Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 72 of 82
Found at i:26440458 original size:25 final size:23
Alignment explanation
Indices: 26440425--26440479 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 23
26440415 ATATAAATCA
26440425 TATTATAATTTAACTAAATAATAT
1 TATTATAATTTAACTAAATAAT-T
*
26440449 TATTATTAATTTAATTAAATAATT
1 TATTA-TAATTTAACTAAATAATT
26440473 TA-TATAA
1 TATTATAA
26440480 GATTTGCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 3 0.10
23 2 0.07
24 8 0.28
25 16 0.55
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TATTATAATTTAACTAAATAATT
Found at i:26442496 original size:43 final size:43
Alignment explanation
Indices: 26442432--26442514 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
26442422 TCCCTGGCAT
*
26442432 GGAGAGATATGCTTTTGTTAGAAGACGTCTGGATGGAAACCCA
1 GGAGAGATATGCTTTTATTAGAAGACGTCTGGATGGAAACCCA
*
26442475 GGAGAGATATTCTTTTATTAGAAGACGTCTGGATGGAAAC
1 GGAGAGATATGCTTTTATTAGAAGACGTCTGGATGGAAAC
26442515 GCACGCCCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (43 bp):
GGAGAGATATGCTTTTATTAGAAGACGTCTGGATGGAAACCCA
Found at i:26443554 original size:15 final size:16
Alignment explanation
Indices: 26443534--26443565 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
26443524 TCGTTAATAA
26443534 ATAAATT-TAAAAATT
1 ATAAATTATAAAAATT
26443549 ATAAATTATAAAAATT
1 ATAAATTATAAAAATT
26443565 A
1 A
26443566 AATATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAAATTATAAAAATT
Found at i:26468774 original size:28 final size:28
Alignment explanation
Indices: 26468743--26468797 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
26468733 GATAATTCTA
*
26468743 AAACTTTCCCAGCACAAAAGCACTGCAG
1 AAACTTTCCCAGCACAAAAACACTGCAG
* *
26468771 AAACTTTCCTAGCAGAAAAACACTGCA
1 AAACTTTCCCAGCACAAAAACACTGCA
26468798 ACGACTAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.42, C:0.29, G:0.13, T:0.16
Consensus pattern (28 bp):
AAACTTTCCCAGCACAAAAACACTGCAG
Found at i:26470153 original size:12 final size:12
Alignment explanation
Indices: 26470136--26470170 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
26470126 TGTTTGTTAA
*
26470136 AGAGAGGAAGAG
1 AGAGAGAAAGAG
26470148 AGAGAGAAAGAG
1 AGAGAGAAAGAG
*
26470160 AAAGAGAAAGA
1 AGAGAGAAAGA
26470171 AACGAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (12 bp):
AGAGAGAAAGAG
Found at i:26470945 original size:30 final size:29
Alignment explanation
Indices: 26470923--26470983 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
26470913 AATCTAACTT
* *
26470923 TAATTAGTTAA-CAATATTATAATTTAAG
1 TAATTAATTAACCAATATTATAATCTAAG
*
26470951 TAATTAATTAACCAATCATTGTAATCTAA-
1 TAATTAATTAACCAAT-ATTATAATCTAAG
26470980 TAAT
1 TAAT
26470984 ATTATATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 10 0.36
29 8 0.29
30 10 0.36
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (29 bp):
TAATTAATTAACCAATATTATAATCTAAG
Found at i:26472698 original size:13 final size:13
Alignment explanation
Indices: 26472680--26472732 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
26472670 AGATAATTAT
26472680 TTTTTAATATAAA
1 TTTTTAATATAAA
**
26472693 TTTTTAATATATTT
1 TTTTTAATATA-AA
26472707 TTTATTAATATAAA
1 TTT-TTAATATAAA
26472721 TTTTTAA-ATAAA
1 TTTTTAATATAAA
26472733 ATATGTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
12 5 0.15
13 15 0.44
14 6 0.18
15 8 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTTAATATAAA
Found at i:26472704 original size:15 final size:16
Alignment explanation
Indices: 26472684--26472727 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 16
26472674 AATTATTTTT
26472684 TAATATAAATTTTTAA
1 TAATATAAATTTTTAA
*
26472700 T-ATAT---TTTTTAT
1 TAATATAAATTTTTAA
26472712 TAATATAAATTTTTAA
1 TAATATAAATTTTTAA
26472728 ATAAAATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 8
0.69 0.06 0.25
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
15 4 0.18
16 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATATAAATTTTTAA
Found at i:26472734 original size:13 final size:14
Alignment explanation
Indices: 26472678--26472734 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
26472668 AAAGATAATT
*
26472678 ATTTTTTAATATAA
1 ATTTTTAAATATAA
26472692 ATTTTT-AATAT-A
1 ATTTTTAAATATAA
*
26472704 TTTTTTATTAATATAA
1 ATTTTTA--AATATAA
26472720 ATTTTTAAATA-AA
1 ATTTTTAAATATAA
26472733 AT
1 AT
26472735 ATGTTTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 6 0.16
13 9 0.24
14 10 0.27
15 5 0.14
16 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTTAAATATAA
Found at i:26474257 original size:15 final size:14
Alignment explanation
Indices: 26474237--26474273 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
26474227 GTTATATGCA
26474237 TTATAATTAATAATT
1 TTATAATT-ATAATT
26474252 TTATAAGTTATAATT
1 TTATAA-TTATAATT
26474267 TTATAAT
1 TTATAAT
26474274 GTTAACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 18 0.86
16 2 0.10
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (14 bp):
TTATAATTATAATT
Found at i:26474485 original size:338 final size:340
Alignment explanation
Indices: 26473524--26474662 Score: 1270
Period size: 338 Copynumber: 3.3 Consensus size: 340
26473514 TATCTTAAAC
* * *
26473524 ATAATTAATGAA-TTTATAAGTTATAATTTTTGTAATATTAATACAAAATAGAAAGTAAATATGT
1 ATAATTAAT-AATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAGAAAGTAAATATGT
* *
26473588 TTATATTTAAAGTGTATATATACTAAAAGA-ATTTTAATATGTATATATATAATAGTAATTATAT
65 TTATATTTAAAATATATATATACTAAAA-ATA-TTT--TA-G--TATATATAATAGTAATTATAT
* *
26473652 TTCTTATAAATGAACCCAATGTATATAAAGTATATATATATTAAAAGACATTACAAGTTAATTAA
123 TTCTTATAAATGAACACAA--TATATAAA-TATATATATATTAAAAGAAATTACAAGTTAATTAA
* * * * *
26473717 TAATCATAGTTTCATTAATTAATTTAATTAACTATATGGGTTTATCCTTAATTACATGAAATTAA
185 TAATAATAGTTTCATAAATTAATTTAATTAACTATATGAGTTTGTCCTTAATTATATGAAATT-A
* * * ** * * *
26473782 AAAAAATAACTAGGTTTCAAAACTATTTTAATCTCATAACTTCCCTTTAAATTTAAATGTTATAA
249 AAAAAATAACTAAGTTTCAAAACTATTCTAATCTCAAAACTTTTCTTTAAGTTTATATATTATAA
26473847 GTTTATATAAATAAA-TATATATATATAT
314 GTTTATATAAATAAAGT-TATATATAT-T
* * *
26473875 ATTGTAATTAATAAATTTATGAGTTATAATTTTTGTAATGTTAACACAAAATAGAAAGTAAATAT
1 A---TAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAGAAAGTAAATAT
* * * *
26473940 GTTTATATTTAAAGTATATATATATACAAACACACACATTAAAAGTATTTTAATATCTATAATAA
63 GTTTATATTTAAA--ATATATATAT----------AC--TAAAAATATTTTAGTATATATAATAG
* *
26474005 TAATTATATTCCTTATAAATGAATCTA-ATATATATAAAGTATATATATATATATTAAAAGATAT
114 TAATTATATTTCTTATAAATGAA-C-ACA-ATATAT--A--A-ATATATATATATTAAAAGAAAT
* * * **
26474069 TATAAGTTAATTAATAATTATAGTTTCATGAATTAATTTAATTAACTA-AACAGGTTTGTCCTTA
171 TACAAGTTAATTAATAATAATAGTTTCATAAATTAATTTAATTAACTATATGA-GTTTGTCCTTA
* * * * *
26474133 ATTATATAAAATTAAAAAAATAACTAAGTTTTAAAACTATTCTAATCTTACAACTTTTCTTTAGG
235 ATTATATGAAATTAAAAAAATAACTAAGTTTCAAAACTATTCTAATCTCAAAACTTTTCTTTAAG
* **
26474198 TTTATATATTATAAGTTGATATAAATAAAGTTATATGCATT
300 TTTATATATTATAAGTTTATATAAATAAAGTTATATATATT
* *
26474239 ATAATTAATAATTTTATAAGTTATAA-TTTTATAATGTTAACACAAAATAGAAAGCAAATGTGTT
1 ATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAGAAAGTAAATATGTT
26474303 TATATTTAAAATATATATATACTAAAAATATTTTAGTATATATAATAGTAATTATATTTCTTATA
66 TATATTTAAAATATATATATACTAAAAATATTTTAGTATATATAATAGTAATTATATTTCTTATA
* *
26474368 AATTAACACAATATATAAA-CTATATATATTAAAAGAAATTACAAGTTAATTAATAATAATAGTT
131 AATGAACACAATATATAAATATATATATATTAAAAGAAATTACAAGTTAATTAATAATAATAGTT
* ** * **
26474432 TCATAAATTAATTTAATTAACTATATGAATTTGTTGTTAATTTTATGAAATTAAAAAAATATTTA
196 TCATAAATTAATTTAATTAACTATATGAGTTTGTCCTTAATTATATGAAATTAAAAAAATAACTA
* *
26474497 AGTTCCAAAACTATTCTAATCTCAAAAGC-TTTCTTTAAGTATATATATTATAAGTTTATATAAA
261 AGTTTCAAAACTATTCTAATCTCAAAA-CTTTTCTTTAAGTTTATATATTATAAGTTTATATAAA
* * * *
26474561 CAATGCTATGTATATT
325 TAAAGTTATATATATT
* * * *
26474577 ATAATTAATAATTTTATAAGTCATAGTTTTTATAATGTTAACACAAAATAGAAAGTAATTATATT
1 ATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAGAAAGTAAATATGTT
*
26474642 TATA-TCAAAATTATATATATA
66 TATATTTAAAA-TATATATATA
26474663 TATATATAAT
Statistics
Matches: 674, Mismatches: 80, Indels: 80
0.81 0.10 0.10
Matches are distributed among these distances:
338 187 0.28
339 52 0.08
340 1 0.00
342 1 0.00
344 7 0.01
345 2 0.00
346 43 0.06
348 2 0.00
351 1 0.00
353 2 0.00
354 68 0.10
356 8 0.01
358 10 0.01
360 45 0.07
361 23 0.03
362 37 0.05
363 2 0.00
364 4 0.01
365 79 0.12
366 90 0.13
367 4 0.01
368 6 0.01
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (340 bp):
ATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAGAAAGTAAATATGTT
TATATTTAAAATATATATATACTAAAAATATTTTAGTATATATAATAGTAATTATATTTCTTATA
AATGAACACAATATATAAATATATATATATTAAAAGAAATTACAAGTTAATTAATAATAATAGTT
TCATAAATTAATTTAATTAACTATATGAGTTTGTCCTTAATTATATGAAATTAAAAAAATAACTA
AGTTTCAAAACTATTCTAATCTCAAAACTTTTCTTTAAGTTTATATATTATAAGTTTATATAAAT
AAAGTTATATATATT
Found at i:26476822 original size:25 final size:22
Alignment explanation
Indices: 26476770--26476824 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
26476760 AATTTTAATT
*
26476770 TTTTTAAAAAATAAAAATAAAA
1 TTTTTAAAAAAAAAAAATAAAA
26476792 TTTTTAAAATAAAAAAAATATAAA
1 TTTTTAAAA-AAAAAAAATA-AAA
26476816 TATTTTAAA
1 T-TTTTAAA
26476825 TTTTGAGGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 9 0.31
23 9 0.31
24 4 0.14
25 7 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTTTAAAAAAAAAAAATAAAA
Found at i:26477011 original size:2 final size:2
Alignment explanation
Indices: 26477004--26477049 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
26476994 CGACATGTAC
26477004 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26477046 AT AT
1 AT AT
26477050 CTTCTTGTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26495632 original size:20 final size:22
Alignment explanation
Indices: 26495587--26495635 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
26495577 TATAAACATA
26495587 ATATTTAAAAAAACTCTTAAAT
1 ATATTTAAAAAAACTCTTAAAT
*
26495609 -TATTTAAAAATA-T-TTAAAT
1 ATATTTAAAAAAACTCTTAAAT
26495628 ATATTTAA
1 ATATTTAA
26495636 TTTTTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 6 0.24
20 8 0.32
21 11 0.44
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATTTAAAAAAACTCTTAAAT
Found at i:26501858 original size:18 final size:18
Alignment explanation
Indices: 26501837--26501881 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
26501827 GCGGTGGTCT
* *
26501837 AGGTGGTGGTTTTGGTGG
1 AGGTGGAGGTTTAGGTGG
26501855 AGGTGGAGGTTTAGGTGG
1 AGGTGGAGGTTTAGGTGG
*
26501873 AGGAGGAGG
1 AGGTGGAGG
26501882 AATTGGTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.58, T:0.27
Consensus pattern (18 bp):
AGGTGGAGGTTTAGGTGG
Found at i:26501889 original size:18 final size:17
Alignment explanation
Indices: 26501848--26501890 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
26501838 GGTGGTGGTT
* *
26501848 TTGGTGGAGGTGGAGGT
1 TTGGTGGAGGAGGAGGA
26501865 TTAGGTGGAGGAGGAGGAA
1 TT-GGTGGAGGAGGAGG-A
26501884 TTGGTGG
1 TTGGTGG
26501891 TGGTGCTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 18 0.82
19 2 0.09
ACGTcount: A:0.19, C:0.00, G:0.56, T:0.26
Consensus pattern (17 bp):
TTGGTGGAGGAGGAGGA
Found at i:26501917 original size:15 final size:15
Alignment explanation
Indices: 26501897--26501959 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
26501887 GTGGTGGTGC
26501897 TGGTGGAGGTTTTGG
1 TGGTGGAGGTTTTGG
*
26501912 TGGTGGCGG---TGG
1 TGGTGGAGGTTTTGG
** **
26501924 TCTTGGAGGTGGTGG
1 TGGTGGAGGTTTTGG
26501939 TGGTGGAGGTTTTGG
1 TGGTGGAGGTTTTGG
*
26501954 GGGTGG
1 TGGTGG
26501960 CGGTGGTGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
12 9 0.25
15 27 0.75
ACGTcount: A:0.05, C:0.03, G:0.59, T:0.33
Consensus pattern (15 bp):
TGGTGGAGGTTTTGG
Found at i:26501929 original size:18 final size:18
Alignment explanation
Indices: 26501908--26501942 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26501898 GGTGGAGGTT
*
26501908 TTGGTGGTGGCGGTGGTC
1 TTGGAGGTGGCGGTGGTC
*
26501926 TTGGAGGTGGTGGTGGT
1 TTGGAGGTGGCGGTGGT
26501943 GGAGGTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.06, G:0.57, T:0.34
Consensus pattern (18 bp):
TTGGAGGTGGCGGTGGTC
Found at i:26501936 original size:24 final size:24
Alignment explanation
Indices: 26501909--26501986 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
26501899 GTGGAGGTTT
*
26501909 TGGTGGTGGCGGTGGTCTTGGAGG
1 TGGTGGTGGCGGAGGTCTTGGAGG
* * *
26501933 TGGTGGTGGTGGAGGTTTTGGGGG
1 TGGTGGTGGCGGAGGTCTTGGAGG
* * *
26501957 TGGCGGTGGTGGAGGGT-TAGGAGG
1 TGGTGGTGGCGGA-GGTCTTGGAGG
26501981 TGGTGG
1 TGGTGG
26501987 AGGCCTAGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
24 42 0.93
25 3 0.07
ACGTcount: A:0.06, C:0.04, G:0.62, T:0.28
Consensus pattern (24 bp):
TGGTGGTGGCGGAGGTCTTGGAGG
Found at i:26501951 original size:42 final size:42
Alignment explanation
Indices: 26501849--26501966 Score: 146
Period size: 42 Copynumber: 2.8 Consensus size: 42
26501839 GTGGTGGTTT
* * * * * * *
26501849 TGGTGGAGGTGGAGGTTTAGGTGGAGGAGGAGGAATTGGTGG
1 TGGTGGTGGTGGAGGTTTTGGTGGTGGCGGTGGTATTGGAGG
* *
26501891 TGGTGCTGGTGGAGGTTTTGGTGGTGGCGGTGGTCTTGGAGG
1 TGGTGGTGGTGGAGGTTTTGGTGGTGGCGGTGGTATTGGAGG
*
26501933 TGGTGGTGGTGGAGGTTTTGGGGGTGGCGGTGGT
1 TGGTGGTGGTGGAGGTTTTGGTGGTGGCGGTGGT
26501967 GGAGGGTTAG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.09, C:0.03, G:0.58, T:0.30
Consensus pattern (42 bp):
TGGTGGTGGTGGAGGTTTTGGTGGTGGCGGTGGTATTGGAGG
Found at i:26501983 original size:42 final size:41
Alignment explanation
Indices: 26501897--26502031 Score: 157
Period size: 42 Copynumber: 3.2 Consensus size: 41
26501887 GTGGTGGTGC
*
26501897 TGGTGGAGGTTTTGGTGGTGGCGGTGGTCTTGGA-GG-TGGTGG
1 TGGTGGAGGTTTTGGTGGTGGCGGTGG---TGGAGGGTTGGAGG
*
26501939 TGGTGGAGGTTTTGGGGGTGGCGGTGGTGGAGGGTTAGGAGG
1 TGGTGGAGGTTTTGGTGGTGGCGGTGGTGGAGGGTT-GGAGG
** * *
26501981 TGGTGGAGGCCTAGGTGGTGGTGGTGGTGGAGGGTTCGGAGG
1 TGGTGGAGGTTTTGGTGGTGGCGGTGGTGGAGGGTT-GGAGG
26502023 TGGTGGAGG
1 TGGTGGAGG
26502032 CCTAGGTGGT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
39 4 0.05
40 2 0.02
41 1 0.01
42 75 0.91
ACGTcount: A:0.08, C:0.04, G:0.60, T:0.27
Consensus pattern (41 bp):
TGGTGGAGGTTTTGGTGGTGGCGGTGGTGGAGGGTTGGAGG
Found at i:26501984 original size:18 final size:18
Alignment explanation
Indices: 26501961--26502004 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
26501951 TGGGGGTGGC
**
26501961 GGTGGTGGAGGGTTAGGA
1 GGTGGTGGAGGCCTAGGA
*
26501979 GGTGGTGGAGGCCTAGGT
1 GGTGGTGGAGGCCTAGGA
26501997 GGTGGTGG
1 GGTGGTGG
26502005 TGGTGGAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.05, G:0.61, T:0.23
Consensus pattern (18 bp):
GGTGGTGGAGGCCTAGGA
Found at i:26502032 original size:42 final size:42
Alignment explanation
Indices: 26501937--26502130 Score: 190
Period size: 42 Copynumber: 4.5 Consensus size: 42
26501927 TGGAGGTGGT
** * * *
26501937 GGTGGTGGAGGTTTTGGGGGTGGCGGTGGTGGAGGGTTAGGA
1 GGTGGTGGAGGCCTAGGTGGTGGTGGTGGTGGAGGGTTAGGA
*
26501979 GGTGGTGGAGGCCTAGGTGGTGGTGGTGGTGGAGGGTTCGGA
1 GGTGGTGGAGGCCTAGGTGGTGGTGGTGGTGGAGGGTTAGGA
** *
26502021 GGTGGTGGAGGCCTAGGTGGTGGTGGTGCAGGAGGTGGCTTAGGT
1 GGTGGTGGAGGCCTAGGTGGTGGTGGTGGTGGA-G-GG-TTAGGA
* * ** * * * *
26502066 GGTGGCGGAGGCCTTGGTGGTGGTGCAGGAGGTGGATTAGGT
1 GGTGGTGGAGGCCTAGGTGGTGGTGGTGGTGGAGGGTTAGGA
* *
26502108 GGTGGTGGTGGCCTTGGTGGTGG
1 GGTGGTGGAGGCCTAGGTGGTGG
26502131 AGCAGGAGGA
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 94 0.72
43 2 0.02
44 3 0.02
45 31 0.24
ACGTcount: A:0.09, C:0.07, G:0.58, T:0.25
Consensus pattern (42 bp):
GGTGGTGGAGGCCTAGGTGGTGGTGGTGGTGGAGGGTTAGGA
Found at i:26502042 original size:18 final size:18
Alignment explanation
Indices: 26502000--26502046 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
26501990 CCTAGGTGGT
** *
26502000 GGTGGTGGTGGAGGGTTC
1 GGTGGTGGTGGAGGCCTA
*
26502018 GGAGGTGGTGGAGGCCTA
1 GGTGGTGGTGGAGGCCTA
26502036 GGTGGTGGTGG
1 GGTGGTGGTGG
26502047 TGCAGGAGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.09, C:0.06, G:0.62, T:0.23
Consensus pattern (18 bp):
GGTGGTGGTGGAGGCCTA
Found at i:26502056 original size:18 final size:18
Alignment explanation
Indices: 26502035--26502100 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 18
26502025 GTGGAGGCCT
26502035 AGGTGGTGGTGGTGCAGG
1 AGGTGGTGGTGGTGCAGG
26502053 AGGTGGCTTAGGTGGTGGC-GG
1 AGGTGG--T-GGTGGT-GCAGG
26502074 AGGCCTTGGTGGTGGTGCAGG
1 AGG---TGGTGGTGGTGCAGG
26502095 AGGTGG
1 AGGTGG
26502101 ATTAGGTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
18 9 0.22
20 3 0.08
21 22 0.55
22 3 0.08
24 3 0.08
ACGTcount: A:0.11, C:0.09, G:0.58, T:0.23
Consensus pattern (18 bp):
AGGTGGTGGTGGTGCAGG
Found at i:26502066 original size:21 final size:20
Alignment explanation
Indices: 26502042--26502111 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 20
26502032 CCTAGGTGGT
26502042 GGTGGTGCAGGAGGTGGCTTA
1 GGTGGTGCAGGAGGTGG-TTA
26502063 GGTGGTGGC-GGAGGCCTTGG-T-
1 GGTGGT-GCAGGAGG---TGGTTA
26502084 GGTGGTGCAGGAGGTGGATTA
1 GGTGGTGCAGGAGGTGG-TTA
26502105 GGTGGTG
1 GGTGGTG
26502112 GTGGTGGCCT
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
18 3 0.07
20 3 0.07
21 29 0.71
22 3 0.07
24 3 0.07
ACGTcount: A:0.11, C:0.09, G:0.56, T:0.24
Consensus pattern (20 bp):
GGTGGTGCAGGAGGTGGTTA
Found at i:26502136 original size:42 final size:42
Alignment explanation
Indices: 26501973--26502214 Score: 198
Period size: 42 Copynumber: 5.7 Consensus size: 42
26501963 TGGTGGAGGG
* * * ** * * *
26501973 TTAGGAGGTGGTGGAGGCCTAGGTGGTGGTGGTGGTGGAGGG
1 TTAGGTGGTGGCGGAGGCCTTGGTGGTGGTGCAGGAGGTGGA
* * * *
26502015 TTCGGAGGTGGTGGAGGCCTAGGTGGTGGTGGTGCAGGAGGTGGC
1 TTAGGTGGTGGCGGAGGCCT---TGGTGGTGGTGCAGGAGGTGGA
26502060 TTAGGTGGTGGCGGAGGCCTTGGTGGTGGTGCAGGAGGTGGA
1 TTAGGTGGTGGCGGAGGCCTTGGTGGTGGTGCAGGAGGTGGA
* * * * *
26502102 TTAGGTGGTGGTGGTGGCCTTGGTGGTGGAGCAGGAGGAGGG
1 TTAGGTGGTGGCGGAGGCCTTGGTGGTGGTGCAGGAGGTGGA
* ** * *
26502144 CTAGGTGGTGGCCATAAG-CTTGGTGGAGGTGCAGGAGGTGGA
1 TTAGGTGGTGG-CGGAGGCCTTGGTGGTGGTGCAGGAGGTGGA
* * * * *
26502186 CTGGGTGGCGGAGGAGGACTTGGTGGTGG
1 TTAGGTGGTGGCGGAGGCCTTGGTGGTGG
26502215 CCACAAGCTT
Statistics
Matches: 162, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
41 2 0.01
42 126 0.78
43 1 0.01
45 33 0.20
ACGTcount: A:0.13, C:0.09, G:0.55, T:0.23
Consensus pattern (42 bp):
TTAGGTGGTGGCGGAGGCCTTGGTGGTGGTGCAGGAGGTGGA
Found at i:26502198 original size:18 final size:18
Alignment explanation
Indices: 26502177--26502211 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26502167 TGGAGGTGCA
*
26502177 GGAGGTGGACTGGGTGGC
1 GGAGGAGGACTGGGTGGC
*
26502195 GGAGGAGGACTTGGTGG
1 GGAGGAGGACTGGGTGG
26502212 TGGCCACAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.09, G:0.60, T:0.17
Consensus pattern (18 bp):
GGAGGAGGACTGGGTGGC
Found at i:26502226 original size:102 final size:102
Alignment explanation
Indices: 26502120--26502334 Score: 254
Period size: 102 Copynumber: 2.1 Consensus size: 102
26502110 TGGTGGTGGC
* *
26502120 CTTGGTGGTGGAGCAGGAGGAGGGCTAGGTGGTGG-CCATAAGCTTGGTGGAGGTGCAGGAGGTG
1 CTTGGTGGAGGAGCAGGAGGAGGACTAGGTGGTGGTCCA-AAGCTTGGTGGAGGTGCAGGAGGTG
26502184 GACT-GGGTGGCGGAGGAGGACTTGGTGGTGGCCACAAG
65 GACTAGGG-GGCGGAGGAGGACTTGGTGGTGGCCACAAG
* * * ** ** *
26502222 CTTGGTGGAGGTGTAGGAGGAGGATTAGGTGGTGGTGGACGGCTTGGTGGAGGTGCTGGAGGTGG
1 CTTGGTGGAGGAGCAGGAGGAGGACTAGGTGGTGGTCCAAAGCTTGGTGGAGGTGCAGGAGGTGG
* * * * * *
26502287 ATTAGGGGGTGGAGGTGGCCTTGGTGGTGGCCATAGG
66 ACTAGGGGGCGGAGGAGGACTTGGTGGTGGCCACAAG
26502324 CTTGGTGGAGG
1 CTTGGTGGAGG
26502335 TGGCGGCATT
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
102 91 0.96
103 4 0.04
ACGTcount: A:0.15, C:0.10, G:0.53, T:0.22
Consensus pattern (102 bp):
CTTGGTGGAGGAGCAGGAGGAGGACTAGGTGGTGGTCCAAAGCTTGGTGGAGGTGCAGGAGGTGG
ACTAGGGGGCGGAGGAGGACTTGGTGGTGGCCACAAG
Found at i:26502253 original size:60 final size:59
Alignment explanation
Indices: 26502135--26502271 Score: 175
Period size: 60 Copynumber: 2.3 Consensus size: 59
26502125 TGGTGGAGCA
* * * *
26502135 GGAGGAGGGCTAGGTGGTGGCCATAAGCTTGGTGGAGGTGCAGGAGGTGGACTGGGTGGC
1 GGAGGA-GGCTTGGTGGTGGCCACAAGCTTGGTGGAGGTGCAGGAGGAGGACTAGGTGGC
* * *
26502195 GGAGGAGGACTTGGTGGTGGCCACAAGCTTGGTGGAGGTGTAGGAGGAGGATTAGGTGGT
1 GGAGGAGG-CTTGGTGGTGGCCACAAGCTTGGTGGAGGTGCAGGAGGAGGACTAGGTGGC
*
26502255 GGTGGACGGCTTGGTGG
1 GGAGGA-GGCTTGGTGG
26502272 AGGTGCTGGA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
59 2 0.03
60 63 0.94
61 2 0.03
ACGTcount: A:0.17, C:0.10, G:0.53, T:0.20
Consensus pattern (59 bp):
GGAGGAGGCTTGGTGGTGGCCACAAGCTTGGTGGAGGTGCAGGAGGAGGACTAGGTGGC
Found at i:26502313 original size:42 final size:42
Alignment explanation
Indices: 26502221--26502301 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
26502211 GTGGCCACAA
* *
26502221 GCTTGGTGGAGGTGTAGGAGGAGGATTAGGTGGTGGTGGACG
1 GCTTGGTGGAGGTGTAGGAGGAGGATTAGGGGGTGGAGGACG
*
26502263 GCTTGGTGGAGGTGCT-GGAGGTGGATTAGGGGGTGGAGG
1 GCTTGGTGGAGGTG-TAGGAGGAGGATTAGGGGGTGGAGG
26502302 TGGCCTTGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.15, C:0.05, G:0.57, T:0.23
Consensus pattern (42 bp):
GCTTGGTGGAGGTGTAGGAGGAGGATTAGGGGGTGGAGGACG
Found at i:26502315 original size:18 final size:18
Alignment explanation
Indices: 26502294--26502372 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 18
26502284 TGGATTAGGG
26502294 GGTGGAGGTGGCCTTGGT
1 GGTGGAGGTGGCCTTGGT
***
26502312 GGTGGCCATAGG-CTTGGT
1 GGTGGAGGT-GGCCTTGGT
* * * *
26502330 GGAGGTGGCGGCATTGGT
1 GGTGGAGGTGGCCTTGGT
* *
26502348 GGTGGAGGTGGTCTTGGA
1 GGTGGAGGTGGCCTTGGT
26502366 GGTGGAG
1 GGTGGAG
26502373 CAGGAGGAGG
Statistics
Matches: 44, Mismatches: 15, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
17 2 0.05
18 40 0.91
19 2 0.05
ACGTcount: A:0.10, C:0.10, G:0.54, T:0.25
Consensus pattern (18 bp):
GGTGGAGGTGGCCTTGGT
Found at i:26502411 original size:15 final size:15
Alignment explanation
Indices: 26502393--26502430 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
26502383 AGGAGGGCTT
26502393 GGTGGAGGTGCTGGA
1 GGTGGAGGTGCTGGA
* *
26502408 GGTGGTGGTGCTGGG
1 GGTGGAGGTGCTGGA
26502423 GGTGGAGG
1 GGTGGAGG
26502431 AGGATTTGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.05, G:0.66, T:0.21
Consensus pattern (15 bp):
GGTGGAGGTGCTGGA
Found at i:26502433 original size:33 final size:33
Alignment explanation
Indices: 26502403--26502465 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
26502393 GGTGGAGGTG
*
26502403 CTGGAGGTGGTGGTGCTGGGGGTGGAGGAGGAT
1 CTGGAGGTGGTGGTGCTGGCGGTGGAGGAGGAT
* * * *
26502436 TTGGTGGTGGTGGTGGTGTCGGTGGAGGAG
1 CTGGAGGTGGTGGTGCTGGCGGTGGAGGAG
26502466 TTGGGGGAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.10, C:0.05, G:0.60, T:0.25
Consensus pattern (33 bp):
CTGGAGGTGGTGGTGCTGGCGGTGGAGGAGGAT
Found at i:26516497 original size:33 final size:33
Alignment explanation
Indices: 26516419--26516497 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
26516409 TGACGTTAAG
*
26516419 GTGACATATTAAAATATTATAATTAATGATGAT
1 GTGACATATTAATATATTATAATTAATGATGAT
* * *
26516452 ATGACATATTAATATATTATAATTGATGATTAT
1 GTGACATATTAATATATTATAATTAATGATGAT
*
26516485 GTGACATGTTAAT
1 GTGACATATTAAT
26516498 TTGACATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.42
Consensus pattern (33 bp):
GTGACATATTAATATATTATAATTAATGATGAT
Found at i:26524221 original size:21 final size:21
Alignment explanation
Indices: 26524184--26524246 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
26524174 CGAATTTCGA
*
26524184 TCGCGAAGAA-AGCCGGTGGCT
1 TCGCGAAGAACA-ACGGTGGCT
26524205 TCGCGAAGAACAACGGTGGCT
1 TCGCGAAGAACAACGGTGGCT
* * * *
26524226 CCGGGAAGAGCAACGCTGGCT
1 TCGCGAAGAACAACGGTGGCT
26524247 AAGAGAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 35 0.97
22 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.37, T:0.13
Consensus pattern (21 bp):
TCGCGAAGAACAACGGTGGCT
Found at i:26549095 original size:109 final size:109
Alignment explanation
Indices: 26548900--26549118 Score: 420
Period size: 109 Copynumber: 2.0 Consensus size: 109
26548890 CAAGAGTTGT
*
26548900 CAAGACACAAAACTACTAGTATTAACATAGATTATTATTGTTTGTAAATTATATACTAGTGTTAA
1 CAAGACACAAAACTACTAGTATTAACATAGATTATTATTGTTTGTAAATTATATACTAGTATTAA
*
26548965 CATAAATCATGATGTAGAGGAAGTATTATATAGTATGGTCAATA
66 CATAAATCATGATGTAAAGGAAGTATTATATAGTATGGTCAATA
26549009 CAAGACACAAAACTACTAGTATTAACATAGATTATTATTGTTTGTAAATTATATACTAGTATTAA
1 CAAGACACAAAACTACTAGTATTAACATAGATTATTATTGTTTGTAAATTATATACTAGTATTAA
26549074 CATAAATCATGATGTAAAGGAAGTATTATATAGTATGGTCAATA
66 CATAAATCATGATGTAAAGGAAGTATTATATAGTATGGTCAATA
26549118 C
1 C
26549119 TTTCTCTCTA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.35
Consensus pattern (109 bp):
CAAGACACAAAACTACTAGTATTAACATAGATTATTATTGTTTGTAAATTATATACTAGTATTAA
CATAAATCATGATGTAAAGGAAGTATTATATAGTATGGTCAATA
Found at i:26550810 original size:25 final size:27
Alignment explanation
Indices: 26550782--26550834 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
26550772 AATTTTTATA
26550782 TAATATCAT-C-TTTTAAATATATTTT
1 TAATATCATACATTTTAAATATATTTT
* **
26550807 TAATGTCATACATTTTATTTATATTTT
1 TAATATCATACATTTTAAATATATTTT
26550834 T
1 T
26550835 TATTTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 1 0.04
27 14 0.61
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (27 bp):
TAATATCATACATTTTAAATATATTTT
Found at i:26550837 original size:13 final size:13
Alignment explanation
Indices: 26550819--26550849 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
26550809 ATGTCATACA
26550819 TTTTATTTATATT
1 TTTTATTTATATT
*
26550832 TTTTATTTTTATT
1 TTTTATTTATATT
26550845 TTTTA
1 TTTTA
26550850 ATATAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTATTTATATT
Found at i:26551371 original size:2 final size:2
Alignment explanation
Indices: 26551364--26551389 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26551354 AAATATGATG
26551364 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
26551390 ATAAAATCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26560141 original size:28 final size:27
Alignment explanation
Indices: 26560046--26560349 Score: 227
Period size: 27 Copynumber: 11.1 Consensus size: 27
26560036 AGTCGTATTG
* * *
26560046 AAAATGTAATTATTATACGTCATGTTA
1 AAAATTTAATTATTACATGTCATGTTA
* ** *
26560073 AAAATTTAATTGTTACACATTATGTTA
1 AAAATTTAATTATTACATGTCATGTTA
26560100 AAAATTTAATTATTACATGTCATGTTGA
1 AAAATTTAATTATTACATGTCATGTT-A
* * *
26560128 AAAATGTAGA-TATTATAAGTCATGTTA
1 AAAATTTA-ATTATTACATGTCATGTTA
*
26560155 AAAATTTAATTGTTACATGTCATGTTAA
1 AAAATTTAATTATTACATGTCATGTT-A
* *
26560183 AAAATATAATTATTACACG-CTATGTTA
1 AAAATTTAATTATTACATGTC-ATGTTA
* * * *
26560210 AACATTTAATTGTTACATATTATGTTA
1 AAAATTTAATTATTACATGTCATGTTA
* ** *
26560237 AAAATTTAATTGTTAC-CCTCGATTTTA
1 AAAATTTAATTATTACATGTC-ATGTTA
* * ***
26560264 AAAATGTAATTGTTACACACCATGTTGA
1 AAAATTTAATTATTACATGTCATGTT-A
* * *
26560292 AAAATATAATTGTTACATGTCATATTA
1 AAAATTTAATTATTACATGTCATGTTA
* ** * *
26560319 AAGATTTTGTTGTTACATGCCATGTTA
1 AAAATTTAATTATTACATGTCATGTTA
26560346 AAAA
1 AAAA
26560350 CTATAGTTGT
Statistics
Matches: 222, Mismatches: 46, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.01
27 151 0.68
28 68 0.31
29 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.41
Consensus pattern (27 bp):
AAAATTTAATTATTACATGTCATGTTA
Found at i:26560142 original size:82 final size:83
Alignment explanation
Indices: 26560046--26560354 Score: 263
Period size: 82 Copynumber: 3.8 Consensus size: 83
26560036 AGTCGTATTG
* * *
26560046 AAAATGTAATTATTATACGTCATGTTAAAAATTTAATTGTTACACATTATGTT-AAAAATTTAAT
1 AAAATGTAATTATTATAAGTCATGTTAAAAATTTAATTGTTACACATCATGTTAAAAAATATAAT
26560110 TATTACATGTCATGTTGA
66 TATTACATGTCATGTTGA
**
26560128 AAAATGTAGA-TATTATAAGTCATGTTAAAAATTTAATTGTTACATGTCATGTTAAAAAATATAA
1 AAAATGTA-ATTATTATAAGTCATGTTAAAAATTTAATTGTTACACATCATGTTAAAAAATATAA
*
26560192 TTATTACACG-CTATGTT-A
65 TTATTACATGTC-ATGTTGA
* * * * * * * *
26560210 AACATTTAATTGTTACATA-TTATGTTAAAAATTTAATTGTTAC-CCTCGAT-TTTAAAAATGTA
1 AAAATGTAATTATTATA-AGTCATGTTAAAAATTTAATTGTTACACATC-ATGTTAAAAAATATA
* ***
26560272 ATTGTTACACACCATGTTGA
64 ATTATTACATGTCATGTTGA
* * * * * * ** *** *
26560292 AAAATATAATTGTTACATGTCATATTAAAGATTTTGTTGTTACATGCCATGTTAAAAACTATA
1 AAAATGTAATTATTATAAGTCATGTTAAAAATTTAATTGTTACACATCATGTTAAAAAATATA
26560355 GTTGTTATAA
Statistics
Matches: 185, Mismatches: 31, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
81 27 0.15
82 123 0.66
83 35 0.19
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (83 bp):
AAAATGTAATTATTATAAGTCATGTTAAAAATTTAATTGTTACACATCATGTTAAAAAATATAAT
TATTACATGTCATGTTGA
Found at i:26560159 original size:55 final size:54
Alignment explanation
Indices: 26560046--26560354 Score: 230
Period size: 55 Copynumber: 5.6 Consensus size: 54
26560036 AGTCGTATTG
* * * * * * *
26560046 AAAATGTAATTATTATACGTCATGTTAAAAATTTAATTGTTACACA-TTATGTTA
1 AAAATTTAATTGTTACATGTCATGTTAAAAATATAATTATTACA-AGCTATGTTA
* * *
26560100 AAAATTTAATTATTACATGTCATGTTGAAAAATGTAGA-TATTATAAG-TCATGTTA
1 AAAATTTAATTGTTACATGTCATGTT-AAAAATATA-ATTATTACAAGCT-ATGTTA
*
26560155 AAAATTTAATTGTTACATGTCATGTTAAAAAATATAATTATTACACGCTATGTTA
1 AAAATTTAATTGTTACATGTCATGTT-AAAAATATAATTATTACAAGCTATGTTA
* * * * * *** * *
26560210 AACATTTAATTGTTACATATTATGTTAAAAATTTAATTGTTACCCTCGATTTTA
1 AAAATTTAATTGTTACATGTCATGTTAAAAATATAATTATTACAAGCTATGTTA
* *** * * *
26560264 AAAATGTAATTGTTACACACCATGTTGAAAAATATAATTGTTACATG-TCATATTA
1 AAAATTTAATTGTTACATGTCATGTT-AAAAATATAATTATTACAAGCT-ATGTTA
* ** *
26560319 AAGATTTTGTTGTTACATGCCATGTTAAAAACTATA
1 AAAATTTAATTGTTACATGTCATGTTAAAAA-TATA
26560355 GTTGTTATAA
Statistics
Matches: 209, Mismatches: 37, Indels: 17
0.79 0.14 0.06
Matches are distributed among these distances:
54 74 0.35
55 133 0.64
56 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (54 bp):
AAAATTTAATTGTTACATGTCATGTTAAAAATATAATTATTACAAGCTATGTTA
Found at i:26560344 original size:109 final size:109
Alignment explanation
Indices: 26560152--26560349 Score: 254
Period size: 109 Copynumber: 1.8 Consensus size: 109
26560142 ATAAGTCATG
* *** *
26560152 TTAAAAATTTAATTGTTACATGTCATGTTAAAAAATATAATTATTACACGCTATGTTAAACATTT
1 TTAAAAATGTAATTGTTACACACCATGTTAAAAAATATAATTATTACACGCTATATTAAACATTT
**
26560217 AATTGTTACATATTATGTTAAAAATTTAATTGTTACCCTCGATT
66 AATTGTTACATACCATGTTAAAAATTTAATTGTTACCCTCGATT
* * * *
26560261 TTAAAAATGTAATTGTTACACACCATGTTGAAAAATATAATTGTTACATG-TCATATTAAAGATT
1 TTAAAAATGTAATTGTTACACACCATGTTAAAAAATATAATTATTACACGCT-ATATTAAACATT
** *
26560325 TTGTTGTTACATGCCATGTTAAAAA
65 TAATTGTTACATACCATGTTAAAAA
26560350 CTATAGTTGT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
108 1 0.01
109 73 0.99
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (109 bp):
TTAAAAATGTAATTGTTACACACCATGTTAAAAAATATAATTATTACACGCTATATTAAACATTT
AATTGTTACATACCATGTTAAAAATTTAATTGTTACCCTCGATT
Found at i:26560384 original size:55 final size:55
Alignment explanation
Indices: 26560273--26560384 Score: 120
Period size: 55 Copynumber: 2.0 Consensus size: 55
26560263 AAAAATGTAA
* * **
26560273 TTGTTACACACCATGTTGAAAAATATAATTGTTACATGTCATATTAAAGATTTTG
1 TTGTTACACACCATGTTGAAAAATATAATTGTTACAAGTCATATGAAAGAAGTTG
** * *
26560328 TTGTTACATGCCATGTT-AAAAACTATAGTTGTTATAAGTCATAATGAAA-AAGTTG
1 TTGTTACACACCATGTTGAAAAA-TATAATTGTTACAAGTCAT-ATGAAAGAAGTTG
26560383 TT
1 TT
26560385 ACACACTACG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
54 5 0.11
55 37 0.79
56 5 0.11
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (55 bp):
TTGTTACACACCATGTTGAAAAATATAATTGTTACAAGTCATATGAAAGAAGTTG
Found at i:26564283 original size:27 final size:26
Alignment explanation
Indices: 26564249--26564300 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
26564239 TAAAATGGTG
*
26564249 AATACAAATATAAGAAAAAAAATGAA
1 AATACAAATAAAAGAAAAAAAATGAA
* *
26564275 AATATCAAATAAAAGAAGAAAGATGA
1 AATA-CAAATAAAAGAAAAAAAATGA
26564301 TGAAATCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.69, C:0.04, G:0.12, T:0.15
Consensus pattern (26 bp):
AATACAAATAAAAGAAAAAAAATGAA
Found at i:26575624 original size:45 final size:45
Alignment explanation
Indices: 26575574--26575676 Score: 152
Period size: 45 Copynumber: 2.3 Consensus size: 45
26575564 CACGCTATGA
* *
26575574 TGTTACACGTCATATACAAAAACATGTGACATGCCATGGTTAGGT
1 TGTTACACGTCATATACAAAAACATGTGACACGCCATGATTAGGT
** * *
26575619 TGTTACACACCATTTACAAAAACATGTGACACGTCATGATTAGGT
1 TGTTACACGTCATATACAAAAACATGTGACACGCCATGATTAGGT
26575664 TGTTACACGTCAT
1 TGTTACACGTCAT
26575677 CTTGAAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (45 bp):
TGTTACACGTCATATACAAAAACATGTGACACGCCATGATTAGGT
Found at i:26575783 original size:45 final size:45
Alignment explanation
Indices: 26575697--26575792 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 45
26575687 AATATTATTA
* * **
26575697 TTACACGATATGTACAAAAATATGTTACATTCCATAGTTAGGTTG
1 TTACACGATATGTACAAAAATATATGACACGCCATAGTTAGGTTG
* *
26575742 TTACACGCTATGTACAAAAATATATGACACGCTAT-GATTAGGTTG
1 TTACACGATATGTACAAAAATATATGACACGCCATAG-TTAGGTTG
26575787 TTACAC
1 TTACAC
26575793 ACTGTATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
44 1 0.02
45 43 0.98
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (45 bp):
TTACACGATATGTACAAAAATATATGACACGCCATAGTTAGGTTG
Found at i:26575873 original size:118 final size:120
Alignment explanation
Indices: 26575588--26575879 Score: 322
Period size: 121 Copynumber: 2.4 Consensus size: 120
26575578 ACACGTCATA
* * * *
26575588 TACAAAAACATGTGACATGCCATGGTTAGGTTGTTACACACCATTTACAAAAACATGTGACACGT
1 TACAAAAACATGTTACATGCCATGGTTAGGTTGTTACACGCCATGTACAAAAACATATGACACGT
* * * *
26575653 CATGATTAGGTTGTTACACGTCATCTTGAAAAAAAATATTATTATTACACGATATG
66 CATGATTAGGTTGTTACACCTCATATTGAAAAAAAATATTACTATTA-ACGACATG
* * * * *
26575709 TACAAAAATATGTTACATTCCATAGTTAGGTTGTTACACGCTATGTACAAAAATATATGACACG-
1 TACAAAAACATGTTACATGCCATGGTTAGGTTGTTACACGCCATGTACAAAAACATATGACACGT
* * * * *
26575773 CTATGATTAGGTTGTTACACACT-GTATTGAAAAAACATGTTGCTA-T-ACGCCATG
66 C-ATGATTAGGTTGTTACAC-CTCATATTGAAAAAAAATATTACTATTAACGACATG
** * * *
26575827 TACAAAAACATGTTACATGATATGGTTAGATTGTTACATGCCATGTAAAAAAA
1 TACAAAAACATGTTACATGCCATGGTTAGGTTGTTACACGCCATGTACAAAAA
26575880 AATACTGTTG
Statistics
Matches: 142, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
118 50 0.35
120 2 0.01
121 89 0.63
122 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (120 bp):
TACAAAAACATGTTACATGCCATGGTTAGGTTGTTACACGCCATGTACAAAAACATATGACACGT
CATGATTAGGTTGTTACACCTCATATTGAAAAAAAATATTACTATTAACGACATG
Found at i:26575927 original size:75 final size:77
Alignment explanation
Indices: 26575823--26575975 Score: 195
Period size: 75 Copynumber: 2.0 Consensus size: 77
26575813 TGCTATACGC
* *
26575823 CATGTACAAAAACATGTTACATGATATGGTT-AGATTGTTACATGCCATG-TAAAAAAAAATACT
1 CATGTACAAAAACATGTTACATCACATGGTTAAGATTGTTACATGCCATGTTAAAAAAAAATACT
*
26575886 GTTGTTACACGT
66 ATTGTTACACGT
*
26575898 CATGTACAAAAACATGTTACA-CACCATGGTTAAAAAAGATTGTTACATGCCATGTTGAAAAAAA
1 CATGTACAAAAACATGTTACATCA-CATGGTT----AAGATTGTTACATGCCATGTTAAAAAAAA
*
26575962 ATATTATTGTTACA
61 ATACTATTGTTACA
26575976 TGCCATGTTG
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
74 1 0.02
75 27 0.41
80 18 0.27
81 20 0.30
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (77 bp):
CATGTACAAAAACATGTTACATCACATGGTTAAGATTGTTACATGCCATGTTAAAAAAAAATACT
ATTGTTACACGT
Found at i:26575992 original size:30 final size:31
Alignment explanation
Indices: 26575936--26576005 Score: 124
Period size: 30 Copynumber: 2.3 Consensus size: 31
26575926 GTTAAAAAAG
26575936 ATTGTTACATGCCATGTTGAAAAAAAATATT
1 ATTGTTACATGCCATGTTGAAAAAAAATATT
26575967 ATTGTTACATGCCATGTTG-AAAAAAATATT
1 ATTGTTACATGCCATGTTGAAAAAAAATATT
*
26575997 GTTGTTACA
1 ATTGTTACA
26576006 CATCATATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 19 0.50
31 19 0.50
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (31 bp):
ATTGTTACATGCCATGTTGAAAAAAAATATT
Found at i:26576020 original size:30 final size:30
Alignment explanation
Indices: 26575956--26576025 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
26575946 GCCATGTTGA
** * *
26575956 AAAAAAATATTATTGTTACATGCCATGTTG
1 AAAAAAATATTATTGTTACACACCATATTC
* *
26575986 AAAAAAATATTGTTGTTACACATCATATTC
1 AAAAAAATATTATTGTTACACACCATATTC
*
26576016 AAAAACATAT
1 AAAAAAATAT
26576026 GACATGTCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (30 bp):
AAAAAAATATTATTGTTACACACCATATTC
Found at i:26576046 original size:45 final size:45
Alignment explanation
Indices: 26575997--26576110 Score: 133
Period size: 45 Copynumber: 2.5 Consensus size: 45
26575987 AAAAAATATT
* ** *
26575997 GTTGTTACACATCATATTCAAAAACATATGACATGTCATGGTTAG
1 GTTGTTACACATCATATTCAAAAACATATAACACATCATGATTAG
*
26576042 GTTGTTACACA-CA-ATTTACAAAAACATGTAACACATCATGATTAG
1 GTTGTTACACATCATA-TT-CAAAAACATATAACACATCATGATTAG
* *
26576087 GTTGTTACACTTCATATTGAAAAA
1 GTTGTTACACATCATATTCAAAAA
26576111 AAAAATATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.02
44 4 0.07
45 48 0.83
46 4 0.07
47 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (45 bp):
GTTGTTACACATCATATTCAAAAACATATAACACATCATGATTAG
Found at i:26576187 original size:44 final size:45
Alignment explanation
Indices: 26576124--26576219 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 45
26576114 AATATTATTA
* * **
26576124 TTACACGATATGTACAAAAATATGTTACACTCCAT-GTTAAGTTG
1 TTACACGACATGTACAAAAATATGTGACAAACCATAGTTAAGTTG
* *
26576168 TTACACGCCATGTACAAAAATATGTGACAAACCATAGTTAGGTTG
1 TTACACGACATGTACAAAAATATGTGACAAACCATAGTTAAGTTG
26576213 TTACACG
1 TTACACG
26576220 TTGTATTAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
44 30 0.67
45 15 0.33
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (45 bp):
TTACACGACATGTACAAAAATATGTGACAAACCATAGTTAAGTTG
Found at i:26576335 original size:76 final size:78
Alignment explanation
Indices: 26576247--26576411 Score: 219
Period size: 76 Copynumber: 2.1 Consensus size: 78
26576237 GTTGCTATAC
*
26576247 GTCATGTACAAAAACATGTTACATGA-TATGGTT-AGATTGTTACATGCCATGTT-AAAAAAAAA
1 GTCATGTACAAAAACATGTTACA-CACTATGGTTAAGATTGTTACATGCCATGTTGAAAAAAAAA
*
26576309 TATTGTTGTTACAT
65 TATTATTGTTACAT
* *
26576323 GTCATGTACAAAAACATGTTACACACTATGGTTAAAAAAGGTTGTTACATGTCATGTTGAAAAAA
1 GTCATGTACAAAAACATGTTACACACTATGGTT----AAGATTGTTACATGCCATGTTGAAAAAA
*
26576388 AAATATTATTGTTGCAT
62 AAATATTATTGTTACAT
26576405 GTCATGT
1 GTCATGT
26576412 TGAAAAAATA
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
75 1 0.01
76 30 0.39
81 18 0.23
82 28 0.36
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (78 bp):
GTCATGTACAAAAACATGTTACACACTATGGTTAAGATTGTTACATGCCATGTTGAAAAAAAAAT
ATTATTGTTACAT
Found at i:26576383 original size:427 final size:425
Alignment explanation
Indices: 26575574--26576446 Score: 1421
Period size: 427 Copynumber: 2.0 Consensus size: 425
26575564 CACGCTATGA
* * * *
26575574 TGTTACACGTCATATACAAAAACATGTGACATGCCATGGTTAGGTTGTTACACACCATTTACAAA
1 TGTTACACATCATATTCAAAAACATATGACATGCCATGGTTAGGTTGTTACACACAATTTACAAA
* * *
26575639 AACATGTGACACGTCATGATTAGGTTGTTACACGTCATCTTGAAAAAAAATATTATTATTACACG
66 AACATGTAACACATCATGATTAGGTTGTTACACGTCATATTGAAAAAAAATATTATTATTACACG
* * *
26575704 ATATGTACAAAAATATGTTACATTCCATAGTTAGGTTGTTACACGCTATGTACAAAAATATATGA
131 ATATGTACAAAAATATGTTACACTCCATAGTTAAGTTGTTACACGCCATGTACAAAAATATATGA
** *
26575769 CACGCTATGATTAGGTTGTTACACACTGTATTGAAAAAACATGTTGCTATACGCCATGTACAAAA
196 CAAACCATGATTAGGTTGTTACACACTGTATTGAAAAAACATGTTGCTATACGCCATGTACAAAA
26575834 ACATGTTACATGATATGGTTAGATTGTTACATGCCATGTAAAAAAAAATACTGTTGTTACACGTC
261 ACATGTTACATGATATGGTTAGATTGTTACATGCCATGTAAAAAAAAATACTGTTGTTACACGTC
26575899 ATGTACAAAAACATGTTACACACCATGGTTAAAAAAGATTGTTACATGCCATGTTG-AAAAAAAA
326 ATGTACAAAAACATGTTACACACCATGGTTAAAAAAGATTGTTACATGCCATGTTGAAAAAAAAA
26575963 TATTATTGTTACATGCCATGTTGAAAAAAATATTGT
391 TATTATTGTTACATGCCATGTTG-AAAAAATATTGT
*
26575999 TGTTACACATCATATTCAAAAACATATGACATGTCATGGTTAGGTTGTTACACACAATTTACAAA
1 TGTTACACATCATATTCAAAAACATATGACATGCCATGGTTAGGTTGTTACACACAATTTACAAA
*
26576064 AACATGTAACACATCATGATTAGGTTGTTACACTTCATATTGAAAAAAAAAATATTATTATTACA
66 AACATGTAACACATCATGATTAGGTTGTTACACGTCATATTG--AAAAAAAATATTATTATTACA
*
26576129 CGATATGTACAAAAATATGTTACACTCCAT-GTTAAGTTGTTACACGCCATGTACAAAAATATGT
129 CGATATGTACAAAAATATGTTACACTCCATAGTTAAGTTGTTACACGCCATGTACAAAAATATAT
** *
26576193 GACAAACCAT-AGTTAGGTTGTTACACGTTGTATT-AGAAAAACATGTTGCTATACGTCATGTAC
194 GACAAACCATGA-TTAGGTTGTTACACACTGTATTGA-AAAAACATGTTGCTATACGCCATGTAC
*
26576256 AAAAACATGTTACATGATATGGTTAGATTGTTACATGCCATGTTAAAAAAAAATATTGTTGTTAC
257 AAAAACATGTTACATGATATGGTTAGATTGTTACATGCCATG-TAAAAAAAAATACTGTTGTTAC
* * * *
26576321 ATGTCATGTACAAAAACATGTTACACACTATGGTTAAAAAAGGTTGTTACATGTCATGTTGAAAA
321 ACGTCATGTACAAAAACATGTTACACACCATGGTTAAAAAAGATTGTTACATGCCATGTTGAAAA
* *
26576386 AAAAATATTATTGTTGCATGTCATGTTGAAAAAATATTGT
386 AAAAATATTATTGTTACATGCCATGTTGAAAAAATATTGT
*
26576426 TGTTACACATCTTATTCAAAA
1 TGTTACACATCATATTCAAAA
26576447 GCAATTTGTT
Statistics
Matches: 415, Mismatches: 27, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
425 100 0.24
426 126 0.30
427 160 0.39
428 29 0.07
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (425 bp):
TGTTACACATCATATTCAAAAACATATGACATGCCATGGTTAGGTTGTTACACACAATTTACAAA
AACATGTAACACATCATGATTAGGTTGTTACACGTCATATTGAAAAAAAATATTATTATTACACG
ATATGTACAAAAATATGTTACACTCCATAGTTAAGTTGTTACACGCCATGTACAAAAATATATGA
CAAACCATGATTAGGTTGTTACACACTGTATTGAAAAAACATGTTGCTATACGCCATGTACAAAA
ACATGTTACATGATATGGTTAGATTGTTACATGCCATGTAAAAAAAAATACTGTTGTTACACGTC
ATGTACAAAAACATGTTACACACCATGGTTAAAAAAGATTGTTACATGCCATGTTGAAAAAAAAA
TATTATTGTTACATGCCATGTTGAAAAAATATTGT
Found at i:26576417 original size:29 final size:30
Alignment explanation
Indices: 26576364--26576432 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
26576354 TTAAAAAAGG
26576364 TTGTTACATGTCATGTTGAAAAAAAAATATTA
1 TTGTTACATGTCATGTTG--AAAAAAATATTA
* *
26576396 TTGTTGCATGTCATGTTG-AAAAAATATTG
1 TTGTTACATGTCATGTTGAAAAAAATATTA
26576425 TTGTTACA
1 TTGTTACA
26576433 CATCTTATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 17 0.50
32 17 0.50
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (30 bp):
TTGTTACATGTCATGTTGAAAAAAATATTA
Found at i:26589925 original size:2 final size:2
Alignment explanation
Indices: 26589920--26589951 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
26589910 TTTTTACCTT
*
26589920 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26589952 ACTGTTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:26616395 original size:15 final size:16
Alignment explanation
Indices: 26616350--26616387 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
26616340 TTATTTGTAA
*
26616350 ATTTTAAAATATTAAT
1 ATTTTAAACTATTAAT
26616366 ATTTTAAACTATTAAT
1 ATTTTAAACTATTAAT
26616382 ATTTTA
1 ATTTTA
26616388 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTAAACTATTAAT
Found at i:26616470 original size:25 final size:24
Alignment explanation
Indices: 26616441--26616505 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
26616431 TAATCAAAAA
26616441 TAATATTAAATTATAAAATAAATAT
1 TAATATTAAATTATAAAA-AAATAT
**
26616466 TAATAATTAAATTATATTAAAATAT
1 TAAT-ATTAAATTATAAAAAAATAT
*
26616491 TGATATTGAAATTAT
1 TAATATT-AAATTAT
26616506 TAATATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 20 0.57
26 12 0.34
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (24 bp):
TAATATTAAATTATAAAAAAATAT
Found at i:26616476 original size:19 final size:18
Alignment explanation
Indices: 26616437--26616490 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
26616427 ATTTTAATCA
*
26616437 AAAATAATATTAAATTAT
1 AAAATAATATTAAAATAT
26616455 AAAATAAATATTAATAAT-T
1 AAAAT-AATATTAA-AATAT
*
26616474 -AAATTATATTAAAATAT
1 AAAATAATATTAAAATAT
26616491 TGATATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 3 0.10
17 8 0.26
18 9 0.29
19 9 0.29
20 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATAATATTAAAATAT
Found at i:26617692 original size:18 final size:19
Alignment explanation
Indices: 26617669--26617707 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26617659 ACATTATATG
* *
26617669 ATAATTT-TAATAAAATTT
1 ATAATTTATAAAAAAAATT
26617687 ATAATTTATAAAAAAAATT
1 ATAATTTATAAAAAAAATT
26617706 AT
1 AT
26617708 CAAATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAATTTATAAAAAAAATT
Found at i:26627824 original size:17 final size:17
Alignment explanation
Indices: 26627802--26627834 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26627792 TGTTGGCTGG
*
26627802 ATCATCTTTGTCTCATT
1 ATCATCTCTGTCTCATT
26627819 ATCATCTCTGTCTCAT
1 ATCATCTCTGTCTCAT
26627835 CTTTTTACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.27, G:0.06, T:0.48
Consensus pattern (17 bp):
ATCATCTCTGTCTCATT
Found at i:26631368 original size:50 final size:50
Alignment explanation
Indices: 26631324--26631418 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
26631314 TAACACAATT
* ** *
26631324 TGTGTAACTATTTATACATTATTGTGTATTATTTTTATCATAACAAAGTC
1 TGTGTAACTATTTATACATTACTACGTATTATTTTTACCATAACAAAGTC
* *
26631374 TGTTTAACTATTTATTCATTACTACGTATTATTTTTACCATAACA
1 TGTGTAACTATTTATACATTACTACGTATTATTTTTACCATAACA
26631419 TAATCAATCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (50 bp):
TGTGTAACTATTTATACATTACTACGTATTATTTTTACCATAACAAAGTC
Found at i:26636363 original size:23 final size:24
Alignment explanation
Indices: 26636311--26636363 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
26636301 ATCACTATTC
* * *
26636311 ACAATGATATATATGAATGATAATT
1 ACAA-GATATATATAAAAGATAATG
26636336 A-AAGATATAT-TAAAAGATAATG
1 ACAAGATATATATAAAAGATAATG
26636358 ACAAGA
1 ACAAGA
26636364 AAGTATTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.42
23 11 0.46
24 2 0.08
25 1 0.04
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (24 bp):
ACAAGATATATATAAAAGATAATG
Found at i:26643924 original size:2 final size:2
Alignment explanation
Indices: 26643917--26643946 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
26643907 CGTGCTTAAA
26643917 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26643947 ACAAAGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26656190 original size:17 final size:17
Alignment explanation
Indices: 26656168--26656200 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26656158 TGTTGGCTGG
*
26656168 ATCATCTTTGTCTCATT
1 ATCATCTCTGTCTCATT
26656185 ATCATCTCTGTCTCAT
1 ATCATCTCTGTCTCAT
26656201 CTTTTTACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.27, G:0.06, T:0.48
Consensus pattern (17 bp):
ATCATCTCTGTCTCATT
Found at i:26659724 original size:50 final size:50
Alignment explanation
Indices: 26659670--26659764 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
26659660 TAACACAATT
* *
26659670 TGTTTAACTATTTATACATTACTGTATATTATTTTTATCATAACAAAGTC
1 TGTTTAACTATTTATACATTACTGCATATTATTTTTACCATAACAAAGTC
* *
26659720 TGTTTAACTATTTATCCATTACTGCGTATTATTTTTACCATAACA
1 TGTTTAACTATTTATACATTACTGCATATTATTTTTACCATAACA
26659765 TAATCAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.47
Consensus pattern (50 bp):
TGTTTAACTATTTATACATTACTGCATATTATTTTTACCATAACAAAGTC
Found at i:26683953 original size:20 final size:21
Alignment explanation
Indices: 26683912--26683953 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
26683902 TGACAGGGAG
26683912 TTTAACTTGAAAGGCTTTTTT
1 TTTAACTTGAAAGGCTTTTTT
26683933 TTTAACTTGAAAGGCTTTTTT
1 TTTAACTTGAAAGGCTTTTTT
26683954 CTCCAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
TTTAACTTGAAAGGCTTTTTT
Found at i:26685157 original size:42 final size:42
Alignment explanation
Indices: 26685098--26685178 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
26685088 CAGGTAATGT
26685098 ACTACATATATGCTCATCCTAGTTTATGTCTAATGGAGATGC
1 ACTACATATATGCTCATCCTAGTTTATGTCTAATGGAGATGC
*
26685140 ACTACATATATTCTCATCCTAGTTTATGTCTAATGGAGA
1 ACTACATATATGCTCATCCTAGTTTATGTCTAATGGAGA
26685179 CAGGTCAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (42 bp):
ACTACATATATGCTCATCCTAGTTTATGTCTAATGGAGATGC
Found at i:26701131 original size:20 final size:21
Alignment explanation
Indices: 26701089--26701131 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
26701079 TAAAAGATAA
*
26701089 AAATTTCAATTATAATTAAAT
1 AAATTTCAAATATAATTAAAT
* *
26701110 AAATTTGAAATAT-ATTATAT
1 AAATTTCAAATATAATTAAAT
26701130 AA
1 AA
26701132 CTATTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATTTCAAATATAATTAAAT
Found at i:26701234 original size:2 final size:2
Alignment explanation
Indices: 26701227--26701255 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26701217 CGATGGACTA
26701227 AT 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 AT A
26701256 AAGTTGATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26706022 original size:20 final size:20
Alignment explanation
Indices: 26705986--26706037 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
26705976 ACGAACGGTG
26705986 AGAA-GAAGGAAAAAAAG-GCA
1 AGAAGGAAGG-AAAAAAGTG-A
*
26706006 AGAAGGAAGGAAGAAAGTGA
1 AGAAGGAAGGAAAAAAGTGA
26706026 AGAAGGCAAGGA
1 AGAAGG-AAGGA
26706038 GTAAAGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.58, C:0.04, G:0.37, T:0.02
Consensus pattern (20 bp):
AGAAGGAAGGAAAAAAGTGA
Found at i:26717582 original size:14 final size:14
Alignment explanation
Indices: 26717565--26717591 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26717555 TCAAGGATTT
26717565 TTAAATTTTTTATC
1 TTAAATTTTTTATC
26717579 TTAAATTTTTTAT
1 TTAAATTTTTTAT
26717592 GTTTGAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAAATTTTTTATC
Found at i:26725745 original size:18 final size:18
Alignment explanation
Indices: 26725722--26725775 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
26725712 CTTCAATAAC
26725722 TTTTACATGTTCGTTAAT
1 TTTTACATGTTCGTTAAT
** *
26725740 TTTTACACTGCCCATTAAT
1 TTTTACA-TGTTCGTTAAT
*
26725759 TTTTACTTGTTCGTTAA
1 TTTTACATGTTCGTTAA
26725776 AATATTTGCC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (18 bp):
TTTTACATGTTCGTTAAT
Found at i:26733635 original size:6 final size:7
Alignment explanation
Indices: 26733617--26733647 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
26733607 ATTTTAACTA
26733617 ATTTTTT
1 ATTTTTT
26733624 ATTTTTT
1 ATTTTTT
26733631 ATTTTTT
1 ATTTTTT
26733638 A-TTTTT
1 ATTTTTT
26733644 ATTT
1 ATTT
26733648 GTACCATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
ATTTTTT
Found at i:26733636 original size:14 final size:13
Alignment explanation
Indices: 26733617--26733647 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
26733607 ATTTTAACTA
26733617 ATTTTTTATTTTTT
1 ATTTTTTA-TTTTT
26733631 ATTTTTTATTTTT
1 ATTTTTTATTTTT
26733644 ATTT
1 ATTT
26733648 GTACCATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTTATTTTT
Found at i:26733780 original size:13 final size:13
Alignment explanation
Indices: 26733762--26733788 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26733752 CCTTGTTTAA
26733762 GCGAATGGTCATT
1 GCGAATGGTCATT
26733775 GCGAATGGTCATT
1 GCGAATGGTCATT
26733788 G
1 G
26733789 AATAAACCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.30
Consensus pattern (13 bp):
GCGAATGGTCATT
Found at i:26742343 original size:2 final size:2
Alignment explanation
Indices: 26742336--26742364 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26742326 GTACAACAAG
26742336 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
26742365 TTCTCTACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:26746191 original size:18 final size:19
Alignment explanation
Indices: 26746161--26746198 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
26746151 ATATTTTTTT
26746161 TTATTTTTATAATT-TAAA
1 TTATTTTTATAATTATAAA
26746179 TTATATTTT-TAATTATAAA
1 TTAT-TTTTATAATTATAAA
26746198 T
1 T
26746199 AATAATCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTTTATAATTATAAA
Found at i:26756876 original size:11 final size:10
Alignment explanation
Indices: 26756860--26756959 Score: 54
Period size: 9 Copynumber: 10.1 Consensus size: 10
26756850 ACCCCTTTTT
26756860 AATAATATAAA
1 AATAATA-AAA
26756871 AATAAT--AA
1 AATAATAAAA
26756879 AA-AATAAAA
1 AATAATAAAA
26756888 AATAA-AAAA
1 AATAATAAAA
26756897 ATCATAATTAAAA
1 A--ATAA-TAAAA
*
26756910 AA-AAGCCAAAA
1 AATAA--TAAAA
26756921 AATAA-AAAA
1 AATAATAAAA
* *
26756930 ATTAATAAGA
1 AATAATAAAA
26756940 AATAA-ATAAA
1 AATAATA-AAA
26756950 AATAA-AAAA
1 AATAATAAAA
26756959 A
1 A
26756960 CGATGAATGA
Statistics
Matches: 72, Mismatches: 6, Indels: 24
0.71 0.06 0.24
Matches are distributed among these distances:
7 3 0.04
8 4 0.06
9 22 0.31
10 19 0.26
11 17 0.24
12 2 0.03
13 5 0.07
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (10 bp):
AATAATAAAA
Found at i:26761424 original size:355 final size:355
Alignment explanation
Indices: 26760771--26761444 Score: 840
Period size: 355 Copynumber: 1.9 Consensus size: 355
26760761 TAGCTAATTT
* * * * *
26760771 AAAAATTGTAAAGAAAGGTATAATATTTATAATACTTATTTTTTTATACGTAAATTTGGTAAATA
1 AAAAATTGTAAAAAAAGGTATAATATTTATAATACTCATTTTTTTATACATAAAGTTGATAAATA
* * *
26760836 AGTTGTCGAGTTTCTCAAATCAAAGCAATATATATTGTATTTTACAAGATTTGTGTAATTAAAAT
66 ACTTGTCGAATTTCTCAAATCAAAGCAATATATATTGTATTTTACAAGATTTGTATAATTAAAAT
* * * * * * * * * * *
26760901 TATAATTGATCACATTTTGTCATTAATATATAGAATTTAACTATTGTGTCAATTCTTCGTTGGTA
131 TATAACTGATCACACTCTATCAATAATACATAAAATTTAACTATTGTGTCAAATATTCATTGGCA
* * * *
26760966 TTCAATTGTTTACTCTAATAGTCACAAATAAATTTTATACTATGATAAAGTTTATTGCTTTTATT
196 TTCAATTGTTTACTCTAATAGTCACAAATAAATTTTATAATATAATAAACTTTATCGCTTTTATT
* ** * * * *
26761031 CACCTATTACCTTTAAAGATTATAATAAATATGTATTAAAATGAA-TAGGTTATTTAATTATTTT
261 CACCAACCACCTTTAAACATTATAAGAAATAAGTATTAAAAT-AAGTAGGTTATTCAATTATTTT
26761095 CTCAAGTAGTCACAAATAATAACTAAGGTTG
325 CTCAAGTAGTCACAAATAATAACTAAGGTTG
* *
26761126 AAAAATTG-AATAAAAATGTATGATATTTATAATACTCATTCTTTTTTATACATAAAGTTGATAA
1 AAAAATTGTAA-AAAAAGGTATAATATTTATAATACTCA-T-TTTTTTATACATAAAGTTGATAA
* * *
26761190 GTAACTTATTC-AATTTCTCAAATCAAAGC-A-ATATATTGTATTTTATAAGATTCT-TATAATT
63 ATAACTT-GTCGAATTTCTCAAATCAAAGCAATATATATTGTATTTTACAAGATT-TGTATAATT
* * * *
26761251 AAAATTATAACTGATCACCCTCTATCAATACTACATAAAATTTAATTATTTTGTCAAATATTCAT
126 AAAATTATAACTGATCACACTCTATCAATAATACATAAAATTTAACTATTGTGTCAAATATTCAT
* * *
26761316 TGGCATTCAATTGTTTCCTTTAATAGTGACAAATAAATTTTATAATA-AACTAAACTTTATCGCT
191 TGGCATTCAATTGTTTACTCTAATAGTCACAAATAAATTTTATAATATAA-TAAACTTTATCGCT
* *
26761380 TTTATTCACCAACCGCCTTTAAACATTTTAAGAAATAAGTATTAAAATAAGTAGGTTATTCAATT
255 TTTATTCACCAACCACCTTTAAACATTATAAGAAATAAGTATTAAAATAAGTAGGTTATTCAATT
26761445 GTTTCCTCTA
Statistics
Matches: 268, Mismatches: 44, Indels: 14
0.82 0.13 0.04
Matches are distributed among these distances:
354 5 0.02
355 216 0.81
356 3 0.01
357 42 0.16
358 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (355 bp):
AAAAATTGTAAAAAAAGGTATAATATTTATAATACTCATTTTTTTATACATAAAGTTGATAAATA
ACTTGTCGAATTTCTCAAATCAAAGCAATATATATTGTATTTTACAAGATTTGTATAATTAAAAT
TATAACTGATCACACTCTATCAATAATACATAAAATTTAACTATTGTGTCAAATATTCATTGGCA
TTCAATTGTTTACTCTAATAGTCACAAATAAATTTTATAATATAATAAACTTTATCGCTTTTATT
CACCAACCACCTTTAAACATTATAAGAAATAAGTATTAAAATAAGTAGGTTATTCAATTATTTTC
TCAAGTAGTCACAAATAATAACTAAGGTTG
Found at i:26761468 original size:117 final size:118
Alignment explanation
Indices: 26761320--26761554 Score: 296
Period size: 118 Copynumber: 2.0 Consensus size: 118
26761310 ATTCATTGGC
* * *
26761320 ATTCAATTGTTTCCTTTAATAGTGACAAAT-AAATTTTATAATAA-ACTAAACTTTATCGCTTTT
1 ATTCAATTGTTTCCTCTAATAATGACAAATAAAATTTTATAATAAGA-TAAACTTTATCACTTTT
*
26761383 ATTCACCAACCGCCTTTAAACATTTTAA-GAAATAAGTATTAAAATAAGTAGGTT
65 ATTCACCAACCGCCTTTAAACATTTTAATG-AATAACTATTAAAATAAGTAGGTT
* * *
26761437 ATTCAATTGTTTCCTCTAATAATTACAAATAAAATTTTATACTAAGATAAATTTTATCACTTTTA
1 ATTCAATTGTTTCCTCTAATAATGACAAATAAAATTTTATAATAAGATAAACTTTATCACTTTTA
* * * * * * * *
26761502 TTTACCTACTGGCTTTAAAGATTTTAATGAATAACTCTTAAAGTGAGTAGGTT
66 TTCACCAACCGCCTTTAAACATTTTAATGAATAACTATTAAAATAAGTAGGTT
26761555 TTATTTCTAA
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
117 27 0.27
118 71 0.71
119 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (118 bp):
ATTCAATTGTTTCCTCTAATAATGACAAATAAAATTTTATAATAAGATAAACTTTATCACTTTTA
TTCACCAACCGCCTTTAAACATTTTAATGAATAACTATTAAAATAAGTAGGTT
Found at i:26762304 original size:117 final size:116
Alignment explanation
Indices: 26762084--26762305 Score: 315
Period size: 117 Copynumber: 1.9 Consensus size: 116
26762074 CTTTGTTGCC
* * *
26762084 ATTAAATTGTTTCCTATAATAGTGATACATAAATTTTATACTAAGATAACTTTATCGTTTTTATT
1 ATTAAATTGTTTCCTATAATAGTCAGACATAAATTTTATACTAAGATAACTTTATCGTTTTTATA
* *
26762149 CACTTATCTCCTTTAAAGATTTTAAGAAATAAGTATTAAAATGAATTGATT
66 CACTTACCTCCATTAAAGATTTTAAGAAATAAGTATTAAAATGAATTGATT
* *
26762200 ATTAAATTGTTTCCTCA-AATAGTCACGA-ATAAATTTTATATTAAGATAAGCTTTATCTTTTTT
1 ATTAAATTGTTTCCT-ATAATAGTCA-GACATAAATTTTATACTAAGATAA-CTTTATCGTTTTT
*
26762263 ATACACTTACCGT-CATTAAAGATTTTAATAAATAAGTATTAAA
63 ATACACTTACC-TCCATTAAAGATTTTAAGAAATAAGTATTAAA
26762306 TTAAATAAGT
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
116 42 0.45
117 51 0.54
118 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (116 bp):
ATTAAATTGTTTCCTATAATAGTCAGACATAAATTTTATACTAAGATAACTTTATCGTTTTTATA
CACTTACCTCCATTAAAGATTTTAAGAAATAAGTATTAAAATGAATTGATT
Found at i:26763058 original size:117 final size:117
Alignment explanation
Indices: 26762842--26763067 Score: 290
Period size: 117 Copynumber: 1.9 Consensus size: 117
26762832 GTTGGCATTT
* *
26762842 AATTGTTTTCTCTAACAATGACAAATAAATTTTATACTGAGCTAAACTTTATCGCTTTTATTCAC
1 AATTATTTTCTCTAACAATCACAAATAAATTTTATACTGAGCTAAACTTTATCGCTTTTATTCAC
* * * * * *
26762907 CAATTACCTTTAAAGGTTTTAGGAAATAAGTATTAAAATGAATATGTTATTC
66 CAATCACATTTAAAGATTGTAAGAAATAAATATTAAAATGAATATGTTATTC
* * * * *
26762959 AATTATTTTCTCTAATAGTCACAAATAAATTTTATACTTAGGTAAATTTTATCGCTTTTATTCAC
1 AATTATTTTCTCTAACAATCACAAATAAATTTTATACTGAGCTAAACTTTATCGCTTTTATTCAC
* * * * *
26763024 CTATCATATTTAAATATTGTAATAAATAAATATTAAAGTGAATA
66 CAATCACATTTAAAGATTGTAAGAAATAAATATTAAAATGAATA
26763068 GGTCTTATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
117 91 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (117 bp):
AATTATTTTCTCTAACAATCACAAATAAATTTTATACTGAGCTAAACTTTATCGCTTTTATTCAC
CAATCACATTTAAAGATTGTAAGAAATAAATATTAAAATGAATATGTTATTC
Found at i:26764724 original size:726 final size:724
Alignment explanation
Indices: 26763367--26764729 Score: 1705
Period size: 726 Copynumber: 1.9 Consensus size: 724
26763357 TTTTTTGTGT
** * *
26763367 AAATCTATCTCGTTGTTTATGATTATGCTAGCTAACATTGAAATTGTATAGAAAGGTATGATATT
1 AAATCTATCTCGTTGTTTAACATTATGCTAGCTAAAATTGAAATTGTATAGAAAGGAATGATATT
* * * ** *
26763432 TATAGTAATTATTCTTTTTTATACATAAATTTGATAAATAAGTTGTTGGGTTTCTCAAATGAAAG
66 TATAGTAATCATTCTTTTTCATACATAAATTTGATAAATAAGTTATTCAGTTTCTCAAATCAAAG
* * *
26763497 TAATAAATATTATATTTTACAAGATTCGTGTAATTAAAATTATAATTGAGCACTTTCTATCAATA
131 TAATAAACATTATATTTTACAAGATTCATGGAATTAAAATTATAATTGAGCACTTTCTATCAATA
* * *
26763562 CTATATAAAATTTAAATATTGTGTCAATTTTGTTTTGCCATTCAATTACTTCCTATAATAAATAA
196 CTATATAAAATTTAAATATTATGTCAATTTTGTGTTGCCATTCAATTACTTCATATAATAAATAA
* * * *
26763627 ATTTTAGACAAAGATGACTTTATTATTTTTATTCATCTATCGTCTTTAAAGATTTTAAGAAAAAA
261 ATTTTAGACAAAGATAACTTTATTACTTTTATTCACCTATCGCCTTTAAAGATTTTAAGAAAAAA
* *
26763692 GTATTAAAATAAGTGAGTTATTTAATTGTTTCCTCTAATAGTCACAAATAAATTTTATACTAAAG
326 GTATTAAAATAAGTAAGTTATTCAATTGTTTCCTCTAATAGTCACAAATAAATTTTATACTAAAG
* * * *
26763757 TAAGCTTGTTCACTTTTTTTCACCTACCAGCATTAAAGATTTTAATAAATTAGTATTAAAGTAAA
391 TAAACTTGTTCACTTTTTATCACCTACCAGCATTAAAGATTTTAAAAAATAAGTATTAAAGTAAA
* * * *
26763822 CATGTTTTATTTTTGAGTGAAAAATATGGTGAAAGTCCTTTATACAACTTGGTGGATCTTGGTAT
456 CAGGTTTTATTTCTGAATGAAAAATATGGTGAAAGTCCTTTATACAACTTGGTGGATCTTAGTAT
* * * * * *
26763887 CCCTTATAAAGGGTTGACCCTGACTTAGTATCTCTTATAAAGACTTCACATTAATAAAGGTTCAG
521 CCCTCACAAAGGGTTGACCCTAACCTAGTATCTCTTATAAAGACTTCACATCAATAAAGATTCAG
* * * * * *
26763952 ATTTGCTCTGATACCACTTATTAGAGTCTCATATTTTTCACCAAAATACATGCTTGCTAGGTGAA
586 ATCTGCTCTAATACCACTTATCAAAGTCTCACATTTTTAACCAAAATACATGCTTGCTAGGTGAA
26764017 AGAAGGTAGATTCACCTTGATATGGACATGACTATTAGGTAGGTTCTTAAGGAAGAGGAAGACAT
651 AGAAGGTAGATTCACCTTGATATGGACATGACTATTAGGTAGGTTCTTAAGGAAGAGGAAGACAT
26764082 CTTTGGTAC
716 CTTTGGTAC
* *
26764091 AAATCTATCTCTTTGTTTAACATTATGCTAGCTAAAATTGAAAAATTGTATAGAAATGAATGATA
1 AAATCTATCTCGTTGTTTAACATTATGCTAGCTAAAATTG--AAATTGTATAGAAAGGAATGATA
* * * *
26764156 TTTATAGTACTCATTCTTTTTCATACATAAATTTGGTAAATAAGTTATTCATTTTTTCAAATCAA
64 TTTATAGTAATCATTCTTTTTCATACATAAATTTGATAAATAAGTTATTCAGTTTCTCAAATCAA
* * * *
26764221 AGTAATATACATTATATTTTTCAAGATTCATGGAATTAAAATTATTATTG-GTCACTTTCTATTA
129 AGTAATAAACATTATATTTTACAAGATTCATGGAATTAAAATTATAATTGAG-CACTTTCTATCA
* * * ** * *
26764285 ATACTTTATAAAATTTAATTATTATGTCAATTCTT-TGTTGCTA-TCAATTGTTTCATGTACT-A
193 ATACTATATAAAATTTAAATATTATGTCAATT-TTGTGTTGCCATTCAATTACTTCATATAATAA
* * * *
26764347 GTGAAATTTTATACTAAGATAACTTTATTACTTTTATTCACCTATTGCCTTTAAAAGATTTTAAG
257 AT-AAATTTTAGACAAAGATAACTTTATTACTTTTATTCACCTATCGCCTTT-AAAGATTTTAAG
* * *
26764412 AAATAAGTTTTAAAATGAA-TAAGTTATTCAATTGTTTCCTTTAATAGTCACAAATAAATTTTAT
320 AAAAAAGTATTAAAAT-AAGTAAGTTATTCAATTGTTTCCTCTAATAGTCACAAATAAATTTTAT
* * *
26764476 ACT-AAGATAAACTT-TAT-AGC-TTTTATCATCTATCA-CTTTTAAAGATTTTAAAAAATAAGT
384 ACTAAAG-TAAACTTGT-TCA-CTTTTTATCACCTACCAGC-ATTAAAGATTTTAAAAAATAAGT
* * *
26764536 ATTAAAGTGAATAGGTTTTATTTCTGAATGAAAAATATGGTGAAAGTTCTTTATACAACTTGGTG
445 ATTAAAGTAAACAGGTTTTATTTCTGAATGAAAAATATGGTGAAAGTCCTTTATACAACTTGGTG
* * * * * *
26764601 GA-CTCTAGTATCTCTCACAAAGGGTTGA-TCTCAACCTGGTATCTCTTATGAAG-GTCTCACGT
510 GATCT-TAGTATCCCTCACAAAGGGTTGACCCT-AACCTAGTATCTCTTATAAAGACT-TCACAT
* * * * *
26764663 CAGTGAAA-ATTTAGGTCTGCTGC-AATATCAGTTATCAAAG-CTCCACATTTTTAATCCAAAAT
572 CAAT-AAAGATTCAGATCTGCT-CTAATACCACTTATCAAAGTCT-CACATTTTTAA-CCAAAAT
26764725 ACATG
633 ACATG
26764730 TATATCCACA
Statistics
Matches: 538, Mismatches: 83, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
724 46 0.09
725 227 0.42
726 261 0.49
727 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (724 bp):
AAATCTATCTCGTTGTTTAACATTATGCTAGCTAAAATTGAAATTGTATAGAAAGGAATGATATT
TATAGTAATCATTCTTTTTCATACATAAATTTGATAAATAAGTTATTCAGTTTCTCAAATCAAAG
TAATAAACATTATATTTTACAAGATTCATGGAATTAAAATTATAATTGAGCACTTTCTATCAATA
CTATATAAAATTTAAATATTATGTCAATTTTGTGTTGCCATTCAATTACTTCATATAATAAATAA
ATTTTAGACAAAGATAACTTTATTACTTTTATTCACCTATCGCCTTTAAAGATTTTAAGAAAAAA
GTATTAAAATAAGTAAGTTATTCAATTGTTTCCTCTAATAGTCACAAATAAATTTTATACTAAAG
TAAACTTGTTCACTTTTTATCACCTACCAGCATTAAAGATTTTAAAAAATAAGTATTAAAGTAAA
CAGGTTTTATTTCTGAATGAAAAATATGGTGAAAGTCCTTTATACAACTTGGTGGATCTTAGTAT
CCCTCACAAAGGGTTGACCCTAACCTAGTATCTCTTATAAAGACTTCACATCAATAAAGATTCAG
ATCTGCTCTAATACCACTTATCAAAGTCTCACATTTTTAACCAAAATACATGCTTGCTAGGTGAA
AGAAGGTAGATTCACCTTGATATGGACATGACTATTAGGTAGGTTCTTAAGGAAGAGGAAGACAT
CTTTGGTAC
Found at i:26764825 original size:45 final size:45
Alignment explanation
Indices: 26764761--26764851 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
26764751 TTAGGTATGC
* **
26764761 TTTGATACTACTTATTAGAGTCTTGC-TTTTTTAACCCAAAATACA
1 TTTGATACTACTTATTAGAGCCTCACATTTTTT-ACCCAAAATACA
* * *
26764806 TTTGATATTATTTATTAGAGCCTCACATTTTTTACTCAAAATACA
1 TTTGATACTACTTATTAGAGCCTCACATTTTTTACCCAAAATACA
26764851 T
1 T
26764852 GCCTAATAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 33 0.85
46 6 0.15
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (45 bp):
TTTGATACTACTTATTAGAGCCTCACATTTTTTACCCAAAATACA
Found at i:26766309 original size:18 final size:18
Alignment explanation
Indices: 26766261--26766311 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
26766251 TGCTAATGCA
*
26766261 ATTATCATATTTTTTGTT
1 ATTATAATATTTTTTGTT
*
26766279 ATTATTAATTATTTTTATTTT
1 ATTA-TAA-TATTTTT-TGTT
26766300 ATTAT-ATATTTT
1 ATTATAATATTTT
26766312 ATTATCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 10 0.36
19 3 0.11
20 8 0.29
21 7 0.25
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTATAATATTTTTTGTT
Found at i:26766311 original size:12 final size:13
Alignment explanation
Indices: 26766294--26766323 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
26766284 TAATTATTTT
26766294 TATTTTATTAT-A
1 TATTTTATTATCA
26766306 TATTTTATTATCA
1 TATTTTATTATCA
26766319 TATTT
1 TATTT
26766324 CCTATTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTTTATTATCA
Found at i:26766363 original size:16 final size:16
Alignment explanation
Indices: 26766277--26766357 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 16
26766267 ATATTTTTTG
26766277 TTATTATTAATTATTT-
1 TTATTATT-ATTATTTC
* *
26766293 TTATT-TTATTATATA
1 TTATTATTATTATTTC
* *
26766308 TT-TTATTATCATAT-
1 TTATTATTATTATTTC
** *
26766322 TTCCTATTCTTATTTC
1 TTATTATTATTATTTC
*
26766338 TTATTATTATTATTTT
1 TTATTATTATTATTTC
26766354 TTAT
1 TTAT
26766358 CTTTATCTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
14 10 0.20
15 20 0.39
16 21 0.41
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTATTATTATTTC
Found at i:26766492 original size:14 final size:14
Alignment explanation
Indices: 26766451--26766519 Score: 63
Period size: 14 Copynumber: 4.9 Consensus size: 14
26766441 GTGAATAAAA
26766451 ATTATATATTTTTT
1 ATTATATATTTTTT
*
26766465 ATTATGCTA-TTTTT
1 ATTAT-ATATTTTTT
*
26766479 ATTTTATATATTTTT
1 ATTATATAT-TTTTT
*
26766494 -TTATAT-TTCTATT
1 ATTATATATT-TTTT
26766507 ATTATATATTTTT
1 ATTATATATTTTT
26766520 CATAAGCAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
12 1 0.02
13 6 0.14
14 27 0.63
15 9 0.21
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (14 bp):
ATTATATATTTTTT
Found at i:26766497 original size:28 final size:27
Alignment explanation
Indices: 26766451--26766519 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 27
26766441 GTGAATAAAA
*
26766451 ATTATATATTTTTTATTATGCTATTTTTATT
1 ATTATATA-TTTTTATTA---TATTTCTATT
26766482 -TTATATATTTTT-TTATATTTCTATT
1 ATTATATATTTTTATTATATTTCTATT
26766507 ATTATATATTTTT
1 ATTATATATTTTT
26766520 CATAAGCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
25 9 0.25
26 12 0.33
28 3 0.08
29 5 0.14
30 7 0.19
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (27 bp):
ATTATATATTTTTATTATATTTCTATT
Found at i:26767756 original size:92 final size:91
Alignment explanation
Indices: 26767639--26767920 Score: 417
Period size: 92 Copynumber: 3.1 Consensus size: 91
26767629 CTCACTTGGA
* * *
26767639 TCGGCTCTTCCTTCCAGCGTCGACAGATCTGGTGGCGCGATGGTCGGGCTCCTTCTCGCGCCGGC
1 TCGGCTCTTCCTTCCAACGTCGACAGATCTGGTGGCGCGATGGTCTGG-TCCTTCTCACGCCGGC
* *
26767704 GAACTCCTCCTTGCGGCGTCGGTCAAG
65 GAACTCCTCCTTGCGGCGTCGCTAAAG
*
26767731 TCGGCTCTTCCTTCCAACGTTGACAGATCTGGTGGCGCGATGGTCTGGTCCCTTCTCACGCCGGC
1 TCGGCTCTTCCTTCCAACGTCGACAGATCTGGTGGCGCGATGGTCTGGT-CCTTCTCACGCCGGC
26767796 GAACTCCTCCTTGCGGCGTCGCTAAAG
65 GAACTCCTCCTTGCGGCGTCGCTAAAG
* * *
26767823 TCGGCTC-TCC--CCAACCGACGACAGATCTGGTGGAGCGACGGTCTGGTTCCTTCTCACGCCGG
1 TCGGCTCTTCCTTCCAA-CGTCGACAGATCTGGTGGCGCGATGGTCTGG-TCCTTCTCACGCCGG
*
26767885 CGAGCTCCTCCTTGCGGCGTCGCTAAAG
64 CGAACTCCTCCTTGCGGCGTCGCTAAAG
26767913 TCGGCTCT
1 TCGGCTCT
26767921 CCCCAACCGG
Statistics
Matches: 175, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
89 4 0.02
90 75 0.43
91 5 0.03
92 91 0.52
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (91 bp):
TCGGCTCTTCCTTCCAACGTCGACAGATCTGGTGGCGCGATGGTCTGGTCCTTCTCACGCCGGCG
AACTCCTCCTTGCGGCGTCGCTAAAG
Found at i:26767887 original size:90 final size:90
Alignment explanation
Indices: 26767659--26767935 Score: 412
Period size: 90 Copynumber: 3.1 Consensus size: 90
26767649 CTTCCAGCGT
* * *
26767659 CGACAGATCTGGTGGCGCGATGGTCGGGCTCCTTCTCGCGCCGGCGAACTCCTCCTTGCGGCGTC
1 CGACAGATCTGGTGGCGCGATGGTCTGGTTCCTTCTCACGCCGGCGAACTCCTCCTTGCGGCGTC
* * *
26767724 GGTCAAGTCGGCTCTTCCTTCCAA-CGT
66 GCTAAAGTCGGCTC-TCC--CCAACCGA
* *
26767751 TGACAGATCTGGTGGCGCGATGGTCTGGTCCCTTCTCACGCCGGCGAACTCCTCCTTGCGGCGTC
1 CGACAGATCTGGTGGCGCGATGGTCTGGTTCCTTCTCACGCCGGCGAACTCCTCCTTGCGGCGTC
26767816 GCTAAAGTCGGCTCTCCCCAACCGA
66 GCTAAAGTCGGCTCTCCCCAACCGA
* * *
26767841 CGACAGATCTGGTGGAGCGACGGTCTGGTTCCTTCTCACGCCGGCGAGCTCCTCCTTGCGGCGTC
1 CGACAGATCTGGTGGCGCGATGGTCTGGTTCCTTCTCACGCCGGCGAACTCCTCCTTGCGGCGTC
*
26767906 GCTAAAGTCGGCTCTCCCCAACCGG
66 GCTAAAGTCGGCTCTCCCCAACCGA
26767931 CGACA
1 CGACA
26767936 AACCCTCAGC
Statistics
Matches: 170, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
89 4 0.02
90 91 0.54
91 3 0.02
92 72 0.42
ACGTcount: A:0.13, C:0.35, G:0.29, T:0.22
Consensus pattern (90 bp):
CGACAGATCTGGTGGCGCGATGGTCTGGTTCCTTCTCACGCCGGCGAACTCCTCCTTGCGGCGTC
GCTAAAGTCGGCTCTCCCCAACCGA
Found at i:26768957 original size:30 final size:29
Alignment explanation
Indices: 26768923--26769044 Score: 94
Period size: 30 Copynumber: 4.3 Consensus size: 29
26768913 TAAAAAAAAG
*
26768923 GTTGTTACAAGTCATGTTGAAAAAAATATT
1 GTTGTTACAAGTCATATTG-AAAAAATATT
* *
26768953 GTTGTTACACGTCATATT-CAAAAATA--
1 GTTGTTACAAGTCATATTGAAAAAATATT
* *
26768979 --TGTTACACGCCATATTGAAAAAAATATT
1 GTTGTTACAAGTCATATTG-AAAAAATATT
* * * *
26769007 GTTGTTA-TACTCCATGTTGAAAAAATATC
1 GTTGTTACAAGT-CATATTGAAAAAATATT
26769036 GTTGTTACA
1 GTTGTTACA
26769045 TGCTACGTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
24 15 0.21
26 7 0.10
28 7 0.10
29 16 0.22
30 27 0.38
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (29 bp):
GTTGTTACAAGTCATATTGAAAAAATATT
Found at i:26768982 original size:24 final size:24
Alignment explanation
Indices: 26768955--26769000 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
26768945 AAAATATTGT
*
26768955 TGTTACACGTCATATTCAAAAATA
1 TGTTACACGCCATATTCAAAAATA
*
26768979 TGTTACACGCCATATTGAAAAA
1 TGTTACACGCCATATTCAAAAA
26769001 AATATTGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.30
Consensus pattern (24 bp):
TGTTACACGCCATATTCAAAAATA
Found at i:26770621 original size:47 final size:50
Alignment explanation
Indices: 26770570--26770667 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
26770560 TACTCCACCG
* *
26770570 CCTTTAAAGATTTTAAT-AA-ATA-AGTATTATTATTAAGTTTTATTTCT
1 CCTTTAAAGATTTCAATAAAGAAATAGTATTATTATTAAGTTTTATTTCT
*
26770617 CCTTTAAAGATTTCAATAAAGAAATATTATTATTATTAAGTTTTATTTCT
1 CCTTTAAAGATTTCAATAAAGAAATAGTATTATTATTAAGTTTTATTTCT
26770667 C
1 C
26770668 ACTGAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 16 0.36
48 2 0.04
49 2 0.04
50 25 0.56
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (50 bp):
CCTTTAAAGATTTCAATAAAGAAATAGTATTATTATTAAGTTTTATTTCT
Found at i:26775015 original size:91 final size:91
Alignment explanation
Indices: 26774860--26775042 Score: 323
Period size: 91 Copynumber: 2.0 Consensus size: 91
26774850 ATCATAGTGA
26774860 GATTTTAGCAGTCGACACAATCCAAATTCAAATATATTTATTTAAACCTAGTAATTAATTTCCAT
1 GATTTTAGCAGTCGACACAATCCAAATTCAAATATATTTATTTAAACCTAGTAATTAATTTCCAT
*
26774925 AGA-ATTGGAAATGTGATTAAAACTAG
66 A-ACACTGGAAATGTGATTAAAACTAG
* *
26774951 GATTTTAGCAGTCTACATAATCCAAATTCAAATATATTTATTTAAACCTAGTAATTAATTTCCAT
1 GATTTTAGCAGTCGACACAATCCAAATTCAAATATATTTATTTAAACCTAGTAATTAATTTCCAT
26775016 AACACTGGAAATGTGATTAAAACTAG
66 AACACTGGAAATGTGATTAAAACTAG
26775042 G
1 G
26775043 CAGTAGGCAG
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
90 1 0.01
91 87 0.99
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (91 bp):
GATTTTAGCAGTCGACACAATCCAAATTCAAATATATTTATTTAAACCTAGTAATTAATTTCCAT
AACACTGGAAATGTGATTAAAACTAG
Found at i:26779112 original size:33 final size:33
Alignment explanation
Indices: 26779073--26779172 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
26779063 TAAAATGTAG
* *
26779073 AGAGGTTGTGCTTACTCCTTGAAAATGCATTGT
1 AGAGGTTGTGCTTACTCATTGAAAAGGCATTGT
* * *
26779106 AGAGGTTGTTCTTGCTCATTGAAAAGGTATTGT
1 AGAGGTTGTGCTTACTCATTGAAAAGGCATTGT
* * *
26779139 AAAGGTTGTGCTTACTTCTTTAAAAAGGCATTGT
1 AGAGGTTGTGCTTAC-TCATTGAAAAGGCATTGT
26779173 TGCAATGGTT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
33 40 0.73
34 15 0.27
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (33 bp):
AGAGGTTGTGCTTACTCATTGAAAAGGCATTGT
Found at i:26781300 original size:29 final size:29
Alignment explanation
Indices: 26781267--26781344 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
26781257 TTTAATTCAA
* **
26781267 AATAAAAAAATAAAGATTTGATTGAAGGT
1 AATAAAAATATAAAGATTTGATTGAAGAC
*
26781296 AATAAAAATAT-AAGAGTTTGATTGAATAC
1 AATAAAAATATAAAGA-TTTGATTGAAGAC
26781325 AATAAAAATATAAGAGATTT
1 AATAAAAATATAA-AGATTT
26781345 ATCAATTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 4 0.10
29 31 0.74
30 4 0.10
31 3 0.07
ACGTcount: A:0.55, C:0.01, G:0.14, T:0.29
Consensus pattern (29 bp):
AATAAAAATATAAAGATTTGATTGAAGAC
Found at i:26781302 original size:27 final size:29
Alignment explanation
Indices: 26781272--26781340 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
26781262 TTCAAAATAA
**
26781272 AAAAATA-AAGA-TTTGATTGAAGGTAAT
1 AAAAATATAAGAGTTTGATTGAAGACAAT
*
26781299 AAAAATATAAGAGTTTGATTGAATACAAT
1 AAAAATATAAGAGTTTGATTGAAGACAAT
26781328 AAAAATATAAGAG
1 AAAAATATAAGAG
26781341 ATTTATCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 7 0.19
28 4 0.11
29 26 0.70
ACGTcount: A:0.55, C:0.01, G:0.16, T:0.28
Consensus pattern (29 bp):
AAAAATATAAGAGTTTGATTGAAGACAAT
Found at i:26790037 original size:20 final size:18
Alignment explanation
Indices: 26790002--26790085 Score: 73
Period size: 20 Copynumber: 4.4 Consensus size: 18
26789992 CTAGGAATAT
*
26790002 ATATTTAAT-GAATATTA
1 ATATTTAATAAAATATTA
26790019 ATATTTAACCTAAAATATTAA
1 ATATTTAA--TAAAATATT-A
* *
26790040 AAAATTAA-AAATATATTA
1 ATATTTAATAAA-ATATTA
26790058 ATATTTAATTTAAAATATTA
1 ATATTTAA--TAAAATATTA
26790078 ATATTTAA
1 ATATTTAA
26790086 ATTATTCAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
17 8 0.15
18 10 0.19
19 6 0.11
20 20 0.37
21 10 0.19
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (18 bp):
ATATTTAATAAAATATTA
Found at i:26790316 original size:63 final size:64
Alignment explanation
Indices: 26790218--26790400 Score: 246
Period size: 64 Copynumber: 2.9 Consensus size: 64
26790208 TGGTATATAT
* * * *
26790218 ATAATTATATGTTTTGGATG-TTAACACAATTGATAAATATTGATA-TTTTATAGTGAATACAC
1 ATAAATATAAGTTTTGAATGTTTTACACAATTGATAAATATTGATACTTTTATAGTGAATACAC
* *
26790280 ATAAATATAAGTTTTGAATGTTTTACACAATTGATAAATATTAATATTTTTATAGTGAATACAC
1 ATAAATATAAGTTTTGAATGTTTTACACAATTGATAAATATTGATACTTTTATAGTGAATACAC
* * * *
26790344 ATAAACATAAGTTTT-AGATGTCTTACATAATTTATAAATATTGATACTTTTATAGTG
1 ATAAATATAAGTTTTGA-ATGTTTTACACAATTGATAAATATTGATACTTTTATAGTG
26790401 TTATAGTAAA
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
62 17 0.16
63 24 0.22
64 66 0.62
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.43
Consensus pattern (64 bp):
ATAAATATAAGTTTTGAATGTTTTACACAATTGATAAATATTGATACTTTTATAGTGAATACAC
Found at i:26792931 original size:8 final size:8
Alignment explanation
Indices: 26792918--26792959 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
26792908 TTTTTCTTTC
26792918 CTCTTTTT
1 CTCTTTTT
26792926 CTCTTTTT
1 CTCTTTTT
26792934 CTC-TTTT
1 CTCTTTTT
* *
26792941 ATGTTTTT
1 CTCTTTTT
26792949 CTCTTTTT
1 CTCTTTTT
26792957 CTC
1 CTC
26792960 CCTTAAGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 5 0.17
8 24 0.83
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.71
Consensus pattern (8 bp):
CTCTTTTT
Found at i:26792932 original size:23 final size:23
Alignment explanation
Indices: 26792906--26792959 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
26792896 TTTCTTATCT
* *
26792906 TTTTTTTCTTTCCTCTTTTTCTC
1 TTTTTCTCTTTCATCTTTTTCTC
* *
26792929 TTTTTCTCTTTTATGTTTTTCTC
1 TTTTTCTCTTTCATCTTTTTCTC
26792952 TTTTTCTC
1 TTTTTCTC
26792960 CCTTAAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTTCTCTTTCATCTTTTTCTC
Found at i:26792940 original size:15 final size:15
Alignment explanation
Indices: 26792906--26792959 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
26792896 TTTCTTATCT
* *
26792906 TTTTTTTCTTTCCTC
1 TTTTTCTCTTTTCTC
26792921 TTTTTCTCTTTTTCTC
1 TTTTTCTC-TTTTCTC
*
26792937 TTTTATGT-TTTTCTC
1 TTTT-TCTCTTTTCTC
26792952 TTTTTCTC
1 TTTTTCTC
26792960 CCTTAAGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 2 0.06
15 18 0.56
16 10 0.31
17 2 0.06
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTTCTCTTTTCTC
Found at i:26793459 original size:33 final size:33
Alignment explanation
Indices: 26793407--26793469 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
26793397 GCCACGTCAA
* *
26793407 CAATGACATCAGCTTTTAGAGAGACTAAATCAG
1 CAATGACATAAGCTCTTAGAGAGACTAAATCAG
* *
26793440 CAATGACATAAGCTCTTAGAGGGATTAAAT
1 CAATGACATAAGCTCTTAGAGAGACTAAAT
26793470 TGTTGCGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (33 bp):
CAATGACATAAGCTCTTAGAGAGACTAAATCAG
Found at i:26797312 original size:2 final size:2
Alignment explanation
Indices: 26797305--26797336 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
26797295 TTACACCATC
26797305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26797337 GCTGGATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26798086 original size:2 final size:2
Alignment explanation
Indices: 26798048--26798072 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26798038 AAAGAGTAAG
26798048 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 A
26798073 GTTAAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26798549 original size:18 final size:18
Alignment explanation
Indices: 26798500--26798541 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
26798490 TAAAATTAAA
*
26798500 AAAAAAATAAAAATGAAATT
1 AAAAAATTAAAAA--AAATT
26798520 AAAAAATTAAAAAAAATT
1 AAAAAATTAAAAAAAATT
26798538 AAAA
1 AAAA
26798542 TTTCAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
20 12 0.57
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAAATTAAAAAAAATT
Found at i:26799455 original size:25 final size:25
Alignment explanation
Indices: 26799427--26799481 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
26799417 ATTAATAATT
26799427 TATAATTTAAATA-TCAATATTTTAA
1 TATAATTTAAATACT-AATATTTTAA
*
26799452 TATAATTTAATTACTAATATTTTAA
1 TATAATTTAAATACTAATATTTTAA
26799477 T-TAAT
1 TATAAT
26799482 AANNNNNNNN
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.14
25 23 0.82
26 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
TATAATTTAAATACTAATATTTTAA
Found at i:26800077 original size:12 final size:12
Alignment explanation
Indices: 26800060--26800090 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
26800050 ACAGTAGCTT
26800060 CCGTCGCAGTCG
1 CCGTCGCAGTCG
*
26800072 CCGTCGTAGTCG
1 CCGTCGCAGTCG
26800084 CCGTCGC
1 CCGTCGC
26800091 TTCCGCTGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.06, C:0.42, G:0.32, T:0.19
Consensus pattern (12 bp):
CCGTCGCAGTCG
Found at i:26809317 original size:21 final size:21
Alignment explanation
Indices: 26809284--26809323 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26809274 TGTCAGGCTC
*
26809284 AAAAAAAAATAAAACAAAATT
1 AAAAAAAAATAAAAAAAAATT
* *
26809305 AAAAACAATTAAAAAAAAA
1 AAAAAAAAATAAAAAAAAA
26809324 GATCGATCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.12
Consensus pattern (21 bp):
AAAAAAAAATAAAAAAAAATT
Found at i:26819240 original size:19 final size:19
Alignment explanation
Indices: 26819214--26819267 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
26819204 TATTATGTAA
26819214 TTAT-TATTTTATTTTACT
1 TTATATATTTTATTTTACT
26819232 TTATATATTTT-TTATT-CT
1 TTATATATTTTATT-TTACT
*
26819250 TCTATATTTTTTATTTTA
1 T-TATATATTTTATTTTA
26819268 TATTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 9 0.30
19 19 0.63
20 2 0.07
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (19 bp):
TTATATATTTTATTTTACT
Found at i:26819283 original size:17 final size:16
Alignment explanation
Indices: 26819225--26819282 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
26819215 TATTATTTTA
*
26819225 TTTTACTTTATATATT
1 TTTTATTTTATATATT
*
26819241 TTTTATTCTTCTATATT
1 TTTTATT-TTATATATT
*
26819258 TTTTATTTTATATTTT
1 TTTTATTTTATATATT
26819274 TTTTATTTT
1 TTTTATTTT
26819283 TTCCTAACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
16 22 0.59
17 15 0.41
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTTTATATATT
Found at i:26819708 original size:3 final size:3
Alignment explanation
Indices: 26819700--26819727 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
26819690 TAAACATCTC
26819700 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
26819728 TTTACTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:26820348 original size:18 final size:18
Alignment explanation
Indices: 26820325--26820369 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
26820315 GTTGCCCCAA
26820325 ATGACCGACCTTCTCTCT
1 ATGACCGACCTTCTCTCT
26820343 ATGACCGACCTTCTCTCT
1 ATGACCGACCTTCTCTCT
*
26820361 ATGATCGAC
1 ATGACCGAC
26820370 AGGCAGCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.36, G:0.13, T:0.31
Consensus pattern (18 bp):
ATGACCGACCTTCTCTCT
Found at i:26826995 original size:2 final size:2
Alignment explanation
Indices: 26826988--26827040 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
26826978 AAACAAAAGA
*
26826988 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26827030 AT AT AT -T AT AT
1 AT AT AT AT AT AT
26827041 TATTAATCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:26831402 original size:13 final size:13
Alignment explanation
Indices: 26831384--26831408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26831374 ATTATCTTAC
26831384 AAATAAAATAAAT
1 AAATAAAATAAAT
26831397 AAATAAAATAAA
1 AAATAAAATAAA
26831409 AAAGAACTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:26837360 original size:17 final size:19
Alignment explanation
Indices: 26837325--26837362 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26837315 CTTTTCTTGG
*
26837325 CTCTCTCTTGGTCTCTTTC
1 CTCTCTCTTAGTCTCTTTC
26837344 CTCTCTCTTAG-CT-TTTC
1 CTCTCTCTTAGTCTCTTTC
26837361 CT
1 CT
26837363 GTTTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.03, C:0.37, G:0.08, T:0.53
Consensus pattern (19 bp):
CTCTCTCTTAGTCTCTTTC
Done.