Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 66 of 433
Found at i:19047347 original size:20 final size:22
Alignment explanation
Indices: 19047316--19047374 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 22
19047306 AGGATTCAGT
*
19047316 TTTTCTTCTTCTTTTCTTCT-C
1 TTTTCTTCTTCTTTTCATCTAC
*
19047337 TTTTC-TCTTCTCTTCATCTAC
1 TTTTCTTCTTCTTTTCATCTAC
19047358 TTTCTCTTCTTCTTTTC
1 TTT-TCTTCTTCTTTTC
19047375 CTCCATAGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 12 0.38
21 9 0.28
22 2 0.06
23 9 0.28
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTCTTCTTCTTTTCATCTAC
Found at i:19048159 original size:8 final size:8
Alignment explanation
Indices: 19048146--19048174 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
19048136 CGGCAAAAGT
19048146 CGAAATGC
1 CGAAATGC
19048154 CGAAATGC
1 CGAAATGC
19048162 CGAAATGC
1 CGAAATGC
19048170 CGAAA
1 CGAAA
19048175 AGTCGGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.10
Consensus pattern (8 bp):
CGAAATGC
Found at i:19050866 original size:17 final size:19
Alignment explanation
Indices: 19050824--19050867 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19050814 ATGAAATTTT
*
19050824 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
19050843 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
19050861 AA-TATTA
1 AATTATTA
19050868 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:19050987 original size:27 final size:27
Alignment explanation
Indices: 19050934--19050989 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
19050924 TTGATATTTG
* * *
19050934 AAATTTTTATTATTAGATATATTTATA
1 AAATTATTATTATTAGATAGATATATA
19050961 AAATTATTATTATTAGATAGGAATATATA
1 AAATTATTATTATTAGATA-G-ATATATA
19050990 TATATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
29 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (27 bp):
AAATTATTATTATTAGATAGATATATA
Found at i:19053053 original size:38 final size:35
Alignment explanation
Indices: 19052994--19053111 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
19052984 TCAATCATGC
*
19052994 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATACT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
19053033 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
19053064 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
19053095 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
19053112 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:19053055 original size:31 final size:31
Alignment explanation
Indices: 19053017--19053111 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
19053007 CCTTTTCATA
*
19053017 TTTCATATTTCATACTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
19053048 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
19053079 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
19053110 TT
1 TT
19053112 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:19053354 original size:24 final size:24
Alignment explanation
Indices: 19053303--19053421 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
19053293 GCTTTATCAT
*
19053303 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
19053328 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
19053352 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
19053375 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
19053399 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
19053422 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:19053382 original size:47 final size:48
Alignment explanation
Indices: 19053303--19053421 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
19053293 GCTTTATCAT
*
19053303 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
19053352 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
19053399 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
19053422 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:19053496 original size:20 final size:20
Alignment explanation
Indices: 19053471--19053530 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
19053461 TATGATTACC
19053471 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
19053491 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
19053511 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
19053531 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:19053605 original size:25 final size:25
Alignment explanation
Indices: 19053573--19053620 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19053563 ATACATAAAC
* * *
19053573 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
19053598 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
19053621 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:19055214 original size:27 final size:27
Alignment explanation
Indices: 19054858--19055203 Score: 392
Period size: 27 Copynumber: 12.8 Consensus size: 27
19054848 GGGTATTTTA
* * *
19054858 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
19054885 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * **
19054912 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
19054939 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
19054966 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
19054993 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
19055020 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
19055047 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
19055074 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
19055101 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
*
19055128 GTAATTCTATAAATCGAAGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
19055155 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
19055182 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
19055204 CTTTGGTAAT
Statistics
Matches: 284, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.00
27 280 0.99
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:19055225 original size:27 final size:27
Alignment explanation
Indices: 19055154--19055431 Score: 258
Period size: 27 Copynumber: 10.3 Consensus size: 27
19055144 AAGGTAAAAC
****
19055154 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
19055181 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
19055208 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** **
19055235 AATAATTTTACAGGTCGAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* * **
19055262 AGTAATTTCACAAATTAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
*
19055289 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
19055316 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
19055343 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * * *
19055370 GGTAATTTTATAAACCAATGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
19055397 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
19055423 GGTAATTTT
1 GGTAATTTT
19055432 GTAAACCAAA
Statistics
Matches: 214, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 18 0.08
27 194 0.91
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:19055241 original size:54 final size:54
Alignment explanation
Indices: 19054867--19055276 Score: 209
Period size: 54 Copynumber: 7.6 Consensus size: 54
19054857 AGTAATTTTG
**** ** * * * *
19054867 TAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTG
1 TAAATCGAGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTA
* ** * * * *** *
19054921 TAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTA
*** * ** * * *
19054975 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATG
1 TAAATCGAGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTA
** * * **
19055029 TAAATCTG-GGGTAAAATGGTAATTATGTA-AATTAG-GGGTAAAACGGTAATTCTA
1 TAAATC-GAGGGTAATTTGGTAATT-T-TACAAATCGAGGGTAAAACAATAATTCTA
** * * **
19055083 TAAATCGAGGGTAAAATAGTAATTCTGTA-AACT-GAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAATTTGGTAATT-T-TACAAATCGAGGGTAAAACAATAATTCTA
* *** **
19055137 TAAATCGAAGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTA
* * *** *
19055191 TAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTA
1 TAAATCGAGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTA
* ** * * *
19055245 CAGGTCGAGGGTATTTTAGTAATTTCACAAAT
1 TAAATCGAGGGTAATTTGGTAATTTTACAAAT
19055277 TAAGGGTATT
Statistics
Matches: 300, Mismatches: 49, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
52 2 0.01
53 6 0.02
54 286 0.95
55 5 0.02
56 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (54 bp):
TAAATCGAGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTA
Found at i:19056749 original size:8 final size:8
Alignment explanation
Indices: 19056732--19056777 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
19056722 CTAGATCGGC
*
19056732 AAAAGCCG
1 AAAAGTCG
19056740 AAAAGTCG
1 AAAAGTCG
*
19056748 AAATGTCG
1 AAAAGTCG
19056756 AAAAGTCG
1 AAAAGTCG
*
19056764 AAATGTCG
1 AAAAGTCG
19056772 AAAAGT
1 AAAAGT
19056778 TGGTATTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.24, T:0.15
Consensus pattern (8 bp):
AAAAGTCG
Found at i:19056759 original size:16 final size:16
Alignment explanation
Indices: 19056738--19056777 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
19056728 CGGCAAAAGC
19056738 CGAAAAGTCGAAATGT
1 CGAAAAGTCGAAATGT
19056754 CGAAAAGTCGAAATGT
1 CGAAAAGTCGAAATGT
19056770 CGAAAAGT
1 CGAAAAGT
19056778 TGGTATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.17
Consensus pattern (16 bp):
CGAAAAGTCGAAATGT
Found at i:19078000 original size:26 final size:26
Alignment explanation
Indices: 19077971--19078075 Score: 192
Period size: 26 Copynumber: 4.0 Consensus size: 26
19077961 TGATACAAAT
*
19077971 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19077997 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19078023 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19078049 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19078075 T
1 T
19078076 AATTGGAATT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19090784 original size:45 final size:45
Alignment explanation
Indices: 19090563--19090781 Score: 250
Period size: 45 Copynumber: 4.9 Consensus size: 45
19090553 CCGAATTCAT
* * * * *
19090563 TCACCGGCATT-TCGCCTACTAGGCTC-GAGGCCCG-ATA-TCCTT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
* *
19090605 TCACCTGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAAGAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
* * * * * *
19090650 TCACCGGCCTTGTAGCCTGTTAAGCTTAAAGGCTCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
19090695 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
19090740 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
19090782 GTCGTACGAT
Statistics
Matches: 148, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
42 10 0.07
43 13 0.09
44 8 0.05
45 116 0.78
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:19094091 original size:29 final size:29
Alignment explanation
Indices: 19094056--19094129 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
19094046 GTTGTGAGAT
* *
19094056 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
19094085 TGGCACTAAGTGTGCAAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
19094114 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19094130 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:19101219 original size:40 final size:40
Alignment explanation
Indices: 19101167--19101354 Score: 288
Period size: 40 Copynumber: 4.7 Consensus size: 40
19101157 GCTTCTCTCT
19101167 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
19101207 TAATTGCTTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
19101247 CAATTTCCTTCGGGACTTGGTCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
19101287 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
19101327 CAAATGCCTTCGGG-CTTAGCCCAGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
19101355 CAATCCGAAT
Statistics
Matches: 133, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 12 0.09
40 121 0.91
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:19108038 original size:47 final size:47
Alignment explanation
Indices: 19107969--19108500 Score: 814
Period size: 47 Copynumber: 11.3 Consensus size: 47
19107959 CCCTTCGGGA
* * *
19107969 CTTATCACATTTATACACTTTCACA-TCAATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATCGGCCATTCGGC
*
19108016 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
19108063 CTTATCACATATATACACTTTCAAATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
19108110 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
19108157 CTTATCCCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
19108204 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
19108251 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
19108298 CTTATCCCATATATACACTTTCACATTCATCACATCAGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
19108345 CTTATCACACATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * * *
19108392 CTTATCACACATATGCACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
19108439 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
19108486 CTTATCACACATATA
1 CTTATCACATATATA
19108501 TGTATATCAT
Statistics
Matches: 446, Mismatches: 38, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
47 444 1.00
48 2 0.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:19108377 original size:25 final size:25
Alignment explanation
Indices: 19108348--19108425 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
19108338 ATTCGGCCTT
19108348 ATCACACATATGCACTTTCACATTC
1 ATCACACATATGCACTTTCACATTC
* * *
19108373 AT--CACAT-TGGC-CATTCGGCCTT-
1 ATCACACATAT-GCACTTTC-ACATTC
19108395 ATCACACATATGCACTTTCACATTC
1 ATCACACATATGCACTTTCACATTC
19108420 ATCACA
1 ATCACA
19108426 TTGGCCATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 7 0.17
23 10 0.25
24 10 0.25
25 13 0.32
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCACTTTCACATTC
Found at i:19108400 original size:22 final size:22
Alignment explanation
Indices: 19108373--19108448 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
19108363 TTTCACATTC
19108373 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
19108395 ATCACACATAT-GCACTTTC-ACATT
1 AT--CACAT-TGGC-CATTCGGCCTT
*
19108419 CATCACATTGGCCATTAGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
19108442 ATCACAT
1 ATCACAT
19108449 ATATACACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 13 0.32
23 10 0.25
24 10 0.25
25 7 0.17
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:19111970 original size:40 final size:40
Alignment explanation
Indices: 19111925--19112091 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
19111915 CGGAATATAA
19111925 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
19111965 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
19112005 CCGGATATAGCCACTAGCACAATTGCCTTCGAGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
19112045 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
19112084 CCGGATAT
1 CCGGATAT
19112092 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19115296 original size:27 final size:27
Alignment explanation
Indices: 19115266--19115343 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
19115256 CTCATATCTG
* *
19115266 TAGGCTAGTATTACTGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATACCCCTA
* * *
19115293 TAGGGTAGAATTATTGAAATGCCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTA
19115320 TAGGGTAGAATTACTGAAATACCC
1 TAGGGTAGAATTACTGAAATACCC
19115344 ATGGTTTACA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCCTA
Found at i:19115366 original size:27 final size:27
Alignment explanation
Indices: 19115352--19115560 Score: 124
Period size: 27 Copynumber: 7.7 Consensus size: 27
19115342 CCATGGTTTA
*
19115352 CAAAATTACCAAAATGCCCTCGATTAG
1 CAAAATTACCAAAATACCCTCGATTAG
* * *
19115379 TAAAATTACCAAAATACCCTCAACCTA-
1 CAAAATTACCAAAATACCCTCGA-TTAG
* * *
19115406 TAAAATTATCAAAATACCCTCAACTT-G
1 CAAAATTACCAAAATACCCTCGA-TTAG
* * ** *
19115433 TAAAATTACCAAAATAGCCTTAATTTG
1 CAAAATTACCAAAATACCCTCGATTAG
* *
19115460 TAAAATTACCAAAATACCC-CTGATTTG
1 CAAAATTACCAAAATACCCTC-GATTAG
* * * * *
19115487 GAAAATTACCGAAATACCTTTGATTTG
1 CAAAATTACCAAAATACCCTCGATTAG
* * *
19115514 GAAAATTACAAAAAGACCC-CTGATTTA-
1 CAAAATTACCAAAATACCCTC-GA-TTAG
19115541 CAAAATTA-CATAAATACCCT
1 CAAAATTACCA-AAATACCCT
19115561 TGACTTTCAA
Statistics
Matches: 148, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
26 3 0.02
27 141 0.95
28 4 0.03
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCTCGATTAG
Found at i:19115513 original size:54 final size:54
Alignment explanation
Indices: 19115353--19115641 Score: 224
Period size: 54 Copynumber: 5.3 Consensus size: 54
19115343 CATGGTTTAC
* * ** ** *
19115353 AAAATTACCAAAAT-GCCCTCGATTAGTAAAATTACCAAAATACCCTCAACCTAT
1 AAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTTGATTTGT
* * * * *
19115407 AAAATTATCAAAATA-CCCTCAACTTGTAAAATTACCAAAATAGCCTTAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTTGATTTGT
* * * *
19115461 AAAATTACCAAAATACCCCTGATTTGGAAAATTACCGAAATACCTTTGATTTGG
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGATTTGT
* * ** **
19115515 AAAATTACAAAAAGACCCCTGATTTACAAAATTA-CATAAATACCCTTGACTTTCA
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCA-AAATACCCTTGA-TTTGT
** *** * * *
19115570 AAAATTAGAAAAATACAATTGGTTTGTAAAATTACCGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGATTTGT
* * *
19115624 AGATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
19115642 TTGTAGGGTG
Statistics
Matches: 185, Mismatches: 45, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
53 1 0.01
54 139 0.75
55 44 0.24
56 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGATTTGT
Found at i:19115583 original size:28 final size:26
Alignment explanation
Indices: 19115336--19115617 Score: 120
Period size: 27 Copynumber: 10.4 Consensus size: 26
19115326 AGAATTACTG
* * *
19115336 AAATACCCATGGTTTACAAAATTACCA
1 AAATACCCTTGATTTA-AAAATTACAA
* * *
19115363 AAATGCCCTCGA-TTAGTAAAATTACCA
1 AAATACCCTTGATTTA--AAAATTACAA
** **
19115390 AAATACCCTCAACCTATAAAATTATC-A
1 AAATACCCTTGATTTA-AAAATTA-CAA
** *
19115417 AAATACCCTCAACTTGT-AAAATTACCA
1 AAATACCCTTGA-TT-TAAAAATTACAA
* * * *
19115444 AAATAGCCTTAATTTGTAAAATTACCA
1 AAATACCCTTGATTT-AAAAATTACAA
* * **
19115471 AAATACCCCTGATTTGGAAAATTACCG
1 AAATACCCTTGATTT-AAAAATTACAA
* *
19115498 AAATACCTTTGATTTGGAAAATTACAA
1 AAATACCCTTGATTT-AAAAATTACAA
* * *
19115525 AAAGACCCCTGATTTACAAAATTACAT
1 AAATACCCTTGATTTA-AAAATTACAA
*
19115552 AAATACCCTTGACTTTCAAAAATTAGAA
1 AAATACCCTTGA-TTT-AAAAATTACAA
** * * **
19115580 AAATACAATTGGTTTGTAAAATTACCG
1 AAATACCCTTGATTT-AAAAATTACAA
19115607 AAATACCCTTG
1 AAATACCCTTG
19115618 GTTTGTAGAT
Statistics
Matches: 204, Mismatches: 40, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.00
26 6 0.03
27 172 0.84
28 23 0.11
29 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATACCCTTGATTTAAAAATTACAA
Found at i:19115631 original size:27 final size:27
Alignment explanation
Indices: 19115430--19115644 Score: 117
Period size: 27 Copynumber: 7.9 Consensus size: 27
19115420 TACCCTCAAC
* * **
19115430 TTGTAAAATTACCAAAATAGCCTTAAT
1 TTGTAAAATTACCAAAACACCCTTGGT
* * *
19115457 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAACACCCTTGGT
* * * * *
19115484 TTGGAAAATTACCGAAATACCTTTGAT
1 TTGTAAAATTACCAAAACACCCTTGGT
* * * * *
19115511 TTGGAAAATTACAAAAAGACCCCTGAT
1 TTGTAAAATTACCAAAACACCCTTGGT
** * *
19115538 TTACAAAATTA-CATAAATACCCTTGACT
1 TTGTAAAATTACCA-AAACACCCTTG-GT
** ** * **
19115566 TTCAAAAATTAGAAAAATACAATTGGT
1 TTGTAAAATTACCAAAACACCCTTGGT
* *
19115593 TTGTAAAATTACCGAAATACCCTTGGT
1 TTGTAAAATTACCAAAACACCCTTGGT
* *
19115620 TTGTAGATTTACCAAAACACCCTTG
1 TTGTAAAATTACCAAAACACCCTTG
19115645 TAGGGTGAAA
Statistics
Matches: 150, Mismatches: 35, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.01
27 129 0.86
28 19 0.13
29 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCAAAACACCCTTGGT
Found at i:19115926 original size:41 final size:41
Alignment explanation
Indices: 19115881--19116003 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
19115871 CAGAGGAAGA
* *
19115881 AATTGAGAATCGCATGGTTGCTTGACGACCGTGGATCCACT
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
19115922 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
* * *
19115963 GATTAAGGATCGCATGGTTGCTTGATGACCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
19116004 GGTGGCTTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 77 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
Found at i:19116198 original size:22 final size:22
Alignment explanation
Indices: 19116146--19116199 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
19116136 GCCAATTATT
*
19116146 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGCGCCAAC
* *
19116168 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGCGCCAAC
*
19116190 TTGATTATGG
1 CTGATTATGG
19116200 TTGTGTACCA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (22 bp):
CTGATTATGGCTCTGCGCCAAC
Found at i:19116440 original size:22 final size:22
Alignment explanation
Indices: 19116415--19116457 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19116405 TGCTGCAATG
*
19116415 TTTACGGCTATGTGCTATCCTA
1 TTTACGGCTATGTGATATCCTA
19116437 TTTACGGCTATGTGATATCCT
1 TTTACGGCTATGTGATATCCT
19116458 GTCTATAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (22 bp):
TTTACGGCTATGTGATATCCTA
Found at i:19118988 original size:21 final size:20
Alignment explanation
Indices: 19118943--19118988 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
19118933 TTGTTGGAAT
19118943 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
19118962 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
19118983 GGTTGA
1 GGTTGA
19118989 TTGCATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:19124665 original size:43 final size:43
Alignment explanation
Indices: 19124577--19124732 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 43
19124567 TGAGATTACA
* * * * * *
19124577 TGTAAGACCATGTTTGGGACATTTGCATTGTAATTTGATTGCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTCCG
* * *
19124620 TGTAAGACCATGTCTGGGACATTGGCCTCGTTATATGTTTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTCCG
* * * * * *
19124663 TGTAAGACAACGTCTGGGACGTTGGCATCGATATATGATACCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTCCG
* *
19124706 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
19124733 TATATGAGCT
Statistics
Matches: 91, Mismatches: 22, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 6 0.07
43 85 0.93
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTCCG
Found at i:19126926 original size:2 final size:2
Alignment explanation
Indices: 19126919--19126947 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19126909 GTTAATGCTG
19126919 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
19126948 TAACGATTAA
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:19128090 original size:48 final size:48
Alignment explanation
Indices: 19128024--19128320 Score: 477
Period size: 48 Copynumber: 6.1 Consensus size: 48
19128014 GCGGAAATTG
*
19128024 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
*
19128072 ATGTATGAGATATGTATATTTGGTAAAGCCGAATGGCTAACGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
*
19128120 ATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAACGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
* *
19128168 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTG--A-A-AT
* *
19128220 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
**
19128268 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
19128316 ATGTA
1 ATGTA
19128321 GGCGATGTGT
Statistics
Matches: 234, Mismatches: 11, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
48 186 0.79
49 1 0.00
50 2 0.01
51 1 0.00
52 44 0.19
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
Found at i:19128380 original size:148 final size:147
Alignment explanation
Indices: 19128024--19128361 Score: 416
Period size: 148 Copynumber: 2.3 Consensus size: 147
19128014 GCGGAAATTG
* * * * * * *
19128024 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAACGTG--A-A-ATATGTATGAGATAT
1 ATGTAGGAGATATGTATATATGGT-AAGCCGAATGCCAAATGTGAAATATATATATATGAGATAT
* *
19128085 GTATATTTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGAGATATGTATATGTGGTAAAGTC
65 GTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
19128150 GAATGGCTAACGTGAAAT
130 GAATGGCTAACGTGAAAT
* * ***
19128168 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATATGAGATAT
1 ATGTAGGAGATATGTATATATGGT-AAGCCGAATGCCAAATGTGAAATATATATATATGAGATAT
*
19128233 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
65 GTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
**
19128298 GAATGGCTAGTGTGAAAT
130 GAATGGCTAACGTGAAAT
* * * * *
19128316 ATGTAGGCGATGTGTGTATATTGT-GGCCGAATGACCAAATGTGAAA
1 ATGTAGGAGATATGTATATATGGTAAGCCGAATG-CCAAATGTGAAA
19128362 GGTGTGTATT
Statistics
Matches: 170, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
144 41 0.24
146 9 0.05
147 10 0.06
148 110 0.65
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (147 bp):
ATGTAGGAGATATGTATATATGGTAAGCCGAATGCCAAATGTGAAATATATATATATGAGATATG
TATATGTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
AATGGCTAACGTGAAAT
Found at i:19128612 original size:37 final size:37
Alignment explanation
Indices: 19128467--19128611 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
19128457 GGAAATATAT
19128467 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
19128504 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
19128541 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
19128578 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
19128612 TCATCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:19130152 original size:120 final size:120
Alignment explanation
Indices: 19129884--19130323 Score: 648
Period size: 120 Copynumber: 3.7 Consensus size: 120
19129874 TTGAGAGTTA
* *
19129884 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCAGGGCTAAGCCCCGAAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG--ATATAGCCGGGCTAAGCCCCGAAG
19129949 AGCATTCGTGCTGGTGTTATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGT
64 AGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
19130005 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAGCCGGGCTAAGCCCCGAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAGCCGGGCTAAGCCCCGAAGAG
19130070 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
66 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * *
19130125 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCTGAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAGCCGGGCTAAGCCCCGAAGAG
* * * * * *
19130190 CATTTGTGCTGGTGTTATATCTGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGT
66 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * * * * * *
19130245 TATATCAGGGTTAAGTCTCGAAGAGCATTCGCGCTGGTGTTATAGCCGGGCTAGGTCCCGAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAGCCGGGCTAAGCCCCGAAGAG
* *
19130310 CAATCATGCTGGTG
66 CATTCGTGCTGGTG
19130324 ATGTGTATTC
Statistics
Matches: 293, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
119 55 0.19
120 200 0.68
121 38 0.13
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (120 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAGCCGGGCTAAGCCCCGAAGAG
CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
Found at i:19130323 original size:40 final size:40
Alignment explanation
Indices: 19129884--19130311 Score: 588
Period size: 40 Copynumber: 10.7 Consensus size: 40
19129874 TTGAGAGTTA
*
19129884 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG-T
* * * *
19129925 ATATAGCAGGGCTAAGCCCCGAAGAGCATTCGTGCTGGTGT
1 -TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
19129966 TATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
19130005 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * *
19130045 TGTAGCCGGGCTAAGCCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
19130085 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
19130125 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * *
19130165 TGTATCCGGGCTAAGTCCTGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * * *
19130205 TATATCTGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * * *
19130245 TATATCAGGGTTAAGTCTCGAAGAGCATTCGCGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
19130285 TATAGCCGGGCTAGGTCCCGAAGAGCA
1 TATATCCGGGCTAAGTCCCGAAGAGCA
19130312 ATCATGCTGG
Statistics
Matches: 343, Mismatches: 42, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
39 38 0.11
40 268 0.78
41 1 0.00
42 36 0.10
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
Found at i:19130537 original size:25 final size:25
Alignment explanation
Indices: 19130487--19130537 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
19130477 TGTGTAACAA
* * *
19130487 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTAAGAGTG
*
19130512 CAAATGATTAGAGGCACTAAGAGTG
1 CAAATGAATAGAGGCACTAAGAGTG
19130537 C
1 C
19130538 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAAGAGTG
Found at i:19130606 original size:29 final size:29
Alignment explanation
Indices: 19130522--19130606 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
19130512 CAAATGATTA
* * *
19130522 GAGGCACTAAG-AGTGCGAGTTCTTCAACT
1 GAGGCACTATGTA-TGCGAGTTCTTTAATT
* **
19130551 GA-GCACTATGTGTGCGAGATT-GGTAATT
1 GAGGCACTATGTATGCGAG-TTCTTTAATT
19130579 GAGGCACTATGTATGCGAGTTCTTTAAT
1 GAGGCACTATGTATGCGAGTTCTTTAAT
19130607 CGAACGCTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
28 20 0.47
29 23 0.53
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (29 bp):
GAGGCACTATGTATGCGAGTTCTTTAATT
Found at i:19132601 original size:22 final size:22
Alignment explanation
Indices: 19132549--19132602 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
19132539 GCCAATTATT
*
19132549 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGCGCCAAC
* *
19132571 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGCGCCAAC
19132593 CTGATTATGG
1 CTGATTATGG
19132603 TTGTGTACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGCGCCAAC
Found at i:19132843 original size:22 final size:22
Alignment explanation
Indices: 19132818--19132860 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19132808 TGCTGCAATG
*
19132818 TTTACGGCTATGTGCTATCCTA
1 TTTACGGCTATGTGATATCCTA
*
19132840 TTTATGGCTATGTGATATCCT
1 TTTACGGCTATGTGATATCCT
19132861 GTCTATAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (22 bp):
TTTACGGCTATGTGATATCCTA
Found at i:19135392 original size:21 final size:20
Alignment explanation
Indices: 19135347--19135392 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
19135337 TTGTTGGAAT
19135347 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
19135366 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
19135387 GGTTGA
1 GGTTGA
19135393 TTGCATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:19137372 original size:43 final size:43
Alignment explanation
Indices: 19137284--19137439 Score: 143
Period size: 43 Copynumber: 3.7 Consensus size: 43
19137274 TGAGATTACA
* * * * * *
19137284 TGTAAGACCATGTTTGGGACATTTGCATTGTAATTTGATTGCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTCCG
* * *
19137327 TGTAAGACCATGTCTGGGACATTGGCCTCGTTATATGTTTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTCCG
* * ** * * *
19137370 TGTAAGACAACGTCTGGGATGTTGGCATCGATATATGATACCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTCCG
* *
19137413 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
19137440 TATATGAGCT
Statistics
Matches: 91, Mismatches: 22, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 6 0.07
43 85 0.93
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTCCG
Found at i:19140788 original size:48 final size:48
Alignment explanation
Indices: 19140722--19140918 Score: 358
Period size: 48 Copynumber: 4.1 Consensus size: 48
19140712 GCGGAAATTG
*
19140722 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
19140770 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
*
19140818 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
**
19140866 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
19140914 ATGTA
1 ATGTA
19140919 GGCGATGTGT
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 146 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAAT
Found at i:19141210 original size:37 final size:37
Alignment explanation
Indices: 19141065--19141209 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
19141055 GGAAATATAT
19141065 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
19141102 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
19141139 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
** * *
19141176 TCTTGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
19141210 TCATCTGAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:19143543 original size:42 final size:43
Alignment explanation
Indices: 19143444--19143599 Score: 197
Period size: 43 Copynumber: 3.6 Consensus size: 43
19143434 GTTTTATCGA
* * * * *
19143444 GTAAGACCACGTTTGGGACGTTGGCATCGATTTGTGATTTACGT
1 GTAAGACCATGTCTGGGACATTGGCATCGATATATGATTT-CGT
19143488 GTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTTCGT
1 GTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTCGT
* * * * *
19143530 GTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTACAT
1 GTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTCGT
*
19143573 GTAAGACCATGTCTGGGATATTGGCAT
1 GTAAGACCATGTCTGGGACATTGGCAT
19143600 TGTATGAGCT
Statistics
Matches: 98, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
42 30 0.31
43 42 0.43
44 26 0.27
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (43 bp):
GTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTCGT
Found at i:19153479 original size:42 final size:43
Alignment explanation
Indices: 19153370--19153523 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 43
19153360 GTTATCGTGT
* * * * * * *
19153370 AAGACCACGTCTGGGAC-GTTGGCATCGATTTGTGATTTACCTGT
1 AAGACCATGTCTGAGACAG-TGGCATCAATATATGA-TTACATGC
* * *
19153414 AAGACCATGTCTGGGACATTGGCATC-ATATATGATTTCATGC
1 AAGACCATGTCTGAGACAGTGGCATCAATATATGATTACATGC
* * *
19153456 AAGACCCTGTCTGAGACAGTGGCATCAATATTTGATTACATGT
1 AAGACCATGTCTGAGACAGTGGCATCAATATATGATTACATGC
19153499 AAGACCATGTCTGAGAC-GTTGGCAT
1 AAGACCATGTCTGAGACAG-TGGCAT
19153524 TGTACGAGTT
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 29 0.31
43 41 0.44
44 23 0.25
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
AAGACCATGTCTGAGACAGTGGCATCAATATATGATTACATGC
Found at i:19157891 original size:27 final size:27
Alignment explanation
Indices: 19157700--19157879 Score: 252
Period size: 27 Copynumber: 6.7 Consensus size: 27
19157690 TGGATAAGTT
* *
19157700 GTAGAATTACTGAAATACCCTTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAGG
19157727 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
19157754 GTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
19157781 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * *
19157808 GTAGAAATACCGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * *
19157835 GTAGAAATACCGAAATACCCGTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
19157862 GTAGAATTACTGAGATAC
1 GTAGAATTACTGAAATAC
19157880 TCTTATGGGG
Statistics
Matches: 140, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Found at i:19163418 original size:28 final size:28
Alignment explanation
Indices: 19163372--19163440 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
19163362 TTTAAAACCC
*
19163372 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
19163399 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
19163427 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
19163441 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:19167598 original size:27 final size:27
Alignment explanation
Indices: 19167564--19167763 Score: 256
Period size: 27 Copynumber: 7.4 Consensus size: 27
19167554 TGGATAAGTT
*
19167564 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
19167591 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
19167618 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
19167645 GTAGAATTACAGAAATACCTCTGAAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
19167672 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
19167699 GTAGAAATATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * **
19167726 GTAGAATTACAGAGATACCCTTGCGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
19167753 GTAAAATTACC
1 GTAGAATTACC
19167764 ATTTTGCCCC
Statistics
Matches: 148, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:19167699 original size:81 final size:81
Alignment explanation
Indices: 19167564--19167745 Score: 294
Period size: 81 Copynumber: 2.2 Consensus size: 81
19167554 TGGATAAGTT
* * *
19167564 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATT
1 GTAGAATTACAGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATATC
19167629 GAAATACCCCTGTAGG
66 GAAATACCCCTGTAGG
* *
19167645 GTAGAATTACAGAAATACCTCTG-AAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAAATAT
1 GTAGAATTACAGAAATACCCCTGTAAGG-TAGAATTACCGAAATACCCCTGTAGGGTAGAAATAT
19167709 CGAAATACCCCTGTAGG
65 CGAAATACCCCTGTAGG
*
19167726 GTAGAATTACAGAGATACCC
1 GTAGAATTACAGAAATACCC
19167746 TTGCGGGGTA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 4 0.04
81 89 0.96
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (81 bp):
GTAGAATTACAGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATATC
GAAATACCCCTGTAGG
Found at i:19168438 original size:2 final size:2
Alignment explanation
Indices: 19168431--19168470 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
19168421 GCTTCGCCAC
19168431 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
19168471 CTGTTCTGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19168519 original size:27 final size:26
Alignment explanation
Indices: 19168467--19168526 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
19168457 ATATATATAT
*
19168467 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
19168493 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
19168520 ATATCTG
1 ATATCTG
19168527 GCAGCTTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:19169747 original size:27 final size:27
Alignment explanation
Indices: 19169717--19170030 Score: 407
Period size: 27 Copynumber: 11.6 Consensus size: 27
19169707 TAATAATATC
*
19169717 ACTGTTTTGCCCTTCTGAGGTAAAATG
1 ACTGTTTTGCCCTTATGAGGTAAAATG
19169744 ACTGTTTTGCCCTTAT-AGGGTAAAATG
1 ACTGTTTTGCCCTTATGA-GGTAAAATG
*
19169771 ACTGTTTTGCCCTTATGTGGTAAAATG
1 ACTGTTTTGCCCTTATGAGGTAAAATG
* *
19169798 ATTGTTTTGCCCTTATGTGGTAAAATG
1 ACTGTTTTGCCCTTATGAGGTAAAATG
* *
19169825 ATTGTTTTGCCCTTATGTGGTAAAATG
1 ACTGTTTTGCCCTTATGAGGTAAAATG
*
19169852 ATTGTTTTGCCCTTATGAGGTAAAATG
1 ACTGTTTTGCCCTTATGAGGTAAAATG
** * *
19169879 ACTGTTTTGCTGTTGTGAGGTAAAATA
1 ACTGTTTTGCCCTTATGAGGTAAAATG
*
19169906 ACTGTTTTGCCCTTGTGAGGTAAAATG
1 ACTGTTTTGCCCTTATGAGGTAAAATG
* * *
19169933 ATTATTTTGCCCTTATTAGGTAAAATG
1 ACTGTTTTGCCCTTATGAGGTAAAATG
* *
19169960 ACTGTTTTTCCCTTATGTGGTAAAATG
1 ACTGTTTTGCCCTTATGAGGTAAAATG
* *
19169987 ACTATTTTGCCCTT-TCATGGTAAAATG
1 ACTGTTTTGCCCTTATGA-GGTAAAATG
* *
19170014 ACTGTTTTACCCCTATG
1 ACTGTTTTGCCCTTATG
19170031 TGATGTATGT
Statistics
Matches: 254, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
26 2 0.01
27 251 0.99
28 1 0.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (27 bp):
ACTGTTTTGCCCTTATGAGGTAAAATG
Found at i:19173337 original size:27 final size:27
Alignment explanation
Indices: 19173303--19173477 Score: 242
Period size: 27 Copynumber: 6.5 Consensus size: 27
19173293 TGGATAAGTT
* *
19173303 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
19173330 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
19173357 GTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
19173384 GTAGAGTTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** *
19173411 ATAGAATTATTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
19173438 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
19173465 GTAGAATTACCGA
1 GTAGAATTACCGA
19173478 GTTACTTTTG
Statistics
Matches: 126, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:19173378 original size:54 final size:54
Alignment explanation
Indices: 19173303--19173473 Score: 270
Period size: 54 Copynumber: 3.2 Consensus size: 54
19173293 TGGATAAGTT
* * *
19173303 GTAGAATTATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* *
19173357 GTAGAATTATTGAAATACCCCTATAGGGTAGAGTTACCGAAATACCCCTGTAGG
1 GTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* * *
19173411 ATAGAATTATTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
19173465 GTAGAATTA
1 GTAGAATTA
19173474 CCGAGTTACT
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 106 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (54 bp):
GTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
Found at i:19174206 original size:26 final size:27
Alignment explanation
Indices: 19174156--19174207 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
19174146 CTCGCTGCAA
*
19174156 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACATATATCTGT
* *
19174183 TCTGGTGACTTCGTCAC-TATATCTG
1 TCTGGTGACCTCGCCACATATATCTG
19174208 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (27 bp):
TCTGGTGACCTCGCCACATATATCTGT
Found at i:19174287 original size:27 final size:26
Alignment explanation
Indices: 19174251--19174307 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
19174241 TATATATATT
*
19174251 TCTGTTCTGGTGGCCTAGCCACAATA
1 TCTGTTCTGGTGACCTAGCCACAATA
* * *
19174277 TCTGTATCTGGTGACTTCGTCACAATA
1 TCTGT-TCTGGTGACCTAGCCACAATA
19174304 TCTG
1 TCTG
19174308 GCAGCCTCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGTTCTGGTGACCTAGCCACAATA
Found at i:19176070 original size:27 final size:27
Alignment explanation
Indices: 19176040--19176263 Score: 254
Period size: 27 Copynumber: 8.3 Consensus size: 27
19176030 CCTAAATTAA
*
19176040 TAAAGTGACTATTTTGCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* * *
19176067 TAAAATGACTATTTTGTCCTTTTGGGG
1 TAAAATGACTATTTTGCCCTTATGAGG
*
19176094 TAAAAT-ACCTATTTTGCCCTTGTGAGG
1 TAAAATGA-CTATTTTGCCCTTATGAGG
* *
19176121 TAAAATGACTATTTTGCCATTGTGAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* *
19176148 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* * *
19176175 TAAAATAACTGTTTTGCCCTTATAAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* * *
19176202 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* * *
19176229 TAAAATGATTGTTTTGCCCTT-TTATGG
1 TAAAATGACTATTTTGCCCTTATGA-GG
19176256 TAAAATGA
1 TAAAATGA
19176264 TTGTTTTACC
Statistics
Matches: 173, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 170 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGAGG
Found at i:19176180 original size:81 final size:81
Alignment explanation
Indices: 19176040--19176261 Score: 300
Period size: 81 Copynumber: 2.7 Consensus size: 81
19176030 CCTAAATTAA
* * * * *
19176040 TAAAGTGACTATTTTGCCCTTATGAGGTAAAATGACTATTTTGTCCTTTTGGGGTAAAATACCTA
1 TAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTTTGTGGTAAAATAACTA
* *
19176105 TTTTGCCCTTGTGAGG
66 TTTTGCCCTTATAAGG
* * * *
19176121 TAAAATGACTATTTTGCCATTGTGAGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATAACTG
1 TAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTTTGTGGTAAAATAACTA
19176186 TTTTGCCCTTATAAGG
66 TTTTGCCCTTATAAGG
* * * * *
19176202 TAAAATGATTGTTTTGCCCTTATGTGGTAAAATGATTGTTTTGCCCTTTTATGGTAAAAT
1 TAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTTTGTGGTAAAAT
19176262 GATTGTTTTA
Statistics
Matches: 122, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 122 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.41
Consensus pattern (81 bp):
TAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTTTGTGGTAAAATAACTA
TTTTGCCCTTATAAGG
Found at i:19176602 original size:18 final size:18
Alignment explanation
Indices: 19176579--19176620 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
19176569 TAATGTTCAA
19176579 ACTGTTACTGCACTGA-TT
1 ACTGTTACTGCACT-ATTT
*
19176597 ACTGTTATTGCACTATTT
1 ACTGTTACTGCACTATTT
19176615 ACTGTT
1 ACTGTT
19176621 GCATGACTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.45
Consensus pattern (18 bp):
ACTGTTACTGCACTATTT
Found at i:19178857 original size:29 final size:29
Alignment explanation
Indices: 19178815--19178887 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
19178805 GTGACAAGAT
19178815 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
19178844 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
19178873 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
19178888 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:19178906 original size:29 final size:29
Alignment explanation
Indices: 19178874--19178946 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
19178864 TGAAAAGTAT
* * *
19178874 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
19178903 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
19178932 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
19178947 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:19184215 original size:6 final size:6
Alignment explanation
Indices: 19184204--19184241 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
19184194 GGAATACATC
*
19184204 GTAACA GTAACA GTAACA GTAATA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
19184242 GGCGGTACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:19185144 original size:15 final size:15
Alignment explanation
Indices: 19185120--19185158 Score: 69
Period size: 15 Copynumber: 2.5 Consensus size: 15
19185110 CCCTATTTTT
19185120 CCTTTCTTTTTCTTTC
1 CCTTT-TTTTTCTTTC
19185136 CCTTTTTTTTCTTTC
1 CCTTTTTTTTCTTTC
19185151 CCTTTTTT
1 CCTTTTTT
19185159 CTTTCTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
CCTTTTTTTTCTTTC
Found at i:19185156 original size:13 final size:14
Alignment explanation
Indices: 19185126--19185163 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
19185116 TTTTCCTTTC
19185126 TTTTTCTTTCCCTTT
1 TTTTTCTTTCCC-TT
19185141 TTTTTCTTTCCC-T
1 TTTTTCTTTCCCTT
19185154 TTTTTCTTTC
1 TTTTTCTTTC
19185164 TTTCTTTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTCTTTCCCTT
Found at i:19185184 original size:21 final size:21
Alignment explanation
Indices: 19185143--19185184 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19185133 TTCCCTTTTT
* *
19185143 TTTCTTTCCCTTTTTTCTTTC
1 TTTCTTTCCCTGTTCTCTTTC
*
19185164 TTTCTTTCCCTGTTCTGTTTC
1 TTTCTTTCCCTGTTCTCTTTC
19185185 GTCCCCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.29, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTCTTTCCCTGTTCTCTTTC
Found at i:19185252 original size:3 final size:3
Alignment explanation
Indices: 19185234--19185277 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
19185224 TTTACTTTTA
19185234 ATT ATT A-T ATT A-T ATT ATT ATT A-T ATT -TT AGTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
19185276 AT
1 AT
19185278 ATTTTACTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
2 8 0.22
3 25 0.69
4 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:19185271 original size:20 final size:20
Alignment explanation
Indices: 19185246--19185283 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
19185236 TATTATATTA
19185246 TATTATTATTATATTTTAGT
1 TATTATTATTATATTTTAGT
19185266 TATTATTATTATATTTTA
1 TATTATTATTATATTTTA
19185284 CTTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TATTATTATTATATTTTAGT
Found at i:19188420 original size:44 final size:43
Alignment explanation
Indices: 19188281--19188443 Score: 188
Period size: 43 Copynumber: 3.8 Consensus size: 43
19188271 TCGTACAATC
* * *
19188281 CCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATG
1 CCAACGTCCCAGACATGGTCTTACACGTAATCACAAATCGATG
** * *
19188324 CCATTGTCCCAGACAGGGTCATACACG-AAT--CAAATACGATG
1 CCAACGTCCCAGACATGGTCTTACACGTAATCACAAAT-CGATG
*
19188365 CCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGATG
1 CCAACGTCCCAGACATGGTCTTACACGT-AATCACAAATCGATG
* **
19188409 CCAACCTCCCAGATGTGGTCTTACACGTAATCACA
1 CCAACGTCCCAGACATGGTCTTACACGTAATCACA
19188444 TATCAGAATC
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
40 4 0.04
41 29 0.29
42 3 0.03
43 31 0.31
44 29 0.29
45 5 0.05
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
CCAACGTCCCAGACATGGTCTTACACGTAATCACAAATCGATG
Found at i:19188434 original size:85 final size:85
Alignment explanation
Indices: 19188281--19188441 Score: 209
Period size: 85 Copynumber: 1.9 Consensus size: 85
19188271 TCGTACAATC
* * * ***
19188281 CCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCATTGTCCCAGACAGGGTCAT
1 CCAACGTCCCAGACATGGTCTTACACGTAATCACAAATCGATGCCAACCTCCCAGACAGGGTCAT
19188346 ACACG-AATCAAATACGATG
66 ACACGTAATCAAATACGATG
* *
19188365 CCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAACCTCCCAGA-TGTGGTC
1 CCAACGTCCCAGACATGGTCTTACACGT-AATCACAAATCGATGCCAACCTCCCAGACAG-GGTC
*
19188429 TTACACGTAATCA
64 ATACACGTAATCA
19188442 CATATCAGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 26 0.40
85 34 0.52
86 5 0.08
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (85 bp):
CCAACGTCCCAGACATGGTCTTACACGTAATCACAAATCGATGCCAACCTCCCAGACAGGGTCAT
ACACGTAATCAAATACGATG
Found at i:19193863 original size:25 final size:25
Alignment explanation
Indices: 19193833--19193880 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19193823 TTATACCATG
* * *
19193833 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
19193858 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
19193881 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:19193983 original size:20 final size:20
Alignment explanation
Indices: 19193923--19193983 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
19193913 ATAAATATGG
*
19193923 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
19193943 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
19193963 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
19193983 T
1 T
19193984 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:19194060 original size:24 final size:24
Alignment explanation
Indices: 19194033--19194175 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
19194023 GAGGAAGTGA
19194033 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
19194057 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
19194081 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
19194104 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
19194128 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
19194152 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
19194176 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:19194126 original size:47 final size:47
Alignment explanation
Indices: 19194033--19194175 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
19194023 GAGGAAGTGA
19194033 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
19194081 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
19194128 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
19194176 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:19194149 original size:71 final size:72
Alignment explanation
Indices: 19194033--19194176 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
19194023 GAGGAAGTGA
*
19194033 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
19194096 CCAGTTAT
65 CCAGTTAT
** * *
19194104 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
19194169 CAGTTAT
66 CAGTTAT
19194176 A
1 A
19194177 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:19195237 original size:31 final size:31
Alignment explanation
Indices: 19195202--19195265 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
19195192 CGTTTACAGT
*
19195202 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
19195233 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
19195264 AA
1 AA
19195266 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:19208283 original size:49 final size:47
Alignment explanation
Indices: 19208027--19208618 Score: 990
Period size: 47 Copynumber: 12.4 Consensus size: 47
19208017 TATCACAGTT
* * * *
19208027 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAC
*
19208074 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
* *
19208121 ATACACTTTCACATTAATCATATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
19208168 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
19208215 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
*
19208264 ATACACTTTCACATTCATCACATTGGTCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
19208311 ATACACTTTCACATTCATCACATTGGCCCTTCGGCCTTATCACATA-
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
19208357 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
19208406 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
19208455 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
19208502 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
19208551 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
19208600 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
19208619 GTAACAAAAT
Statistics
Matches: 523, Mismatches: 14, Indels: 14
0.95 0.03 0.03
Matches are distributed among these distances:
46 42 0.08
47 266 0.51
48 5 0.01
49 210 0.40
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:19208323 original size:96 final size:96
Alignment explanation
Indices: 19208027--19208618 Score: 1011
Period size: 96 Copynumber: 6.2 Consensus size: 96
19208017 TATCACAGTT
* * * *
19208027 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTAT--CATATATATATACTTTCACATT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
19208089 CATCACATTGGCCATTCGGCCTTATCACATAC
65 CATCACATTGGCCATTCGGCCTTATCACATAC
* *
19208121 ATACACTTTCACATTAATCATATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
19208184 ATCACATTGGCCATTCGGCCTTATCACATAC
66 ATCACATTGGCCATTCGGCCTTATCACATAC
19208215 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
*
19208280 ATCACATTGGTCATTCGGCCTTATCACATAC
66 ATCACATTGGCCATTCGGCCTTATCACATAC
*
19208311 ATACACTTTCACATTCATCACATTGGCCCTTCGGCCTTATCAC--ATA-ATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
19208373 ATCACATTGGCCATTCGGCCTTATCACATATAC
66 ATCACATTGGCCATTCGGCCTTATCAC--ATAC
19208406 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
19208471 ATCACATTGGCCATTCGGCCTTATCACATAC
66 ATCACATTGGCCATTCGGCCTTATCACATAC
19208502 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
19208567 ATCACATTGGCCATTCGGCCTTATCACATATAC
66 ATCACATTGGCCATTCGGCCTTATCAC--ATAC
19208600 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
19208619 GTAACAAAAT
Statistics
Matches: 474, Mismatches: 12, Indels: 20
0.94 0.02 0.04
Matches are distributed among these distances:
93 42 0.09
94 126 0.27
95 48 0.10
96 189 0.40
97 3 0.01
98 66 0.14
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (96 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
ATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:19208425 original size:27 final size:27
Alignment explanation
Indices: 19208395--19208477 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
19208385 ATTCGGCCTT
19208395 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* * *
19208422 ATCACAT-TGGC---CA--TTCGGCCTT-
1 ATCACATAT-ACATACACTTTC-ACATTC
19208444 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
19208471 ATCACAT
1 ATCACAT
19208478 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 11 0.27
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 18 0.44
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:19214309 original size:43 final size:40
Alignment explanation
Indices: 19214240--19214352 Score: 111
Period size: 41 Copynumber: 2.7 Consensus size: 40
19214230 AGCTCATAAA
* * * *
19214240 ATGCCAATGTCCCAGAC-GTGGCCTTACATGTAATTACATATCG
1 ATGCC-ATGTCCCAGACAG-GGTCTTACACG-AATCAAATA-CG
19214283 ATGCCACTGTCCCAGACAGGGTCTTACACGAATCAAATACG
1 ATGCCA-TGTCCCAGACAGGGTCTTACACGAATCAAATACG
* *
19214324 ATGCCGATGTCCTAGACATGGTCTTACAC
1 ATGCC-ATGTCCCAGACAGGGTCTTACAC
19214353 ATAAATCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 27 0.44
42 9 0.15
43 24 0.39
44 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
ATGCCATGTCCCAGACAGGGTCTTACACGAATCAAATACG
Found at i:19216189 original size:27 final size:27
Alignment explanation
Indices: 19216159--19216286 Score: 202
Period size: 27 Copynumber: 4.7 Consensus size: 27
19216149 GCCCAAATGT
* *
19216159 CCTCGATTTATAGAATTATCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
19216186 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
19216213 CCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* * *
19216240 CCTCGATATATAGAATTATCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
19216267 CCTCGATTTACAGAATTACC
1 CCTCGATTTACAGAATTACC
19216287 AAAATACCCT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACCGTTTTAC
Found at i:19216310 original size:27 final size:27
Alignment explanation
Indices: 19216280--19216378 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 27
19216270 CGATTTACAG
*
19216280 AATTACCAAAATA-CCCTCAATCAGTAA
1 AATTACAAAAATACCCCT-AATCAGTAA
* **
19216307 AATTACAAAAATACCCCTAGTTTGTAA
1 AATTACAAAAATACCCCTAATCAGTAA
* ** **
19216334 AATTACTAAAATACCCCTGGTTTGTAA
1 AATTACAAAAATACCCCTAATCAGTAA
* *
19216361 AATTTCCAAAATACCCCT
1 AATTACAAAAATACCCCT
19216379 GATTTGTAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 59 0.94
28 4 0.06
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.28
Consensus pattern (27 bp):
AATTACAAAAATACCCCTAATCAGTAA
Found at i:19216322 original size:81 final size:81
Alignment explanation
Indices: 19216159--19216322 Score: 197
Period size: 81 Copynumber: 2.0 Consensus size: 81
19216149 GCCCAAATGT
* **** * *
19216159 CCTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
1 CCTCGATATATAGAATTATCGTTTTACCCTCGATTTACAGAATTACCAAAATACCCTCAATGTAC
* ***
19216224 AGAATTACCATTTTAC
66 AGAATTACAAAAATAC
19216240 CCTCGATATATAGAATTATCGTTTTACCCTCGATTTACAGAATTACCAAAATACCCTCAATCAGT
1 CCTCGATATATAGAATTATCGTTTTACCCTCGATTTACAGAATTACCAAAATACCCTCAAT--GT
19216305 A-A-AATTACAAAAATAC
64 ACAGAATTACAAAAATAC
19216321 CC
1 CC
19216323 CTAGTTTGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
81 67 0.96
82 1 0.01
83 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.34
Consensus pattern (81 bp):
CCTCGATATATAGAATTATCGTTTTACCCTCGATTTACAGAATTACCAAAATACCCTCAATGTAC
AGAATTACAAAAATAC
Found at i:19216338 original size:54 final size:55
Alignment explanation
Indices: 19216280--19216403 Score: 139
Period size: 54 Copynumber: 2.3 Consensus size: 55
19216270 CGATTTACAG
19216280 AATTACCAAAATACCCTC-AATCAGTAAAATTACAAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTCTAATCAGTAAAATTACAAAAATACCCCTGA-TTTGTAA
* ** ** * *
19216334 AATTACTAAAATACCC-CTGGTTTGTAAAATTTCCAAAATACCCCTGATTTGTAA
1 AATTACCAAAATACCCTCTAATCAGTAAAATTACAAAAATACCCCTGATTTGTAA
*
19216388 AA-TACCGAAATACCCT
1 AATTACCAAAATACCCT
19216404 TGTAGGGTAG
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
53 12 0.21
54 45 0.78
55 1 0.02
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (55 bp):
AATTACCAAAATACCCTCTAATCAGTAAAATTACAAAAATACCCCTGATTTGTAA
Found at i:19216379 original size:27 final size:27
Alignment explanation
Indices: 19216303--19216390 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
19216293 CCCTCAATCA
*
19216303 GTAAAATTACAAAAATACCCCTAGTTT
1 GTAAAATTACAAAAATACCCCTGGTTT
*
19216330 GTAAAATTACTAAAATACCCCTGGTTT
1 GTAAAATTACAAAAATACCCCTGGTTT
* * *
19216357 GTAAAATTTCCAAAATACCCCTGATTT
1 GTAAAATTACAAAAATACCCCTGGTTT
19216384 GTAAAAT
1 GTAAAAT
19216391 ACCGAAATAC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
GTAAAATTACAAAAATACCCCTGGTTT
Found at i:19216627 original size:27 final size:27
Alignment explanation
Indices: 19216390--19216634 Score: 283
Period size: 27 Copynumber: 9.1 Consensus size: 27
19216380 ATTTGTAAAA
*
19216390 TACCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
** * * *
19216417 TACTAAAATACCCTTGTAGGATAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
19216444 TACCGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * * *
19216471 TACTGAAATATCCCTATAAGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
19216498 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
19216525 TACTGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
19216552 TACCGAAATACCCTTGTAGTGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
19216579 TATCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * * *
19216606 TACCGAGATATCCATGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
19216633 TA
1 TA
19216635 TCATTTTGCC
Statistics
Matches: 182, Mismatches: 36, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 182 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:19225315 original size:5 final size:5
Alignment explanation
Indices: 19225305--19225386 Score: 58
Period size: 5 Copynumber: 15.2 Consensus size: 5
19225295 TATGTCTTTC
* * * *
19225305 AAAAT AAAAT AATAT AAAATT GAAAT GAAAGT AAAAAT CAAAAG AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT AAAAT
19225354 AAAAAT AAAAT AAAAAT AAGAA- AAAAT AAAAT A
1 -AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAAT A
19225387 GGAGGATTCA
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
4 2 0.03
5 32 0.52
6 27 0.44
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:19225351 original size:17 final size:16
Alignment explanation
Indices: 19225305--19225386 Score: 58
Period size: 17 Copynumber: 5.0 Consensus size: 16
19225295 TATGTCTTTC
* *
19225305 AAAATAAAATAATATA
1 AAAATAAAAGAAAATA
* * *
19225321 AAATTGAAATGAAAGTA
1 AAAAT-AAAAGAAAATA
19225338 AAAATCAAAAGAAAATA
1 AAAAT-AAAAGAAAATA
*
19225355 AAAATAAAATAAAAATA
1 AAAATAAAA-GAAAATA
* *
19225372 AGAA-AAAATAAAATA
1 AAAATAAAAGAAAATA
19225387 GGAGGATTCA
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
15 6 0.12
16 12 0.23
17 34 0.65
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAATAAAAGAAAATA
Found at i:19230203 original size:40 final size:41
Alignment explanation
Indices: 19230158--19230323 Score: 155
Period size: 40 Copynumber: 4.2 Consensus size: 41
19230148 CGGAATATAA
*
19230158 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
19230198 CCGGATAGAA--AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
19230237 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
19230277 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
19230316 CCGGATAT
1 CCGGATAT
19230324 CATTCAATTT
Statistics
Matches: 104, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
38 4 0.04
39 42 0.40
40 57 0.55
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19230222 original size:39 final size:40
Alignment explanation
Indices: 19230174--19230283 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
19230164 ATAATCAAGT
*
19230174 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-AAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGAAACTA
**
19230213 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGAAACTA
*
19230253 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
19230284 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGAAACTA
Found at i:19231171 original size:17 final size:19
Alignment explanation
Indices: 19231148--19231193 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
19231138 AAGAAGCATG
19231148 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
19231166 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
19231184 AATCATGCTC
1 AATCATGCTC
19231194 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:19237722 original size:39 final size:40
Alignment explanation
Indices: 19237644--19237878 Score: 393
Period size: 40 Copynumber: 5.9 Consensus size: 40
19237634 GAATACACAT
* *
19237644 CACCGGCACGAATGCCCTTCGAGACTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* *
19237684 CATCGGCACGAATACCCTT-GGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
19237723 CACCGGCACGAATGCCCTT-GGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
*
19237762 CACCGGAACCGAATGCCCTTCGGGATTTAGCCCGGATATAA
1 CACCGGCA-CGAATGCCCTTCGGGATTTAGCCCGGATATAA
19237803 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
*
19237843 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGAT
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGAT
19237879 CATCGTCGAG
Statistics
Matches: 184, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 62 0.34
40 95 0.52
41 27 0.15
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.20
Consensus pattern (40 bp):
CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
Found at i:19238005 original size:38 final size:38
Alignment explanation
Indices: 19237919--19238010 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
19237909 CTCTATATGA
* * * **
19237919 AGCCAGTGGGTCTTAATCCGGACATAATCTCTGTACAT
1 AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
* *
19237957 AGCCATCGGGTCTTTACCCGGACATAATCTCTACATAT
1 AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
*
19237995 AGTCAGCGGGTCTTTA
1 AGCCAGCGGGTCTTTA
19238011 AACTCGGATT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (38 bp):
AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
Found at i:19241656 original size:47 final size:47
Alignment explanation
Indices: 19241593--19241697 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
19241583 CCCTTCGGGA
* *
19241593 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
19241640 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
19241687 CTTATCACATA
1 CTTATCACATA
19241698 ATTAATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:19248585 original size:29 final size:29
Alignment explanation
Indices: 19248553--19248608 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
19248543 TAAATACACA
*
19248553 CAATTCATTTATTTTT-CATTTTAGTCCCT
1 CAATTCA-TTATTTTTGCAATTTAGTCCCT
*
19248582 CAATTTATTATTTTTGCAATTTAGTCC
1 CAATTCATTATTTTTGCAATTTAGTCC
19248609 TAATTACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.54
Consensus pattern (29 bp):
CAATTCATTATTTTTGCAATTTAGTCCCT
Found at i:19251986 original size:38 final size:39
Alignment explanation
Indices: 19251873--19252015 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
19251863 TCGTTCAAAC
*
19251873 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
19251913 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
19251952 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
19251990 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
19252016 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:19259060 original size:38 final size:39
Alignment explanation
Indices: 19258947--19259089 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
19258937 TCGTTCAAAC
*
19258947 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
19258987 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
19259026 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
19259064 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
19259090 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:19276351 original size:29 final size:29
Alignment explanation
Indices: 19276317--19276448 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
19276307 TACTCGATTT
* * *
19276317 CGCACACTTAGTGCCATACGATTT-AAGCC
1 CGCACACTTAGTGCCATA-TATTTCCAGCA
** **** * *
19276346 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
19276375 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
19276404 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
19276433 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
19276449 ATCTCGTCAC
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 2 0.02
29 82 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:19287800 original size:2 final size:2
Alignment explanation
Indices: 19287793--19287823 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19287783 TAGCTCCAGC
19287793 TA 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 TA T
19287824 TGGCAGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19287817 original size:66 final size:66
Alignment explanation
Indices: 19287747--19287889 Score: 225
Period size: 66 Copynumber: 2.2 Consensus size: 66
19287737 TAGCTTCGGC
* *
19287747 TATATATATATTGGCACTTAGTGTAAGTTATTGAGGTAGCTCCAG-CTATATATATATATATATA
1 TATATATATATTGGCACTTAGTGTAAGTGATTGAGATAGCTCC-GTCTATATATATATATATATA
19287811 TA
65 TA
* **
19287813 TATATATATATTGGCAGTTAGTGTGCGTGATTGAGATAGCTCCGTCTATATATATATATATATAT
1 TATATATATATTGGCACTTAGTGTAAGTGATTGAGATAGCTCCGTCTATATATATATATATATAT
19287878 A
66 A
19287879 TATATATATAT
1 TATATATATAT
19287890 ATATATATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 1 0.01
66 70 0.99
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (66 bp):
TATATATATATTGGCACTTAGTGTAAGTGATTGAGATAGCTCCGTCTATATATATATATATATAT
A
Found at i:19287866 original size:2 final size:2
Alignment explanation
Indices: 19287859--19287907 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
19287849 TAGCTCCGTC
19287859 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19287901 TA TA TA T
1 TA TA TA T
19287908 GGCACATAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19288023 original size:44 final size:44
Alignment explanation
Indices: 19287897--19288055 Score: 151
Period size: 44 Copynumber: 3.6 Consensus size: 44
19287887 TATATATATA
* * *
19287897 TATATATATATGGCACATAGTGTGCGATACCGAGATAGCTTCGGC
1 TATATATAT-TGGCACTTAGTGTGCGAGATCGAGATAGCTTCGGC
* * * * * *
19287942 TACATATTTTGGCACTTCGTATGCGTGATTGAGATAGC-TCTGGC
1 TATATATATTGGCACTTAGTGTGCGAGATCGAGATAGCTTC-GGC
* * *
19287986 TATATATATTGGCACTTAGTGTGCGAGATCAATATAGCTTCGGT
1 TATATATATTGGCACTTAGTGTGCGAGATCGAGATAGCTTCGGC
* * *
19288030 TGTTTAT-TTGGCACTTATTGTGCGAG
1 TATATATATTGGCACTTAGTGTGCGAG
19288056 GTTTTTGAGT
Statistics
Matches: 91, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
43 20 0.22
44 62 0.68
45 9 0.10
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.36
Consensus pattern (44 bp):
TATATATATTGGCACTTAGTGTGCGAGATCGAGATAGCTTCGGC
Found at i:19290278 original size:40 final size:39
Alignment explanation
Indices: 19290113--19290296 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
19290103 AAATTGAATG
* * *
19290113 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
19290153 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
19290193 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
19290233 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
19290272 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
19290297 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:19290321 original size:80 final size:81
Alignment explanation
Indices: 19290153--19290341 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
19290143 GCTGGAAATT
* * * *
19290153 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
19290218 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
19290234 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
19290297 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
19290313 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
19290342 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:19296450 original size:40 final size:39
Alignment explanation
Indices: 19296324--19296468 Score: 146
Period size: 40 Copynumber: 3.6 Consensus size: 39
19296314 TGCTGGAAAA
* * * * *
19296324 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * *
19296363 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTC-G
* *
19296404 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * *
19296443 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
19296469 CTTGGTGCGG
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 85 0.99
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
Found at i:19298176 original size:40 final size:39
Alignment explanation
Indices: 19298083--19298266 Score: 254
Period size: 40 Copynumber: 4.8 Consensus size: 39
19298073 CGGATGATAA
19298083 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATTC
19298121 -GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATTC
19298160 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-A--C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTC
* *
19298196 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TC
* * *
19298236 CGGGCTATGTCCCTAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
19298267 AGCTATATCC
Statistics
Matches: 134, Mismatches: 5, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
36 34 0.25
37 10 0.07
38 29 0.22
40 61 0.46
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTC
Found at i:19298223 original size:76 final size:77
Alignment explanation
Indices: 19298079--19298266 Score: 267
Period size: 76 Copynumber: 2.5 Consensus size: 77
19298069 TATTCGGATG
**
19298079 ATAA-CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATTGGGCTAAGTCCCGAAGGCATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-AACCGGGCTAAGTCCCGAAGGCATT
*
19298142 TGTGCGAGTTACT
65 GGTGCGAGTTACT
*
19298155 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-ACCGGGCTAAGTCCCGAAGGCATT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAACCGGGCTAAGTCCCGAAGGCATT
19298218 GGTGCGAGTTACT
65 GGTGCGAGTTACT
* * *
19298231 ATAACCGGGCTATGTCCCTAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
19298267 AGCTATATCC
Statistics
Matches: 100, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
75 1 0.01
76 65 0.65
77 11 0.11
78 23 0.23
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (77 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAACCGGGCTAAGTCCCGAAGGCATTG
GTGCGAGTTACT
Found at i:19306202 original size:40 final size:40
Alignment explanation
Indices: 19306108--19306297 Score: 285
Period size: 40 Copynumber: 4.8 Consensus size: 40
19306098 CGGATGATAA
19306108 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
*
19306147 CGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
* *
19306187 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
* *
19306227 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
* * *
19306267 CGGGCTATGTCCTGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
19306298 AGCTATATCC
Statistics
Matches: 137, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 39 0.28
40 98 0.72
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:19310320 original size:47 final size:46
Alignment explanation
Indices: 19310211--19310427 Score: 154
Period size: 47 Copynumber: 4.6 Consensus size: 46
19310201 GGGTAGGGTA
* * **
19310211 CCGATGACATGTCCCAGACATGGTCTTACACTGGCTCGT-ATC-TCAAG
1 CCGATG-CATGTCCCAGACA-GGTCTTACATTGACTC-TCATCTTGTAG
* * * *
19310258 TCGATACCATATCCCAGACAGGGTCTTACATTGACTATCATCTTGTAG
1 CCGAT-GCATGTCCCAGACA-GGTCTTACATTGACTCTCATCTTGTAG
* * ** *
19310306 CCGATGCATGTCCCAGACATGTCTTACACT-AGCTCTTGTCTTAATA-
1 CCGATGCATGTCCCAGACAGGTCTTACATTGA-CTCTCATCTT-GTAG
* * ** *
19310352 CCGATGCCATGTCCCAGACATGGTCTTATATTGGCTCTCATAATGTGG
1 CCGATG-CATGTCCCAGACA-GGTCTTACATTGACTCTCATCTTGTAG
*
19310400 CCGATGCATGTCCCAGACATGTCTTACA
1 CCGATGCATGTCCCAGACAGGTCTTACA
19310428 CTAGCTCACA
Statistics
Matches: 131, Mismatches: 30, Indels: 19
0.73 0.17 0.11
Matches are distributed among these distances:
45 1 0.01
46 30 0.23
47 73 0.56
48 27 0.21
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACAGGTCTTACATTGACTCTCATCTTGTAG
Found at i:19310379 original size:94 final size:93
Alignment explanation
Indices: 19310211--19310434 Score: 288
Period size: 94 Copynumber: 2.4 Consensus size: 93
19310201 GGGTAGGGTA
*
19310211 CCGATGACATGTCCCAGACATGGTCTTACACTGGCTCGTATCTCAAGTCGATACCATATCCCAGA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCGTATCTCAAGTCGATACCATATCCCAGA
**
19310276 CAGGGTCTTACATTGACTATCATCTTGTAG
64 CAGGGTCTTACATTGACTATCATAATGTAG
* * * * *
19310306 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTTAA-TACCGATGCCATGTCCCAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTATCTCAAGT--CGATACCATATCCCAGA
* * * * *
19310370 CATGGTCTTATATTGGCTCTCATAATGTGG
64 CAGGGTCTTACATTGACTATCATAATGTAG
19310400 CCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTC
19310435 ACACACAAAT
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
92 1 0.01
93 20 0.18
94 87 0.76
95 6 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTATCTCAAGTCGATACCATATCCCAGACA
GGGTCTTACATTGACTATCATAATGTAG
Found at i:19314857 original size:23 final size:21
Alignment explanation
Indices: 19314831--19314933 Score: 80
Period size: 23 Copynumber: 4.5 Consensus size: 21
19314821 TGCTCGTAAA
*
19314831 AGCTTACTGTTTCAGCTCACTGG
1 AGCTTACTG-TTCAGCTCA-TAG
* *
19314854 AGCTTACCGATTCAGCTCGAAAG
1 AGCTTACTG-TTCAGCTC-ATAG
19314877 AGCTTACTGTTCAGCTCAATAG
1 AGCTTACTGTTCAGCTC-ATAG
* *
19314899 AGCTTACCATTTTCAGTTCAATAG
1 AGCTTA-C-TGTTCAGCTC-ATAG
*
19314923 AGCGTACTGTT
1 AGCTTACTGTT
19314934 TATCAGCTCA
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
22 20 0.30
23 27 0.41
24 19 0.29
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (21 bp):
AGCTTACTGTTCAGCTCATAG
Found at i:19314914 original size:46 final size:46
Alignment explanation
Indices: 19314822--19314975 Score: 138
Period size: 46 Copynumber: 3.3 Consensus size: 46
19314812 ACTCACCATT
* *
19314822 GCTCGTAAA-AGCTTACTGTTTCAGCTCACTGGAGCTTACCGATTCA
1 GCTCG-AAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATTCA
19314868 GCTCGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTACC-ATTTTCA
1 GCTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGA--TTCA
* * * *
19314914 GTTC-AATAGAGCGTACTGTTTATCAGCTCATTAAGAGCTTACCGA-CCA
1 GCTCGAA-AGAGCTTACTG-TT-TCAGCTCAAT-AGAGCTTACCGATTCA
19314962 TGTCTCGAAAGAGC
1 -G-CTCGAAAGAGC
19314976 ATGTATGATG
Statistics
Matches: 89, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
44 1 0.01
45 24 0.27
46 31 0.35
48 3 0.03
49 10 0.11
50 17 0.19
51 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (46 bp):
GCTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATTCA
Found at i:19317819 original size:22 final size:21
Alignment explanation
Indices: 19317794--19317844 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
19317784 TAAAGATGTC
* *
19317794 AAATGGCTAAAGAAAGTTAAAT
1 AAATGGCTAAA-AAAATTAAAA
*
19317816 AAATGGATAAAAAAATTAAAA
1 AAATGGCTAAAAAAATTAAAA
19317837 AAATGGCT
1 AAATGGCT
19317845 TTATTAGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.59, C:0.04, G:0.16, T:0.22
Consensus pattern (21 bp):
AAATGGCTAAAAAAATTAAAA
Found at i:19318312 original size:267 final size:266
Alignment explanation
Indices: 19317816--19318321 Score: 958
Period size: 267 Copynumber: 1.9 Consensus size: 266
19317806 AAAGTTAAAT
19317816 AAATGGATAAAAAAATTAAAAAAATGGCTTTATTAGGTAAATATTCCCCAAGTTTTGGTAGTGGA
1 AAATGGATAAAAAAATTAAAAAAATGGCTTTATTAGGTAAATATTCCCCAAGTTTTGGTAGTGGA
*
19317881 CAGTTATGGGTAAAGTATTAATGAATTTAAAGGTTTAGGTAAATGTCATTTTGGTAAATTAATTA
66 CAGTTATGGATAAAGTATTAATGAATTTAAAGGTTTAGGTAAATGTCATTTTGGTAAATTAATTA
19317946 CTAACCATAAAATAAAATAAAATAAAACCATCATCTTCTTTATTTCAACAAAAGGTTGGCTGAAG
131 CTAACCATAAAATAAAATAAAATAAAACCATCATCTTCTTTATTTCAACAAAAGGTTGGCTGAAG
19318011 AACACCATTTTTGTTCTTGGAGGTTTCGGCCAAAGATTTTTCATTAATGGTTTCTATTAATTAAA
196 AACACCATTTTTGTTCTTGGAGGTTTCGGCCAAAGATTTTTCATTAATGGTTTCTATTAATTAAA
19318076 GATGTC
261 GATGTC
* * *
19318082 AAATGGCTAAAGAAAGTTAAATAAATGGCTTTATTAGGTAAATATTCCCCAAGTTTTGGTAGTGG
1 AAATGGATAAA-AAAATTAAAAAAATGGCTTTATTAGGTAAATATTCCCCAAGTTTTGGTAGTGG
19318147 ACAGTTATGGATAAAGTATTAATGAATTTAAAGGTTTAGGTAAATGTCATTTTGGTAAATTAATT
65 ACAGTTATGGATAAAGTATTAATGAATTTAAAGGTTTAGGTAAATGTCATTTTGGTAAATTAATT
*
19318212 GCTAACCATAAAATAAAATAAAATAAAACCATCATCTTCTTTATTTCAACAAAAGGTTGGCTGAA
130 ACTAACCATAAAATAAAATAAAATAAAACCATCATCTTCTTTATTTCAACAAAAGGTTGGCTGAA
19318277 GAACACCATTTTTGTTCTTGGAGGTTTCGGCCAAAGATTTTTCAT
195 GAACACCATTTTTGTTCTTGGAGGTTTCGGCCAAAGATTTTTCAT
19318322 GGTGCATGGT
Statistics
Matches: 234, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
266 10 0.04
267 224 0.96
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.35
Consensus pattern (266 bp):
AAATGGATAAAAAAATTAAAAAAATGGCTTTATTAGGTAAATATTCCCCAAGTTTTGGTAGTGGA
CAGTTATGGATAAAGTATTAATGAATTTAAAGGTTTAGGTAAATGTCATTTTGGTAAATTAATTA
CTAACCATAAAATAAAATAAAATAAAACCATCATCTTCTTTATTTCAACAAAAGGTTGGCTGAAG
AACACCATTTTTGTTCTTGGAGGTTTCGGCCAAAGATTTTTCATTAATGGTTTCTATTAATTAAA
GATGTC
Found at i:19320196 original size:23 final size:23
Alignment explanation
Indices: 19320166--19320210 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19320156 TAGGAAAGAA
19320166 ATGGTTG-ATTGATATGTGTTTGG
1 ATGGTTGAATTGATATGT-TTTGG
*
19320189 ATGGTTGAATTGGTATGTTTTG
1 ATGGTTGAATTGATATGTTTTG
19320211 AAAGTAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (23 bp):
ATGGTTGAATTGATATGTTTTGG
Found at i:19324300 original size:18 final size:18
Alignment explanation
Indices: 19324274--19324339 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 18
19324264 CCGCTAAAGG
*
19324274 TAATGAAATTTAAAAAAA
1 TAATAAAATTTAAAAAAA
*
19324292 TAATAAAATATTATAAAAA
1 TAATAAAAT-TTAAAAAAA
* *
19324311 TCATGAAAAATATAAAAAAA
1 TAAT--AAAATTTAAAAAAA
*
19324331 -ATTAAAATT
1 TAATAAAATT
19324340 CATTATCAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
17 5 0.14
18 8 0.22
19 12 0.32
20 7 0.19
21 5 0.14
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (18 bp):
TAATAAAATTTAAAAAAA
Found at i:19327543 original size:3 final size:3
Alignment explanation
Indices: 19327535--19327574 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
19327525 AAAATTATAT
19327535 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19327575 GCAAATGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.