Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 38 of 189
Found at i:11628522 original size:25 final size:24
Alignment explanation
Indices: 11628477--11628523 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11628467 TAAGTCTATC
* **
11628477 CCTTTTAAAATTAAATTTAAATAA
1 CCTTTAAAAATTAAAAATAAATAA
11628501 CCTTTAAAAATATAAAAATAAAT
1 CCTTTAAAAAT-TAAAAATAAAT
11628524 CATTTTCAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (24 bp):
CCTTTAAAAATTAAAAATAAATAA
Found at i:11631936 original size:12 final size:12
Alignment explanation
Indices: 11631919--11631946 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11631909 CATGCATATG
11631919 AATCATCCCAAA
1 AATCATCCCAAA
11631931 AATCATCCCAAA
1 AATCATCCCAAA
11631943 AATC
1 AATC
11631947 GACAAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (12 bp):
AATCATCCCAAA
Found at i:11632861 original size:53 final size:52
Alignment explanation
Indices: 11632785--11632994 Score: 185
Period size: 53 Copynumber: 4.0 Consensus size: 52
11632775 ATTTTCTTTG
* *
11632785 AAAACACGAAAAATTTTTAAAACACGAGAATTTTAGAGACACGAAAATTCTTA
1 AAAACACGAAAATTTTTTAAAACACGAGAATTTTAGAAACACGAAAATT-TTA
* * * *
11632838 AAAACACGAAAATTTTTTAAAACACG-GAAATTTTAAAAACATGAGAATTTTTTG
1 AAAACACGAAAATTTTTTAAAACACGAG-AATTTTAGAAACACGA-AA-ATTTTA
* * * * *
11632892 AAAACATGAAAA-TTTTTAAAACACAAAAATTTTTTGAAAACACGAAAATTTTT
1 AAAACACGAAAATTTTTTAAAACACGAGAA-TTTTAG-AAACACGAAAATTTTA
* * * * *
11632945 AAAACACCG-GAATTTTTGAAAACAAGAGGATTTTTGAAACAC-AAAATTTT
1 AAAACA-CGAAAATTTTTTAAAACACGAGAATTTTAGAAACACGAAAATTTT
11632995 CTTTGAAAAC
Statistics
Matches: 128, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
51 8 0.06
52 7 0.05
53 70 0.55
54 34 0.27
55 9 0.07
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (52 bp):
AAAACACGAAAATTTTTTAAAACACGAGAATTTTAGAAACACGAAAATTTTA
Found at i:11632890 original size:36 final size:36
Alignment explanation
Indices: 11632728--11633228 Score: 254
Period size: 35 Copynumber: 14.0 Consensus size: 36
11632718 CGATCTGATC
* *
11632728 AAAATACGAGAATTTTGTTTTAAAACACGAAGATTTTT
1 AAAACACGAGAA-TTT-TTTTAAAACACGAAAATTTTT
* **
11632766 TAAACA--ATTATTTTCTTTGAAAACACGAAAAATTTTT
1 AAAACACGAGAATTTT-TTT-AAAACACG-AAAATTTTT
* *
11632803 AAAACACGAGAA---TTTTAGAGACACGAAAATTCTTA
1 AAAACACGAGAATTTTTTTA-AAACACGAAAATT-TTT
* * *
11632838 AAAACACGA-AAATTTTTTAAAACACGGAAATTTTA
1 AAAACACGAGAATTTTTTTAAAACACGAAAATTTTT
* * *
11632873 AAAACATGAGAATTTTTTGAAAACATGAAAATTTTT
1 AAAACACGAGAATTTTTTTAAAACACGAAAATTTTT
* * *
11632909 AAAACACAAAAATTTTTTGAAAACACGAAAATTTTT
1 AAAACACGAGAATTTTTTTAAAACACGAAAATTTTT
* * **
11632945 AAAACACCG-GAA-TTTTTGAAAACAAGAGGATTTTT
1 AAAACA-CGAGAATTTTTTTAAAACACGAAAATTTTT
* * *
11632980 GAAACAC-AAAATTTTCTTTGAAAACACG--ATTTTTT
1 AAAACACGAGAATTTT-TTT-AAAACACGAAAATTTTT
** * * ** * *
11633015 TTATCACCA-AAAATTTTGAAAACATGAAAATTTTT
1 AAAACACGAGAATTTTTTTAAAACACGAAAATTTTT
* * **
11633050 GAAATAC-CG-GAA-TTTTTGAAAAAACGAGGATTTTT
1 -AAA-ACACGAGAATTTTTTTAAAACACGAAAATTTTT
* * *
11633085 GAAACACGA-AATTTTTTGAAATAC-CGAAATTTTTT
1 AAAACACGAGAATTTTTTTAAA-ACACGAAAATTTTT
*
11633120 AAAACAC-AGAATTTTTTTCTGAAAACAAGAAAATTTTT
1 AAAACACGAGAA-TTTTTT-T-AAAACACGAAAATTTTT
* * * * *
11633158 GAAATACGGGAA-TTTTTGAAAACACGGGAAATTTTTTT
1 AAAACACGAGAATTTTTTTAAAACAC--GAAA-ATTTTT
* *
11633196 GAAAACACGA-AA-ATTTTTGAAACAC-AAAATTTT
1 -AAAACACGAGAATTTTTTTAAAACACGAAAATTTT
11633229 GTTTTAAAAA
Statistics
Matches: 355, Mismatches: 72, Indels: 76
0.71 0.14 0.15
Matches are distributed among these distances:
33 9 0.03
34 26 0.07
35 136 0.38
36 97 0.27
37 38 0.11
38 38 0.11
39 11 0.03
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (36 bp):
AAAACACGAGAATTTTTTTAAAACACGAAAATTTTT
Found at i:11632968 original size:35 final size:34
Alignment explanation
Indices: 11632781--11633228 Score: 305
Period size: 35 Copynumber: 12.6 Consensus size: 34
11632771 AATTATTTTC
11632781 TTTGAAAACACGAAAAATTTTTAAAACACGAGAATT
1 TTTGAAAACACG-AAAATTTTTAAAACACGA-AATT
* * *
11632817 TTAG-AGACACGAAAATTCTTAAAAACACGAAAATT
1 TTTGAAAACACGAAAATT-TTTAAAACACG-AAATT
* * * *
11632852 TTTTAAAACACGGAAATTTTAAAAACATGAGAATTT
1 TTTGAAAACACGAAAATTTTTAAAACACGA-AA-TT
* *
11632888 TTTGAAAACATGAAAATTTTTAAAACACAAAAATTT
1 TTTGAAAACACGAAAATTTTTAAAACAC-GAAA-TT
*
11632924 TTTGAAAACACGAAAATTTTTAAAACACCGGAATT
1 TTTGAAAACACGAAAATTTTTAAAACA-CGAAATT
* ** * *
11632959 TTTGAAAACAAGAGGATTTTTGAAACACAAAATTTT
1 TTTGAAAACACGAAAATTTTTAAAACACGAAA--TT
*** ** * *
11632995 CTTTGAAAACACGATTTTTTTTATCAC-CAAAAAT
1 -TTTGAAAACACGAAAATTTTTAAAACACGAAATT
* *
11633029 TTTGAAAACATGAAAATTTTTGAAATAC-CGGAATT
1 TTTGAAAACACGAAAATTTTT-AAA-ACACGAAATT
* ** *
11633064 TTTGAAAAAACGAGGATTTTTGAAACACGAAATTT
1 TTTGAAAACACGAAAATTTTTAAAACACGAAA-TT
* *
11633099 TTTGAAATAC-CGAAATTTTTTAAAACACAGAATTTTT
1 TTTGAAA-ACACGAAAATTTTTAAAACAC-GAA--ATT
* * * *
11633136 TTCTGAAAACAAGAAAATTTTTGAAATACGGGAATT
1 TT-TGAAAACACGAAAATTTTTAAAACAC-GAAATT
*
11633172 TTTGAAAACACGGGAAATTTTTTTGAAAACACGAAAATT
1 TTTGAAAACAC--GAAA-ATTTTT-AAAACACG-AAATT
11633211 TTTG-AAACAC-AAAATTTT
1 TTTGAAAACACGAAAATTTT
11633229 GTTTTAAAAA
Statistics
Matches: 322, Mismatches: 65, Indels: 52
0.73 0.15 0.12
Matches are distributed among these distances:
33 19 0.06
34 22 0.07
35 116 0.36
36 88 0.27
37 31 0.10
38 33 0.10
39 13 0.04
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (34 bp):
TTTGAAAACACGAAAATTTTTAAAACACGAAATT
Found at i:11633218 original size:17 final size:17
Alignment explanation
Indices: 11632781--11633228 Score: 224
Period size: 18 Copynumber: 25.1 Consensus size: 17
11632771 AATTATTTTC
11632781 TTTGAAAACACGAAAAATT
1 TTTG-AAACACG-AAAATT
* *
11632800 TTTAAAACACGAGAATT
1 TTTGAAACACGAAAATT
* *
11632817 TTAGAGACACGAAAATT
1 TTTGAAACACGAAAATT
**
11632834 CTTAAAAACACGAAAATTT
1 -TTTGAAACACGAAAA-TT
* *
11632853 TTTAAAACACGGAAATT
1 TTTGAAACACGAAAATT
** * *
11632870 TTAAAAACATGAGAATTT
1 TTTGAAACACGA-AAATT
*
11632888 TTTGAAAACATGAAAATT
1 TTTG-AAACACGAAAATT
* *
11632906 TTTAAAACACAAAAATTT
1 TTTGAAACACGAAAA-TT
11632924 TTTGAAAACACGAAAATT
1 TTTG-AAACACGAAAATT
* *
11632942 TTTAAAACACCG-GAATT
1 TTTGAAACA-CGAAAATT
* **
11632959 TTTGAAAACAAGAGGATT
1 TTTG-AAACACGAAAATT
11632977 TTTGAAACAC-AAAATTTT
1 TTTGAAACACGAAAA--TT
*
11632995 CTTTGAAAACACG--ATTT
1 -TTTG-AAACACGAAAATT
** * * *
11633012 TTTTTATCACCAAAAAT
1 TTTGAAACACGAAAATT
*
11633029 TTTGAAAACATGAAAATT
1 TTTG-AAACACGAAAATT
* *
11633047 TTTGAAATACCG-GAATT
1 TTTGAAACA-CGAAAATT
* **
11633064 TTTGAAAAAACGAGGATT
1 TTTG-AAACACGAAAATT
*
11633082 TTTGAAACACGAAATTT
1 TTTGAAACACGAAAATT
* *
11633099 TTTGAAATACCGAAATTT
1 TTTGAAACA-CGAAAATT
* **
11633117 TTTAAAACACAGAATTTTT
1 TTTGAAACAC-GAA-AATT
*
11633136 TTCTGAAAACAAGAAAATT
1 TT-TG-AAACACGAAAATT
* **
11633155 TTTGAAATACGGGAATT
1 TTTGAAACACGAAAATT
*
11633172 TTTGAAAACACGGGAAATTTT
1 TTTG-AAACAC--GAAA-ATT
11633193 TTTGAAAACACGAAAATT
1 TTTG-AAACACGAAAATT
11633211 TTTGAAACAC-AAAATT
1 TTTGAAACACGAAAATT
11633227 TT
1 TT
11633229 GTTTTAAAAA
Statistics
Matches: 331, Mismatches: 69, Indels: 61
0.72 0.15 0.13
Matches are distributed among these distances:
15 4 0.01
16 13 0.04
17 114 0.34
18 129 0.39
19 41 0.12
20 12 0.04
21 18 0.05
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (17 bp):
TTTGAAACACGAAAATT
Found at i:11633363 original size:17 final size:18
Alignment explanation
Indices: 11633318--11633367 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
11633308 TTTTATTATT
*
11633318 ATTTTTGAAATACGAGAA
1 ATTTTTGAAACACGAGAA
*
11633336 A-TTTTGAAAACATGA-AA
1 ATTTTTG-AAACACGAGAA
11633353 ATTTTTGAAACACGA
1 ATTTTTGAAACACGA
11633368 TTAGTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (18 bp):
ATTTTTGAAACACGAGAA
Found at i:11634075 original size:29 final size:30
Alignment explanation
Indices: 11634043--11634106 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
11634033 GTAAAAGTGC
11634043 AATTT-TAGGAAAATATA-GGG-CCAAAATGT
1 AATTTCTA-GAAAATATAGGGGTCC-AAATGT
* *
11634072 AATTTCTAGAAAGTTTAGGGGTCCAAATGT
1 AATTTCTAGAAAATATAGGGGTCCAAATGT
11634102 AATTT
1 AATTT
11634107 ACAAATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
29 12 0.40
30 16 0.53
31 2 0.07
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (30 bp):
AATTTCTAGAAAATATAGGGGTCCAAATGT
Found at i:11634180 original size:30 final size:30
Alignment explanation
Indices: 11634064--11634195 Score: 108
Period size: 30 Copynumber: 4.4 Consensus size: 30
11634054 AATATAGGGC
* *
11634064 CAAAATGTAATTTCTAGAAAGTTTAGGGGT
1 CAAAATGTAATTTTTAAAAAGTTTAGGGGT
* * * *
11634094 CCAAATGTAA--TTTACAAATTATTATGGGT
1 CAAAATGTAATTTTTAAAAAGT-TTAGGGGT
* * * * ***
11634123 TAATATGTAAATTTAAAAAAAAATAGGGGT
1 CAAAATGTAATTTTTAAAAAGTTTAGGGGT
11634153 CAAAATGTAATTTTTAAAAAGTTTAGGGG-
1 CAAAATGTAATTTTTAAAAAGTTTAGGGGT
11634182 CTAAAATGTAATTT
1 C-AAAATGTAATTT
11634196 GTATTTTTGT
Statistics
Matches: 77, Mismatches: 21, Indels: 8
0.73 0.20 0.08
Matches are distributed among these distances:
28 7 0.09
29 15 0.19
30 49 0.64
31 6 0.08
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.35
Consensus pattern (30 bp):
CAAAATGTAATTTTTAAAAAGTTTAGGGGT
Found at i:11637256 original size:10 final size:10
Alignment explanation
Indices: 11637243--11637289 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
11637233 AAAATATTTT
11637243 AAAATTAAAA
1 AAAATTAAAA
11637253 AAAATTAAAA
1 AAAATTAAAA
*
11637263 AAAGTATTTTAAA
1 AAA--A-TTAAAA
11637276 AAAATTAAAA
1 AAAATTAAAA
11637286 AAAA
1 AAAA
11637290 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 22 0.69
11 1 0.03
12 1 0.03
13 8 0.25
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:11637263 original size:41 final size:44
Alignment explanation
Indices: 11637193--11637277 Score: 149
Period size: 41 Copynumber: 2.0 Consensus size: 44
11637183 ACCAAAAATT
11637193 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
11637237 TATTTT-AAAATT-AAA-AAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
11637278 AATTAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
41 26 0.63
42 3 0.07
43 6 0.15
44 6 0.15
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (44 bp):
TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:11637276 original size:13 final size:13
Alignment explanation
Indices: 11637260--11637300 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
11637250 AAAAAAATTA
11637260 AAAAAAGTATTTT
1 AAAAAAGTATTTT
**
11637273 AAAAAA--ATTAA
1 AAAAAAGTATTTT
11637284 AAAAAAGTATTTT
1 AAAAAAGTATTTT
11637297 AAAA
1 AAAA
11637301 TATAAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
11 9 0.41
13 13 0.59
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (13 bp):
AAAAAAGTATTTT
Found at i:11637280 original size:23 final size:24
Alignment explanation
Indices: 11637250--11637300 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
11637240 TTTAAAATTA
11637250 AAAAAAATT-AAAAAAAGTATTTT
1 AAAAAAATTAAAAAAAAGTATTTT
11637273 AAAAAAATTAAAAAAAAGTATTTT
1 AAAAAAATTAAAAAAAAGTATTTT
11637297 AAAA
1 AAAA
11637301 TATAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAAAATTAAAAAAAAGTATTTT
Found at i:11637308 original size:23 final size:24
Alignment explanation
Indices: 11637250--11637310 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
11637240 TTTAAAATTA
*
11637250 AAAAAAAT-TAAAAAAAGTATTTT
1 AAAAAAATAAAAAAAAAGTATTTT
*
11637273 AAAAAAATTAAAAAAAAGTATTTT
1 AAAAAAATAAAAAAAAAGTATTTT
*
11637297 -AAAATATAAAAAAA
1 AAAAAAATAAAAAAA
11637311 TAAAAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 20 0.59
24 14 0.41
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.26
Consensus pattern (24 bp):
AAAAAAATAAAAAAAAAGTATTTT
Found at i:11637309 original size:24 final size:23
Alignment explanation
Indices: 11637250--11637310 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 23
11637240 TTTAAAATTA
*
11637250 AAAAAAATTAAAAAAAGTATTTT
1 AAAAAAATAAAAAAAAGTATTTT
11637273 AAAAAAATTAAAAAAAAGTATTTT
1 AAAAAAA-TAAAAAAAAGTATTTT
*
11637297 -AAAATATAAAAAAA
1 AAAAAAATAAAAAAA
11637311 TAAAAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
22 8 0.23
23 12 0.34
24 15 0.43
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.26
Consensus pattern (23 bp):
AAAAAAATAAAAAAAAGTATTTT
Found at i:11656003 original size:2 final size:2
Alignment explanation
Indices: 11655996--11656037 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
11655986 AAAGAAGAAA
11655996 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11656038 CAAACGAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11661407 original size:75 final size:75
Alignment explanation
Indices: 11661281--11661581 Score: 584
Period size: 75 Copynumber: 4.0 Consensus size: 75
11661271 GCTTTCAATG
*
11661281 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATAATCTGCTTTTAG
1 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
11661346 TCTAGTTTGC
66 TCTAGTTTGC
*
11661356 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTAGCTATTATCTGCTTTTAG
1 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
11661421 TCTAGTTTGC
66 TCTAGTTTGC
11661431 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
1 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
11661496 TCTAGTTTGC
66 TCTAGTTTGC
11661506 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
1 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
11661571 TCTAGTTTGC
66 TCTAGTTTGC
11661581 T
1 T
11661582 TCCATTGGAT
Statistics
Matches: 223, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 223 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (75 bp):
TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
TCTAGTTTGC
Found at i:11661803 original size:18 final size:17
Alignment explanation
Indices: 11661775--11661809 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11661765 ATTATTAAGA
*
11661775 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11661792 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11661810 TTAATATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11661958 original size:18 final size:17
Alignment explanation
Indices: 11661930--11661964 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11661920 ATTATTAAGA
*
11661930 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11661947 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11661965 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11662070 original size:157 final size:155
Alignment explanation
Indices: 11661763--11662070 Score: 580
Period size: 155 Copynumber: 2.0 Consensus size: 155
11661753 ATAAGAATAT
11661763 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATAATTATGTTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATAATTATGTTTA
*
11661828 AATATGATTAAATTATTTATTATTGATATTAATAATCTATTAAAATTTAAATAACAATAACAATA
66 AATATGATTAAATTATTTATTATTGATAATAATAATCTATTAAAATTTAAATAACAATAACAATA
11661893 ATAATTTACCAAAACAAATTTCTGC
131 ATAATTTACCAAAACAAATTTCTGC
11661918 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATAATTATGTTT
11661983 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
65 AAATATGATTAAATTATTTATTATTGATAATAATAATC-TATTAAAATTTAAATAACAATAACAA
*
11662048 TAATCATTTACCAAAACAAATTT
129 TAATAATTTACCAAAACAAATTT
11662071 ATACTAAGGG
Statistics
Matches: 149, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
155 52 0.35
156 49 0.33
157 48 0.32
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (155 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATAATTATGTTTA
AATATGATTAAATTATTTATTATTGATAATAATAATCTATTAAAATTTAAATAACAATAACAATA
ATAATTTACCAAAACAAATTTCTGC
Found at i:11662215 original size:45 final size:44
Alignment explanation
Indices: 11662129--11662219 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
11662119 ACCTCTATTC
* *
11662129 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
*** *
11662173 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCATTA
11662218 CA
1 CA
11662220 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
Found at i:11662219 original size:16 final size:16
Alignment explanation
Indices: 11662198--11662267 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
11662188 TTGATTTGCT
11662198 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
11662214 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
11662230 ATTACACATCTAATCC
1 ATTACACCTCTAATCC
*
11662246 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
11662262 AATACA
1 ATTACA
11662268 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:11664501 original size:31 final size:31
Alignment explanation
Indices: 11664433--11664502 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
11664423 AACTAATAGC
* * *
11664433 TTAGTGACTTAAATAAAAATTTTTGAACAGT
1 TTAGTGACTTAAATAAAAACTTTTAAACAAT
* * *
11664464 TCAGTGACTTAAATGAAAACTTTTAAATAAT
1 TTAGTGACTTAAATAAAAACTTTTAAACAAT
11664495 TTAGTGAC
1 TTAGTGAC
11664503 CAAATTATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (31 bp):
TTAGTGACTTAAATAAAAACTTTTAAACAAT
Found at i:11666934 original size:10 final size:10
Alignment explanation
Indices: 11666919--11666943 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11666909 AAATTATTTT
11666919 AAAAATTTAA
1 AAAAATTTAA
11666929 AAAAATTTAA
1 AAAAATTTAA
11666939 AAAAA
1 AAAAA
11666944 GTATTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:11666984 original size:41 final size:41
Alignment explanation
Indices: 11666907--11667046 Score: 140
Period size: 41 Copynumber: 3.6 Consensus size: 41
11666897 ATAAATACAA
**
11666907 AAAAATTATTTTAAAAATTTAAAAAAATTTAAAAAAAGTATTTT
1 AAAAA-TATTTT-AAAA-TTAAAAAAATTTTGAAAAAGTATTTT
11666951 AAAAATATTTTAAAATTAAAAAAATTTTGAAAAAG------
1 AAAAATATTTTAAAATTAAAAAAATTTTGAAAAAGTATTTT
*
11666986 -----TATTTTAAAATTAAAAAAATTTTGAAAAATTATTTT
1 AAAAATATTTTAAAATTAAAAAAATTTTGAAAAAGTATTTT
*
11667022 AAAAGTATTTTAAAATTAAAAAAAT
1 AAAAATATTTTAAAATTAAAAAAAT
11667047 AAAAAATAAA
Statistics
Matches: 82, Mismatches: 3, Indels: 25
0.75 0.03 0.23
Matches are distributed among these distances:
30 29 0.35
41 38 0.46
42 4 0.05
43 6 0.07
44 5 0.06
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (41 bp):
AAAAATATTTTAAAATTAAAAAAATTTTGAAAAAGTATTTT
Found at i:11666990 original size:30 final size:29
Alignment explanation
Indices: 11666930--11667025 Score: 138
Period size: 30 Copynumber: 3.1 Consensus size: 29
11666920 AAAATTTAAA
*
11666930 AAAATTTAAAAAAAGTATTTTAAAAATATTTT
1 AAAA-TTAAAAAAA-T-TTTGAAAAATATTTT
11666962 AAAATTAAAAAAATTTTGAAAAAGTATTTT
1 AAAATTAAAAAAATTTTGAAAAA-TATTTT
11666992 AAAATTAAAAAAATTTTGAAAAATTATTTT
1 AAAATTAAAAAAATTTTGAAAAA-TATTTT
11667022 AAAA
1 AAAA
11667026 GTATTTTAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
29 8 0.13
30 40 0.66
31 9 0.15
32 4 0.07
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (29 bp):
AAAATTAAAAAAATTTTGAAAAATATTTT
Found at i:11666995 original size:12 final size:11
Alignment explanation
Indices: 11666907--11667036 Score: 61
Period size: 11 Copynumber: 12.4 Consensus size: 11
11666897 ATAAATACAA
11666907 AAAAATTATTTT
1 AAAAA-TATTTT
11666919 -AAAA-A-TTT
1 AAAAATATTTT
* *
11666927 AAAAAAATTTAA
1 AAAAATATTT-T
11666939 AAAAAGTATTTT
1 AAAAA-TATTTT
11666951 AAAAATATTTT
1 AAAAATATTTT
11666962 --AAA-A--TT
1 AAAAATATTTT
*
11666968 AAAAAAATTTT
1 AAAAATATTTT
11666979 GAAAAAGTATTTT
1 -AAAAA-TATTTT
11666992 --AAA-A--TT
1 AAAAATATTTT
*
11666998 AAAAAAATTTT
1 AAAAATATTTT
11667009 GAAAAATTATTTT
1 -AAAAA-TATTTT
*
11667022 AAAAGTATTTT
1 AAAAATATTTT
11667033 AAAA
1 AAAA
11667037 TTAAAAAAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 39
0.67 0.04 0.28
Matches are distributed among these distances:
6 4 0.04
8 11 0.12
9 10 0.11
10 4 0.04
11 26 0.28
12 24 0.26
13 14 0.15
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:11667023 original size:71 final size:73
Alignment explanation
Indices: 11666907--11667046 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 73
11666897 ATAAATACAA
*
11666907 AAAAATTATTTTAAAAATTTAAAAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
1 AAAAAGTATTTTAAAAATTTAAAAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
11666972 AAATTTTG
66 AAATTTTG
** * *
11666980 AAAAAGTATTTT-AAAA-TTAAAAAAATTTTGAAAAATTATTTTAAAAGTATTTTAAAATTAAAA
1 AAAAAGTATTTTAAAAATTTAAAAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
11667043 AAAT
66 AAAT
11667047 AAAAAATAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 47 0.76
72 4 0.06
73 11 0.18
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (73 bp):
AAAAAGTATTTTAAAAATTTAAAAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
AAATTTTG
Found at i:11670660 original size:20 final size:20
Alignment explanation
Indices: 11670635--11670708 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
11670625 CGTAAAATGA
11670635 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGTTTTACT
*
11670655 TTTCTGTAAAATG----A--
1 TTTCTGGAAAATGTTTTACT
11670669 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGTTTTACT
* *
11670689 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGTTTTACT
11670709 GGAAAATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
14 12 0.27
16 1 0.02
18 1 0.02
20 30 0.68
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (20 bp):
TTTCTGGAAAATGTTTTACT
Found at i:11670664 original size:34 final size:34
Alignment explanation
Indices: 11670620--11670720 Score: 175
Period size: 34 Copynumber: 2.9 Consensus size: 34
11670610 CAGTGAAATG
*
11670620 TTTTCCGTAAAATGATTTCTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTCTGGAAAATGTTTTAC
11670654 TTTTCTGTAAAATGATTTCTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTCTGGAAAATGTTTTAC
*
11670688 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTT
11670721 CTGGTGTTTG
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
34 51 0.80
35 13 0.20
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.47
Consensus pattern (34 bp):
TTTTCTGTAAAATGATTTCTGGAAAATGTTTTAC
Found at i:11670724 original size:14 final size:15
Alignment explanation
Indices: 11670615--11670724 Score: 57
Period size: 14 Copynumber: 6.9 Consensus size: 15
11670605 ATTGGCAGTG
* *
11670615 AAATG-TTTTCCGTA
1 AAATGATTTTCTGGA
11670629 AAATGA-TTTCTGGA
1 AAATGATTTTCTGGA
*
11670643 AAATGTTTTACTTTTCTGTA
1 AAATG----A-TTTTCTGGA
11670663 AAATGA-TTTCTGGA
1 AAATGATTTTCTGGA
*
11670677 AAATGTTTTACTTTTCTGTA
1 AAATG----A-TTTTCTGGA
*
11670697 AAATGATTTACTGGA
1 AAATGATTTTCTGGA
11670712 AAAT-ATTTTCTGG
1 AAATGATTTTCTGG
11670725 TGTTTGATTG
Statistics
Matches: 75, Mismatches: 8, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
14 36 0.48
15 11 0.15
16 2 0.03
18 2 0.03
20 24 0.32
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (15 bp):
AAATGATTTTCTGGA
Found at i:11670832 original size:20 final size:20
Alignment explanation
Indices: 11670807--11670845 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11670797 GTTTTTACAT
11670807 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
11670827 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
11670846 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:11673145 original size:11 final size:11
Alignment explanation
Indices: 11673129--11673154 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11673119 AACCATCTGT
11673129 ATATAACCAAA
1 ATATAACCAAA
11673140 ATATAACCAAA
1 ATATAACCAAA
11673151 ATAT
1 ATAT
11673155 CATCCAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (11 bp):
ATATAACCAAA
Found at i:11673390 original size:25 final size:25
Alignment explanation
Indices: 11673342--11673391 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11673332 AGAAGAGAAG
*
11673342 ATGAAGAACAGAAGGAGAAAAAGGA
1 ATGAAGAACAGAAGAAGAAAAAGGA
* *
11673367 ATGAAGAACGGAAGAAGAAGAAGGA
1 ATGAAGAACAGAAGAAGAAAAAGGA
11673392 GCCTTACCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.34, T:0.04
Consensus pattern (25 bp):
ATGAAGAACAGAAGAAGAAAAAGGA
Found at i:11673501 original size:24 final size:24
Alignment explanation
Indices: 11673451--11673502 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
11673441 TTTGCAACCC
* * **
11673451 AAGGGGAAGGGAAAATGGGAGGGG
1 AAGGGAAAGGGAAAAGGGGAGAAG
*
11673475 AAGGGAAAGGGGAAAGGGGAGAAG
1 AAGGGAAAGGGAAAAGGGGAGAAG
11673499 AAGG
1 AAGG
11673503 CATCATTCCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.56, T:0.02
Consensus pattern (24 bp):
AAGGGAAAGGGAAAAGGGGAGAAG
Found at i:11673901 original size:37 final size:37
Alignment explanation
Indices: 11673851--11673927 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
11673841 ATGTTGAGAA
* *
11673851 AAATGGAAAGCATTGTGTACTTCTGTCTTTCGAAATC
1 AAATGGAAAGCATTGTGCACTTCTGTCTTTCAAAATC
*
11673888 AAATGGAAAGCATTGTGCACTTTTGTCTTTCAAAATC
1 AAATGGAAAGCATTGTGCACTTCTGTCTTTCAAAATC
11673925 AAA
1 AAA
11673928 GTCTGCGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (37 bp):
AAATGGAAAGCATTGTGCACTTCTGTCTTTCAAAATC
Found at i:11683475 original size:30 final size:31
Alignment explanation
Indices: 11683436--11683495 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11683426 GGAGGTGAGA
*
11683436 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
11683467 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
11683496 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:11683806 original size:9 final size:9
Alignment explanation
Indices: 11683789--11683818 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
11683779 TCGAGTTGAT
11683789 TCGAATAAC
1 TCGAATAAC
*
11683798 TCGATTAAC
1 TCGAATAAC
11683807 TCGAATAAC
1 TCGAATAAC
11683816 TCG
1 TCG
11683819 CTTCGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (9 bp):
TCGAATAAC
Found at i:11684380 original size:18 final size:19
Alignment explanation
Indices: 11684357--11684404 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
11684347 CAAATATATG
*
11684357 ATAAAAAG-AAATCAACAA
1 ATAAAAAGTAAATAAACAA
*
11684375 AT-AAAAGTAAATAAATAA
1 ATAAAAAGTAAATAAACAA
*
11684393 ATAAAAATTAAA
1 ATAAAAAGTAAA
11684405 GCACTTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 5 0.20
18 12 0.48
19 8 0.32
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (19 bp):
ATAAAAAGTAAATAAACAA
Found at i:11684468 original size:49 final size:52
Alignment explanation
Indices: 11684381--11684478 Score: 132
Period size: 49 Copynumber: 1.9 Consensus size: 52
11684371 ACAAATAAAA
*
11684381 GTAAATAAATAAATAAAAATTAAAGCACTTAAACAAACAATAATAATGAGCAT
1 GTAAATAAATAAAT-AAAATTAAAGCACTCAAACAAACAATAATAATGAGCAT
*
11684434 GTAAATAAATAAAT-AAATT-AA-CAC-CAAACGAAACAATAGTAATGA
1 GTAAATAAATAAATAAAATTAAAGCACTCAAAC-AAACAATAATAATGA
11684479 ATAAAATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
48 4 0.10
49 17 0.40
50 2 0.05
51 5 0.12
53 14 0.33
ACGTcount: A:0.60, C:0.10, G:0.08, T:0.21
Consensus pattern (52 bp):
GTAAATAAATAAATAAAATTAAAGCACTCAAACAAACAATAATAATGAGCAT
Found at i:11684776 original size:3 final size:3
Alignment explanation
Indices: 11684768--11684829 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
11684758 AGTGAAGATG
*
11684768 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
11684816 TTA AAA ATA ATA AT
1 ATA ATA ATA ATA AT
11684830 GTTACAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11684838 original size:15 final size:15
Alignment explanation
Indices: 11684776--11684841 Score: 69
Period size: 15 Copynumber: 4.4 Consensus size: 15
11684766 TGATAATAAT
* *
11684776 AATAATAATAATAAT
1 AATAATAATATTAAA
* *
11684791 AATAATAATAATAAT
1 AATAATAATATTAAA
*
11684806 AATAGTAATATTAAA
1 AATAATAATATTAAA
* *
11684821 AATAATAATGTTACA
1 AATAATAATATTAAA
11684836 AATAAT
1 AATAAT
11684842 TAGCTAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (15 bp):
AATAATAATATTAAA
Found at i:11687257 original size:3 final size:3
Alignment explanation
Indices: 11687251--11687288 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11687241 TTATTATTAT
11687251 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
11687289 TTAATATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:11688242 original size:40 final size:40
Alignment explanation
Indices: 11688168--11688272 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
11688158 ATGCGCCACA
* * *
11688168 AAAAATCGAGCATTAGCGGTGATTTAGCCAAAGCGCTGCT
1 AAAAATAGAGCATTAGCGGCGATTTAGCCAAAGCGCCGCT
** * *
11688208 AAAGGTAGAGCATTAGCGGCGA-TTATCCGGAAGCGCCGCT
1 AAAAATAGAGCATTAGCGGCGATTTAGCC-AAAGCGCCGCT
* *
11688248 AAAAATAG-GAATTAGCGGCGTTTTA
1 AAAAATAGAGCATTAGCGGCGATTTA
11688273 TATAAAGCGC
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.31
40 36 0.69
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (40 bp):
AAAAATAGAGCATTAGCGGCGATTTAGCCAAAGCGCCGCT
Found at i:11688395 original size:41 final size:41
Alignment explanation
Indices: 11688330--11688731 Score: 362
Period size: 41 Copynumber: 9.8 Consensus size: 41
11688320 TTTTTTAAAC
* * *
11688330 CTTTAGCGGCGTTTTTGTGTAAGCGTCGCTAATGCTCTGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* ** * *
11688371 CTTTCGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCCTGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * *
11688412 CTTTAGCGGCGATTTCGTCTGAGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * * * * *
11688453 CTTTAGCTGTGTTTTTGTCTATGCGTCGCTAATTCTCAGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * *
11688494 CTTTAGCAGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * *
11688535 CTTTAGCGACGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * *
11688576 CTTTAGCGGCGTTTTTATAC-AAGCGCTGCTAATTCTCGGAT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCGGAT
* ** * * *
11688617 CTTTAGCGGCGTTTCTAACTGAGCGCCACTAATTCGCT-TG-T
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAA-T-GCTCGGAT
* * * * *** *
11688658 CTTCAGCGGCGTTTGTATTTAAGCGCCGCTAATG-TATTTAC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGAT
* *
11688699 CTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
11688732 AGTAACAAAA
Statistics
Matches: 298, Mismatches: 56, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 3 0.01
41 288 0.97
42 3 0.01
43 2 0.01
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
Found at i:11689229 original size:15 final size:15
Alignment explanation
Indices: 11689208--11689245 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
11689198 TTTAAGGTTA
11689208 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
11689223 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
11689238 ATTTAGGG
1 ATTTAGGG
11689246 TTAATTTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:11689526 original size:14 final size:14
Alignment explanation
Indices: 11689507--11689533 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11689497 ATTTTTTTGA
11689507 TATATATATATGGC
1 TATATATATATGGC
11689521 TATATATATATGG
1 TATATATATATGG
11689534 TTAATTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (14 bp):
TATATATATATGGC
Found at i:11690632 original size:37 final size:38
Alignment explanation
Indices: 11690562--11690633 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
11690552 AAAATTTGAT
* *
11690562 TTTAGGGGTTGGGGGGATTTAGGGTTTAAGGGTTATGC
1 TTTAGGGGTTGAGGGGATTTAGGGTGTAAGGGTTATGC
11690600 TTTAGGGGTT-AGGGGATTTAGGG-GTAATGGGTTA
1 TTTAGGGGTTGAGGGGATTTAGGGTGTAA-GGGTTA
11690634 GGGGGTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 3 0.10
37 18 0.58
38 10 0.32
ACGTcount: A:0.18, C:0.01, G:0.44, T:0.36
Consensus pattern (38 bp):
TTTAGGGGTTGAGGGGATTTAGGGTGTAAGGGTTATGC
Found at i:11690652 original size:15 final size:15
Alignment explanation
Indices: 11690586--11690654 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 15
11690576 GGATTTAGGG
* *
11690586 TTTAAGGGTTAT-GC
1 TTTAGGGGTTATGGA
*
11690600 TTTAGGGGTTAGGGGA
1 TTTAGGGGTTA-TGGA
*
11690616 TTTAGGGGTAATGG-
1 TTTAGGGGTTATGGA
*
11690630 GTTAGGGGGTTATGGA
1 TTTA-GGGGTTATGGA
11690646 TTT-GGGGTT
1 TTTAGGGGTT
11690655 TAGGGTTTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
14 19 0.44
15 11 0.26
16 13 0.30
ACGTcount: A:0.17, C:0.01, G:0.43, T:0.38
Consensus pattern (15 bp):
TTTAGGGGTTATGGA
Found at i:11693685 original size:6 final size:6
Alignment explanation
Indices: 11693676--11693706 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
11693666 TAAAAAATTA
11693676 AAATAT AAATAT AAATAT AAATAT AAGATAT
1 AAATAT AAATAT AAATAT AAATAT AA-ATAT
11693707 TACATAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:11693759 original size:31 final size:31
Alignment explanation
Indices: 11693705--11694490 Score: 671
Period size: 31 Copynumber: 26.8 Consensus size: 31
11693695 AATATAAGAT
*
11693705 ATTACATAACTTACATTAGTTAATATACATAA
1 ATTACATAACTTA-ATTAATTAATATACATAA
*
11693737 ATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTAATTAATTAATATACATAA
*
11693763 A-TACATAACTTACATTAA-TATTATACAT-A
1 ATTACATAACTTA-ATTAATTAATATACATAA
* *
11693792 ATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTAATTAATTAATATACATAA
*
11693818 A-TACATAACTTACATTAA-TATTATACATAA
1 ATTACATAACTTA-ATTAATTAATATACATAA
*
11693848 ATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTAATTAATTAATATACATAA
*
11693874 A-TACATAACTTACATTAA-TATTATACATAA
1 ATTACATAACTTA-ATTAATTAATATACATAA
*
11693904 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAATTAATATACATAA
* *
11693935 ATTACATAACATACATTAA-TATTATACATAA
1 ATTACATAACTTA-ATTAATTAATATACATAA
* *
11693966 ATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTAATTAATTAATATACATAA
*
11693992 A-TACATAACTTACATTAA-TATTATACATAA
1 ATTACATAACTTA-ATTAATTAATATACATAA
*
11694022 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAATTAATATACATAA
* *
11694053 ATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAATTAATATACATAA
* *
11694084 ATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAATTAATATACATAA
* *
11694115 ATTACATAACTTAATTAGTTATTATACATAA
1 ATTACATAACTTAATTAATTAATATACATAA
*
11694146 ATTACATAACTTAATTAGTTAATTATACATAA
1 ATTACATAACTTAATTAATTAA-TATACATAA
* * *
11694178 ATTACATAACATACATTAA-TATTATACAGAA
1 ATTACATAACTTA-ATTAATTAATATACATAA
* *
11694209 ATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTAATTAATTAATATACATAA
*
11694235 A-TACATAACTTACATTAA-TATTATACATAA
1 ATTACATAACTTA-ATTAATTAATATACATAA
*
11694265 ATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTAATTAATTAATATACATAA
*
11694291 A-TACATAACTTACATTAA-TATTATACATAA
1 ATTACATAACTTA-ATTAATTAATATACATAA
* * *
11694321 ATTACATAACATACATTAA-TATTATACAGAA
1 ATTACATAACTTA-ATTAATTAATATACATAA
* * *
11694352 ATTACATAACTTAGTTATTTAATAT--AT-T
1 ATTACATAACTTAATTAATTAATATACATAA
*
11694380 A-TACATAACTTACATTAA-TATTATACATAA
1 ATTACATAACTTA-ATTAATTAATATACATAA
* *
11694410 ATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTAATTAATTAATATACATAA
*
11694436 A-TACATAACTTACATTAA-TATTATACATAA
1 ATTACATAACTTA-ATTAATTAATATACATAA
* *
11694466 ATTACATAACTTAGTTATTTAATAT
1 ATTACATAACTTAATTAATTAATAT
11694491 TATACATAAC
Statistics
Matches: 619, Mismatches: 69, Indels: 133
0.75 0.08 0.16
Matches are distributed among these distances:
25 112 0.18
26 31 0.05
27 17 0.03
28 16 0.03
29 7 0.01
30 54 0.09
31 338 0.55
32 40 0.06
33 4 0.01
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (31 bp):
ATTACATAACTTAATTAATTAATATACATAA
Found at i:11693782 original size:22 final size:21
Alignment explanation
Indices: 11693754--11693798 Score: 81
Period size: 22 Copynumber: 2.1 Consensus size: 21
11693744 AACTTAGTTA
11693754 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAA-TTAC
11693776 ATTAATATTATACATAATTAC
1 ATTAATATTATACATAATTAC
11693797 AT
1 AT
11693799 AACTTAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTAATATTATACATAATTAC
Found at i:11693835 original size:22 final size:22
Alignment explanation
Indices: 11693810--11693854 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11693800 ACTTAGTTAT
*
11693810 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
11693832 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
11693854 T
1 T
11693855 AACTTAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:11693877 original size:56 final size:56
Alignment explanation
Indices: 11693707--11694358 Score: 789
Period size: 56 Copynumber: 11.2 Consensus size: 56
11693697 TATAAGATAT
* *
11693707 TACATAACTTACATTAGTTAATATACATAAATTACATAACTTAGTTAATTAATATTA
1 TACATAACTTACATTA-ATATTATACATAAATTACATAACTTAGTTAATTAATATTA
*
11693764 TACATAACTTACATTAATATTATACAT-AATTACATAACTTAGTTATTTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
11693819 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
* *
11693875 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATAT---T--A
* *
11693936 TTACATAACATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
1 -TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
* *
11693993 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATAT---T--A
* * * *
11694054 TTACATAACATA-ATTAGTTAATATACATAAATTACATAACATAATTAGTTAATATACATA-AA
1 -TACATAACTTACATTA-ATATTATACATAAATTACATAAC----TTAGTTAAT-TA-ATATTA
* * *
11694116 TTACATAACTTA-ATTAGTTATTATACATAAATTACATAACTTAATTAGTTAATTATACATAAA
1 -TACATAACTTACATTA-ATATTATACATAAATTACATAAC----TTAGTTAATTA-ATAT-TA
* * *
11694179 TTACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTATTTAATATTA
1 -TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
11694236 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
11694292 TACATAACTTACATTAATATTATACATAAATTACATAAC--A--TACATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTA-ATTAATATTA
* *
11694345 TACAGAAATTACAT
1 TACATAACTTACAT
11694359 AACTTAGTTA
Statistics
Matches: 537, Mismatches: 34, Indels: 52
0.86 0.05 0.08
Matches are distributed among these distances:
52 2 0.00
53 22 0.04
54 1 0.00
55 54 0.10
56 231 0.43
57 18 0.03
58 3 0.01
59 13 0.02
61 10 0.02
62 133 0.25
63 34 0.06
64 4 0.01
66 7 0.01
67 2 0.00
68 3 0.01
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (56 bp):
TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
Found at i:11693885 original size:25 final size:25
Alignment explanation
Indices: 11693739--11693847 Score: 107
Period size: 25 Copynumber: 4.3 Consensus size: 25
11693729 ATACATAAAT
11693739 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTAGTTAATTAATATTA
* * *
11693764 TACATAACTTACATTAATATTATACATAA
1 TACATAACTTA-GTT-A-ATTA-ATATTA
*
11693793 TTACATAACTTAGTTATTTAATATTA
1 -TACATAACTTAGTTAATTAATATTA
*
11693819 TACATAACTTA---CATTAATATTA
1 TACATAACTTAGTTAATTAATATTA
11693841 TACATAA
1 TACATAA
11693848 ATTACATAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
22 16 0.23
25 22 0.31
26 6 0.09
27 4 0.06
28 5 0.07
29 6 0.09
30 11 0.16
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (25 bp):
TACATAACTTAGTTAATTAATATTA
Found at i:11693893 original size:22 final size:22
Alignment explanation
Indices: 11693865--11693972 Score: 88
Period size: 22 Copynumber: 5.1 Consensus size: 22
11693855 AACTTAGTTA
*
11693865 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
11693887 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
* * *
11693909 A-TAACT-TAATTA-GTTAATATAC
1 ATTAA-TATTA-TACATAAAT-TAC
11693931 A-TAA-A-T-TACATAACA-TAC
1 ATTAATATTATACATAA-ATTAC
11693949 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
11693971 AT
1 AT
11693973 AACTTAGTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
18 6 0.09
19 5 0.07
20 2 0.03
21 11 0.16
22 44 0.65
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:11694012 original size:22 final size:22
Alignment explanation
Indices: 11693984--11694028 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11693974 ACTTAGTTAT
*
11693984 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
11694006 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
11694028 T
1 T
11694029 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:11694255 original size:22 final size:22
Alignment explanation
Indices: 11694227--11694271 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11694217 ACTTAGTTAT
*
11694227 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
11694249 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
11694271 T
1 T
11694272 AACTTAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:11694295 original size:25 final size:22
Alignment explanation
Indices: 11694267--11694320 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
11694257 ATACATAAAT
11694267 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTA---AATTAATATTA
*
11694292 TACATAACTTACATTAATATTA
1 TACATAACTTAAATTAATATTA
11694314 TACATAA
1 TACATAA
11694321 ATTACATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 17 0.61
25 11 0.39
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
TACATAACTTAAATTAATATTA
Found at i:11694310 original size:22 final size:22
Alignment explanation
Indices: 11694282--11694416 Score: 86
Period size: 22 Copynumber: 6.1 Consensus size: 22
11694272 AACTTAGTTA
11694282 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTTAC
*
11694304 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAACTTAC
* * *
11694326 A-TAACATACATTA-AT-ATTATAC
1 ATTAATAT-TA-TACATAACT-TAC
* *
11694348 A-GAA-A-T-TACATAACTTAGTT
1 ATTAATATTATACATAACTTA--C
11694368 ATTTAATATATTATACATAACTTAC
1 A-TT-A-ATATTATACATAACTTAC
*
11694393 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAACTTAC
11694415 AT
1 AT
11694417 AACTTAGTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
17 2 0.02
18 4 0.05
19 2 0.02
20 1 0.01
21 8 0.09
22 50 0.57
23 4 0.05
24 3 0.03
25 2 0.02
26 1 0.01
27 11 0.12
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.40
Consensus pattern (22 bp):
ATTAATATTATACATAACTTAC
Found at i:11694456 original size:22 final size:22
Alignment explanation
Indices: 11694428--11694472 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11694418 ACTTAGTTAT
*
11694428 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
11694450 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
11694472 T
1 T
11694473 AACTTAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:11694461 original size:56 final size:56
Alignment explanation
Indices: 11694323--11694505 Score: 330
Period size: 56 Copynumber: 3.2 Consensus size: 56
11694313 ATACATAAAT
* *
11694323 TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTATTTAATATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTATTT-A-ATATTA
11694381 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
11694437 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
11694493 TACATAACTTACA
1 TACATAACTTACA
11694506 ACTTACATAA
Statistics
Matches: 123, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
56 75 0.61
57 1 0.01
58 47 0.38
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (56 bp):
TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
Found at i:11694517 original size:9 final size:9
Alignment explanation
Indices: 11694493--11694595 Score: 62
Period size: 9 Copynumber: 12.3 Consensus size: 9
11694483 TTTAATATTA
11694493 TACATAACT
1 TACATAACT
11694502 TAC--AACT
1 TACATAACT
11694509 TACATAACT
1 TACATAACT
**
11694518 TACATATTTT
1 TACATA-ACT
*
11694528 TA-ATTA-T
1 TACATAACT
* *
11694535 T-CGTAAAT
1 TACATAACT
11694543 TACATAACT
1 TACATAACT
*
11694552 TACATAATT
1 TACATAACT
*
11694561 TTCATAA--
1 TACATAACT
*
11694568 TAAATAACT
1 TACATAACT
11694577 TACATAA--
1 TACATAACT
11694584 TACATAACT
1 TACATAACT
11694593 TAC
1 TAC
11694596 GTAGCTTAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 20
0.68 0.12 0.19
Matches are distributed among these distances:
7 23 0.32
8 2 0.03
9 43 0.61
10 3 0.04
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:11694525 original size:34 final size:33
Alignment explanation
Indices: 11694450--11694525 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
11694440 ATAACTTACA
* * *
11694450 TTAATATTATACATAAATTACATAACTTAGTTAT
1 TTAATATTATACATAAATTACA-AACTTAATAAC
*
11694484 TTAATATTATACATAACTTAC-AACTTACATAAC
1 TTAATATTATACATAAATTACAAACTTA-ATAAC
11694517 TTACATATT
1 TTA-ATATT
11694526 TTTAATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.17
33 5 0.14
34 25 0.69
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.42
Consensus pattern (33 bp):
TTAATATTATACATAAATTACAAACTTAATAAC
Found at i:11694580 original size:34 final size:34
Alignment explanation
Indices: 11694505--11694590 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
11694495 CATAACTTAC
* * ***
11694505 AACTTACATAACTTACATATTTTTAATTATTCGT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
* *
11694539 AAATTACATAACTTACATAATTTTCATAATAAAT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
11694573 AACTTACATAA--TACATAA
1 AACTTACATAACTTACATAA
11694591 CTTACGTAGC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 7 0.16
34 37 0.84
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (34 bp):
AACTTACATAACTTACATAATTTTAATAATAAAT
Found at i:11694582 original size:16 final size:16
Alignment explanation
Indices: 11694563--11694595 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11694553 ACATAATTTT
11694563 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
11694579 CATAATACATAACTTA
1 CATAATAAATAACTTA
11694595 C
1 C
11694596 GTAGCTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:11700097 original size:66 final size:66
Alignment explanation
Indices: 11700014--11700140 Score: 195
Period size: 66 Copynumber: 1.9 Consensus size: 66
11700004 GAGGCAACAT
11700014 CGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTGAAAGCAGATGCAG
1 CGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGC-AGCAACTGAAAGCAGATGCAG
11700077 TAG
64 TAG
* * *
11700080 CGAGAGAAGTTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAGCTTAAAGCAGATGC
1 CGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTGAAAGCAGATGC
11700141 GACAGCAAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
65 1 0.02
66 50 0.89
67 5 0.09
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (66 bp):
CGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTGAAAGCAGATGCAGTA
G
Found at i:11700152 original size:66 final size:66
Alignment explanation
Indices: 11700016--11700160 Score: 188
Period size: 66 Copynumber: 2.2 Consensus size: 66
11700006 GGCAACATCG
*
11700016 AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGTAGC
1 AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCAGC
*
11700081 G
66 A
* * *
11700082 AGAGAAGTTGAGGTTCAACAAAAG-TATGAAGAACTCCAGC-AGCAGCTTAAAGCAGATGC-GAC
1 AGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTGAAAGCAGATGCAG-C
11700144 AGCA
63 AGCA
*
11700148 AGAGAAGCAGAGG
1 AGAGAAGCTGAGG
11700161 CAGCAGTAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
65 2 0.03
66 62 0.90
67 5 0.07
ACGTcount: A:0.42, C:0.17, G:0.28, T:0.14
Consensus pattern (66 bp):
AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCAGC
A
Found at i:11700156 original size:21 final size:21
Alignment explanation
Indices: 11700143--11700203 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
11700133 GCAGATGCGA
11700143 CAGCAAGAGAAGCAGAGGCAG
1 CAGCAAGAGAAGCAGAGGCAG
* * * *
11700164 CAGTAAGAGAAGTACAGGCTG
1 CAGCAAGAGAAGCAGAGGCAG
* *
11700185 CAGCGAGGGAAGCAGAGGC
1 CAGCAAGAGAAGCAGAGGC
11700204 TAAAACGAGG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.18, G:0.39, T:0.05
Consensus pattern (21 bp):
CAGCAAGAGAAGCAGAGGCAG
Found at i:11700204 original size:21 final size:21
Alignment explanation
Indices: 11700186--11700243 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
11700176 TACAGGCTGC
11700186 AGCGAGGGAAGCAGAGGCTAA
1 AGCGAGGGAAGCAGAGGCTAA
*
11700207 AACGAGGGAAGCAGAGGCTAA
1 AGCGAGGGAAGCAGAGGCTAA
11700228 AGCGAGGGAAGCAGAG
1 AGCGAGGGAAGCAGAG
11700244 CAGCGTCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.40, C:0.14, G:0.43, T:0.03
Consensus pattern (21 bp):
AGCGAGGGAAGCAGAGGCTAA
Found at i:11700808 original size:42 final size:41
Alignment explanation
Indices: 11700598--11700866 Score: 192
Period size: 43 Copynumber: 6.3 Consensus size: 41
11700588 TGGTGGCCTT
* * * *
11700598 TTTAGTGGCGTTTTTGGTCAAAGCGTCGCTAAAGATAAAGGTC
1 TTTAGCGGCGTTTGTGGT-AAAGCGCCGCTAAAGA-ATAGGTC
* * *
11700641 TTTAGCGGCGTTTGTGGAAAAAGCACCACTAAAG-ATCATGGTC
1 TTTAGCGGCGTTTGTGG-TAAAGCGCCGCTAAAGAAT-A-GGTC
* *
11700684 TTTAGCGGCGTTTGTGAG-AAAGCGCTGCTACAG-ATCAGAGTC
1 TTTAGCGGCGTTTGTG-GTAAAGCGCCGCTAAAGAAT-AG-GTC
* * *
11700726 TATT-GCGGTGTTT-TAGGGGAAAACGCCGCTAAAGAATAGGTC
1 T-TTAGCGGCGTTTGT--GGTAAAGCGCCGCTAAAGAATAGGTC
*
11700768 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGAATAGGTTC
1 TTTAGCGGCGTTTGTGGT-AAAGCGCCGCTAAAGAATAGG-TC
* * *
11700811 TTTAGTGGCGTTTGTGGTATAAACGCCGCTATAG-ATCAGGGTC
1 TTTAGCGGCGTTTGTGGTA-AAGCGCCGCTAAAGAAT-A-GGTC
11700854 TATT-GCGGCGTTT
1 T-TTAGCGGCGTTT
11700867 TAGATAAAAA
Statistics
Matches: 186, Mismatches: 22, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
41 7 0.04
42 63 0.34
43 109 0.59
44 7 0.04
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTGTGGTAAAGCGCCGCTAAAGAATAGGTC
Found at i:11700835 original size:85 final size:83
Alignment explanation
Indices: 11700598--11700854 Score: 238
Period size: 85 Copynumber: 3.0 Consensus size: 83
11700588 TGGTGGCCTT
* * *
11700598 TTTAGTGGCGTTTTTGGTCAAAGCGTCGCTAAAGATAAAGGTCTTTAGCGGCGTTTGTGGAAAAA
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGA-ATAGGTCTTTAGCGGCGTTTGTGG-AAAA
* *
11700663 GCACCACTAAAGATCATGGTC
64 -CGCCGCTAAAGATCATGGTC
* * * * *
11700684 TTTAGCGGCGTTTGTGAG--AAAGCGCTGCTACAG-ATCAGAGTCTATT-GCGGTGTTTTAGGGG
1 TTTAGTGGCGTTTGTG-GTCAAAGCGCCGCTAAAGAAT-AG-GTCT-TTAGCGGCG-TTT-GTGG
11700745 AAAACGCCGCTAAAGA--ATAGGTC
60 AAAACGCCGCTAAAGATCAT-GGTC
*
11700768 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGAATAGGTTCTTTAGTGGCGTTTGTGGTATAA
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGAATAGG-TCTTTAGCGGCGTTTGTGG-A-AA
* *
11700833 ACGCCGCTATAGATCAGGGTC
63 ACGCCGCTAAAGATCATGGTC
11700854 T
1 T
11700855 ATTGCGGCGT
Statistics
Matches: 137, Mismatches: 18, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
83 7 0.05
84 28 0.20
85 67 0.49
86 30 0.22
87 5 0.04
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (83 bp):
TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGAATAGGTCTTTAGCGGCGTTTGTGGAAAACG
CCGCTAAAGATCATGGTC
Found at i:11700919 original size:43 final size:43
Alignment explanation
Indices: 11700872--11700972 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 43
11700862 CGTTTTAGAT
* * **
11700872 AAAAACGCTGTTAAAGACCCTGATCTTTAGCGGCGCTTCTCCC
1 AAAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTCTCCC
* * *
11700915 AAAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTC-CAC
1 AAAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTCTCCC
* *
11700957 TAAAGCGCCGCTAAAG
1 AAAAACGCCGCTAAAG
11700973 GTCTTACTCT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 16 0.33
43 33 0.67
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTCTCCC
Found at i:11701159 original size:22 final size:22
Alignment explanation
Indices: 11701131--11701173 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11701121 CTGCGGCGCT
*
11701131 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
11701153 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
11701174 GTTTTGGTGT
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:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:11702701 original size:21 final size:21
Alignment explanation
Indices: 11702660--11702703 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11702650 GTAACAAAAT
*
11702660 CAACAGCATAGGCTCTAGCTG
1 CAACAGCATAGGCTCGAGCTG
*
11702681 CAACATGCAT-GGCTCGGGCTG
1 CAACA-GCATAGGCTCGAGCTG
11702702 CA
1 CA
11702704 TGGTCTGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (21 bp):
CAACAGCATAGGCTCGAGCTG
Found at i:11713300 original size:15 final size:15
Alignment explanation
Indices: 11713272--11713313 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
11713262 GTTTCGTCTC
* *
11713272 TTCTATTCTGTTTCTT
1 TTCT-TTCTTTTTCTA
11713288 TTCTTTCTTTTTCTA
1 TTCTTTCTTTTTCTA
11713303 TTCTTTCTTTT
1 TTCTTTCTTTT
11713314 GTTTTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (15 bp):
TTCTTTCTTTTTCTA
Found at i:11713335 original size:5 final size:5
Alignment explanation
Indices: 11713322--11713366 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
11713312 TTGTTTTATG
11713322 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA
11713367 AAACATAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
3 1 0.03
4 4 0.11
5 23 0.64
6 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:11713347 original size:19 final size:19
Alignment explanation
Indices: 11713323--11713365 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
11713313 TGTTTTATGT
11713323 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
11713342 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
11713361 ATATA
1 ATATA
11713366 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:11713375 original size:24 final size:25
Alignment explanation
Indices: 11713329--11713391 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
11713319 ATGTATATAT
* *
11713329 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
11713353 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
11713378 TTACTATAATATAA
1 ATAATATAATATAA
11713392 GAATATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.06
24 18 0.55
25 13 0.39
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:11715528 original size:42 final size:41
Alignment explanation
Indices: 11715436--11715664 Score: 298
Period size: 42 Copynumber: 5.5 Consensus size: 41
11715426 TGATTCAGTA
* * *
11715436 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTTT
1 CACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAATTGTTT
*
11715477 CACCGGCATTAAGCCTGCTAGACGTAAAGTTTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA-ATTGTTT
* *
11715519 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-AATTGTTT
* * * *
11715561 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTCT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTGTTT
*
11715602 CACCGACATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA-ATTGTTT
* *
11715644 CACTGGCAATAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
11715665 GCGCTAAGCC
Statistics
Matches: 163, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.01
41 64 0.39
42 96 0.59
43 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTGTTT
Found at i:11715553 original size:83 final size:82
Alignment explanation
Indices: 11715447--11715664 Score: 294
Period size: 83 Copynumber: 2.6 Consensus size: 82
11715437 ACCGGCACTT
* * * *
11715447 AGCCTGCTAGACATATAGTCTGAAATGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTTTGAT
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGA-
* *
11715512 ATTGTTTCACC-AGCATTA
65 AATGTCTCACCGA-CATTA
* *
11715530 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACATATAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGAAA-TGTTTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGA
11715595 AATGTCTCACCGACATTA
65 AATGTCTCACCGACATTA
* * *
11715613 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAG
1 AGCCTGCTAGACGTAAAGTCTGA-AATGTTTCACCGGCATTAAGCCTGCTAG
11715665 GCGCTAAGCC
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
83 83 0.69
84 37 0.31
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (82 bp):
AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAA
ATGTCTCACCGACATTA
Found at i:11715678 original size:125 final size:126
Alignment explanation
Indices: 11715393--11715680 Score: 406
Period size: 125 Copynumber: 2.3 Consensus size: 126
11715383 TTTAAACAGA
* * *
11715393 TTCACTGGCACTTAGCCTGCTAGGCTTAAAGCCTG--ATTCAGTACACCGGCACTTAGCCTGCTA
1 TTCACTGGCAATAAGCCTGCTAGGCGTAAAGCCTGAAATTCAGTACACCGGCACTTAGCCTGCTA
* * *
11715456 GACATATAGTCTGAAATGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTTTGATATTGT
66 GACATATAGTCTGAAATGTCTCACCGACATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
** * * * * *
11715517 TTCACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAAATT-ATTTCACCGGCA-TTAAGCCTGCT
1 TTCACTGGCAATAAGCCTGCTAGGCGTAAAGCCTGAAATTCAGTACACCGGCACTT-AGCCTGCT
11715580 AGACATATAGTCTGAAATGTCTCACCGACATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
65 AGACATATAGTCTGAAATGTCTCACCGACATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
11715642 TTCACTGGCAATAAGCCTGCTAGGCGCT-AAGCCTGAAAT
1 TTCACTGGCAATAAGCCTGCTAGGCG-TAAAGCCTGAAAT
11715681 CTCAATTTCA
Statistics
Matches: 143, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
124 30 0.21
125 109 0.76
126 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (126 bp):
TTCACTGGCAATAAGCCTGCTAGGCGTAAAGCCTGAAATTCAGTACACCGGCACTTAGCCTGCTA
GACATATAGTCTGAAATGTCTCACCGACATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
Found at i:11717260 original size:18 final size:18
Alignment explanation
Indices: 11717237--11717272 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11717227 AAACCTCAAG
11717237 TTTTTTATTTTTTTATTT
1 TTTTTTATTTTTTTATTT
*
11717255 TTTTTTCTTTTTTTATTT
1 TTTTTTATTTTTTTATTT
11717273 CATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.03, G:0.00, T:0.89
Consensus pattern (18 bp):
TTTTTTATTTTTTTATTT
Found at i:11719487 original size:4 final size:4
Alignment explanation
Indices: 11719478--11719509 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
11719468 CTCAGCAAAA
11719478 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
11719510 TGATTTGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:11721451 original size:6 final size:6
Alignment explanation
Indices: 11721421--11721468 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
11721411 ATAAAAATGA
* * * *
11721421 TTGAG- TTGAGT TTGAAT TTGGGT TTAAGT TTGAGT TTGAGT TCGAGT
1 TTGAGT TTGAGT TTGAGT TTGAGT TTGAGT TTGAGT TTGAGT TTGAGT
11721468 T
1 T
11721469 CGGTTTCTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (6 bp):
TTGAGT
Found at i:11728437 original size:58 final size:58
Alignment explanation
Indices: 11728322--11728464 Score: 218
Period size: 58 Copynumber: 2.5 Consensus size: 58
11728312 TAAACTTTGC
* * * *
11728322 AATTAATCCTATATTGAGACTTGAAC--TTTTTGTTCAAGTTAGCCCCTAAACTTGTT
1 AATTATTCCCATATTGAGGCTTGAACTTTTTTTGTTCAAGTTAGCCCCTAAACTAGTT
* *
11728378 AATTATTCCCATATTGAGGCTTAAACTTTTTTTGTTCAAGTTAGCCCCTGAACTAGTT
1 AATTATTCCCATATTGAGGCTTGAACTTTTTTTGTTCAAGTTAGCCCCTAAACTAGTT
11728436 AATTATTCCCATATTGAGGCTTGAACTTT
1 AATTATTCCCATATTGAGGCTTGAACTTT
11728465 AGAGTTTTCA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
56 22 0.28
58 56 0.72
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (58 bp):
AATTATTCCCATATTGAGGCTTGAACTTTTTTTGTTCAAGTTAGCCCCTAAACTAGTT
Found at i:11736830 original size:30 final size:30
Alignment explanation
Indices: 11736796--11736866 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
11736786 TAGTACATGG
*
11736796 TAAAATTATATTTTAAT-TTTCAAAAAATAA
1 TAAAATTATAATTTAATATTT-AAAAAATAA
* * *
11736826 TAAAATTTTAATTTAATATTTTAAAAATTA
1 TAAAATTATAATTTAATATTTAAAAAATAA
*
11736856 TAAAAATATAA
1 TAAAATTATAA
11736867 ACTAATCTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 31 0.91
31 3 0.09
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (30 bp):
TAAAATTATAATTTAATATTTAAAAAATAA
Found at i:11746602 original size:19 final size:19
Alignment explanation
Indices: 11746578--11746617 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
11746568 TCTGGTTTCG
11746578 TTCTCCCGTTCGTTCTCCC
1 TTCTCCCGTTCGTTCTCCC
*
11746597 TTCTCCCTTTCGTTCTCCC
1 TTCTCCCGTTCGTTCTCCC
11746616 TT
1 TT
11746618 GATTTGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.45, G:0.07, T:0.47
Consensus pattern (19 bp):
TTCTCCCGTTCGTTCTCCC
Found at i:11749306 original size:41 final size:41
Alignment explanation
Indices: 11749261--11749358 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
11749251 AGAACTTAGT
*
11749261 AGGCTTATTGCCGGTGAAACACTTCAGACAAAATGTCTAGC
1 AGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTCTAGC
* * * *
11749302 AGGCTTAATGCCGGTGAAATATTTCAGACTATATGTCTAGC
1 AGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTCTAGC
11749343 AGGC-TAAGTGCCGGTG
1 AGGCTTAA-TGCCGGTG
11749359 TACTGAATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 3 0.06
41 48 0.94
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (41 bp):
AGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTCTAGC
Found at i:11752145 original size:109 final size:109
Alignment explanation
Indices: 11751951--11752152 Score: 352
Period size: 109 Copynumber: 1.9 Consensus size: 109
11751941 TAAATTCAAT
*
11751951 AGGATATTTGACAATTTGGTTAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
11752016 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAA
66 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAA
* *
11752060 AGGATATTT-AGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTGA-CAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
*
11752124 ATTTCCAAACGCAAAATATTGCCTTATTT
65 ATTTCCAAACGCAAAACATTGCCTTATTT
11752153 AGAAATATTT
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
108 1 0.01
109 87 0.99
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (109 bp):
AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAA
Found at i:11752160 original size:18 final size:17
Alignment explanation
Indices: 11752136--11752177 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
11752126 TTCCAAACGC
11752136 AAAATATTGCCTTATTT
1 AAAATATTGCCTTATTT
* *
11752153 AGAAATATTTCCTTTTTT
1 A-AAATATTGCCTTATTT
11752171 AAAATAT
1 AAAATAT
11752178 GATATTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (17 bp):
AAAATATTGCCTTATTT
Found at i:11752546 original size:44 final size:40
Alignment explanation
Indices: 11752458--11752546 Score: 97
Period size: 44 Copynumber: 2.1 Consensus size: 40
11752448 ATGAAAGATA
* *
11752458 TATATGTAATAGGAGATATAAAAATATAAATATCTACATG
1 TATATGTAATAGAAGATATAAAAATATAAATATATACATG
* * *
11752498 TATATGTATATAGAAGTTATAAAAAATTTAAGTATATATATATG
1 TATATGTA-ATAGAAGATAT-AAAAATATAA--ATATATACATG
11752542 TATAT
1 TATAT
11752547 TCGTGAGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 8 0.20
41 9 0.22
42 9 0.22
44 14 0.35
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.38
Consensus pattern (40 bp):
TATATGTAATAGAAGATATAAAAATATAAATATATACATG
Found at i:11752600 original size:12 final size:12
Alignment explanation
Indices: 11752575--11752666 Score: 50
Period size: 12 Copynumber: 7.8 Consensus size: 12
11752565 GAAAAGTATG
*
11752575 TATATAGGTATA
1 TATATAGATATA
*
11752587 TATATAGATGTA
1 TATATAGATATA
* *
11752599 TAGATAAATTATA
1 TATATAGA-TATA
*
11752612 AATATA-A-A-A
1 TATATAGATATA
*
11752621 TATA-AG-TATG
1 TATATAGATATA
*
11752631 TATAAATGCATATA
1 TATATA-G-ATATA
*
11752645 TATATATATATA
1 TATATAGATATA
11752657 TATATAGATA
1 TATATAGATA
11752667 AAGTTATAAG
Statistics
Matches: 59, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
8 1 0.02
9 5 0.08
10 5 0.08
11 1 0.02
12 32 0.54
13 7 0.12
14 8 0.14
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.39
Consensus pattern (12 bp):
TATATAGATATA
Found at i:11752773 original size:22 final size:22
Alignment explanation
Indices: 11752748--11752798 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
11752738 ATATGCACAT
* *
11752748 ATATATATATTAAGATATATGG
1 ATATATATAATAAGATATATAG
11752770 ATATATATAATAAGATATATAG
1 ATATATATAATAAGATATATAG
11752792 ATATATA
1 ATATATA
11752799 ACTAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (22 bp):
ATATATATAATAAGATATATAG
Found at i:11752799 original size:20 final size:21
Alignment explanation
Indices: 11752750--11752808 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
11752740 ATGCACATAT
* *
11752750 ATATATATTAAGATATATGGAT
1 ATATATAATAAGATATAT-GAG
11752772 ATATATAATAAGATATAT-AG
1 ATATATAATAAGATATATGAG
11752792 ATATATAACTAA-ATATA
1 ATATATAA-TAAGATATA
11752809 ATATTAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.41
21 3 0.09
22 17 0.50
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (21 bp):
ATATATAATAAGATATATGAG
Found at i:11754489 original size:44 final size:44
Alignment explanation
Indices: 11754439--11754589 Score: 151
Period size: 44 Copynumber: 3.4 Consensus size: 44
11754429 GCCCTACTGT
* *
11754439 AACTTCAGAGAGATAAGATCAA-TCATTTTAACCCGCTCCACTAC
1 AACTTCAGGGAGATAAGATCAACT-ACTTTAACCCGCTCCACTAC
* * * *
11754483 AACTTCAGGGAGATAAGATCTACTACTTTAATCCGCTCCTCTGC
1 AACTTCAGGGAGATAAGATCAACTACTTTAACCCGCTCCACTAC
* * * ** * * *
11754527 AACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATCAACTACTTTAACCCGCTCCACTAC
*
11754571 AACCTCAGGGAGATAAGAT
1 AACTTCAGGGAGATAAGAT
11754590 TTGCACCTTC
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 89 0.99
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATCAACTACTTTAACCCGCTCCACTAC
Found at i:11754926 original size:125 final size:125
Alignment explanation
Indices: 11754720--11754953 Score: 360
Period size: 125 Copynumber: 1.9 Consensus size: 125
11754710 CGTCATTGTA
* * *
11754720 GCTTTAATCTTTTTAACTGCAATATCGGAGAAACAAGATTCGCCAATTTGGCTTTAATCTATTCC
1 GCTTTAATCTTTTTAACTGCAATATAGGAGAAACAAGATTCACCAATGTGGCTTTAATCTATTCC
* *
11754785 ACTGCATCGCTTGGGGCGTAAGATTCGTTATTGTAGCTTTAATCAAGATTCATCGATGTG
66 ACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGCTTCAATCAAGATTCATCGATGTG
* * * * * *
11754845 GCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATATAGGAGAAACAAGATTCACCAATGTGGCTTTAATCTATTCC
*
11754910 ACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTCAATC
66 ACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGCTTCAATC
11754954 TTCTTAATTG
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
125 97 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (125 bp):
GCTTTAATCTTTTTAACTGCAATATAGGAGAAACAAGATTCACCAATGTGGCTTTAATCTATTCC
ACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGCTTCAATCAAGATTCATCGATGTG
Found at i:11755183 original size:44 final size:45
Alignment explanation
Indices: 11755074--11755212 Score: 124
Period size: 45 Copynumber: 3.1 Consensus size: 45
11755064 AACTATGGTT
* * *
11755074 TCTTCGATCTGCTTCGTTGTTAGTACAAGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGAGCTGCTA
* * * * *
11755119 TCTTC-ATTCTACTCCGCTGTCGGTACAGGAAGGCAAG-GCTAG-TG
1 TCTTCGA-TCTGCTTCGCTGTCAGTACAAGAAGGCAAGAGCT-GCTA
* * *
11755163 TCTTCGATCTGCTTCGCTGTCAAG-GCAAGAAGGCAAGATCTGCTG
1 TCTTCGATCTGCTTCGCTGTC-AGTACAAGAAGGCAAGAGCTGCTA
11755208 TCTTC
1 TCTTC
11755213 AACCATCTCC
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
44 33 0.45
45 41 0.55
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (45 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGAGCTGCTA
Found at i:11755268 original size:88 final size:89
Alignment explanation
Indices: 11755149--11755641 Score: 644
Period size: 88 Copynumber: 5.6 Consensus size: 89
11755139 CGGTACAGGA
* * * * **
11755149 AGGCAAGGCTAGTGTCTTCGA-TCTGCTTCGCTGTCAAGGCAAGAAGGCAAGATCTGCTGTCTTC
1 AGGCAAGGTTTGTGTCTTCGACTCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
11755213 AACCATCTCCA-CTACAACCGAGAG
66 AACCAGCTCCATC-ACAACCGAGAG
* * *
11755237 AGGCAAAGTTTGTGTCTTCGACT-TGCTTCGCTGTCAACGCAGGAAGGCAAGATCTTTTGTTTTC
1 AGGCAAGGTTTGTGTCTTCGACTCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
* *
11755301 AAACAGCTCCATCACAACCGACAG
66 AACCAGCTCCATCACAACCGAGAG
* * * ** *
11755325 ATGCAAGGTTTGTGTCTTTGAC-CTGCTTCGCTGTGAACCCAGGAAGGCAAGATCTATTGTCTTC
1 AGGCAAGGTTTGTGTCTTCGACTCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
11755389 AACCAGCTCCATCACAACCGACAG
66 AACCAGCTCCATCACAACCGAGAG
* **
11755413 AGGCAAGGTTTG-GTTTTCGA-TCTGCTTCGCTGTCAATGCAGGAAGGTGAGATCTTTTGTCTTC
1 AGGCAAGGTTTGTGTCTTCGACTCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
11755476 AACCAGCTCCATCACAACCGAGAG
66 AACCAGCTCCATCACAACCGAGAG
* *
11755500 AGGCAAGGTTTGCGTCTTCGAC-CTGCTTCGCTGTCAATGCAGGAAGGTAAGATCTTTTGTCTTC
1 AGGCAAGGTTTGTGTCTTCGACTCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
11755564 AACCAGCTCCATCACAACCGAGAG
66 AACCAGCTCCATCACAACCGAGAG
* * * * * *
11755588 AGGCAAGGTTT-TGTTTTC-AATCTGCTTCACTGTTAATGCAGAAAGACAAGATCT
1 AGGCAAGGTTTGTGTCTTCGACTCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
11755642 GCTATCTTCA
Statistics
Matches: 359, Mismatches: 39, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
86 1 0.00
87 110 0.31
88 246 0.69
89 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (89 bp):
AGGCAAGGTTTGTGTCTTCGACTCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
AACCAGCTCCATCACAACCGAGAG
Found at i:11755509 original size:175 final size:175
Alignment explanation
Indices: 11755149--11755641 Score: 666
Period size: 175 Copynumber: 2.8 Consensus size: 175
11755139 CGGTACAGGA
* * * * * **
11755149 AGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAAGGCAAGAAGGCAAGATCTGCTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCTATTGTCTTCA
* * * *
11755214 ACCATCTCCA-CTACAACCGAGAGAGGCAAAGTTTGTGTCTTCGA-CTTGCTTCGCTGTCAACGC
66 ACCAGCTCCATC-ACAACCGAGAGAGGCAAGGTTTG-GTTTTCGATC-TGCTTCGCTGTCAATGC
*
11755277 AGGAAGGCAAGATCTTTTGTTTTCAAACAGCTCCATCACAACCGACAG
128 AGGAAGGCAAGATCTTTTGTCTTCAAACAGCTCCATCACAACCGACAG
* * * *
11755325 ATGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTGAACCCAGGAAGGCAAGATCTATTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCTATTGTCTTCA
*
11755390 ACCAGCTCCATCACAACCGACAGAGGCAAGGTTTGGTTTTCGATCTGCTTCGCTGTCAATGCAGG
66 ACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGGTTTTCGATCTGCTTCGCTGTCAATGCAGG
** * *
11755455 AAGGTGAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
131 AAGGCAAGATCTTTTGTCTTCAAACAGCTCCATCACAACCGACAG
* * * *
11755500 AGGCAAGGTTTGCGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGTAAGATCTTTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCTATTGTCTTCA
* * * * *
11755565 ACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTTGTTTTCAATCTGCTTCACTGTTAATGCAGA
66 ACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGGTTTTCGATCTGCTTCGCTGTCAATGCAGG
*
11755630 AAGACAAGATCT
131 AAGGCAAGATCT
11755642 GCTATCTTCA
Statistics
Matches: 277, Mismatches: 38, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
175 191 0.69
176 85 0.31
177 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (175 bp):
AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCTATTGTCTTCA
ACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGGTTTTCGATCTGCTTCGCTGTCAATGCAGG
AAGGCAAGATCTTTTGTCTTCAAACAGCTCCATCACAACCGACAG
Found at i:11755601 original size:42 final size:42
Alignment explanation
Indices: 11755466--11755607 Score: 119
Period size: 44 Copynumber: 3.3 Consensus size: 42
11755456 AGGTGAGATC
11755466 TTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
1 TTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
* * * ** * * *
11755508 TTTGCGTCTTCGACCTGCTTCGC-TGTCAA-TGCAG-GAAGGTAAGATC
1 TTT-TGTCTTCAACCAGC-TC-CATCACAACCG-AGAG-AGGCAAG--G
11755554 TTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
1 TTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
*
11755596 TTTTGTTTTCAA
1 TTTTGTCTTCAA
11755608 TCTGCTTCAC
Statistics
Matches: 73, Mismatches: 17, Indels: 20
0.66 0.15 0.18
Matches are distributed among these distances:
42 14 0.19
43 14 0.19
44 28 0.38
45 14 0.19
46 3 0.04
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (42 bp):
TTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
Found at i:11756904 original size:14 final size:14
Alignment explanation
Indices: 11756880--11756939 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
11756870 TCCCCTTAGA
11756880 CTTTCCATTTTT-ACT
1 CTTT-CATTTTTCA-T
11756895 CTTTCATTTTTCAT
1 CTTTCATTTTTCAT
* *
11756909 TTTTCATTTTCCAT
1 CTTTCATTTTTCAT
*
11756923 -TTTCATTCTTCAT
1 CTTTCATTTTTCAT
11756936 CTTT
1 CTTT
11756940 TTCTTTTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
13 11 0.28
14 23 0.59
15 5 0.13
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.63
Consensus pattern (14 bp):
CTTTCATTTTTCAT
Found at i:11756908 original size:7 final size:7
Alignment explanation
Indices: 11756896--11756940 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
11756886 ATTTTTACTC
11756896 TTTCATT
1 TTTCATT
11756903 TTTCATT
1 TTTCATT
11756910 TTTCATT
1 TTTCATT
*
11756917 TTCCA-T
1 TTTCATT
11756923 TTTCATT
1 TTTCATT
*
11756930 CTTCATCT
1 TTTCAT-T
11756938 TTT
1 TTT
11756941 TCTTTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 5 0.16
7 24 0.75
8 3 0.09
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTCATT
Found at i:11757281 original size:6 final size:6
Alignment explanation
Indices: 11757270--11757311 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
11757260 TTGACCCCTC
*
11757270 CTTTTT CTTTTT CTTTTT C-TTCT CTTTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT CTTTTT CTTTTT
11757312 TTCTATTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.12
6 24 0.75
7 4 0.12
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:11757302 original size:24 final size:23
Alignment explanation
Indices: 11757271--11757320 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
11757261 TGACCCCTCC
*
11757271 TTTTTCTTTTTCTTTTTCTTCTCT
1 TTTTTCTTTTTCTTTTT-TTCTAT
11757295 TTTTTCTTTTTCTTTTTTTCTAT
1 TTTTTCTTTTTCTTTTTTTCTAT
11757318 TTT
1 TTT
11757321 GACTTTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTCTTTTTCTTTTTTTCTAT
Found at i:11757353 original size:15 final size:15
Alignment explanation
Indices: 11757324--11757356 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
11757314 CTATTTTGAC
11757324 TTTGATTTTTTTATT
1 TTTGATTTTTTTATT
11757339 TTTGATTTTTTTATT
1 TTTGATTTTTTTATT
11757354 TTT
1 TTT
11757357 TTCTAGTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (15 bp):
TTTGATTTTTTTATT
Found at i:11759961 original size:19 final size:20
Alignment explanation
Indices: 11759932--11759980 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
11759922 CACTTCGTGA
* *
11759932 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
11759951 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
11759971 AAATG-AATGC
1 AAATGTAATGC
11759981 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:11761733 original size:14 final size:15
Alignment explanation
Indices: 11761711--11761787 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
11761701 CAATCAAACA
11761711 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
11761725 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
11761740 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
11761760 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
11761774 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
11761788 AATGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:11761752 original size:20 final size:20
Alignment explanation
Indices: 11761727--11761766 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11761717 AATATTTTCC
*
11761727 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
11761747 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
11761767 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:11761772 original size:34 final size:35
Alignment explanation
Indices: 11761715--11761781 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
11761705 CAAACACCAG
*
11761715 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
11761750 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
11761782 CATTTTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11764624 original size:22 final size:23
Alignment explanation
Indices: 11764598--11764641 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11764588 GTGATGAGGT
**
11764598 TATCTTGTGAATATGTT-AAATC
1 TATCTTGAAAATATGTTGAAATC
11764620 TATCTTGAAAATATGTTGAAAT
1 TATCTTGAAAATATGTTGAAAT
11764642 GGATTGGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (23 bp):
TATCTTGAAAATATGTTGAAATC
Found at i:11765886 original size:22 final size:21
Alignment explanation
Indices: 11765860--11765912 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
11765850 ATGTATATAC
11765860 ATATATATATGAAAATAAAAAA
1 ATATATATAT-AAAATAAAAAA
* * *
11765882 ATATAGATTATAGAATATAAAA
1 ATATATA-TATAAAATAAAAAA
11765904 ATATATATA
1 ATATATATA
11765913 AGTAGGTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.08
22 21 0.81
23 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (21 bp):
ATATATATATAAAATAAAAAA
Found at i:11768501 original size:17 final size:17
Alignment explanation
Indices: 11768459--11768504 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
11768449 CAACTAGTCC
* *
11768459 AATTAAAAATTATTAAG
1 AATTAAAAAATAATAAG
*
11768476 AATTCAAAAAATAATAAT
1 AATT-AAAAAATAATAAG
11768494 AATTAAAAAAT
1 AATTAAAAAAT
11768505 CTGGTTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AATTAAAAAATAATAAG
Found at i:11770060 original size:16 final size:16
Alignment explanation
Indices: 11770039--11770082 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
11770029 TGGATTTAGA
11770039 TCATTTCAAGTTTCGG
1 TCATTTCAAGTTTCGG
* *
11770055 TCATTTTAAGTTTGGG
1 TCATTTCAAGTTTCGG
*
11770071 TCAATTCAAGTT
1 TCATTTCAAGTT
11770083 CAAGTTGGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (16 bp):
TCATTTCAAGTTTCGG
Found at i:11771400 original size:4 final size:4
Alignment explanation
Indices: 11771393--11771418 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11771383 TAAATAAAAA
11771393 ATGC ATGC ATGC ATGC ATGC ATGC AT
1 ATGC ATGC ATGC ATGC ATGC ATGC AT
11771419 TTTTCTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (4 bp):
ATGC
Found at i:11775921 original size:37 final size:36
Alignment explanation
Indices: 11775880--11775954 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
11775870 AATGCACGTG
11775880 AATTT-AATATTAATTTTTTTGAATTTTTTGT-ATTTTT
1 AATTTAAATATTAA-TTTTTT-AATTTTTT-TAATTTTT
* *
11775917 AATTTAAATTTTGATTTTTTAATTTTTTTAATTTTT
1 AATTTAAATATTAATTTTTTAATTTTTTTAATTTTT
11775953 AA
1 AA
11775955 ATTATTTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 1 0.03
36 16 0.47
37 11 0.32
38 6 0.18
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (36 bp):
AATTTAAATATTAATTTTTTAATTTTTTTAATTTTT
Found at i:11777511 original size:14 final size:14
Alignment explanation
Indices: 11777461--11777512 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
11777451 GTTTATTAAA
*
11777461 TTATTTAAAATTTT
1 TTATTTAAATTTTT
* **
11777475 TTATTT-AAGTTAA
1 TTATTTAAATTTTT
11777488 TTATTTAAATTTTT
1 TTATTTAAATTTTT
11777502 TTATTTAAATT
1 TTATTTAAATT
11777513 ATTGGATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
13 10 0.32
14 21 0.68
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
TTATTTAAATTTTT
Found at i:11777512 original size:23 final size:23
Alignment explanation
Indices: 11777452--11777515 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 23
11777442 TTACAAAATG
11777452 TTTA-TTAAATTATTTAAAATTT
1 TTTATTTAAATTATTTAAAATTT
*
11777474 TTTATTTAAGTTAATTATTTAAATTTT
1 TTTATTT-A---AATTATTTAAAATTT
11777501 TTTATTTAAATTATT
1 TTTATTTAAATTATT
11777516 GGATTAACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 4 0.11
23 9 0.25
24 1 0.03
26 1 0.03
27 21 0.58
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTATTTAAATTATTTAAAATTT
Found at i:11777531 original size:27 final size:27
Alignment explanation
Indices: 11777459--11777513 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
11777449 ATGTTTATTA
* *
11777459 AATTATTTAAAATTTTTTATTTAAGTT
1 AATTATTTAAATTTTTTTATTTAAATT
11777486 AATTATTTAAATTTTTTTATTTAAATT
1 AATTATTTAAATTTTTTTATTTAAATT
11777513 A
1 A
11777514 TTGGATTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
AATTATTTAAATTTTTTTATTTAAATT
Found at i:11783370 original size:3 final size:3
Alignment explanation
Indices: 11783312--11783361 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
11783302 TTTGTTAACT
* *
11783312 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
11783357 GTA TT
1 TTA TT
11783362 GGTATTATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Done.