Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 551 of 770
Found at i:171417640 original size:43 final size:43
Alignment explanation
Indices: 171417589--171417761 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
171417579 CATAGGATTT
*
171417589 TCGATATGTG-TTCTCGTGTAAGACCACGTCTACGACATTGGCA
1 TCGATATGTGATT-TCGTGTAAGACCACGTCTAGGACATTGGCA
** * *
171417632 TCGATATGTGATTTCGACTAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGATTTCGTGTAAGACCACGTCTAGGACATTGGCA
* *
171417675 TCG-TAATTGTGA-TTCGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGAT-A-TGTGATTTCGTGTAAGACCAC-GTCTAGGACATTGGCA
* * * * * *
171417718 CCTACATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATGTGATTTCGTGTAAGACCACGTCTAGGACATTGGCA
171417761 T
1 T
171417762 TGTACGATAT
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
42 6 0.06
43 91 0.87
44 8 0.08
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (43 bp):
TCGATATGTGATTTCGTGTAAGACCACGTCTAGGACATTGGCA
Found at i:171420150 original size:37 final size:37
Alignment explanation
Indices: 171420091--171420162 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
171420081 AGCTCAGATG
* *
171420091 AAATCTCCACACGAAGTTATCGGGTCTTACTCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
171420128 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
171420163 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:171420360 original size:48 final size:48
Alignment explanation
Indices: 171420302--171420501 Score: 337
Period size: 48 Copynumber: 4.2 Consensus size: 48
171420292 ATATACACAC
* *
171420302 ATCTCCTACATATTTTACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
171420350 ATCTCATACATATTTCACACTAGCCATTTGCCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
171420398 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
171420446 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACAAATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
171420494 ATCTCATA
1 ATCTCATA
171420502 TATTGTAACA
Statistics
Matches: 141, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 141 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:171423347 original size:19 final size:18
Alignment explanation
Indices: 171423310--171423353 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
171423300 ATACATACAG
171423310 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
171423327 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
171423346 TACTAATT
1 TAATAATT
171423354 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:171425323 original size:24 final size:24
Alignment explanation
Indices: 171425291--171425473 Score: 303
Period size: 24 Copynumber: 7.6 Consensus size: 24
171425281 TATCTCAAAT
171425291 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
171425315 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
171425339 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
171425363 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
171425387 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
171425411 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
171425435 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
171425459 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
171425474 ACATAATAAG
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 154 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:171425486 original size:48 final size:48
Alignment explanation
Indices: 171425291--171425495 Score: 243
Period size: 48 Copynumber: 4.3 Consensus size: 48
171425281 TATCTCAAAT
* * *
171425291 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA-TTCACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACAT-AATATA
* ** * *
171425339 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
** **
171425387 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
* * *
171425435 GCACTATGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ACATAATATA
171425483 GCACTATGTGTGC
1 GCACTATGTGTGC
171425496 CACATTCGGT
Statistics
Matches: 144, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
48 138 0.96
49 6 0.04
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
Found at i:171425487 original size:72 final size:72
Alignment explanation
Indices: 171425291--171425495 Score: 263
Period size: 72 Copynumber: 2.8 Consensus size: 72
171425281 TATCTCAAAT
*
171425291 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACT-AT-GGCACTATGTGTGCGA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA-ACA-TAATAGGCACTATGTGTGCGA
*
171425354 TTCACTATG
64 TTCACTATA
** *
171425363 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATGGCACTATGTGTGCGAT
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-GGCACTATGTGTGCGAT
**
171425427 TTGCTATA
65 TCACTATA
* * * *
171425435 GCACTATGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATAAGCACTATGTGTGC
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAGGCACTATGTGTGC
171425496 CACATTCGGT
Statistics
Matches: 115, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
69 1 0.01
70 1 0.01
72 108 0.94
73 5 0.04
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (72 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAGGCACTATGTGTGCGATT
CACTATA
Found at i:171432542 original size:2 final size:2
Alignment explanation
Indices: 171432537--171432566 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
171432527 CACAATCGGG
171432537 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
171432567 GTATGCCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:171433062 original size:24 final size:24
Alignment explanation
Indices: 171433013--171433170 Score: 255
Period size: 24 Copynumber: 6.6 Consensus size: 24
171433003 TATCTCAAAT
171433013 GCACTATGTGTGCGA-TTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
171433036 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
171433060 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
171433084 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
171433108 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
171433132 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
171433156 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
171433171 ACATAATAAG
Statistics
Matches: 129, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
23 15 0.12
24 114 0.88
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:171433183 original size:48 final size:48
Alignment explanation
Indices: 171433013--171433192 Score: 247
Period size: 48 Copynumber: 3.8 Consensus size: 48
171433003 TATCTCAAAT
* *
171433013 GCACTATGTGTGCGA-TTACTATGGCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
*
171433060 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
* * *
171433108 GCACTATGTGTGCGATTTGCTATAGCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
* ** *
171433156 GCTCTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 GCACTATGTGTGCG-ATTTACTATAGCACTATGTGTGC
171433193 CACATTCGGT
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
47 15 0.12
48 102 0.84
49 4 0.03
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
Found at i:171433184 original size:72 final size:72
Alignment explanation
Indices: 171433013--171433192 Score: 220
Period size: 72 Copynumber: 2.5 Consensus size: 72
171433003 TATCTCAAAT
* * * *
171433013 GCACTATGTGTGCGA-TTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATTCACTATAGCACTATGTGTGCGATT
*
171433077 TACTATG
66 TACTATA
** * * **
171433084 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTGCTATAGCACTATGTGTGCGATT
1 GCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATTCACTATAGCACTATGTGTGCGATT
*
171433149 TGCTATA
66 TACTATA
*
171433156 GCTCTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 GCACTATGTGTGCG-ACATAATATAGCACTATGTGTGC
171433193 CACATTCGGT
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
71 15 0.15
72 77 0.79
73 5 0.05
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (72 bp):
GCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATTCACTATAGCACTATGTGTGCGATT
TACTATA
Found at i:171436107 original size:24 final size:24
Alignment explanation
Indices: 171436080--171436160 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
171436070 TGGGATGGTA
171436080 GAAATAGTTAAAGGAATAATGTTC
1 GAAATAGTTAAAGGAATAATGTTC
* * * * * *
171436104 GAAATAAG-GAAATGATTTGGGATGGTA
1 GAAAT-AGTTAAAGGA-AT--AATGTTC
171436131 GAAATAGTTAAAGGAATAATGTTC
1 GAAATAGTTAAAGGAATAATGTTC
171436155 GAAATA
1 GAAATA
171436161 AGGAAATGTT
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 20 0.50
25 3 0.08
26 3 0.08
27 14 0.35
ACGTcount: A:0.46, C:0.02, G:0.25, T:0.27
Consensus pattern (24 bp):
GAAATAGTTAAAGGAATAATGTTC
Found at i:171436143 original size:51 final size:51
Alignment explanation
Indices: 171436067--171436168 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
171436057 ATATTATGGA
171436067 ATTTGGGATGGTAGAAATAGTTAAAGGAATAATGTTCGAAATAAGGAAATG
1 ATTTGGGATGGTAGAAATAGTTAAAGGAATAATGTTCGAAATAAGGAAATG
171436118 ATTTGGGATGGTAGAAATAGTTAAAGGAATAATGTTCGAAATAAGGAAATG
1 ATTTGGGATGGTAGAAATAGTTAAAGGAATAATGTTCGAAATAAGGAAATG
171436169 TTCCCTGATC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.43, C:0.02, G:0.27, T:0.27
Consensus pattern (51 bp):
ATTTGGGATGGTAGAAATAGTTAAAGGAATAATGTTCGAAATAAGGAAATG
Found at i:171436542 original size:16 final size:15
Alignment explanation
Indices: 171436504--171436542 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
171436494 TGGATTCTCG
*
171436504 TATCATGGATTCCTT
1 TATCTTGGATTCCTT
*
171436519 TATCTTGGATTTCTT
1 TATCTTGGATTCCTT
171436534 TATTCTTGG
1 TA-TCTTGG
171436543 CTTCTCTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (15 bp):
TATCTTGGATTCCTT
Found at i:171439423 original size:51 final size:50
Alignment explanation
Indices: 171439297--171439540 Score: 298
Period size: 51 Copynumber: 4.9 Consensus size: 50
171439287 TATTGTGAGG
* * * *
171439297 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-CTAGATAA-TTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCT-GATAACTTGA
* *
171439346 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT-GA
* * * * *
171439397 TCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-CTAGATAA-TTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCT-GATAACTTGA
* *
171439446 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAAC-TTGA
*
171439497 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATA
171439541 GCTTCGGCTA
Statistics
Matches: 165, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
49 74 0.45
50 10 0.06
51 81 0.49
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTGA
Found at i:171439540 original size:100 final size:100
Alignment explanation
Indices: 171439297--171439527 Score: 435
Period size: 100 Copynumber: 2.3 Consensus size: 100
171439287 TATTGTGAGG
171439297 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGTACT
171439362 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
*
171439397 TCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGTACT
*
171439462 AAGTGCAGGCTACTATGCGTACCTGATAACTTTGA
66 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
*
171439497 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTA
171439528 TGCGTACCAG
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 127 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
Found at i:171448621 original size:70 final size:71
Alignment explanation
Indices: 171448470--171448632 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
171448460 GAGATGTATC
171448470 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
171448535 AGGACA
66 AGGACA
171448541 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
171448605 CGGACA
66 AGGACA
171448611 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
171448633 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:171455240 original size:68 final size:70
Alignment explanation
Indices: 171455168--171455364 Score: 267
Period size: 70 Copynumber: 2.8 Consensus size: 70
171455158 ACACCCTGTA
* * * *
171455168 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGTGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
171455230 ATAAAT
65 ATAAAT
*
171455236 GTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGTGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
171455301 ATAAAT
65 ATAAAT
* * *
171455307 GTAGCT-GGTCGCATGCGTGATTCCAAGTGACGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGTGTGATACCAAGTGA-AGACACCATGTAGACAAGAGAGCTACG
171455365 AGACAAATCG
Statistics
Matches: 117, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
68 24 0.21
69 3 0.03
70 50 0.43
71 40 0.34
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGTGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:171455354 original size:70 final size:71
Alignment explanation
Indices: 171455202--171455364 Score: 301
Period size: 70 Copynumber: 2.3 Consensus size: 71
171455192 GAGATGTATC
*
171455202 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
171455267 AGGACA
66 AGGACA
171455273 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
171455337 CGGACA
66 AGGACA
171455343 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
171455365 AGACAAATCG
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
70 50 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:171462700 original size:40 final size:40
Alignment explanation
Indices: 171462645--171462762 Score: 200
Period size: 40 Copynumber: 3.0 Consensus size: 40
171462635 TGGAAAAAAA
171462645 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
171462685 TATAACTGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * *
171462725 TATAACCGAGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
171462763 GTTACATCCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:171471508 original size:48 final size:47
Alignment explanation
Indices: 171471437--171471616 Score: 243
Period size: 48 Copynumber: 3.8 Consensus size: 47
171471427 GCCCTAGATA
*
171471437 CCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCTGAAGTG
1 CCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACC-GAAGTG
* *
171471485 CCAATATCATGGCCCAAAGCCAAATCAATGAAGCTCACATCCAAAGTG
1 CCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACA-CCGAAGTG
* * *
171471533 CTAATATCATGGCCTGAAGCCAAATCAATGAAGCTCACACCCGAAGTA
1 CCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACA-CCGAAGTG
* * * *
171471581 CTAATTTCATGGCCTGAAGCCAAATTAATGAAGCTC
1 CCAATATCATGGCCCGAAGCCAAATCAATGAAGCTC
171471617 TTAATGACAT
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
48 118 0.98
49 2 0.02
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.19
Consensus pattern (47 bp):
CCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCGAAGTG
Found at i:171471603 original size:96 final size:96
Alignment explanation
Indices: 171471439--171471616 Score: 275
Period size: 96 Copynumber: 1.9 Consensus size: 96
171471429 CCTAGATACC
* * *
171471439 AATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCTGAAGTGCCAATATCATGGCCCAAAG
1 AATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCGAAGTACCAATATCATGGCCCAAAG
171471504 CCAAATCAATGAAGCTCACATCCAAAGTGCT
66 CCAAATCAATGAAGCTCACATCCAAAGTGCT
* * * **
171471535 AATATCATGGCCTGAAGCCAAATCAATGAAGCTCACACCCGAAGTACTAATTTCATGGCCTGAAG
1 AATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCGAAGTACCAATATCATGGCCCAAAG
*
171471600 CCAAATTAATGAAGCTC
66 CCAAATCAATGAAGCTC
171471617 TTAATGACAT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (96 bp):
AATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCGAAGTACCAATATCATGGCCCAAAG
CCAAATCAATGAAGCTCACATCCAAAGTGCT
Found at i:171473027 original size:21 final size:21
Alignment explanation
Indices: 171472997--171473039 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
171472987 TCATCATCAC
*
171472997 AAGAAGAAATCAAAAAGATTG
1 AAGAACAAATCAAAAAGATTG
* *
171473018 AAGAACAAATCCAAAAGCTTG
1 AAGAACAAATCAAAAAGATTG
171473039 A
1 A
171473040 CAAGATTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.58, C:0.12, G:0.16, T:0.14
Consensus pattern (21 bp):
AAGAACAAATCAAAAAGATTG
Found at i:171478606 original size:30 final size:30
Alignment explanation
Indices: 171478570--171478670 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 30
171478560 GACAAGATTG
* * *
171478570 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* * *
171478600 GCACTAAGTGTGTGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
171478628 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
171478657 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
171478671 GATTCACTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
28 22 0.37
29 19 0.32
30 18 0.31
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:171482171 original size:2 final size:2
Alignment explanation
Indices: 171482164--171482190 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
171482154 GAGACTAGTC
171482164 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
171482191 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:171484217 original size:30 final size:30
Alignment explanation
Indices: 171484183--171484243 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
171484173 TCCTTAACTC
171484183 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
171484213 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
171484243 A
1 A
171484244 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:171493046 original size:40 final size:40
Alignment explanation
Indices: 171492965--171493170 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
171492955 TGAATGATAC
*
171492965 CCGGGCTAAGCCCCGAAGGCATTAT-T-CTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATT-TGTGCTAGTTG-TTATAT
171493004 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
*
171493044 CC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * *
171493083 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
171493123 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
171493163 CC-GGCTAA
1 CCGGGCTAA
171493171 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 66 0.44
40 82 0.54
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:171493179 original size:79 final size:80
Alignment explanation
Indices: 171492961--171493170 Score: 291
Period size: 79 Copynumber: 2.7 Consensus size: 80
171492951 CATTTGAATG
* * * *
171492961 ATACCCGGGCTAAGCCCCGAAGGC-ATTATTCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
* *
171493025 TTTGTGCTAGTTGTT
66 TTTGTGCGAGTTGCT
* * * *
171493040 ATATCC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
171493104 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* *
171493119 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAA
171493171 ATTCCGAAGA
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
78 16 0.14
79 63 0.56
80 34 0.30
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:171501008 original size:27 final size:27
Alignment explanation
Indices: 171500978--171501045 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
171500968 AAACACCATT
* *
171500978 GATTTGTAAAATTACTAAAATACCCTC
1 GATTTGTAAAATTACTAAAACACCCCC
171501005 GATTTGTAAAATTACTAAAACACCCCC
1 GATTTGTAAAATTACTAAAACACCCCC
171501032 GATTTGTAAAATTA
1 GATTTGTAAAATTA
171501046 TCGAAATACC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
GATTTGTAAAATTACTAAAACACCCCC
Found at i:171501066 original size:27 final size:27
Alignment explanation
Indices: 171501036--171501110 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
171501026 ACCCCCGATT
* *
171501036 TGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
171501063 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* *
171501090 TGTAAAATGACCGACATACCC
1 TGTAAAATTACCGAAATACCC
171501111 CTATAGGGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:171501121 original size:27 final size:27
Alignment explanation
Indices: 171501037--171501123 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
171501027 CCCCCGATTT
* * ** * *
171501037 GTAAAATTATCGAAATACCTTTGTAGT
1 GTAAAATGACCGAAATACCCCTATAGG
* * * *
171501064 GTAAAATTACCGAAATACCCTTGTAGT
1 GTAAAATGACCGAAATACCCCTATAGG
*
171501091 GTAAAATGACCGACATACCCCTATAGG
1 GTAAAATGACCGAAATACCCCTATAGG
171501118 GTAAAA
1 GTAAAA
171501124 CGACTGTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (27 bp):
GTAAAATGACCGAAATACCCCTATAGG
Found at i:171503896 original size:28 final size:28
Alignment explanation
Indices: 171503856--171503939 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
171503846 TGGGAAGTAG
171503856 TTGGGCCTGATGGGCCATATGAATATGA
1 TTGGGCCTGATGGGCCATATGAATATGA
* *
171503884 TTGGGCCTGATGGGCCATGTGAACGA-GA
1 TTGGGCCTGATGGGCCATATGAA-TATGA
* * *
171503912 TTGGGCCTAAAGGGGCCACATGAATATG
1 TTGGGCCT-GATGGGCCATATGAATATG
171503940 TGTAGATCTG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 33 0.72
29 13 0.28
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.24
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATATGA
Found at i:171505568 original size:29 final size:29
Alignment explanation
Indices: 171505535--171505666 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
171505525 GTGACGAGAT
171505535 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
171505564 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
171505593 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * * **
171505622 TGGCACTATGTGTGTGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
171505651 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
171505667 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:171507354 original size:27 final size:26
Alignment explanation
Indices: 171507324--171507797 Score: 393
Period size: 27 Copynumber: 17.7 Consensus size: 26
171507314 TAATAAAGAG
*
171507324 AAATTACTGAAATACCCCTAGTTTGTA
1 AAATTACTGAAATA-CCCTCGTTTGTA
* * *
171507351 AAATTACCGAAGTACCCTCGGTTTATA
1 AAATTACTGAAATACCCTC-GTTTGTA
*
171507378 AAATTA-TCGAAATACTCCT-GGTTGTA
1 AAATTACT-GAAATAC-CCTCGTTTGTA
** *
171507404 AAATTACCAAAATACCTCTAGTTTGTA
1 AAATTACTGAAATACC-CTCGTTTGTA
* * *
171507431 AAATTACCGAAATACCTTAGTTTGTA
1 AAATTACTGAAATACCCTCGTTTGTA
** * *
171507457 AAATTACCAAAATACCCTTGGTTTGCA
1 AAATTACTGAAATACCC-TCGTTTGTA
* * *
171507484 AAATTGCTAAAATACCCTCGAATTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
* * *
171507511 AAATTACCGAAATATCCTCGATTGTA
1 AAATTACTGAAATACCCTCGTTTGTA
* * *
171507537 AAATTAGTAAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTC-GTTTGTA
*
171507564 AAATTA-TCGAAACT-CCCTCAATTTGTA
1 AAATTACT-GAAA-TACCCTC-GTTTGTA
*
171507591 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
*
171507618 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
171507645 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCG-TTTGTA
*
171507672 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
* *
171507699 AAATTACCGAAATACCATCGATTTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
* * * *
171507726 AAATTACTAAAACACCTTCTATTTGTA
1 AAATTACTGAAATACCCTC-GTTTGTA
* *
171507753 AAATTA-TCGAAATACCCTTGTAGTGTA
1 AAATTACT-GAAATACCCTCGT-TTGTA
*
171507780 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
171507798 TGTAGTGTAA
Statistics
Matches: 374, Mismatches: 53, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.00
26 75 0.20
27 292 0.78
28 6 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (26 bp):
AAATTACTGAAATACCCTCGTTTGTA
Found at i:171507650 original size:81 final size:80
Alignment explanation
Indices: 171507345--171507797 Score: 445
Period size: 81 Copynumber: 5.6 Consensus size: 80
171507335 ATACCCCTAG
* * * * *
171507345 TTTGTAAAATTACCGAAGTACCCTCGGTTTATAAAATTATCGAAATACTCCT-G-GTTGTAAAAT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATAC-CCTCGATTTGTAAAAT
* * *
171507408 TACCAAAATACCTCTAG
65 TACGAAAATCCCTC-AA
* * * * * *
171507425 TTTGTAAAATTACCGAAATACCTTAG-TTTGTAAAATTACCAAAATACCCTTGGTTTGCAAAATT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
* *
171507489 GCTAAAATACCCTCGAA
66 ACGAAAAT-CCCTC-AA
* *** *
171507506 -TTGTAAAATTACCGAAATATCCTCGA-TTGTAAAATTAGTAAAATACCCTCAATTTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
*
171507569 ATCGAAACTCCCTCAA
66 A-CGAAAATCCCTCAA
** * *
171507585 TTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
*
171507650 ATCG-AAATACCCTCGA
66 A-CGAAAAT-CCCTCAA
** *
171507666 TTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCATCGATTTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
* *
171507731 ACTAAAA-CACCTTCTA
66 ACGAAAATC-CC-TCAA
* * *
171507747 TTTGTAAAATTATCGAAATACCCTTG-TAGTGTAAAATTACCGAAATACCCT
1 TTTGTAAAATTACCGAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCT
171507798 TGTAGTGTAA
Statistics
Matches: 314, Mismatches: 47, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
78 3 0.01
79 22 0.07
80 126 0.40
81 163 0.52
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (80 bp):
TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
ACGAAAATCCCTCAA
Found at i:171507780 original size:54 final size:54
Alignment explanation
Indices: 171507324--171507797 Score: 448
Period size: 54 Copynumber: 8.8 Consensus size: 54
171507314 TAATAAAGAG
* ** * * *
171507324 AAATTA-CTGAAATACCC-CTAGTTTGTAAAATTACCGAAGTACCCTCGGTTTATA
1 AAATTATC-GAAATACCCTCGA-TTTGTAAAATTACTAAAATACCCTCGATTTGTA
* * *
171507378 AAATTATCGAAATACTCCT-G-GTTGTAAAATTACCAAAATA-CCTCTAGTTTGTA
1 AAATTATCGAAATAC-CCTCGATTTGTAAAATTACTAAAATACCCTCGA-TTTGTA
* * * * * * *
171507431 AAATTACCGAAATACCTTAG-TTTGTAAAATTACCAAAATACCCTTGGTTTGCA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
* * * ** *
171507484 AAATT-GCTAAAATACCCTCGAATTGTAAAATTACCGAAATATCCTCGA-TTGTA
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
* * * * *
171507537 AAATTAGT-AAAATACCCTCAATTTGTAAAATTATCGAAACT-CCCTCAATTTGTA
1 AAATTA-TCGAAATACCCTCGATTTGTAAAATTA-CTAAAATACCCTCGATTTGTA
* * *
171507591 AAATTATTGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
171507645 AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
* * * * *
171507699 AAATTACCGAAATACCATCGATTTGTAAAATTACTAAAACACCTTCTATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
* * **
171507753 AAATTATCGAAATACCCTTG-TAGTGTAAAATTACCGAAATACCCT
1 AAATTATCGAAATACCCTCGAT-TTGTAAAATTACTAAAATACCCT
171507798 TGTAGTGTAA
Statistics
Matches: 350, Mismatches: 55, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
52 7 0.02
53 117 0.33
54 223 0.64
55 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
Found at i:171507838 original size:27 final size:27
Alignment explanation
Indices: 171507749--171507840 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
171507739 ACCTTCTATT
* *
171507749 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
171507776 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
171507803 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
171507830 GGTAAAATGAC
1 TGTAAAATGAC
171507841 TATTTTGCCC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:171511717 original size:13 final size:13
Alignment explanation
Indices: 171511699--171511729 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
171511689 GCATGCGTGA
171511699 CCACACGGCCTTC
1 CCACACGGCCTTC
171511712 CCACACGGCCTTC
1 CCACACGGCCTTC
171511725 CCACA
1 CCACA
171511730 TGGGCGTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (13 bp):
CCACACGGCCTTC
Found at i:171513329 original size:19 final size:19
Alignment explanation
Indices: 171513292--171513357 Score: 114
Period size: 19 Copynumber: 3.4 Consensus size: 19
171513282 CAAGATTACA
171513292 ATATCATATCTTCAAGATTGC
1 ATATCATATC-T-AAGATTGC
171513313 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
171513332 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
171513351 ATATCAT
1 ATATCAT
171513358 GCCCTATATG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
19 34 0.76
20 1 0.02
21 10 0.22
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:171524878 original size:40 final size:39
Alignment explanation
Indices: 171524713--171524880 Score: 133
Period size: 40 Copynumber: 4.2 Consensus size: 39
171524703 AAATTGAATG
* * *
171524713 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
171524753 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
171524793 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
171524833 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
171524872 GATATCCGG
1 -ATATCCGG
171524881 ATTAAGTCCC
Statistics
Matches: 100, Mismatches: 23, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 91 0.91
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:171524905 original size:80 final size:80
Alignment explanation
Indices: 171524757--171524905 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 80
171524747 GAAATTATAA
* * * * *
171524757 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGACTAAGACCCGAAGGCATTCG
171524822 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
171524837 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGATTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGACTAAGACCCGAAGGCATTC
171524901 GTGCG
65 GTGCG
171524906 GGTTACCATA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
79 1 0.02
80 55 0.98
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGACTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:171528344 original size:16 final size:16
Alignment explanation
Indices: 171528323--171528355 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
171528313 TAAAAAGATA
171528323 ACAAATTCTTGAATAT
1 ACAAATTCTTGAATAT
171528339 ACAAATTCTTGAATAT
1 ACAAATTCTTGAATAT
171528355 A
1 A
171528356 TATTTGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (16 bp):
ACAAATTCTTGAATAT
Found at i:171530492 original size:19 final size:18
Alignment explanation
Indices: 171530470--171530513 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
171530460 TAACATGTTC
* *
171530470 ATTATTTAAGTATAATTTA
1 ATTATTTAA-TAAAAATTA
*
171530489 ATTATTTTATAAAAATTA
1 ATTATTTAATAAAAATTA
171530507 ATTATTT
1 ATTATTT
171530514 TTCGACAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTATTTAATAAAAATTA
Found at i:171539940 original size:6 final size:6
Alignment explanation
Indices: 171539929--171540007 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
171539919 GGGATCACTA
171539929 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
171539972 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
171540008 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:171539951 original size:20 final size:21
Alignment explanation
Indices: 171539925--171539970 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
171539915 AGCCGGGATC
171539925 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
171539946 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
171539966 ACTAA
1 ACTAA
171539971 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:171539995 original size:11 final size:11
Alignment explanation
Indices: 171539925--171539971 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
171539915 AGCCGGGATC
171539925 ACTAA-CTAAT
1 ACTAATCTAAT
171539935 ACTAATCTAAT
1 ACTAATCTAAT
171539946 -CTAA-CTAAT
1 ACTAATCTAAT
171539955 ACTAATCTAAT
1 ACTAATCTAAT
171539966 ACTAAT
1 ACTAAT
171539972 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:171540021 original size:14 final size:14
Alignment explanation
Indices: 171540004--171540031 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
171539994 CTCTAATACT
171540004 AATAGAATAGAAAA
1 AATAGAATAGAAAA
171540018 AATAGAATAGAAAA
1 AATAGAATAGAAAA
171540032 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:171548352 original size:18 final size:18
Alignment explanation
Indices: 171548273--171548366 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
171548263 CAAGGTCACG
*
171548273 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
171548291 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
171548309 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
171548327 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
171548345 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
171548360 ATCAATA
1 ATCAATA
171548367 AGAAAACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:171548353 original size:9 final size:9
Alignment explanation
Indices: 171548273--171548353 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
171548263 CAAGGTCACG
*
171548273 ATCAATAGC
1 ATCAATATC
* *
171548282 GTCACTATC
1 ATCAATATC
*
171548291 ATCAATAGC
1 ATCAATATC
* * *
171548300 GTCACTAGC
1 ATCAATATC
171548309 ATCAATATC
1 ATCAATATC
* * *
171548318 GTCACTAGC
1 ATCAATATC
171548327 ATCAATATC
1 ATCAATATC
* *
171548336 GTCACTATC
1 ATCAATATC
171548345 ATCAATATC
1 ATCAATATC
171548354 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:171550761 original size:21 final size:21
Alignment explanation
Indices: 171550731--171550819 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
171550721 CTCACAAAGA
* *
171550731 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
171550751 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
171550772 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
171550793 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
171550817 AAA
1 AAA
171550820 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:171550812 original size:24 final size:21
Alignment explanation
Indices: 171550731--171550799 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
171550721 CTCACAAAGA
* * *
171550731 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
171550751 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
171550772 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
171550793 AAAAAGA
1 AAAAAGA
171550800 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:171554985 original size:14 final size:14
Alignment explanation
Indices: 171554966--171554994 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
171554956 TACAATATAT
171554966 ATAAGAATTATACG
1 ATAAGAATTATACG
171554980 ATAAGAATTATACG
1 ATAAGAATTATACG
171554994 A
1 A
171554995 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:171560704 original size:16 final size:16
Alignment explanation
Indices: 171560679--171560711 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
171560669 ACGGTATTCT
*
171560679 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
171560695 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
171560711 A
1 A
171560712 AGGAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:171561210 original size:15 final size:15
Alignment explanation
Indices: 171561177--171561210 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
171561167 AGTTATGTCT
*
171561177 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
171561192 ATGTATGGAATTAGC
1 ATGTATGGAATTAGA
171561207 ATGT
1 ATGT
171561211 CAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:171564306 original size:15 final size:17
Alignment explanation
Indices: 171564288--171564319 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
171564278 TAGCATAATT
171564288 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
171564303 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
171564320 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:171565880 original size:27 final size:26
Alignment explanation
Indices: 171565832--171565891 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
171565822 GCGAAGCTAC
*
171565832 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
171565859 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
171565885 CAAATAT
1 CAGATAT
171565892 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:171568227 original size:16 final size:16
Alignment explanation
Indices: 171568206--171568237 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
171568196 ACATAAAAAT
171568206 ACTTACATGTTCAACA
1 ACTTACATGTTCAACA
171568222 ACTTACATGTTCAACA
1 ACTTACATGTTCAACA
171568238 TGGGTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (16 bp):
ACTTACATGTTCAACA
Found at i:171570160 original size:42 final size:43
Alignment explanation
Indices: 171570067--171570165 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 43
171570057 AACGTCATGG
*** *
171570067 ACGTGGTCTTACATGTAATCAAATATCGATGCCACTCTCCCAG
1 ACGTGGTCTTACACAAAATCAAATATCGATGCCACTCTCCCAA
*
171570110 ACAG-GGTCTTACACAAAATCAAATA-CGATGCCAAC-GTCCCAA
1 AC-GTGGTCTTACACAAAATCAAATATCGATGCC-ACTCTCCCAA
171570152 ACGTGGTCTTACAC
1 ACGTGGTCTTACAC
171570166 GTAAATCATA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.02
42 24 0.50
43 22 0.46
44 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
ACGTGGTCTTACACAAAATCAAATATCGATGCCACTCTCCCAA
Found at i:171570172 original size:43 final size:44
Alignment explanation
Indices: 171570067--171570173 Score: 125
Period size: 43 Copynumber: 2.5 Consensus size: 44
171570057 AACGTCATGG
* *
171570067 ACGTGGTCTTACATGT-AATCAAATATCGATGCCACTCTCCCAG
1 ACGTGGTCTTACACGTAAATCAAATATCGATGCCACTCTCCCAA
* *
171570110 ACAG-GGTCTTACAC-AAAATCAAATA-CGATGCCAAC-GTCCCAA
1 AC-GTGGTCTTACACGTAAATCAAATATCGATGCC-ACTCTCCCAA
171570152 ACGTGGTCTTACACGTAAATCA
1 ACGTGGTCTTACACGTAAATCA
171570174 TAAGTCGATG
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
41 1 0.02
42 24 0.44
43 28 0.52
44 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (44 bp):
ACGTGGTCTTACACGTAAATCAAATATCGATGCCACTCTCCCAA
Found at i:171571758 original size:28 final size:28
Alignment explanation
Indices: 171571718--171571773 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
171571708 GCATTGATAT
*
171571718 GTGAAACACATTATGAATTTTTTCTAAC
1 GTGAAACACATTATGAATCTTTTCTAAC
*
171571746 GTGAAACACATTATGAGTCTTTTCTAAC
1 GTGAAACACATTATGAATCTTTTCTAAC
171571774 TCTGCTGGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (28 bp):
GTGAAACACATTATGAATCTTTTCTAAC
Found at i:171575443 original size:40 final size:40
Alignment explanation
Indices: 171575377--171575543 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
171575367 AAATTGAATG
* * *
171575377 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
171575416 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
171575456 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
171575496 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
171575536 ATATCCGG
1 ATATCCGG
171575544 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:171583452 original size:40 final size:40
Alignment explanation
Indices: 171583386--171583552 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
171583376 AAATTGAATG
* * *
171583386 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
171583425 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
171583465 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
171583505 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
171583545 ATATCCGG
1 ATATCCGG
171583553 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:171590767 original size:24 final size:24
Alignment explanation
Indices: 171590735--171590845 Score: 213
Period size: 24 Copynumber: 4.6 Consensus size: 24
171590725 AATCTCAAAT
171590735 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
171590759 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
171590783 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
171590807 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
171590831 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
171590846 ACATAATAAG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 85 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:171590858 original size:24 final size:24
Alignment explanation
Indices: 171590735--171590867 Score: 196
Period size: 24 Copynumber: 5.5 Consensus size: 24
171590725 AATCTCAAAT
*
171590735 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
*
171590759 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
171590783 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
171590807 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
171590831 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
171590855 GCACTATGTGTGC
1 GCACTATGTGTGC
171590868 AACGTTTGGT
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
24 97 0.95
25 5 0.05
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:171596586 original size:17 final size:18
Alignment explanation
Indices: 171596544--171596592 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
171596534 AGTTGAAAAG
171596544 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
171596563 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
171596580 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
171596593 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:171597480 original size:40 final size:40
Alignment explanation
Indices: 171597414--171597580 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
171597404 AAATTGAATG
* * *
171597414 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
171597453 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
171597493 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
171597533 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
171597573 ATATCCGG
1 ATATCCGG
171597581 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:171599644 original size:18 final size:18
Alignment explanation
Indices: 171599621--171599658 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
171599611 GATTCATCGA
171599621 CCAAAAGCGGAGGGAGTT
1 CCAAAAGCGGAGGGAGTT
171599639 CCAAAAGCGGAGGGAGTT
1 CCAAAAGCGGAGGGAGTT
171599657 CC
1 CC
171599659 TTGATCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.37, T:0.11
Consensus pattern (18 bp):
CCAAAAGCGGAGGGAGTT
Found at i:171607901 original size:29 final size:29
Alignment explanation
Indices: 171607868--171607970 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
171607858 CCTTCGAGCT
** * *
171607868 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
171607897 TGCACATTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
171607926 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
171607955 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
171607971 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:171607902 original size:58 final size:58
Alignment explanation
Indices: 171607839--171607970 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
171607829 AATTTAAGCC
* * * * * *
171607839 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
171607897 TGCACATTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
171607955 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
171607971 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:171616035 original size:16 final size:16
Alignment explanation
Indices: 171616022--171616054 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
171616012 GGAGTAAGCT
171616022 TTAAGCTTAGTAAGTC
1 TTAAGCTTAGTAAGTC
*
171616038 TTACGCTTAGTAAGTC
1 TTAAGCTTAGTAAGTC
171616054 T
1 T
171616055 ATATGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (16 bp):
TTAAGCTTAGTAAGTC
Found at i:171619063 original size:40 final size:40
Alignment explanation
Indices: 171619008--171619152 Score: 206
Period size: 40 Copynumber: 3.6 Consensus size: 40
171618998 TGGATGATAA
* * *
171619008 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
171619048 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA-C
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
171619088 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC--TAATT
171619130 --GGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
171619153 AGCAAGTAGC
Statistics
Matches: 96, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
40 92 0.96
41 2 0.02
42 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:171622159 original size:29 final size:29
Alignment explanation
Indices: 171622127--171622229 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
171622117 GTGACGAGAT
* *
171622127 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
171622156 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
171622185 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
171622214 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
171622230 TGTCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:171629427 original size:40 final size:40
Alignment explanation
Indices: 171629265--171629413 Score: 219
Period size: 40 Copynumber: 3.7 Consensus size: 40
171629255 TATTCGGATG
* * *
171629265 ATAACCGGGCTAAGTCCAGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
171629305 A-ATTCCGGGCAAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
171629345 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
171629385 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
171629414 AGCAAGTAGC
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.01
40 95 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:171635937 original size:40 final size:41
Alignment explanation
Indices: 171635900--171636124 Score: 270
Period size: 40 Copynumber: 5.7 Consensus size: 41
171635890 GCTACTCGTT
* *
171635900 CAAATTCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATT-TAGTAACTCGCA
* *
171635940 CAAATGCCTTCGGG--CTTAGCCCGGAATTAGTAACTCGTA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
171635979 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
171636019 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * *
171636059 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAAC-TCGCA
*
171636100 CAAA-GCCTTCGGGA-CTTAGCTCGGA
1 CAAATGCCTTCGGGATCTTAGCCCGGA
171636125 CATCATTCGA
Statistics
Matches: 168, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.18
40 124 0.74
41 11 0.07
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:171642245 original size:45 final size:46
Alignment explanation
Indices: 171642181--171642355 Score: 225
Period size: 45 Copynumber: 3.8 Consensus size: 46
171642171 TGTAACCCGC
*
171642181 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
171642226 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* * *
171642276 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
171642319 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
171642356 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 37 0.33
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:171642347 original size:93 final size:92
Alignment explanation
Indices: 171642189--171642358 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
171642179 GCCCATAAGT
*
171642189 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
171642254 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
171642281 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
171642346 CGAGTTCGGATGC
65 CGAGTTCGGATGC
171642359 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:171644755 original size:30 final size:30
Alignment explanation
Indices: 171644711--171644799 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
171644701 CAAAGATAAC
171644711 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
171644740 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
171644770 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
171644800 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:171644759 original size:15 final size:15
Alignment explanation
Indices: 171644711--171644790 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
171644701 CAAAGATAAC
*
171644711 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
171644725 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
171644740 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
171644755 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
171644770 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
171644785 AAGAAA
1 AAGAAA
171644791 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:171644799 original size:15 final size:15
Alignment explanation
Indices: 171644722--171644799 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
171644712 AGAAAACCGA
171644722 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
171644737 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
171644751 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
171644766 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
171644782 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
171644797 ATA
1 ATA
171644800 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:171652352 original size:40 final size:40
Alignment explanation
Indices: 171652303--171652453 Score: 187
Period size: 40 Copynumber: 3.8 Consensus size: 40
171652293 ATAATCACGT
* * *
171652303 GCACAAATGCCTTTGGGTCTTAGCCTGGATAGAATAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
171652343 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
* * *** *
171652383 GCACGAATGCCTTCGGGTCTTAGCCCTGATATAGCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
* *
171652423 GCAC-AATTGCCTTCGAGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
171652454 TAATTTCCAG
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
39 2 0.02
40 96 0.98
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
Found at i:171652454 original size:40 final size:40
Alignment explanation
Indices: 171652287--171652456 Score: 166
Period size: 40 Copynumber: 4.2 Consensus size: 40
171652277 CGGAATATAA
* *
171652287 CCGGATATAATC-ACGT-GCACAAATGCCTTTGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * * *
171652327 CTGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
171652367 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* * * * *
171652407 CCTGATATAGCCACTAGCAC-AATTGCCTTCGAGTCTTAAC
1 CCGGATATAACAACTAGCACGAA-TGCCTTCGGGTCTTAGC
171652447 CCGGATATAA
1 CCGGATATAA
171652457 TTTCCAGCAT
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 108 0.97
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:171658288 original size:28 final size:28
Alignment explanation
Indices: 171658242--171658310 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
171658232 TTTAAAACCC
*
171658242 TAGGGGT-ATATCGGTAATTTTGCTATT
1 TAGGGGTAATTTCGGTAATTTTGCTATT
*
171658269 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTATT
*
171658297 TAGGAGTAATTTCG
1 TAGGGGTAATTTCG
171658311 TGATCTACGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTATT
Found at i:171660138 original size:19 final size:18
Alignment explanation
Indices: 171660101--171660144 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
171660091 ATACATATAG
171660101 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
171660118 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
171660137 TACTAATT
1 TAATAATT
171660145 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:171662570 original size:28 final size:28
Alignment explanation
Indices: 171662524--171662592 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
171662514 TTTAAAACCC
*
171662524 TAGGGGT-ATATCGGTAATTTTGCTATT
1 TAGGGGTAATTTCGGTAATTTTGCTATT
*
171662551 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTATT
*
171662579 TAGGAGTAATTTCG
1 TAGGGGTAATTTCG
171662593 TGATCTACGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTATT
Found at i:171670091 original size:12 final size:12
Alignment explanation
Indices: 171670076--171670100 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
171670066 ACAGTAAATA
171670076 ATAAAAATTTTC
1 ATAAAAATTTTC
171670088 ATAAAAATTTTC
1 ATAAAAATTTTC
171670100 A
1 A
171670101 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:171670151 original size:19 final size:18
Alignment explanation
Indices: 171670114--171670157 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
171670104 ATACATACAG
171670114 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
171670131 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
171670150 TACTAATT
1 TAATAATT
171670158 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:171672586 original size:27 final size:27
Alignment explanation
Indices: 171672527--171672593 Score: 109
Period size: 28 Copynumber: 2.5 Consensus size: 27
171672517 TTTAAAACCC
*
171672527 TAGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGTAATTTCGGTAATTTTGCTCTT
171672553 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TA-GGGTAATTTCGGTAATTTTGCTCTT
171672581 TAGGGTAATTTCG
1 TAGGGTAATTTCG
171672594 TGATCTACGC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 2 0.05
27 15 0.39
28 21 0.55
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.45
Consensus pattern (27 bp):
TAGGGTAATTTCGGTAATTTTGCTCTT
Found at i:171674418 original size:19 final size:18
Alignment explanation
Indices: 171674381--171674424 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
171674371 ATACATACAG
171674381 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
171674398 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
171674417 TACTAATT
1 TAATAATT
171674425 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:171676106 original size:23 final size:23
Alignment explanation
Indices: 171676080--171676126 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
171676070 AAACAACAAT
171676080 ATACCAAGGTAGGCATAAGTATA
1 ATACCAAGGTAGGCATAAGTATA
171676103 ATACCAAGGTAGGCATAAGTATA
1 ATACCAAGGTAGGCATAAGTATA
171676126 A
1 A
171676127 CTTACTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (23 bp):
ATACCAAGGTAGGCATAAGTATA
Found at i:171676379 original size:44 final size:44
Alignment explanation
Indices: 171676316--171676536 Score: 180
Period size: 46 Copynumber: 4.8 Consensus size: 44
171676306 TGGGTAAAGT
171676316 GTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTATCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTATCTCAA
* **
171676360 GTCGATGCCATGTCCCAGACATGGTCTTACATTGACTATCATCTT
1 GTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTATC-TCAA
* * * * *
171676405 GTAGCTGATG-CATGTCCTAGACCT-GTCTTACACTAGCTTACGTCTCGAG
1 GT--C-GATGCCATGTCCCAGACATGGTCTTACATTGGC-TA--TCTC-AA
* * * *
171676454 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACA-TTG-GCT-ATCTCAA
* *
171676499 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 -GTCGATGCCATGTCCCAGACATGGTCTTACATTGGCT
171676537 CTCATAATGT
Statistics
Matches: 141, Mismatches: 22, Indels: 26
0.75 0.12 0.14
Matches are distributed among these distances:
44 39 0.28
45 5 0.04
46 47 0.33
47 32 0.23
48 15 0.11
49 3 0.02
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (44 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTATCTCAA
Found at i:171676572 original size:38 final size:38
Alignment explanation
Indices: 171676521--171676597 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
171676511 GTCCCAGACA
*
171676521 TGGTCTTACACTGGCTCTCATAATGTGGTCGATGCATG
1 TGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATG
171676559 TGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATG
1 TGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATG
171676597 T
1 T
171676598 CCCAGACATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (38 bp):
TGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATG
Found at i:171678741 original size:26 final size:25
Alignment explanation
Indices: 171678682--171678741 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 25
171678672 CGTGTAGGCA
*
171678682 AGCCGTGGGGACTCACATGCCCATG
1 AGCCGTGGGGACTCACATGCCCATC
* * *
171678707 TGCCTTGGGGCACGTC-CATGCCCTTC
1 AGCCGTGGGG-AC-TCACATGCCCATC
171678733 AGCCGTGGG
1 AGCCGTGGG
171678742 CAACACTGAC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
25 8 0.30
26 17 0.63
27 2 0.07
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.20
Consensus pattern (25 bp):
AGCCGTGGGGACTCACATGCCCATC
Found at i:171683049 original size:40 final size:40
Alignment explanation
Indices: 171683004--171683171 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
171682994 CGGAATACAA
171683004 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
171683044 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
171683084 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
171683124 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
171683164 CCGGATAT
1 CCGGATAT
171683172 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:171698176 original size:73 final size:71
Alignment explanation
Indices: 171697998--171698204 Score: 283
Period size: 73 Copynumber: 2.9 Consensus size: 71
171697988 GTTTTCCAAG
* * *
171697998 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTAT
*
171698063 GTTTCA
66 GTATCA
* *
171698069 AAAAGCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAATTTCAATTCCT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATT--T
171698134 AT-TAAAT-A
64 ATGT--ATCA
* * *
171698142 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTT
171698205 CTACTTTTTA
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
71 58 0.48
72 1 0.01
73 61 0.50
74 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (71 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTAT
GTATCA
Found at i:171698316 original size:233 final size:233
Alignment explanation
Indices: 171697908--171698363 Score: 840
Period size: 233 Copynumber: 2.0 Consensus size: 233
171697898 GTTTTTTTCC
171697908 AAAAATCAACTCATATTGCCAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCCAATTTC
1 AAAAATCAACTCATATTGCCAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCCAATTTC
*
171697973 TGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
66 TACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
* *
171698038 ACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGCAGCTCATATTGCGAGAGGTGAGTTGAGC
131 ACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGCAACTCATATTGCGAGAAGTGAGTTGAGC
*
171698103 CTCGGGGCACGCTGAGGTAATTTCAATTCCTATTAAAT
196 CTCAGGGCACGCTGAGGTAATTTCAATTCCTATTAAAT
* *
171698141 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCCAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCCAATTTC
171698206 TACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
66 TACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
*
171698271 ACACGTTGAGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
131 ACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGCAACTCATATTGCGAGAAGTGAGTTGAGC
*
171698336 CTCAGGGCACGCTGAGGTATTTTCAATT
196 CTCAGGGCACGCTGAGGTAATTTCAATT
171698364 TCTGCTTTTT
Statistics
Matches: 215, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
233 215 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (233 bp):
AAAAATCAACTCATATTGCCAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCCAATTTC
TACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
ACACGTTGAGGTAATTTCAATTTATGTTTCAAAAAGCAACTCATATTGCGAGAAGTGAGTTGAGC
CTCAGGGCACGCTGAGGTAATTTCAATTCCTATTAAAT
Found at i:171698352 original size:71 final size:71
Alignment explanation
Indices: 171698231--171698364 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
171698221 GTTTTCCAAG
* * *
171698231 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
171698296 GTTTCA
66 GTTTCA
* * *
171698302 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
171698365 CTGCTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:171698466 original size:159 final size:160
Alignment explanation
Indices: 171698077--171698522 Score: 716
Period size: 159 Copynumber: 2.8 Consensus size: 160
171698067 CAAAAAGCAG
** * * * *
171698077 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAATTTCAATTCCTATTAAAT-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTCATGTT---TC
171698141 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
63 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
*
171698206 TACTTTTTAATTCATGTTTTCCAAGAAAATCAG
128 TACTTTTTAATTCATGTTTTCCAAGAAAATCAA
*
171698239 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTCATGTTTCAAA
*
171698304 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
66 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTAC
*
171698369 TTTTTAGTTCATG-TTTCCAAGAAAATCAA
131 TTTTTAATTCATGTTTTCCAAGAAAATCAA
*
171698398 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTAATTTCAATTCATGTTTCAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTCATGTTTCAAA
* ** *
171698463 AATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATT
66 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
171698523 CCCATTAAAT
Statistics
Matches: 267, Mismatches: 16, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
159 135 0.51
160 79 0.30
162 53 0.20
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (160 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTCATGTTTCAAA
AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTAC
TTTTTAATTCATGTTTTCCAAGAAAATCAA
Found at i:171698557 original size:74 final size:71
Alignment explanation
Indices: 171698390--171698700 Score: 286
Period size: 74 Copynumber: 4.5 Consensus size: 71
171698380 TGTTTCCAAG
* * *** * * *
171698390 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTAATTTCAATTCAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATTCAT
*
171698455 GTTTCA
66 GTATCA
171698461 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATTCCC
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATT--C
*
171698526 AT-TAAATCT
64 ATGT--ATCA
171698535 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTC-A---A-
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATTCAT
171698595 -T-T--
66 GTATCA
* * * * * *
171698597 AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTC-AATTC-
*
171698662 ATCT-T-A
64 ATGTATCA
* * * *
171698668 AAGAGTCAATTCATATTACGAGAGGTGAGTTGA
1 AA-AATCAACTCATATTGCGAGAAGTGAGTTGA
171698701 GTCTTTTAAT
Statistics
Matches: 206, Mismatches: 20, Indels: 27
0.81 0.08 0.11
Matches are distributed among these distances:
62 52 0.25
64 2 0.01
67 1 0.00
68 2 0.01
70 2 0.01
71 56 0.27
72 27 0.13
73 4 0.02
74 60 0.29
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATTCAT
GTATCA
Found at i:171698634 original size:62 final size:62
Alignment explanation
Indices: 171698534--171698656 Score: 192
Period size: 62 Copynumber: 2.0 Consensus size: 62
171698524 CCATTAAATC
* *
171698534 TAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAAT
1 TAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGCGGCACGCTAAGGTAATTTCAAT
* * * *
171698596 TAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAA
1 TAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGCGGCACGCTAAGGTAATTTCAA
171698657 ATTCTATCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (62 bp):
TAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGCGGCACGCTAAGGTAATTTCAAT
Found at i:171699606 original size:10 final size:10
Alignment explanation
Indices: 171699588--171699622 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
171699578 AACCTAACCC
171699588 AAAAA-AAAA
1 AAAAAGAAAA
171699597 AAAAAGAAAA
1 AAAAAGAAAA
171699607 AAAAAGAAAA
1 AAAAAGAAAA
171699617 AGAAAA
1 A-AAAA
171699623 ACTTACCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.21
10 15 0.62
11 4 0.17
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:171699607 original size:16 final size:16
Alignment explanation
Indices: 171699588--171699623 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
171699578 AACCTAACCC
171699588 AAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAGA
*
171699604 AAAAAAAAGAAAAAGA
1 AAAAAAAAAAAAAAGA
171699620 AAAA
1 AAAA
171699624 CTTACCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGA
Found at i:171700973 original size:2 final size:2
Alignment explanation
Indices: 171700966--171700998 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
171700956 GTATGTCATG
*
171700966 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
171700999 GTATGTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:171705463 original size:40 final size:40
Alignment explanation
Indices: 171705396--171705639 Score: 275
Period size: 40 Copynumber: 6.2 Consensus size: 40
171705386 CCTTCGGAGT
** * *
171705396 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
171705435 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
171705475 TTAGCCCGG-TATAATAACTCGTACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
171705514 TTAGCCCGGATATAATAGCTCGCACAAA--CCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
171705552 TTAGCCCAGATATAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* ** * *
171705592 TTAGCCCGAAT-TAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCT-TCGGGAC
171705631 TTAGCCCGG
1 TTAGCCCGG
171705640 TTATCATCCG
Statistics
Matches: 178, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 37 0.21
39 67 0.38
40 74 0.42
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:171705631 original size:117 final size:117
Alignment explanation
Indices: 171705425--171705639 Score: 292
Period size: 117 Copynumber: 1.8 Consensus size: 117
171705415 AGCTCAAATG
* * * * *
171705425 CCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGTATAAT
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATATAAC
*
171705490 AACTCGTACAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAA
66 AACTAGTACAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAA
* * *
171705542 CCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGCCCGA-ATTAG
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATA-TAA
*
171705606 CCACTAGCT-CAAATG-CTCTCGGGACTTAGCCCGG
65 CAACTAG-TACAAATGCCT-TCGGGACTTAGCCCGG
171705640 TTATCATCCG
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
116 3 0.04
117 81 0.95
118 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (117 bp):
CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATATAAC
AACTAGTACAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAA
Found at i:171713549 original size:40 final size:39
Alignment explanation
Indices: 171713505--171713729 Score: 290
Period size: 40 Copynumber: 5.7 Consensus size: 39
171713495 GCCACTAGCT
*
171713505 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
171713545 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
171713584 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
171713624 CAAATGCCTTCGGGACTTAGCTCCGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGC-CCGGTATAGTAACTCGCA
* * ** * *
171713664 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
171713704 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
171713730 TATCATCCGA
Statistics
Matches: 166, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 43 0.26
40 120 0.72
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:171713603 original size:79 final size:78
Alignment explanation
Indices: 171713505--171713729 Score: 290
Period size: 79 Copynumber: 2.8 Consensus size: 78
171713495 GCCACTAGCT
*
171713505 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
171713570 TATAATAACTCGCA
65 TATAATAACTCGCA
* * *
171713584 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAATGCCTTCGGGACTTAGCTCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGC-CCG
* * *
171713649 ATATAGTAGCTCGCA
64 GTATAATAACTCGCA
* * ** *
171713664 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTAGCACAAATGCCT-TCGGGACTTAGCCCG
171713728 GT
64 GT
171713730 TATCATCCGA
Statistics
Matches: 127, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 64 0.50
80 63 0.50
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCA
Found at i:171716933 original size:46 final size:45
Alignment explanation
Indices: 171716880--171716969 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 45
171716870 TAGATTGATG
*
171716880 GATTGAAGA-AGATACAAATCCTATAACCTTGAGCTGCAGTGGGATC
1 GATTGAAGATAG-TACAAATCCTAT-ACCCTGAGCTGCAGTGGGATC
* *
171716926 GATTGAAGATAGTACAAATCCTATACCCTGAGTTGCATTGGGAT
1 GATTGAAGATAGTACAAATCCTATACCCTGAGCTGCAGTGGGAT
171716970 GGATGAAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
45 17 0.43
46 21 0.52
47 2 0.05
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (45 bp):
GATTGAAGATAGTACAAATCCTATACCCTGAGCTGCAGTGGGATC
Found at i:171716989 original size:45 final size:46
Alignment explanation
Indices: 171716880--171716989 Score: 109
Period size: 45 Copynumber: 2.4 Consensus size: 46
171716870 TAGATTGATG
* *
171716880 GATTGAAGAAGA-TACAAATCCTATAACCTTGAGCTGCAGTGGGATC
1 GATTGAAGAA-ACCACAAATCCTATAACCCTGAGCTGCAGTGGGATC
* ** * * *
171716926 GATTGAAGATAGTACAAATCCTAT-ACCCTGAGTTGCATTGGGATG
1 GATTGAAGAAACCACAAATCCTATAACCCTGAGCTGCAGTGGGATC
171716971 GA-TGAAAGAAACCACAAAT
1 GATTG-AAGAAACCACAAAT
171716990 TTTATCTCTC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
44 2 0.04
45 31 0.57
46 21 0.39
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (46 bp):
GATTGAAGAAACCACAAATCCTATAACCCTGAGCTGCAGTGGGATC
Found at i:171717710 original size:44 final size:44
Alignment explanation
Indices: 171717606--171717904 Score: 187
Period size: 45 Copynumber: 6.7 Consensus size: 44
171717596 GAAGTTAAAG
* * *
171717606 TCTTATCTCCCTAAAGTTGTAGTAGAGCAGACTGACGATAG-CA-GA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T-ACGA-AGCCACCA
* *
171717651 TCTTATCTCCCTGAAGTTACAGTGGAGCAGAT-CGAAGCCACCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATACGAAGCCACCA
** ** ** *
171717694 TCCTTATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAAATACACAA
1 T-CTTATCTCCCTGAAGTTGCAGTAGAGCA-GATACGAAGCCACCA
* * * * * *
171717740 GTCTTATATCCCTGAAGTTGTAGTGGAGTAGACTGCAGATAG-CA-GA
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TAC-GA-AGCCACCA
**
171717786 TCTTATCTCCCTGAAGTTATAGTAGAGCAGAT-CGAAGCCACCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATACGAAGCCACCA
* * ** ** *
171717829 TCCTTATCTCTCTGAAGTTGCAGTAGAACAGGATAAAAATACACAAA
1 T-CTTATCTCCCTGAAGTTGCAGTAGAGCA-GATACGAAGCCAC-CA
* *
171717876 CCTTATCTCCCTGAAGTTGCAGTGGAGCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCA
171717905 AGTTGAAATT
Statistics
Matches: 196, Mismatches: 43, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
41 4 0.02
42 9 0.05
43 5 0.03
44 50 0.26
45 62 0.32
46 60 0.31
47 5 0.03
48 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATACGAAGCCACCA
Found at i:171717773 original size:135 final size:135
Alignment explanation
Indices: 171717603--171717904 Score: 489
Period size: 135 Copynumber: 2.2 Consensus size: 135
171717593 GTTGAAGTTA
* *
171717603 AAGTCTTATCTCCCTAAAGTTGTAGTAGAGCAGACTG-ACGATAGCAGATCTTATCTCCCTGAAG
1 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGCA-GATAGCAGATCTTATCTCCCTGAAG
* * *
171717667 TTACAGTGGAGCAGATCGAAGCCACCATCCTTATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAA
65 TTACAGTAGAGCAGATCGAAGCCACCATCCTTATCTCTCTGAAGTTGCAGTAGAACAGGATAAAA
171717732 ATACAC
130 ATACAC
* *
171717738 AAGTCTTATATCCCTGAAGTTGTAGTGGAGTAGACTGCAGATAGCAGATCTTATCTCCCTGAAGT
1 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGCAGATAGCAGATCTTATCTCCCTGAAGT
*
171717803 TATAGTAGAGCAGATCGAAGCCACCATCCTTATCTCTCTGAAGTTGCAGTAGAACAGGATAAAAA
66 TACAGTAGAGCAGATCGAAGCCACCATCCTTATCTCTCTGAAGTTGCAGTAGAACAGGATAAAAA
171717868 TACAC
131 TACAC
** *
171717873 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCA
1 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCA
171717905 AGTTGAAATT
Statistics
Matches: 153, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
135 152 0.99
136 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (135 bp):
AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGCAGATAGCAGATCTTATCTCCCTGAAGT
TACAGTAGAGCAGATCGAAGCCACCATCCTTATCTCTCTGAAGTTGCAGTAGAACAGGATAAAAA
TACAC
Found at i:171719978 original size:77 final size:78
Alignment explanation
Indices: 171719881--171720045 Score: 289
Period size: 77 Copynumber: 2.1 Consensus size: 78
171719871 CCATATATTA
171719881 TTATTTTAAAATTTCGTATTACTTTATCTTAAATC-ATTTACATAGTATTTATTTTAAACTGTTT
1 TTATTTTAAAATTTCGTATTACTTTATCTTAAATCGATTTACATAGTATTTATTTTAAACTGTTT
*
171719945 TGTGTTGTCCCTT
66 TGTGTTGTCCCCT
* *
171719958 TTATTTTAAAATTTCGTATTACTTTATCTTAAATCGTTTTACATAGTATTTATTTTAAATTGTTT
1 TTATTTTAAAATTTCGTATTACTTTATCTTAAATCGATTTACATAGTATTTATTTTAAACTGTTT
171720023 TGTGTTGTCCCCT
66 TGTGTTGTCCCCT
171720036 TT-TTTTAAAA
1 TTATTTTAAAA
171720046 AATCATTATA
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
77 43 0.51
78 41 0.49
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.55
Consensus pattern (78 bp):
TTATTTTAAAATTTCGTATTACTTTATCTTAAATCGATTTACATAGTATTTATTTTAAACTGTTT
TGTGTTGTCCCCT
Found at i:171723966 original size:26 final size:26
Alignment explanation
Indices: 171723935--171724042 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
171723925 TGAAATGCCC
*
171723935 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
171723961 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
171723987 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
171724013 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
171724039 ATCA
1 ATCA
171724043 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:171736829 original size:40 final size:40
Alignment explanation
Indices: 171736721--171736830 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
171736711 ATTGAATGAT
* * * * *
171736721 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
171736761 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
171736801 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
171736831 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:171736845 original size:40 final size:39
Alignment explanation
Indices: 171736721--171736870 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
171736711 ATTGAATGAT
* * * * * * *
171736721 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
171736761 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
171736801 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
171736841 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
171736871 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:171742056 original size:28 final size:28
Alignment explanation
Indices: 171741987--171742087 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
171741977 GACAAGATTG
* * * *
171741987 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
171742017 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
171742045 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
171742074 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
171742088 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:171750010 original size:28 final size:28
Alignment explanation
Indices: 171749941--171750041 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
171749931 GACAAGATTG
* * * *
171749941 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
171749971 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
171749999 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
171750028 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
171750042 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:171755354 original size:15 final size:15
Alignment explanation
Indices: 171755328--171755383 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
171755318 CAAGGAAACC
171755328 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
171755343 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
171755358 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
171755373 GAATAAAGAAA
1 GAATAAAGAAA
171755384 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:171758378 original size:46 final size:45
Alignment explanation
Indices: 171758303--171758476 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
171758293 TGTAACCCGC
* * *
171758303 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
* *
171758349 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * * *
171758399 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCAT
171758442 CCATAAGTGAACTC-GACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
171758477 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 17
0.77 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 22 0.21
46 38 0.36
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:171765674 original size:29 final size:29
Alignment explanation
Indices: 171765611--171765675 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
171765601 AAAATTCATA
* * *
171765611 ATTAACATTGAATAATTACCTAAAATTGC
1 ATTAAGATTGAATAATCACCTAAAATTAC
171765640 ATTAAGATTGAATAATCACCTAAAATTAC
1 ATTAAGATTGAATAATCACCTAAAATTAC
171765669 ATTAAGA
1 ATTAAGA
171765676 ATGCGATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (29 bp):
ATTAAGATTGAATAATCACCTAAAATTAC
Found at i:171768470 original size:30 final size:30
Alignment explanation
Indices: 171768434--171768593 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
171768424 GACAAGATTG
* * * * *
171768434 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
171768464 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
171768492 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
171768521 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
171768551 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
171768580 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
171768594 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Done.