Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 112 of 121
Found at i:19095091 original size:18 final size:19
Alignment explanation
Indices: 19095056--19095093 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
19095046 TTTTAATTTA
19095056 ATATAATATTTATAAATAT
1 ATATAATATTTATAAATAT
*
19095075 ATATAAT-TTTTTAAATAT
1 ATATAATATTTATAAATAT
19095093 A
1 A
19095094 AATAGCATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATAATATTTATAAATAT
Found at i:19095549 original size:22 final size:21
Alignment explanation
Indices: 19095524--19095567 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
19095514 ATAAAAGCAA
*
19095524 GAAAAACTAAAACTAAAAAAAG
1 GAAAAACTAAAA-AAAAAAAAG
**
19095546 GAAAGGCTAAAAAAAAAAAAG
1 GAAAAACTAAAAAAAAAAAAG
19095567 G
1 G
19095568 CAAATTTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.70, C:0.07, G:0.16, T:0.07
Consensus pattern (21 bp):
GAAAAACTAAAAAAAAAAAAG
Found at i:19096434 original size:2 final size:2
Alignment explanation
Indices: 19096427--19096455 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19096417 TTGAAGGATT
19096427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19096456 TCAGGTTAGA
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19104775 original size:25 final size:25
Alignment explanation
Indices: 19104738--19104788 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
19104728 AGAGACTGGA
* *
19104738 AGCCACTGGCAGCATGATCATGACC
1 AGCCACTGACAGCATGACCATGACC
*
19104763 AGCCATTGACAGCATGACCATGACC
1 AGCCACTGACAGCATGACCATGACC
19104788 A
1 A
19104789 TTTAACTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (25 bp):
AGCCACTGACAGCATGACCATGACC
Found at i:19106962 original size:2 final size:2
Alignment explanation
Indices: 19106944--19106991 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
19106934 CATGGGGCTC
* *
19106944 AT AT GT AT AT CT 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
19106986 AT AT AT
1 AT AT AT
19106992 TAATTGAACG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19108237 original size:3 final size:3
Alignment explanation
Indices: 19108229--19108262 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
19108219 GACCTGTTAT
19108229 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
19108263 GCACATATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:19109491 original size:14 final size:16
Alignment explanation
Indices: 19109472--19109504 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19109462 TTTTCAGATG
19109472 AAAT-AAATTA-ATAA
1 AAATAAAATTATATAA
19109486 AAATAAAATTATATAA
1 AAATAAAATTATATAA
19109502 AAA
1 AAA
19109505 ATTTAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAAAATTATATAA
Found at i:19109635 original size:20 final size:20
Alignment explanation
Indices: 19109595--19109635 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19109585 TTATCACTCG
* **
19109595 TAATTGAAAATTATTTTATT
1 TAATTAAAAATTATTAAATT
19109615 TAATTAAAAATTATTAAATT
1 TAATTAAAAATTATTAAATT
19109635 T
1 T
19109636 TAGTAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TAATTAAAAATTATTAAATT
Found at i:19111221 original size:22 final size:22
Alignment explanation
Indices: 19111189--19111230 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19111179 TCATTTTATC
19111189 ATTAATAAAATATAAA-AATTTT
1 ATTAATAAAAT-TAAATAATTTT
*
19111211 ATTAATGAAATTAAATAATT
1 ATTAATAAAATTAAATAATT
19111231 ATCACAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTAATAAAATTAAATAATTTT
Found at i:19123563 original size:32 final size:32
Alignment explanation
Indices: 19123488--19123571 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 32
19123478 ATATTTATTT
* *
19123488 AAATTTAATAATTTATATATTTATATCATATA
1 AAATATAAAAATTTATATATTTATATCATATA
* * * *
19123520 AAATTTTAAAATTTATATATTTATATTATATT
1 AAATATAAAAATTTATATATTTATATCATATA
**
19123552 TTATATAAAAA-TTATATATT
1 AAATATAAAAATTTATATATT
19123572 ACGATTTGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 9 0.20
32 35 0.80
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (32 bp):
AAATATAAAAATTTATATATTTATATCATATA
Found at i:19126806 original size:30 final size:24
Alignment explanation
Indices: 19126744--19126802 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
19126734 ACAACAGGCA
19126744 CCACCTCCACCAGGGTATGGGTAC
1 CCACCTCCACCAGGGTATGGGTAC
19126768 CCACCTCCACCAGGGTATGGGTAC
1 CCACCTCCACCAGGGTATGGGTAC
19126792 CCACCTCCACC
1 CCACCTCCACC
19126803 TCCAGGATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.20, C:0.44, G:0.20, T:0.15
Consensus pattern (24 bp):
CCACCTCCACCAGGGTATGGGTAC
Found at i:19126819 original size:27 final size:24
Alignment explanation
Indices: 19126744--19126847 Score: 82
Period size: 24 Copynumber: 4.2 Consensus size: 24
19126734 ACAACAGGCA
* *
19126744 CCACCTCCACCAGGGTATGGGTAC
1 CCACCTCCACCAGGATATAGGTAC
* *
19126768 CCACCTCCACCAGGGTATGGGTAC
1 CCACCTCCACCAGGATATAGGTAC
*
19126792 CCACCTCCACCTCCAGGATATAGTTAC
1 CCACCTCCA---CCAGGATATAGGTAC
* * *** *
19126819 CCTCCACCAGGGGGATATGGGTAC
1 CCACCTCCACCAGGATATAGGTAC
19126843 CCACC
1 CCACC
19126848 AGTGCAACAG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
24 47 0.71
27 19 0.29
ACGTcount: A:0.22, C:0.38, G:0.22, T:0.17
Consensus pattern (24 bp):
CCACCTCCACCAGGATATAGGTAC
Found at i:19142885 original size:10 final size:10
Alignment explanation
Indices: 19142870--19142906 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
19142860 TTGATTTTTG
19142870 TAAAAAAAAT
1 TAAAAAAAAT
19142880 T-AAAAAAAT
1 TAAAAAAAAT
19142889 TAAAAAAAAT
1 TAAAAAAAAT
19142899 TAAAAAAA
1 TAAAAAAA
19142907 CTAGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
TAAAAAAAAT
Found at i:19142894 original size:19 final size:19
Alignment explanation
Indices: 19142870--19142916 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
19142860 TTGATTTTTG
*
19142870 TAAAAAAAATTAAAAAAAT
1 TAAAAAAAATTAAAAAAAC
19142889 TAAAAAAAATTAAAAAAAC
1 TAAAAAAAATTAAAAAAAC
19142908 TAGAAAAAA
1 TA-AAAAAA
19142917 CGAAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (19 bp):
TAAAAAAAATTAAAAAAAC
Found at i:19142917 original size:10 final size:9
Alignment explanation
Indices: 19142872--19142916 Score: 63
Period size: 9 Copynumber: 4.8 Consensus size: 9
19142862 GATTTTTGTA
19142872 AAAAAAATT
1 AAAAAAATT
19142881 AAAAAAATT
1 AAAAAAATT
19142890 AAAAAAAATT
1 -AAAAAAATT
*
19142900 AAAAAAACT
1 AAAAAAATT
19142909 AGAAAAAA
1 A-AAAAAA
19142917 CGAAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 18 0.55
10 15 0.45
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (9 bp):
AAAAAAATT
Found at i:19143963 original size:60 final size:59
Alignment explanation
Indices: 19143885--19144189 Score: 355
Period size: 59 Copynumber: 5.2 Consensus size: 59
19143875 TGATCTCTTT
* * * * *
19143885 AAAATGAAAATTTGAAAAAAAATATTTTTGAAG-GAAAGTTGAATGTATCAA-TTTCCTTTG
1 AAAATAAAAATTT-TAAAAAAATATTTTT-AAGAAAAAATTGAAAGTATCAATTTTCC-TTG
* *
19143945 AACATAAAAATTTTAAAAAATATATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTTTAAAAAA-ATATTTTTAAGAAAAAATTGAAAGTATCAATTTTCCTTG
** * *
19144005 AAAATAAAAATTTTTGAAAAATATTTCTAAGAAAAAATTGAAAGCATCAATTTTCCTTG
1 AAAATAAAAATTTTAAAAAAATATTTTTAAGAAAAAATTGAAAGTATCAATTTTCCTTG
* * * *** **
19144064 AAAAAAAAAATTTCAAGAAGGGATTTTTAAGAAAAAATTGAAAGTATCAATTTTTTTTG
1 AAAATAAAAATTTTAAAAAAATATTTTTAAGAAAAAATTGAAAGTATCAATTTTCCTTG
* * *
19144123 AAAAT-AAAATTTTCAAAAAATATTTTTAAGGAAAAATTGAAAGTGTCAATTTTCCTTG
1 AAAATAAAAATTTTAAAAAAATATTTTTAAGAAAAAATTGAAAGTATCAATTTTCCTTG
19144181 AAAATAAAA
1 AAAATAAAA
19144190 TAAAAAAAGA
Statistics
Matches: 205, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
58 48 0.23
59 98 0.48
60 54 0.26
61 5 0.02
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (59 bp):
AAAATAAAAATTTTAAAAAAATATTTTTAAGAAAAAATTGAAAGTATCAATTTTCCTTG
Found at i:19144235 original size:126 final size:125
Alignment explanation
Indices: 19143968--19144317 Score: 448
Period size: 126 Copynumber: 2.8 Consensus size: 125
19143958 TAAAAAATAT
* * * *
19143968 ATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTTTGAAAAATATTTCT
1 ATTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAAT-AAAATTTTTAAAAAATATTTTT
* * *
19144033 AAGAAAAAATTGAAAGCATCAATTTTCCTTG-------AA-AAAAAAAATTTCAAGAAGGG
65 AAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAATAAAAAAAATTTCAAGAACGG
* *
19144086 ATTTTTAAGAAAAAATTGAAAGTATCAATTTTTTTTGAAAATAAAATTTTCAAAAAATATTTTTA
1 ATTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTTAAAAAATATTTTTA
*
19144151 AGGAAAAATTGAAAGTGTCAATTTTCCTTGAAAATAAAATAAAAAAAGATTTCAAGAACGG
66 AGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAATAAAAAAA-ATTTCAAGAACGG
* *
19144212 ATTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAGAATTTTTAAAAAATATTTCTT
1 ATTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTTAAAAAATATTT-TT
* * * * *
19144277 GA-GAAAAAGTTGGAAGTACCAATTTTCTTTAAAAATAAAAT
65 AAGGAAAAA-TTGAAAGTATCAATTTTCCTTGAAAATAAAAT
19144318 TTGAAAAAAA
Statistics
Matches: 201, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
117 47 0.23
118 39 0.19
124 2 0.01
125 7 0.03
126 76 0.38
127 30 0.15
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (125 bp):
ATTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTTAAAAAATATTTTTA
AGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAATAAAAAAAATTTCAAGAACGG
Found at i:19144302 original size:185 final size:175
Alignment explanation
Indices: 19143901--19144365 Score: 486
Period size: 185 Copynumber: 2.6 Consensus size: 175
19143891 AAAATTTGAA
* * *
19143901 AAAAAATATTTTTGA-AGGAAAGTT-GAATGTATCAATTTCCTTTGAACATAAAAATTTTAAAAA
1 AAAAAATATTTTTGAGA-AAAAGTTGGAA-GTATCAATTTTCTTTGAAAAT-AAAATTTTAAAAA
* * ** * *
19143964 ATATATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTTTGAAAAATAT
63 A-ATATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAAAGATTTCAAAAAGAT
19144029 TTCTAAGAAAAAATTGAAAGCATCAATTTTCCTTGAAAAAAAAAATTTC
127 TTCTAAGAAAAAATTGAAAGCATCAATTTTCCTTGAAAAAAAAAATTTC
*** * * * * *
19144078 AAGAAGGGATTTTTAAGAAAAAATTGAAAGTATCAATTTTTTTTGAAAATAAAATTTTCAAAAAA
1 AA-AAAATATTTTTGAGAAAAAGTTGGAAGTATCAATTTTCTTTGAAAATAAAATTTTAAAAAAA
*
19144143 TATTTTTAAGGAAAAATTGAAAGTGTCAATTTTCCTTGAAAATAAAATAAAAAAAGATTTCAAGA
65 TATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTG-----AAAAT--AAAAAGATTTCAA-A
* * * * * * * * *
19144208 ACGGATTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAGAATTTTT
122 A-AGATTTCTAAGAAAAAATTGAAAGCATCAATTTTCCTTGAAAAAAAAAATTTC
* * *
19144263 AAAAAATATTTCTTGAGAAAAAGTTGGAAGTACCAATTTTCTTTAAAAATAAAATTTGAAAAAAA
1 AAAAAATATTT-TTGAGAAAAAGTTGGAAGTATCAATTTTCTTTGAAAATAAAATTTTAAAAAAA
*
19144328 TATTTTTAA-GAAAAAGTTGAAAGTATCAATTTTTCTTG
65 TATTTTTAAGGAAAAA-TTGAAAGTATCAATTTTCCTTG
19144366 TATTAAAAGC
Statistics
Matches: 234, Mismatches: 40, Indels: 20
0.80 0.14 0.07
Matches are distributed among these distances:
176 36 0.15
177 15 0.06
178 32 0.14
179 3 0.01
181 5 0.02
183 10 0.04
184 14 0.06
185 119 0.51
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (175 bp):
AAAAAATATTTTTGAGAAAAAGTTGGAAGTATCAATTTTCTTTGAAAATAAAATTTTAAAAAAAT
ATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAAAGATTTCAAAAAGATTTCT
AAGAAAAAATTGAAAGCATCAATTTTCCTTGAAAAAAAAAATTTC
Found at i:19144304 original size:58 final size:58
Alignment explanation
Indices: 19144212--19144365 Score: 204
Period size: 59 Copynumber: 2.6 Consensus size: 58
19144202 TCAAGAACGG
* **
19144212 ATTTTTAAGGAAAAA-TTGAAAGTATCAATTTTTCTTGAAAATAGAATTTTTAAAAAAT
1 ATTTTTAA-GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTGAAAAAAAT
* * * *
19144270 ATTTCTTGAGAAAAAGTTGGAAGTACCAA-TTTTCTTTAAAAATAAAATTTGAAAAAAAT
1 ATTT-TTAAGAAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAAATTTGAAAAAAAT
19144329 ATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 ATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTG
19144366 TATTAAAAGC
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
58 38 0.47
59 43 0.53
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (58 bp):
ATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTGAAAAAAAT
Found at i:19148387 original size:10 final size:10
Alignment explanation
Indices: 19148366--19148406 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
19148356 AGAATGAAGG
19148366 AAAAAATG--
1 AAAAAATGAA
19148374 AAAAAATGAA
1 AAAAAATGAA
19148384 AAAAAATGAAA
1 AAAAAATG-AA
19148395 AAAAAATGAA
1 AAAAAATGAA
19148405 AA
1 AA
19148407 GATAAAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.27
10 12 0.40
11 10 0.33
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:19148389 original size:18 final size:19
Alignment explanation
Indices: 19148352--19148397 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
19148342 CAATAATGGG
*
19148352 TGAAAGAATGAAGGAAAAAA
1 TGAAAAAATGAA-GAAAAAA
19148372 TGAAAAAATGAA-AAAAAA
1 TGAAAAAATGAAGAAAAAA
19148390 TGAAAAAA
1 TGAAAAAA
19148398 AAATGAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 14 0.56
20 11 0.44
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (19 bp):
TGAAAAAATGAAGAAAAAA
Found at i:19148396 original size:11 final size:11
Alignment explanation
Indices: 19148374--19148406 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
19148364 GGAAAAAATG
19148374 AAAAAATG-AA
1 AAAAAATGAAA
19148384 AAAAAATGAAA
1 AAAAAATGAAA
19148395 AAAAAATGAAA
1 AAAAAATGAAA
19148406 A
1 A
19148407 GATAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAAAATGAAA
Found at i:19149693 original size:21 final size:22
Alignment explanation
Indices: 19149649--19149705 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
19149639 GAATCTTTTT
* *
19149649 ATGAGAATTTTTGAGTTCTCAA
1 ATGAGAATTTTTAAATTCTCAA
*
19149671 ATGAGAATCTTTAAATT-TCAA
1 ATGAGAATTTTTAAATTCTCAA
*
19149692 ATGACAATTTTTAA
1 ATGAGAATTTTTAA
19149706 GGTGTGAAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (22 bp):
ATGAGAATTTTTAAATTCTCAA
Found at i:19149774 original size:21 final size:20
Alignment explanation
Indices: 19149726--19149764 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19149716 CTAAAATTTG
*
19149726 TCAAATGTGAATCTTTGAAC
1 TCAAATGAGAATCTTTGAAC
19149746 TCAAATGAGAATCTTTGAA
1 TCAAATGAGAATCTTTGAA
19149765 TTTTAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
TCAAATGAGAATCTTTGAAC
Found at i:19149842 original size:80 final size:79
Alignment explanation
Indices: 19149666--19149849 Score: 224
Period size: 80 Copynumber: 2.3 Consensus size: 79
19149656 TTTTTGAGTT
* * * * *
19149666 CTCAAATGAGAATCTTTAAATTTCAAATGACAATTTTTAAGGTGTGAAGCCTAAAATTTGTCAAA
1 CTCAAATGAGAATCTTTGAATTTTAAATGAAAATTTTTAAGGTGTGAACCCTAAAATTAGTCAAA
*
19149731 TGTGAATCTTTGAA
66 TGTGAACCTTTGAA
* *
19149745 CTCAAATGAGAATCTTTGAATTTTAAATGAAAATTTTTGAGGTGTGAAACCCTAAGATTAGTCAA
1 CTCAAATGAGAATCTTTGAATTTTAAATGAAAATTTTTAAGGTGTG-AACCCTAAAATTAGTCAA
* * *
19149810 ATTTGAGCCTTTGGA
65 ATGTGAACCTTTGAA
* * *
19149825 CTCGATTGAGAAGCTTTGAACTTTT
1 CTCAAATGAGAATCTTTGAA-TTTT
19149850 GGATATGAGT
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
79 42 0.47
80 43 0.48
81 4 0.04
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (79 bp):
CTCAAATGAGAATCTTTGAATTTTAAATGAAAATTTTTAAGGTGTGAACCCTAAAATTAGTCAAA
TGTGAACCTTTGAA
Found at i:19150209 original size:41 final size:41
Alignment explanation
Indices: 19150098--19150229 Score: 185
Period size: 42 Copynumber: 3.2 Consensus size: 41
19150088 ATGACTCCTT
19150098 TGTTTAGAAGAGCA-TTTATTTTTCAAAGTTGTGGTGCCTC
1 TGTTTAGAAGAGCATTTTATTTTTCAAAGTTGTGGTGCCTC
* * * *
19150138 GGTTTAGAGGAACAATTTTATGTTTCAAAGTTGTGGTGCCTC
1 TGTTTAGAAGAGC-ATTTTATTTTTCAAAGTTGTGGTGCCTC
* * *
19150180 TGTTTAGAAGAGCATTTTATTTTTCAAAGTCGTTGAGCCTC
1 TGTTTAGAAGAGCATTTTATTTTTCAAAGTTGTGGTGCCTC
19150221 TGTTTAGAA
1 TGTTTAGAA
19150230 AAGTTTTGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
40 10 0.13
41 34 0.43
42 35 0.44
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (41 bp):
TGTTTAGAAGAGCATTTTATTTTTCAAAGTTGTGGTGCCTC
Found at i:19150415 original size:18 final size:18
Alignment explanation
Indices: 19150388--19150436 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
19150378 TGATTTTTGT
* *
19150388 AAAAAA-GAAAAAATTTA
1 AAAAAATGAAAAAACTGA
*
19150405 AAAAAATGAAAAGACTGA
1 AAAAAATGAAAAAACTGA
19150423 AAAAAATGAAAAAA
1 AAAAAATGAAAAAA
19150437 AATAAGAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (18 bp):
AAAAAATGAAAAAACTGA
Found at i:19150426 original size:10 final size:9
Alignment explanation
Indices: 19150388--19150437 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
19150378 TGATTTTTGT
19150388 AAAAAA-GA
1 AAAAAATGA
* *
19150396 AAAAATTTA
1 AAAAAATGA
19150405 AAAAAATGA
1 AAAAAATGA
* *
19150414 AAAGACTGA
1 AAAAAATGA
19150423 AAAAAATGA
1 AAAAAATGA
19150432 AAAAAA
1 AAAAAA
19150438 ATAAGAGGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
8 5 0.15
9 28 0.85
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (9 bp):
AAAAAATGA
Found at i:19151462 original size:60 final size:60
Alignment explanation
Indices: 19151380--19151816 Score: 297
Period size: 59 Copynumber: 7.2 Consensus size: 60
19151370 TCAATGATCT
* * *
19151380 CTTTAAAATGAAAATTTGAAAAAATATATTTTTGAAGGAAAGTTGAATGTATCAA-TTTC
1 CTTTAAAATAAAAATTTTAAAAAATATATTTTTGAAGGAAAGTTGAAAGTATCAATTTTC
* * *
19151439 CTTTAAACATAAAAATTTTAAAAAATATATTTTTGAGGGAAAGTTGAAAATATTAATTTT-
1 CTTTAAA-ATAAAAATTTTAAAAAATATATTTTTGAAGGAAAGTTGAAAGTATCAATTTTC
* ** * *
19151499 TTTTAAAATAAAAATTTTTGAAAA-ATATTTCT-AAGGAAAAATTGAAAGTATCAATTTTC
1 CTTTAAAATAAAAATTTTAAAAAATATATTTTTGAAGG-AAAGTTGAAAGTATCAATTTTC
* * * * * *
19151558 CTTGAAAGTAAAAGTTTT-CAAAATATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTC
1 CTTTAAAATAAAAATTTTAAAAAATATATTTTTGAAGGAAAGTTGAAAGTATCAATTTTC
* * * * ** * * *
19151617 CTTGAAAATAAAAAAAAAAAAGATTTCAAGAATGGATTTTT-AAGAAAAAGTTAAAAGTATTAA-
1 CTT-----T--AAAATAAAAA-TTTTAAAAAATATATTTTTGAAG-GAAAGTTGAAAGTATCAAT
19151680 TTTC
57 TTTC
* * * * * * *
19151684 CCTTGAAAT-AGAATTTTCAAAAAA-ACATTTCTTG-AGGAAAAGTTGGAAGTATAAATTTTT
1 CTTTAAAATAAAAATTTT-AAAAAATATATTT-TTGAAGG-AAAGTTGAAAGTATCAATTTTC
* * * * *
19151744 CTTAAAAAT-GAAATTTGAAAAAATATATTTTT-AAGTAAAAGTTGAAAGTGTCAATTTT-
1 CTTTAAAATAAAAATTTTAAAAAATATATTTTTGAAG-GAAAGTTGAAAGTATCAATTTTC
19151802 CTTTGAAAATAAAAA
1 CTTT-AAAATAAAAA
19151817 CCTTAAAATG
Statistics
Matches: 292, Mismatches: 60, Indels: 51
0.72 0.15 0.13
Matches are distributed among these distances:
57 3 0.01
58 39 0.13
59 125 0.43
60 76 0.26
61 3 0.01
62 1 0.00
66 7 0.02
67 12 0.04
68 26 0.09
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (60 bp):
CTTTAAAATAAAAATTTTAAAAAATATATTTTTGAAGGAAAGTTGAAAGTATCAATTTTC
Found at i:19154140 original size:2 final size:2
Alignment explanation
Indices: 19154133--19154172 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
19154123 ATTATGGAGA
*
19154133 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19154173 AATGATCATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:19158790 original size:14 final size:14
Alignment explanation
Indices: 19158771--19158800 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19158761 TTTTTTCCTT
19158771 AAAAAACAAAAACA
1 AAAAAACAAAAACA
*
19158785 AAAAAACAAAGACA
1 AAAAAACAAAAACA
19158799 AA
1 AA
19158801 GATTCCCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAACAAAAACA
Found at i:19160646 original size:26 final size:25
Alignment explanation
Indices: 19160604--19160652 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
19160594 TATTATATAC
*
19160604 GTAGTTTATCATAATATTTAAATCT
1 GTAGTTTATCATAATATATAAATCT
* *
19160629 GTAGATTTATTATTATATATAAAT
1 GTAG-TTTATCATAATATATAAAT
19160653 TTAAAGAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (25 bp):
GTAGTTTATCATAATATATAAATCT
Found at i:19161252 original size:60 final size:60
Alignment explanation
Indices: 19161170--19161535 Score: 447
Period size: 60 Copynumber: 6.0 Consensus size: 60
19161160 CTTTAAAGCA
* * * *
19161170 TTTTGACATTTCTATTTTTAAGAAAAATTGATGCTTTCAACTTTTCCTCAAATATATTTT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTT
**
19161230 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTCAAAAATA-TTT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTT
* * * * *
19161289 TTTTGAAATTTTTATTTTGAAGAAAAATTGAAACTTTTAAGTTTTCCTC-AAAA-ATGTT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTT
* * *
19161347 TTTTGAAATTTTTTTGAAATTTTTAAGAAAAATTGATACTTTTAATTTTTTCTCAAAAATA-TTT
1 TTTTGAAA--TTTTT---ATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTT
* * *
19161411 TTTTGAAGTTTTTATTTTTAAGGAAAATTGATACTTTTCAATTTTTCCTCAAAAATA--TT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATAC-TTTCAACTTTTCCTCAAAAATATTTT
*
19161470 TTTTGAAAATTTTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTT
1 TTTTG-AAA--TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTT
19161533 TTT
1 TTT
19161536 ATTTTTAGAA
Statistics
Matches: 266, Mismatches: 26, Indels: 25
0.84 0.08 0.08
Matches are distributed among these distances:
57 1 0.00
58 14 0.05
59 73 0.27
60 77 0.29
61 20 0.08
62 30 0.11
63 37 0.14
64 13 0.05
65 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (60 bp):
TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTT
Found at i:19161273 original size:122 final size:118
Alignment explanation
Indices: 19161170--19161542 Score: 479
Period size: 122 Copynumber: 3.1 Consensus size: 118
19161160 CTTTAAAGCA
* * *
19161170 TTTTGACATTTCTATTTTTAAGAAAAATTGATGCTTTCAACTTTTCCTCAAATATATTTTTTTTG
1 TTTTGA-ATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAA-A-ATATTTTTTG
19161235 AAA-TTTTTATTTTTAAGAAAAATTGATACTTTCAAC-TTTTTTTCAAAAATATTT
63 AAATTTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTTCAAAAATATTT
* * * * *
19161289 TTTTGAAATTTTTATTTTGAAGAAAAATTGAAACTTTTAAGTTTTCCTCAAAAATGTTTTTTGAA
1 TTTTG-AATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAA
* *
19161354 ATTTTTTTGAAATTTTTAAGAAAAATTGATACTTTTAA-TTTTTTCTCAAAAATATTT
65 A-TTTTTT---ATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTTCAAAAATATTT
* *
19161411 TTTTGAAGTTTTTATTTTTAAGGAAAATTGATACTTTTCAATTTTTCCTCAAAAATATTTTTTGA
1 TTTTGAA-TTTTTATTTTTAAGAAAAATTGATAC-TTTCAACTTTTCCTCAAAAATATTTTTTG-
*
19161476 AAATTTTTTTATTTTTAAGAAAAATTGATACTTTCAAC-TTTTTCTCAAAAATATTT
63 AAA-TTTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTTCAAAAATATTT
19161532 TTTT--ATTTTTA
1 TTTTGAATTTTTA
19161543 GAAAATTATT
Statistics
Matches: 227, Mismatches: 16, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
117 12 0.05
118 7 0.03
119 50 0.22
120 1 0.00
121 50 0.22
122 71 0.31
123 26 0.11
124 10 0.04
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.52
Consensus pattern (118 bp):
TTTTGAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAA
TTTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTTCAAAAATATTT
Found at i:19161319 original size:59 final size:59
Alignment explanation
Indices: 19161170--19161535 Score: 468
Period size: 59 Copynumber: 6.1 Consensus size: 59
19161160 CTTTAAAGCA
* * * * *
19161170 TTTTGACATTTCTATTTTTAAGAAAAATTGATGCTTTCAACTTTTCCTCAAATATATTTT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTT
*
19161230 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTCAAAAATATTT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT
* * * * * *
19161289 TTTTGAAATTTTTATTTTGAAGAAAAATTGAAACTTTTAAGTTTTCCTCAAAAAT-GTT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT
* *
19161347 TTTTGAAATTTTTTTGAAATTTTTAAGAAAAATTGATACTTTTAATTTTTTCTCAAAAATATTT
1 TTTTGAAA--TTTTT---ATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT
* *
19161411 TTTTGAAGTTTTTATTTTTAAGGAAAATTGATACTTTTCAA-TTTTTCCTCAAAAATA-TT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATAC-TTTCAACTTTTT-CTCAAAAATATTT
19161470 TTTTGAAAATTTTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT
1 TTTTG-AAA--TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT
19161532 TTTT
1 TTTT
19161536 ATTTTTAGAA
Statistics
Matches: 270, Mismatches: 23, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
58 10 0.04
59 84 0.31
60 72 0.27
61 16 0.06
62 41 0.15
63 38 0.14
64 9 0.03
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (59 bp):
TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT
Found at i:19161361 original size:11 final size:11
Alignment explanation
Indices: 19161340--19161370 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
19161330 TTTTCCTCAA
19161340 AAATGTTTTTTG
1 AAAT-TTTTTTG
19161352 AAATTTTTTTG
1 AAATTTTTTTG
19161363 AAATTTTT
1 AAATTTTT
19161371 AAGAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (11 bp):
AAATTTTTTTG
Found at i:19161629 original size:11 final size:11
Alignment explanation
Indices: 19161613--19161655 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
19161603 TACATAAGCA
19161613 AAAAAAATAAG
1 AAAAAAATAAG
*
19161624 AAAAAAAATAAT
1 -AAAAAAATAAG
*
19161636 AAATAAATAAG
1 AAAAAAATAAG
*
19161647 AAATAAATA
1 AAAAAAATA
19161656 GATAAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (11 bp):
AAAAAAATAAG
Found at i:19161629 original size:12 final size:12
Alignment explanation
Indices: 19161606--19161649 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
19161596 CAATAAATAC
19161606 ATAAGCAAAAAAA
1 ATAAG-AAAAAAA
19161619 ATAAGAAAAAAA
1 ATAAGAAAAAAA
* *
19161631 ATAA-TAAATAA
1 ATAAGAAAAAAA
19161642 ATAAGAAA
1 ATAAGAAA
19161650 TAAATAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 9 0.33
12 13 0.48
13 5 0.19
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (12 bp):
ATAAGAAAAAAA
Found at i:19161641 original size:19 final size:20
Alignment explanation
Indices: 19161625--19161668 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
19161615 AAAAATAAGA
*
19161625 AAAAAAAT-AATAAATAAAT
1 AAAAAAATAAATAGATAAAT
*
19161644 -AAGAAATAAATAGATAAAT
1 AAAAAAATAAATAGATAAAT
19161663 AAAAAA
1 AAAAAA
19161669 CCTTGACTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
18 6 0.30
19 10 0.50
20 4 0.20
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAAAAATAAATAGATAAAT
Found at i:19161643 original size:23 final size:23
Alignment explanation
Indices: 19161617--19161665 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
19161607 TAAGCAAAAA
19161617 AAATAAGAAAAAAAATA-ATAAAT
1 AAATAAG-AAAAAAATAGATAAAT
*
19161640 AAATAAGAAATAAATAGATAAAT
1 AAATAAGAAAAAAATAGATAAAT
19161663 AAA
1 AAA
19161666 AAACCTTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (23 bp):
AAATAAGAAAAAAATAGATAAAT
Found at i:19162979 original size:14 final size:13
Alignment explanation
Indices: 19162938--19162966 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19162928 AGAAACGATT
19162938 AAAT-AAAAATTA
1 AAATAAAAAATTA
19162950 AAATAAAAAATTA
1 AAATAAAAAATTA
19162963 AAAT
1 AAAT
19162967 TGATAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAAAATTA
Found at i:19174658 original size:26 final size:26
Alignment explanation
Indices: 19174629--19174679 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
19174619 GTTTATCATA
* *
19174629 ATATTTAAATTTATAGACTTATTATT
1 ATATATAAATTTAAAGACTTATTATT
*
19174655 ATATATAAATTTAAAGAGTTATTAT
1 ATATATAAATTTAAAGACTTATTAT
19174680 CAATCTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (26 bp):
ATATATAAATTTAAAGACTTATTATT
Found at i:19175335 original size:59 final size:60
Alignment explanation
Indices: 19175186--19175555 Score: 457
Period size: 60 Copynumber: 6.1 Consensus size: 60
19175176 CTTTAAAGCA
* * *
19175186 TTTTGACATTTTTATTTTTAAGAAAAATTGATGC-TTTCAACTTTTCCTCAAATATATTTT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTTCAACTTTTCCTCAAAAATA-TTT
*
19175246 TTTTGAAATTTTTATTTTTAAGAAAAATTGATA-TTTTCAACTTTTTCTCAAAAATATTT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTTCAACTTTTCCTCAAAAATATTT
* * * *
19175305 TTTTGAAATTTTTATTTTGAAGAAAAATTGAAACTTTT-AAGTTTTCCTCAAAAAT-GTT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTTCAACTTTTCCTCAAAAATATTT
*
19175363 TTTTGAAATGTTTTTTTAATTTTTAAGAAAAATTGATACTTTT-AATTTTTCTTTTCTCAAAAAT
1 TTTTGAAA----TTTTT-ATTTTTAAGAAAAATTGATACTTTTCAACTTTTC----CTCAAAAAT
19175427 ATTT
57 ATTT
* *
19175431 TTTTGAAGTTTTTATTTTTAAGGAAAATTGATACTTTTCAACTTTTCCTCAAAAATA-TT
1 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTTCAACTTTTCCTCAAAAATATTT
* *
19175490 TTTTGAAAATTTTTTTATTTTTAAGAAAAATTGATTC-TTTCAACTTTTTCTCAAAAATATTT
1 TTTTG-AAA--TTTTTATTTTTAAGAAAAATTGATACTTTTCAACTTTTCCTCAAAAATATTT
19175552 TTTT
1 TTTT
19175556 ATTTTTAAAA
Statistics
Matches: 273, Mismatches: 20, Indels: 32
0.84 0.06 0.10
Matches are distributed among these distances:
58 10 0.04
59 56 0.21
60 67 0.25
61 21 0.08
62 35 0.13
63 54 0.20
64 12 0.04
67 9 0.03
68 9 0.03
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.52
Consensus pattern (60 bp):
TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTTCAACTTTTCCTCAAAAATATTT
Found at i:19175584 original size:126 final size:119
Alignment explanation
Indices: 19175193--19175562 Score: 466
Period size: 126 Copynumber: 3.1 Consensus size: 119
19175183 GCATTTTGAC
* * *
19175193 ATTTTTATTTTTAAGAAAAATTGATGC-TTTCAACTTTTCCTCAAATATATTTTTTTTG-AAA--
1 ATTTTTATTTTGAAGAAAAATTGATACTTTTCAACTTTTCCTCAAA-A-ATATTTTTTGAAAATT
19175254 TTTTTATTTTTAAGAAAAATTGATAT-TTTCAACTTTTTCTCAAAAATATTTTTTTGAA
64 TTTTTATTTTTAAGAAAAATTGAT-TCTTTCAACTTTTTCTCAAAAATATTTTTTT--A
* * * *
19175312 ATTTTTATTTTGAAGAAAAATTGAAACTTTT-AAGTTTTCCTCAAAAATGTTTTTTGAAATGTTT
1 ATTTTTATTTTGAAGAAAAATTGATACTTTTCAACTTTTCCTCAAAAATATTTTTTGAAA-ATTT
* * *
19175376 TTTTAATTTTTAAGAAAAATTGATACTTTTAATTTTTCTTTTCTCAAAAATATTTTTTTGA
65 TTTT-ATTTTTAAGAAAAATTGATTCTTTCAA---CT-TTTTCTCAAAAATATTTTTTT-A
* *
19175437 AGTTTTTATTTTTAAGGAAAATTGATACTTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTT
1 A-TTTTTATTTTGAAGAAAAATTGATACTTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTT
19175502 TTTTATTTTTAAGAAAAATTGATTCTTTCAACTTTTTCTCAAAAATATTTTTTT-
65 TTTTATTTTTAAGAAAAATTGATTCTTTCAACTTTTTCTCAAAAATATTTTTTTA
19175556 ATTTTTA
1 ATTTTTA
19175563 AAAATTATTG
Statistics
Matches: 219, Mismatches: 19, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
117 9 0.04
118 9 0.04
119 38 0.17
120 3 0.01
121 26 0.12
122 25 0.11
125 28 0.13
126 55 0.25
127 26 0.12
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (119 bp):
ATTTTTATTTTGAAGAAAAATTGATACTTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTT
TTTATTTTTAAGAAAAATTGATTCTTTCAACTTTTTCTCAAAAATATTTTTTTA
Found at i:19175650 original size:4 final size:4
Alignment explanation
Indices: 19175616--19175678 Score: 53
Period size: 4 Copynumber: 16.5 Consensus size: 4
19175606 CAATTTAATC
* * *
19175616 AATA AATA CATA AGA-A AA-A AAT- AAGA AATA AATA AATA AAT- AAGA
1 AATA AATA AATA A-ATA AATA AATA AATA AATA AATA AATA AATA AATA
*
19175661 AATA AATA GATA AATA AA
1 AATA AATA AATA AATA AA
19175679 AAACCTTGAC
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
3 8 0.17
4 38 0.81
5 1 0.02
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (4 bp):
AATA
Found at i:19175652 original size:15 final size:15
Alignment explanation
Indices: 19175619--19175673 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
19175609 TTTAATCAAT
* *
19175619 AAATACATAAGAAAA
1 AAATAAATAAGAAAT
*
19175634 AAATAAGA-AATAAAT
1 AAATAA-ATAAGAAAT
19175649 AAATAAATAAGAAAT
1 AAATAAATAAGAAAT
*
19175664 AAATAGATAA
1 AAATAAATAA
19175674 ATAAAAAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 1 0.03
15 31 0.94
16 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (15 bp):
AAATAAATAAGAAAT
Found at i:19175656 original size:19 final size:19
Alignment explanation
Indices: 19175634--19175677 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
19175624 CATAAGAAAA
19175634 AAATAAGAAATAAATAAAT
1 AAATAAGAAATAAATAAAT
*
19175653 AAATAAGAAATAAATAGAT
1 AAATAAGAAATAAATAAAT
19175672 AAATAA
1 AAATAA
19175678 AAAACCTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (19 bp):
AAATAAGAAATAAATAAAT
Found at i:19177287 original size:2 final size:2
Alignment explanation
Indices: 19177280--19177304 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19177270 TTTTATCCAT
19177280 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
19177305 TCTTTCTCTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19179490 original size:3 final size:3
Alignment explanation
Indices: 19179482--19179514 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19179472 ATTATGTAAA
19179482 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19179515 TTAAAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19186836 original size:162 final size:162
Alignment explanation
Indices: 19186569--19186898 Score: 660
Period size: 162 Copynumber: 2.0 Consensus size: 162
19186559 CTCAGTGGCA
19186569 ATAAACTGAGCCCCATTACCTTCCTCCCCAAGCATAAGGATTAAAGAAGTGATAACATAACCACT
1 ATAAACTGAGCCCCATTACCTTCCTCCCCAAGCATAAGGATTAAAGAAGTGATAACATAACCACT
19186634 TCCACAACTCCATACACAGCTTGGGCTTATGCTCCAACAGGTTTTTTCTATCAGCTAAAAGTGCA
66 TCCACAACTCCATACACAGCTTGGGCTTATGCTCCAACAGGTTTTTTCTATCAGCTAAAAGTGCA
19186699 TCAACTAATGCAAATGAATCATCACAGGGTTC
131 TCAACTAATGCAAATGAATCATCACAGGGTTC
19186731 ATAAACTGAGCCCCATTACCTTCCTCCCCAAGCATAAGGATTAAAGAAGTGATAACATAACCACT
1 ATAAACTGAGCCCCATTACCTTCCTCCCCAAGCATAAGGATTAAAGAAGTGATAACATAACCACT
19186796 TCCACAACTCCATACACAGCTTGGGCTTATGCTCCAACAGGTTTTTTCTATCAGCTAAAAGTGCA
66 TCCACAACTCCATACACAGCTTGGGCTTATGCTCCAACAGGTTTTTTCTATCAGCTAAAAGTGCA
19186861 TCAACTAATGCAAATGAATCATCACAGGGTTC
131 TCAACTAATGCAAATGAATCATCACAGGGTTC
19186893 ATAAAC
1 ATAAAC
19186899 CTCAGGATGT
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 168 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (162 bp):
ATAAACTGAGCCCCATTACCTTCCTCCCCAAGCATAAGGATTAAAGAAGTGATAACATAACCACT
TCCACAACTCCATACACAGCTTGGGCTTATGCTCCAACAGGTTTTTTCTATCAGCTAAAAGTGCA
TCAACTAATGCAAATGAATCATCACAGGGTTC
Found at i:19192933 original size:27 final size:27
Alignment explanation
Indices: 19192913--19192967 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
19192903 TCATGATCAT
19192913 AGCAATAAAACCCAATTTCATAAAAGA
1 AGCAATAAAACCCAATTTCATAAAAGA
*
19192940 AGCAATAAAACCCAATTCCATAAAAGA
1 AGCAATAAAACCCAATTTCATAAAAGA
19192967 A
1 A
19192968 TAAGTAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.20, G:0.07, T:0.16
Consensus pattern (27 bp):
AGCAATAAAACCCAATTTCATAAAAGA
Found at i:19194310 original size:17 final size:17
Alignment explanation
Indices: 19194266--19194352 Score: 77
Period size: 18 Copynumber: 5.0 Consensus size: 17
19194256 TTGAATATGA
**
19194266 AAATATAAAAT-ATCAT
1 AAATATAAAATAAAAAT
*
19194282 AAAGATATAAATAAAAAT
1 AAATATA-AAATAAAAAT
* * *
19194300 AAATTTAAAATATTAATT
1 AAATATAAAATA-AAAAT
19194318 AAATATAAATATAAAAAT
1 AAATATAAA-ATAAAAAT
*
19194336 AAATATAATATAAAAAT
1 AAATATAAAATAAAAAT
19194353 TCAAAAGATG
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
16 6 0.11
17 17 0.30
18 30 0.54
19 3 0.05
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (17 bp):
AAATATAAAATAAAAAT
Found at i:19194340 original size:12 final size:12
Alignment explanation
Indices: 19194292--19194343 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
19194282 AAAGATATAA
19194292 ATAAAAATAAAT
1 ATAAAAATAAAT
* *
19194304 TTAAAATATTAAT
1 ATAAAA-ATAAAT
*
19194317 -TAAATATAAAT
1 ATAAAAATAAAT
19194328 ATAAAAATAAAT
1 ATAAAAATAAAT
19194340 ATAA
1 ATAA
19194344 TATAAAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
11 5 0.15
12 23 0.70
13 5 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAAAATAAAT
Found at i:19199896 original size:20 final size:20
Alignment explanation
Indices: 19199871--19199912 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
19199861 TATTTTAGTT
* *
19199871 ATAGATTGAATTGTTCTGCA
1 ATAGATTGAAGTGTCCTGCA
19199891 ATAGATTGAAGTGTCCTGCA
1 ATAGATTGAAGTGTCCTGCA
19199911 AT
1 AT
19199913 TGCAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (20 bp):
ATAGATTGAAGTGTCCTGCA
Found at i:19200579 original size:254 final size:253
Alignment explanation
Indices: 19200131--19200675 Score: 1063
Period size: 254 Copynumber: 2.2 Consensus size: 253
19200121 ATCTGTGAGC
19200131 ATTATCTAAGTATTGGCCATGCTTCACCTACTACGTTTTCTTAAGATCCATGGGAAAATTCAACA
1 ATTATCTAAGTATTGGCCATGCTTCACCTACTACGTTTTCTTAAGATCCATGGGAAAATTCAACA
19200196 TCTTGAGATTGACAAGAAAAAAAAGTAAAAAACAAAAATATATGTATTAAGAATTGAAAGGCATG
66 TCTTGAGATTGACAAGAAAAAAAAGTAAAAAACAAAAATATATGTATTAAGAATTGAAAGGCATG
*
19200261 TGGCCTCCACACTGTTCTCATTCAAATTTACTGTTGCAGTTCAAATTGAAAGGCGTGTGGCTTCC
131 TGGCCTCCACACTGTTCTCAATCAAATTTACTGTTGCAGTTCAAATTGAAAGGCGTGTGGCTTCC
19200326 ACACGATTTCCTTTTAAAAAGTAATAGCAGAAGCAGATCAAACAAAAATGTAAATAGA
196 ACACGATTTCCTTTTAAAAAGTAATAGCAGAAGCAGATCAAACAAAAATGTAAATAGA
19200384 ATTATCTAAGTATTGGCCATGCTTCACCTACTACGTTTTCTTAAGATCCATGGGAAAATTCAACA
1 ATTATCTAAGTATTGGCCATGCTTCACCTACTACGTTTTCTTAAGATCCATGGGAAAATTCAACA
*
19200449 TCTTGAGATTGACAAGAAAAAAAAATTAAAAAACAAAAATATATGTATTAAGAATTGAAAGGCAT
66 TCTTGAGATTGACAAG-AAAAAAAAGTAAAAAACAAAAATATATGTATTAAGAATTGAAAGGCAT
19200514 GTGGCCTCCACACTGTTCTCAATCAAATTTACTGTTGCAGTTCAAATTGAAAGGCGTGTGGCTTC
130 GTGGCCTCCACACTGTTCTCAATCAAATTTACTGTTGCAGTTCAAATTGAAAGGCGTGTGGCTTC
19200579 CACACGATTTCCTTTTAAAAAGTAATAGCAGAAGCAGATCAAACAAAAATGTAAATAGA
195 CACACGATTTCCTTTTAAAAAGTAATAGCAGAAGCAGATCAAACAAAAATGTAAATAGA
19200638 ATTATCTAAGTATTGGCCATGCTTCACCTACTACGTTT
1 ATTATCTAAGTATTGGCCATGCTTCACCTACTACGTTT
19200676 CACAGGGTCC
Statistics
Matches: 289, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
253 81 0.28
254 208 0.72
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (253 bp):
ATTATCTAAGTATTGGCCATGCTTCACCTACTACGTTTTCTTAAGATCCATGGGAAAATTCAACA
TCTTGAGATTGACAAGAAAAAAAAGTAAAAAACAAAAATATATGTATTAAGAATTGAAAGGCATG
TGGCCTCCACACTGTTCTCAATCAAATTTACTGTTGCAGTTCAAATTGAAAGGCGTGTGGCTTCC
ACACGATTTCCTTTTAAAAAGTAATAGCAGAAGCAGATCAAACAAAAATGTAAATAGA
Found at i:19205153 original size:28 final size:28
Alignment explanation
Indices: 19205112--19205188 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 28
19205102 CATATATGGC
*
19205112 CCATACTTGAAAAAAGCAATGACAT-AA
1 CCATACTTGAAAAAAGCAATAACATAAA
* *
19205139 CTCATACTTGAAAAAGGCAATAATATAAA
1 C-CATACTTGAAAAAAGCAATAACATAAA
*
19205168 CCATACTTGGAAAAAGACAAT
1 CCATACTTGAAAAAAG-CAAT
19205189 CATTTGTGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.02
28 34 0.81
29 7 0.17
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.21
Consensus pattern (28 bp):
CCATACTTGAAAAAAGCAATAACATAAA
Found at i:19206295 original size:146 final size:145
Alignment explanation
Indices: 19206077--19206470 Score: 348
Period size: 145 Copynumber: 2.7 Consensus size: 145
19206067 TTATGATTTT
* * ** * * * *
19206077 AAAAT-ATCAAATATTATAAAATTAAGATCTGAAAAA-TTTTGTGAAAATTTGATTTCGAGAAGG
1 AAAATCATAAAATATTATAAAATTAAGAT-TTAAAAAGTTTCATGAAAATTTAAGTTCGAAAAAG
* * * * * * * *
19206140 CCAATTTACGAAATTATCCCCTGT-AAGGGTATTTTGGTAATTTTATATTTTTTGAGATACTGTT
65 CCAAATTACGAAAATA-CCCCTATAAAGGATATTTTGATAACTTCACATTTTTT-AGATACTGTT
* **
19206204 GTGATTTCAGATGTACAA
128 GTGATTTCAAATACACAA
*
19206222 AAAATCATGAAATATTATAAAATTAAGATTTAAAAAGTTTCATG-AAATTTCAAGTTCGAAAAAG
1 AAAATCATAAAATATTATAAAATTAAGATTTAAAAAGTTTCATGAAAATTT-AAGTTCGAAAAAG
* * * *
19206286 TCAAATTACGAAAATACTCTTATAAATGATATTTTGATAACTTCACATTTTTTAGATACTGTTGT
65 CCAAATTACGAAAATACCCCTATAAAGGATATTTTGATAACTTCACATTTTTTAGATACTGTTGT
*
19206351 GATTTCAAATACACCA
130 GATTTCAAATACACAA
* * * * ** * ** * *
19206367 AAAATCATAAAATGTTATTAAATTTAGATTTGAAAAGTTTCACAAAAATCTAAACTCGAAAAGGT
1 AAAATCATAAAATATTATAAAATTAAGATTTAAAAAGTTTCATGAAAATTTAAGTTCGAAAAAGC
* * * *
19206432 CAAATTATGAAAATACTCCT-TATGAGGATATTTTCATAA
66 CAAATTACGAAAATACCCCTATA-AAGGATATTTTGATAA
19206471 TTTTATCATT
Statistics
Matches: 203, Mismatches: 40, Indels: 12
0.80 0.16 0.05
Matches are distributed among these distances:
144 2 0.01
145 124 0.61
146 77 0.38
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (145 bp):
AAAATCATAAAATATTATAAAATTAAGATTTAAAAAGTTTCATGAAAATTTAAGTTCGAAAAAGC
CAAATTACGAAAATACCCCTATAAAGGATATTTTGATAACTTCACATTTTTTAGATACTGTTGTG
ATTTCAAATACACAA
Found at i:19206486 original size:145 final size:146
Alignment explanation
Indices: 19206177--19206483 Score: 370
Period size: 145 Copynumber: 2.1 Consensus size: 146
19206167 GGTATTTTGG
* ** *
19206177 TAATTTTAT-ATTTTTTGAGATACTGTTGTGATTTCAGATGTACAAAAAATCATGAAATATTATA
1 TAATTTTATCATTTTTT-AGATACTGTTGTGATTTCAAATACACAAAAAATCATAAAATATTATA
** * **
19206241 AAATTAAGATTTAAAAAGTTTCATGAAATTTCAAGTTCGAAAAAGTCAAATTACGAAAATACTCT
65 AAATTAAGATTTAAAAAGTTTCAAAAAATCTCAAACTCGAAAAAGTCAAATTACGAAAATACTCT
* *
19206306 TATAAATGATATTTTGA
130 TATAAAGGATATTTTCA
* * * * *
19206323 TAACTTCA-CATTTTTTAGATACTGTTGTGATTTCAAATACACCAAAAATCATAAAATGTTATTA
1 TAATTTTATCATTTTTTAGATACTGTTGTGATTTCAAATACACAAAAAATCATAAAATATTATAA
* * * *
19206387 AATTTAGATTTGAAAAGTTTCACAAAAATCT-AAACTCGAAAAGGTCAAATTATGAAAATACTCC
66 AATTAAGATTTAAAAAGTTTCA-AAAAATCTCAAACTCGAAAAAGTCAAATTACGAAAATACT-C
*
19206451 TTAT-GAGGATATTTTCA
129 TTATAAAGGATATTTTCA
19206468 TAATTTTATCATTTTT
1 TAATTTTATCATTTTT
19206484 AGAATCCAAT
Statistics
Matches: 134, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
145 104 0.78
146 30 0.22
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (146 bp):
TAATTTTATCATTTTTTAGATACTGTTGTGATTTCAAATACACAAAAAATCATAAAATATTATAA
AATTAAGATTTAAAAAGTTTCAAAAAATCTCAAACTCGAAAAAGTCAAATTACGAAAATACTCTT
ATAAAGGATATTTTCA
Found at i:19213120 original size:9 final size:9
Alignment explanation
Indices: 19213106--19213139 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
19213096 ATATTTTATC
19213106 AATTAAAAT
1 AATTAAAAT
19213115 AATTAAAAT
1 AATTAAAAT
19213124 ATATTAAAAT
1 A-ATTAAAAT
19213134 -ATTAAA
1 AATTAAA
19213140 GCTCGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 6 0.25
9 10 0.42
10 8 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AATTAAAAT
Found at i:19213131 original size:10 final size:10
Alignment explanation
Indices: 19213107--19213135 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
19213097 TATTTTATCA
19213107 ATTAAAATA-
1 ATTAAAATAT
19213116 ATTAAAATAT
1 ATTAAAATAT
19213126 ATTAAAATAT
1 ATTAAAATAT
19213136 TAAAGCTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:19217309 original size:18 final size:21
Alignment explanation
Indices: 19217280--19217344 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 21
19217270 GTATAATATT
* *
19217280 TATAAAATATTATTTTTTTA-A
1 TATAAATTA-TATTTTATTATA
19217301 TATAAATTATATTTTAATTATA
1 TATAAATTATATTTT-ATTATA
19217323 TATAAATATAGTATTTTTATTA
1 TATAAAT-TA-TA-TTTTATTA
19217345 AATTAATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 6 0.16
21 11 0.30
22 8 0.22
23 2 0.05
24 6 0.16
25 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TATAAATTATATTTTATTATA
Found at i:19217533 original size:37 final size:37
Alignment explanation
Indices: 19217466--19217538 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 37
19217456 CTTAAAATCC
* **
19217466 AACTTGAATTTTATTTTAAAAAACCTAATCTAATCCAA
1 AACTTAAATTTTATTTTAAAAAACAAAATCT-ATCCAA
19217504 AACTTAAATTTT-TTTTATAAAAA-AAAATCTATCCA
1 AACTTAAATTTTATTTTA-AAAAACAAAATCTATCCA
19217539 GTTCAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 5 0.16
37 10 0.32
38 16 0.52
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (37 bp):
AACTTAAATTTTATTTTAAAAAACAAAATCTATCCAA
Found at i:19220125 original size:22 final size:22
Alignment explanation
Indices: 19220097--19220140 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
19220087 GCTTCATTTT
19220097 GGATTTGGTGGCACTTAAGGAA
1 GGATTTGGTGGCACTTAAGGAA
19220119 GGATTTGGTGGCACTTAAGGAA
1 GGATTTGGTGGCACTTAAGGAA
19220141 CAAGGACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.27
Consensus pattern (22 bp):
GGATTTGGTGGCACTTAAGGAA
Found at i:19222242 original size:16 final size:15
Alignment explanation
Indices: 19222189--19222243 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 15
19222179 TTTTATATAT
19222189 TATTTTAATATAAAA
1 TATTTTAATATAAAA
*
19222204 TATTTATATATTTAAATA
1 TATTT-TA-ATATAAA-A
*
19222222 AATTTTAATATAAAA
1 TATTTTAATATAAAA
19222237 TCATTTT
1 T-ATTTT
19222244 TTATTTTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 6 0.19
16 13 0.41
17 8 0.25
18 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTTAATATAAAA
Found at i:19222358 original size:6 final size:6
Alignment explanation
Indices: 19222347--19222384 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
19222337 ATCAAAAATT
19222347 AATTTA AATTTA ATATTTA AATTT- AATTTA AA-TTA AAT
1 AATTTA AATTTA A-ATTTA AATTTA AATTTA AATTTA AAT
19222385 AAAAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 10 0.34
6 13 0.45
7 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:19222375 original size:11 final size:11
Alignment explanation
Indices: 19222322--19222380 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
19222312 TTTTTCACTT
*
19222322 TTTAACTTAAA
1 TTTAATTTAAA
* **
19222333 TTCAATCAAAA
1 TTTAATTTAAA
*
19222344 ATTAATTTAAA
1 TTTAATTTAAA
19222355 TTTAATATTTAAA
1 TTT-A-ATTTAAA
19222368 TTTAATTTAAA
1 TTTAATTTAAA
19222379 TT
1 TT
19222381 AAATAAAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
11 25 0.68
12 2 0.05
13 10 0.27
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:19222419 original size:45 final size:47
Alignment explanation
Indices: 19222328--19222427 Score: 118
Period size: 46 Copynumber: 2.2 Consensus size: 47
19222318 ACTTTTTAAC
* * * *
19222328 TTAAATTCAATCAAAAATTAATTTAAATTTAATATTTAAATTTAA-T
1 TTAAATTAAATCAAAAATTAATCTAAATTCAATATTCAAATTTAATT
19222374 TTAAATTAAAT-AAAAATTAATCTAAA-TCAA-ATTACAAATTATAATT
1 TTAAATTAAATCAAAAATTAATCTAAATTCAATATT-CAAATT-TAATT
19222420 TTAAATTA
1 TTAAATTA
19222428 TTTTTTATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.06
44 8 0.17
45 17 0.36
46 19 0.40
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (47 bp):
TTAAATTAAATCAAAAATTAATCTAAATTCAATATTCAAATTTAATT
Found at i:19222783 original size:7 final size:7
Alignment explanation
Indices: 19222771--19222807 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
19222761 ATGGCATAAT
19222771 AATAAAA
1 AATAAAA
19222778 AATAAAA
1 AATAAAA
19222785 AATAAAA
1 AATAAAA
*
19222792 AAAAAAA
1 AATAAAA
19222799 CAATAAAA
1 -AATAAAA
19222807 A
1 A
19222808 GATTATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (7 bp):
AATAAAA
Found at i:19228381 original size:19 final size:18
Alignment explanation
Indices: 19228337--19228379 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
19228327 TTCCCCCTTC
19228337 TTTTTTTT-TTTTTAGGA
1 TTTTTTTTATTTTTAGGA
**
19228354 TTTTTTTTATTTTTCTGA
1 TTTTTTTTATTTTTAGGA
19228372 TTTTTTTT
1 TTTTTTTT
19228380 TAAAAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.81
Consensus pattern (18 bp):
TTTTTTTTATTTTTAGGA
Found at i:19229920 original size:66 final size:68
Alignment explanation
Indices: 19229813--19229942 Score: 219
Period size: 66 Copynumber: 1.9 Consensus size: 68
19229803 GGTATTGAAA
*
19229813 TCATTTCAACTTTTGCCCGAGATATGTATGGAAATTTTAGCAATAGAAGGAA-GCTTATGTTTTT
1 TCATTTCAACTGTTGCCCGAGATATGTATGGAAATTTTAGCAATAGAAGGAACGCTTATGTTTTT
19229877 CAT
66 CAT
* *
19229880 TCATTTTAACTGTTG-CCTAGATATGTATGGAAATTTTAGCAATAGAAGGAACGCTTATGTTTT
1 TCATTTCAACTGTTGCCCGAGATATGTATGGAAATTTTAGCAATAGAAGGAACGCTTATGTTTT
19229943 CTTTCTTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 35 0.59
67 24 0.41
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (68 bp):
TCATTTCAACTGTTGCCCGAGATATGTATGGAAATTTTAGCAATAGAAGGAACGCTTATGTTTTT
CAT
Found at i:19237971 original size:102 final size:102
Alignment explanation
Indices: 19237795--19237999 Score: 410
Period size: 102 Copynumber: 2.0 Consensus size: 102
19237785 CAAAAATAAG
19237795 TTGCACAACATCTTCATCAGAAAGGAAAACTTTTTCTGCCACATGCTTATCTACATCTTCTACTT
1 TTGCACAACATCTTCATCAGAAAGGAAAACTTTTTCTGCCACATGCTTATCTACATCTTCTACTT
19237860 CTGGTTTAACATTTTGGTCTGGAATTGATATTGGAGA
66 CTGGTTTAACATTTTGGTCTGGAATTGATATTGGAGA
19237897 TTGCACAACATCTTCATCAGAAAGGAAAACTTTTTCTGCCACATGCTTATCTACATCTTCTACTT
1 TTGCACAACATCTTCATCAGAAAGGAAAACTTTTTCTGCCACATGCTTATCTACATCTTCTACTT
19237962 CTGGTTTAACATTTTGGTCTGGAATTGATATTGGAGA
66 CTGGTTTAACATTTTGGTCTGGAATTGATATTGGAGA
19237999 T
1 T
19238000 GAAAATTTAG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (102 bp):
TTGCACAACATCTTCATCAGAAAGGAAAACTTTTTCTGCCACATGCTTATCTACATCTTCTACTT
CTGGTTTAACATTTTGGTCTGGAATTGATATTGGAGA
Found at i:19239471 original size:32 final size:32
Alignment explanation
Indices: 19239411--19239507 Score: 92
Period size: 32 Copynumber: 3.1 Consensus size: 32
19239401 AGATACGAGG
* * * *
19239411 ATTTATATATTTGTATTACATAAAATATAAAA
1 ATTTATATATTTATATTATATTATATATAAAA
*
19239443 ATTTATATATTTATATTATATTTTATATAAAA
1 ATTTATATATTTATATTATATTATATATAAAA
* *
19239475 A-TTATGTA-TTATAATT-TATGTGTATATAAAA
1 ATTTATATATTTAT-ATTATAT-TATATATAAAA
19239506 AT
1 AT
19239508 ATAAAATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
30 7 0.13
31 20 0.36
32 28 0.51
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (32 bp):
ATTTATATATTTATATTATATTATATATAAAA
Found at i:19239504 original size:31 final size:31
Alignment explanation
Indices: 19239435--19239507 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 31
19239425 ATTACATAAA
*
19239435 ATATAAAAATTTATATATTTATATTATATTTT
1 ATATAAAAA-TTATATATTTATATTATATTGT
*
19239467 ATATAAAAATTATGTA-TTATAATT-TATGTGT
1 ATATAAAAATTATATATTTAT-ATTATAT-TGT
19239498 ATATAAAAAT
1 ATATAAAAAT
19239508 ATAAAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 7 0.19
31 21 0.57
32 9 0.24
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (31 bp):
ATATAAAAATTATATATTTATATTATATTGT
Found at i:19244803 original size:17 final size:17
Alignment explanation
Indices: 19244781--19244814 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19244771 AGGTCAAGCT
19244781 GTCCGTTATTTTGATGC
1 GTCCGTTATTTTGATGC
*
19244798 GTCCGTTGTTTTGATGC
1 GTCCGTTATTTTGATGC
19244815 AGCTTTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.18, G:0.26, T:0.47
Consensus pattern (17 bp):
GTCCGTTATTTTGATGC
Found at i:19254544 original size:7 final size:7
Alignment explanation
Indices: 19254532--19254557 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19254522 CTAATATATA
19254532 TATTTTT
1 TATTTTT
19254539 TATTTTT
1 TATTTTT
19254546 TATTTTT
1 TATTTTT
19254553 TATTT
1 TATTT
19254558 AATTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:19254575 original size:19 final size:18
Alignment explanation
Indices: 19254537--19254578 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19254527 ATATATATTT
* *
19254537 TTTATTTTTTATTTTTTA
1 TTTAATTTTTATTTTATA
19254555 TTTAATTTTTATATTTATA
1 TTTAATTTTTAT-TTTATA
19254574 TTTAA
1 TTTAA
19254579 AAAATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTAATTTTTATTTTATA
Found at i:19255346 original size:54 final size:54
Alignment explanation
Indices: 19255264--19255375 Score: 215
Period size: 54 Copynumber: 2.1 Consensus size: 54
19255254 AATCCTGTAT
19255264 CACAAGAAGTAATAGATATCGTGAATGAAGGTATCATTATATCATTACTAGATC
1 CACAAGAAGTAATAGATATCGTGAATGAAGGTATCATTATATCATTACTAGATC
*
19255318 CACAAGAAGTAATAGATATCGTGAATGAAGGTATCATTATATCATTACTAGATT
1 CACAAGAAGTAATAGATATCGTGAATGAAGGTATCATTATATCATTACTAGATC
19255372 CACA
1 CACA
19255376 TCAGTCACTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (54 bp):
CACAAGAAGTAATAGATATCGTGAATGAAGGTATCATTATATCATTACTAGATC
Found at i:19263989 original size:1 final size:1
Alignment explanation
Indices: 19263983--19264007 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
19263973 CAAAATACAG
19263983 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
19264008 CTCCTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19266980 original size:2 final size:2
Alignment explanation
Indices: 19266968--19266999 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
19266958 CTCTTCCCTC
19266968 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19267000 TATCAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:19273052 original size:57 final size:58
Alignment explanation
Indices: 19272959--19273082 Score: 191
Period size: 57 Copynumber: 2.2 Consensus size: 58
19272949 GATAAACCTG
*
19272959 TTAAAGCAAACAAGAGAACATGTTATAGCTTCAATCAATCTTTT-CT-CTAACAAATCA
1 TTAAAGCAAACAAGAGAACATGTTATAGCTTAAATCAATCTTTTGCTAC-AACAAATCA
*
19273016 TTAAAGCAAACAAGAGAACATGTTATAGTTTAAATCAATCTTTTGCTACAACAAATCA
1 TTAAAGCAAACAAGAGAACATGTTATAGCTTAAATCAATCTTTTGCTACAACAAATCA
*
19273074 ATAAA-CAAA
1 TTAAAGCAAA
19273083 GGACAAACTT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
57 46 0.74
58 15 0.24
59 1 0.02
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (58 bp):
TTAAAGCAAACAAGAGAACATGTTATAGCTTAAATCAATCTTTTGCTACAACAAATCA
Found at i:19277248 original size:19 final size:17
Alignment explanation
Indices: 19277217--19277252 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
19277207 GAGAAATTAA
19277217 AAAATTAAAATTTAATT
1 AAAATTAAAATTTAATT
19277234 AAAATTATAATATTTAATT
1 AAAATTA-AA-ATTTAATT
19277253 TGGTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 2 0.12
19 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTAAAATTTAATT
Found at i:19278382 original size:25 final size:23
Alignment explanation
Indices: 19278329--19278389 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
19278319 GAGTTCGTTG
* * *
19278329 ATGAATATATTTATAAATATTAA
1 ATGAATATATTCACAAACATTAA
*
19278352 ACGAATATATTCACAAACATATATA
1 ATGAATATATTCACAAACAT-TA-A
*
19278377 ATGAATATGTTCA
1 ATGAATATATTCA
19278390 TAAGTAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 16 0.53
24 2 0.07
25 12 0.40
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (23 bp):
ATGAATATATTCACAAACATTAA
Found at i:19278562 original size:11 final size:11
Alignment explanation
Indices: 19278546--19278571 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19278536 TAAATTAACA
19278546 AATTTTAAATG
1 AATTTTAAATG
19278557 AATTTTAAATG
1 AATTTTAAATG
19278568 AATT
1 AATT
19278572 AGTTCACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (11 bp):
AATTTTAAATG
Found at i:19279148 original size:22 final size:22
Alignment explanation
Indices: 19279115--19279162 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
19279105 ATATATTAAT
19279115 TTTA-ATTAATTTAA-AATAATAA
1 TTTATATTAATTTAATAA-AA-AA
19279137 TTTATATT-ATTTAATAAAAAA
1 TTTATATTAATTTAATAAAAAA
19279158 TTTAT
1 TTTAT
19279163 TTACTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.29
22 12 0.50
23 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTATATTAATTTAATAAAAAA
Found at i:19279157 original size:27 final size:26
Alignment explanation
Indices: 19279091--19279158 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 26
19279081 TGTTAATATG
*
19279091 TATT-TTTAATAAAAATATATTAATTT
1 TATTATTTAATAAAAA-ATAATAATTT
**
19279117 TA--A-TTAATTTAAAATAATAATTT
1 TATTATTTAATAAAAAATAATAATTT
19279140 ATATTATTTAATAAAAAAT
1 -TATTATTTAATAAAAAAT
19279159 TTATTTACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 9
0.70 0.11 0.20
Matches are distributed among these distances:
23 9 0.28
24 10 0.31
26 3 0.09
27 10 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TATTATTTAATAAAAAATAATAATTT
Found at i:19284167 original size:10 final size:9
Alignment explanation
Indices: 19284143--19284186 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
19284133 AATTTTATTC
19284143 TATAAAAAT
1 TATAAAAAT
*
19284152 TTTAAAAAT
1 TATAAAAAT
19284161 ATATAAAAAT
1 -TATAAAAAT
19284171 TAATAAAAAT
1 T-ATAAAAAT
19284181 ATATAA
1 -TATAA
19284187 TTTGGTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.30
10 20 0.67
11 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TATAAAAAT
Found at i:19284169 original size:20 final size:20
Alignment explanation
Indices: 19284143--19284186 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
19284133 AATTTTATTC
*
19284143 TATAAAAATT-TTAAAAATA
1 TATAAAAATTAATAAAAATA
19284162 TATAAAAATTAATAAAAATA
1 TATAAAAATTAATAAAAATA
19284182 TATAA
1 TATAA
19284187 TTTGGTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TATAAAAATTAATAAAAATA
Found at i:19290503 original size:21 final size:21
Alignment explanation
Indices: 19290477--19290526 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
19290467 AATTCAAGAG
*
19290477 TTTTCTTTCT-TTCTTTCTTT-C
1 TTTTCTTT-TATTC-TTCTTTGA
19290498 TTTTCTTTTATTCTTCTTTGA
1 TTTTCTTTTATTCTTCTTTGA
19290519 TTTTCTTT
1 TTTTCTTT
19290527 ATTTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTCTTTTATTCTTCTTTGA
Found at i:19291887 original size:16 final size:16
Alignment explanation
Indices: 19291862--19291923 Score: 88
Period size: 16 Copynumber: 3.8 Consensus size: 16
19291852 TATAATATTT
19291862 TTTTATTATTTATTTAA
1 TTTTA-TATTTATTTAA
* *
19291879 TTTTATATTTATATATT
1 TTTTATATTTATTTA-A
19291896 TTTTATATTTATTTAA
1 TTTTATATTTATTTAA
19291912 TTTTATATTTAT
1 TTTTATATTTAT
19291924 ATTTACCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
16 21 0.52
17 19 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATATTTATTTAA
Found at i:19291889 original size:6 final size:6
Alignment explanation
Indices: 19291863--19291928 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
19291853 ATAATATTTT
*
19291863 TTTATTA TTTAT- TTAAT- TTTATA TTTATA TATT-T- TTTATA TTTAT-
1 TTTA-TA TTTATA TTTATA TTTATA TTTATA T-TTATA TTTATA TTTATA
*
19291908 TTAAT- TTTATA TTTATA TTTA
1 TTTATA TTTATA TTTATA TTTA
19291929 CCAAATAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
4 2 0.04
5 18 0.36
6 24 0.48
7 6 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTATA
Found at i:19291905 original size:33 final size:35
Alignment explanation
Indices: 19291846--19291925 Score: 137
Period size: 33 Copynumber: 2.3 Consensus size: 35
19291836 TTAGATCCAA
19291846 TATATTTATAATATTTTTTTATTATTTATTTAATTT
1 TATATTTAT-ATATTTTTTTATTATTTATTTAATTT
19291882 TATATTTATATA-TTTTTTA-TATTTATTTAATTT
1 TATATTTATATATTTTTTTATTATTTATTTAATTT
19291915 TATATTTATAT
1 TATATTTATAT
19291926 TTACCAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
33 25 0.57
34 7 0.16
35 3 0.07
36 9 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (35 bp):
TATATTTATATATTTTTTTATTATTTATTTAATTT
Found at i:19291916 original size:10 final size:11
Alignment explanation
Indices: 19291854--19291928 Score: 66
Period size: 11 Copynumber: 6.8 Consensus size: 11
19291844 AATATATTTA
*
19291854 TAATATTTTTT
1 TAATATTTATT
*
19291865 TATTATTTATT
1 TAATATTTATT
*
19291876 TAATTTTATATT
1 TAATATT-TATT
19291888 TATATATTT-TT
1 TA-ATATTTATT
19291899 T-ATATTTATT
1 TAATATTTATT
19291909 TAAT-TTTATAT
1 TAATATTTAT-T
*
19291920 TTATATTTA
1 TAATATTTA
19291929 CCAAATAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
9 6 0.12
10 8 0.15
11 23 0.44
12 11 0.21
13 4 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TAATATTTATT
Found at i:19318206 original size:10 final size:10
Alignment explanation
Indices: 19318172--19318206 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
19318162 CGTTTCATTA
19318172 TTTTCTATTTT
1 TTTTCT-TTTT
*
19318183 TTTGCTTTTT
1 TTTTCTTTTT
19318193 TTTTCTTTTT
1 TTTTCTTTTT
19318203 TTTT
1 TTTT
19318207 TTGAGTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:19323570 original size:3 final size:3
Alignment explanation
Indices: 19323562--19323586 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19323552 TTAAATTTTA
19323562 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
19323587 TTGACTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:19325724 original size:2 final size:2
Alignment explanation
Indices: 19325717--19325744 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19325707 GCCAGTATGC
19325717 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19325745 AAGTGAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19326362 original size:15 final size:16
Alignment explanation
Indices: 19326333--19326363 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19326323 TTATTAAAAA
19326333 AATTTAAACATATGAT
1 AATTTAAACATATGAT
19326349 AATTTAAA-ATATGAT
1 AATTTAAACATATGAT
19326364 TAAATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
AATTTAAACATATGAT
Found at i:19326383 original size:11 final size:10
Alignment explanation
Indices: 19326367--19326409 Score: 54
Period size: 11 Copynumber: 4.4 Consensus size: 10
19326357 ATATGATTAA
*
19326367 ATAATATAAT
1 ATAAAATAAT
19326377 ATAAATATAAT
1 ATAAA-ATAAT
19326388 ATAAAA-AAT
1 ATAAAATAAT
19326397 A-AAAATAAT
1 ATAAAATAAT
19326406 ATAA
1 ATAA
19326410 TTTAAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 4 0.14
9 8 0.28
10 7 0.24
11 10 0.34
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAAAATAAT
Found at i:19326404 original size:18 final size:18
Alignment explanation
Indices: 19326365--19326409 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
19326355 AAATATGATT
*
19326365 AAATAATAT--AATATAA
1 AAATAATATAAAAAATAA
*
19326381 ATATAATATAAAAAATAA
1 AAATAATATAAAAAATAA
19326399 AAATAATATAA
1 AAATAATATAA
19326410 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 8 0.33
18 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAATATAAAAAATAA
Found at i:19326434 original size:22 final size:21
Alignment explanation
Indices: 19326400--19326441 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
19326390 AAAAAATAAA
19326400 AATAATATAATTTAAAATTTT
1 AATAATATAATTTAAAATTTT
* *
19326421 AATAATTATTATTTTAAATTT
1 AATAA-TATAATTTAAAATTT
19326442 CATAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATAATATAATTTAAAATTTT
Found at i:19329847 original size:13 final size:13
Alignment explanation
Indices: 19329831--19329856 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19329821 AAATTTTAAA
19329831 TTATTTTATTTTT
1 TTATTTTATTTTT
19329844 TTATTTTATTTTT
1 TTATTTTATTTTT
19329857 ATATCATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTATTTTATTTTT
Found at i:19331591 original size:26 final size:27
Alignment explanation
Indices: 19331562--19331617 Score: 105
Period size: 26 Copynumber: 2.1 Consensus size: 27
19331552 GGCAAAATAT
19331562 TTATTGCCTCGTTTGGTAG-AAAAGCC
1 TTATTGCCTCGTTTGGTAGAAAAAGCC
19331588 TTATTGCCTCGTTTGGTAGAAAAAGCC
1 TTATTGCCTCGTTTGGTAGAAAAAGCC
19331615 TTA
1 TTA
19331618 CATTTAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (27 bp):
TTATTGCCTCGTTTGGTAGAAAAAGCC
Found at i:19338272 original size:20 final size:20
Alignment explanation
Indices: 19338244--19338281 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19338234 GGGGGACCAT
*
19338244 TCATGCTTTTAGGGCACATC
1 TCATACTTTTAGGGCACATC
*
19338264 TCATACTTTTGGGGCACA
1 TCATACTTTTAGGGCACA
19338282 AATGCACGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (20 bp):
TCATACTTTTAGGGCACATC
Found at i:19339023 original size:30 final size:29
Alignment explanation
Indices: 19338969--19339053 Score: 73
Period size: 30 Copynumber: 2.9 Consensus size: 29
19338959 TTGATTTATG
* * * * *
19338969 ATAAAGACTTATTTAAGTATAAATTAAAG
1 ATAAAAACTTATTCAAATACAAATTAAAA
*
19338998 GTCAAAAACTTATTCAAATACAAATTTAAAA
1 AT-AAAAACTTATTCAAATACAAA-TTAAAA
*
19339029 ATAAAAATTTA-TCGAAATACAAATT
1 ATAAAAACTTATTC-AAATACAAATT
19339054 TAAATTTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
29 5 0.11
30 34 0.76
31 6 0.13
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (29 bp):
ATAAAAACTTATTCAAATACAAATTAAAA
Found at i:19345959 original size:22 final size:23
Alignment explanation
Indices: 19345934--19346015 Score: 73
Period size: 22 Copynumber: 3.6 Consensus size: 23
19345924 TTAATATGTT
19345934 ATTAATTTTTAA-ATATTAAATA
1 ATTAATTTTTAATATATTAAATA
*
19345956 ATTAAATTTTAATTATATATAAAT-
1 ATTAATTTTTAA-TATAT-TAAATA
* *
19345980 TTTAA--TTTAATATATTTAATA
1 ATTAATTTTTAATATATTAAATA
19346001 ATTATTATTTTTAAT
1 ATTA--ATTTTTAAT
19346016 TAAAATTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
20 4 0.08
21 8 0.17
22 16 0.33
23 1 0.02
24 8 0.17
25 11 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAATTTTTAATATATTAAATA
Found at i:19345992 original size:17 final size:16
Alignment explanation
Indices: 19345943--19345993 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
19345933 TATTAATTTT
* *
19345943 TAAATATTAAATAAT-
1 TAAATTTTAATTAATA
19345958 TAAATTTTAATTATATA
1 TAAATTTTAATTA-ATA
19345975 TAAATTTTAATTTAATA
1 TAAATTTTAA-TTAATA
19345992 TA
1 TA
19345994 TTTAATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 11 0.35
16 2 0.06
17 15 0.48
18 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAATTTTAATTAATA
Found at i:19346569 original size:17 final size:16
Alignment explanation
Indices: 19346540--19346573 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
19346530 AATGAGATAA
*
19346540 AAAAATTATAATTATT
1 AAAAATTAAAATTATT
19346556 AAAAATTCAAAATTATT
1 AAAAATT-AAAATTATT
19346573 A
1 A
19346574 GATTTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAATTAAAATTATT
Found at i:19349521 original size:18 final size:18
Alignment explanation
Indices: 19349494--19349538 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
19349484 TATCATGTAA
* * *
19349494 AATATTAAAATTTTATTT
1 AATATAAAAATTATATAT
*
19349512 TATATAAAAATTATATAT
1 AATATAAAAATTATATAT
19349530 AATATAAAA
1 AATATAAAA
19349539 TATAAAATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATAAAAATTATATAT
Found at i:19356664 original size:29 final size:27
Alignment explanation
Indices: 19356632--19356696 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
19356622 TAATATTTTT
19356632 TAAAAATAT-AAATATAAATTAAATATATA
1 TAAAAATATAAAAT-TAAA-TAAATA-ATA
*
19356661 TAAATATATAAAATTAAATAAATAATA
1 TAAAAATATAAAATTAAATAAATAATA
19356688 -AAAATATAT
1 TAAAA-ATAT
19356697 TTTATACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.09
27 7 0.22
28 6 0.19
29 12 0.38
30 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
TAAAAATATAAAATTAAATAAATAATA
Found at i:19360906 original size:27 final size:26
Alignment explanation
Indices: 19360871--19360930 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
19360861 AGATAAAATT
19360871 ATATTATTTAATTTAATTTTATTTATA
1 ATATTATTTAATTTAATTTTA-TTATA
* **
19360898 ATATTATTTTATTTTTTTTTATTATA
1 ATATTATTTAATTTAATTTTATTATA
*
19360924 ATTTTAT
1 ATATTAT
19360931 ACATCAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
ATATTATTTAATTTAATTTTATTATA
Found at i:19363327 original size:24 final size:27
Alignment explanation
Indices: 19363298--19363352 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 27
19363288 AATCATAAAA
19363298 TATATTTTTTAATT-TTATT-AAA-TT
1 TATATTTTTTAATTATTATTAAAATTT
19363322 TATA---TTTAATTATTATTAAAATTT
1 TATATTTTTTAATTATTATTAAAATTT
19363346 TATATTT
1 TATATTT
19363353 ATCATATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
21 7 0.28
22 5 0.20
23 3 0.12
24 10 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
TATATTTTTTAATTATTATTAAAATTT
Found at i:19363353 original size:24 final size:21
Alignment explanation
Indices: 19363305--19363353 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 21
19363295 AAATATATTT
19363305 TTTAATTTTATTAAATTTATA
1 TTTAATTTTATTAAATTTATA
19363326 TTTAATTATTATTAAAATTTTATA
1 TTTAATT-TTATT-AAA-TTTATA
19363350 TTTA
1 TTTA
19363354 TCATATCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.28
22 5 0.20
23 3 0.12
24 10 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAATTTTATTAAATTTATA
Found at i:19364185 original size:3 final size:3
Alignment explanation
Indices: 19364179--19364209 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
19364169 GCGAGAAGCT
19364179 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
19364210 CTGAAGCAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19365091 original size:16 final size:15
Alignment explanation
Indices: 19365070--19365101 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19365060 TGTTACTCAA
19365070 TTTCTTGTTTTTTTTT
1 TTTCTT-TTTTTTTTT
19365086 TTTCTTTTTTTTTTT
1 TTTCTTTTTTTTTTT
19365101 T
1 T
19365102 GTTTTTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (15 bp):
TTTCTTTTTTTTTTT
Found at i:19365107 original size:14 final size:13
Alignment explanation
Indices: 19365077--19365107 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19365067 CAATTTCTTG
19365077 TTTTTTTTTTTTC
1 TTTTTTTTTTTTC
*
19365090 TTTTTTTTTTTTG
1 TTTTTTTTTTTTC
19365103 TTTTT
1 TTTTT
19365108 AGTTTAGCTT
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:0.00, C:0.03, G:0.03, T:0.94
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:19367746 original size:24 final size:24
Alignment explanation
Indices: 19367718--19367764 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19367708 AAAATCTCAA
19367718 TTTATA-AAAGAATTTATAAATTTT
1 TTTATACAAA-AATTTATAAATTTT
*
19367742 TTTATACAAAAATTTTTAAATTT
1 TTTATACAAAAATTTATAAATTT
19367765 ATAAATCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTATACAAAAATTTATAAATTTT
Found at i:19367870 original size:98 final size:98
Alignment explanation
Indices: 19367754--19367933 Score: 288
Period size: 98 Copynumber: 1.8 Consensus size: 98
19367744 TATACAAAAA
** *
19367754 TTTTTAAATTTATAAATCATTTATTAATAAAAAATTATGAAAATTTAAATTTAAATACTTTGCAT
1 TTTTTAAATTTATAAATCACCTATTAATAAAAAATTATGAAAATTTAAATTTAAATACTTTACAT
*
19367819 TTAAATTTTAAAATTTACCAATATTTTTTTAAT
66 TCAAATTTTAAAATTTACCAATATTTTTTTAAT
* *
19367852 TTTTTAAATTTATAAATCACCTATTAATAAAAGATTATGAAAATTTAAATTTAAATATTTTACAT
1 TTTTTAAATTTATAAATCACCTATTAATAAAAAATTATGAAAATTTAAATTTAAATACTTTACAT
* *
19367917 TCAGATTTTAAACTTTA
66 TCAAATTTTAAAATTTA
19367934 TCACATGCAT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 74 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (98 bp):
TTTTTAAATTTATAAATCACCTATTAATAAAAAATTATGAAAATTTAAATTTAAATACTTTACAT
TCAAATTTTAAAATTTACCAATATTTTTTTAAT
Found at i:19368039 original size:17 final size:17
Alignment explanation
Indices: 19368017--19368103 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 17
19368007 TCTTAAATAC
*
19368017 TATTTAATGTTATTTAA
1 TATTTAATGTTATATAA
19368034 TATTT-AT-TTATAATAA
1 TATTTAATGTTAT-ATAA
* * *
19368050 TAATTTGATATTAATATAC
1 T-ATTTAATGTT-ATATAA
*
19368069 TATTTAATGTTATTTAA
1 TATTTAATGTTATATAA
19368086 TATTT-AT-TTATAATAA
1 TATTTAATGTTAT-ATAA
19368102 TA
1 TA
19368104 ATTTTATTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
15 8 0.14
16 13 0.23
17 18 0.32
18 10 0.18
19 6 0.11
20 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (17 bp):
TATTTAATGTTATATAA
Found at i:19368071 original size:52 final size:51
Alignment explanation
Indices: 19368009--19368107 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 51
19367999 GCTACTGTTC
19368009 TTAAATACTATTTAATGTTATTTAATATTTATTTATAATAATAATTTGATA
1 TTAAATACTATTTAATGTTATTTAATATTTATTTATAATAATAATTTGATA
19368060 TTAATATACTATTTAATGTTATTTAATATTTATTTATAATAATAATTT
1 TTAA-ATACTATTTAATGTTATTTAATATTTATTTATAATAATAATTT
19368108 TATTCATAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 4 0.09
52 43 0.91
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (51 bp):
TTAAATACTATTTAATGTTATTTAATATTTATTTATAATAATAATTTGATA
Found at i:19369771 original size:17 final size:17
Alignment explanation
Indices: 19369745--19369785 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
19369735 ATTTATATAG
*
19369745 ATATAAATATATAAATT
1 ATATATATATATAAATT
* *
19369762 ATATATATATTTAATTT
1 ATATATATATATAAATT
19369779 ATATATA
1 ATATATA
19369786 ATAATTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATATATATAAATT
Found at i:19369801 original size:40 final size:41
Alignment explanation
Indices: 19369712--19369812 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 41
19369702 ATATTATATT
*
19369712 TTATATAAAAATTATGTAT-TA--TAATTTATATAGATATAA
1 TTAT-TAAAAATTATATATATATTTAATTTATATAGATATAA
* * *
19369751 ATA-TATAAATTATATATATATTTAATTTATATATA-ATAA
1 TTATTAAAAATTATATATATATTTAATTTATATAGATATAA
* *
19369790 TTATTAAAAATTTTAAATATATT
1 TTATTAAAAATTATATATATATT
19369813 ACTTTTGTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
37 12 0.24
38 2 0.04
39 8 0.16
40 28 0.56
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.49
Consensus pattern (41 bp):
TTATTAAAAATTATATATATATTTAATTTATATAGATATAA
Done.