Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 64 of 213
Found at i:17182033 original size:16 final size:16
Alignment explanation
Indices: 17181996--17182037 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17181986 TTAATCATAT
*
17181996 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
17182012 TT-AAATATATTATAA
1 TTAAAATATATTATAA
17182027 TTAAAATATAT
1 TTAAAATATAT
17182038 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:17182044 original size:14 final size:15
Alignment explanation
Indices: 17182005--17182046 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17181995 TTTAAACATA
*
17182005 ATTATTATTAAATAT
1 ATTATAATTAAATAT
17182020 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
17182034 A-TATAATTTAATA
1 ATTATAATTAAATA
17182047 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:17182241 original size:26 final size:28
Alignment explanation
Indices: 17182212--17182272 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
17182202 CATGAATTTG
*
17182212 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
17182238 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
17182266 TAAAATT
1 TATAATT
17182273 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:17196067 original size:15 final size:15
Alignment explanation
Indices: 17196049--17196085 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
17196039 GTTATTATTG
17196049 TTATTATTATAATAA
1 TTATTATTATAATAA
* *
17196064 TTATTATTATTATAG
1 TTATTATTATAATAA
17196079 TTATTAT
1 TTATTAT
17196086 CATTGTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTATTATTATAATAA
Found at i:17216206 original size:59 final size:58
Alignment explanation
Indices: 17216113--17216262 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
17216103 GTACTTGTGG
* *
17216113 CTTGTGA-TTGCGGTTGCTTTTAGTGCCCAAACAAATTCAATCCTTGACATGCTGGTT
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
* * * *
17216170 CTTGTGACTTGTGGTTTACTTTTGGTGCCAAAACAAATTTAATCCTTGACATGCTGGTA
1 CTTGTGACTTGCGG-TTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
* *
17216229 GTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACA
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACA
17216263 TAGCAACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 50 0.62
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (58 bp):
CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
Found at i:17216357 original size:26 final size:26
Alignment explanation
Indices: 17216304--17216359 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
17216294 AATGTCACAC
* *
17216304 ATTTTGAAGCTTCATTTTCTTTGATT
1 ATTTTGAAGCTTCAATTTCTATGATT
*
17216330 ATTTTGAA-CTTCAATTTCATATGCTT
1 ATTTTGAAGCTTCAATTTC-TATGATT
17216356 ATTT
1 ATTT
17216360 CAGATGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.55
Consensus pattern (26 bp):
ATTTTGAAGCTTCAATTTCTATGATT
Found at i:17216886 original size:120 final size:120
Alignment explanation
Indices: 17216749--17217568 Score: 1410
Period size: 120 Copynumber: 6.8 Consensus size: 120
17216739 GTAGTATTAT
* * *
17216749 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAATTATA
1 ATATATTATGATTTCAGTAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATA
* * * ** *
17216813 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTGTAGTATT
65 TATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
* * * *
17216869 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTACTAAATTATA
1 ATATATTATGATTTCAGTAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATA
* *
17216933 TATTTTTATTAAATTATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
65 TATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
* *
17216989 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
17217054 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
*
17217109 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTACTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
*
17217174 AGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
* *
17217229 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
17217294 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
17217349 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
*
17217414 AGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
17217469 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
17217534 ATTTTAATTAAAATATATTTAATAATAATTATGTT
66 ATTTTAATTAAAATATATTTAATAATAATTATGTT
17217569 TAAATATGAT
Statistics
Matches: 675, Mismatches: 24, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
119 4 0.01
120 671 0.99
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
Found at i:17217545 original size:18 final size:17
Alignment explanation
Indices: 17217517--17217551 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17217507 ATTATTAAGA
*
17217517 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17217534 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17217552 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17217821 original size:16 final size:16
Alignment explanation
Indices: 17217787--17217839 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
17217777 GATTAGCTAT
17217787 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
17217804 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17217820 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17217836 TACA
1 TACA
17217840 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 24 0.67
17 12 0.33
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:17219088 original size:13 final size:14
Alignment explanation
Indices: 17219072--17219108 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
17219062 TAAGTTTTAA
*
17219072 TATTATAAATA-AT
1 TATTTTAAATATAT
17219085 TATTTTAAATATAT
1 TATTTTAAATATAT
17219099 T-TTTTAAATA
1 TATTTTAAATA
17219109 CAAGTCTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTTTAAATATAT
Found at i:17219328 original size:51 final size:53
Alignment explanation
Indices: 17219223--17219338 Score: 130
Period size: 52 Copynumber: 2.2 Consensus size: 53
17219213 AATATTACAC
* * ** *
17219223 AAATATATAATGCTAAAATATGAATTTATAATCGTATAATATTATTCATTC-A
1 AAATATATAATACTAAAATATGAATTTATAATCGCATAATATTAAACATGCAA
* * *
17219275 AAATATATAATACT-AAATATG-ATTATTTAATTGCATATTATTAAACATGCAA
1 AAATATATAATACTAAAATATGAATT-TATAATCGCATAATATTAAACATGCAA
17219327 AAATATATAATA
1 AAATATATAATA
17219339 AAATTTTTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
50 3 0.06
51 25 0.46
52 26 0.48
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (53 bp):
AAATATATAATACTAAAATATGAATTTATAATCGCATAATATTAAACATGCAA
Found at i:17219617 original size:22 final size:22
Alignment explanation
Indices: 17219589--17219631 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17219579 ATTTTAATAC
17219589 CATACAAACATATAATATTAAG
1 CATACAAACATATAATATTAAG
*
17219611 CATACAAATATATAATATTAA
1 CATACAAACATATAATATTAA
17219632 AATTTACCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (22 bp):
CATACAAACATATAATATTAAG
Found at i:17220352 original size:28 final size:28
Alignment explanation
Indices: 17220321--17220411 Score: 73
Period size: 28 Copynumber: 3.2 Consensus size: 28
17220311 TTTCATACAA
17220321 TTTTAAAATTTATTAGAATTTTTTATAT
1 TTTTAAAATTTATTAGAATTTTTTATAT
*
17220349 TTTTATAATTT-TGTATGAA-TTTTTATAGGT
1 TTTTAAAATTTAT-TA-GAATTTTTTATA--T
* *
17220379 TTTTATAAA-ATATTA-AATATTTTATAT
1 TTTTA-AAATTTATTAGAATTTTTTATAT
17220406 GTTTTA
1 -TTTTA
17220412 TTCATTTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
27 2 0.04
28 27 0.53
29 10 0.20
30 9 0.18
31 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTTAAAATTTATTAGAATTTTTTATAT
Found at i:17220371 original size:11 final size:9
Alignment explanation
Indices: 17220278--17220532 Score: 110
Period size: 9 Copynumber: 27.0 Consensus size: 9
17220268 TTGTAATTTC
17220278 TAATTTTTA
1 TAATTTTTA
*
17220287 TAATTTATA
1 TAATTTTTA
17220296 TAACTTTTTTA
1 TAA--TTTTTA
* *
17220307 TAAATTTCA
1 TAATTTTTA
*
17220316 TACAATTTTA
1 TA-ATTTTTA
*
17220326 AAATTTATTA
1 TAATTT-TTA
*
17220336 GAATTTTT-
1 TAATTTTTA
17220344 TATATTTTTA
1 TA-ATTTTTA
17220354 TAATTTTGTA
1 TAATTTT-TA
17220364 TGAATTTTTA
1 T-AATTTTTA
*
17220374 TAGGTTTTTA
1 TA-ATTTTTA
* *
17220384 TAAAATATTA
1 T-AATTTTTA
17220394 -AATATTTTA
1 TAAT-TTTTA
17220403 T-ATGTTTTA
1 TAAT-TTTTA
*
17220412 TTCA-TTTTA
1 -TAATTTTTA
****
17220421 TAAAAAATA
1 TAATTTTTA
17220430 -ATATTTTTCA
1 TA-ATTTTT-A
17220440 TAGATTTTTA
1 TA-ATTTTTA
*
17220450 TAATATTTA
1 TAATTTTTA
17220459 TAAGTTTTTA
1 TAA-TTTTTA
*
17220469 TGATTTTTTA
1 T-AATTTTTA
*
17220479 TATTTTTTA
1 TAATTTTTA
*
17220488 TAAGTTTATA
1 TAA-TTTTTA
*
17220498 CTAATTTTAA
1 -TAATTTTTA
17220508 T-ATTTTT-
1 TAATTTTTA
*
17220515 TAATTTTAA
1 TAATTTTTA
17220524 TAATTTTTA
1 TAATTTTTA
17220533 CGAATTTTAA
Statistics
Matches: 187, Mismatches: 35, Indels: 48
0.69 0.13 0.18
Matches are distributed among these distances:
7 1 0.01
8 16 0.09
9 82 0.44
10 61 0.33
11 27 0.14
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (9 bp):
TAATTTTTA
Found at i:17220466 original size:29 final size:29
Alignment explanation
Indices: 17220434--17220494 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
17220424 AAAATAATAT
17220434 TTTTCATAGA-TTTTTATAATATTTATAAG
1 TTTTCAT-GATTTTTTATAATATTTATAAG
* * *
17220463 TTTTTATGATTTTTTATATTTTTTATAAG
1 TTTTCATGATTTTTTATAATATTTATAAG
17220492 TTT
1 TTT
17220495 ATACTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.64
Consensus pattern (29 bp):
TTTTCATGATTTTTTATAATATTTATAAG
Found at i:17220476 original size:10 final size:9
Alignment explanation
Indices: 17220430--17220521 Score: 51
Period size: 10 Copynumber: 9.8 Consensus size: 9
17220420 ATAAAAAATA
*
17220430 ATATTTTTC
1 ATATTTTTT
*
17220439 ATAGATTTTT
1 ATA-TTTTTT
* *
17220449 ATAATATTT
1 ATATTTTTT
*
17220458 ATAAGTTTTT
1 AT-ATTTTTT
17220468 ATGATTTTTT
1 AT-ATTTTTT
17220478 ATATTTTTT
1 ATATTTTTT
* *
17220487 ATAAGTTTAT
1 AT-ATTTTTT
* *
17220497 ACTAATTTTA
1 A-TATTTTTT
17220507 ATATTTTTT
1 ATATTTTTT
17220516 A-ATTTT
1 ATATTTT
17220522 AATAATTTTT
Statistics
Matches: 65, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
8 5 0.08
9 26 0.40
10 33 0.51
11 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (9 bp):
ATATTTTTT
Found at i:17220505 original size:29 final size:29
Alignment explanation
Indices: 17220443--17220516 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
17220433 TTTTTCATAG
* * *
17220443 ATTTTTATAATATTTATAAGTTTTTATGA
1 ATTTTTATATTTTTTATAAGTTTATATGA
*
17220472 TTTTTTATATTTTTTATAAGTTTATACT-A
1 ATTTTTATATTTTTTATAAGTTTATA-TGA
*
17220501 ATTTTAATATTTTTTA
1 ATTTTTATATTTTTTA
17220517 ATTTTAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 37 0.97
30 1 0.03
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (29 bp):
ATTTTTATATTTTTTATAAGTTTATATGA
Found at i:17220538 original size:19 final size:18
Alignment explanation
Indices: 17220500--17220556 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 18
17220490 AGTTTATACT
*
17220500 AATTTTAAT-ATTTTT-T
1 AATTTTAATAATTTTTAG
17220516 AATTTTAATAATTTTTACG
1 AATTTTAATAATTTTTA-G
17220535 AATTTTAATGATATTTTTAG
1 AATTTTAAT-A-ATTTTTAG
17220555 AA
1 AA
17220557 AAAATATAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
16 9 0.26
17 6 0.17
19 9 0.26
20 4 0.11
21 7 0.20
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (18 bp):
AATTTTAATAATTTTTAG
Found at i:17220910 original size:16 final size:16
Alignment explanation
Indices: 17220891--17220937 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
17220881 GTTTGTAATG
17220891 ATTTGAGCTT-GAAAAA
1 ATTTGAG-TTAGAAAAA
*
17220907 ATTTGAGTTAGAGAAA
1 ATTTGAGTTAGAAAAA
17220923 ATTTGAGTTAAGAAA
1 ATTTGAGTT-AGAAA
17220938 GTTCGAGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 2 0.07
16 21 0.78
17 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.32
Consensus pattern (16 bp):
ATTTGAGTTAGAAAAA
Found at i:17224707 original size:14 final size:14
Alignment explanation
Indices: 17224688--17224715 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17224678 GAATACGGAT
17224688 TCCTTGATAAAGTG
1 TCCTTGATAAAGTG
17224702 TCCTTGATAAAGTG
1 TCCTTGATAAAGTG
17224716 GAAAACAATA
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:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
TCCTTGATAAAGTG
Found at i:17227797 original size:17 final size:18
Alignment explanation
Indices: 17227776--17227816 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
17227766 AGGTCAAAAT
*
17227776 GAAAATGAAAGAAAAAGA
1 GAAAAAGAAAGAAAAAGA
*
17227794 -AAAAAGAACGAAAAAGA
1 GAAAAAGAAAGAAAAAGA
17227811 GAAAAA
1 GAAAAA
17227817 CCTAGATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (18 bp):
GAAAAAGAAAGAAAAAGA
Found at i:17228744 original size:15 final size:16
Alignment explanation
Indices: 17228704--17228749 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
17228694 AAAAATGATG
17228704 AAAAGTGAAAAAT-GAC
1 AAAAGT-AAAAATGGAC
* *
17228720 AAATGAAAAAATGGA-
1 AAAAGTAAAAATGGAC
17228735 AAAAGTAAAAATGGA
1 AAAAGTAAAAATGGA
17228750 GAGGCTAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.65, C:0.02, G:0.20, T:0.13
Consensus pattern (16 bp):
AAAAGTAAAAATGGAC
Found at i:17230035 original size:45 final size:44
Alignment explanation
Indices: 17229986--17230124 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 44
17229976 GATAGTAGAT
*
17229986 CTTGCCTTCTTGTATTGACAACGAAGCAGATCGAAGAAACAAAGC
1 CTTGCCTTCTTG-ATTGACAACGAAGCAGATTGAAGAAACAAAGC
* * ** * * * * *
17230031 CTTGCCTCCCTTGGTTG-CAGTGGAGCAGGTTGAAGATAGCAGA-T
1 CTTGCCT-TCTTGATTGACAACGAAGCAGATTGAAGA-AACAAAGC
*
17230075 CTTGCCTTTTTGCATTGACAACGAAGCAGATTG-A-AAACAAAGC
1 CTTGCCTTCTTG-ATTGACAACGAAGCAGATTGAAGAAACAAAGC
17230118 CTTGCCT
1 CTTGCCT
17230125 CCATCGGTTG
Statistics
Matches: 69, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
42 4 0.06
43 11 0.16
44 25 0.36
45 25 0.36
46 4 0.06
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTGCCTTCTTGATTGACAACGAAGCAGATTGAAGAAACAAAGC
Found at i:17230156 original size:87 final size:87
Alignment explanation
Indices: 17229974--17230387 Score: 567
Period size: 87 Copynumber: 4.7 Consensus size: 87
17229964 CAGATCAGTG
* * * *
17229974 AAGATAGTAGATCTTGCCTTCTTGTATTGACAACGAAGCAGATCGAAGAAACAAAGCCTTGCCTC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG-A-AAACAAAGCCTTGCCTC
* * * *
17230039 CCTTGGTTGCAGTGGAGCAGGTTG
64 CATCGGTTGCAGTGGAGCTGGTTA
** * *
17230063 AAGATAGCAGATCTTGCCTTTTTGCATTGACAACGAAGCAGATTGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
17230128 TCGGTTGCAGTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
* * * * *
17230150 AAGATAGCAGATCTTGCATTCCTACATTGACAGTGGAGCAGATCAAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* * *
17230215 TCGGTTCCAGTAGAGCGGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
*
17230237 AAGATAGCAGATCTTGTCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
17230302 TCGGTTTCAATGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
* * **
17230324 AAGATAGTAGATCTTGCCTTCCTGCATTGACAGCGAAACAGATAAAAAACAAAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
17230388 CCTCGATTGC
Statistics
Matches: 290, Mismatches: 35, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
87 248 0.86
88 1 0.00
89 41 0.14
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGCAGTGGAGCTGGTTA
Found at i:17230603 original size:44 final size:43
Alignment explanation
Indices: 17230550--17230888 Score: 256
Period size: 44 Copynumber: 7.8 Consensus size: 43
17230540 GGAAGAAGCA
* *
17230550 AATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGTCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AAT
* * * * *
17230594 AATCCTATCTCCCTGAGGTTGTAGTGGAGCGGATTAAAGTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAT
* * * ** * ** *
17230637 CGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCG-CCTCA-
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAT
** * * *
17230679 GGTCTTATTTCCCTGAGGTTGCAGTGGAGCAGACTG-AGTAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AAT
* ** * * *
17230722 ACATCTTATCCCCCTGAAGTCACAGTGGGGCAGATCGAAG-AAGCA
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAA--T
17230767 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AAT
* * * * *
17230811 AATCATATCTCCCT-AAGGCTGTAGTGGAGCGGATTAAAGTAAT
1 AATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGTAAT
* *
17230854 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
17230889 CGCATCAAGT
Statistics
Matches: 226, Mismatches: 57, Indels: 24
0.74 0.19 0.08
Matches are distributed among these distances:
41 28 0.12
42 1 0.00
43 13 0.06
44 177 0.78
45 5 0.02
46 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAT
Found at i:17233585 original size:39 final size:40
Alignment explanation
Indices: 17233455--17233587 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 40
17233445 AGTGGCGTTT
* ** *
17233455 TTAGCGGCGTTTGGACAAAAAACGCCACTAAAAATCGAGCA
1 TTAGCGGCGTTT-TACGGAAAACGCCGCTAAAAATCGAGCA
* * * *
17233496 TTAGTGGCGCTTTACGTAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGGCGTTTTACGGAAAACGCCGCTAAAAATCGAGCA
* * *
17233536 TTAGCAGCGTTTCTA-GGAAAGCGCCGCTAAAAAT-TAGCA
1 TTAGCGGCGTTT-TACGGAAAACGCCGCTAAAAATCGAGCA
17233575 TTAGCGGCGTTTT
1 TTAGCGGCGTTTT
17233588 TTAGAAAAAC
Statistics
Matches: 76, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.20
40 48 0.63
41 12 0.16
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (40 bp):
TTAGCGGCGTTTTACGGAAAACGCCGCTAAAAATCGAGCA
Found at i:17233601 original size:40 final size:40
Alignment explanation
Indices: 17233472--17233607 Score: 143
Period size: 40 Copynumber: 3.4 Consensus size: 40
17233462 CGTTTGGACA
* * *
17233472 AAAAACGCCACTAAAAATCGAGCATTAGTGGCG-CTTTACG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTTA-G
* * * *
17233512 TAAAACGCCGCTAAAGATCGAGCATTAGCAGCGTTTCTAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTTAG
* * *
17233552 GAAAGCGCCGCTAAAAAT-TAGCATTAGCGGCGTTTTTTAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG-TTTTTAG
17233592 AAAAACGCCGC-AAAAA
1 AAAAACGCCGCTAAAAA
17233608 GTCTAAGCCC
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.22
40 59 0.75
41 3 0.04
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTTAG
Found at i:17233723 original size:31 final size:32
Alignment explanation
Indices: 17233685--17233748 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
17233675 TAATGCTCAG
*
17233685 ATCTTTAGCGGCGTTTT-TAAAAAGCGCCGCT
1 ATCTTTAGCGGCGTTTTGAAAAAAGCGCCGCT
*
17233716 ATCTTTAGCGGCGTTTTGAAAAAAGTGCCGCT
1 ATCTTTAGCGGCGTTTTGAAAAAAGCGCCGCT
17233748 A
1 A
17233749 ATGCTCAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 17 0.57
32 13 0.43
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (32 bp):
ATCTTTAGCGGCGTTTTGAAAAAAGCGCCGCT
Found at i:17233773 original size:41 final size:41
Alignment explanation
Indices: 17233716--17233968 Score: 400
Period size: 41 Copynumber: 6.2 Consensus size: 41
17233706 AAGCGCCGCT
* *
17233716 ATCTTTAGCGGCG-TTTTGAAAAAAGTGCCGCTAATGCTCAG
1 ATCTTTAGCGGCGTTTTTG-AGAAAGCGCCGCTAATGCTCAG
17233757 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
1 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
* *
17233798 ATCTTTAGCGGCATTTTTGAGAAAGCGCCGCTAATACTCAG
1 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
* * * *
17233839 ATCTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTTAG
1 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
*
17233880 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTTAG
1 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
*
17233921 ATCTCTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
1 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
17233962 ATCTTTA
1 ATCTTTA
17233969 ATTGAACATT
Statistics
Matches: 197, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 192 0.97
42 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (41 bp):
ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
Found at i:17234351 original size:14 final size:15
Alignment explanation
Indices: 17234324--17234355 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
17234314 AGGTTTATAA
17234324 ATTATGGAATTAGGG
1 ATTATGGAATTAGGG
17234339 ATTATGG-ATTAGGG
1 ATTATGGAATTAGGG
17234353 ATT
1 ATT
17234356 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
ATTATGGAATTAGGG
Found at i:17234505 original size:82 final size:81
Alignment explanation
Indices: 17234417--17234592 Score: 226
Period size: 82 Copynumber: 2.1 Consensus size: 81
17234407 GAGGTAGGGA
* * *
17234417 TTTAGGGTTTGTAGATTTAGTGTTAGGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAAT
1 TTTAGGGTTAG-AGATTTAGGGTCAGGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAAT
*
17234482 TTATATATTAAATAATG
65 TTATATATTAAATAAGG
* * * * * *
17234499 TTTAGGGGTTAGGGATTTGGGGTCGGGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAAT
1 TTTA-GGGTTAGAGATTTAGGGTCAGGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAAT
*
17234564 TTCTATATTAAATAAGG
65 TTATATATTAAATAAGG
17234581 TTTAGAGGTTAG
1 TTTAG-GGTTAG
17234593 TGGTTTGGGG
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
81 1 0.01
82 74 0.91
83 6 0.07
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.47
Consensus pattern (81 bp):
TTTAGGGTTAGAGATTTAGGGTCAGGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAATT
TATATATTAAATAAGG
Found at i:17234600 original size:82 final size:82
Alignment explanation
Indices: 17234442--17234603 Score: 254
Period size: 82 Copynumber: 2.0 Consensus size: 82
17234432 TTTAGTGTTA
* *
17234442 GGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAATTTATATATTAAATAATGTTTAGGGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
17234507 TTAGGGATTTGGGGTCG
66 TTAGGGATTTGGGGTCG
* * * *
17234524 GGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGGTTTAGAGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
17234589 TTAGTGG-TTTGGGGT
66 TTAG-GGATTTGGGGT
17234604 TTGGGGTTTG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
82 71 0.97
83 2 0.03
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (82 bp):
GGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
TTAGGGATTTGGGGTCG
Found at i:17234604 original size:7 final size:7
Alignment explanation
Indices: 17234594--17234618 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17234584 AGAGGTTAGT
17234594 GGTTTGG
1 GGTTTGG
17234601 GGTTTGG
1 GGTTTGG
17234608 GGTTTGG
1 GGTTTGG
17234615 GGTT
1 GGTT
17234619 AAGAGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.56, T:0.44
Consensus pattern (7 bp):
GGTTTGG
Found at i:17235019 original size:17 final size:16
Alignment explanation
Indices: 17234986--17235019 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17234976 ATATTAGATT
*
17234986 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
17235002 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
17235019 T
1 T
17235020 TGATACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:17240079 original size:49 final size:49
Alignment explanation
Indices: 17240022--17240119 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
17240012 AAGATCGTGG
* * * *
17240022 CCTTTAGCGGTGTTTTTTAGA-AATGCGCCGCTAAAGGTCATGGTCTTTA
1 CCTTTAGCGGCGTTTGTGAGATAA-GCGCCGCTAAAAGTCATGGTCTTTA
*
17240071 CCTTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAAGTCATGGTCTTTA
1 CCTTTAGCGGCGTTTGTGAGATAAGCGCCGCTAAAAGTCATGGTCTTTA
17240120 ACGGCGTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 41 0.95
50 2 0.05
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (49 bp):
CCTTTAGCGGCGTTTGTGAGATAAGCGCCGCTAAAAGTCATGGTCTTTA
Found at i:17240119 original size:92 final size:92
Alignment explanation
Indices: 17239987--17240154 Score: 225
Period size: 92 Copynumber: 1.8 Consensus size: 92
17239977 GGTTTTTAAT
* * * * * *
17239987 GGCGTTTTTGGGATAAGCGTCGCTAAAGATCGTGGCCTTTAGCGGTGTTT-T-TTAGAAATGCGC
1 GGCGTTTGTGGGATAAGCGCCGCTAAAGATCATGGCCTTTAACGGCGTTTGTGGTA-AAA-GCGC
17240050 CGCTAAAGGTCATGGTCTTTACCTTTAGC
64 CGCTAAAGGTCATGGTCTTTACCTTTAGC
*
17240079 GGCGTTTGTGGGATAAGCGCCGCTAAA-AGTCATGGTCTTTAACGGCGTTTGTGGTAAAAGCGCC
1 GGCGTTTGTGGGATAAGCGCCGCTAAAGA-TCATGGCCTTTAACGGCGTTTGTGGTAAAAGCGCC
17240143 GCTAAAGGTCAT
65 GCTAAAGGTCAT
17240155 TTTAGAAACA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
91 1 0.02
92 59 0.89
93 4 0.06
94 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (92 bp):
GGCGTTTGTGGGATAAGCGCCGCTAAAGATCATGGCCTTTAACGGCGTTTGTGGTAAAAGCGCCG
CTAAAGGTCATGGTCTTTACCTTTAGC
Found at i:17240154 original size:43 final size:43
Alignment explanation
Indices: 17239964--17240154 Score: 166
Period size: 43 Copynumber: 4.3 Consensus size: 43
17239954 GTATAAGGGT
* * * * * *
17239964 CGCTAAAGGTCGTGGTTTTTAATGGCGTTTTTGGGATAAGCGT
1 CGCTAAAGGTCATGGTCTTTAACGGCGTTTGTGGGAAAAGCGC
* * * * * * ** *
17240007 CGCTAAAGATCGTGGCCTTTAGCGGTGTTTTTTAGAAATGCGC
1 CGCTAAAGGTCATGGTCTTTAACGGCGTTTGTGGGAAAAGCGC
*
17240050 CGCTAAAGGTCATGGTCTTTACCTTTAGCGGCGTTTGTGGGATAAGCGC
1 CGCTAAAGGTCATGGTCTTTA-----A-CGGCGTTTGTGGGAAAAGCGC
* *
17240099 CGCTAAAAGTCATGGTCTTTAACGGCGTTTGTGGTAAAAGCGC
1 CGCTAAAGGTCATGGTCTTTAACGGCGTTTGTGGGAAAAGCGC
17240142 CGCTAAAGGTCAT
1 CGCTAAAGGTCAT
17240155 TTTAGAAACA
Statistics
Matches: 117, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
43 81 0.69
44 1 0.01
49 35 0.30
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
CGCTAAAGGTCATGGTCTTTAACGGCGTTTGTGGGAAAAGCGC
Found at i:17241476 original size:18 final size:19
Alignment explanation
Indices: 17241442--17241481 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
17241432 AATAGTATCC
*
17241442 TTTTAACCAACCATCACCT
1 TTTTAACCAACCATCACAT
*
17241461 TTTTAACCAA-CTTCACAT
1 TTTTAACCAACCATCACAT
17241479 TTT
1 TTT
17241482 CACCTTCGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (19 bp):
TTTTAACCAACCATCACAT
Found at i:17248254 original size:24 final size:24
Alignment explanation
Indices: 17248222--17248270 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
17248212 CCATGGATGA
17248222 GTATGGTAAAATTTTGAAATTTAT
1 GTATGGTAAAATTTTGAAATTTAT
17248246 GTATGGTAAAATTTTGAAATTTAT
1 GTATGGTAAAATTTTGAAATTTAT
17248270 G
1 G
17248271 GTAGAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (24 bp):
GTATGGTAAAATTTTGAAATTTAT
Found at i:17251381 original size:38 final size:38
Alignment explanation
Indices: 17251338--17251449 Score: 215
Period size: 38 Copynumber: 2.9 Consensus size: 38
17251328 TCAGAAAAAG
17251338 AAAGAATTTTTAGAACTCAAATAGGGGAATATGACTGT
1 AAAGAATTTTTAGAACTCAAATAGGGGAATATGACTGT
*
17251376 AAAGAATTTTTAGAACTCAAATAAGGGAATATGACTGT
1 AAAGAATTTTTAGAACTCAAATAGGGGAATATGACTGT
17251414 AAAGAATTTTTAGAACTCAAATAGGGGAATATGACT
1 AAAGAATTTTTAGAACTCAAATAGGGGAATATGACT
17251450 ATATCTGAGT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 72 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.29
Consensus pattern (38 bp):
AAAGAATTTTTAGAACTCAAATAGGGGAATATGACTGT
Found at i:17256480 original size:15 final size:16
Alignment explanation
Indices: 17256462--17256495 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17256452 ATTTTTTCGA
*
17256462 TTTCTTTT-TTCTTTT
1 TTTCTTTTGCTCTTTT
17256477 TTTCTTTTGCTCTTTT
1 TTTCTTTTGCTCTTTT
17256493 TTT
1 TTT
17256496 TTACAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTCTTTTGCTCTTTT
Found at i:17257738 original size:23 final size:22
Alignment explanation
Indices: 17257694--17257740 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
17257684 AAAAACTAGT
* * *
17257694 AAAATAAAAATAAATTATATAA
1 AAAATAAAAAGAAATAAAATAA
17257716 AAAATAATAAAGAAATAAAATAA
1 AAAATAA-AAAGAAATAAAATAA
17257739 AA
1 AA
17257741 GGGGTGGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAAAAGAAATAAAATAA
Found at i:17268627 original size:9 final size:9
Alignment explanation
Indices: 17268615--17268729 Score: 54
Period size: 9 Copynumber: 12.0 Consensus size: 9
17268605 TATATTAAAA
17268615 AATATTTTT
1 AATATTTTT
17268624 AATATTTTT
1 AATATTTTT
* *
17268633 TATAATTTT
1 AATATTTTT
**
17268642 AATGGTTTT
1 AATATTTTT
17268651 AA-ATTTTTT
1 AATA-TTTTT
* *
17268660 AAAAATAGTTT
1 -AATAT-TTTT
17268671 AATATTTTTTT
1 AATA--TTTTT
* *
17268682 TATAATTTT
1 AATATTTTT
17268691 AATGATTTTT
1 AAT-ATTTTT
*
17268701 AATTTTTTT
1 AATATTTTT
17268710 AAAATAGTTTTT
1 --AATA-TTTTT
17268722 -ATATTTTT
1 AATATTTTT
17268730 TTGGATTTTT
Statistics
Matches: 80, Mismatches: 16, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
8 5 0.06
9 42 0.52
10 14 0.17
11 13 0.16
12 6 0.08
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:17268731 original size:49 final size:49
Alignment explanation
Indices: 17268597--17268731 Score: 168
Period size: 49 Copynumber: 2.8 Consensus size: 49
17268587 AATTTTTAAA
* *
17268597 ATTTTAAATATATTAAAAAATA-TTTTTA-ATATTTTTTATAATTTTAATG
1 ATTTTAAAT-TTTTTAAAAATAGTTTTTATAT-TTTTTTATAATTTTAATG
* *
17268646 GTTTTAAATTTTTTAAAAATAG-TTTAATATTTTTTTTATAATTTTAATG
1 ATTTTAAATTTTTTAAAAATAGTTTTTATA-TTTTTTTATAATTTTAATG
* *
17268695 ATTTTTAATTTTTTTAAAATAGTTTTTATATTTTTTT
1 ATTTTAAATTTTTTAAAAATAGTTTTTATATTTTTTT
17268732 GGATTTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
48 14 0.19
49 53 0.72
50 7 0.09
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (49 bp):
ATTTTAAATTTTTTAAAAATAGTTTTTATATTTTTTTATAATTTTAATG
Found at i:17269597 original size:31 final size:32
Alignment explanation
Indices: 17269539--17269618 Score: 121
Period size: 31 Copynumber: 2.6 Consensus size: 32
17269529 TAAAATAGGG
*
17269539 TTTTAGGTTCCTTAAAAGTTGGATAAAATAAA
1 TTTTAGGATCCTTAAAAGTTGGATAAAATAAA
17269571 TTTTAGG-TCCTTTAAAAGTTGG-TAAAATAAA
1 TTTTAGGATCC-TTAAAAGTTGGATAAAATAAA
17269602 TTTT-GGATCCTTAAAAG
1 TTTTAGGATCCTTAAAAG
17269619 CTAAATTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
30 9 0.20
31 19 0.41
32 18 0.39
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (32 bp):
TTTTAGGATCCTTAAAAGTTGGATAAAATAAA
Found at i:17272458 original size:18 final size:18
Alignment explanation
Indices: 17272435--17272472 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17272425 TACTTATAAG
*
17272435 AAGCACATTTGGGACAAA
1 AAGCACATTTGAGACAAA
*
17272453 AAGCACTTTTGAGACAAA
1 AAGCACATTTGAGACAAA
17272471 AA
1 AA
17272473 AAAATCCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
AAGCACATTTGAGACAAA
Found at i:17276169 original size:36 final size:35
Alignment explanation
Indices: 17276122--17276207 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 35
17276112 TAAGGTATGC
*
17276122 CAATTAGCTGTTAGCTAGTGTTTGTTTAATCATTAT
1 CAATTAGCTGTTAGCTAGTG-CTGTTTAATCATTAT
* * *
17276158 CAATTAGCTGTTAGCTGGTGCTGTTTAATTATTTT
1 CAATTAGCTGTTAGCTAGTGCTGTTTAATCATTAT
*
17276193 CAATTTGTCTGTTAG
1 CAATTAG-CTGTTAG
17276208 ATAATTAGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 18 0.41
36 26 0.59
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.48
Consensus pattern (35 bp):
CAATTAGCTGTTAGCTAGTGCTGTTTAATCATTAT
Found at i:17276567 original size:25 final size:25
Alignment explanation
Indices: 17276515--17276567 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
17276505 GATTAGATTT
* *
17276515 TATTTTTTATTATTTGTTTTACTTA
1 TATTTTTTATTATTTATTTTACTGA
*
17276540 TATTTTATTATT-TTTATTTTTCTGA
1 TATTTT-TTATTATTTATTTTACTGA
17276565 TAT
1 TAT
17276568 GAGAAGAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (25 bp):
TATTTTTTATTATTTATTTTACTGA
Found at i:17291028 original size:23 final size:23
Alignment explanation
Indices: 17290993--17291051 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
17290983 CCGAGCTGAT
* * *
17290993 AAACAGTAAGCTCTATTGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
* *
17291016 AGACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
17291039 AAACGGTAAGCTC
1 AAACGGTAAGCTC
17291052 ATACAAGTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAGAGCTG
Found at i:17298229 original size:23 final size:23
Alignment explanation
Indices: 17298199--17298252 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
17298189 CTGATAAATA
* * * *
17298199 GTAAGCTCTATTGAGTTGAGACG
1 GTAAGCTCCATAGAGCTGAAACG
*
17298222 GTAAGCTCCGTAGAGCTGAAACG
1 GTAAGCTCCATAGAGCTGAAACG
17298245 GTAAGCTC
1 GTAAGCTC
17298253 ATACAAGCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (23 bp):
GTAAGCTCCATAGAGCTGAAACG
Found at i:17304845 original size:31 final size:32
Alignment explanation
Indices: 17304763--17304886 Score: 122
Period size: 32 Copynumber: 4.1 Consensus size: 32
17304753 TTGATACTTG
*
17304763 AACTTGACAACTTTTTCCTAA-TTGGTACCTA
1 AACTTGACATCTTTTTCCTAATTTGGTACCTA
17304794 AAC-T---AT-TTTTGGTCC-AATTTGGTATCC-A
1 AACTTGACATCTTTT--TCCTAATTTGGTA-CCTA
17304822 AACTTGACA-CTTTTTCCTAATTTGGTACCTA
1 AACTTGACATCTTTTTCCTAATTTGGTACCTA
* * *
17304853 AACTTGACATTTTTTTCTTAATTTGGTACTTA
1 AACTTGACATCTTTTTCCTAATTTGGTACCTA
17304885 AA
1 AA
17304887 ATTTTTAGGG
Statistics
Matches: 77, Mismatches: 4, Indels: 23
0.74 0.04 0.22
Matches are distributed among these distances:
26 4 0.05
27 3 0.04
28 13 0.17
29 3 0.04
30 6 0.08
31 22 0.29
32 26 0.34
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (32 bp):
AACTTGACATCTTTTTCCTAATTTGGTACCTA
Found at i:17304933 original size:92 final size:89
Alignment explanation
Indices: 17304763--17304945 Score: 226
Period size: 92 Copynumber: 2.0 Consensus size: 89
17304753 TTGATACTTG
**
17304763 AACTTGACAACTTTTTCCTAATTGGTACCTAAACTATTTTTGGTCCAATTTGGTATCCAAACTTG
1 AACTTGACAACTTTTTCCTAATTGGTACCTAAAC-ATTTTTGGTCCAATTTGGTATCCAAACACG
17304828 ACACTTTTTCCTAATTTGGTACCTA
65 ACACTTTTTCCTAATTTGGTACCTA
** * * *
17304853 AACTTGACATTTTTTTCTTAATTTGGTACTTAAA-ATTTTTAGGGGTCCAATTTGGTA-CCTGAA
1 AACTTGACAACTTTTTCCTAA-TTGGTACCTAAACATTTTT---GGTCCAATTTGGTATCC-AAA
*
17304916 CACGACTCTTTTTCCTAATTTGGTACCTA
61 CACGACACTTTTTCCTAATTTGGTACCTA
17304945 A
1 A
17304946 TCTTTTTTCT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
89 6 0.08
90 18 0.22
91 13 0.16
92 43 0.54
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (89 bp):
AACTTGACAACTTTTTCCTAATTGGTACCTAAACATTTTTGGTCCAATTTGGTATCCAAACACGA
CACTTTTTCCTAATTTGGTACCTA
Found at i:17305434 original size:61 final size:61
Alignment explanation
Indices: 17305335--17305530 Score: 225
Period size: 61 Copynumber: 3.2 Consensus size: 61
17305325 TAATAAATTT
* ** * * *
17305335 AGGTACCAAATTGAACCTAAAAAAAGGATATGTGTCAAATTAGGAAAAAAATGCCAAGTTC
1 AGGTACCAAATTGAGCCTAAAAAAAGTTTAGGTATCAAATTAGGAAAAAAATGTCAAGTTC
* * *
17305396 AAGTACCAAATTGAGCCTAAAAAAAGTTTAGGTATCAAATTA-GAAAAAAGTGTAAAGTTC
1 AGGTACCAAATTGAGCCTAAAAAAAGTTTAGGTATCAAATTAGGAAAAAAATGTCAAGTTC
* * * *
17305456 AGGTAACACAGATTGGGCC-AAAAAAGAGTTTAGGTACCAAATTAGGAAAAAAAGTGTCAAGTTT
1 AGGT-AC-CAAATTGAGCCTAAAAAA-AGTTTAGGTATCAAATTAGGAAAAAAA-TGTCAAGTTC
17305520 AGGTACCAAAT
1 AGGTACCAAAT
17305531 GTTATATAAA
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
60 18 0.16
61 44 0.39
62 30 0.27
63 9 0.08
64 12 0.11
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (61 bp):
AGGTACCAAATTGAGCCTAAAAAAAGTTTAGGTATCAAATTAGGAAAAAAATGTCAAGTTC
Found at i:17305630 original size:21 final size:20
Alignment explanation
Indices: 17305577--17305623 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
17305567 TCTTTCAACA
* *
17305577 AAAAAAATACAAATTATTTTT
1 AAAAAAAT-CAAAATATTTAT
17305598 AAAAAAATCAAAATATTTAT
1 AAAAAAATCAAAATATTTAT
17305618 AAAAAA
1 AAAAAA
17305624 TTCCAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAAATCAAAATATTTAT
Found at i:17305631 original size:20 final size:20
Alignment explanation
Indices: 17305577--17305631 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
17305567 TCTTTCAACA
* *
17305577 AAAAAAATACAAATTATTTTT
1 AAAAAAATCCAAA-TATTTAT
*
17305598 AAAAAAATCAAAATATTTAT
1 AAAAAAATCCAAATATTTAT
*
17305618 AAAAAATTCCAAAT
1 AAAAAAATCCAAAT
17305632 TTTCATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAAATCCAAATATTTAT
Found at i:17305693 original size:19 final size:18
Alignment explanation
Indices: 17305656--17305695 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17305646 TTAAAAATAT
* *
17305656 AAAAATTAAAAATTCTAA
1 AAAAAATAAAAATGCTAA
17305674 AAAAAATAAAAATGCATAA
1 AAAAAATAAAAATGC-TAA
17305693 AAA
1 AAA
17305696 TTTTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (18 bp):
AAAAAATAAAAATGCTAA
Found at i:17308742 original size:27 final size:27
Alignment explanation
Indices: 17308702--17308757 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
17308692 CAAATAAATA
* * *
17308702 AAAAATGTAGTATTGACCTTATTCTTTT
1 AAAAATGTAATATTCACCTTAAT-TTTT
17308730 AAAAA-GTAATATTCACCTTAATTTTT
1 AAAAATGTAATATTCACCTTAATTTTT
17308756 AA
1 AA
17308758 TTAAGTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.24
27 14 0.56
28 5 0.20
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (27 bp):
AAAAATGTAATATTCACCTTAATTTTT
Found at i:17310550 original size:15 final size:17
Alignment explanation
Indices: 17310530--17310561 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
17310520 TTAGTTTTTT
17310530 TCATAA-TAAA-TTTAA
1 TCATAAGTAAAGTTTAA
17310545 TCATAAGTAAAGTTTAA
1 TCATAAGTAAAGTTTAA
17310562 CGTATTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (17 bp):
TCATAAGTAAAGTTTAA
Found at i:17318016 original size:31 final size:31
Alignment explanation
Indices: 17317981--17318061 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
17317971 AATATATTTA
17317981 GAAGATGTTGAAACAAGATTCAATAGATTAG
1 GAAGATGTTGAAACAAGATTCAATAGATTAG
* *
17318012 GAAGATGTTGAAGCAAGATTCAATAGATTGG
1 GAAGATGTTGAAACAAGATTCAATAGATTAG
17318043 GAAGATGTTGAAACAAGAT
1 GAAGATGTTGAAACAAGAT
17318062 GAAACGTCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.25
Consensus pattern (31 bp):
GAAGATGTTGAAACAAGATTCAATAGATTAG
Found at i:17346504 original size:12 final size:12
Alignment explanation
Indices: 17346482--17346516 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
17346472 AATATAAATA
17346482 AATAGGTAATAAT
1 AATA-GTAATAAT
17346495 AATAGTAATAAT
1 AATAGTAATAAT
*
17346507 AATAATAATA
1 AATAGTAATA
17346517 GGACTAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:17357863 original size:16 final size:18
Alignment explanation
Indices: 17357825--17357867 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
17357815 TTGGTGGACA
*
17357825 ATTTTTTGATTTTGTAAT
1 ATTTTTTGATTTTGAAAT
*
17357843 -TTTTTTTATTTT-AAAT
1 ATTTTTTGATTTTGAAAT
17357859 ATTTTTTGA
1 ATTTTTTGA
17357868 GAACAAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
ATTTTTTGATTTTGAAAT
Found at i:17358909 original size:12 final size:13
Alignment explanation
Indices: 17358892--17358920 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17358882 TTGTAAACCA
17358892 TTTTATTT-TTTT
1 TTTTATTTATTTT
17358904 TTTTATTTATTTT
1 TTTTATTTATTTT
17358917 TTTT
1 TTTT
17358921 TTTCGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTATTTATTTT
Found at i:17358914 original size:16 final size:16
Alignment explanation
Indices: 17358893--17358923 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17358883 TGTAAACCAT
17358893 TTTATTTTTTTTTTTA
1 TTTATTTTTTTTTTTA
17358909 TTTATTTTTTTTTTT
1 TTTATTTTTTTTTTT
17358924 CGTTTTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (16 bp):
TTTATTTTTTTTTTTA
Found at i:17361038 original size:32 final size:31
Alignment explanation
Indices: 17360926--17361049 Score: 116
Period size: 32 Copynumber: 4.1 Consensus size: 31
17360916 TTGATACTTG
*
17360926 AACTTGACAATTTTTCCTAA-TTGGTACCTA
1 AACTTGACACTTTTTCCTAATTTGGTACCTA
**
17360956 AAC-T-A-TTTTTTGGTCC-AATTTGGTATCC-A
1 AACTTGACACTTTT--TCCTAATTTGGTA-CCTA
17360985 AACTTGACACTTTTTCCTAATTTGGTACCTA
1 AACTTGACACTTTTTCCTAATTTGGTACCTA
* * *
17361016 AACTTGACATTTTTTTCTTAATTTGGTACTTA
1 AACTTGACA-CTTTTTCCTAATTTGGTACCTA
17361048 AA
1 AA
17361050 ATTTTTAGGG
Statistics
Matches: 77, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
27 4 0.05
28 3 0.04
29 14 0.18
30 11 0.14
31 20 0.26
32 25 0.32
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.44
Consensus pattern (31 bp):
AACTTGACACTTTTTCCTAATTTGGTACCTA
Found at i:17361090 original size:92 final size:88
Alignment explanation
Indices: 17360926--17361107 Score: 215
Period size: 91 Copynumber: 2.0 Consensus size: 88
17360916 TTGATACTTG
* **
17360926 AACTTGACAATTTTTCCTAATTGGTACCTAAACTATTTTTTGGTCCAATTTGGTATCCAAACTTG
1 AACTTGACAATTTTTCCTAATTGGTACCTAAAC-ATTTTTGGGTCCAATTTGGTATCCAAACACG
17360991 ACACTTTTTCCTAATTTGGTACCTA
65 ACAC-TTTTCCTAATTTGGTACCTA
* * * *
17361016 AACTTGACATTTTTTTCTTAATTTGGTACTTAAA-ATTTTTAGGGGTCCAATTTGGTA-CCTGAA
1 AACTTGACA-ATTTTTCCTAA-TTGGTACCTAAACATTTTT--GGGTCCAATTTGGTATCC-AAA
*
17361079 CACGACTCTTTTCCTAATTTGGTACCTA
61 CACGACACTTTTCCTAATTTGGTACCTA
17361107 A
1 A
17361108 TCTTTTTTCT
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
90 15 0.19
91 32 0.41
92 32 0.41
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (88 bp):
AACTTGACAATTTTTCCTAATTGGTACCTAAACATTTTTGGGTCCAATTTGGTATCCAAACACGA
CACTTTTCCTAATTTGGTACCTA
Found at i:17361287 original size:21 final size:22
Alignment explanation
Indices: 17361258--17361299 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
17361248 TATATGTTCA
*
17361258 ATTACTTTAGTT-TTAATTAAT
1 ATTAATTTAGTTATTAATTAAT
17361279 ATTAATTTAGTTATTAATTAA
1 ATTAATTTAGTTATTAATTAA
17361300 AATATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTAATTTAGTTATTAATTAAT
Found at i:17361603 original size:61 final size:62
Alignment explanation
Indices: 17361493--17361689 Score: 211
Period size: 62 Copynumber: 3.2 Consensus size: 62
17361483 TAATAAATTT
* ** * * * *
17361493 AGGTACCAAATTGAACCT-AAAAAAAGGATATGTGTCAAATTAGGGAAAAAATGCCAAGTTC
1 AGGTACCAAATTGAGCCTAAAAAAAAGTTTAGGTATCAAATTAGGAAAAAAATGTCAAGTTC
* * *
17361554 AAGTACCAAATTGAGCCTAAAAAAAAGTTTAGGTATCAAATTA-GAAAAAAGTGTAAAGTTC
1 AGGTACCAAATTGAGCCTAAAAAAAAGTTTAGGTATCAAATTAGGAAAAAAATGTCAAGTTC
* * * * *
17361615 AGGTAACACAGATTGGGCC-AAAAAAGAGTTTAGGTACCAAATTAGGAAAAAAAGTGTCAAGTTT
1 AGGT-AC-CAAATTGAGCCTAAAAAAAAGTTTAGGTATCAAATTAGGAAAAAAA-TGTCAAGTTC
17361679 AGGTACCAAAT
1 AGGTACCAAAT
17361690 GTTATATAAA
Statistics
Matches: 112, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
61 33 0.29
62 49 0.44
63 18 0.16
64 12 0.11
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (62 bp):
AGGTACCAAATTGAGCCTAAAAAAAAGTTTAGGTATCAAATTAGGAAAAAAATGTCAAGTTC
Found at i:17361767 original size:19 final size:20
Alignment explanation
Indices: 17361737--17361782 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
17361727 CTTTCAACAA
* *
17361737 AAAAAATACAAATTATTTTT
1 AAAAAATACAAAATATTTAT
17361757 AAAAAAT-CAAAATATTTAT
1 AAAAAATACAAAATATTTAT
17361776 AAAAAAT
1 AAAAAAT
17361783 TCCAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATACAAAATATTTAT
Found at i:17361789 original size:20 final size:19
Alignment explanation
Indices: 17361737--17361789 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
17361727 CTTTCAACAA
* *
17361737 AAAAAATACAAATTATTTTT
1 AAAAAATCCAAA-TATTTAT
*
17361757 AAAAAATCAAAATATTTAT
1 AAAAAATCCAAATATTTAT
17361776 AAAAAATTCCAAAT
1 AAAAAA-TCCAAAT
17361790 TTTCATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAAATCCAAATATTTAT
Found at i:17361818 original size:8 final size:8
Alignment explanation
Indices: 17361805--17361851 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
17361795 TATATATTTT
17361805 TAAAAATA
1 TAAAAATA
17361813 TAAAAAT-
1 TAAAAATA
*
17361820 TAAAAATTC
1 TAAAAA-TA
*
17361829 TAAAAAAA
1 TAAAAATA
17361837 TAAAAATCA
1 TAAAAAT-A
17361846 TAAAAA
1 TAAAAA
17361852 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
7 6 0.18
8 14 0.42
9 13 0.39
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (8 bp):
TAAAAATA
Found at i:17361853 original size:16 final size:16
Alignment explanation
Indices: 17361805--17361853 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
17361795 TATATATTTT
*
17361805 TAAAAAT-ATAAAAAT
1 TAAAAATCATAAAAAA
17361820 TAAAAATTC-TAAAAAAA
1 TAAAAA-TCAT-AAAAAA
17361837 TAAAAATCATAAAAAA
1 TAAAAATCATAAAAAA
17361853 T
1 T
17361854 TTTAAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 6 0.21
16 11 0.38
17 12 0.41
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAATCATAAAAAA
Found at i:17366666 original size:15 final size:17
Alignment explanation
Indices: 17366646--17366677 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
17366636 TTAGTTTTTT
17366646 TCATAA-TAAA-TTTAA
1 TCATAAGTAAAGTTTAA
17366661 TCATAAGTAAAGTTTAA
1 TCATAAGTAAAGTTTAA
17366678 CGTATTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (17 bp):
TCATAAGTAAAGTTTAA
Found at i:17373782 original size:31 final size:31
Alignment explanation
Indices: 17373747--17373827 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
17373737 AATATATTTA
17373747 GAAGATGTTGAAACAAGATTCAATAGATTAG
1 GAAGATGTTGAAACAAGATTCAATAGATTAG
* *
17373778 GAAGATGTTGAAGCAAGATTCAATAGATTGG
1 GAAGATGTTGAAACAAGATTCAATAGATTAG
17373809 GAAGATGTTGAAACAAGAT
1 GAAGATGTTGAAACAAGAT
17373828 GAAAACGTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.25
Consensus pattern (31 bp):
GAAGATGTTGAAACAAGATTCAATAGATTAG
Found at i:17378418 original size:19 final size:19
Alignment explanation
Indices: 17378394--17378439 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
17378384 AATAGTCAAA
* *
17378394 TTAAAAATTTTGTTTATCT
1 TTAAAAACTTAGTTTATCT
*
17378413 TTAAAAGACTTAGTTTATTT
1 TTAAAA-ACTTAGTTTATCT
17378433 TTAAAAA
1 TTAAAAA
17378440 ACGACTATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (19 bp):
TTAAAAACTTAGTTTATCT
Found at i:17385089 original size:28 final size:30
Alignment explanation
Indices: 17385058--17385113 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17385048 GAATTTAGTC
*
17385058 ATTATAC-TTT-AATTTAGTCAATTTTAAT
1 ATTATACTTTTCAAATTAGTCAATTTTAAT
17385086 ATTATACTTTTCAAATTAGTCAATTTTA
1 ATTATACTTTTCAAATTAGTCAATTTTA
17385114 GTCTTGTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 7 0.28
29 3 0.12
30 15 0.60
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.52
Consensus pattern (30 bp):
ATTATACTTTTCAAATTAGTCAATTTTAAT
Found at i:17392748 original size:27 final size:25
Alignment explanation
Indices: 17392715--17392774 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
17392705 TTTTTTTCAG
*
17392715 TTATAATTATTTTATATATTAATATAAT
1 TTATAATTAGTTTATA-ATT--TATAAT
*
17392743 TT-TAATAAGTTTATAATTTATAAT
1 TTATAATTAGTTTATAATTTATAAT
17392767 TTATAATT
1 TTATAATT
17392775 TATATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 8 0.29
25 4 0.14
26 3 0.11
27 11 0.39
28 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTATAATTAGTTTATAATTTATAAT
Found at i:17392764 original size:7 final size:7
Alignment explanation
Indices: 17392737--17392789 Score: 63
Period size: 7 Copynumber: 7.3 Consensus size: 7
17392727 TATATATTAA
17392737 TATAATTT
1 TATAA-TT
17392745 TAATAAGTT
1 T-ATAA-TT
17392754 TATAATT
1 TATAATT
17392761 TATAATT
1 TATAATT
17392768 TATAATT
1 TATAATT
17392775 TAT-ATT
1 TATAATT
*
17392781 AATAATT
1 TATAATT
17392788 TA
1 TA
17392790 AATATATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
6 5 0.12
7 23 0.57
8 5 0.12
9 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (7 bp):
TATAATT
Found at i:17392787 original size:20 final size:22
Alignment explanation
Indices: 17392738--17392789 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
17392728 ATATATTAAT
*
17392738 ATAATTTTAATAAGTTTATAATTT
1 ATAA-TTT-ATAAGTTTATAATTA
17392762 ATAATTTATAA-TTTAT-ATTA
1 ATAATTTATAAGTTTATAATTA
17392782 ATAATTTA
1 ATAATTTA
17392790 AATATATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 11 0.41
21 5 0.19
22 4 0.15
23 3 0.11
24 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
ATAATTTATAAGTTTATAATTA
Found at i:17393252 original size:25 final size:26
Alignment explanation
Indices: 17393203--17393255 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
17393193 CATTAAATAG
* * *
17393203 TAATAGAATGTTGATTGTGTATTTCT
1 TAATAGAATGTTCAATGTGCATTTCT
17393229 TAATAGAATG-TCAATGTGCATTTCT
1 TAATAGAATGTTCAATGTGCATTTCT
17393254 TA
1 TA
17393256 TTTTAGTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (26 bp):
TAATAGAATGTTCAATGTGCATTTCT
Found at i:17400395 original size:58 final size:60
Alignment explanation
Indices: 17400330--17400445 Score: 157
Period size: 61 Copynumber: 1.9 Consensus size: 60
17400320 ATCAATTTAA
* * *
17400330 TATTAAATTAATATAATACTTA-T-CAAGATAAATATTAGAA-CAAATTTAATATTAAATC
1 TATTAAATTAACAGAACACTTACTGCAAGATAAATATTA-AATCAAATTTAATATTAAATC
*
17400388 TATTAAATTAACAGAACACTTATCTGCAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAATTAACAGAACACTTA-CTGCAAGATAAATATTAAATCAAATTTAATATTAA
17400446 GATAATCACT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
58 19 0.38
60 3 0.06
61 28 0.56
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (60 bp):
TATTAAATTAACAGAACACTTACTGCAAGATAAATATTAAATCAAATTTAATATTAAATC
Found at i:17407713 original size:30 final size:30
Alignment explanation
Indices: 17407679--17407740 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
17407669 CTTAATAAGG
17407679 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
17407709 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
17407739 AA
1 AA
17407741 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:17407795 original size:22 final size:22
Alignment explanation
Indices: 17407770--17407812 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17407760 TATTCAAACA
17407770 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
17407792 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
17407813 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:17413062 original size:43 final size:43
Alignment explanation
Indices: 17413005--17413094 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
17412995 GTTTGCAGCG
* * * *
17413005 TTTTTTTATAAATGCCGTTAAAGAACATGTTATTTAGCGGCGT
1 TTTTTTTACAAATGCCGCTAAAGAACATATTATTTAGCGGCGC
* *
17413048 TTTTTTTACAAATGCCGCTAAAGAACATATTCTTTAGTGGCGC
1 TTTTTTTACAAATGCCGCTAAAGAACATATTATTTAGCGGCGC
17413091 TTTT
1 TTTT
17413095 ATACAAAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (43 bp):
TTTTTTTACAAATGCCGCTAAAGAACATATTATTTAGCGGCGC
Found at i:17413178 original size:14 final size:14
Alignment explanation
Indices: 17413159--17413192 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
17413149 GCCCTCCTGT
17413159 AGCAACAATTCAAA
1 AGCAACAATTCAAA
17413173 AGCAACAATTCAAA
1 AGCAACAATTCAAA
17413187 AGCAAC
1 AGCAAC
17413193 CAATAGCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.24, G:0.09, T:0.12
Consensus pattern (14 bp):
AGCAACAATTCAAA
Found at i:17413435 original size:21 final size:21
Alignment explanation
Indices: 17413409--17413466 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
17413399 TTTTGCTCTG
*
17413409 CTCCGCTTCTCTCGCTGCAGC
1 CTCCGCTTCCCTCGCTGCAGC
*
17413430 CTCCGCTTCCCTCGCTGTAGC
1 CTCCGCTTCCCTCGCTGCAGC
* *
17413451 CGCTGCTTCCCTCGCT
1 CTCCGCTTCCCTCGCT
17413467 TCCGCCTCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.03, C:0.48, G:0.19, T:0.29
Consensus pattern (21 bp):
CTCCGCTTCCCTCGCTGCAGC
Found at i:17413477 original size:21 final size:21
Alignment explanation
Indices: 17413413--17413479 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
17413403 GCTCTGCTCC
* * *
17413413 GCTTCTCTCGCTGCAGCCTCC
1 GCTTCCCTCGCTTCAGCCTCT
*
17413434 GCTTCCCTCGCTGT-AGCCGCT
1 GCTTCCCTCGCT-TCAGCCTCT
*
17413455 GCTTCCCTCGCTTCCGCCTCT
1 GCTTCCCTCGCTTCAGCCTCT
17413476 GCTT
1 GCTT
17413480 TAAGTTGTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 1 0.03
21 37 0.97
ACGTcount: A:0.03, C:0.46, G:0.19, T:0.31
Consensus pattern (21 bp):
GCTTCCCTCGCTTCAGCCTCT
Found at i:17416109 original size:25 final size:25
Alignment explanation
Indices: 17416078--17416158 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
17416068 TGATATACAT
*
17416078 TTATGTATTAAGTAAATTATATAAG
1 TTATGTATTAAGTAAGTTATATAAG
17416103 TTATGTACGTGT-A-TAAGTTA-AGTAAG
1 TTATGTA--T-TAAGTAAGTTATA-TAAG
*
17416129 TTATGTATTAAGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATATAAG
17416154 TTATG
1 TTATG
17416159 AAAGTAATGT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 24 0.51
26 17 0.36
27 2 0.04
28 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATATAAG
Found at i:17416158 original size:9 final size:9
Alignment explanation
Indices: 17416089--17416483 Score: 181
Period size: 9 Copynumber: 45.4 Consensus size: 9
17416079 TATGTATTAA
*
17416089 GTAAATTAT
1 GTAAGTTAT
*
17416098 ATAAGTTAT
1 GTAAGTTAT
*
17416107 GTACGTGTA-
1 GTAAGT-TAT
*
17416116 -TAAGTTAA
1 GTAAGTTAT
17416124 GTAAGTTAT
1 GTAAGTTAT
*
17416133 GT-A-TTAA
1 GTAAGTTAT
17416140 GTAAGTTAT
1 GTAAGTTAT
17416149 GTAAGTTAT
1 GTAAGTTAT
* *
17416158 GAAAGTAAT
1 GTAAGTTAT
* *
17416167 GTATGTAAT
1 GTAAGTTAT
17416176 GTAAG-T-T
1 GTAAGTTAT
17416183 GTAAGTTAT
1 GTAAGTTAT
*
17416192 -TATGTATTAT
1 GTAAG--TTAT
17416202 GTAAGTTAT
1 GTAAGTTAT
17416211 GTAAGTTAT
1 GTAAGTTAT
17416220 GTAAGTTAAAT
1 GTAAGTT--AT
17416231 GT-A-TTAT
1 GTAAGTTAT
*
17416238 TTAAG-T-T
1 GTAAGTTAT
17416245 GTAAGTTAAAT
1 GTAAGTT--AT
17416256 GT-A-TTAT
1 GTAAGTTAT
17416263 GTAAG-T-T
1 GTAAGTTAT
17416270 GTAAGTTAAAT
1 GTAAGTT--AT
17416281 GT-A-TTAT
1 GTAAGTTAT
17416288 GTAAG-T-T
1 GTAAGTTAT
17416295 GTAAGTTAAGT
1 GTAAGTT-A-T
17416306 GT-A-TTAT
1 GTAAGTTAT
17416313 GTAAG-T-T
1 GTAAGTTAT
17416320 GTAAGTTAT
1 GTAAGTTAT
*
17416329 -TATGTATTAT
1 GTAAG--TTAT
17416339 GTAAG-T-T
1 GTAAGTTAT
17416346 GTAAGTTAAAT
1 GTAAGTT--AT
*
17416357 GT-A-TTGT
1 GTAAGTTAT
17416364 GTAAG-T-T
1 GTAAGTTAT
17416371 GTAAGTTAT
1 GTAAGTTAT
*
17416380 -TATGTATTAT
1 GTAAG--TTAT
17416390 GTAAGTTAT
1 GTAAGTTAT
17416399 GTAAGTTAAAT
1 GTAAGTT--AT
17416410 GT-A-TTAT
1 GTAAGTTAT
*
17416417 GTAGGTTAT
1 GTAAGTTAT
*
17416426 GTAAGTTGT
1 GTAAGTTAT
**
17416435 GTAAGAGAT
1 GTAAGTTAT
*
17416444 TTAAGTTAT
1 GTAAGTTAT
*
17416453 GTAGGTTAT
1 GTAAGTTAT
* *
17416462 TTAGGTTAT
1 GTAAGTTAT
*
17416471 GTAAGTTTT
1 GTAAGTTAT
17416480 GTAA
1 GTAA
17416484 TGTGCAAGTG
Statistics
Matches: 296, Mismatches: 38, Indels: 104
0.68 0.09 0.24
Matches are distributed among these distances:
7 69 0.23
8 34 0.11
9 144 0.49
10 20 0.07
11 29 0.10
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:17416171 original size:22 final size:24
Alignment explanation
Indices: 17416078--17416222 Score: 82
Period size: 25 Copynumber: 6.3 Consensus size: 24
17416068 TGATATACAT
* *
17416078 TTATGTATTAAGTAAATTATATAAG
1 TTATGTA-TAAGTAAGTTATGTAAG
* *
17416103 TTATGTACGTGTA-TAAGTTAAGTAAG
1 TTATGTA--T-AAGTAAGTTATGTAAG
17416129 TTATGTATTAAGTAAGTTATGTAAG
1 TTATGTA-TAAGTAAGTTATGTAAG
17416154 TTATG-A-AAGTAA-TGTATGTAA-
1 TTATGTATAAGTAAGT-TATGTAAG
* *
17416175 TGTAAGT-T--GTAAGTTAT-TATG
1 T-TATGTATAAGTAAGTTATGTAAG
17416196 -TAT-TAT--GTAAGTTATGTAAG
1 TTATGTATAAGTAAGTTATGTAAG
17416216 TTATGTA
1 TTATGTA
17416223 AGTTAAATGT
Statistics
Matches: 95, Mismatches: 12, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
18 1 0.01
19 12 0.13
20 5 0.05
21 12 0.13
22 19 0.20
24 2 0.02
25 25 0.26
26 18 0.19
27 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (24 bp):
TTATGTATAAGTAAGTTATGTAAG
Found at i:17416253 original size:25 final size:25
Alignment explanation
Indices: 17416207--17416419 Score: 327
Period size: 25 Copynumber: 8.3 Consensus size: 25
17416197 ATTATGTAAG
17416207 TTATGTAAGTTATGTAAGTTAAATGTA
1 TTATGTAAG-T-TGTAAGTTAAATGTA
*
17416234 TTATTTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
17416259 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
*
17416284 TTATGTAAGTTGTAAGTTAAGTGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
*
17416309 TTATGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTA
17416335 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
* *
17416360 TTGTGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTA
17416386 TTATGTAAGTTATGTAAGTTAAATGTA
1 TTATGTAAG-T-TGTAAGTTAAATGTA
17416413 TTATGTA
1 TTATGTA
17416420 GGTTATGTAA
Statistics
Matches: 172, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
25 105 0.61
26 37 0.22
27 21 0.12
28 9 0.05
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTGTAAGTTAAATGTA
Found at i:17416353 original size:51 final size:50
Alignment explanation
Indices: 17416207--17416419 Score: 327
Period size: 51 Copynumber: 4.1 Consensus size: 50
17416197 ATTATGTAAG
*
17416207 TTATGTAAGTTATGTAAGTTAAATGTATTATTTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
*
17416259 TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAGTGTA
1 TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
*
17416309 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTA
* *
17416360 TTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTATTATGTAAG-T-TGTAAGTTAAATGTA
17416413 TTATGTA
1 TTATGTA
17416420 GGTTATGTAA
Statistics
Matches: 152, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
50 57 0.38
51 64 0.42
52 10 0.07
53 21 0.14
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (50 bp):
TTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTA
Found at i:17416779 original size:27 final size:27
Alignment explanation
Indices: 17416748--17416802 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
17416738 GTCTTAAGTC
17416748 AATATAGCCA-ATACTTTTTTATATTTT
1 AATAT-GCCACATACTTTTTTATATTTT
* *
17416775 AATATTCCACATATTTTTTTATATTTT
1 AATATGCCACATACTTTTTTATATTTT
17416802 A
1 A
17416803 TTTTATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.55
Consensus pattern (27 bp):
AATATGCCACATACTTTTTTATATTTT
Found at i:17419026 original size:83 final size:83
Alignment explanation
Indices: 17418932--17419098 Score: 280
Period size: 83 Copynumber: 2.0 Consensus size: 83
17418922 AAATCTTACA
* * *
17418932 AATTTCATTTCATGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTGTTTGCGGCGTTTTTTA
1 AATTTCATTTCACGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTATTTGCGGCGTTTGTTA
*
17418997 CAAAAGCGCCACTAAATT
66 CAAAAACGCCACTAAATT
*
17419015 AATTTCATTTCACGAAACGGCTCCGTTTTATTCAATTTTTCAAATATTATTTGCGGCGTTTGTTA
1 AATTTCATTTCACGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTATTTGCGGCGTTTGTTA
*
17419080 CAAAAATGCCACTAAATT
66 CAAAAACGCCACTAAATT
17419098 A
1 A
17419099 TTTATATTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (83 bp):
AATTTCATTTCACGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTATTTGCGGCGTTTGTTA
CAAAAACGCCACTAAATT
Found at i:17419567 original size:39 final size:40
Alignment explanation
Indices: 17419480--17419568 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 40
17419470 CCCAAATTCC
* **
17419480 TAACCCAT-AACCCCTAAATCCCCCTTAACCTTTAAAGCA
1 TAACCCCTAAACCCCTAAATCCCCCTTAACCCCTAAAGCA
** *
17419519 TAAATCCTAAACCCCTAAATCTCCC-TAACCCCTAAAGCA
1 TAACCCCTAAACCCCTAAATCCCCCTTAACCCCTAAAGCA
17419558 TAACCCCTAAA
1 TAACCCCTAAA
17419569 TAATTTTATT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 26 0.63
40 15 0.37
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.21
Consensus pattern (40 bp):
TAACCCCTAAACCCCTAAATCCCCCTTAACCCCTAAAGCA
Found at i:17420503 original size:15 final size:16
Alignment explanation
Indices: 17420478--17420509 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
17420468 TTAAATAATA
17420478 TAAACTATATTAAATT
1 TAAACTATATTAAATT
17420494 TAAA-TATATTAAATT
1 TAAACTATATTAAATT
17420509 T
1 T
17420510 CTTATTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAACTATATTAAATT
Found at i:17420633 original size:8 final size:8
Alignment explanation
Indices: 17420596--17420637 Score: 54
Period size: 7 Copynumber: 5.6 Consensus size: 8
17420586 CGTTCAAACT
17420596 CTAAACCC
1 CTAAACCC
*
17420604 C-AAATCC
1 CTAAACCC
17420611 CT-AACCC
1 CTAAACCC
17420618 CT-AACCC
1 CTAAACCC
17420625 CTAAACCC
1 CTAAACCC
17420633 CTAAA
1 CTAAA
17420638 TCCATAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 19 0.63
8 11 0.37
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (8 bp):
CTAAACCC
Found at i:17421311 original size:227 final size:224
Alignment explanation
Indices: 17420899--17421342 Score: 569
Period size: 228 Copynumber: 2.0 Consensus size: 224
17420889 TTTAAATCCC
** *
17420899 TGAGCATTAGCGGCACTTTTTTAAAAACGCCACTAAAACCCCTAAAGCTAAGAAAACGACGTCGT
1 TGAGCATTAGCGGCACTTTCATAAAAACGCCACTAAAACCCCGAAAGCTAAGAAAACGACGTCGT
17420964 TAGGCTTAGGTTTTTAGCGGCGCTTTTACAAAAAACGCCGCTAAAAACCTGAGCATTAGCGGCGC
66 TAGGCTTAGGTTTTTAGCGGCGCTTTT--AAAAAACGCCGCTAAAAACCTGAGCATTAGCGGCGC
* * * * *
17421029 TTTATATAAAGCGCCACTAAATCCCTGAAAGCTGGCGAGACGACGTCGTTGCGCTAGATTTTTTT
129 TTTATATAAAACGCCACTAAATCCC-GAAAGCTCGCGAAACGACGTCATTGCGCTAG-GTTTTTT
17421094 GCGGCGCTTTCCC-AGAAACGCCGCTAAAAGACA
192 GCGGCGCTTTCCCGA-AAACGCCGCTAAAAGACA
* * * * *
17421127 TGAGCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC-AGCGTTG
1 TGAGCATTAGCGGCACTTTCATAAAAACGCCACTAAAACCCCGAAAGCTAAGAAAACGA-CGTCG
17421191 TT-GGCCTTAGGTTTTTAGCGGCGCTTCCTT-AAAAACGCCGCTAAAAACCTGAGCATTAGCGGC
65 TTAGG-CTTAGGTTTTTAGCGGCGCTT--TTAAAAAACGCCGCTAAAAACCTGAGCATTAGCGGC
* ** *
17421254 GC-TTACT-TAAAAACGCCGCTAAATCACC-AAATGCTCTTGAAACGGCGTCATTGCGCTAGGTT
127 GCTTTA-TAT-AAAACGCCACTAAATC-CCGAAA-GCTCGCGAAACGACGTCATTGCGCTAGGTT
17421316 TTTTGCGGCGCTTTCCCGAAAACGCCG
188 TTTTGCGGCGCTTTCCCGAAAACGCCG
17421343 GTAATGTTTA
Statistics
Matches: 190, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
226 34 0.18
227 75 0.39
228 79 0.42
230 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (224 bp):
TGAGCATTAGCGGCACTTTCATAAAAACGCCACTAAAACCCCGAAAGCTAAGAAAACGACGTCGT
TAGGCTTAGGTTTTTAGCGGCGCTTTTAAAAAACGCCGCTAAAAACCTGAGCATTAGCGGCGCTT
TATATAAAACGCCACTAAATCCCGAAAGCTCGCGAAACGACGTCATTGCGCTAGGTTTTTTGCGG
CGCTTTCCCGAAAACGCCGCTAAAAGACA
Found at i:17421319 original size:113 final size:109
Alignment explanation
Indices: 17420897--17421328 Score: 385
Period size: 114 Copynumber: 3.8 Consensus size: 109
17420887 ATTTTAAATC
* * * * * * *
17420897 CCTGAGCATTAGCGGCACTTTTTTAAAAACGCCACTAAAACCCCTAAAGCTAAGAAAACGACGTC
1 CCTGAGCATTAGCGGCGC-TTCTTAAAAACGCCGCT-AAATCCCGAAAGCTCAG-AAACGGCGTC
17420962 GTTAG-GCTTAGGTTTTTAGCGGCGCTT--TTACAAAAAACGCCGCTAAAAA
63 GTT-GCGC-TAGGTTTTTAGCGGCGCTTCCTT---AAAAACGCCGCTAAAAA
* * * *
17421011 CCTGAGCATTAGCGGCGCTT-TATATAAAGCGCCACTAAATCCCTGAAAGCTGGC-GAGACGACG
1 CCTGAGCATTAGCGGCGCTTCT-TA-AAAACGCCGCTAAATCCC-GAAAGCT--CAGAAACGGCG
* * * *
17421074 TCGTTGCGCTAGATTTTTTTGCGGCGCTTTCC-CAGAAACGCCGCTAAAAGA
61 TCGTTGCGCTAG-GTTTTTAGCGGCGC-TTCCTTAAAAACGCCGCTAAAA-A
* * * *
17421125 CATGAGCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTT
1 CCTGAGCATTAGCGGCGC-TTCTTAAAAACGCCGCTAAAT-CCCGAAAGCTCAG-AAACGGCGTC
17421190 GTTG-GCCTTAGGTTTTTAGCGGCGCTTCCTTAAAAACGCCGCTAAAAA
63 GTTGCG-C-TAGGTTTTTAGCGGCGCTTCCTTAAAAACGCCGCTAAAAA
*
17421238 CCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCACC-AAATGCTCTTGAAACGGCGT
1 CCTGAGCATTAGCGGCGCTT-CTTAAAAACGCCGCTAAATC-CCGAAA-GCTC-AGAAACGGCGT
* *
17421302 CATTGCGCTAGGTTTTTTGCGGCGCTT
62 CGTTGCGCTAGGTTTTTAGCGGCGCTT
17421329 TCCCGAAAAC
Statistics
Matches: 265, Mismatches: 29, Indels: 50
0.77 0.08 0.15
Matches are distributed among these distances:
112 26 0.10
113 89 0.34
114 137 0.52
115 13 0.05
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (109 bp):
CCTGAGCATTAGCGGCGCTTCTTAAAAACGCCGCTAAATCCCGAAAGCTCAGAAACGGCGTCGTT
GCGCTAGGTTTTTAGCGGCGCTTCCTTAAAAACGCCGCTAAAAA
Found at i:17426372 original size:42 final size:42
Alignment explanation
Indices: 17426326--17426408 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
17426316 AAGGAGACGG
* * * *
17426326 AGTATAACGAGGTTGAACTGAAGAGGAAGATGCCACAGGAGA
1 AGTATAACGAGGTGGAACTGAAAAAGAAGATACCACAGGAGA
*
17426368 AGTATAACGAGGTGGAGCTGAAAAAGAAGATACCACAGGAG
1 AGTATAACGAGGTGGAACTGAAAAAGAAGATACCACAGGAG
17426409 GAGTGCTGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.42, C:0.12, G:0.33, T:0.13
Consensus pattern (42 bp):
AGTATAACGAGGTGGAACTGAAAAAGAAGATACCACAGGAGA
Found at i:17428191 original size:17 final size:17
Alignment explanation
Indices: 17428169--17428208 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
17428159 ATCGTATATT
* *
17428169 ATTATTTTAGGTTTATC
1 ATTATTTTAAGTGTATC
17428186 ATTATTTTAAGTGTATC
1 ATTATTTTAAGTGTATC
17428203 ATTATT
1 ATTATT
17428209 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (17 bp):
ATTATTTTAAGTGTATC
Found at i:17428263 original size:24 final size:23
Alignment explanation
Indices: 17428181--17428293 Score: 127
Period size: 23 Copynumber: 4.8 Consensus size: 23
17428171 TATTTTAGGT
* * *
17428181 TTATCATTATTTTAAGTGTATCA
1 TTATTATTATTTTAAATTTATCA
*
17428204 TTATTATTATTTTAAATTTATCC
1 TTATTATTATTTTAAATTTATCA
* *
17428227 TTAATATTATTTTAAATTTATTA
1 TTATTATTATTTTAAATTTATCA
* *
17428250 TGTATTATTATTTTGAACTTATCA
1 T-TATTATTATTTTAAATTTATCA
17428274 TCTATTATTATTTGTAAATT
1 T-TATTATTATTT-TAAATT
17428294 CAATATAATT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
23 40 0.54
24 30 0.41
25 4 0.05
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTATTATTTTAAATTTATCA
Found at i:17428794 original size:7 final size:7
Alignment explanation
Indices: 17428782--17428808 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17428772 TCTAACTCTA
17428782 TTTTATT
1 TTTTATT
17428789 TTTTATT
1 TTTTATT
17428796 TTTTATT
1 TTTTATT
17428803 TTTTAT
1 TTTTAT
17428809 CTATTCCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:17434645 original size:18 final size:18
Alignment explanation
Indices: 17434585--17434646 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
17434575 TAGGAGAAGA
17434585 AATAGAAGAGAATAAAGGG
1 AATAGAAGAGAATAAA-GG
* * *
17434604 ATACAGCAGAGAAATCAA--
1 A-ATAGAAGAG-AATAAAGG
17434622 AATAGAAGAGAATAAAGG
1 AATAGAAGAGAATAAAGG
17434640 AATAGAA
1 AATAGAA
17434647 CAGAGAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 8 0.24
19 1 0.03
20 7 0.21
21 5 0.15
ACGTcount: A:0.60, C:0.05, G:0.24, T:0.11
Consensus pattern (18 bp):
AATAGAAGAGAATAAAGG
Found at i:17434653 original size:20 final size:20
Alignment explanation
Indices: 17434591--17434654 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
17434581 AAGAAATAGA
* * *
17434591 AGAGAATAAAGGGATACAGC
1 AGAGAATAAAGGAATAGAAC
*
17434611 AGAGAAATCAA--AATAG-A-
1 AGAG-AATAAAGGAATAGAAC
17434628 AGAGAATAAAGGAATAGAAC
1 AGAGAATAAAGGAATAGAAC
17434648 AGAGAAT
1 AGAGAAT
17434655 TTGATCTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
16 5 0.15
17 4 0.12
18 5 0.15
19 4 0.12
20 11 0.32
21 5 0.15
ACGTcount: A:0.58, C:0.06, G:0.25, T:0.11
Consensus pattern (20 bp):
AGAGAATAAAGGAATAGAAC
Found at i:17436772 original size:16 final size:16
Alignment explanation
Indices: 17436743--17436790 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
17436733 CGTTTGATTC
* *
17436743 GCTGTAACGGAATAGA
1 GCTGTAATGAAATAGA
*
17436759 GGTGTAATGAAATAGA
1 GCTGTAATGAAATAGA
*
17436775 GCTGTAATGGAATAGA
1 GCTGTAATGAAATAGA
17436791 TGCGTAATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.40, C:0.06, G:0.31, T:0.23
Consensus pattern (16 bp):
GCTGTAATGAAATAGA
Found at i:17436797 original size:16 final size:15
Alignment explanation
Indices: 17436746--17436798 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
17436736 TTGATTCGCT
* *
17436746 GTAACGGAATAGAGGT
1 GTAATGGAATAGA-GC
*
17436762 GTAATGAAATAGAGC
1 GTAATGGAATAGAGC
17436777 TGTAATGGAATAGATGC
1 -GTAATGGAATAGA-GC
17436794 GTAAT
1 GTAAT
17436799 AGTAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 1 0.03
16 28 0.90
17 2 0.06
ACGTcount: A:0.40, C:0.06, G:0.30, T:0.25
Consensus pattern (15 bp):
GTAATGGAATAGAGC
Found at i:17437141 original size:120 final size:118
Alignment explanation
Indices: 17437004--17437242 Score: 433
Period size: 120 Copynumber: 2.0 Consensus size: 118
17436994 TTAATCATAT
* *
17437004 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATA-T
17437069 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
17437124 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATATA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATATA
*
17437189 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAA
17437242 T
1 T
17437243 ATATCTACTT
Statistics
Matches: 116, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
118 5 0.04
119 50 0.43
120 61 0.53
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (118 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATATA
AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAA
Found at i:17437176 original size:59 final size:60
Alignment explanation
Indices: 17436996--17437178 Score: 194
Period size: 59 Copynumber: 3.0 Consensus size: 60
17436986 TAAATAATTT
* *
17436996 AATCATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
1 AATCATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
* * * * * ** * * *
17437056 AATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCATAATATATAATACT-ATAA
1 AA-TCATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAAAATATATAAT-TTAATAA
17437117 AAT-ATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
1 AATCATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
17437176 AAT
1 AAT
17437179 TCTCAATATA
Statistics
Matches: 94, Mismatches: 22, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
58 3 0.03
59 36 0.38
60 17 0.18
61 35 0.37
62 3 0.03
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.43
Consensus pattern (60 bp):
AATCATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
Found at i:17438699 original size:49 final size:49
Alignment explanation
Indices: 17438627--17438730 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
17438617 AGAAAAAAAC
* * * **
17438627 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAGCACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAAAACTTTATA
17438676 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAAAACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAAAACTTTATA
17438725 AAATTA
1 AAATTA
17438731 TAACATGATG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAAAACTTTATA
Found at i:17440995 original size:16 final size:16
Alignment explanation
Indices: 17440976--17441013 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
17440966 AATACATTGG
17440976 AATATTAAAAATAAAA
1 AATATTAAAAATAAAA
17440992 AATATTAAAAATAAAA
1 AATATTAAAAATAAAA
17441008 AATATT
1 AATATT
17441014 TGTTTAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATATTAAAAATAAAA
Found at i:17442022 original size:12 final size:12
Alignment explanation
Indices: 17442002--17442031 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17441992 GCGATAAAGG
*
17442002 AAACGCTATATT
1 AAACTCTATATT
17442014 AAACTCTATATT
1 AAACTCTATATT
17442026 AAACTC
1 AAACTC
17442032 AGCAAGTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.33
Consensus pattern (12 bp):
AAACTCTATATT
Found at i:17447795 original size:30 final size:31
Alignment explanation
Indices: 17447755--17447845 Score: 130
Period size: 30 Copynumber: 3.0 Consensus size: 31
17447745 TATGTGGCAA
* *
17447755 TACAGGGTATGAATATGTAAATATGAATGAC
1 TACAAGGTATGAATATGCAAATATGAATGAC
* *
17447786 TAC-ATGTATGAATATGCAAATATGAAGGAC
1 TACAAGGTATGAATATGCAAATATGAATGAC
*
17447816 TACAAGGTATGATTATGCAAATATGAATGA
1 TACAAGGTATGAATATGCAAATATGAATGA
17447846 TTGATGCCTA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
30 26 0.50
31 26 0.50
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.29
Consensus pattern (31 bp):
TACAAGGTATGAATATGCAAATATGAATGAC
Found at i:17451475 original size:24 final size:25
Alignment explanation
Indices: 17451428--17451475 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
17451418 TAACTTGATT
* * *
17451428 TGAAATTTTTTCGAGTTGAGTTAAG
1 TGAAATTGTTTCGAGTTAAATTAAG
17451453 TGAAATTGTTT-GAGTTAAATTAA
1 TGAAATTGTTTCGAGTTAAATTAA
17451476 AAATACTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (25 bp):
TGAAATTGTTTCGAGTTAAATTAAG
Found at i:17451758 original size:19 final size:20
Alignment explanation
Indices: 17451734--17451778 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17451724 ATAAATTATA
*
17451734 GAATTTTTATAAA-TATTTT
1 GAATTTTTAAAAATTATTTT
17451753 GAA-TTTTAAAAATTATTTT
1 GAATTTTTAAAAATTATTTT
17451772 -AATTTTT
1 GAATTTTT
17451779 TTGTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
GAATTTTTAAAAATTATTTT
Found at i:17451759 original size:18 final size:18
Alignment explanation
Indices: 17451738--17451777 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17451728 ATTATAGAAT
*
17451738 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTT-AA
17451756 TTTTAAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
17451774 TTTT
1 TTTT
17451778 TTTGTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:17455489 original size:7 final size:7
Alignment explanation
Indices: 17455477--17455501 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17455467 CATCTTTTGC
17455477 ATATATT
1 ATATATT
17455484 ATATATT
1 ATATATT
17455491 ATATATT
1 ATATATT
17455498 ATAT
1 ATAT
17455502 GTACTTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATATATT
Found at i:17457877 original size:11 final size:11
Alignment explanation
Indices: 17457859--17457905 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
17457849 TACACCAATG
17457859 AATAACAAACA
1 AATAACAAACA
*
17457870 ATTAACAAACA
1 AATAACAAACA
17457881 AAT-ACAAACA
1 AATAACAAACA
*
17457891 AGCATAACAACCA
1 A--ATAACAAACA
17457904 AA
1 AA
17457906 ATTTCAATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 8 0.27
11 13 0.43
12 2 0.07
13 7 0.23
ACGTcount: A:0.66, C:0.21, G:0.02, T:0.11
Consensus pattern (11 bp):
AATAACAAACA
Found at i:17465179 original size:24 final size:24
Alignment explanation
Indices: 17465146--17465193 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
17465136 GTGCCTGCAA
*
17465146 CTTTAATGAA-TGTGGTTTTGGTG
1 CTTTAATGAAGTGTGGCTTTGGTG
17465169 CTTTGAATGAAGTGTGGCTTTGGTG
1 CTTT-AATGAAGTGTGGCTTTGGTG
17465194 GTTAATTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 6 0.27
25 12 0.55
ACGTcount: A:0.17, C:0.06, G:0.33, T:0.44
Consensus pattern (24 bp):
CTTTAATGAAGTGTGGCTTTGGTG
Found at i:17470095 original size:14 final size:15
Alignment explanation
Indices: 17470076--17470104 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17470066 TCACGAAACT
17470076 TTCACACAT-ATAAA
1 TTCACACATAATAAA
17470090 TTCACACATAATAAA
1 TTCACACATAATAAA
17470105 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:17490360 original size:41 final size:41
Alignment explanation
Indices: 17490315--17490399 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
17490305 GGAGGATTGT
17490315 ACCTTAACAAAAACCTCTGACAAAGTTCATTCCAAGATGCC
1 ACCTTAACAAAAACCTCTGACAAAGTTCATTCCAAGATGCC
17490356 ACCTTAACAAAAACCTCTGACAAAGTTCATTCCAAGATGCC
1 ACCTTAACAAAAACCTCTGACAAAGTTCATTCCAAGATGCC
17490397 ACC
1 ACC
17490400 GCTCCTGGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.39, C:0.31, G:0.09, T:0.21
Consensus pattern (41 bp):
ACCTTAACAAAAACCTCTGACAAAGTTCATTCCAAGATGCC
Done.