Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 56 of 163
Found at i:14006434 original size:23 final size:23
Alignment explanation
Indices: 14006408--14006479 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 23
14006398 TTTTTATTTT
14006408 CATTTAGGATGTATTTTCTGTTC
1 CATTTAGGATGTATTTTCTGTTC
* * * *
14006431 CATTTTA--ATTTTTTTTAT-TTT
1 CA-TTTAGGATGTATTTTCTGTTC
14006452 CATTTAGGATGTATTTTCTGTTC
1 CATTTAGGATGTATTTTCTGTTC
14006475 CATTT
1 CATTT
14006480 TCATTTTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 16 0.43
23 9 0.24
24 4 0.11
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.60
Consensus pattern (23 bp):
CATTTAGGATGTATTTTCTGTTC
Found at i:14006458 original size:44 final size:44
Alignment explanation
Indices: 14006395--14006501 Score: 205
Period size: 44 Copynumber: 2.4 Consensus size: 44
14006385 TTAGAAATGT
14006395 TTTTTTTTATTTTCATTTAGGATGTATTTTCTGTTCCATTTTAA
1 TTTTTTTTATTTTCATTTAGGATGTATTTTCTGTTCCATTTTAA
*
14006439 TTTTTTTTATTTTCATTTAGGATGTATTTTCTGTTCCATTTTCA
1 TTTTTTTTATTTTCATTTAGGATGTATTTTCTGTTCCATTTTAA
14006483 TTTTTTTTATTTTCATTTA
1 TTTTTTTTATTTTCATTTA
14006502 TGTTTTGCTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.17, C:0.09, G:0.07, T:0.66
Consensus pattern (44 bp):
TTTTTTTTATTTTCATTTAGGATGTATTTTCTGTTCCATTTTAA
Found at i:14009512 original size:112 final size:112
Alignment explanation
Indices: 14009315--14009542 Score: 456
Period size: 112 Copynumber: 2.0 Consensus size: 112
14009305 GGTAAAAGAG
14009315 AAGAAAATCAGCCTTTTTGTTGTAAGTACTACAAGAATTTTAGTTTATAGCCTATTCTTCATAAT
1 AAGAAAATCAGCCTTTTTGTTGTAAGTACTACAAGAATTTTAGTTTATAGCCTATTCTTCATAAT
14009380 ATATTTGAGTTTTTAGCATGGAAATTGTTGTTTAATTAGGTGTTATA
66 ATATTTGAGTTTTTAGCATGGAAATTGTTGTTTAATTAGGTGTTATA
14009427 AAGAAAATCAGCCTTTTTGTTGTAAGTACTACAAGAATTTTAGTTTATAGCCTATTCTTCATAAT
1 AAGAAAATCAGCCTTTTTGTTGTAAGTACTACAAGAATTTTAGTTTATAGCCTATTCTTCATAAT
14009492 ATATTTGAGTTTTTAGCATGGAAATTGTTGTTTAATTAGGTGTTATA
66 ATATTTGAGTTTTTAGCATGGAAATTGTTGTTTAATTAGGTGTTATA
14009539 AAGA
1 AAGA
14009543 TGATTAAGAG
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 116 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (112 bp):
AAGAAAATCAGCCTTTTTGTTGTAAGTACTACAAGAATTTTAGTTTATAGCCTATTCTTCATAAT
ATATTTGAGTTTTTAGCATGGAAATTGTTGTTTAATTAGGTGTTATA
Found at i:14010446 original size:23 final size:23
Alignment explanation
Indices: 14010420--14010540 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
14010410 ACACTAGCGC
14010420 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
14010443 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
14010466 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
14010491 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
14010514 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
14010537 GCTC
1 GCTC
14010541 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:14010489 original size:48 final size:46
Alignment explanation
Indices: 14010420--14010540 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
14010410 ACACTAGCGC
* *
14010420 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
14010466 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
14010514 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
14010541 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:14010593 original size:23 final size:23
Alignment explanation
Indices: 14010541--14010607 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
14010531 TTGTGTGCTC
*
14010541 AGTACTTTGTGTACTCTCTGTTT
1 AGTACTTTGTGTACTCTCTGTTA
* *
14010564 AGCACTTTGTGTGCT-TACTGTTA
1 AGTACTTTGTGTACTCT-CTGTTA
* *
14010587 AGTACTTCG-GTACTTTCTGTT
1 AGTACTTTGTGTACTCTCTGTT
14010608 CCGTTTATCT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
22 10 0.28
23 26 0.72
ACGTcount: A:0.15, C:0.18, G:0.19, T:0.48
Consensus pattern (23 bp):
AGTACTTTGTGTACTCTCTGTTA
Found at i:14013201 original size:31 final size:30
Alignment explanation
Indices: 14013166--14013263 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 30
14013156 ACGATAACGT
*
14013166 ATTTAATTCTTAATATTTATATATTCTATCA
1 ATTTAATTCTTAAT-TTTAAATATTCTATCA
* *
14013197 ATTTATTTC-TAATTTTAAATAATTC-AACAA
1 ATTTAATTCTTAATTTTAAAT-ATTCTATC-A
**
14013227 ATTTAACCCTTAATTTTTACAA-ATTCTATCA
1 ATTTAATTCTTAA-TTTTA-AATATTCTATCA
14013258 ATTTAA
1 ATTTAA
14013264 CCCTCAAACT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
29 8 0.15
30 15 0.28
31 22 0.41
32 7 0.13
33 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTTAATTCTTAATTTTAAATATTCTATCA
Found at i:14017860 original size:20 final size:21
Alignment explanation
Indices: 14017817--14017861 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
14017807 GGATTTCAAT
*
14017817 GTTTTTATTTTTTTCAATTTA
1 GTTTTTATTTTTTTCAATTAA
*
14017838 GTTTTTATTTTTTT-AGTTAA
1 GTTTTTATTTTTTTCAATTAA
14017858 GTTT
1 GTTT
14017862 AATATTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.71
Consensus pattern (21 bp):
GTTTTTATTTTTTTCAATTAA
Found at i:14018076 original size:20 final size:20
Alignment explanation
Indices: 14018034--14018078 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
14018024 TATAAAAAGT
*
14018034 AAAAATATTTAAAAATGACA
1 AAAAATATTTAAAAATGAAA
*
14018054 AAAAAT-TTATAAAAATTAAA
1 AAAAATATT-TAAAAATGAAA
14018074 AAAAA
1 AAAAA
14018079 AGAATGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAATATTTAAAAATGAAA
Found at i:14031908 original size:22 final size:21
Alignment explanation
Indices: 14031874--14031917 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
14031864 TACTACATGT
14031874 TTTATTTAGGTTAGTTTATTA
1 TTTATTTAGGTTAGTTTATTA
* *
14031895 TTTATGTTGGGTTATTTTATTA
1 TTTAT-TTAGGTTAGTTTATTA
14031917 T
1 T
14031918 ACAATATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (21 bp):
TTTATTTAGGTTAGTTTATTA
Found at i:14033392 original size:21 final size:21
Alignment explanation
Indices: 14033366--14033423 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
14033356 GATACTTGTG
14033366 ATACTTCTACCGATACAAGT-
1 ATACTTCTACCGATACAAGTC
* * *
14033386 GTAACTTCTACTGAAACAAGTC
1 AT-ACTTCTACCGATACAAGTC
*
14033408 ATGCTTCTACCGATAC
1 ATACTTCTACCGATAC
14033424 TAAAAACTCC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (21 bp):
ATACTTCTACCGATACAAGTC
Found at i:14044139 original size:49 final size:49
Alignment explanation
Indices: 14043973--14044145 Score: 195
Period size: 49 Copynumber: 3.5 Consensus size: 49
14043963 ACCAAGGAAA
* * * ** * *
14043973 CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTAC
1 CATGAAGATGTGAAGGGAAAAGTTGAGGCCGCAACGGAAAACCCGATAC
** * *
14044022 CATGAAGATGTGATTGGAAAAGTTGAGGCTGCAAC-GACAAATCCGATAC
1 CATGAAGATGTGAAGGGAAAAGTTGAGGCCGCAACGGA-AAACCCGATAC
* **
14044071 CATGAAGATGCGATTGGAAAAGTTGAGGCCGCAACGGAAAACCCGATAC
1 CATGAAGATGTGAAGGGAAAAGTTGAGGCCGCAACGGAAAACCCGATAC
*
14044120 CATGAAGATTTGAAGGGAAAAGTTGA
1 CATGAAGATGTGAAGGGAAAAGTTGA
14044146 CGCTGTAATG
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 101 0.97
50 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (49 bp):
CATGAAGATGTGAAGGGAAAAGTTGAGGCCGCAACGGAAAACCCGATAC
Found at i:14044544 original size:39 final size:39
Alignment explanation
Indices: 14044488--14045010 Score: 321
Period size: 39 Copynumber: 13.4 Consensus size: 39
14044478 AAGGGCAAAT
* **
14044488 ATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGAT-TGC
1 ATCATCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
* * * * *
14044526 AGTCATTCGATCTTTTACCCTGAGCTTGGGGCAGATCACC
1 A-TCATCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
** *
14044566 ATCAGT-CAATCTCTTACCCCGAGCCTAAGGTAGATCACC
1 ATCA-TCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
* *
14044605 ATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATGA-C
1 ATCATCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
* * * * *
14044643 AGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGATCACC
1 A-TCATCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
* * * ** *
14044683 ATCAACCAATCTCTTACCCCAAGCTTGGGATAAATTGCAGCC
1 ATCATCCAATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CC
* * ** ***
14044725 AT--T-CGATCTTTTACCCTAAGCCTAAAGCAGATCACC
1 ATCATCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
* * * **
14044761 ATCAACCAATCTCTTACCCCAAGCTTGGGGCAGAT-TGC
1 ATCATCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
* * * *
14044799 AGTCATCCGATCTTTTACCCCAAGCCT-AGGCAGATCACC
1 A-TCATCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
* * * **
14044838 ATCAACCAATCTCTTACCCCGAGCCTAGGGCATAT-TGC
1 ATCATCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
* * * * * *
14044876 AGTCATTCAATCTTTTACCTCAAGCCTGAGGTAGATCACC
1 A-TCATCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
* * * *
14044916 ATCAACCAATCTCTTACCCCGAGCTTGGGGAAGATCGTA-G
1 ATCATCCAATCTCTTACCCCGAGCCTGGGGCAGATC--ACC
* * * * *
14044956 A-CATCCGATCTTTTATCCCGAGCCTGAGACAGATCACC
1 ATCATCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
* *
14044994 GTCAACCAATCTCTTAC
1 ATCATCCAATCTCTTAC
14045011 ACCACGACAG
Statistics
Matches: 358, Mismatches: 106, Indels: 41
0.71 0.21 0.08
Matches are distributed among these distances:
36 4 0.01
37 3 0.01
38 36 0.10
39 299 0.84
40 9 0.03
41 3 0.01
42 4 0.01
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (39 bp):
ATCATCCAATCTCTTACCCCGAGCCTGGGGCAGATCACC
Found at i:14044654 original size:117 final size:117
Alignment explanation
Indices: 14044488--14044939 Score: 404
Period size: 117 Copynumber: 3.9 Consensus size: 117
14044478 AAGGGCAAAT
* * *
14044488 ATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGTCATTCGATCTTTTACCCTGAGCTT
1 ATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTT
* **
14044553 GGGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCCTAAGGTAGATCACC
66 GAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTAAGGTAGATCACC
14044605 ATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGA-TGACAGCCATCCGATCTTTTACCCCGAGCT
1 ATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTG-CAGCCATCCGATCTTTTACCCCGAGCT
* ** *
14044669 TGAGGCAGATCACCATCAACCAATCTCTTACCCCAAG-CTTGGGATAAATTGCAGCC
65 TGAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTAAGG-TAGA-T-CA-CC
* ** *** * * *
14044725 ATTC-G---ATCTTTTACCCTAAGCCTAAAGCAGA-T-CA-CCATCAACCAATCTCTTACCCCAA
1 A-TCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCAT---CCGATCTTTTACCCCGA
* ** * * * * *
14044783 GCTTGGGGCAGAT-TGCAGTCATCCGATCTTTTACCCCAAGCCT-AGGCAGATCACC
62 GCTTGAGGCAGATCACCA-TCAACCAATCTCTTACCCCGAGCCTAAGGTAGATCACC
* * * * * * * * *
14044838 ATCAACCAATCTCTTACCCCGAGCCTAGGGCATATTGCAGTCATTCAATCTTTTACCTCAAGCCT
1 ATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTT
*
14044903 GAGGTAGATCACCATCAACCAATCTCTTACCCCGAGC
66 GAGGCAGATCACCATCAACCAATCTCTTACCCCGAGC
14044940 TTGGGGAAGA
Statistics
Matches: 268, Mismatches: 48, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
112 2 0.01
113 3 0.01
114 6 0.02
115 3 0.01
116 73 0.27
117 165 0.62
118 5 0.02
119 5 0.02
120 4 0.01
121 2 0.01
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (117 bp):
ATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTT
GAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTAAGGTAGATCACC
Found at i:14045004 original size:233 final size:234
Alignment explanation
Indices: 14044574--14045010 Score: 605
Period size: 233 Copynumber: 1.9 Consensus size: 234
14044564 CCATCAGTCA
* * * *
14044574 ATCTCTTACCCCGAGCCTAAGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGA
1 ATCTCTTACCCCAAGCCTAAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTAGGGCAGA
* * *
14044639 TGACAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGATCACCATCAACCAATCTCTTACCCCA
66 TGACAGCCATCCAATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCCA
* * *
14044704 AGCTTGGGATAAATTGCAGCCATTCGATCTTTTACCCTAAGCCTAAAGCAGATCACCATCAACCA
131 AGCTTGGGATAAATCGCAGACATCCGATCTTTTACCCTAAGCCTAAAGCAGATCACCATCAACCA
14044769 ATCTCTTACCCCAAGCTTGGGGCAGATTGCAGTCATCCG
196 ATCTCTTACCCCAAGCTTGGGGCAGATTGCAGTCATCCG
* *
14044808 ATCTTTTACCCCAAGCCT-AGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTAGGGCATA
1 ATCTCTTACCCCAAGCCTAAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTAGGGCAGA
* * * *
14044872 TTG-CAGTCATTCAATCTTTTACCTCAAGCCTGAGGTAGATCACCATCAACCAATCTCTTACCCC
66 -TGACAGCCATCCAATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCC
* * * * * *
14044936 GAGCTTGGGGA-AGATCGTAGACATCCGATCTTTTATCCC-GAGCCT-GAGACAGATCACCGTCA
130 AAGCTT-GGGATAAATCGCAGACATCCGATCTTTTA-CCCTAAGCCTAAAG-CAGATCACCATCA
14044998 ACCAATCTCTTAC
192 ACCAATCTCTTAC
14045011 ACCACGACAG
Statistics
Matches: 177, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
232 2 0.01
233 150 0.85
234 25 0.14
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (234 bp):
ATCTCTTACCCCAAGCCTAAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTAGGGCAGA
TGACAGCCATCCAATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCCA
AGCTTGGGATAAATCGCAGACATCCGATCTTTTACCCTAAGCCTAAAGCAGATCACCATCAACCA
ATCTCTTACCCCAAGCTTGGGGCAGATTGCAGTCATCCG
Found at i:14045039 original size:78 final size:78
Alignment explanation
Indices: 14044574--14045044 Score: 538
Period size: 78 Copynumber: 6.1 Consensus size: 78
14044564 CCATCAGTCA
* * * * * * *
14044574 ATCTCTTACCCCGAGCCTAAGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGA
1 ATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCTTGGGGCAAA
14044639 -TGACAGCCATCCG
66 TTG-CAGCCATCCG
* * * **
14044652 ATCTTTTACCCCGAGCTTGAGGCAGATCACCATCAACCAATCTCTTACCCCAAGCTTGGGATAAA
1 ATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCTTGGGGCAAA
*
14044717 TTGCAGCCATTCG
66 TTGCAGCCATCCG
* * * * *
14044730 ATCTTTTACCCTAAGCCTAAAGCAGATCACCATCAACCAATCTCTTACCCCAAGCTTGGGGCAGA
1 ATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCTTGGGGCAAA
*
14044795 TTGCAGTCATCCG
66 TTGCAGCCATCCG
* * *
14044808 ATCTTTTACCCCAAGCCT-AGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTAGGGCATA
1 ATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCTTGGGGCAAA
* * *
14044872 TTGCAGTCATTCA
66 TTGCAGCCATCCG
* *
14044885 ATCTTTTACCTCAAGCCTGAGGTAGATCACCATCAACCAATCTCTTACCCCGAGCTTGGGG-AAG
1 ATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCTTGGGGCAA-
* * *
14044949 ATCGTAGACATCCG
65 ATTGCAGCCATCCG
* * * * *
14044963 ATCTTTTATCCCGAGCCTGAGACAGATCACCGTCAACCAATCTCTTACACCACGA-C-AGGGGCA
1 ATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTAC-CC-CGAGCTTGGGGCA
* *
14045026 AATTGCAACCATCCA
64 AATTGCAGCCATCCG
14045041 ATCT
1 ATCT
14045045 CTTCCTAAAA
Statistics
Matches: 336, Mismatches: 51, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
77 70 0.21
78 256 0.76
79 7 0.02
80 3 0.01
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (78 bp):
ATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCTTGGGGCAAA
TTGCAGCCATCCG
Found at i:14045657 original size:14 final size:15
Alignment explanation
Indices: 14045638--14045670 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14045628 AATATTCAAC
14045638 ACAATGTCCAA-ATT
1 ACAATGTCCAAGATT
14045652 ACAATGTCCAAGATT
1 ACAATGTCCAAGATT
14045667 ACAA
1 ACAA
14045671 AATAGCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.24
Consensus pattern (15 bp):
ACAATGTCCAAGATT
Found at i:14047860 original size:27 final size:27
Alignment explanation
Indices: 14047827--14047905 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
14047817 CTAGACAGAG
14047827 TACGCTCTTATGAGCCAAAATCAGAAT
1 TACGCTCTTATGAGCCAAAATCAGAAT
* * *
14047854 TATGCTCTTACGAG-CAAGAT-AGAAT
1 TACGCTCTTATGAGCCAAAATCAGAAT
*
14047879 TACACTCTTATGAGCCAAAATCAGAAT
1 TACGCTCTTATGAGCCAAAATCAGAAT
14047906 ATCTTCGTCG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 16 0.37
26 10 0.23
27 17 0.40
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (27 bp):
TACGCTCTTATGAGCCAAAATCAGAAT
Found at i:14047868 original size:51 final size:53
Alignment explanation
Indices: 14047796--14047905 Score: 154
Period size: 52 Copynumber: 2.1 Consensus size: 53
14047786 CAGAGCCTAG
* * *
14047796 TCAGAA-TATCGCTCTTTCGAGCTAGACAG-AGTACGCTCTTATGAGCCAAAA
1 TCAGAATTATCGCTCTTACGAGCAAGACAGAAGTACACTCTTATGAGCCAAAA
* *
14047847 TCAGAATTAT-GCTCTTACGAGCAAGATAGAATTACACTCTTATGAGCCAAAA
1 TCAGAATTATCGCTCTTACGAGCAAGACAGAAGTACACTCTTATGAGCCAAAA
14047899 TCAGAAT
1 TCAGAAT
14047906 ATCTTCGTCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
51 22 0.42
52 30 0.58
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (53 bp):
TCAGAATTATCGCTCTTACGAGCAAGACAGAAGTACACTCTTATGAGCCAAAA
Found at i:14047886 original size:25 final size:26
Alignment explanation
Indices: 14047831--14047905 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 26
14047821 ACAGAGTACG
**
14047831 CTCTTATGAGCCAAAATCAGAATTATG
1 CTCTTATGAG-CAAAATCAGAATTACA
* *
14047858 CTCTTACGAGCAAGAT-AGAATTACA
1 CTCTTATGAGCAAAATCAGAATTACA
14047883 CTCTTATGAGCCAAAATCAGAAT
1 CTCTTATGAG-CAAAATCAGAAT
14047906 ATCTTCGTCG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 16 0.40
26 10 0.25
27 14 0.35
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (26 bp):
CTCTTATGAGCAAAATCAGAATTACA
Found at i:14053543 original size:19 final size:20
Alignment explanation
Indices: 14053501--14053550 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
14053491 AAATTTTAAC
* *
14053501 TTTTTATATATTTTTATAATT
1 TTTTTATAAATTTTGATAA-T
14053522 TTTTTATAAATTTTGA-AA-
1 TTTTTATAAATTTTGATAAT
14053540 TTTTTATAAAT
1 TTTTTATAAAT
14053551 ATTTTGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 11 0.41
20 2 0.07
21 14 0.52
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTATAAATTTTGATAAT
Found at i:14053550 original size:10 final size:10
Alignment explanation
Indices: 14053501--14053555 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 10
14053491 AAATTTTAAC
*
14053501 TTTTTATATA
1 TTTTTATAAA
*
14053511 TTTTTATAATT
1 TTTTTATAA-A
14053522 TTTTTATAAA
1 TTTTTATAAA
*
14053532 -TTTT-GAAA
1 TTTTTATAAA
14053540 TTTTTATAAA
1 TTTTTATAAA
14053550 TATTTT
1 T-TTTT
14053556 GAATTTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
8 3 0.08
9 8 0.22
10 12 0.33
11 13 0.36
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:14053554 original size:20 final size:20
Alignment explanation
Indices: 14053488--14053576 Score: 75
Period size: 18 Copynumber: 4.7 Consensus size: 20
14053478 TTCGAAAAAA
*
14053488 ATAAA-ATTTT-AACTTTTT
1 ATAAATATTTTGAAATTTTT
*
14053506 AT--ATATTTTTATAATTTTT
1 ATAAATATTTTGA-AATTTTT
*
14053525 TTATAA-ATTTTGAAATTTTT
1 ATA-AATATTTTGAAATTTTT
14053545 ATAAATATTTTG-AA-TTTT
1 ATAAATATTTTGAAATTTTT
*
14053563 AAAAATATTTTGAA
1 ATAAATATTTTGAA
14053577 TTATTTTGTA
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
16 1 0.02
17 5 0.09
18 18 0.31
19 12 0.21
20 15 0.26
21 6 0.10
22 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (20 bp):
ATAAATATTTTGAAATTTTT
Found at i:14056030 original size:43 final size:43
Alignment explanation
Indices: 14055969--14056198 Score: 327
Period size: 43 Copynumber: 5.3 Consensus size: 43
14055959 GTTTATGAGG
*
14055969 ACAAACGCCGCTAAAGAACATGGTCTTTAGCTGCGCTTCTCCC
1 ACAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCC
*
14056012 ACAAACGCCGCTAAAGAACATGGTCTTTAGTGGCGCTTCTCCC
1 ACAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCC
* * *
14056055 ACAAACGTCGCTAAAAAATATGGTCTTTAGCGGCGCTTAC-CCC
1 ACAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTT-CTCCC
* * *
14056098 ATAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTATACC
1 ACAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCC
* * * *
14056141 AAAAACGCCGCTAAAGAACATGGTTTTTAGCGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCC
*
14056184 ACAAATGCCGCTAAA
1 ACAAACGCCGCTAAA
14056199 ATTAACAGAT
Statistics
Matches: 166, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
43 165 0.99
44 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCC
Found at i:14062721 original size:57 final size:58
Alignment explanation
Indices: 14062607--14062723 Score: 141
Period size: 57 Copynumber: 2.0 Consensus size: 58
14062597 AGTTTCAGTG
* * * *
14062607 AATTACCTCTTAAATATTACATTAATATATATATATTAGTATAAGTGGAGACTGAGTC
1 AATTAACTATTAAATATTACATTAATATATATATATTACTATAAGAGGAGACTGAGTC
* *
14062665 AATTAACTATTAAATATT-GATTAATATATAT-TATTACTATATA-AGGAGATTTGAGTC
1 AATTAACTATTAAATATTACATTAATATATATATATTACTATA-AGAGGAGA-CTGAGTC
14062722 AA
1 AA
14062724 ATAATTAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
56 14 0.27
57 21 0.41
58 16 0.31
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (58 bp):
AATTAACTATTAAATATTACATTAATATATATATATTACTATAAGAGGAGACTGAGTC
Found at i:14062823 original size:18 final size:19
Alignment explanation
Indices: 14062780--14062823 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
14062770 TTAATAATGT
14062780 TAATTTTAGAAAGTACCAA
1 TAATTTTAGAAAGTACCAA
* **
14062799 AAATTTTAGAAA-TATTAA
1 TAATTTTAGAAAGTACCAA
14062817 TAATTTT
1 TAATTTT
14062824 TTATTTTTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (19 bp):
TAATTTTAGAAAGTACCAA
Found at i:14063494 original size:41 final size:41
Alignment explanation
Indices: 14063446--14063878 Score: 415
Period size: 41 Copynumber: 10.6 Consensus size: 41
14063436 TAGCGGCATT
*
14063446 TTTCCCATAAACGCCGCTAATGCTTTGACCTTTAGCGGCGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
* * * * *
14063487 TTTCCCATAAGCGCTGCTAATGCTCTGACCTTAAGCGACAC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
* * * * * **
14063528 TTTGCTAGAGACACCGCTAATGCTCTGACCTTTAGCGATGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
* * * * *
14063569 TTTACCATAAATGCCACTAATGCTCTGACCTTTAGCAGTGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
* *
14063610 TTTTCCAGAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
* * *
14063651 TTTCCCAGAAACGCCGCTAATGCTCTAACCTTTAGCGGCGT
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
* * * *
14063692 TTTACCATAAACGCCGTTAATGCTCTGACCTTTAGAGACGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
* ** ** * * *
14063733 -TTCTCATAAGGGCTACTAAT-ATCTGACTTTTAGCTGCGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
* * *
14063772 TTT-CCATAAGCGCCGCTAATGCTCTGACCTTTAGTGGCGA
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
* * * * *
14063812 TTTCTCACAAGCGCAGCTAATGCTTTGACCTTTAGCGGCGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
** *
14063853 TTGT-GGAAAAACGCCGCTAATGCTCT
1 TT-TCCCATAAACGCCGCTAATGCTCT
14063879 AACTTTTAAC
Statistics
Matches: 314, Mismatches: 74, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
39 27 0.09
40 32 0.10
41 254 0.81
42 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGC
Found at i:14063953 original size:40 final size:39
Alignment explanation
Indices: 14063903--14064011 Score: 175
Period size: 40 Copynumber: 2.7 Consensus size: 39
14063893 TTTTTTCTAT
14063903 AAACGCCGCTATTGCTTTA-CATTTTGCGGCGTTTATGGAA
1 AAACGCCGCTATTGCTTTATC-TTTTGCGGCGTTTAT-GAA
14063943 AAACGCCGCTATTGCTTTATCTTTTGCGGCGTTTATGAA
1 AAACGCCGCTATTGCTTTATCTTTTGCGGCGTTTATGAA
*
14063982 AAGACGCCGCTATTACTTTATCTTTTGCGG
1 AA-ACGCCGCTATTGCTTTATCTTTTGCGG
14064012 TATTTTCTGT
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
39 5 0.08
40 60 0.91
41 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (39 bp):
AAACGCCGCTATTGCTTTATCTTTTGCGGCGTTTATGAA
Found at i:14064569 original size:20 final size:19
Alignment explanation
Indices: 14064553--14064658 Score: 61
Period size: 19 Copynumber: 5.2 Consensus size: 19
14064543 AATAACATCC
*
14064553 AAACAACCAAAACAACAGCA
1 AAACAA-CAAAAAAACAGCA
**
14064573 AAACAACAAAAAAACAAAA
1 AAACAACAAAAAAACAGCA
14064592 AATAGCAACAAAAATAACAGCATCA
1 AA-A-CAACAAAAA-AACAG---CA
**
14064617 AAACAGTAAAAAAACA-CTA
1 AAACAACAAAAAAACAGC-A
* *
14064636 AAACAACAACCAAAACAGTA
1 AAACAACAA-AAAAACAGCA
14064656 AAA
1 AAA
14064659 AATAGTAACA
Statistics
Matches: 66, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
18 1 0.02
19 20 0.30
20 17 0.26
21 9 0.14
22 8 0.12
23 7 0.11
24 1 0.02
25 3 0.05
ACGTcount: A:0.69, C:0.21, G:0.05, T:0.06
Consensus pattern (19 bp):
AAACAACAAAAAAACAGCA
Found at i:14064660 original size:22 final size:22
Alignment explanation
Indices: 14064635--14064696 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
14064625 AAAAAACACT
*
14064635 AAAACAACAACCAAAACAGTAA
1 AAAAAAACAACCAAAACAGTAA
* ** *
14064657 AAAATAGTAACAAAAACAGTAA
1 AAAAAAACAACCAAAACAGTAA
14064679 AAAAAAAGC-ACCAAAACA
1 AAAAAAA-CAACCAAAACA
14064697 ACAATATAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.69, C:0.18, G:0.06, T:0.06
Consensus pattern (22 bp):
AAAAAAACAACCAAAACAGTAA
Found at i:14064671 original size:12 final size:11
Alignment explanation
Indices: 14064616--14064683 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
14064606 TAACAGCATC
14064616 AAAACAGTAAA
1 AAAACAGTAAA
*
14064627 AAAACACTAAA
1 AAAACAGTAAA
* **
14064638 ACAACA--ACC
1 AAAACAGTAAA
14064647 AAAACAGT-AA
1 AAAACAGTAAA
*
14064657 AAAATAGTAACA
1 AAAACAGTAA-A
14064669 AAAACAGTAAA
1 AAAACAGTAAA
14064680 AAAA
1 AAAA
14064684 AAGCACCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
9 6 0.14
10 7 0.16
11 21 0.48
12 10 0.23
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.09
Consensus pattern (11 bp):
AAAACAGTAAA
Found at i:14065225 original size:23 final size:23
Alignment explanation
Indices: 14065191--14065251 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
14065181 TTAATTCTTC
*
14065191 AAGCACAAATCACATTAATATTT
1 AAGCAGAAATCACATTAATATTT
* * *
14065214 AATCATAAATCATATTAATATTT
1 AAGCAGAAATCACATTAATATTT
14065237 AAGCAGAAATCACAT
1 AAGCAGAAATCACAT
14065252 ATTTTTATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (23 bp):
AAGCAGAAATCACATTAATATTT
Found at i:14065413 original size:223 final size:223
Alignment explanation
Indices: 14065025--14065474 Score: 855
Period size: 223 Copynumber: 2.0 Consensus size: 223
14065015 CATTATTATT
*
14065025 ACATATTTTTATCATATATCCATTGCATATTCACTTTATTATCACAATAAAATCAATCACATGGC
1 ACATATTTTTATCATATATCCACTGCATATTCACTTTATTATCACAATAAAATCAATCACATGGC
14065090 ATGAAAAAGATACCCACATATTTTCTGTTACAACAATTACCATAAGCTTATAGCATATGTAACAT
66 ATGAAAAAGATACCCACATATTTTCTGTTACAACAATTACCATAAGCTTATAGCATATGTAACAT
*
14065155 CTCATGTTTATTCACAATTTCACATCTTAATTCTTCAAGCACAAATCACATTAATATTTAATCAT
131 ATCATGTTTATTCACAATTTCACATCTTAATTCTTCAAGCACAAATCACATTAATATTTAATCAT
14065220 AAATCATATTAATATTTAAGCAGAAATC
196 AAATCATATTAATATTTAAGCAGAAATC
* *
14065248 ACATATTTTTATCATATATCCACTGCATATTCACTTTATTATCACAATATAATCAATCACATGGG
1 ACATATTTTTATCATATATCCACTGCATATTCACTTTATTATCACAATAAAATCAATCACATGGC
14065313 ATGAAAAAGATACCCACATATTTTCTGTTACAACAATTACCATAAGCTTATAGCATATGTAACAT
66 ATGAAAAAGATACCCACATATTTTCTGTTACAACAATTACCATAAGCTTATAGCATATGTAACAT
*
14065378 ATCATGTTTATTCACAATTTTACATCTTAATTCTTCAAGCACAAATCACATTAATATTTAATCAT
131 ATCATGTTTATTCACAATTTCACATCTTAATTCTTCAAGCACAAATCACATTAATATTTAATCAT
14065443 AAATCATATTAATATTTAAGCAGAAATC
196 AAATCATATTAATATTTAAGCAGAAATC
14065471 ACAT
1 ACAT
14065475 TAATATTTAA
Statistics
Matches: 222, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
223 222 1.00
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.36
Consensus pattern (223 bp):
ACATATTTTTATCATATATCCACTGCATATTCACTTTATTATCACAATAAAATCAATCACATGGC
ATGAAAAAGATACCCACATATTTTCTGTTACAACAATTACCATAAGCTTATAGCATATGTAACAT
ATCATGTTTATTCACAATTTCACATCTTAATTCTTCAAGCACAAATCACATTAATATTTAATCAT
AAATCATATTAATATTTAAGCAGAAATC
Found at i:14065447 original size:23 final size:23
Alignment explanation
Indices: 14065414--14066525 Score: 1531
Period size: 23 Copynumber: 48.5 Consensus size: 23
14065404 TTAATTCTTC
14065414 AAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* * *
14065437 AATCATAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14065460 AAGCAGAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
14065483 AAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14065506 AATCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14065529 AATCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
14065552 AAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
14065575 GAA-CACAAATCACATTAATATTT
1 -AAGCACAAATCACATTAATATTT
*
14065598 AAGCACAAATCACAGTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14065621 GAA-CATAAATCACATTAATATTT
1 -AAGCACAAATCACATTAATATTT
14065644 AAGCACAAATCAC-TTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
14065666 AAACACAAATAACATTAATATTT
1 AAGCACAAATCACATTAATATTT
14065689 AAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* * *
14065712 AATCAGAAATCACATTAACATTT
1 AAGCACAAATCACATTAATATTT
*
14065735 AAACACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14065758 GAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
14065781 GAA-CACAAATCACATCAATATTG
1 -AAGCACAAATCACATTAATATTT
* *
14065804 GAGCACAAATCACATTAATAATT
1 AAGCACAAATCACATTAATATTT
*
14065827 GAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14065850 AAGCACATATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14065873 GAA-CATAAATCACATTAATATTT
1 -AAGCACAAATCACATTAATATTT
* *
14065896 GAGCACAAATCAGATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14065919 AAGCACATATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14065942 GAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
**
14065965 AAGCGTAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14065988 GAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
**
14066011 AAGCGTAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14066034 GAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
14066057 AAGCATAAATCACATTATTATTT
1 AAGCACAAATCACATTAATATTT
* *
14066080 GAGCACATATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
14066103 AAGTATAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
14066126 GAGCACAAATCACATTAATATAT
1 AAGCACAAATCACATTAATATTT
*
14066149 AAGCATAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14066172 AAGCACAAATCACACTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
14066195 AAGCAAAAATCACATTAATTTTT
1 AAGCACAAATCACATTAATATTT
* *
14066218 TAGCACAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14066241 AAGCAAAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
14066264 GAGCACAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
14066287 AAGCATAAACCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* * *
14066310 GAGCACAAATCAAATTTATATTT
1 AAGCACAAATCACATTAATATTT
* *
14066333 AAGCATAAATAACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14066356 GAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14066379 AAACACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* * *
14066402 AAGTATAAATCAAATTAATATTT
1 AAGCACAAATCACATTAATATTT
14066425 GAA-CACAAATCACATTAATATTT
1 -AAGCACAAATCACATTAATATTT
*
14066448 AAGCATAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14066471 GAGCAC-AA--ACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14066491 AAGCATAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
14066514 GAGCACAAATCA
1 AAGCACAAATCA
14066526 GCATAAATCA
Statistics
Matches: 952, Mismatches: 123, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.02
21 2 0.00
22 30 0.03
23 895 0.94
24 9 0.01
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (23 bp):
AAGCACAAATCACATTAATATTT
Found at i:14065472 original size:46 final size:46
Alignment explanation
Indices: 14065414--14066664 Score: 1604
Period size: 46 Copynumber: 27.1 Consensus size: 46
14065404 TTAATTCTTC
* * *
14065414 AAGCACAAATCACATTAATATTTAATCATAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
*
14065460 AAGCAGAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* *
14065506 AATCACAAATCACATTAATATTTAATCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
14065552 AAGCACAAATCACATTAATATTTGAA-CACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT-AAGCACAAATCACATTAATATTT
* *
14065598 AAGCACAAATCACAGTAATATTTGAA-CATAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT-AAGCACAAATCACATTAATATTT
* *
14065644 AAGCACAAATCAC-TTAATATTTAAACACAAATAACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* * *
14065689 AAGCACAAATCACATTAATATTTAATCAGAAATCACATTAACATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* *
14065735 AAACACAAATCACATTAATATTTGAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* ** *
14065781 GAA-CACAAATCACATCAATATTGGAGCACAAATCACATTAATAATT
1 -AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* *
14065827 GAGCACAAATCACATTAATATTTAAGCACATATCACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* * *
14065873 GAA-CATAAATCACATTAATATTTGAGCACAAATCAGATTAATATTT
1 -AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* *
14065919 AAGCACATATCACATTAATATTTGAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
** *
14065965 AAGCGTAAATCACATTAATATTTGAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
** *
14066011 AAGCGTAAATCACATTAATATTTGAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* * * *
14066057 AAGCATAAATCACATTATTATTTGAGCACATATCACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* * * *
14066103 AAGTATAAATCACATTAATATTTGAGCACAAATCACATTAATATAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* *
14066149 AAGCATAAATCACATTAATATTTAAGCACAAATCACACTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* * * *
14066195 AAGCAAAAATCACATTAATTTTTTAGCACAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* * *
14066241 AAGCAAAAATCACATTAATATTTGAGCACAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* * * * *
14066287 AAGCATAAACCACATTAATATTTGAGCACAAATCAAATTTATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* * *
14066333 AAGCATAAATAACATTAATATTTGAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* * * *
14066379 AAACACAAATCACATTAATATTTAAGTATAAATCAAATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
*
14066425 GAA-CACAAATCACATTAATATTTAAGCATAAATCACATTAATATTT
1 -AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* *
14066471 GAGCAC-AA--ACATTAATATTTAAGCATAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* * ** * *
14066514 GAGCACAAATCAGCATAAATCACATTAATATTTGAGCGTAAATCATATGAATATTT
1 --------A--AGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
* * *
14066570 AAGCATAAATCACATTAATATTTGAA-CACAAATCATATTAATACTT
1 AAGCACAAATCACATTAATATTT-AAGCACAAATCACATTAATATTT
* * *
14066616 AAGCACAAATCTCATTAATATTTATGCGCAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
14066662 AAG
1 AAG
14066665 TATAGATATA
Statistics
Matches: 1086, Mismatches: 95, Indels: 48
0.88 0.08 0.04
Matches are distributed among these distances:
43 35 0.03
44 2 0.00
45 46 0.04
46 957 0.88
47 8 0.01
48 1 0.00
53 4 0.00
54 2 0.00
56 31 0.03
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (46 bp):
AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT
Found at i:14065491 original size:69 final size:69
Alignment explanation
Indices: 14065414--14066664 Score: 1604
Period size: 69 Copynumber: 18.0 Consensus size: 69
14065404 TTAATTCTTC
* * * *
14065414 AAGCACAAATCACATTAATATTTAATCATAAATCATATTAATATTTAAGCAGAAATCACATTAAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
14065479 ATTT
66 ATTT
* *
14065483 AAGCACAAATCACATTAATATTTAATCACAAATCACATTAATATTTAATCACAAATCACATTAAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
14065548 ATTT
66 ATTT
*
14065552 AAGCACAAATCACATTAATATTTGAA-CACAAATCACATTAATATTTAAGCACAAATCACAGTAA
1 AAGCACAAATCACATTAATATTT-AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAA
14065616 TATTT
65 TATTT
* * *
14065621 GAA-CATAAATCACATTAATATTTAAGCACAAATCAC-TTAATATTTAAACACAAATAACATTAA
1 -AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAA
14065684 TATTT
65 TATTT
* * * *
14065689 AAGCACAAATCACATTAATATTTAATCAGAAATCACATTAACATTTAAACACAAATCACATTAAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
14065754 ATTT
66 ATTT
* * **
14065758 GAGCACAAATCACATTAATATTTGAA-CACAAATCACATCAATATTGGAGCACAAATCACATTAA
1 AAGCACAAATCACATTAATATTT-AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAA
*
14065822 TAATT
65 TATTT
* * *
14065827 GAGCACAAATCACATTAATATTTAAGCACATATCACATTAATATTTGAA-CATAAATCACATTAA
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT-AAGCACAAATCACATTAA
14065891 TATTT
65 TATTT
* * * *
14065896 GAGCACAAATCAGATTAATATTTAAGCACATATCACATTAATATTTGAGCACAAATCACATTAAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
14065961 ATTT
66 ATTT
** * **
14065965 AAGCGTAAATCACATTAATATTTGAGCACAAATCACATTAATATTTAAGCGTAAATCACATTAAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
14066030 ATTT
66 ATTT
* * * * *
14066034 GAGCACAAATCACATTAATATTTAAGCATAAATCACATTATTATTTGAGCACATATCACATTAAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
14066099 ATTT
66 ATTT
* * * * *
14066103 AAGTATAAATCACATTAATATTTGAGCACAAATCACATTAATATATAAGCATAAATCACATTAAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
14066168 ATTT
66 ATTT
* * * * *
14066172 AAGCACAAATCACACTAATATTTAAGCAAAAATCACATTAATTTTTTAGCACAAATCATATTAAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
14066237 ATTT
66 ATTT
* * * * *
14066241 AAGCAAAAATCACATTAATATTTGAGCACAAATCATATTAATATTTAAGCATAAACCACATTAAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
14066306 ATTT
66 ATTT
* * * * * *
14066310 GAGCACAAATCAAATTTATATTTAAGCATAAATAACATTAATATTTGAGCACAAATCACATTAAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
14066375 ATTT
66 ATTT
* * * *
14066379 AAACACAAATCACATTAATATTTAAGTATAAATCAAATTAATATTTGAA-CACAAATCACATTAA
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTT-AAGCACAAATCACATTAA
14066443 TATTT
65 TATTT
* * *
14066448 AAGCATAAATCACATTAATATTTGAGCAC-AA--ACATTAATATTTAAGCATAAATCACATTAAT
1 AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
14066510 ATTT
66 ATTT
* * ** * * *
14066514 GAGCACAAATCAGCATAAATCACATTAATATTTGAGCGTAAATCATATGAATATTTAAGCATAAA
1 --------A--AGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAA
14066579 TCACATTAATATTT
56 TCACATTAATATTT
* * * * *
14066593 GAA-CACAAATCATATTAATACTTAAGCACAAATCTCATTAATATTTATGCGCAAATCACATTAA
1 -AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAA
14066657 TATTT
65 TATTT
14066662 AAG
1 AAG
14066665 TATAGATATA
Statistics
Matches: 1033, Mismatches: 124, Indels: 50
0.86 0.10 0.04
Matches are distributed among these distances:
65 2 0.00
66 30 0.03
67 2 0.00
68 68 0.07
69 859 0.83
70 9 0.01
72 1 0.00
74 1 0.00
76 26 0.03
77 2 0.00
79 33 0.03
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (69 bp):
AAGCACAAATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACATTAAT
ATTT
Found at i:14066566 original size:23 final size:23
Alignment explanation
Indices: 14066525--14066661 Score: 141
Period size: 23 Copynumber: 6.0 Consensus size: 23
14066515 AGCACAAATC
14066525 AGCATAAATCACATTAATATTTG
1 AGCATAAATCACATTAATATTTG
* * * *
14066548 AGCGTAAATCATATGAATATTTA
1 AGCATAAATCACATTAATATTTG
14066571 AGCATAAATCACATTAATATTTG
1 AGCATAAATCACATTAATATTTG
* * * * *
14066594 AACACAAATCATATTAATACTTA
1 AGCATAAATCACATTAATATTTG
* *
14066617 AGCACAAATCTCATTAATATTT-
1 AGCATAAATCACATTAATATTTG
**
14066639 ATGCGCAAATCACATTAATATTT
1 A-GCATAAATCACATTAATATTT
14066662 AAGTATAGAT
Statistics
Matches: 94, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
22 1 0.01
23 93 0.99
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (23 bp):
AGCATAAATCACATTAATATTTG
Found at i:14066572 original size:122 final size:124
Alignment explanation
Indices: 14066406--14066638 Score: 353
Period size: 122 Copynumber: 1.9 Consensus size: 124
14066396 ATATTTAAGT
*
14066406 ATAAATCAAATTAATATTTGAACACAAATCACATTAATATTTAAGCATAAATCACATTAATATTT
1 ATAAATCAAATTAATATTTGAACACAAATCACATGAATATTTAAGCATAAATCACATTAATATTT
* * *
14066471 GAGCACAAA-C-ATTAATATTTAAGCATAAATCACATTAATATTTGAGCACAAATCAGC
66 GAACACAAATCAATTAATACTTAAGCACAAATCACATTAATATTTGAGCACAAATCAGC
* * ** *
14066528 ATAAATCACATTAATATTTGAGCGTAAATCATATGAATATTTAAGCATAAATCACATTAATATTT
1 ATAAATCAAATTAATATTTGAACACAAATCACATGAATATTTAAGCATAAATCACATTAATATTT
*
14066593 GAACACAAATCATATTAATACTTAAGCACAAATCTCATTAATATTT
66 GAACACAAATCA-ATTAATACTTAAGCACAAATCACATTAATATTT
14066639 ATGCGCAAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
122 67 0.68
123 1 0.01
125 30 0.31
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (124 bp):
ATAAATCAAATTAATATTTGAACACAAATCACATGAATATTTAAGCATAAATCACATTAATATTT
GAACACAAATCAATTAATACTTAAGCACAAATCACATTAATATTTGAGCACAAATCAGC
Found at i:14066588 original size:79 final size:76
Alignment explanation
Indices: 14066449--14066604 Score: 258
Period size: 79 Copynumber: 2.0 Consensus size: 76
14066439 TTAATATTTA
14066449 AGCATAAATCACATTAATATTTGAGCACAAACATTAATATTTAAGCATAAATCACATTAATATTT
1 AGCATAAATCACATTAATATTTGAGCACAAACATTAATATTTAAGCATAAATCACATTAATATTT
*
14066514 GAGCACAAATC
66 GAACACAAATC
**
14066525 AGCATAAATCACATTAATATTTGAGCGTAAATCATATGAATATTTAAGCATAAATCACATTAATA
1 AGCATAAATCACATTAATATTTGAGCACAAA-CAT-T-AATATTTAAGCATAAATCACATTAATA
14066590 TTTGAACACAAATC
63 TTTGAACACAAATC
14066604 A
1 A
14066605 TATTAATACT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
76 29 0.39
77 3 0.04
78 1 0.01
79 41 0.55
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (76 bp):
AGCATAAATCACATTAATATTTGAGCACAAACATTAATATTTAAGCATAAATCACATTAATATTT
GAACACAAATC
Found at i:14082035 original size:24 final size:24
Alignment explanation
Indices: 14082002--14082069 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
14081992 ATTTGAGAAA
14082002 TAATT-TTTCAGTTAAACTCTGTT
1 TAATTGTTTCAGTTAAACTCTGTT
*
14082025 TAATTGTTTCAATTAAACTCTGTT
1 TAATTGTTTCAGTTAAACTCTGTT
* * *
14082049 TATTTGTTTGAGTCAAACTCT
1 TAATTGTTTCAGTTAAACTCT
14082070 TATTAGTCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 5 0.13
24 34 0.87
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.50
Consensus pattern (24 bp):
TAATTGTTTCAGTTAAACTCTGTT
Found at i:14084083 original size:24 final size:24
Alignment explanation
Indices: 14083997--14084071 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
14083987 AGAAATAATC
* *
14083997 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
* *
14084021 TTTCAATTAAACTATATTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
14084045 TTTTAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
14084069 TTT
1 TTT
14084072 GAGTCAAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.27, C:0.09, G:0.08, T:0.56
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:14087040 original size:15 final size:15
Alignment explanation
Indices: 14087017--14087051 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14087007 AGATTAAAAT
* *
14087017 TTAATATTATAATGG
1 TTAAAATTATAATGA
14087032 TTAAAATTATAATGA
1 TTAAAATTATAATGA
14087047 TTAAA
1 TTAAA
14087052 TTTGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TTAAAATTATAATGA
Found at i:14087992 original size:24 final size:24
Alignment explanation
Indices: 14087960--14088009 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
14087950 ATACTAAAAA
14087960 CTCCAGAGAGCTATAATTTTCACC
1 CTCCAGAGAGCTATAATTTTCACC
14087984 CTCCAGAGAGCTATAATTTTCACC
1 CTCCAGAGAGCTATAATTTTCACC
14088008 CT
1 CT
14088010 ACAACTTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (24 bp):
CTCCAGAGAGCTATAATTTTCACC
Found at i:14088783 original size:34 final size:34
Alignment explanation
Indices: 14088740--14088809 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
14088730 TACTCACGAT
14088740 GACACTTAGTCATCGGACCTCACAATCCGTAAAG
1 GACACTTAGTCATCGGACCTCACAATCCGTAAAG
* * *
14088774 GACACTTAGTCATTGGACCTCATAATCTGTAAAG
1 GACACTTAGTCATCGGACCTCACAATCCGTAAAG
14088808 GA
1 GA
14088810 TTCATATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (34 bp):
GACACTTAGTCATCGGACCTCACAATCCGTAAAG
Found at i:14088858 original size:52 final size:52
Alignment explanation
Indices: 14088774--14088948 Score: 269
Period size: 52 Copynumber: 3.4 Consensus size: 52
14088764 ATCCGTAAAG
* *
14088774 GACACTTAGTCATTGGACCTCATAATCTGTAAAGGATTCATATACTCACGAT
1 GACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGAT
* * *
14088826 TACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCATTTACTAACGAT
1 GACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGAT
* *
14088878 GACACTTAGTCATCGGACCTTATAATCCGTAAAGGATTTATATACTCACGAT
1 GACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGAT
* *
14088930 GACACTTAATCATCAGACC
1 GACACTTAGTCATCGGACC
14088949 CTTTTCATTT
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 111 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (52 bp):
GACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGAT
Found at i:14089286 original size:24 final size:20
Alignment explanation
Indices: 14089234--14089275 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
14089224 GCTTTTATAA
14089234 TTAACC-TAATTAATCCACT
1 TTAACCTTAATTAATCCACT
14089253 TTAACCTTAATTAATCTCACT
1 TTAACCTTAATTAATC-CACT
14089274 TT
1 TT
14089276 TAAGCACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 9 0.43
21 6 0.29
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAACCTTAATTAATCCACT
Found at i:14090495 original size:15 final size:15
Alignment explanation
Indices: 14090475--14090506 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
14090465 TTAGATACAT
14090475 ACAAAATCCACTATA
1 ACAAAATCCACTATA
14090490 ACAAAATCCACTATA
1 ACAAAATCCACTATA
14090505 AC
1 AC
14090507 TATCTCAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (15 bp):
ACAAAATCCACTATA
Found at i:14095533 original size:26 final size:26
Alignment explanation
Indices: 14095504--14095585 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
14095494 AATTCATGTA
14095504 CTCACGATGACACTTAGTCATCGGAC
1 CTCACGATGACACTTAGTCATCGGAC
* *** * *
14095530 CTCACAATCCGTA-AAGGATTCAT-GTA-
1 CTCACGAT--G-ACACTTAGTCATCGGAC
14095556 CTCACGATGACACTTAGTCATCGGAC
1 CTCACGATGACACTTAGTCATCGGAC
14095582 CTCA
1 CTCA
14095586 TAATCCGTAA
Statistics
Matches: 38, Mismatches: 12, Indels: 12
0.61 0.19 0.19
Matches are distributed among these distances:
23 1 0.03
24 7 0.18
25 2 0.05
26 18 0.47
27 2 0.05
28 7 0.18
29 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (26 bp):
CTCACGATGACACTTAGTCATCGGAC
Found at i:14095568 original size:52 final size:52
Alignment explanation
Indices: 14095450--14095738 Score: 382
Period size: 52 Copynumber: 5.5 Consensus size: 52
14095440 TTCATTTAAA
* * ** ** *
14095450 ACTCACGATGACA-TATAGTCATCTGACCTCCTTTTTTGTAAAGGAATTCATGT
1 ACTCACGATGACACT-TAGTCATCGGACCTCATAATCCGTAAAGG-ATTCATAT
* *
14095503 ACTCACGATGACACTTAGTCATCGGACCTCACAATCCGTAAAGGATTCATGT
1 ACTCACGATGACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCATAT
14095555 ACTCACGATGACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCATAT
1 ACTCACGATGACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCATAT
* *
14095607 ACTCACGATGACACTTAGTCATCGGACCTCATAATCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCATAT
* * * * *
14095659 ACTAACGATGACAGTTAGTCATCGGACCTTATAATCCATAAAGGATTTATAT
1 ACTCACGATGACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCATAT
* * *
14095711 ACTCACGATAACACTTAATCATCAGACC
1 ACTCACGATGACACTTAGTCATCGGACC
14095739 CTTTTCATTT
Statistics
Matches: 214, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
52 178 0.83
53 35 0.16
54 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (52 bp):
ACTCACGATGACACTTAGTCATCGGACCTCATAATCCGTAAAGGATTCATAT
Found at i:14096076 original size:24 final size:20
Alignment explanation
Indices: 14096024--14096065 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
14096014 ACTTTTATAA
14096024 TTAACC-TAATTAATCCACT
1 TTAACCTTAATTAATCCACT
14096043 TTAACCTTAATTAATCTCACT
1 TTAACCTTAATTAATC-CACT
14096064 TT
1 TT
14096066 TAAGCACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 9 0.43
21 6 0.29
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAACCTTAATTAATCCACT
Found at i:14098994 original size:26 final size:26
Alignment explanation
Indices: 14098944--14099091 Score: 176
Period size: 26 Copynumber: 5.8 Consensus size: 26
14098934 CTGTTACGCC
* *
14098944 TTGAGTCGATGACT-AATAGCAGGCT
1 TTGAGCCGATGATTAAATAGCAGGCT
14098969 TTGAGCCGATGATTAAATAGCAGGCT
1 TTGAGCCGATGATTAAATAGCAGGCT
14098995 TTGAGCCGATGATTAAATAGCAGGCT
1 TTGAGCCGATGATTAAATAGCAGGCT
* *
14099021 TTGAGTCGATGATTAAATAGCAGGCC
1 TTGAGCCGATGATTAAATAGCAGGCT
** * * *
14099047 TTGAGTAGTTGAATT--TTAGGAGGCT
1 TTGAGCCGATG-ATTAAATAGCAGGCT
*
14099072 TCGAGCCGATGATTAAATAG
1 TTGAGCCGATGATTAAATAG
14099092 TAAGTACTGT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
24 3 0.03
25 26 0.25
26 73 0.70
27 3 0.03
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (26 bp):
TTGAGCCGATGATTAAATAGCAGGCT
Found at i:14099021 original size:52 final size:51
Alignment explanation
Indices: 14098941--14099091 Score: 196
Period size: 52 Copynumber: 2.9 Consensus size: 51
14098931 GAGCTGTTAC
*
14098941 GCCTTGAGTCGATGACTAATAGCAGGCTTTGAGCCGATGATTAAATAGCAG
1 GCCTTGAGTCGATGATTAATAGCAGGCTTTGAGCCGATGATTAAATAGCAG
* * *
14098992 GCTTTGAGCCGATGATTAAATAGCAGGCTTTGAGTCGATGATTAAATAGCAG
1 GCCTTGAGTCGATGATT-AATAGCAGGCTTTGAGCCGATGATTAAATAGCAG
* * * * *
14099044 GCCTTGAGTAGTTGAATT-TTAGGAGGCTTCGAGCCGATGATTAAATAG
1 GCCTTGAGTCGATG-ATTAATAGCAGGCTTTGAGCCGATGATTAAATAG
14099092 TAAGTACTGT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 40 0.47
52 43 0.50
53 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (51 bp):
GCCTTGAGTCGATGATTAATAGCAGGCTTTGAGCCGATGATTAAATAGCAG
Found at i:14099694 original size:3 final size:3
Alignment explanation
Indices: 14099686--14099711 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14099676 ATATAGTTAT
14099686 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
14099712 TACTACACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14102541 original size:20 final size:20
Alignment explanation
Indices: 14102512--14102551 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14102502 GTGTGCCCTT
*
14102512 GTTTCATTAAATTTTCTAAC
1 GTTTCATTAAACTTTCTAAC
* *
14102532 GTTTCCTTAACCTTTCTAAC
1 GTTTCATTAAACTTTCTAAC
14102552 TTGTTTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.47
Consensus pattern (20 bp):
GTTTCATTAAACTTTCTAAC
Found at i:14103855 original size:26 final size:26
Alignment explanation
Indices: 14103833--14103883 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
14103823 ATGAGCCCAG
14103833 ACAGAGT-TTAGCTCTTACAAGCCAAA
1 ACAGAGTATT-GCTCTTACAAGCCAAA
* *
14103859 ACAGTGTATTGCTCTTACGAGCCAA
1 ACAGAGTATTGCTCTTACAAGCCAA
14103884 TCATAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (26 bp):
ACAGAGTATTGCTCTTACAAGCCAAA
Found at i:14103916 original size:25 final size:25
Alignment explanation
Indices: 14103869--14104185 Score: 303
Period size: 25 Copynumber: 12.7 Consensus size: 25
14103859 ACAGTGTATT
* *
14103869 GCTCTTACGAGCCA-ATCATAATATT
1 GCTCTTACGAGCCAGA-CAGAATATC
* *
14103894 GGTCTTACGAGCCAGACGGAATATC
1 GCTCTTACGAGCCAGACAGAATATC
* * * *
14103919 ACTCTTATGAGCCAGATAGAAAATC
1 GCTCTTACGAGCCAGACAGAATATC
*
14103944 GCTCTTACGAGCTAGACAGAATATC
1 GCTCTTACGAGCCAGACAGAATATC
* * *
14103969 GCTCTTACAAGCTAGACAGGATATC
1 GCTCTTACGAGCCAGACAGAATATC
* *
14103994 GCTCTTACGAGCTAGGCAGAATATC
1 GCTCTTACGAGCCAGACAGAATATC
* * * * *
14104019 GTTCTTTCAAGCCAGATAGAATTTC
1 GCTCTTACGAGCCAGACAGAATATC
* *
14104044 GCTCTTACGAGCCAGCCAGAATATT
1 GCTCTTACGAGCCAGACAGAATATC
* * * * * *
14104069 GCTCCTATGAGCTAGATATAATATT
1 GCTCTTACGAGCCAGACAGAATATC
* * *
14104094 ACTCTTTCGAGCCAAACAGAATATC
1 GCTCTTACGAGCCAGACAGAATATC
*
14104119 TCTCTTACGAGCCAGACAGAATATC
1 GCTCTTACGAGCCAGACAGAATATC
* *
14104144 GCTCTTACGAGCCAAACAAAATATC
1 GCTCTTACGAGCCAGACAGAATATC
* *
14104169 GCTCTTTCGAGCTAGAC
1 GCTCTTACGAGCCAGAC
14104186 TTCAAAGCAT
Statistics
Matches: 233, Mismatches: 58, Indels: 2
0.80 0.20 0.01
Matches are distributed among these distances:
25 232 1.00
26 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (25 bp):
GCTCTTACGAGCCAGACAGAATATC
Found at i:14107477 original size:89 final size:91
Alignment explanation
Indices: 14107325--14107577 Score: 350
Period size: 89 Copynumber: 2.7 Consensus size: 91
14107315 GACTGGTAGG
* *
14107325 GGCCCCAGCCCCCCTAAAATGGTTATTTTGCCATTTTGATCTTTTAAATTTTTAAAAATTTTAAT
1 GGCCCCAGCCCCCCTAAAATGGTTATTTTACCATTTTGACCTTTTAAATTTTTAAAAATTTTAAT
14107390 CATATCATCAAA-AGCGTA-TTAAGGA
66 CATATCATCAAAGA-CGTATTTAAGGA
*
14107415 -GCCCCAACCCCCCTAAAATGGTTATTTTACCATTTTGACCTTTTAAATTTTTAAAAATTTTAAT
1 GGCCCCAGCCCCCCTAAAATGGTTATTTTACCATTTTGACCTTTTAAATTTTTAAAAATTTTAAT
*
14107479 CATATCATCAGAGACGTATTTAAGGA
66 CATATCATCAAAGACGTATTTAAGGA
*
14107505 GGCTGGCAGAGGCCCAGCCCCCCTAAAATGGTTATTTTACCATTTTGACCCTTTAAATTTTTAAA
1 ----GGC-----CCCAGCCCCCCTAAAATGGTTATTTTACCATTTTGACCTTTTAAATTTTTAAA
14107570 AATTTTAA
57 AATTTTAA
14107578 ATTAGTAAAG
Statistics
Matches: 145, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
89 76 0.52
90 8 0.06
95 2 0.01
100 59 0.41
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (91 bp):
GGCCCCAGCCCCCCTAAAATGGTTATTTTACCATTTTGACCTTTTAAATTTTTAAAAATTTTAAT
CATATCATCAAAGACGTATTTAAGGA
Found at i:14109970 original size:58 final size:58
Alignment explanation
Indices: 14109907--14110094 Score: 236
Period size: 59 Copynumber: 3.2 Consensus size: 58
14109897 ATCGGAGGTG
* * *
14109907 AAAATGGGACTTTTGGATACCCGAGGGTAAAATGGTAA-TTTTGGTGAAATTGGGGTTA
1 AAAAT-GGAATTTTGGAAACTCGAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTA
* *
14109965 AAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTA
1 AAAATGGAATTTTGGAAA-CTCGAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTA
* ** * *
14110024 AAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTT-
1 AAAATGGAATTTTGGAAACTCGA-GGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTA
14110082 AAAATGGTAATTT
1 AAAATGG-AATTT
14110095 CTGGTGAAAC
Statistics
Matches: 115, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
57 11 0.10
58 31 0.27
59 73 0.63
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.34
Consensus pattern (58 bp):
AAAATGGAATTTTGGAAACTCGAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTA
Found at i:14109976 original size:29 final size:28
Alignment explanation
Indices: 14109934--14110238 Score: 198
Period size: 30 Copynumber: 10.4 Consensus size: 28
14109924 TACCCGAGGG
14109934 TAAAATGGTAATTTTGGTGAAATTGGGGT
1 TAAAATGG-AATTTTGGTGAAATTGGGGT
14109963 TAAAAATGGAATTTT-G-GAAAGTTCGAGGG-
1 T-AAAATGGAATTTTGGTGAAA-TT-G-GGGT
*
14109992 TAAAATGGTAATTTTTGGTGAAATTAGGGT
1 TAAAATGG-AA-TTTTGGTGAAATTGGGGT
14110022 TAAAAATGGAATTTT-G-GAAAGTTTAGGGG-
1 T-AAAATGGAATTTTGGTGAAA--TT-GGGGT
* *
14110051 TAAAATGGTAATTTTTGATGAAATCGGGGT
1 TAAAATGG-AA-TTTTGGTGAAATTGGGGT
**
14110081 TAAAATGGTAATTTCTGGTGAAACCGGGGT
1 TAAAATGG-AATTT-TGGTGAAATTGGGGT
* *
14110111 TAAAAATGGAATTTTGG-CAAGTTCGAGGG-
1 T-AAAATGGAATTTTGGTGAAATT-G-GGGT
* *
14110140 TAAAATAGTAATTTTGGTGAAATCGGGGT
1 TAAAAT-GGAATTTTGGTGAAATTGGGGT
* * *
14110169 TAAAAATTGAATTTTGG-GAAGTTCGGGGG
1 T-AAAATGGAATTTTGGTGAAATT-GGGGT
* *
14110198 T-AAATGGTCATTTTAGGTGAAATCGGGGT
1 TAAAATGG-AATTTT-GGTGAAATTGGGGT
14110227 TAAAAATGGAAT
1 T-AAAATGGAAT
14110239 CTTAGAAAGT
Statistics
Matches: 219, Mismatches: 25, Indels: 63
0.71 0.08 0.21
Matches are distributed among these distances:
27 13 0.06
28 37 0.17
29 66 0.30
30 72 0.33
31 23 0.11
32 8 0.04
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.33
Consensus pattern (28 bp):
TAAAATGGAATTTTGGTGAAATTGGGGT
Found at i:14110029 original size:59 final size:59
Alignment explanation
Indices: 14109928--14110094 Score: 259
Period size: 59 Copynumber: 2.8 Consensus size: 59
14109918 TTTGGATACC
14109928 CGAGGGTAAAATGGTAA-TTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTT
*
14109986 CGAGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTT
* * *
14110045 -TAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTT-AAAATGGTAATTT
1 CGA-GGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGG-AATTT
14110095 CTGGTGAAAC
Statistics
Matches: 101, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
58 25 0.25
59 76 0.75
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (59 bp):
CGAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTT
Found at i:14110172 original size:58 final size:58
Alignment explanation
Indices: 14110074--14110270 Score: 270
Period size: 58 Copynumber: 3.4 Consensus size: 58
14110064 TTTGATGAAA
* * *
14110074 TCGGGGTTAAAATGGTAATTTCTGGTGAAACCGGGGTTAAAAATGGAATTTTGGCAAGT
1 TCGGGGGTAAAATGGTAATTT-TGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * * *
14110133 TCGAGGGTAAAATAGTAATTTTGGTGAAATCGGGGTTAAAAATTGAATTTTGGGAAGT
1 TCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * *
14110191 TCGGGGGT-AAATGGTCATTTTAGGTGAAATCGGGGTTAAAAATGGAATCTTAGAAAGT
1 TCGGGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
*
14110249 TTGGGGGTAAAATGGTAATTTT
1 TCGGGGGTAAAATGGTAATTTT
14110271 TGGAAGTTTC
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
57 11 0.09
58 80 0.66
59 30 0.25
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (58 bp):
TCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
Found at i:14110175 original size:89 final size:89
Alignment explanation
Indices: 14109992--14110173 Score: 269
Period size: 89 Copynumber: 2.1 Consensus size: 89
14109982 AGTTCGAGGG
* ** *
14109992 TAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAAT
1 TAAAATGGTAATTTCTGGTGAAACCAGGGTTAAAAATGGAATTTTGGAAAGTTGAGGGGTAAAAT
*
14110057 GGTAATTTTTGATGAAATCGGGGT
66 AGTAATTTTTGATGAAATCGGGGT
* *
14110081 TAAAATGGTAATTTCTGGTGAAACCGGGGTTAAAAATGGAATTTTGGCAAGTTCGA-GGGTAAAA
1 TAAAATGGTAATTTCTGGTGAAACCAGGGTTAAAAATGGAATTTTGGAAAGTT-GAGGGGTAAAA
*
14110145 TAGTAA-TTTTGGTGAAATCGGGGT
65 TAGTAATTTTTGATGAAATCGGGGT
14110169 TAAAA
1 TAAAA
14110174 ATTGAATTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
88 22 0.26
89 61 0.73
90 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (89 bp):
TAAAATGGTAATTTCTGGTGAAACCAGGGTTAAAAATGGAATTTTGGAAAGTTGAGGGGTAAAAT
AGTAATTTTTGATGAAATCGGGGT
Found at i:14110277 original size:29 final size:29
Alignment explanation
Indices: 14109931--14110332 Score: 153
Period size: 29 Copynumber: 13.8 Consensus size: 29
14109921 GGATACCCGA
*
14109931 GGGT-AAAATGGTAATTTTGGTGAAATT-GG
1 GGGTAAAAATGGTAATTTT--TGGAATTCGG
* *
14109960 GGTTAAAAATGG-AA-TTTTGGAAAGTTCGA
1 GGGTAAAAATGGTAATTTTTGG-AA-TTCGG
*
14109989 GGGT-AAAATGGTAATTTTTGGTGAAATT-AG
1 GGGTAAAAATGGTAATTTTT-G-G-AATTCGG
* **
14110019 GGTTAAAAATGG-AA-TTTTGGAAAGTTTAG
1 GGGTAAAAATGGTAATTTTTGG-AA-TTCGG
*
14110048 GGGT-AAAATGGTAATTTTTGATGAAATC-G
1 GGGTAAAAATGGTAATTTTTG--GAATTCGG
* * **
14110077 GGGTTAAAATGGTAATTTCTGGTGAAACCGG
1 GGGTAAAAATGGTAATTT-TTG-GAATTCGG
* *
14110108 GGTTAAAAATGG-AA-TTTTGGCAAGTTCGA
1 GGGTAAAAATGGTAATTTTTGG-AA-TTCGG
* * *
14110137 GGGT-AAAATAGTAATTTTGGTGAAATCGG
1 GGGTAAAAATGGTAATTTTTG-GAATTCGG
* * *
14110166 GGTTAAAAATTG-AATTTTGGGAAGTTCGG
1 GGGTAAAAATGGTAATTTTTGGAA-TTCGG
* * *
14110195 GGGT--AAATGGTCATTTTAGGTGAAATCGG
1 GGGTAAAAATGGTAATTTT-TG-GAATTCGG
* * * * *
14110224 GGTTAAAAATGG-AATCTTAGAAAGTTTGG
1 GGGTAAAAATGGTAATTTTTGGAA-TTCGG
14110253 GGGT-AAAATGGTAATTTTTGGAAGTTTC-G
1 GGGTAAAAATGGTAATTTTTGGAA--TTCGG
* * **
14110282 GGGTCAAAAT-GTAATTTCTTGAAATTTTG
1 GGGTAAAAATGGTAATTT-TTGGAATTCGG
*
14110311 GGGTCAAAAT-GTAATTTTTGGA
1 GGGTAAAAATGGTAATTTTTGGA
14110333 CTGTTTTGGG
Statistics
Matches: 291, Mismatches: 46, Indels: 73
0.71 0.11 0.18
Matches are distributed among these distances:
26 2 0.01
27 12 0.04
28 55 0.19
29 111 0.38
30 74 0.25
31 32 0.11
32 5 0.02
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (29 bp):
GGGTAAAAATGGTAATTTTTGGAATTCGG
Found at i:14110342 original size:30 final size:29
Alignment explanation
Indices: 14110245--14110342 Score: 119
Period size: 29 Copynumber: 3.3 Consensus size: 29
14110235 GAATCTTAGA
*
14110245 AAGTTTGGGGGT-AAAATGGTAATTTTTGG
1 AAGTTTTGGGGTCAAAAT-GTAATTTTTGG
*
14110274 AAGTTTCGGGGTCAAAATGTAATTTCTT-G
1 AAGTTTTGGGGTCAAAATGTAATTT-TTGG
*
14110303 AAATTTTGGGGTCAAAATGTAATTTTTGG
1 AAGTTTTGGGGTCAAAATGTAATTTTTGG
*
14110332 ACTGTTTTGGG
1 A-AGTTTTGGG
14110343 ACCTATAAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.03
29 44 0.73
30 14 0.23
ACGTcount: A:0.27, C:0.05, G:0.29, T:0.40
Consensus pattern (29 bp):
AAGTTTTGGGGTCAAAATGTAATTTTTGG
Found at i:14112088 original size:17 final size:17
Alignment explanation
Indices: 14112068--14112136 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 17
14112058 TGTTTAAACC
*
14112068 TAAATTTAAAGTAAATT
1 TAAATTTAAAATAAATT
*
14112085 TAAA--T-AAGTAAATT
1 TAAATTTAAAATAAATT
*
14112099 TAAATTTAAAATAAATC
1 TAAATTTAAAATAAATT
*
14112116 TAAATCTAAAATAAATT
1 TAAATTTAAAATAAATT
14112133 TAAA
1 TAAA
14112137 ATCCATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
14 13 0.29
15 1 0.02
16 1 0.02
17 30 0.67
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:14112095 original size:14 final size:14
Alignment explanation
Indices: 14112076--14112103 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14112066 CCTAAATTTA
14112076 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
14112090 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
14112104 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAGTAAATTTAAAT
Found at i:14112517 original size:76 final size:76
Alignment explanation
Indices: 14112421--14113162 Score: 1192
Period size: 76 Copynumber: 9.8 Consensus size: 76
14112411 TGCTCTTCAG
* * *
14112421 AGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGAT-GAGAAACGATCTTGCTCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG-GAAATGATCTTGCTCT
14112485 TACTTCAATTTC
65 TACTTCAATTTC
* * *
14112497 AGAGACAAAGACTTGTTATCCAACTCTACTTCAATTTCATGAGGATAGGAAATGA-CGTTGCTTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATC-TTGCTCT
14112561 TACTTCAATTTC
65 TACTTCAATTTC
* * * *
14112573 AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATCTCAAGAGGATAGGAAAAGATCTTGGTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
14112637 ACTTCAATTTC
66 ACTTCAATTTC
* * *
14112648 AGAGATAAAGACGTGTTATCC-ATTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
14112712 ACTTCAATTTC
66 ACTTCAATTTC
* * *
14112723 AGAGATAAATACTTGTTATCCAACTCTACTTCAATTTCAAGAAGATAGGAAATGATCTTGTTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
14112788 ACTTCAATTTC
66 ACTTCAATTTC
* *
14112799 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGACCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
14112864 ACTTCAATTTC
66 ACTTCAATTTC
*
14112875 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
14112940 ACTTCAATTTC
66 ACTTCAATTTC
*
14112951 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGA-CGTTGCTCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATC-TTGCTCT
14113015 TACTTCAATTTC
65 TACTTCAATTTC
* * *
14113027 AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGGTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
*
14113091 A-TTCAATTTT
66 ACTTCAATTTC
14113101 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
14113163 GCGGTTTGAT
Statistics
Matches: 623, Mismatches: 36, Indels: 15
0.92 0.05 0.02
Matches are distributed among these distances:
74 28 0.04
75 218 0.35
76 376 0.60
77 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (76 bp):
AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
ACTTCAATTTC
Found at i:14125340 original size:59 final size:59
Alignment explanation
Indices: 14125251--14125618 Score: 462
Period size: 59 Copynumber: 6.3 Consensus size: 59
14125241 ACCCGGGGGC
* *
14125251 AAAATGGTAA-TTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
* * * *
14125309 AAAATGGTAATTTTTGGTAAAACCGAGGTTAAAAATAGAATTTTGGTAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
* *
14125368 AAAATAGTAA-TTTTGGTGAAATC-AGGTTTAAAAATTGAATTTTGGGAAA-TTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGG-TTAAAAATGGAATTTT-GGAAAGTTCGAGGGT
* * * * * *
14125426 AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGAAATTTTTGCACGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
* *
14125485 GAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGG-AAGTTC-AGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTT-GGAAAGTTCGA-GGGT
* * * * *
14125543 AAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAATGGAATCTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
14125602 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
14125619 AAGTTTCGAG
Statistics
Matches: 267, Mismatches: 32, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
57 3 0.01
58 106 0.40
59 155 0.58
60 3 0.01
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.33
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
Found at i:14125457 original size:117 final size:114
Alignment explanation
Indices: 14125244--14125615 Score: 476
Period size: 117 Copynumber: 3.2 Consensus size: 114
14125234 TTTGGATACC
* * *
14125244 CGGGGGCAAAATGGTAATTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATC-AGGTTAAAAATGGAATTTTGGAAA-TTCGAGGGT
* *
14125309 AAAATGGTAATTTTTGGTAAAACCGAGGTTAAAAATAGAATTTTGGTAAGTT
64 AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAAT-GAATTTTGGAAAGTT
* * *
14125361 CGAGGGTAAAATAGTAATTTTGGTGAAATCAGGTTTAAAAATTGAATTTTGGGAAATTCGAGGGT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCAGG-TTAAAAATGGAATTTT-GGAAATTCGAGGGT
* * *
14125426 AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGAAATTTTTGCACGTT
64 AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATG-AATTTTGGAAAGTT
* * *
14125478 CGGGGGTGAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGGAAGTTC-AGGGG
1 CGGGGGTAAAATGGTAATTTTGGTGAAATC-AGGTTAAAAATGGAATTTT-GGAAATTCGA-GGG
* * * *
14125542 TAAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAATGGAATCTTGGAAAGTT
63 TAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAAT-GAATTTTGGAAAGTT
*
14125595 TGGGGGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
14125616 TGGAAGTTTC
Statistics
Matches: 223, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
116 5 0.02
117 210 0.94
118 8 0.04
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (114 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAATCAGGTTAAAAATGGAATTTTGGAAATTCGAGGGTAA
AATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGAATTTTGGAAAGTT
Found at i:14125624 original size:29 final size:29
Alignment explanation
Indices: 14125281--14125623 Score: 143
Period size: 29 Copynumber: 11.8 Consensus size: 29
14125271 ATCGAGGTTA
* *
14125281 AAAATGG-AA-TTTTGGAAAGTTTGAGGGT
1 AAAATGGTAATTTTTGG-AAGTTCGGGGGT
*** * *
14125309 AAAATGGTAATTTTTGGTAAAACCGAGGTT
1 AAAATGGTAATTTTTGG-AAGTTCGGGGGT
* *
14125339 AAAAATAG-AA-TTTTGGTAAGTTCGAGGGT
1 -AAAATGGTAATTTTTGG-AAGTTCGGGGGT
* * * * **
14125368 AAAATAGTAATTTTGGTGAA-ATCAGGTTT
1 AAAATGGTAATTTTTG-GAAGTTCGGGGGT
* * * *
14125397 AAAAATTG-AATTTTGGGAAATTCGAGGGT
1 -AAAATGGTAATTTTTGGAAGTTCGGGGGT
** * *
14125426 AAAATGGTAATTTTTGGTAAAATCGAGGTT
1 AAAATGGTAATTTTTGG-AAGTTCGGGGGT
* * *
14125456 AAAAAT-GAAATTTTTGCACGTTCGGGGGT
1 -AAAATGGTAATTTTTGGAAGTTCGGGGGT
* * * *
14125485 GAAATGGTAATTTTGGTGAA-ATCGGGGTT
1 AAAATGGTAATTTTTG-GAAGTTCGGGGGT
* *
14125514 AAAAATGG-AATTTTAGGAAGTTCAGGGGT
1 -AAAATGGTAATTTTTGGAAGTTCGGGGGT
* * *
14125543 AAAATGGTAATTTTAGGTGAA-ATCGGGGTT
1 AAAATGGTAATTTT-TG-GAAGTTCGGGGGT
* *
14125573 AAAAATGG-AA-TCTTGGAAAGTTTGGGGGT
1 -AAAATGGTAATTTTTGG-AAGTTCGGGGGT
14125602 AAAATGGTAATTTTTGGAAGTT
1 AAAATGGTAATTTTTGGAAGTT
14125624 TCGAGGTCAG
Statistics
Matches: 236, Mismatches: 56, Indels: 45
0.70 0.17 0.13
Matches are distributed among these distances:
27 1 0.00
28 47 0.20
29 99 0.42
30 67 0.28
31 22 0.09
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAGTTCGGGGGT
Found at i:14127427 original size:17 final size:17
Alignment explanation
Indices: 14127407--14127444 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
14127397 TGCTTAAACC
*
14127407 TAAATTTAAAGTAAATT
1 TAAATTTAAAATAAATT
14127424 TAAATTTAAAATAAATT
1 TAAATTTAAAATAAATT
14127441 TAAA
1 TAAA
14127445 ATCCATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:14131334 original size:6 final size:6
Alignment explanation
Indices: 14131300--14131361 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
14131290 TTTGTGATCA
* * * * *
14131300 AAATTG AAAGTG AAAGTG AAAGTG AAATTG GAATTG AAATTG ATA-TG
1 AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG
14131347 -AATTG TAAATTG AAA
1 AAATTG -AAATTG AAA
14131362 ATCCCTATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
4 1 0.02
5 4 0.09
6 37 0.79
7 5 0.11
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (6 bp):
AAATTG
Found at i:14131487 original size:41 final size:40
Alignment explanation
Indices: 14131441--14131541 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
14131431 TCGACCTTGA
**
14131441 GTCGATGAGATACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGATACTGGGTGTCACCATTTTACTTCGGATAG
* * * *
14131481 ATTCGATGAGGTA-TTGG-GT-ACCATTTTACTTCGGCTAG
1 -GTCGATGAGATACTGGGTGTCACCATTTTACTTCGGATAG
* *
14131519 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGATACTGGGTGTCAC
14131542 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 8 0.17
38 19 0.41
39 4 0.09
40 5 0.11
41 10 0.22
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.33
Consensus pattern (40 bp):
GTCGATGAGATACTGGGTGTCACCATTTTACTTCGGATAG
Found at i:14137492 original size:25 final size:23
Alignment explanation
Indices: 14137445--14137523 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
14137435 TGCTTTTAAT
* **
14137445 TTTTTGTAACTCTCCAGTTATTA
1 TTTTTGTAACTCTCCTGCCATTA
14137468 TTATTTTGTAACTCTCCTGCCATTA
1 -T-TTTTGTAACTCTCCTGCCATTA
* *
14137493 TGTTTGTAACTCTCCTGCCATAA
1 TTTTTGTAACTCTCCTGCCATTA
14137516 TGTTTTGT
1 T-TTTTGT
14137524 TTTAAATTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 21 0.45
24 7 0.15
25 19 0.40
ACGTcount: A:0.19, C:0.20, G:0.11, T:0.49
Consensus pattern (23 bp):
TTTTTGTAACTCTCCTGCCATTA
Found at i:14137502 original size:23 final size:23
Alignment explanation
Indices: 14137467--14137520 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
14137457 TCCAGTTATT
14137467 ATTAT-TTTGTAACTCTCCTGCC
1 ATTATGTTTGTAACTCTCCTGCC
14137489 ATTATGTTTGTAACTCTCCTGCC
1 ATTATGTTTGTAACTCTCCTGCC
*
14137512 ATAATGTTT
1 ATTATGTTT
14137521 TGTTTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.46
Consensus pattern (23 bp):
ATTATGTTTGTAACTCTCCTGCC
Found at i:14139214 original size:7 final size:7
Alignment explanation
Indices: 14139202--14139231 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
14139192 TTTGTTTTGC
14139202 ATATAAA
1 ATATAAA
14139209 ATATAAA
1 ATATAAA
14139216 ATATAAA
1 ATATAAA
14139223 ATATAAA
1 ATATAAA
14139230 AT
1 AT
14139232 TGTATAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATAAA
Found at i:14146569 original size:5 final size:5
Alignment explanation
Indices: 14146559--14146587 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
14146549 ATCTTATAAA
14146559 ATATC ATATC ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATAT
14146588 TGTTTCAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:14151685 original size:20 final size:20
Alignment explanation
Indices: 14151660--14151713 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
14151650 AGTCTTCAAG
14151660 GTATCGGTAGAAGTGGAGTT
1 GTATCGGTAGAAGTGGAGTT
*
14151680 GTATCGGTAGAAGTGTAGTT
1 GTATCGGTAGAAGTGGAGTT
* *
14151700 CTATCGGTAAAAGT
1 GTATCGGTAGAAGT
14151714 CTCACTGGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.31
Consensus pattern (20 bp):
GTATCGGTAGAAGTGGAGTT
Found at i:14152890 original size:54 final size:54
Alignment explanation
Indices: 14152803--14152915 Score: 217
Period size: 54 Copynumber: 2.1 Consensus size: 54
14152793 TAAGGGCTAA
*
14152803 TTTGGCTTCTTCATCGGATGAGTCTTCATTACTCCAATCAACATAAGCCTTTTG
1 TTTGCCTTCTTCATCGGATGAGTCTTCATTACTCCAATCAACATAAGCCTTTTG
14152857 TTTGCCTTCTTCATCGGATGAGTCTTCATTACTCCAATCAACATAAGCCTTTTG
1 TTTGCCTTCTTCATCGGATGAGTCTTCATTACTCCAATCAACATAAGCCTTTTG
14152911 TTTGC
1 TTTGC
14152916 TAGACCTCTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (54 bp):
TTTGCCTTCTTCATCGGATGAGTCTTCATTACTCCAATCAACATAAGCCTTTTG
Found at i:14154621 original size:20 final size:20
Alignment explanation
Indices: 14154598--14154651 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
14154588 AGAAGCATAC
*
14154598 TTGTATCGGTAGAACTGTAG
1 TTGTATCAGTAGAACTGTAG
14154618 TTGTATCAGTAGAACTGTAG
1 TTGTATCAGTAGAACTGTAG
14154638 TTGTATCAGTAGAA
1 TTGTATCAGTAGAA
14154652 GAGGAGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (20 bp):
TTGTATCAGTAGAACTGTAG
Found at i:14154659 original size:20 final size:20
Alignment explanation
Indices: 14154616--14154672 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
14154606 GTAGAACTGT
** *
14154616 AGTTGTATCAGTAGAACTGT
1 AGTTGTATCAGTAGAAGAGG
14154636 AGTTGTATCAGTAGAAGAGG
1 AGTTGTATCAGTAGAAGAGG
*
14154656 AGTTTTA-CAGGTAGAAG
1 AGTTGTATCA-GTAGAAG
14154673 TCCCAGGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (20 bp):
AGTTGTATCAGTAGAAGAGG
Found at i:14154884 original size:20 final size:20
Alignment explanation
Indices: 14154859--14154912 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
14154849 AGTCTTCAAG
14154859 GTATCGGTAGAAGTGGAGTT
1 GTATCGGTAGAAGTGGAGTT
* *
14154879 GTATCGGTAAAAGTGTAGTT
1 GTATCGGTAGAAGTGGAGTT
* *
14154899 CTACCGGTAGAAGT
1 GTATCGGTAGAAGT
14154913 CTCATTAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (20 bp):
GTATCGGTAGAAGTGGAGTT
Found at i:14155759 original size:10 final size:10
Alignment explanation
Indices: 14155744--14155774 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
14155734 GATTTCGTAA
14155744 AGTAATTTTT
1 AGTAATTTTT
14155754 AGTAATTTTT
1 AGTAATTTTT
14155764 AGTAATTTTT
1 AGTAATTTTT
14155774 A
1 A
14155775 TATTAAAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (10 bp):
AGTAATTTTT
Found at i:14156617 original size:94 final size:93
Alignment explanation
Indices: 14156401--14156626 Score: 278
Period size: 94 Copynumber: 2.4 Consensus size: 93
14156391 TTTGCATATT
* * *
14156401 CTCGTCAGCTTAGTATGAGCAGCATCGT-TA-GGGAACAGTTATATGTACAAATACCGTATCGAT
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACGGTAACAGTTATATGTACAAATACCATATCGAT
* *
14156464 GGCTAAGGTACCACATATGTTGTGAGTC
66 GGCTAAGGCACCACATATGTTATGAGTC
* * * *
14156492 CTCGTTAGCTTAG-GTTTAGCAGCATCATATACTGGTAACAGTTATATGTACAGATACCATATCG
1 CTCGTCAGCTTAGTG-TGAGCAGCATCGTATAC-GGTAACAGTTATATGTACAAATACCATATCG
* *
14156556 ATGGCTGAGGCACCGCATATGTTATGAGTC
64 ATGGCTAAGGCACCACATATGTTATGAGTC
** *
14156586 CTCGTCAGCTTAGTGTGAGCAATATCGTATACCGATAACAG
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATA-CGGTAACAG
14156627 AAATGATATT
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
91 23 0.21
92 2 0.02
94 85 0.76
95 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (93 bp):
CTCGTCAGCTTAGTGTGAGCAGCATCGTATACGGTAACAGTTATATGTACAAATACCATATCGAT
GGCTAAGGCACCACATATGTTATGAGTC
Found at i:14157428 original size:24 final size:24
Alignment explanation
Indices: 14157401--14157449 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
14157391 GAATTTTAAG
* *
14157401 TTCGAATCAAGTTGAAT-TTTCGAA
1 TTCGAAT-AACTTGAATAATTCGAA
14157425 TTCGAATAACTTGAATAATTCGAA
1 TTCGAATAACTTGAATAATTCGAA
14157449 T
1 T
14157450 AAACCGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (24 bp):
TTCGAATAACTTGAATAATTCGAA
Found at i:14159492 original size:2 final size:2
Alignment explanation
Indices: 14159485--14159533 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
14159475 GAAAACAATT
14159485 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
14159527 TA TA TA T
1 TA TA TA T
14159534 GATTGACTAC
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:14162529 original size:94 final size:94
Alignment explanation
Indices: 14162363--14162682 Score: 450
Period size: 94 Copynumber: 3.4 Consensus size: 94
14162353 TTTGCATATT
* *
14162363 CTCGTCAGCTTAGTGTGAGCAGCATCAT-TAA-GG-AACTA-TTATATGCATAGATACCGTATCG
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATAATGGTAAC-AGTTATATGCACAGATACCGTATCG
*
14162424 ATGGCTGAGGTACCACATATGTTGCAAGTC
65 ATGGCTGAGGTACCACATATGTTGCGAGTC
14162454 CTCGTCAGCTTAGTGTGAGCAGCATCGTATAATGGTAACAGTTATATGCACAGATACCGTATCGA
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATAATGGTAACAGTTATATGCACAGATACCGTATCGA
* * *
14162519 TGGCTAAGGTACTACATATGTTACGAGTC
66 TGGCTGAGGTACCACATATGTTGCGAGTC
* * * * * **
14162548 ATCGTCAGCTTAGTGAGAGCAGCATTGTATACTGGTAACAGTTATACGCACAGATACCGTATTAA
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATAATGGTAACAGTTATATGCACAGATACCGTATCGA
*
14162613 TGGCTGAGGCACCACATATGTTGCGAGTC
66 TGGCTGAGGTACCACATATGTTGCGAGTC
* **
14162642 CTCGTCAGTTTAGTGTGAGCAGCATCGTATACCGGTAACAG
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATAATGGTAACAG
14162683 AAATGGCATT
Statistics
Matches: 203, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
91 27 0.13
92 3 0.01
93 3 0.01
94 170 0.84
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (94 bp):
CTCGTCAGCTTAGTGTGAGCAGCATCGTATAATGGTAACAGTTATATGCACAGATACCGTATCGA
TGGCTGAGGTACCACATATGTTGCGAGTC
Found at i:14177430 original size:18 final size:18
Alignment explanation
Indices: 14177388--14177431 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14177378 TCATGTTCCG
*
14177388 GCTCCTGCCCCAGCCCCA
1 GCTCCAGCCCCAGCCCCA
* *
14177406 GCCCCAGCCCCAGCCCCT
1 GCTCCAGCCCCAGCCCCA
14177424 GCTCCAGC
1 GCTCCAGC
14177432 TCCGACTCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.11, C:0.61, G:0.18, T:0.09
Consensus pattern (18 bp):
GCTCCAGCCCCAGCCCCA
Found at i:14177434 original size:6 final size:6
Alignment explanation
Indices: 14177394--14177422 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14177384 TCCGGCTCCT
14177394 GCCCCA GCCCCA GCCCCA GCCCCA GCCCC
1 GCCCCA GCCCCA GCCCCA GCCCCA GCCCC
14177423 TGCTCCAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.69, G:0.17, T:0.00
Consensus pattern (6 bp):
GCCCCA
Found at i:14182459 original size:93 final size:93
Alignment explanation
Indices: 14182300--14182675 Score: 680
Period size: 93 Copynumber: 4.0 Consensus size: 93
14182290 CAATCCAGAG
* *
14182300 CTTACACAAAACGAGCTCCAATCCGAAGATCCCGCTGAGGCTTCTCTGTCACCCAAGACTGAAAC
1 CTTACACAAAACGAGCTCCAATCCGAAGATCCTGCCGAGGCTTCTCTGTCACCCAAGACTGAAAC
14182365 TGTTGAGGTCTCTGATATGGACATACAC
66 TGTTGAGGTCTCTGATATGGACATACAC
*
14182393 CTTACACAAAACGAGCTCCAATCCGAAGATCCTGCTGAGGCTTCTCTGTCACCCAAGACTGAAAC
1 CTTACACAAAACGAGCTCCAATCCGAAGATCCTGCCGAGGCTTCTCTGTCACCCAAGACTGAAAC
*
14182458 TGTTGAGGTCTCTGACATGGACATACAC
66 TGTTGAGGTCTCTGATATGGACATACAC
*
14182486 CTTACACAAAACGAGCTCCCATCCGAAGATCCTGCCGAGGCTTCTCTGTCACCCAAGACTGAAAC
1 CTTACACAAAACGAGCTCCAATCCGAAGATCCTGCCGAGGCTTCTCTGTCACCCAAGACTGAAAC
* *
14182551 TGTTGAGGTCTCTGATATGGACATGCAG
66 TGTTGAGGTCTCTGATATGGACATACAC
14182579 CTTACACAAAACGAGCTCCAATCCGAAGATCCTGCCGAGGCTTCTCTGTCACCCAAGACTGAAAC
1 CTTACACAAAACGAGCTCCAATCCGAAGATCCTGCCGAGGCTTCTCTGTCACCCAAGACTGAAAC
*
14182644 TGTCGAGGTCTCTGATATGGACATACAC
66 TGTTGAGGTCTCTGATATGGACATACAC
14182672 CTTA
1 CTTA
14182676 AAGAAACAAA
Statistics
Matches: 272, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 272 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
CTTACACAAAACGAGCTCCAATCCGAAGATCCTGCCGAGGCTTCTCTGTCACCCAAGACTGAAAC
TGTTGAGGTCTCTGATATGGACATACAC
Found at i:14183546 original size:38 final size:38
Alignment explanation
Indices: 14183495--14183571 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
14183485 ATTGAAGGTA
14183495 TGAGGAATTAAAACAGAATTTAATGAAAATTTAAAATG
1 TGAGGAATTAAAACAGAATTTAATGAAAATTTAAAATG
14183533 TGAGGAATTAAAACAGAATTTAATGAAAATTTAAAATG
1 TGAGGAATTAAAACAGAATTTAATGAAAATTTAAAATG
14183571 T
1 T
14183572 CTTCTCTCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.52, C:0.03, G:0.16, T:0.30
Consensus pattern (38 bp):
TGAGGAATTAAAACAGAATTTAATGAAAATTTAAAATG
Found at i:14190533 original size:20 final size:20
Alignment explanation
Indices: 14190508--14190548 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14190498 TCCAAAGATA
14190508 GATCTTTATGCAGCGACATC
1 GATCTTTATGCAGCGACATC
14190528 GATCTTTATGCAGCGACATC
1 GATCTTTATGCAGCGACATC
14190548 G
1 G
14190549 CTGGTCGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (20 bp):
GATCTTTATGCAGCGACATC
Found at i:14191793 original size:22 final size:22
Alignment explanation
Indices: 14191768--14191815 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
14191758 ATTAAAATAA
14191768 TATT-TGTGTGTATTTATTTATT
1 TATTGTGTGTGTATTTA-TTATT
* * *
14191790 TATTGTTTGTTTGTTTATTATT
1 TATTGTGTGTGTATTTATTATT
14191812 TATT
1 TATT
14191816 AACATTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (22 bp):
TATTGTGTGTGTATTTATTATT
Found at i:14191877 original size:23 final size:23
Alignment explanation
Indices: 14191821--14191907 Score: 88
Period size: 24 Copynumber: 3.8 Consensus size: 23
14191811 TTATTAACAT
* * *
14191821 TGTTCGTGATCATGTTCAATTATA
1 TGTTCATGAACATGTTCGATTA-A
*
14191845 TGTTCATGAACATGTTCGTTTAA
1 TGTTCATGAACATGTTCGATTAA
*
14191868 TGTTCGTGAACATG-TCGATTAA
1 TGTTCATGAACATGTTCGATTAA
*
14191890 -GTTAAATGAACATGTTCG
1 TGTT-CATGAACATGTTCG
14191908 TGAACATTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 3 0.06
22 15 0.28
23 17 0.32
24 18 0.34
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.40
Consensus pattern (23 bp):
TGTTCATGAACATGTTCGATTAA
Found at i:14202391 original size:40 final size:41
Alignment explanation
Indices: 14202337--14202414 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 41
14202327 GAGGGTATTG
*
14202337 TGGGAGGTACTCGTGGAAGGTTACCTTTAGGAATCATGATA
1 TGGGAGGTACTCGTGGAAGGTTACCATTAGGAATCATGATA
* *
14202378 TGGGTGGTA-TCGTGGGAGGTTACCATTAGGAATCATG
1 TGGGAGGTACTCGTGGAAGGTTACCATTAGGAATCATG
14202415 CCGAGGGTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 26 0.76
41 8 0.24
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.29
Consensus pattern (41 bp):
TGGGAGGTACTCGTGGAAGGTTACCATTAGGAATCATGATA
Found at i:14202565 original size:54 final size:54
Alignment explanation
Indices: 14202507--14202629 Score: 149
Period size: 54 Copynumber: 2.3 Consensus size: 54
14202497 TGCACAATCT
* *
14202507 TTGGTTCTTACAACTCGGAATTACATGAAGAGTATTAGGTCGATCACAT-AACTG
1 TTGGTTCTTACAACTCGAAATTACATGAAGAGTATTAGGTCAATCAC-TCAACTG
* ** * *
14202561 TTGGTTCTGACAACTCGAAATTATGTGGAGAGTATTAGGTCAATTACTCAACTG
1 TTGGTTCTTACAACTCGAAATTACATGAAGAGTATTAGGTCAATCACTCAACTG
* *
14202615 TTGATTTTTACAACT
1 TTGGTTCTTACAACT
14202630 TGAATTATGT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 57 0.98
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (54 bp):
TTGGTTCTTACAACTCGAAATTACATGAAGAGTATTAGGTCAATCACTCAACTG
Found at i:14205114 original size:13 final size:13
Alignment explanation
Indices: 14205096--14205131 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
14205086 AAATAGAGAG
14205096 GAGAGAAAAGCTA
1 GAGAGAAAAGCTA
*
14205109 GAGAGAAAAACTA
1 GAGAGAAAAGCTA
*
14205122 GAGACAAAAG
1 GAGAGAAAAG
14205132 TTGAATGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.58, C:0.08, G:0.28, T:0.06
Consensus pattern (13 bp):
GAGAGAAAAGCTA
Found at i:14205312 original size:29 final size:29
Alignment explanation
Indices: 14205279--14205344 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
14205269 CAAAATATGG
14205279 AATAATTTATTCAATTTAAAATCAATCAA
1 AATAATTTATTCAATTTAAAATCAATCAA
*
14205308 AATAATTTATTTAATTTAAAATCAATCAA
1 AATAATTTATTCAATTTAAAATCAATCAA
14205337 AATAATTT
1 AATAATTT
14205345 TAGGAATTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.41
Consensus pattern (29 bp):
AATAATTTATTCAATTTAAAATCAATCAA
Found at i:14205352 original size:29 final size:29
Alignment explanation
Indices: 14205279--14205352 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
14205269 CAAAATATGG
**
14205279 AATAATTTATTCAATTTAAAATCAATCAA
1 AATAATTTATGGAATTTAAAATCAATCAA
**
14205308 AATAATTTATTTAATTTAAAATCAATCAA
1 AATAATTTATGGAATTTAAAATCAATCAA
14205337 AATAATTT-TAGGAATT
1 AATAATTTAT-GGAATT
14205353 GACCTTCTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 1 0.02
29 40 0.98
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.41
Consensus pattern (29 bp):
AATAATTTATGGAATTTAAAATCAATCAA
Found at i:14207762 original size:21 final size:21
Alignment explanation
Indices: 14207724--14207764 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14207714 GTTTTTACTA
*
14207724 TCGGTAGAAGCATGACTTGTT
1 TCGGTAGAAGCATCACTTGTT
14207745 TCGGTAGAAGTC-TCACTTGT
1 TCGGTAGAAG-CATCACTTGT
14207765 ATTAGTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (21 bp):
TCGGTAGAAGCATCACTTGTT
Found at i:14208724 original size:137 final size:137
Alignment explanation
Indices: 14208476--14208751 Score: 498
Period size: 137 Copynumber: 2.0 Consensus size: 137
14208466 TTTCAATTTA
14208476 ATTCCTTCCTTCTGTTCATACATGAACAAAAGTGTTTTGTCTTGAAATTGATTCGTGGATTCTTT
1 ATTCCTTCCTTCTGTTCATACATGAACAAAAGTGTTTTGTCTTGAAATTGATTCGTGGATTCTTT
* *
14208541 TCATTTTGAGTCAATCCTCTGTTGATCATTTAGATGTTCATAATGATTGCTCTTTGGGTGTTGGA
66 TCATTTTGAGTCAATCCTCTATTGATCATTTAGATGTTCATAATGATTGCTCTTTGGGTGTTAGA
14208606 GGATCAC
131 GGATCAC
* *
14208613 ATTCCTTCCTTCTGTTCATACATGAAGAAAAGTGTTTTGTCTTGAAATTGATTTGTGGATTCTTT
1 ATTCCTTCCTTCTGTTCATACATGAACAAAAGTGTTTTGTCTTGAAATTGATTCGTGGATTCTTT
* *
14208678 TCATTTTGAGTCAATCCTCTATTGATCATTTAGATGTTCATCATGATTGGTCTTTGGGTGTTAGA
66 TCATTTTGAGTCAATCCTCTATTGATCATTTAGATGTTCATAATGATTGCTCTTTGGGTGTTAGA
14208743 GGATCAC
131 GGATCAC
14208750 AT
1 AT
14208752 CATACTTTTG
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 133 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.43
Consensus pattern (137 bp):
ATTCCTTCCTTCTGTTCATACATGAACAAAAGTGTTTTGTCTTGAAATTGATTCGTGGATTCTTT
TCATTTTGAGTCAATCCTCTATTGATCATTTAGATGTTCATAATGATTGCTCTTTGGGTGTTAGA
GGATCAC
Found at i:14209908 original size:33 final size:33
Alignment explanation
Indices: 14209844--14209908 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
14209834 TTATCATTAC
* * *
14209844 CAATAGGATAATTATTCTCTATCTCTATTTTAT
1 CAATACGATAATTATTCTCTACCCCTATTTTAT
* * *
14209877 CAATACGATAATTATTTTGTACCCCTCTTTTA
1 CAATACGATAATTATTCTCTACCCCTATTTTA
14209909 GCATAGTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.46
Consensus pattern (33 bp):
CAATACGATAATTATTCTCTACCCCTATTTTAT
Found at i:14211070 original size:25 final size:25
Alignment explanation
Indices: 14211035--14211083 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
14211025 ATTGTCACCA
*
14211035 ACCCAACAACCCAAATCCTTTAAAG
1 ACCCAACAACCCAAAACCTTTAAAG
*
14211060 ACCCAATAACCCAAAACCTTTAAA
1 ACCCAACAACCCAAAACCTTTAAA
14211084 AACCAAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.16
Consensus pattern (25 bp):
ACCCAACAACCCAAAACCTTTAAAG
Found at i:14211151 original size:11 final size:11
Alignment explanation
Indices: 14211135--14211173 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
14211125 AAGTCAAACT
14211135 GTTGACCGACC
1 GTTGACCGACC
14211146 GTTGACC-AGCC
1 GTTGACCGA-CC
*
14211157 GTTGACTGACC
1 GTTGACCGACC
14211168 GTTGAC
1 GTTGAC
14211174 AGTTGACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 1 0.04
11 23 0.92
12 1 0.04
ACGTcount: A:0.18, C:0.31, G:0.28, T:0.23
Consensus pattern (11 bp):
GTTGACCGACC
Found at i:14211261 original size:7 final size:7
Alignment explanation
Indices: 14211163--14211275 Score: 86
Period size: 7 Copynumber: 16.4 Consensus size: 7
14211153 AGCCGTTGAC
14211163 TGACCGT
1 TGACCGT
*
14211170 TGACAGT
1 TGACCGT
*
14211177 TGACCAT
1 TGACCGT
*
14211184 TGACCAT
1 TGACCGT
*
14211191 TGACCAT
1 TGACCGT
*
14211198 TGA-CTT
1 TGACCGT
*
14211204 TGACTGT
1 TGACCGT
14211211 TGACCGT
1 TGACCGT
* *
14211218 TAACAGT
1 TGACCGT
*
14211225 TGATCGT
1 TGACCGT
*
14211232 TTACCGT
1 TGACCGT
*
14211239 TGACCAT
1 TGACCGT
**
14211246 TGATGGT
1 TGACCGT
14211253 TGACCGT
1 TGACCGT
*
14211260 TGA-CTT
1 TGACCGT
14211266 TGACCGT
1 TGACCGT
14211273 TGA
1 TGA
14211276 TTTTTTTCGA
Statistics
Matches: 81, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
6 10 0.12
7 71 0.88
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (7 bp):
TGACCGT
Found at i:14225570 original size:24 final size:24
Alignment explanation
Indices: 14225543--14225598 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
14225533 AGCCTAATTT
*
14225543 TAATCAATGCAAAATATATTATGC
1 TAATAAATGCAAAATATATTATGC
* *
14225567 TAATAAATGCTAAATATATTATAC
1 TAATAAATGCAAAATATATTATGC
*
14225591 TATTAAAT
1 TAATAAAT
14225599 CTTCTAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (24 bp):
TAATAAATGCAAAATATATTATGC
Found at i:14228920 original size:24 final size:24
Alignment explanation
Indices: 14228888--14228946 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
14228878 GGAGGACTAG
* *
14228888 CTAGGTTTGTAACATTATGTCGAA
1 CTAGGTTTGCAACATTATGGCGAA
*
14228912 CTAGGTTTGCAATATTATGGCGAA
1 CTAGGTTTGCAACATTATGGCGAA
14228936 -TAGGGTTTGCA
1 CTA-GGTTTGCA
14228947 GAAGACATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 2 0.06
24 29 0.94
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (24 bp):
CTAGGTTTGCAACATTATGGCGAA
Found at i:14231146 original size:31 final size:29
Alignment explanation
Indices: 14231103--14231161 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
14231093 CCTTTATTCA
*
14231103 ATTTTTTTAAATTAAACCCCTTTTATTTTTT
1 ATTTTTTCAAATTAAA--CCTTTTATTTTTT
*
14231134 ATTTTTTCAAATTAAATCTTTTATTTTT
1 ATTTTTTCAAATTAAACCTTTTATTTTT
14231162 ATTCTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 11 0.42
31 15 0.58
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (29 bp):
ATTTTTTCAAATTAAACCTTTTATTTTTT
Found at i:14231172 original size:22 final size:22
Alignment explanation
Indices: 14231147--14231188 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14231137 TTTTCAAATT
14231147 AAATCTTTTATTTTTATTCTTA
1 AAATCTTTTATTTTTATTCTTA
* *
14231169 AAATTTTTTCTTTTTATTCT
1 AAATCTTTTATTTTTATTCT
14231189 GTTTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (22 bp):
AAATCTTTTATTTTTATTCTTA
Found at i:14231220 original size:18 final size:16
Alignment explanation
Indices: 14231198--14231246 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
14231188 TGTTTTTTTA
14231198 ATTTTAATATTTTATTT
1 ATTTTAATA-TTTATTT
*
14231215 ACTTTTATTATTTATTT
1 A-TTTTAATATTTATTT
14231232 ATTTT-ATATTTATTT
1 ATTTTAATATTTATTT
14231247 TTATATATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 9 0.31
16 4 0.14
17 9 0.31
18 7 0.24
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTAATATTTATTT
Found at i:14231234 original size:11 final size:10
Alignment explanation
Indices: 14231207--14231255 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
14231197 AATTTTAATA
*
14231207 TTTTATTTAC
1 TTTTATTTAT
14231217 TTTTA-TTA-
1 TTTTATTTAT
14231225 -TTTATTTAT
1 TTTTATTTAT
14231234 TTTATATTTAT
1 TTT-TATTTAT
*
14231245 TTTTATATAT
1 TTTTATTTAT
14231255 T
1 T
14231256 GCATACTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 4 0.12
8 3 0.09
9 3 0.09
10 14 0.41
11 10 0.29
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:14231249 original size:17 final size:17
Alignment explanation
Indices: 14231192--14231250 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
14231182 TTATTCTGTT
14231192 TTTTTAATTTTAATATTT-
1 TTTTT-ATTTT-ATATTTA
*
14231210 TATTTACTTTTATTATTTA
1 TTTTTA-TTTTA-TATTTA
14231229 --TTTATTTTATATTTA
1 TTTTTATTTTATATTTA
14231244 TTTTTAT
1 TTTTTAT
14231251 ATATTGCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
15 6 0.17
16 5 0.14
17 11 0.31
18 13 0.37
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTATTTTATATTTA
Found at i:14235868 original size:124 final size:124
Alignment explanation
Indices: 14235654--14235895 Score: 421
Period size: 124 Copynumber: 2.0 Consensus size: 124
14235644 ATGAAAACTT
* **
14235654 GCAAAGGGCATCTTGAAAATCTATGCATCTCCTTCACCTTTATGTGGGGCATAGACGTGATTGAG
1 GCAAAGGGCATCTTCAAAATCTATGCATCTCCTTCACCTCAATGTGGGGCATAGACGTGATTGAG
*
14235719 CCAATTTCGCCAAAAGCTTCTAATAGGCATCATCTCATCTTCGTGGCCATTAAAAACCC
66 CCAATTTCGCCAAAAGCTTCCAATAGGCATCATCTCATCTTCGTGGCCATTAAAAACCC
* * *
14235778 GCAAAGGGCATCTTCAAAATCTATGCATCTCTTTCACGTCAATGTGGGGCATGGACGTGATTGAG
1 GCAAAGGGCATCTTCAAAATCTATGCATCTCCTTCACCTCAATGTGGGGCATAGACGTGATTGAG
14235843 CCAATTTCGCCAAAAGCTTCCAATAGGCATCATCTCATCTTCGTGGCCATTAA
66 CCAATTTCGCCAAAAGCTTCCAATAGGCATCATCTCATCTTCGTGGCCATTAA
14235896 CTACTTCATC
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 111 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (124 bp):
GCAAAGGGCATCTTCAAAATCTATGCATCTCCTTCACCTCAATGTGGGGCATAGACGTGATTGAG
CCAATTTCGCCAAAAGCTTCCAATAGGCATCATCTCATCTTCGTGGCCATTAAAAACCC
Found at i:14237991 original size:45 final size:44
Alignment explanation
Indices: 14237883--14238323 Score: 532
Period size: 45 Copynumber: 9.9 Consensus size: 44
14237873 ACATTATCCT
*
14237883 ATCCAATCTTTTACCCCTAAGTCAAGAGGAG-AAGATTGAAG-ACC
1 ATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAA-ATTGAAGCACC
* * *
14237927 ATCTAATCTTTTACTCTTAATCAAGAGGGGCAAATTGAAGTCACC
1 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAG-CACC
* * *
14237972 ATCCAATATTTTACCCTTAAGTCAAGAGGGGCAGATTGAAG-ACC
1 ATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAAATTGAAGCACC
14238016 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAG-ACC
1 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAGCACC
14238059 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAG-ACC
1 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAGCACC
* *
14238102 ATCCAATCTTTTACCCCTAATCAAGAGGGACAAATTAAAGCCACC
1 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAG-CACC
** * *
14238147 GCCCAATCTTTTACCCCTAATCAAGAGGGGTAAATTGAAGCCATC
1 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAG-CACC
* * * * *
14238192 ATCCAATCTTTTACCCCTAATTAAGAGGGGTAGATTAAAGCTATC
1 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAGC-ACC
* * * * *
14238237 ATCCAATCTTTTACCCCTAATCAAAAGGAGCAGATTGAAACTACT
1 ATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAGC-ACC
* * *
14238282 ATCTAATCTTTTACCCTTAAATCAAGAGGGGCAGATTGAAGC
1 ATCCAATCTTTTACCCCT-AATCAAGAGGGGCAAATTGAAGC
14238324 TATCATCTCG
Statistics
Matches: 352, Mismatches: 37, Indels: 14
0.87 0.09 0.03
Matches are distributed among these distances:
43 119 0.34
44 41 0.12
45 153 0.43
46 39 0.11
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (44 bp):
ATCCAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAGCACC
Found at i:14240231 original size:31 final size:29
Alignment explanation
Indices: 14240187--14240245 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
14240177 TCTTTATTCA
*
14240187 ATTTTTTTAAATTAAACCCGTTTTATTTTTC
1 ATTTTTTCAAATTAAA-CC-TTTTATTTTTC
* *
14240218 ATTTTTTCGAATTAAATCTTTTATTTTT
1 ATTTTTTCAAATTAAACCTTTTATTTTT
14240246 ATTCTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.40
30 1 0.04
31 14 0.56
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.61
Consensus pattern (29 bp):
ATTTTTTCAAATTAAACCTTTTATTTTTC
Found at i:14240330 original size:17 final size:16
Alignment explanation
Indices: 14240280--14240332 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
14240270 TTTTTTAAAA
*
14240280 TATTTAATATTTTATT
1 TATTTTATATTTTATT
*
14240296 TACTTTTAT-TATTGATT
1 TA-TTTTATAT-TTTATT
14240313 TATTTTATATTTATATT
1 TATTTTATATTT-TATT
14240330 TAT
1 TAT
14240333 ATATTGTCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
16 11 0.37
17 19 0.63
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTTTATATTTTATT
Found at i:14240344 original size:28 final size:28
Alignment explanation
Indices: 14240292--14240345 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
14240282 TTTAATATTT
*
14240292 TATTTACTTTTATTATTGATTTATTTTA
1 TATTTACTTTTATTATTGATCTATTTTA
14240320 TATTTA-TATTTATATATTG-TCTATTT
1 TATTTACT-TTTAT-TATTGATCTATTT
14240346 AATTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 1 0.04
28 17 0.74
29 5 0.22
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (28 bp):
TATTTACTTTTATTATTGATCTATTTTA
Found at i:14244552 original size:20 final size:20
Alignment explanation
Indices: 14244527--14244567 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14244517 TTTAATACTA
*
14244527 TATTGAAGAGTGTTTTATAT
1 TATTGAAGAGTATTTTATAT
* *
14244547 TATTGATGTGTATTTTATAT
1 TATTGAAGAGTATTTTATAT
14244567 T
1 T
14244568 TGAGACTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (20 bp):
TATTGAAGAGTATTTTATAT
Found at i:14257253 original size:22 final size:23
Alignment explanation
Indices: 14257203--14257254 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
14257193 TCGAACAAAT
*
14257203 TTATTTAAATTCCGTTTAATAAA
1 TTATTTAAATTCCATTTAATAAA
*
14257226 TCATTTAAA-TCTCATTTAA-AAA
1 TTATTTAAATTC-CATTTAATAAA
14257248 TTATTTA
1 TTATTTA
14257255 TTATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (23 bp):
TTATTTAAATTCCATTTAATAAA
Found at i:14265472 original size:14 final size:14
Alignment explanation
Indices: 14265453--14265479 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14265443 CCATCCTTTC
14265453 TTTGAATGAATACA
1 TTTGAATGAATACA
14265467 TTTGAATGAATAC
1 TTTGAATGAATAC
14265480 GAGAGTATCT
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:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (14 bp):
TTTGAATGAATACA
Done.