AAAAATTAAAAAATAATTTTT
*
38508451 AAAAATT-CAAAATAATTTTT
1 AAAAATTAAAAAATAATTTTT
* *
38508471 -AAAATT-GAAAAT-ATTTATA
1 AAAAATTAAAAAATAATTT-TT
**
38508490 AAAAATCTAAAATTTATATTTTT
1 AAAAAT-TAAAAAATA-ATTTTT
38508513 AAAAAATTATAAAAAT
1 -AAAAATTA-AAAAAT
38508529 TCAAAAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
18 4 0.07
19 12 0.20
20 16 0.27
21 8 0.13
22 3 0.05
23 3 0.05
24 14 0.23
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAAATTAAAAAATAATTTTT
Found at i:38508456 original size:21 final size:20
Alignment explanation
Indices: 38508430--38508517 Score: 72
Period size: 20 Copynumber: 4.2 Consensus size: 20
38508420 AAAATTACAA
*
38508430 AAAAATTAAAAAATAGTTTTT
1 AAAAATT-AAAAATAATTTTT
*
38508451 AAAAATTCAAAATAATTTTT
1 AAAAATTAAAAATAATTTTT
* *
38508471 -AAAATTGAAAAT-ATTTATA
1 AAAAATTAAAAATAATTT-TT
*
38508490 AAAAATCTAAAATTTATATTTTT
1 AAAAAT-TAAAA-ATA-ATTTTT
38508513 AAAAA
1 AAAAA
38508518 ATTATAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
18 4 0.07
19 12 0.22
20 16 0.30
21 11 0.20
22 1 0.02
23 6 0.11
24 4 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAATTAAAAATAATTTTT
Found at i:38508474 original size:19 final size:19
Alignment explanation
Indices: 38508439--38508492 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
38508429 AAAAAATTAA
*
38508439 AAAATAGTTTTTAAAAATTC
1 AAAATAATTTTT-AAAATTC
*
38508459 AAAATAATTTTTAAAATTG
1 AAAATAATTTTTAAAATTC
*
38508478 AAAAT-ATTTATAAAA
1 AAAATAATTTTTAAAA
38508493 AATCTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 9 0.29
19 11 0.35
20 11 0.35
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (19 bp):
AAAATAATTTTTAAAATTC
Found at i:38508491 original size:18 final size:19
Alignment explanation
Indices: 38508448--38508492 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
38508438 AAAAATAGTT
38508448 TTTA-AAAATTCAAAATAA
1 TTTATAAAATTCAAAATAA
* *
38508466 TTTTTAAAATTGAAAAT-A
1 TTTATAAAATTCAAAATAA
38508484 TTTATAAAA
1 TTTATAAAA
38508493 AATCTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TTTATAAAATTCAAAATAA
Found at i:38508536 original size:18 final size:18
Alignment explanation
Indices: 38508450--38508536 Score: 52
Period size: 19 Copynumber: 4.8 Consensus size: 18
38508440 AAATAGTTTT
*
38508450 TAAAAATTCAAAATAATTT
1 TAAAAATTCAAAA-AATTA
* * *
38508469 TTAAAATTGAAAATATTTA
1 TAAAAATTCAAAA-AATTA
* *
38508488 TAAAAAATC-TAAAATT-
1 TAAAAATTCAAAAAATTA
* ** *
38508504 TATATTTTTAAAAAATTA
1 TAAAAATTCAAAAAATTA
38508522 TAAAAATTCAAAAAA
1 TAAAAATTCAAAAAA
38508537 AATCTAAAAA
Statistics
Matches: 47, Mismatches: 19, Indels: 5
0.66 0.27 0.07
Matches are distributed among these distances:
16 4 0.09
17 9 0.19
18 13 0.28
19 21 0.45
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (18 bp):
TAAAAATTCAAAAAATTA
Found at i:38508554 original size:30 final size:29
Alignment explanation
Indices: 38508512--38508569 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
38508502 TTTATATTTT
* *
38508512 TAAAAAATTATAAAAATTCAAAAAAAATC
1 TAAAAAATTATAAAAAGTAAAAAAAAATC
38508541 TAAAAAATATATAAAAAGTAAAAAAAAAT
1 TAAAAAAT-TATAAAAAGTAAAAAAAAAT
38508570 TAGAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.22
Consensus pattern (29 bp):
TAAAAAATTATAAAAAGTAAAAAAAAATC
Found at i:38518767 original size:35 final size:35
Alignment explanation
Indices: 38518728--38518798 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
38518718 CATTTGTGTG
38518728 TTTGATTTTCATGTCAAAATTATTATAACTACCAT
1 TTTGATTTTCATGTCAAAATTATTATAACTACCAT
*
38518763 TTTGATTTTCATGTTAAAATTATTATAACTACCAT
1 TTTGATTTTCATGTCAAAATTATTATAACTACCAT
38518798 T
1 T
38518799 GCTGCATAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.48
Consensus pattern (35 bp):
TTTGATTTTCATGTCAAAATTATTATAACTACCAT
Found at i:38521926 original size:12 final size:12
Alignment explanation
Indices: 38521911--38521947 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
38521901 CCAAATACCT
38521911 ACACACACATAC
1 ACACACACATAC
*
38521923 ACACACACAGAC
1 ACACACACATAC
*
38521935 ACACACATATAC
1 ACACACACATAC
38521947 A
1 A
38521948 TATATATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.38, G:0.03, T:0.08
Consensus pattern (12 bp):
ACACACACATAC
Found at i:38521958 original size:16 final size:16
Alignment explanation
Indices: 38521939--38521970 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38521929 ACAGACACAC
*
38521939 ACATATACATATATAT
1 ACATACACATATATAT
38521955 ACATACACATATATAT
1 ACATACACATATATAT
38521971 TCAATAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (16 bp):
ACATACACATATATAT
Found at i:38522813 original size:16 final size:16
Alignment explanation
Indices: 38522792--38522825 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
38522782 CTTTAATTGC
38522792 CTTAAGGATATCTCTA
1 CTTAAGGATATCTCTA
38522808 CTTAAGGATATCTCTA
1 CTTAAGGATATCTCTA
38522824 CT
1 CT
38522826 GAGTCGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (16 bp):
CTTAAGGATATCTCTA
Found at i:38526398 original size:28 final size:28
Alignment explanation
Indices: 38526366--38526421 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
38526356 ACAGGAGAGA
38526366 AGGTTTCTTCATAATTAAGACCTTATTT
1 AGGTTTCTTCATAATTAAGACCTTATTT
38526394 AGGTTTCTTCATAATTAAGACCTTATTT
1 AGGTTTCTTCATAATTAAGACCTTATTT
38526422 CTATGTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (28 bp):
AGGTTTCTTCATAATTAAGACCTTATTT
Found at i:38531779 original size:21 final size:21
Alignment explanation
Indices: 38531753--38531804 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
38531743 CAGATTAACC
* * *
38531753 CTTATGGGTTTCCATTTAGCT
1 CTTATGAGCTTCCATTCAGCT
*
38531774 CTTATGAGCTTCCGTTCAGCT
1 CTTATGAGCTTCCATTCAGCT
38531795 CTTATGAGCT
1 CTTATGAGCT
38531805 ACAAGTTGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (21 bp):
CTTATGAGCTTCCATTCAGCT
Found at i:38531800 original size:42 final size:42
Alignment explanation
Indices: 38531692--38531785 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
38531682 AGTTAACTCA
* * * *
38531692 TATGAGTTTCAGTTTAACCC-TATTGGGTTTCCGTTTGGCTCT
1 TATGAGCTTCAGATTAACCCTTA-TGGGTTTCCATTTAGCTCT
*
38531734 TTTGAGCTTCAGATTAACCCTTATGGGTTTCCATTTAGCTCT
1 TATGAGCTTCAGATTAACCCTTATGGGTTTCCATTTAGCTCT
38531776 TATGAGCTTC
1 TATGAGCTTC
38531786 CGTTCAGCTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCAGATTAACCCTTATGGGTTTCCATTTAGCTCT
Found at i:38540830 original size:42 final size:42
Alignment explanation
Indices: 38540783--38540884 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 42
38540773 GAGTTTTAGT
*
38540783 TTAACCC-TATTAGGTTTCCGTTCAGCTCTTTTGAGCTTCAGC
1 TTAACCCTTA-TAGGTTTCCGTTCAGCTCTTATGAGCTTCAGC
* * *
38540825 TTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCCG-
1 TTAACCCTTATAGGTTTCCGTTCAGCTCTTATGAGCTTCAGC
*
38540866 TTCAACCCTTATGGGTTTC
1 TT-AACCCTTATAGGTTTC
38540885 TGTTAGAGGT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
41 2 0.04
42 50 0.93
43 2 0.04
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (42 bp):
TTAACCCTTATAGGTTTCCGTTCAGCTCTTATGAGCTTCAGC
Found at i:38540857 original size:21 final size:21
Alignment explanation
Indices: 38540827--38540888 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
38540817 GCTTCAGCTT
38540827 AACCCTTATGGGTTTCTGTTC
1 AACCCTTATGGGTTTCTGTTC
* * * * *
38540848 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGGGTTTCTGTTC
38540869 AACCCTTATGGGTTTCTGTT
1 AACCCTTATGGGTTTCTGTT
38540889 AGAGGTGATC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (21 bp):
AACCCTTATGGGTTTCTGTTC
Found at i:38540885 original size:42 final size:42
Alignment explanation
Indices: 38540795--38540888 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 42
38540785 AACCCTATTA
* *
38540795 GGTTTCCGTTCAGCTCTTTTGAGCTTCAGCTTAACCCTTATG
1 GGTTTCTGTTCAGCTCTTATGAGCTTCAGCTTAACCCTTATG
*
38540837 GGTTTCTGTTCAGCTCTTATGAGCTTCCG-TTCAACCCTTATG
1 GGTTTCTGTTCAGCTCTTATGAGCTTCAGCTT-AACCCTTATG
38540879 GGTTTCTGTT
1 GGTTTCTGTT
38540889 AGAGGTGATC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 2 0.04
42 46 0.96
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (42 bp):
GGTTTCTGTTCAGCTCTTATGAGCTTCAGCTTAACCCTTATG
Found at i:38541087 original size:25 final size:25
Alignment explanation
Indices: 38541055--38541111 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
38541045 TATATATTAA
38541055 ATATATTTTTTATTTTTAATCAAAT
1 ATATATTTTTTATTTTTAATCAAAT
38541080 ATATATTTTTTATTTTTAATCAAAT
1 ATATATTTTTTATTTTTAATCAAAT
38541105 ATATATT
1 ATATATT
38541112 ATATATATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (25 bp):
ATATATTTTTTATTTTTAATCAAAT
Found at i:38544886 original size:17 final size:17
Alignment explanation
Indices: 38544864--38544911 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
38544854 ATGAAGCATG
38544864 AATAATTTAAGAATAAT
1 AATAATTTAAGAATAAT
**
38544881 AATAATACAATG-ATAAT
1 AATAATTTAA-GAATAAT
*
38544898 GATAATTTAAGAAT
1 AATAATTTAAGAAT
38544912 TAAATATGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
16 1 0.04
17 22 0.92
18 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (17 bp):
AATAATTTAAGAATAAT
Found at i:38557470 original size:12 final size:12
Alignment explanation
Indices: 38557453--38557485 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
38557443 CGGCCCGCCC
38557453 ATATTAATTTTT
1 ATATTAATTTTT
38557465 ATATT-ATTTTT
1 ATATTAATTTTT
38557476 ATA-TAATTTT
1 ATATTAATTTT
38557486 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:38557653 original size:30 final size:30
Alignment explanation
Indices: 38557609--38557671 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
38557599 ACTTAACAAG
38557609 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
38557639 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
38557669 CAA
1 CAA
38557672 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:38557726 original size:22 final size:22
Alignment explanation
Indices: 38557701--38557743 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
38557691 TATCCAAACA
38557701 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
** *
38557723 ATAACAGTAAAATGGTAGCAA
1 ATAACAACAAAATAGTAGCAA
38557744 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.16
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:38562849 original size:15 final size:15
Alignment explanation
Indices: 38562829--38562906 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
38562819 TTTATGGAAA
38562829 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
38562844 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
38562858 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
38562874 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
38562888 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
38562904 ATC
1 ATC
38562907 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:38562930 original size:30 final size:30
Alignment explanation
Indices: 38562823--38562916 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
38562813 TCCATATTTA
* *
38562823 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
38562853 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
38562883 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
38562914 TGG
1 TGG
38562917 CATAATAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 52 0.87
31 8 0.13
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:38567522 original size:30 final size:30
Alignment explanation
Indices: 38567486--38567570 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
38567476 ATCCATATTT
* *
38567486 ATGGAAAATTAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
38567516 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
38567546 TTGGAAAGTCAAATATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
38567571 GAGATATTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.45, C:0.06, G:0.22, T:0.27
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:38567542 original size:15 final size:15
Alignment explanation
Indices: 38567500--38567570 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
38567490 AAAATTAAAG
38567500 ATATGGGTATCAAAT
1 ATATGGGTATCAAAT
** *
38567515 A-ATGGAAAGTCAAAG
1 ATATGGGTA-TCAAAT
38567530 ATATGGGTATCAAAT
1 ATATGGGTATCAAAT
**
38567545 AT-TGGAAAGTCAAAT
1 ATATGGGTA-TCAAAT
38567560 ATATGGGTATC
1 ATATGGGTATC
38567571 GAGATATTGG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
14 9 0.21
15 24 0.57
16 9 0.21
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (15 bp):
ATATGGGTATCAAAT
Found at i:38569065 original size:20 final size:20
Alignment explanation
Indices: 38569042--38569104 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
38569032 ATAAATTTAA
38569042 AAATTTAAAATATTATTTTT
1 AAATTTAAAATATTATTTTT
* **
38569062 AAATTTTACTTATTATTTTATT
1 AAATTTAAAATATTA-TTT-TT
* *
38569084 TATTATTAAAATATTATTTTT
1 AAAT-TTAAAATATTATTTTT
38569105 TATAGTTGGT
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
20 12 0.38
21 5 0.16
22 7 0.22
23 8 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
AAATTTAAAATATTATTTTT
Found at i:38579060 original size:9 final size:9
Alignment explanation
Indices: 38579046--38579103 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
38579036 AAAAAAGTAC
38579046 TTTTATAAT
1 TTTTATAAT
*
38579055 TTTTATACT
1 TTTTATAAT
*
38579064 TTTAATAAT
1 TTTTATAAT
*
38579073 TTTTATGTATT
1 TTTTA--TAAT
*
38579084 TTTTAAAAT
1 TTTTATAAT
38579093 TTTTA-AAT
1 TTTTATAAT
38579101 TTT
1 TTT
38579104 AAAAATTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
8 6 0.15
9 26 0.65
11 8 0.20
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Done.