Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 135 of 195
Found at i:22738241 original size:10 final size:10
Alignment explanation
Indices: 22738226--22738252 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
22738216 AAACTTAAAA
22738226 ATTCTCAAAG
1 ATTCTCAAAG
22738236 ATTCTCAAAG
1 ATTCTCAAAG
22738246 ATTCTCA
1 ATTCTCA
22738253 TTTAGGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (10 bp):
ATTCTCAAAG
Found at i:22738268 original size:21 final size:21
Alignment explanation
Indices: 22738239--22738628 Score: 372
Period size: 21 Copynumber: 17.8 Consensus size: 21
22738229 CTCAAAGATT
*
22738239 CTCAAAGATTCTCATTTAGGA
1 CTCAAAGATTCTCATTTAAGA
*
22738260 CTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTAAGA
* *
22738281 CTCAAAGGTTCTCATTTGAAAATGT
1 CTCAAAGATTCTCATTT---AA-GA
*
22738306 CTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTAAGA
* * *
22738327 CTTAAAGGTTCTCATTTGAAAATGT
1 CTCAAAGATTCTCATTT---AA-GA
*
22738352 CTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTAAGA
* * *
22738373 CTCAAAGTTTCTTATTTGAAAA
1 CTCAAAGATTCTCATTT-AAGA
22738395 CGTCTTAAAGATTCTCATTTAAGA
1 C-TC--AAAGATTCTCATTTAAGA
22738419 CTCAAAGATTCTCATTTGAA-A
1 CTCAAAGATTCTCATTT-AAGA
* *
22738440 CTCAAATATTCTCATTTAAAAA
1 CTCAAAGATTCTCATTT-AAGA
* *
22738462 TTCAAAGATTTTCATTTGAA-A
1 CTCAAAGATTCTCATTT-AAGA
22738483 CTCAAAGATTCTCATTTAAAGA
1 CTCAAAGATTCTCATTT-AAGA
*
22738505 CTTAAAGATTCTCATTTGAAGA
1 CTCAAAGATTCTCATTT-AAGA
* *
22738527 CTCAAATATTCTCATTTAAAA
1 CTCAAAGATTCTCATTTAAGA
*
22738548 CTCAAAGATTCTTATTTGAAGA
1 CTCAAAGATTCTCATTT-AAGA
*
22738570 CTCAAAGATTGTCATTTGAA-A
1 CTCAAAGATTCTCATTT-AAGA
* *
22738591 CTTAAAGATTCTCATTTAAAA
1 CTCAAAGATTCTCATTTAAGA
*
22738612 ATCAAAGATTCTCATTT
1 CTCAAAGATTCTCATTT
22738629 GAGGATTCAT
Statistics
Matches: 310, Mismatches: 42, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.01
21 167 0.54
22 84 0.27
23 4 0.01
24 8 0.03
25 45 0.15
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTAAGA
Found at i:22738321 original size:46 final size:44
Alignment explanation
Indices: 22738239--22738628 Score: 397
Period size: 46 Copynumber: 8.9 Consensus size: 44
22738229 CTCAAAGATT
* * *
22738239 CTCAAAGATTCTCATTT--AGGACTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAGTCTCAAAGATTCTCATTTAAGA
* *
22738281 CTCAAAGGTTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTG-AAA-GTCTCAAAGATTCTCATTTAAGA
* * *
22738327 CTTAAAGGTTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTG-AAA-GTCTCAAAGATTCTCATTTAAGA
* * *
22738373 CTCAAAGTTTCTTATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTG-AAA-GTCTCAAAGATTCTCATTTAAGA
* *
22738419 CTCAAAGATTCTCATTTGAAA--CTCAAATATTCTCATTTAAAAA
1 CTCAAAGATTCTCATTTGAAAGTCTCAAAGATTCTCATTT-AAGA
* *
22738462 TTCAAAGATTTTCATTTGAAA--CTCAAAGATTCTCATTTAAAGA
1 CTCAAAGATTCTCATTTGAAAGTCTCAAAGATTCTCATTT-AAGA
* * * *
22738505 CTTAAAGATTCTCATTTG-AAGACTCAAATATTCTCATTTAAAA
1 CTCAAAGATTCTCATTTGAAAGTCTCAAAGATTCTCATTTAAGA
* * *
22738548 CTCAAAGATTCTTATTTG-AAGACTCAAAGATTGTCATTTGAA-A
1 CTCAAAGATTCTCATTTGAAAGTCTCAAAGATTCTCATTT-AAGA
* **
22738591 CTTAAAGATTCTCATTT-AAA-AATCAAAGATTCTCATTT
1 CTCAAAGATTCTCATTTGAAAGTCTCAAAGATTCTCATTT
22738629 GAGGATTCAT
Statistics
Matches: 309, Mismatches: 30, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
42 49 0.16
43 113 0.37
44 18 0.06
45 4 0.01
46 125 0.40
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (44 bp):
CTCAAAGATTCTCATTTGAAAGTCTCAAAGATTCTCATTTAAGA
Found at i:22739946 original size:17 final size:16
Alignment explanation
Indices: 22739897--22740013 Score: 56
Period size: 17 Copynumber: 6.8 Consensus size: 16
22739887 CATTTTTTCC
* *
22739897 TTTTTCCATTCTTTTAT
1 TTTTTCC-TTTTTTTTT
* *
22739914 TTTCTCC-TTTTATTT
1 TTTTTCCTTTTTTTTT
22739929 TTTTTCCTTTTTCTTTTT
1 TTTTTCC-TTTT-TTTTT
**
22739947 CTTTATTTTTTTTTCATTTT
1 -TTT-TTCCTTTTT--TTTT
* *
22739967 TTTTTCATTTTTTCATT
1 TTTTTCCTTTTTT-TTT
*
22739984 TTTTTCATTTTTTTTAT
1 TTTTTCCTTTTTTTT-T
*
22740001 TTTTTTCTTTTTT
1 TTTTTCCTTTTTT
22740014 AATCCATTAT
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
15 11 0.14
16 2 0.03
17 36 0.47
18 12 0.16
19 10 0.13
20 6 0.08
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTCCTTTTTTTTT
Found at i:22739952 original size:39 final size:37
Alignment explanation
Indices: 22739873--22740006 Score: 109
Period size: 38 Copynumber: 3.6 Consensus size: 37
22739863 TGAGTCTTCA
* *
22739873 TTTTCTTTTCTTTTCA--TTTTTTCCTTTTTCCATTC
1 TTTTATTTTTTTTTCATTTTTTTTCCTTTTTCCATTC
* *
22739908 TTTTATTTTCTCCTTTT-ATTTTTTTTCCTTTTT-CTTTT
1 TTTTATTTT-T--TTTTCATTTTTTTTCCTTTTTCCATTC
* * *
22739946 TCTTTATTTTTTTTTCATTTTTTTTTCATTTTTTCATTT
1 T-TTTATTTTTTTTTCA-TTTTTTTTCCTTTTTCCATTC
22739985 TTTTCA-TTTTTTTT-ATTTTTTT
1 TTTT-ATTTTTTTTTCATTTTTTT
22740007 CTTTTTTAAT
Statistics
Matches: 83, Mismatches: 6, Indels: 19
0.77 0.06 0.18
Matches are distributed among these distances:
35 8 0.10
36 11 0.13
37 3 0.04
38 34 0.41
39 27 0.33
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.78
Consensus pattern (37 bp):
TTTTATTTTTTTTTCATTTTTTTTCCTTTTTCCATTC
Found at i:22739955 original size:9 final size:10
Alignment explanation
Indices: 22739936--22740006 Score: 73
Period size: 9 Copynumber: 7.4 Consensus size: 10
22739926 TTTTTTTTCC
22739936 TTTTTC-TTT
1 TTTTTCATTT
22739945 TTCTTT-ATTTT
1 TT-TTTCA-TTT
22739956 TTTTTCATTTT
1 TTTTTCA-TTT
22739967 TTTTTCA--T
1 TTTTTCATTT
22739975 TTTTTCA-TT
1 TTTTTCATTT
22739984 TTTTTCATTT
1 TTTTTCATTT
22739994 TTTTT-ATTT
1 TTTTTCATTT
22740003 TTTT
1 TTTT
22740007 CTTTTTTAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.14
9 18 0.32
10 13 0.23
11 17 0.30
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:22739956 original size:11 final size:12
Alignment explanation
Indices: 22739942--22739980 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
22739932 TTCCTTTTTC
22739942 TTTTTCTTT-AT
1 TTTTTCTTTCAT
22739953 TTTTT-TTTCAT
1 TTTTTCTTTCAT
22739964 TTTTT-TTTCAT
1 TTTTTCTTTCAT
22739975 TTTTTC
1 TTTTTC
22739981 ATTTTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 3 0.12
11 23 0.88
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTCAT
Found at i:22739958 original size:26 final size:25
Alignment explanation
Indices: 22739922--22740012 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 25
22739912 ATTTTCTCCT
22739922 TTTATTTTTTTTCCTTTTTCTTTTTC
1 TTTATTTTTTTT-CTTTTTCTTTTTC
*
22739948 TTTATTTTTTTTTCATTTT-TTTTTC
1 TTTA-TTTTTTTTCTTTTTCTTTTTC
* **
22739973 ATT-TTTTCATT-TTTTTCATTTTT-
1 TTTATTTTTTTTCTTTTTC-TTTTTC
22739996 TTTA-TTTTTTTCTTTTT
1 TTTATTTTTTTTCTTTTT
22740013 TAATCCATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
22 4 0.08
23 13 0.25
24 10 0.19
25 8 0.15
26 9 0.17
27 8 0.15
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (25 bp):
TTTATTTTTTTTCTTTTTCTTTTTC
Found at i:22739977 original size:19 final size:19
Alignment explanation
Indices: 22739955--22740013 Score: 74
Period size: 17 Copynumber: 3.3 Consensus size: 19
22739945 TTCTTTATTT
22739955 TTTTTTCATTTTTTTTTCA
1 TTTTTTCATTTTTTTTTCA
22739974 TTTTTTCA--TTTTTTTCA
1 TTTTTTCATTTTTTTTTCA
22739991 TTTTTT--TTATTTTTTTC-
1 TTTTTTCATT-TTTTTTTCA
22740008 TTTTTT
1 TTTTTT
22740014 AATCCATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
17 21 0.57
18 8 0.22
19 8 0.22
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTCATTTTTTTTTCA
Found at i:22739985 original size:28 final size:26
Alignment explanation
Indices: 22739927--22740013 Score: 90
Period size: 27 Copynumber: 3.2 Consensus size: 26
22739917 CTCCTTTTAT
*
22739927 TTTTTTTCCTTTTTCTTT-TTCTTTATT-
1 TTTTTTTCATTTTT-TTTATT-TTT-TTC
22739954 TTTTTTTCATTTTTTTT-TCATTTTTTC
1 TTTTTTTCATTTTTTTTAT--TTTTTTC
22739981 ATTTTTTTCATTTTTTTTATTTTTTTC
1 -TTTTTTTCATTTTTTTTATTTTTTTC
22740008 TTTTTT
1 TTTTTT
22740014 AATCCATTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
26 12 0.22
27 23 0.43
28 18 0.33
29 1 0.02
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (26 bp):
TTTTTTTCATTTTTTTTATTTTTTTC
Found at i:22744951 original size:20 final size:20
Alignment explanation
Indices: 22744908--22744966 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
22744898 CTAAATGTAC
* *
22744908 CAAGAATCATTCAAGATTGAT
1 CAAGAATC-TACAAGATTCAT
*
22744929 CAAGAATCTACAAGATTCTT
1 CAAGAATCTACAAGATTCAT
*
22744949 CAAG-ATTTACCAAGATTC
1 CAAGAATCTA-CAAGATTC
22744967 CATATTTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 4 0.12
20 21 0.64
21 8 0.24
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (20 bp):
CAAGAATCTACAAGATTCAT
Found at i:22746958 original size:15 final size:15
Alignment explanation
Indices: 22746938--22746984 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
22746928 ATGTGCAAGT
22746938 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
*
22746953 TTTTTTTATTAATTTA
1 TTTTTTTATT-TTTTA
*
22746969 TTTTTATTATATTTTA
1 TTTTT-TTATTTTTTA
22746985 AAAAAGGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 10 0.37
16 13 0.48
17 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:22746958 original size:16 final size:16
Alignment explanation
Indices: 22746937--22746984 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
22746927 CATGTGCAAG
22746937 TTTTTTTTATTTTTTA
1 TTTTTTTTATTTTTTA
*
22746953 -TTTTTTTATTAATTTA
1 TTTTTTTTATT-TTTTA
* *
22746969 TTTTTATTATATTTTA
1 TTTTTTTTATTTTTTA
22746985 AAAAAGGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 10 0.38
16 8 0.31
17 8 0.31
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTTATTTTTTA
Found at i:22747950 original size:3 final size:3
Alignment explanation
Indices: 22747944--22747974 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
22747934 TTTTTTTAAA
*
22747944 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22747975 TTGCATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:22748194 original size:16 final size:16
Alignment explanation
Indices: 22748173--22748214 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
22748163 GAAGTATGCA
22748173 TGAAAGTAAATTTTAT
1 TGAAAGTAAATTTTAT
22748189 TGAAAGTAAATTTTAT
1 TGAAAGTAAATTTTAT
22748205 TGAAAGTAAA
1 TGAAAGTAAA
22748215 CAAAATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (16 bp):
TGAAAGTAAATTTTAT
Found at i:22750354 original size:52 final size:53
Alignment explanation
Indices: 22750221--22750356 Score: 172
Period size: 52 Copynumber: 2.6 Consensus size: 53
22750211 AAACATGCCC
* * *
22750221 ATTAAGAATCCCTTTCCTCTTAGAATTC-TC-ATTCTGTAAGTCAAACTTGCCT
1 ATTAAGAATCTCTTT-CTCTTAGAATTCTTCTATTCTGGAAGTCAAACTTACCT
* *
22750273 ATTAAGAATCTTTTTCTTTTTAGAATTCTTCTA-T-TGGAAGTCAAACTTACCT
1 ATTAAGAATCTCTTTC-TCTTAGAATTCTTCTATTCTGGAAGTCAAACTTACCT
22750325 ATTAAGAATCATCTTTCTCTTAGAATTCTTCT
1 ATTAAGAATC-TCTTTCTCTTAGAATTCTTCT
22750357 TTTACAAGTC
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
51 1 0.01
52 63 0.86
53 8 0.11
54 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (53 bp):
ATTAAGAATCTCTTTCTCTTAGAATTCTTCTATTCTGGAAGTCAAACTTACCT
Found at i:22750406 original size:11 final size:11
Alignment explanation
Indices: 22750390--22750429 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
22750380 GCAATATCTG
22750390 ACAAATCCTAA
1 ACAAATCCTAA
22750401 ACAAATCTCT-A
1 ACAAATC-CTAA
*
22750412 ACAAATCCCAA
1 ACAAATCCTAA
22750423 ACAAATC
1 ACAAATC
22750430 TCTTATGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 1 0.04
11 23 0.88
12 2 0.08
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (11 bp):
ACAAATCCTAA
Found at i:22750415 original size:22 final size:22
Alignment explanation
Indices: 22750390--22750432 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22750380 GCAATATCTG
*
22750390 ACAAATCCTAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
22750412 ACAAATCCCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
22750433 TATGGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:22751295 original size:52 final size:51
Alignment explanation
Indices: 22751205--22751352 Score: 183
Period size: 52 Copynumber: 2.8 Consensus size: 51
22751195 TATAACCATA
* *
22751205 CAAACTTGCCCATTAAGAATCCCTTTTCTCTTACAATTCTTCTTCTGT-AAGT
1 CAAACTTGCCTATTAAGAATCCC-TTTCTCTTAGAATTCTTCTTCT-TAAAGT
* *
22751257 CAAACTTGCCTAATAAGAATCCCTTTCCTTTTAGAATTCTTC-TCTTACAAGT
1 CAAACTTGCCTATTAAGAATCCCTTT-CTCTTAGAATTCTTCTTCTTA-AAGT
* *
22751309 CAAACTTACCTATTAAGAATCATCTTTCTCTTAGAATTCTTCTT
1 CAAACTTGCCTATTAAGAATC-CCTTTCTCTTAGAATTCTTCTT
22751353 TTGCAAATTT
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
50 1 0.01
51 6 0.07
52 71 0.86
53 5 0.06
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.41
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTCTTAGAATTCTTCTTCTTAAAGT
Found at i:22751401 original size:11 final size:11
Alignment explanation
Indices: 22751385--22751425 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
22751375 GCAATATCTG
*
22751385 ACAAATTTCAA
1 ACAAATCTCAA
*
22751396 ACAAATCTCTA
1 ACAAATCTCAA
*
22751407 ACAAATCCCAA
1 ACAAATCTCAA
22751418 ACAAATCT
1 ACAAATCT
22751426 ATTATGGGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:22752509 original size:138 final size:137
Alignment explanation
Indices: 22752359--22752894 Score: 602
Period size: 138 Copynumber: 3.9 Consensus size: 137
22752349 AAGACTCCAT
* * *
22752359 AACTTTTGAAAGTAAAATTTAAAAACTTTTTTAAGCAAAGGCTCAATAACTTTTGAAAATAAATT
1 AACTTTTGAAAAT-AAATTTAAAAACTCTTTTAAGCAAAGGCTCAACAACTTTTGAAAATAAATT
* * * * * * *
22752424 TACAAGCACATTTGAGCAAAGACTTAACAATTTTTGAAGGTAAATTTAAAAGCTTATTTAA-CAA
65 TAAAAACTCCTTTAAGCAAAGGCTTAACAATTTTTGAA-GTAAATTTAAAAGCTTCTTTAAGCAA
22752488 AGGCTTAAC
129 AGGCTTAAC
*
22752497 AACTTTT-AAAAGTAAATTTTAAAAACTCTTTTAAGTAAAGGCTCAACAACTTTTGAAAATAAAT
1 AACTTTTGAAAA-TAAA-TTTAAAAACTCTTTTAAGCAAAGGCTCAACAACTTTTGAAAATAAAT
* * *
22752561 TTAAAAACTCCTTTAAGTAAAGGCTTAACAATTTTTGGAAATAAATTTACAAGCTTCTTTAAGCA
64 TTAAAAACTCCTTTAAGCAAAGGCTTAACAATTTTT-GAAGTAAATTTAAAAGCTTCTTTAAGCA
22752626 AAGGCTTAAC
128 AAGGCTTAAC
* * * *
22752636 AACTTTTGAAAATTAATTTAAAAGCTCTTTTAAGTAAAAGCTTC-ACAACTTTTGAAAAT-AATT
1 AACTTTTGAAAATAAATTTAAAAACTCTTTTAAGCAAAGGC-TCAACAACTTTTGAAAATAAATT
* * * * *
22752699 TAAAATCTCCTTTAAGCAAAGGCTCAACAACTTTTGAAAGTAAATTTAAAAACTCCTTTAAGCAA
65 TAAAAACTCCTTTAAGCAAAGGCTTAACAATTTTTG-AAGTAAATTTAAAAGCTTCTTTAAGCAA
* *
22752764 AAGCTCAAC
129 AGGCTTAAC
* * *
22752773 AACTTTTGAAAATAAATTTAAAAA-TTTCTTTAAGCAGAGGCTCAACAA-TTTTTAAAAGTAAAT
1 AACTTTTGAAAATAAATTTAAAAACTCT-TTTAAGCAAAGGCTCAACAACTTTTGAAAA-TAAAT
* * * ** * *
22752836 TTAAAAAATCTTTTAAGCACAA-GCTAAATGATTTTTGGAAATAAATTTAGAAGC-TCTTT
64 TTAAAAACTCCTTTAAGCA-AAGGCTTAACAATTTTT-GAAGTAAATTTAAAAGCTTCTTT
22752895 TAAGTTGTTA
Statistics
Matches: 340, Mismatches: 45, Indels: 27
0.83 0.11 0.07
Matches are distributed among these distances:
136 13 0.04
137 113 0.33
138 180 0.53
139 30 0.09
140 4 0.01
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (137 bp):
AACTTTTGAAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCAACAACTTTTGAAAATAAATTT
AAAAACTCCTTTAAGCAAAGGCTTAACAATTTTTGAAGTAAATTTAAAAGCTTCTTTAAGCAAAG
GCTTAAC
Found at i:22752551 original size:92 final size:92
Alignment explanation
Indices: 22752318--22752898 Score: 568
Period size: 92 Copynumber: 6.3 Consensus size: 92
22752308 ACTTAACCAC
* * * *
22752318 TTGAAAATAAAATTAAAAACTCCTTTT-AGCAAAGACTCCATAACTTTTGAAAGTAAAATTTAAA
1 TTGAAAATAAATTTAAAAACT-CTTTTAAGCAAAGGCTCAACAACTTTTGAAAGT-AAATTTAAA
* * *
22752382 AACTTTTTTAAGCAAAGGCTCAATAACTT
64 AACTTCTTTAAGCAAAGGCTTAACAACTT
* * * * * * * * * *
22752411 TTGAAAATAAATTTACAAGCACATTTGAGCAAAGACTTAACAATTTTTGAAGGTAAATTTAAAAG
1 TTGAAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCAACAACTTTTGAAAGTAAATTTAAAAA
*
22752476 CTTATTTAA-CAAAGGCTTAACAACTT
66 CTTCTTTAAGCAAAGGCTTAACAACTT
* *
22752502 TT-AAAAGTAAATTTTAAAAACTCTTTTAAGTAAAGGCTCAACAACTTTTGAAAATAAATTTAAA
1 TTGAAAA-TAAA-TTTAAAAACTCTTTTAAGCAAAGGCTCAACAACTTTTGAAAGTAAATTTAAA
* * *
22752566 AACTCCTTTAAGTAAAGGCTTAACAATTT
64 AACTTCTTTAAGCAAAGGCTTAACAACTT
* * * * * *
22752595 TTGGAAATAAATTTACAAGCT-TCTTTAAGCAAAGGCTTAACAACTTTTGAAAATTAATTTAAAA
1 TTGAAAATAAATTTAAAAACTCT-TTTAAGCAAAGGCTCAACAACTTTTGAAAGTAAATTTAAAA
* * * *
22752659 GC-TCTTTTAAGTAAAAGCTTCACAACTT
65 ACTTC-TTTAAGCAAAGGCTTAACAACTT
* *
22752687 TTGAAAAT-AATTTAAAATCTCCTTTAAGCAAAGGCTCAACAACTTTTGAAAGTAAATTTAAAAA
1 TTGAAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCAACAACTTTTGAAAGTAAATTTAAAAA
* * *
22752751 CTCCTTTAAGCAAAAGCTCAACAACTT
66 CTTCTTTAAGCAAAGGCTTAACAACTT
* * * *
22752778 TTGAAAATAAATTTAAAAA-TTTCTTTAAGCAGAGGCTCAACAATTTTTAAAAGTAAATTTAAAA
1 TTGAAAATAAATTTAAAAACTCT-TTTAAGCAAAGGCTCAACAACTTTTGAAAGTAAATTTAAAA
* * ** *
22752842 A-ATCTTTTAAGCACAA-GCTAAATGATTT
65 ACTTC-TTTAAGCA-AAGGCTTAACAACTT
* * *
22752870 TTGGAAATAAATTTAGAAGCTCTTTTAAG
1 TTGAAAATAAATTTAAAAACTCTTTTAAG
22752899 TTGTTAGGGA
Statistics
Matches: 405, Mismatches: 69, Indels: 29
0.81 0.14 0.06
Matches are distributed among these distances:
90 4 0.01
91 102 0.25
92 232 0.57
93 64 0.16
94 3 0.01
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (92 bp):
TTGAAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCAACAACTTTTGAAAGTAAATTTAAAAA
CTTCTTTAAGCAAAGGCTTAACAACTT
Found at i:22752897 original size:46 final size:45
Alignment explanation
Indices: 22752318--22752898 Score: 514
Period size: 46 Copynumber: 12.6 Consensus size: 45
22752308 ACTTAACCAC
* * *
22752318 TTGAAAATAAAATTAAAAACTCCTTTT-AGCAAAGACTCCATAACTT
1 TTGAAAATAAATTTAAAAACT-CTTTTAAGCAAAG-CTCAACAACTT
* * *
22752364 TTGAAAGTAAAATTTAAAAACTTTTTTAAGCAAAGGCTCAATAACTT
1 TTGAAAAT-AAATTTAAAAACTCTTTTAAGCAAA-GCTCAACAACTT
* * * * * * *
22752411 TTGAAAATAAATTTACAAGCACATTTGAGCAAAGACTTAACAATTT
1 TTGAAAATAAATTTAAAAACTCTTTTAAGCAAAG-CTCAACAACTT
** * *
22752457 TTGAAGGTAAATTTAAAAGCT-TATTTAA-CAAAGGCTTAACAACTT
1 TTGAAAATAAATTTAAAAACTCT-TTTAAGCAAA-GCTCAACAACTT
*
22752502 TT-AAAAGTAAATTTTAAAAACTCTTTTAAGTAAAGGCTCAACAACTT
1 TTGAAAA-TAAA-TTTAAAAACTCTTTTAAGCAAA-GCTCAACAACTT
* * * *
22752549 TTGAAAATAAATTTAAAAACTCCTTTAAGTAAAGGCTTAACAATTT
1 TTGAAAATAAATTTAAAAACTCTTTTAAGCAAA-GCTCAACAACTT
* * * *
22752595 TTGGAAATAAATTTACAAGCT-TCTTTAAGCAAAGGCTTAACAACTT
1 TTGAAAATAAATTTAAAAACTCT-TTTAAGCAAA-GCTCAACAACTT
* * *
22752641 TTGAAAATTAATTTAAAAGCTCTTTTAAGTAAAAGCTTC-ACAACTT
1 TTGAAAATAAATTTAAAAACTCTTTTAAG-CAAAGC-TCAACAACTT
* *
22752687 TTGAAAAT-AATTTAAAATCTCCTTTAAGCAAAGGCTCAACAACTT
1 TTGAAAATAAATTTAAAAACTCTTTTAAGCAAA-GCTCAACAACTT
* *
22752732 TTGAAAGTAAATTTAAAAACTCCTTTAAGCAAAAGCTCAACAACTT
1 TTGAAAATAAATTTAAAAACTCTTTTAAGC-AAAGCTCAACAACTT
* *
22752778 TTGAAAATAAATTTAAAAA-TTTCTTTAAGCAGAGGCTCAACAA-TT
1 TTGAAAATAAATTTAAAAACTCT-TTTAAGCA-AAGCTCAACAACTT
* * * ** *
22752823 TTTAAAAGTAAATTTAAAAAATCTTTTAAGCACAAGCTAAATGATTT
1 TTGAAAA-TAAATTTAAAAACTCTTTTAAGCA-AAGCTCAACAACTT
* * *
22752870 TTGGAAATAAATTTAGAAGCTCTTTTAAG
1 TTGAAAATAAATTTAAAAACTCTTTTAAG
22752899 TTGTTAGGGA
Statistics
Matches: 450, Mismatches: 61, Indels: 48
0.81 0.11 0.09
Matches are distributed among these distances:
44 7 0.02
45 65 0.14
46 299 0.66
47 74 0.16
48 5 0.01
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (45 bp):
TTGAAAATAAATTTAAAAACTCTTTTAAGCAAAGCTCAACAACTT
Found at i:22753738 original size:55 final size:55
Alignment explanation
Indices: 22753679--22753976 Score: 224
Period size: 55 Copynumber: 5.5 Consensus size: 55
22753669 TTAAAGCTCA
*
22753679 TCAGTATAGATTTATATGTTTTAATTTTCTTACCTATACCGATGGTTAATGCA-TG
1 TCAGTATAGACTTATATGTTTTAATTTTCTTACCTATACCGATGGTTAA-GCACTG
** * * *
22753734 TCAGTATAGACTTATATGTTTTAATTTCTCTTACCTATACTAACGATTAATGC-TTG
1 TCAGTATAGACTTATATGTTTTAATTT-TCTTACCTATACCGATGGTTAA-GCACTG
* ** * *
22753790 TCAATATAGAC---T-TG---TAATTTTTCTTACCTATGTCGACGCTT-AGCATCTG
1 TCAGTATAGACTTATATGTTTTAA-TTTTCTTACCTATACCGATGGTTAAGCA-CTG
* * * * * *
22753839 TTAGTATAAACTTTTATTTTTTAATTTTCTTACCTATATCAATGGTTAGAG-ACTG
1 TCAGTATAGACTTATATGTTTTAATTTTCTTACCTATACCGATGGTTA-AGCACTG
* * * * * * *
22753894 TCAGTATAGAATTGTATGCTTTAATTTTTTTACCTATACCGATAGTTAGAG-ATTT
1 TCAGTATAGACTTATATGTTTTAATTTTCTTACCTATACCGATGGTTA-AGCACTG
*
22753949 TTAGTATAGACTTATATGTTTTAATTTT
1 TCAGTATAGACTTATATGTTTTAATTTT
22753977 TTTATTATAT
Statistics
Matches: 193, Mismatches: 36, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
47 2 0.01
48 1 0.01
49 28 0.15
50 3 0.02
52 3 0.02
53 2 0.01
55 115 0.60
56 37 0.19
57 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (55 bp):
TCAGTATAGACTTATATGTTTTAATTTTCTTACCTATACCGATGGTTAAGCACTG
Found at i:22753792 original size:56 final size:55
Alignment explanation
Indices: 22753646--22753802 Score: 192
Period size: 55 Copynumber: 2.9 Consensus size: 55
22753636 TATGGACATG
* ** *
22753646 TAATTTT-TTACCTATACTAAC-ATTTAAAGCTCATCAGTATAGATTTATATGTTT
1 TAATTTTCTTACCTATACTAACGA-TTAATGCTTGTCAGTATAGACTTATATGTTT
** * * *
22753700 TAATTTTCTTACCTATACCGATGGTTAATGCATGTCAGTATAGACTTATATGTTT
1 TAATTTTCTTACCTATACTAACGATTAATGCTTGTCAGTATAGACTTATATGTTT
*
22753755 TAATTTCTCTTACCTATACTAACGATTAATGCTTGTCAATATAGACTT
1 TAATTT-TCTTACCTATACTAACGATTAATGCTTGTCAGTATAGACTT
22753803 GTAATTTTTC
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 7 0.08
55 43 0.51
56 35 0.41
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (55 bp):
TAATTTTCTTACCTATACTAACGATTAATGCTTGTCAGTATAGACTTATATGTTT
Found at i:22754868 original size:67 final size:66
Alignment explanation
Indices: 22754797--22754921 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 66
22754787 ACATAAGGTA
** * * *
22754797 AGAAGGCAATCATTGATTCATATACCAATAGAAATAATTTTATAAACATCTTATTCATTCAATAT
1 AGAAGGCAATCATCCATTCATATACCAACA-AAAAAATTTTATAAACATCCTATTCATTCAATAT
22754862 AC
65 AC
* * * * *
22754864 AGAAGGTAATCATCCATTTATATGCCAACAAAAAAATTTTATAGACGTCCTATTCATT
1 AGAAGGCAATCATCCATTCATATACCAACAAAAAAATTTTATAAACATCCTATTCATT
22754922 AGTGTAATGA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
66 24 0.50
67 24 0.50
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.34
Consensus pattern (66 bp):
AGAAGGCAATCATCCATTCATATACCAACAAAAAAATTTTATAAACATCCTATTCATTCAATATA
C
Found at i:22755990 original size:3 final size:3
Alignment explanation
Indices: 22755984--22756020 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
22755974 TAATATTATT
22755984 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22756021 ATATTCACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22756503 original size:18 final size:19
Alignment explanation
Indices: 22756471--22756539 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
22756461 AAGCCAAACA
22756471 ATAAACAATTATATATAAT
1 ATAAACAATTATATATAAT
* *
22756490 ATAGACAA-TATATA-AACA
1 ATAAACAATTATATATAA-T
*
22756508 ATAAACAATTATATCTAAT
1 ATAAACAATTATATATAAT
*
22756527 GTAAACAA-TATAT
1 ATAAACAATTATAT
22756540 GAACAATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
17 2 0.05
18 18 0.44
19 19 0.46
20 2 0.05
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.32
Consensus pattern (19 bp):
ATAAACAATTATATATAAT
Found at i:22756508 original size:37 final size:37
Alignment explanation
Indices: 22756466--22756546 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
22756456 TGAAAAAGCC
*
22756466 AAACAATAAACAATTATATATAATATAGACAATATAT
1 AAACAATAAACAATTATATATAATATAAACAATATAT
* *
22756503 AAACAATAAACAATTATATCTAATGTAAACAATATAT
1 AAACAATAAACAATTATATATAATATAAACAATATAT
*
22756540 GAACAAT
1 AAACAAT
22756547 TATGTATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.28
Consensus pattern (37 bp):
AAACAATAAACAATTATATATAATATAAACAATATAT
Found at i:22756545 original size:30 final size:31
Alignment explanation
Indices: 22756511--22756570 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
22756501 ATAAACAATA
* *
22756511 AACAATTATATCTAATGTAAACAA-TATATG
1 AACAATTATATATAATCTAAACAATTATATG
*
22756541 AACAATTATGTATAATCTAAACAATTATAT
1 AACAATTATATATAATCTAAACAATTATAT
22756571 AAACCTTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (31 bp):
AACAATTATATATAATCTAAACAATTATATG
Found at i:22758098 original size:62 final size:62
Alignment explanation
Indices: 22757999--22758225 Score: 167
Period size: 62 Copynumber: 3.6 Consensus size: 62
22757989 GTAATAGGGA
* * * * * *
22757999 TTATTCAAGGCATTTTTGGCTAGAAAACGTCC-TGAATAATCTTTAGAAAATCTTGGCATACCG
1 TTATTCAAGGCGTTTGTGG-TAAAAAAC-ACCTTGAATAATCTTTAAAAAATCTTGGCATACAG
* * ** * * ***
22758062 TTATTCAAGGCGTTTGTGGTAAAAAACACCTTGAATAATCCCCTT-CAATTTTTTTG-A-GGGG
1 TTATTCAAGGCGTTTGTGGTAAAAAACACCTTGAATAAT--CTTTAAAAAATCTTGGCATACAG
* * * * *
22758123 ATTATTTAAGGTGTTTTTGACT-AAAAACACCTTGAATACTCTTTAAAAAATCTTGGCATACAG
1 -TTATTCAAGGCGTTTGTG-GTAAAAAACACCTTGAATAATCTTTAAAAAATCTTGGCATACAG
* *
22758186 TTATTCAAGGCGTTTGTGGTCAAAAACACCTCGAATAATC
1 TTATTCAAGGCGTTTGTGGTAAAAAACACCTTGAATAATC
22758226 CTCTTCAATT
Statistics
Matches: 122, Mismatches: 33, Indels: 19
0.70 0.19 0.11
Matches are distributed among these distances:
60 3 0.02
61 10 0.08
62 81 0.66
63 25 0.20
64 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (62 bp):
TTATTCAAGGCGTTTGTGGTAAAAAACACCTTGAATAATCTTTAAAAAATCTTGGCATACAG
Found at i:22758216 original size:124 final size:125
Alignment explanation
Indices: 22757995--22758262 Score: 398
Period size: 124 Copynumber: 2.2 Consensus size: 125
22757985 TTAAGTAATA
* * *
22757995 GGGATTATTCAAGGCATTTTTGGCTAGAAAACGTCCTGAATAATCTTTAGAAAATCTTGGCATAC
1 GGGATTATTCAAGGCATTTTTGACTAGAAAACGACCTGAATAATCTTTAAAAAATCTTGGCATAC
* *
22758060 CGTTATTCAAGGCGTTTGTGGTAAAAAACACCTTGAATAATCCCCTTCAATTTTTTTGAG
66 AGTTATTCAAGGCGTTTGTGGTAAAAAACACCTCGAATAATCCCCTTCAATTTTTTTGAG
* ** *
22758120 GGGATTATTTAAGGTGTTTTTGACTA-AAAAC-ACCTTGAATACTCTTTAAAAAATCTTGGCATA
1 GGGATTATTCAAGGCATTTTTGACTAGAAAACGACC-TGAATAATCTTTAAAAAATCTTGGCATA
* *
22758183 CAGTTATTCAAGGCGTTTGTGGTCAAAAACACCTCGAATAATCCTCTTCAATTTTTTTGAG
65 CAGTTATTCAAGGCGTTTGTGGTAAAAAACACCTCGAATAATCCCCTTCAATTTTTTTGAG
*
22758244 GGGA-TATTGAAGGCATTTT
1 GGGATTATTCAAGGCATTTT
22758263 CTGCAAAAAA
Statistics
Matches: 128, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
123 14 0.11
124 92 0.72
125 22 0.17
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (125 bp):
GGGATTATTCAAGGCATTTTTGACTAGAAAACGACCTGAATAATCTTTAAAAAATCTTGGCATAC
AGTTATTCAAGGCGTTTGTGGTAAAAAACACCTCGAATAATCCCCTTCAATTTTTTTGAG
Found at i:22758725 original size:26 final size:26
Alignment explanation
Indices: 22758666--22758717 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
22758656 AATCCCCTTA
22758666 AAATTTTTATGAGTGGATTATTGAAG
1 AAATTTTTATGAGTGGATTATTGAAG
22758692 AAATTTTTATGAGTGGATTATTGAAG
1 AAATTTTTATGAGTGGATTATTGAAG
22758718 GCATTTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (26 bp):
AAATTTTTATGAGTGGATTATTGAAG
Found at i:22759569 original size:26 final size:30
Alignment explanation
Indices: 22759504--22759571 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 30
22759494 TTGAAACCAA
22759504 ATTAATATAATATTTAAATTTAAAAAATTT
1 ATTAATATAATATTTAAATTTAAAAAATTT
* * *
22759534 -TTAGTCTAATATTT-AA-TT-ATAAATTT
1 ATTAATATAATATTTAAATTTAAAAAATTT
22759560 ATTAAT-TAATAT
1 ATTAATATAATAT
22759572 AATACTTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 2 0.06
29 12 0.36
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
ATTAATATAATATTTAAATTTAAAAAATTT
Found at i:22760000 original size:132 final size:133
Alignment explanation
Indices: 22759753--22759993 Score: 308
Period size: 132 Copynumber: 1.8 Consensus size: 133
22759743 TATAACCGTC
* *
22759753 AGTATATAACATATTTATACTGATGGATATTTATATATTATCAAAAAAAGTTTACCTATACCGAC
1 AGTATATAACATACTTATACTGATGGATAGTTATATATTATCAAAAAAAGTTTACCTATACCGAC
* * * * *
22759818 GGTTATACAAAGTGTTGGTATAAGCATTGTCTATACTGACAGTAACAAAAATAGTATAGATAAGT
66 AGTTATACAAAGAGTTAGTATAAGCATGGTATATACTGACAGTAACAAAAATAGTATAGATAAGT
22759883 GTT
131 GTT
* * *
22759886 AGTATATAGCATACTTATACTGAT-GATAGTTATATATTCTCAAAAAAAGTTTATCTATACC-AT
1 AGTATATAACATACTTATACTGATGGATAGTTATATATTATCAAAAAAAGTTTACCTATACCGA-
* * * * *
22759949 TAGTTATATAAAGAGTTAGTA-AAGGTATGGTATATTCTGATAGTA
65 CAGTTATACAAAGAGTTAGTATAA-GCATGGTATATACTGACAGTA
22759994 TTAAAAAACC
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
131 3 0.03
132 66 0.73
133 22 0.24
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (133 bp):
AGTATATAACATACTTATACTGATGGATAGTTATATATTATCAAAAAAAGTTTACCTATACCGAC
AGTTATACAAAGAGTTAGTATAAGCATGGTATATACTGACAGTAACAAAAATAGTATAGATAAGT
GTT
Found at i:22766713 original size:15 final size:15
Alignment explanation
Indices: 22766688--22766721 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
22766678 TGAAAGGAGC
22766688 AAAATAAAGAAAAAAG
1 AAAATAAAG-AAAAAG
22766704 AAAA-AAAGAAAAAG
1 AAAATAAAGAAAAAG
22766718 AAAA
1 AAAA
22766722 GGTGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 4 0.22
16 4 0.22
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAATAAAGAAAAAG
Found at i:22766723 original size:39 final size:38
Alignment explanation
Indices: 22766655--22766741 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 38
22766645 GGGGCATGTT
*
22766655 AAGAAAAAA-AAAACAAAAAAAAGTGAAAGGAGCAAAATA
1 AAGAAAAAAGAAAACAAAAAAAAGTAAAAGGAG-AAAA-A
*
22766694 AAGAAAAAAGAAAA-AAAGAAAAAG-AAAAGGTGAAAAA
1 AAGAAAAAAGAAAACAAA-AAAAAGTAAAAGGAGAAAAA
*
22766731 AAGGAAAAAGA
1 AAGAAAAAAGA
22766742 TAAATGGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
37 11 0.26
38 4 0.09
39 18 0.42
40 10 0.23
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.03
Consensus pattern (38 bp):
AAGAAAAAAGAAAACAAAAAAAAGTAAAAGGAGAAAAA
Found at i:22767810 original size:9 final size:9
Alignment explanation
Indices: 22767798--22767838 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
22767788 AAAAAGATTT
22767798 AAAAAAAAC
1 AAAAAAAAC
22767807 -AAAAAAAC
1 AAAAAAAAC
*
22767815 AAAGAAAAC
1 AAAAAAAAC
22767824 --AAAAAAC
1 AAAAAAAAC
22767831 AAAAAAAA
1 AAAAAAAA
22767839 ATTGCCTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
7 6 0.22
8 8 0.30
9 13 0.48
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:22767812 original size:8 final size:8
Alignment explanation
Indices: 22767799--22767837 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
22767789 AAAAGATTTA
22767799 AAAAAAAC
1 AAAAAAAC
22767807 AAAAAAAC
1 AAAAAAAC
22767815 AAAGAAAAC
1 AAA-AAAAC
22767824 -AAAAAAC
1 AAAAAAAC
22767831 AAAAAAA
1 AAAAAAA
22767838 AATTGCCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 5 0.17
8 19 0.66
9 5 0.17
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:22768677 original size:5 final size:6
Alignment explanation
Indices: 22768656--22768685 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
22768646 AGAAATAGGC
*
22768656 AAAAGG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
22768686 TGGCATGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:22771802 original size:5 final size:5
Alignment explanation
Indices: 22771794--22771834 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
22771784 AATGGGTTAG
*
22771794 AAATA AAATA AAATA AAATA AAAT- CAA-A AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
22771835 ATGAAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:22772698 original size:3 final size:3
Alignment explanation
Indices: 22772672--22772765 Score: 127
Period size: 3 Copynumber: 31.7 Consensus size: 3
22772662 AGAATGAAAA
* * * * *
22772672 AAT AAA AAT AAA AAT AAC AAT AAT AAT AGT AAT AAT AAT AAT AA- CAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
22772719 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22772766 GTATCTAATG
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
2 1 0.01
3 77 0.99
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:22773219 original size:119 final size:119
Alignment explanation
Indices: 22772977--22773514 Score: 535
Period size: 119 Copynumber: 4.5 Consensus size: 119
22772967 TTGAGGTAAC
* * * *
22772977 AAATGAATGATCAGGATGGAACCACGAATCATAAGAAATGATCTGGATTGAGCCAAGA-CTAAGT
1 AAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATCTGGATTGAGCCAAGATC-AAGT
* * *
22773041 GACC-AGATGAAACCACAAGTTAAAATAAAGTGACCAAGACTGAGTCAAGGTCGA
65 GACCGGGATGAAACCACAAGTTAAAATAAAGTGACCAAGACCGAGTCAAGGTCAA
* * * * *
22773095 CAATAAATGATTGGGATGAAACCATGAATTATAAGAAACGATATGGATTGAGCCAAGATCAAGTG
1 AAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATCTGGATTGAGCCAAGATCAAGTG
**
22773160 ACCGGGATGAAACCACAAGTTAAAATAAAACGACCAAGACCGAGTCAAGGTCAA
66 ACCGGGATGAAACCACAAGTTAAAATAAAGTGACCAAGACCGAGTCAAGGTCAA
* * * *
22773214 GAATAAATGATCGAGATGAAACCATAAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAGTG
1 AAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATCTGGATTGAGCCAAGATCAAGTG
* * * * * * * * * * * *
22773279 ATCAGAACGAAACCATAAGTCAAAATAAGGTGACTAGGATCTAGTCAAGGTAAA
66 ACCGGGATGAAACCACAAGTTAAAATAAAGTGACCAAGACCGAGTCAAGGTCAA
* * *
22773333 AAATAAATGATCGGGATGAAACCATTAATCATAAGAAATGATTTGGATTGAGCCAAGATCAAATG
1 AAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATCTGGATTGAGCCAAGATCAAGTG
* * ** * ** * ** * * * ** *
22773398 ATCGGGATAAAATTACAAG-TCAAACGAGGCAATCAGGACTGAGTTGAGGTAAA
66 ACCGGGATGAAACCACAAGTTAAAATAAAGTGACCAAGACCGAGTCAAGGTCAA
* ** * * *
22773451 AAATAAATGATTGACATGGAACCACT-AATCATAAGAAATGGTCTAGATTGAGCCAAGATCAAGT
1 AAATAAATGATCGGGATGAAACCA-TGAATCATAAGAAATGATCTGGATTGAGCCAAGATCAAGT
22773515 AAGTGAGATA
Statistics
Matches: 347, Mismatches: 70, Indels: 6
0.82 0.17 0.01
Matches are distributed among these distances:
118 132 0.38
119 215 0.62
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (119 bp):
AAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATCTGGATTGAGCCAAGATCAAGTG
ACCGGGATGAAACCACAAGTTAAAATAAAGTGACCAAGACCGAGTCAAGGTCAA
Found at i:22773404 original size:56 final size:56
Alignment explanation
Indices: 22773218--22773405 Score: 139
Period size: 56 Copynumber: 3.2 Consensus size: 56
22773208 GGTCAAGAAT
* * * *
22773218 AAATGATCGAGATGAAACCATAAATCATAAGAAATGATCTAGATTGAGCCAAGATC
1 AAATGATCGGGATGAAACCATTAATCATAAGAAATGATTTGGATTGAGCCAAGATC
* * * * * * * * * *
22773274 AAGTGATCAGAACGAAACCA-TAAGTCAAAATAAGGTGACTAGGATCT-AGTCAAGGTAAAAAAT
1 AAATGATCGGGATGAAACCATTAA-TCATAAGAA-ATGATTTGGAT-TGAGCCAA-G------AT
22773337 -
56 C
22773337 AAATGATCGGGATGAAACCATTAATCATAAGAAATGATTTGGATTGAGCCAAGATC
1 AAATGATCGGGATGAAACCATTAATCATAAGAAATGATTTGGATTGAGCCAAGATC
22773393 AAATGATCGGGAT
1 AAATGATCGGGAT
22773406 AAAATTACAA
Statistics
Matches: 95, Mismatches: 24, Indels: 26
0.66 0.17 0.18
Matches are distributed among these distances:
55 4 0.04
56 35 0.37
57 11 0.12
58 2 0.02
61 2 0.02
62 13 0.14
63 23 0.24
64 5 0.05
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.22
Consensus pattern (56 bp):
AAATGATCGGGATGAAACCATTAATCATAAGAAATGATTTGGATTGAGCCAAGATC
Found at i:22781845 original size:220 final size:220
Alignment explanation
Indices: 22781458--22781900 Score: 841
Period size: 220 Copynumber: 2.0 Consensus size: 220
22781448 TTAAAGATTC
*
22781458 AATGATAATGTTATGATAATGAATGCATGAGTGAATGTGATGCAAATGAAAGAAAATAGAAAGTA
1 AATGATAATGTTATGATAATGAATGCATGAGTGAATGTGATGCAAATGAAAGAAAATAGAAAGCA
22781523 AAAGGAAAATATTTGCCCCTTGAAAAAAAAAAGATCCAACAAAAAGAAACTTTCATTTATTCCAC
66 AAAGGAAAATATTTGCCCCTTGAAAAAAAAAAGATCCAACAAAAAGAAACTTTCATTTATTCCAC
* *
22781588 AGAAGTCTATTTTACATCAAACCTAATACTGTTCCTCTATAGAAATGTCTAACTTGCTCATACTA
131 AAAAGTCTATTTTACATCAAACCTAATACTATTCCTCTATAGAAATGTCTAACTTGCTCATACTA
22781653 GTCCTTAGCTTCCTCAATGAAGTTT
196 GTCCTTAGCTTCCTCAATGAAGTTT
22781678 AATGATAATGTTATGATAATGAATGCATGAGTGAATGTGATGCAAATGAAAGAAAATAGAAAGCA
1 AATGATAATGTTATGATAATGAATGCATGAGTGAATGTGATGCAAATGAAAGAAAATAGAAAGCA
* *
22781743 TAAGGAAAATATTTGCCCCTTGAAAAAGAAAAGATCCAACAAAAAGAAACTTTCATTTATTCCAC
66 AAAGGAAAATATTTGCCCCTTGAAAAAAAAAAGATCCAACAAAAAGAAACTTTCATTTATTCCAC
22781808 AAAAGTCTATTTTACATCAAACCTAATACTATTCCTCTATAGAAATGTCTAACTTGCTCATACTA
131 AAAAGTCTATTTTACATCAAACCTAATACTATTCCTCTATAGAAATGTCTAACTTGCTCATACTA
22781873 GTCCTTAGCTTCCTCAATGAAGTTT
196 GTCCTTAGCTTCCTCAATGAAGTTT
22781898 AAT
1 AAT
22781901 AATTTCTGTC
Statistics
Matches: 218, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
220 218 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (220 bp):
AATGATAATGTTATGATAATGAATGCATGAGTGAATGTGATGCAAATGAAAGAAAATAGAAAGCA
AAAGGAAAATATTTGCCCCTTGAAAAAAAAAAGATCCAACAAAAAGAAACTTTCATTTATTCCAC
AAAAGTCTATTTTACATCAAACCTAATACTATTCCTCTATAGAAATGTCTAACTTGCTCATACTA
GTCCTTAGCTTCCTCAATGAAGTTT
Found at i:22785353 original size:18 final size:18
Alignment explanation
Indices: 22785313--22785353 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
22785303 GAAAACCCAG
*
22785313 AAAAACCCAAAAAAATTC
1 AAAAACCCAAAAAAATTA
*
22785331 AAAAATCCAAAAAAATTA
1 AAAAACCCAAAAAAATTA
22785349 AAAAA
1 AAAAA
22785354 AATTCCTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAAACCCAAAAAAATTA
Found at i:22785777 original size:6 final size:6
Alignment explanation
Indices: 22785766--22785852 Score: 122
Period size: 6 Copynumber: 14.7 Consensus size: 6
22785756 AAAGGAAACG
* * * * *
22785766 ATAA-A ATAAAA ATAAAA ATAAAA ATAACA ATAATA ATAGTA ATAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
22785813 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAA
22785853 AAGTATCTAT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
5 4 0.05
6 73 0.95
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (6 bp):
ATAATA
Found at i:22785808 original size:9 final size:9
Alignment explanation
Indices: 22785766--22785852 Score: 122
Period size: 9 Copynumber: 9.8 Consensus size: 9
22785756 AAAGGAAACG
22785766 ATAA-AATA
1 ATAATAATA
* *
22785774 AAAATAAAA
1 ATAATAATA
*
22785783 ATAAAAATA
1 ATAATAATA
*
22785792 ACAATAATA
1 ATAATAATA
*
22785801 ATAGTAATA
1 ATAATAATA
22785810 ATAATAATA
1 ATAATAATA
22785819 ATAATAATA
1 ATAATAATA
22785828 ATAATAATA
1 ATAATAATA
22785837 ATAATAATA
1 ATAATAATA
22785846 ATAATAA
1 ATAATAA
22785853 AAGTATCTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
8 3 0.04
9 65 0.96
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (9 bp):
ATAATAATA
Found at i:22793291 original size:10 final size:10
Alignment explanation
Indices: 22793274--22793306 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22793264 ATCTTTAAAG
22793274 AGAAAAAAGAA
1 AGAAAAAA-AA
22793285 A-AAAAAAAA
1 AGAAAAAAAA
22793294 AGAAAAAAAA
1 AGAAAAAAAA
22793304 AGA
1 AGA
22793307 GAGGCTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.14
10 17 0.81
11 1 0.05
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:22793294 original size:13 final size:13
Alignment explanation
Indices: 22793276--22793304 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
22793266 CTTTAAAGAG
22793276 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
22793289 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
22793302 AAA
1 AAA
22793305 GAGAGGCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:22795337 original size:53 final size:51
Alignment explanation
Indices: 22795263--22795495 Score: 272
Period size: 50 Copynumber: 4.5 Consensus size: 51
22795253 TGGCTCCTTT
* * *
22795263 TAAATAGAGGCTTTGACACTTTTCAAAAAATCTTATTTGAAAATGGCTCCCCC
1 TAAACAGAGGCTTTGAAACTTTT--AAAAATCTTATTTGAAAATGGTTCCCCC
* * * *
22795316 TAAACAGAGGCATTAAAAC-TTTAAAAATCTTGTTTGAAAATGGTTCCCTC
1 TAAACAGAGGCTTTGAAACTTTTAAAAATCTTATTTGAAAATGGTTCCCCC
* * *
22795366 TAAACAGAGTCTTTGACAGTTTTAAAAAAATCTTATTTGAAAATGGTTCCCCC
1 TAAACAGAGGCTTTGAAACTTTT--AAAAATCTTATTTGAAAATGGTTCCCCC
* * * *
22795419 TAAACTGAGGCTTTG-AACCTTTAAAAATCTTGTTTGAAAATGGTTTCCCC
1 TAAACAGAGGCTTTGAAACTTTTAAAAATCTTATTTGAAAATGGTTCCCCC
* *
22795469 TAAACGGAGGCTTTGAAACTTTGAAAA
1 TAAACAGAGGCTTTGAAACTTTTAAAA
22795496 TGGCTCCCCT
Statistics
Matches: 152, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
50 79 0.52
51 12 0.08
52 7 0.05
53 54 0.36
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (51 bp):
TAAACAGAGGCTTTGAAACTTTTAAAAATCTTATTTGAAAATGGTTCCCCC
Found at i:22795358 original size:103 final size:103
Alignment explanation
Indices: 22795231--22795495 Score: 343
Period size: 103 Copynumber: 2.6 Consensus size: 103
22795221 GCATTGAAGA
* * * * * *
22795231 TTTAAAACGTCTTGTTTAAAAATGGCTCCTTTTAAATAGAGGCTTTGACACTTTTCAAAAAATCT
1 TTTAAAA-ATCTTGTTTGAAAATGGCTCCCTCTAAACAGAGGCTTTGACACTTTTAAAAAAATCT
22795296 TATTTGAAAATGGCTCCCCCTAAACAGAGGCATTAAAAC
65 TATTTGAAAATGGCTCCCCCTAAACAGAGGCATTAAAAC
* * *
22795335 TTTAAAAATCTTGTTTGAAAATGGTTCCCTCTAAACAGAGTCTTTGACAGTTTTAAAAAAATCTT
1 TTTAAAAATCTTGTTTGAAAATGGCTCCCTCTAAACAGAGGCTTTGACACTTTTAAAAAAATCTT
* * * * *
22795400 ATTTGAAAATGGTTCCCCCTAAACTGAGGCTTTGAACC
66 ATTTGAAAATGGCTCCCCCTAAACAGAGGCATTAAAAC
* * * *
22795438 TTTAAAAATCTTGTTTGAAAATGGTTTCCC-CTAAACGGAGGCTTTGAAACTTTGAAAA
1 TTTAAAAATCTTGTTTGAAAATGG-CTCCCTCTAAACAGAGGCTTTGACACTTTTAAAA
22795496 TGGCTCCCCT
Statistics
Matches: 141, Mismatches: 19, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
103 129 0.91
104 12 0.09
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (103 bp):
TTTAAAAATCTTGTTTGAAAATGGCTCCCTCTAAACAGAGGCTTTGACACTTTTAAAAAAATCTT
ATTTGAAAATGGCTCCCCCTAAACAGAGGCATTAAAAC
Found at i:22795516 original size:37 final size:37
Alignment explanation
Indices: 22795451--22795527 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
22795441 AAAAATCTTG
* *
22795451 TTTGAAAATGGTTTCCCCTAAACGGAGGCTTTGAAAC
1 TTTGAAAATGGTCTCCCCTAAACAGAGGCTTTGAAAC
*
22795488 TTTGAAAATGG-CTCCCCTTAAATAGAGGCTTTGAAAC
1 TTTGAAAATGGTCTCCCC-TAAACAGAGGCTTTGAAAC
22795525 TTT
1 TTT
22795528 TTAAAAAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 5 0.14
37 31 0.86
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (37 bp):
TTTGAAAATGGTCTCCCCTAAACAGAGGCTTTGAAAC
Found at i:22795582 original size:36 final size:38
Alignment explanation
Indices: 22795542--22795624 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 38
22795532 AAAACTTTTG
* * * *
22795542 TTTGAAAATTG-CTCTC-CTAAACATAGGTTTTGAAAT
1 TTTGAAAATTGTCTCCCTCTAAACAGAAGTTTTGAAAC
22795578 TTTGAAAA-TGTCTCCCTCTAAACAGAAGTTTTGAAAC
1 TTTGAAAATTGTCTCCCTCTAAACAGAAGTTTTGAAAC
*
22795615 TTTAAAAATT
1 TTTGAAAATT
22795625 TAAAATATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
35 2 0.05
36 12 0.31
37 24 0.62
38 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (38 bp):
TTTGAAAATTGTCTCCCTCTAAACAGAAGTTTTGAAAC
Found at i:22795585 original size:90 final size:89
Alignment explanation
Indices: 22795401--22795617 Score: 228
Period size: 90 Copynumber: 2.4 Consensus size: 89
22795391 AAAAATCTTA
* * *
22795401 TTTGAAAATGGTTCCCCCTAAACT-GAGGCTTTG-AAC-CTTTAAAAATCTTGTTTGAAAATGGT
1 TTTGAAAATGGCTCCCCTTAAA-TAGAGGCTTTGAAACTTTTTAAAAATCTTGTTTGAAAATGGT
* *
22795463 TTCCCCTAAACGGAGGCTTTGAAAC
65 CTCCCCTAAACAGAGGCTTTGAAAC
* *
22795488 TTTGAAAATGGCTCCCCTTAAATAGAGGCTTTGAAACTTTTTAAAAAACTTTTGTTTGAAAATTG
1 TTTGAAAATGGCTCCCCTTAAATAGAGGCTTTGAAACTTTTT-AAAAA-TCTTGTTTGAAAATGG
* * * *
22795553 -CTCTCCTAAACATAGGTTTTGAAAT
64 TCTCCCCTAAACAGAGGCTTTGAAAC
* * * *
22795578 TTTGAAAATGTCT-CCCTCTAAACAGAAGTTTTGAAACTTT
1 TTTGAAAATGGCTCCCCT-TAAATAGAGGCTTTGAAACTTT
22795618 AAAAATTTAA
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
86 1 0.01
87 29 0.27
88 3 0.03
89 7 0.06
90 55 0.50
91 14 0.13
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (89 bp):
TTTGAAAATGGCTCCCCTTAAATAGAGGCTTTGAAACTTTTTAAAAATCTTGTTTGAAAATGGTC
TCCCCTAAACAGAGGCTTTGAAAC
Found at i:22796352 original size:128 final size:128
Alignment explanation
Indices: 22796180--22796415 Score: 350
Period size: 128 Copynumber: 1.8 Consensus size: 128
22796170 AAGTGATACG
22796180 AATGCAAATGTCTTTTTTTTTGTGATGCAGATGCAAATGATACAAATGCAAATGTCTTTTTTGTG
1 AATGCAAATGTCTTTTTTTTTGTGATGCAGATGCAAATGATACAAATGCAAATGTCTTTTTTGTG
* * * *
22796245 ATGTACAATTGAATACAAATTTCTTT-TCCATGATGCACATGCAAGTACAAATGTGAGCAATGTA
66 ATGTA-AAGTGAATACAAATATCTTTCT-CATGATACACACGCAAGTACAAATGTGAGCAATGTA
* * * **
22796309 AATGCGAATGTC-TTTTTTTTGTGATGTAGATGCAAGTGATACAAATGTGAATGTCTTTTTTGTG
1 AATGCAAATGTCTTTTTTTTTGTGATGCAGATGCAAATGATACAAATGCAAATGTCTTTTTTGTG
*
22796373 ATGTAAAGTGAATGCAAATATCTTTCTCATGATACACACGCAA
66 ATGTAAAGTGAATACAAATATCTTTCTCATGATACACACGCAA
22796416 AAGTATGAAT
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
127 31 0.32
128 54 0.56
129 11 0.11
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (128 bp):
AATGCAAATGTCTTTTTTTTTGTGATGCAGATGCAAATGATACAAATGCAAATGTCTTTTTTGTG
ATGTAAAGTGAATACAAATATCTTTCTCATGATACACACGCAAGTACAAATGTGAGCAATGTA
Found at i:22796453 original size:128 final size:127
Alignment explanation
Indices: 22796192--22796456 Score: 327
Period size: 128 Copynumber: 2.1 Consensus size: 127
22796182 TGCAAATGTC
*
22796192 TTTTTTTTTGTGATGCAGATGCAAATGATACAAATGCAAATGTCTTTTTTGTGATGTACAATTGA
1 TTTTTTTTTGTGATGCAGATGCAAATGATACAAATGCAAATGTCTTTTTTGTGATGTACAAGTGA
* * * * * *
22796257 ATACAAATTTCTTTTCCATGATGCACATGCAAGTACAAATGTGAGCAATGTAAATGCGAATG
66 ATACAAATATCTTTTCCATGATACACACGCAAGTACAAATATGAGCAATGGAAATACGAATG
* * **
22796319 TCTTTTTTTTGTGATGTAGATGCAAGTGATACAAATGTGAATGTCTTTTTTGTGATGTA-AAGTG
1 T-TTTTTTTTGTGATGCAGATGCAAATGATACAAATGCAAATGTCTTTTTTGTGATGTACAAGTG
* ** ** *
22796383 AATGCAAATATC-TTTCTCATGATACACACGCAAAAGTATGAATATGAGTGATGGAAATATGAAT
65 AATACAAATATCTTTTC-CATGATACACACGC--AAGTACAAATATGAGCAATGGAAATACGAAT
22796447 G
127 G
22796448 TTTTTTTTT
1 TTTTTTTTT
22796457 ATTTTTTTAT
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
126 4 0.03
127 27 0.23
128 61 0.52
129 25 0.21
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (127 bp):
TTTTTTTTTGTGATGCAGATGCAAATGATACAAATGCAAATGTCTTTTTTGTGATGTACAAGTGA
ATACAAATATCTTTTCCATGATACACACGCAAGTACAAATATGAGCAATGGAAATACGAATG
Found at i:22796521 original size:15 final size:15
Alignment explanation
Indices: 22796501--22796548 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
22796491 TGTCTTTCTC
*
22796501 ATGATGCACATGCAA
1 ATGATGCAAATGCAA
22796516 ATGATGCAAATGCAA
1 ATGATGCAAATGCAA
22796531 ATGATGCAAATGCAA
1 ATGATGCAAATGCAA
22796546 ATG
1 ATG
22796549 CCTTTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (15 bp):
ATGATGCAAATGCAA
Found at i:22796669 original size:12 final size:13
Alignment explanation
Indices: 22796648--22796675 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22796638 AAATGCTTTA
22796648 TTTTGTTTTTTTT
1 TTTTGTTTTTTTT
22796661 TTTTGTTTTTTTT
1 TTTTGTTTTTTTT
22796674 TT
1 TT
22796676 GTAGTATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (13 bp):
TTTTGTTTTTTTT
Found at i:22797212 original size:83 final size:83
Alignment explanation
Indices: 22797074--22797322 Score: 264
Period size: 83 Copynumber: 3.0 Consensus size: 83
22797064 TTGCAAATTA
* * *
22797074 ATGATTA-TATTTGGAATGCTTGTGGATGTGGTGATT-AGCAATTCAA-TTTTTTCACTGGTGGA
1 ATGATTACTATTTGGAATACTTGTGGATG-GGTGATTGA-TAATTCAATTTTTTTCACTAG-GGA
22797136 -CATATTTCGAA-GAAGGCTCG
63 GCATATTT-GAAGGAAGGCTCG
* *
22797156 ATGATTACTATTTGGAATACTTGTGGATGGATGATTGATAATTTAATTTTTTTCACTAGGGAGCA
1 ATGATTACTATTTGGAATACTTGTGGATGGGTGATTGATAATTCAATTTTTTTCACTAGGGAGCA
* *
22797221 TATTTTAAGGAAGGCTTG
66 TATTTGAAGGAAGGCTCG
* *
22797239 ATGATTACTATTTGGAA-AGTTTATGGATGGGGTGATTGATAATTCAA--TTTTTCAACTAGAGG
1 ATGATTACTATTTGGAATA-CTTGTGGAT-GGGTGATTGATAATTCAATTTTTTTC-ACTAG-GG
* *
22797301 -GCATATTTCAAGGAATGCTCG
62 AGCATATTTGAAGGAAGGCTCG
22797322 A
1 A
22797323 GAAGGCTACA
Statistics
Matches: 144, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
82 31 0.22
83 95 0.66
84 18 0.12
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (83 bp):
ATGATTACTATTTGGAATACTTGTGGATGGGTGATTGATAATTCAATTTTTTTCACTAGGGAGCA
TATTTGAAGGAAGGCTCG
Found at i:22798793 original size:11 final size:11
Alignment explanation
Indices: 22798766--22798805 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
22798756 GAGATAAAAG
22798766 GTTTTTTTTTCT
1 GTTTTTTTTT-T
*
22798778 ATTTTTTTTTT
1 GTTTTTTTTTT
*
22798789 GTTTTTTGTTT
1 GTTTTTTTTTT
22798800 GTTTTT
1 GTTTTT
22798806 GTGTTATGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:22801791 original size:3 final size:3
Alignment explanation
Indices: 22801783--22801839 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
22801773 CGTTTCCCTT
* * * * * * *
22801783 TTA TTA TTA TTG TTG TTA TTA TTG TTG TTG TTG TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22801831 TTA TTA TTA
1 TTA TTA TTA
22801840 GTAGGAATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22806801 original size:13 final size:13
Alignment explanation
Indices: 22806742--22806845 Score: 81
Period size: 13 Copynumber: 8.2 Consensus size: 13
22806732 CATAAATCCT
22806742 AAATGAAACCCTA
1 AAATGAAACCCTA
* *
22806755 AAATAAAATCC-A
1 AAATGAAACCCTA
* *
22806767 AAA-CAAAACCT-
1 AAATGAAACCCTA
*
22806778 TAATGCAAAACCCTA
1 AAATG--AAACCCTA
22806793 AAATGAAACCCTA
1 AAATGAAACCCTA
**
22806806 ATGTGAAACCCTA
1 AAATGAAACCCTA
22806819 AAATGAAACCCT-
1 AAATGAAACCCTA
* *
22806831 ATATAAAACCCTA
1 AAATGAAACCCTA
22806844 AA
1 AA
22806846 CCCTAGTTAA
Statistics
Matches: 70, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
11 7 0.10
12 14 0.20
13 39 0.56
14 6 0.09
15 4 0.06
ACGTcount: A:0.54, C:0.23, G:0.06, T:0.17
Consensus pattern (13 bp):
AAATGAAACCCTA
Found at i:22806845 original size:25 final size:26
Alignment explanation
Indices: 22806742--22806845 Score: 113
Period size: 26 Copynumber: 4.1 Consensus size: 26
22806732 CATAAATCCT
* *
22806742 AAATGAAACCCTAAAATAAAATCC-A
1 AAATGAAACCCTAATATAAAACCCTA
** * **
22806767 AAACAAAACCTTAATGCAAAACCCTA
1 AAATGAAACCCTAATATAAAACCCTA
* *
22806793 AAATGAAACCCTAATGTGAAACCCTA
1 AAATGAAACCCTAATATAAAACCCTA
22806819 AAATGAAACCCT-ATATAAAACCCTA
1 AAATGAAACCCTAATATAAAACCCTA
22806844 AA
1 AA
22806846 CCCTAGTTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
25 30 0.47
26 34 0.53
ACGTcount: A:0.54, C:0.23, G:0.06, T:0.17
Consensus pattern (26 bp):
AAATGAAACCCTAATATAAAACCCTA
Found at i:22806848 original size:19 final size:19
Alignment explanation
Indices: 22806824--22806885 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
22806814 CCCTAAAATG
22806824 AAACCCTATATAAAACCCT
1 AAACCCTATATAAAACCCT
* *
22806843 AAACCCTAGT-TAAAATCTCA
1 AAACCCTA-TATAAAA-CCCT
*
22806863 AAACCCTAATATGAAACCCT
1 AAACCCT-ATATAAAACCCT
22806883 AAA
1 AAA
22806886 ACAAAATCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 13 0.38
20 16 0.47
21 5 0.15
ACGTcount: A:0.48, C:0.27, G:0.03, T:0.21
Consensus pattern (19 bp):
AAACCCTATATAAAACCCT
Found at i:22806883 original size:65 final size:65
Alignment explanation
Indices: 22806798--22806936 Score: 170
Period size: 65 Copynumber: 2.1 Consensus size: 65
22806788 CCCTAAAATG
* ** * * * *
22806798 AAACCCTAATGTGAAACCCTAAAATGAAACCCTATATAAAACCCTAAACCCTAGTTAAAATCTCA
1 AAACCCTAATATGAAACCCTAAAACAAAACCCTAGATAAAACCCTAAACCCTAGGTAAAAACCCA
* * ** *
22806863 AAACCCTAATATGAAACCCTAAAACAAAATCCTAGGTGCAACCTTAAACCCTAGGTAAAAACCCA
1 AAACCCTAATATGAAACCCTAAAACAAAACCCTAGATAAAACCCTAAACCCTAGGTAAAAACCCA
22806928 AAACCCTAA
1 AAACCCTAA
22806937 AACAAAATCC
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.47, C:0.27, G:0.07, T:0.19
Consensus pattern (65 bp):
AAACCCTAATATGAAACCCTAAAACAAAACCCTAGATAAAACCCTAAACCCTAGGTAAAAACCCA
Found at i:22808016 original size:44 final size:45
Alignment explanation
Indices: 22807948--22808036 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 45
22807938 TGTGTTTTTG
** *
22807948 TGATTTTAAATGATTATGTTTAGCAAT-GTGTCTCTAGACCGATA
1 TGATTTTAAATGATTACATCTAGCAATCGTGTCTCTAGACCGATA
*
22807992 TGATTTTAAATGATTACATCTAGCAATCGTGTCTCTAGACTGATA
1 TGATTTTAAATGATTACATCTAGCAATCGTGTCTCTAGACCGATA
22808037 CATTATGACA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 24 0.60
45 16 0.40
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (45 bp):
TGATTTTAAATGATTACATCTAGCAATCGTGTCTCTAGACCGATA
Found at i:22817368 original size:56 final size:56
Alignment explanation
Indices: 22817282--22817393 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
22817272 CCTACGACAG
22817282 CCAAATCCTCTAAATTATTTTGTGTAAGATTCAAATGTACTTTTTCAAACAACCTT
1 CCAAATCCTCTAAATTATTTTGTGTAAGATTCAAATGTACTTTTTCAAACAACCTT
22817338 CCAAATCCTCTAAATTATTTTGTGTAAGATTCAAATGTACTTTTTCAAACAACCTT
1 CCAAATCCTCTAAATTATTTTGTGTAAGATTCAAATGTACTTTTTCAAACAACCTT
22817394 GACACATAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (56 bp):
CCAAATCCTCTAAATTATTTTGTGTAAGATTCAAATGTACTTTTTCAAACAACCTT
Found at i:22819846 original size:3 final size:3
Alignment explanation
Indices: 22819838--22819877 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
22819828 CTTAAATTTA
22819838 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22819878 GTCATAACGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:22820567 original size:60 final size:58
Alignment explanation
Indices: 22820386--22820781 Score: 548
Period size: 60 Copynumber: 6.8 Consensus size: 58
22820376 TGCTTTTGTA
* *
22820386 CAAGGAAAATTGATACTTTCAACTTTTCC-CAAAAACATTTTTTAG-AAACTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAC-TTATTTT
* * * **
22820443 CAAGGAAAATTGATACTTTCAAATTTTCCTAAAAAAAAACCTTTTATG-AAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTA-GAAAACTTATTTT
*
22820502 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG--AAAACTTATTTT
* *
22820562 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* *
22820620 CAAGGAAAATTAATACTTTCAACTTTTCTTCAAAAATATTTTTTAGAAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG--AAAACTTATTTT
* * *
22820680 CAAGGAAAATTGATACTTTTAACTTTTACTCAAAAA-ATTTTTTAGATAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
*
22820737 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
22820782 TTAATTTTTA
Statistics
Matches: 302, Mismatches: 27, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
57 73 0.24
58 67 0.22
59 59 0.20
60 103 0.34
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
Found at i:22820636 original size:118 final size:116
Alignment explanation
Indices: 22820386--22820781 Score: 566
Period size: 118 Copynumber: 3.4 Consensus size: 116
22820376 TGCTTTTGTA
* *
22820386 CAAGGAAAATTGATACTTTCAACTTTTCC-CAAAAACATTTTTTAG---AAACTTTAATTTCAAG
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAAC-TTATTTTCAAG
* * **
22820447 GAAAATTGATACTTTCAAATTTTCCTAAAAAAAAACCTTTTATGAAACTTATTTT
65 GAAAATTGATACTTTCAACTTTTCC--ACAAAAAATTTTTTA-GAAACTTATTTT
*
22820502 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAACTTATTTTCAAGG
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAACTTATTTTCAAGG
*
22820567 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAGCTTATTTT
66 AAAATTGATACTTTCAACTTTTCCACAAAAA-ATTTTTTAGAAA-CTTATTTT
* *
22820620 CAAGGAAAATTAATACTTTCAACTTTTCTTCAAAAATATTTTTTAGAAAAAACTTATTTTCAAGG
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAACTTATTTTCAAGG
* * *
22820685 AAAATTGATACTTTTAACTTTTACTCAAAAAATTTTTTAGATAACTTATTTT
66 AAAATTGATACTTTCAACTTTTCCACAAAAAATTTTTTAGA-AACTTATTTT
*
22820737 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
22820782 TTAATTTTTA
Statistics
Matches: 255, Mismatches: 17, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
116 28 0.11
117 78 0.31
118 111 0.44
119 34 0.13
120 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (116 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAACTTATTTTCAAGG
AAAATTGATACTTTCAACTTTTCCACAAAAAATTTTTTAGAAACTTATTTT
Found at i:22820704 original size:30 final size:30
Alignment explanation
Indices: 22820670--22820761 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
22820660 TTTTAGAAAA
22820670 AACTTATTTTCAAGGAAAATTGATACTTTT
1 AACTTATTTTCAAGGAAAATTGATACTTTT
*
22820700 AACTT-TTACTCAA--AAAATT--T--TTTAGAT
1 AACTTATT-TTCAAGGAAAATTGATACTTT---T
*
22820727 AACTTATTTTCAAGGAAAATTGATACTTTC
1 AACTTATTTTCAAGGAAAATTGATACTTTT
22820757 AACTT
1 AACTT
22820762 TTCCTTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 22
0.66 0.04 0.30
Matches are distributed among these distances:
24 3 0.06
26 1 0.02
27 10 0.21
28 8 0.17
29 8 0.17
30 14 0.29
31 1 0.02
33 3 0.06
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (30 bp):
AACTTATTTTCAAGGAAAATTGATACTTTT
Found at i:22820821 original size:11 final size:11
Alignment explanation
Indices: 22820805--22820840 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
22820795 AAAGAAAATT
22820805 AATAAAATAAA
1 AATAAAATAAA
*
22820816 AATAAAGAAAAA
1 AATAAA-ATAAA
22820828 AATAAAATAAA
1 AATAAAATAAA
22820839 AA
1 AA
22820841 GTACTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:22820835 original size:23 final size:24
Alignment explanation
Indices: 22820794--22820840 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
22820784 AATTTTTATT
*
22820794 TAAAGAAAATTAATAAAATAAAAA
1 TAAAGAAAATAAATAAAATAAAAA
22820818 TAAAGAAAA-AAATAAAATAAAAA
1 TAAAGAAAATAAATAAAATAAAAA
22820841 GTACTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (24 bp):
TAAAGAAAATAAATAAAATAAAAA
Found at i:22820905 original size:18 final size:18
Alignment explanation
Indices: 22820868--22820924 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
22820858 TCTGATCAAT
22820868 AAATAATAATAATAATAAA
1 AAATAATAA-AATAATAAA
*
22820887 ATA-AATAAACA-AATAAA
1 AAATAATAAA-ATAATAAA
22820904 AAATAATAAAATAATAAA
1 AAATAATAAAATAATAAA
22820922 AAA
1 AAA
22820925 AACCTTGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
17 10 0.30
18 21 0.64
19 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (18 bp):
AAATAATAAAATAATAAA
Found at i:22821192 original size:16 final size:16
Alignment explanation
Indices: 22821173--22821214 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
22821163 TTTTAGCAGA
22821173 TCTCTCCTCCCTTCTC
1 TCTCTCCTCCCTTCTC
*
22821189 TCTCT--TCCCTTCTT
1 TCTCTCCTCCCTTCTC
*
22821203 TTTCTCCTCCCT
1 TCTCTCCTCCCT
22821215 CTTTCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.55
16 10 0.45
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
TCTCTCCTCCCTTCTC
Found at i:22821777 original size:21 final size:21
Alignment explanation
Indices: 22821746--22821836 Score: 96
Period size: 22 Copynumber: 4.3 Consensus size: 21
22821736 AAATCAAATC
*
22821746 AAATAAAAAAATGTTAATAGAT
1 AAAT-AAAAAATATTAATAGAT
* *
22821768 AATTAAAAAA-AATAATTAGAT
1 AAATAAAAAATATTAA-TAGAT
22821789 AAAT-AAAAATATTAATAGAT
1 AAATAAAAAATATTAATAGAT
* *
22821809 AAATAATAATATATAAATAGAT
1 AAATAA-AAAATATTAATAGAT
22821831 AAATAA
1 AAATAA
22821837 TAATAAATAC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
20 17 0.29
21 19 0.33
22 22 0.38
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AAATAAAAAATATTAATAGAT
Found at i:22821794 original size:4 final size:4
Alignment explanation
Indices: 22821777--22821963 Score: 74
Period size: 4 Copynumber: 48.2 Consensus size: 4
22821767 TAATTAAAAA
* * * * *
22821777 AAAT AATT AGAT AAAT AAA- AATAT TAAT AGAT AAAT -AAT -AAT ATAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
22821823 AAAT AGAT AAAT -AAT -AAT AAAT ACAA- AATAT ACAT -AAT ATAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AA-AT AAAT AAAT AAAT AAAT
* * * * * *
22821869 AGAT AAAT -AAT -AAT AAAT ATAT -ATT TAAT AGAT AAAT AATAA AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT
* * * *
22821915 AAAT ATAT ACAT TAAT AAAT AGTAAT -AAT AAAT AAAT AAGT -AAT AAAT
1 AAAT AAAT AAAT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT
22821963 A
1 A
22821964 CATTAGATAC
Statistics
Matches: 134, Mismatches: 34, Indels: 30
0.68 0.17 0.15
Matches are distributed among these distances:
3 29 0.22
4 95 0.71
5 7 0.05
6 3 0.02
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (4 bp):
AAAT
Found at i:22821831 original size:42 final size:42
Alignment explanation
Indices: 22821752--22821883 Score: 144
Period size: 42 Copynumber: 3.2 Consensus size: 42
22821742 AATCAAATAA
* * * * *
22821752 AAAAATGTTAATAGATAATTAA-AAAAAATAATTAGATAAAT
1 AAAAATATTAATAGATAAATAATAATATATAAATAGATAAAT
22821793 AAAAATATTAATAGATAAATAATAATATATAAATAGATAAAT
1 AAAAATATTAATAGATAAATAATAATATATAAATAGATAAAT
* * *
22821835 AATAATA--AATACAAAATATACATAATATATAAATAGATAAAT
1 AAAAATATTAATAGATAA-ATA-ATAATATATAAATAGATAAAT
*
22821877 AATAATA
1 AAAAATA
22821884 AATATATATT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
40 7 0.09
41 23 0.29
42 50 0.62
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (42 bp):
AAAAATATTAATAGATAAATAATAATATATAAATAGATAAAT
Found at i:22821875 original size:64 final size:63
Alignment explanation
Indices: 22821761--22821963 Score: 169
Period size: 64 Copynumber: 3.1 Consensus size: 63
22821751 AAAAAATGTT
* * ** * * * * *
22821761 AATAGATAATTAAAAAAAATAATTAGATAAATAAAAATATTAATAGATAAATAATAATATATA
1 AATAGATAAATAATAAAAATAAAAATATACATTAATATATAAATAGATAAATAATAATATATA
22821824 AATAGATAAATAATAATAAATACAAAATATACA-TAATATATAAATAGATAAATAATAATAAATA
1 AATAGATAAATAATAA-AAATA-AAAATATACATTAATATATAAATAGAT--A-AATAAT-AATA
22821888 TATA
60 TATA
* *
22821892 TTTAATAGATAAATAATAAAAATAAATATATACATTAATAAATAGTAATA-ATAAATAAATAAGT
1 ---AATAGATAAATAATAAAAATAAAAATATACATTAATATATA--AATAGATAAAT-AATAA-T
22821956 A-ATA
59 ATATA
22821960 AATA
1 AATA
22821964 CATTAGATAC
Statistics
Matches: 115, Mismatches: 11, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
63 14 0.12
64 18 0.16
65 10 0.09
66 1 0.01
67 6 0.05
68 16 0.14
69 15 0.13
70 13 0.11
71 18 0.16
72 4 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (63 bp):
AATAGATAAATAATAAAAATAAAAATATACATTAATATATAAATAGATAAATAATAATATATA
Found at i:22821904 original size:29 final size:30
Alignment explanation
Indices: 22821799--22821948 Score: 110
Period size: 32 Copynumber: 4.8 Consensus size: 30
22821789 AAATAAAAAT
* * *
22821799 ATTAATAGATAAATAATAATATATAAATAG
1 ATTAATAGATAAATAATAATAAATATATAC
* *
22821829 ATAAATAATA-ATAAATACAAAATATACATA-ATAT
1 AT---TAATAGATAAATA-ATAATA-A-ATATATAC
*
22821863 ATAAATAGATAAATAATAATAAATATATA-
1 ATTAATAGATAAATAATAATAAATATATAC
*
22821892 TTTAATAGATAAATAATAAAAATAAATATATAC
1 ATTAATAGATAAATAAT---AATAAATATATAC
* *
22821925 ATTAATAAAT-AGTAATAATAAATA
1 ATTAATAGATAAATAATAATAAATA
22821949 AATAAGTAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 25
0.74 0.08 0.19
Matches are distributed among these distances:
29 26 0.27
30 6 0.06
31 9 0.09
32 31 0.32
33 18 0.18
34 5 0.05
35 3 0.03
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
ATTAATAGATAAATAATAATAAATATATAC
Found at i:22821909 original size:22 final size:22
Alignment explanation
Indices: 22821784--22821909 Score: 78
Period size: 22 Copynumber: 5.6 Consensus size: 22
22821774 AAAAAATAAT
*
22821784 TAGATAAATAA-AAATA-TTAA
1 TAGATAAATAATATATATTTAA
*
22821804 TAGATAAATAATA-ATATATAAA
1 TAGATAAATAATATATAT-TTAA
* **
22821826 TAGATAAATAATAATAAATACAA
1 TAGATAAATAAT-ATATATTTAA
* * * **
22821849 AATATACATAATATATAAATAGA
1 TAGATAAATAATATATATTTA-A
*
22821872 TAAATAATAATAAATATATATTTAA
1 TAGAT-A-AAT-AATATATATTTAA
22821897 TAGATAAATAATA
1 TAGATAAATAATA
22821910 AAAATAAATA
Statistics
Matches: 81, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
20 14 0.17
21 1 0.01
22 25 0.31
23 19 0.23
24 5 0.06
25 7 0.09
26 10 0.12
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (22 bp):
TAGATAAATAATATATATTTAA
Found at i:22821959 original size:7 final size:7
Alignment explanation
Indices: 22821787--22821963 Score: 97
Period size: 7 Copynumber: 25.0 Consensus size: 7
22821777 AAATAATTAG
22821787 ATAAATA
1 ATAAATA
22821794 A-AAAT-
1 ATAAATA
*
22821799 ATTAATA
1 ATAAATA
22821806 GATAAATA
1 -ATAAATA
22821814 AT-AATA
1 ATAAATA
22821820 TATAAATA
1 -ATAAATA
22821828 GATAAATA
1 -ATAAATA
22821836 AT-AATAA
1 ATAAAT-A
22821843 ATACAA-A
1 ATA-AATA
22821850 AT--ATA
1 ATAAATA
22821855 CAT-AATA
1 -ATAAATA
22821862 TATAAATA
1 -ATAAATA
22821870 GATAAATA
1 -ATAAATA
22821878 AT-AATAA
1 ATAAAT-A
*
22821885 ATATATA
1 ATAAATA
* *
22821892 TTTAATA
1 ATAAATA
22821899 GATAAATA
1 -ATAAATA
22821907 ATAAA-A
1 ATAAATA
22821913 ATAAATA
1 ATAAATA
*
22821920 TATACATTA
1 -ATA-AATA
22821929 ATAAATA
1 ATAAATA
*
22821936 GT-AATA
1 ATAAATA
22821942 ATAAATAA
1 ATAAAT-A
*
22821950 ATAAGTA
1 ATAAATA
22821957 ATAAATA
1 ATAAATA
22821964 CATTAGATAC
Statistics
Matches: 133, Mismatches: 17, Indels: 40
0.70 0.09 0.21
Matches are distributed among these distances:
4 1 0.01
5 2 0.02
6 30 0.23
7 48 0.36
8 47 0.35
9 5 0.04
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (7 bp):
ATAAATA
Found at i:22821978 original size:61 final size:59
Alignment explanation
Indices: 22821813--22821978 Score: 153
Period size: 58 Copynumber: 2.8 Consensus size: 59
22821803 ATAGATAAAT
* *
22821813 AATAATATATAAATAGATAAATAATAATAAATACAAAATATACAT-AATATATAAATAGATA
1 AATAATA-ATAAATAAATAAATAATAATAAATAC-ATA-ATACATAAATATATAAATAGATA
* ** * *
22821874 AATAATAATAAATATATATTTAATAGATAAATA-ATAA-AAATAAATATATACATTA-ATA
1 AATAATAATAAATAAATAAATAATA-ATAAATACATAATACATAAATATATA-AATAGATA
*
22821932 AATAGTAAT-AATAAATAAATAAGTAATAAATACATTAGATACATAAA
1 AATAATAATAAATAAATAAATAA-TAATAAATACA-TA-ATACATAAA
22821979 ACAAAAAAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
57 20 0.23
58 23 0.27
59 7 0.08
60 16 0.19
61 20 0.23
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (59 bp):
AATAATAATAAATAAATAAATAATAATAAATACATAATACATAAATATATAAATAGATA
Found at i:22822379 original size:85 final size:84
Alignment explanation
Indices: 22822193--22822631 Score: 494
Period size: 85 Copynumber: 5.2 Consensus size: 84
22822183 TTGATCAAAA
* * * * *
22822193 CTCCTCTAAGCAGATGCTCAATGACTTTGAAAAACATAAACAAAGCTCCTCTAATAAGAGGCTCA
1 CTCCTCTAATCAGAGGCTCAACGACTTTG--AAA-ATAAATAAAGCTCCTCTAATCAGAGGCTCA
* * * *
22822258 ACGACTTTGAAAATGAAT--GG
63 ACAACTTTGGAAATAAATAAAG
* * * *
22822278 CTCTTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAACGCTCCTCTAAACATAGGCTCAACA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACA
22822343 ACTTTGGATAATAAATAAAG
66 ACTTTGGA-AATAAATAAAG
* * *
22822363 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAAT--GGCTCATCTAATCAGAGGCTCAACA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACA
22822426 ACTTTGGAAGATAAATAAAG
66 ACTTTGGAA-ATAAATAAAG
* * * * *
22822446 CTCCTTTAAACAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCTTCTAATCAAAAGCTCAACA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACA
*
22822511 ACTTTGGAAAATAAACAAAG
66 ACTTTGG-AAATAAATAAAG
* * * * * *
22822531 CTCCTCTAATCAGAGGCTTAACAACTTTAAAAATAAAT--GGCTCCTTTAATCAGAGGCTCAATA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACA
*
22822594 ACTTTGGAAGATAAATAAAAA
66 ACTTTGGAA-ATAAAT-AAAG
*
22822615 CTCCTCTAAACAGAGGC
1 CTCCTCTAATCAGAGGC
22822632 ATCACAACTT
Statistics
Matches: 304, Mismatches: 41, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
82 37 0.12
83 114 0.38
84 19 0.06
85 132 0.43
86 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (84 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACA
ACTTTGGAAATAAATAAAG
Found at i:22822417 original size:125 final size:124
Alignment explanation
Indices: 22822228--22822631 Score: 497
Period size: 125 Copynumber: 3.2 Consensus size: 124
22822218 TTTGAAAAAC
* * * *
22822228 ATAAACAAAGCTCCTCTAATAAGAGGCTCAACGACTTTGAAAATGAATGGCTCTTCTAATCAGAG
1 ATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATGGCTCATCTAATCAGAG
* * * *
22822293 GCTCAACGACTTTGAAAATAAATAACGCTCCTCTAAACATAGGCTCAACAACTTTGGATA
66 GCTCAACAACTTTGAAAATAAATAAAGCTCCTTTAAACAGAGGCTCAACAACTTTGGA-A
*
22822353 ATAAATAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAATGGCTCATCTAATCAGAG
1 ATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATGGCTCATCTAATCAGAG
* * *
22822418 GCTCAACAACTTTGGAAGATAAATAAAGCTCCTTTAAACAGAGGCTCAACGACTTTGAAA
66 GCTCAACAACTTT-GAAAATAAATAAAGCTCCTTTAAACAGAGGCTCAACAACTTTGGAA
* * * * ** *
22822478 ATAAATAAAGCTCTTCTAATCAAAAGCTCAACAACTTTGGAAAATAAACAAAGCTCCTCTAATCA
1 ATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTT-GAAAAT-AA-ATGGCTCATCTAATCA
* * * * *
22822543 GAGGCTTAACAACTTTAAAAATAAAT--GGCTCCTTTAATCAGAGGCTCAATAACTTTGGAA
63 GAGGCTCAACAACTTTGAAAATAAATAAAGCTCCTTTAAACAGAGGCTCAACAACTTTGGAA
* *
22822603 GATAAATAAAAACTCCTCTAAACAGAGGC
1 -ATAAAT-AAAGCTCCTCTAATCAGAGGC
22822632 ATCACAACTT
Statistics
Matches: 240, Mismatches: 33, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
125 135 0.56
126 51 0.21
127 26 0.11
128 28 0.12
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (124 bp):
ATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATGGCTCATCTAATCAGAG
GCTCAACAACTTTGAAAATAAATAAAGCTCCTTTAAACAGAGGCTCAACAACTTTGGAA
Found at i:22822482 original size:168 final size:168
Alignment explanation
Indices: 22822188--22822631 Score: 554
Period size: 168 Copynumber: 2.6 Consensus size: 168
22822178 AAAATTTGAT
* * * ** *
22822188 CAAAACTCCTCTAAGCAGATGCTCAATGACTTTGAAAAACATAAACAAAGCTCCTCTAATAAGAG
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTG--AAA-AT-AA-ATGGCTCCTCTAATCAGAG
* * * * *
22822253 GCTCAACGACTTT-GAAAATGAAT--GGCT-CTTCTAATCAGAGGCTCAACGACTTTGAAAATAA
61 GCTCAACAACTTTGGAAGATAAATAAAGCTCCTT-TAAACAGAGGCTCAACGACTTTGAAAATAA
* * * *
22822314 ATAACGCTCCTCTAAACATAGGCTCAACAACTTTGGATAATAAA
125 ATAAAGCTCCTCTAAACAAAAGCTCAACAACTTTGGAAAATAAA
* *
22822358 TAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAATGGCTCATCTAATCAGAGGCTCA
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAATGGCTCCTCTAATCAGAGGCTCA
22822423 ACAACTTTGGAAGATAAATAAAGCTCCTTTAAACAGAGGCTCAACGACTTTGAAAATAAATAAAG
66 ACAACTTTGGAAGATAAATAAAGCTCCTTTAAACAGAGGCTCAACGACTTTGAAAATAAATAAAG
* *
22822488 CTCTTCTAATCAAAAGCTCAACAACTTTGGAAAATAAA
131 CTCCTCTAAACAAAAGCTCAACAACTTTGGAAAATAAA
* ** * *
22822526 CAAAGCTCCTCTAATCAGAGGCTTAACAACTTTAAAAATAAATGGCTCCTTTAATCAGAGGCTCA
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAATGGCTCCTCTAATCAGAGGCTCA
* * *
22822591 ATAACTTTGGAAGATAAATAAAAACTCCTCTAAACAGAGGC
66 ACAACTTTGGAAGATAAAT-AAAGCTCCTTTAAACAGAGGC
22822632 ATCACAACTT
Statistics
Matches: 240, Mismatches: 29, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
165 27 0.11
166 10 0.04
167 2 0.01
168 149 0.62
169 22 0.09
170 30 0.12
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (168 bp):
CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAATAAATGGCTCCTCTAATCAGAGGCTCA
ACAACTTTGGAAGATAAATAAAGCTCCTTTAAACAGAGGCTCAACGACTTTGAAAATAAATAAAG
CTCCTCTAAACAAAAGCTCAACAACTTTGGAAAATAAA
Found at i:22823688 original size:9 final size:9
Alignment explanation
Indices: 22823670--22823722 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
22823660 TCACTTTTTC
*
22823670 TTTTCTTTT
1 TTTTCATTT
22823679 TTTTCATTT
1 TTTTCATTT
22823688 TTTT--TCTT
1 TTTTCAT-TT
22823696 TTTTCATTTT
1 TTTTCA-TTT
22823706 TTTTCATTT
1 TTTTCATTT
22823715 TTTTCATT
1 TTTTCATT
22823723 CAAGCATAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
7 1 0.03
8 6 0.15
9 23 0.59
10 8 0.21
11 1 0.03
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTCATTT
Found at i:22823688 original size:10 final size:10
Alignment explanation
Indices: 22823665--22823722 Score: 72
Period size: 10 Copynumber: 6.2 Consensus size: 10
22823655 TTCATTCACT
22823665 TTTTCTTTTC-
1 TTTT-TTTTCA
22823675 TTTTTTTTCA
1 TTTTTTTTCA
22823685 TTTTTTTTC-
1 TTTTTTTTCA
22823694 --TTTTTTCA
1 TTTTTTTTCA
22823702 TTTTTTTTCA
1 TTTTTTTTCA
22823712 -TTTTTTTCA
1 TTTTTTTTCA
22823721 TT
1 TT
22823723 CAAGCATAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.16
9 14 0.33
10 22 0.51
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:22823694 original size:19 final size:18
Alignment explanation
Indices: 22823665--22823722 Score: 82
Period size: 17 Copynumber: 3.1 Consensus size: 18
22823655 TTCATTCACT
22823665 TTTTCTTTTCTTTTTTTTCA
1 TTTT-TTTTC-TTTTTTTCA
22823685 TTTTTTTTC-TTTTTTCA
1 TTTTTTTTCTTTTTTTCA
22823702 TTTTTTTTCATTTTTTTCA
1 TTTTTTTTC-TTTTTTTCA
22823721 TT
1 TT
22823723 CAAGCATAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
17 17 0.47
19 15 0.42
20 4 0.11
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTTCA
Found at i:22823756 original size:20 final size:21
Alignment explanation
Indices: 22823711--22823756 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
22823701 ATTTTTTTTC
*
22823711 ATTTTTTTCATTCAAGCATAGT
1 ATTTTTTTCA-TCAAGCATAGA
22823733 ATTTTTTTCA-CAA-CATCAGA
1 ATTTTTTTCATCAAGCAT-AGA
22823753 ATTT
1 ATTT
22823757 ATAGGATGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
22 10 0.45
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (21 bp):
ATTTTTTTCATCAAGCATAGA
Found at i:22830957 original size:15 final size:15
Alignment explanation
Indices: 22830937--22830968 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22830927 CTTTGTTAAG
*
22830937 TGTAATGAGTGAGAA
1 TGTAATGAATGAGAA
22830952 TGTAATGAATGAGAA
1 TGTAATGAATGAGAA
22830967 TG
1 TG
22830969 CATGTATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (15 bp):
TGTAATGAATGAGAA
Found at i:22834423 original size:58 final size:57
Alignment explanation
Indices: 22834160--22834439 Score: 283
Period size: 58 Copynumber: 4.8 Consensus size: 57
22834150 TTCATTTCTT
* * * *
22834160 TTTTACAAGAAAAATTGATACTTTCAATTTTTCC-CCAAAACATTTTTTAGAAACTTTA
1 TTTT-CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAC-TTA
* * * * ** * * **
22834218 ATTTCGAGGAAAATGGATGCTTTCAAAATTTCCTAAAAAACAACCTTTTATGAAACTTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTA-GAAACTTA
* * *
22834277 TTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTAGAAAAAAATTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG---AAACTTA
* * *
22834337 CTTTCAAGGAAAATTGATACTTTTAACTTTTCCCCAAAAATATTTTTTAGAAAGCTTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAA-CTTA
* *
22834395 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTT
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT
22834440 AAAAATACTT
Statistics
Matches: 179, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
57 27 0.15
58 56 0.31
59 40 0.22
60 56 0.31
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.40
Consensus pattern (57 bp):
TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTA
Found at i:22834478 original size:70 final size:68
Alignment explanation
Indices: 22834372--22834506 Score: 216
Period size: 70 Copynumber: 2.0 Consensus size: 68
22834362 ACTTTTCCCC
* * *
22834372 AAAAATATTTTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATA
1 AAAAATACTTTTTAGAAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA
22834437 TTT
66 TTT
*
22834440 AAAAATACTTTTTAGAAAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 AAAAATACTTTTTAG--AAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA
22834505 TA
64 TA
22834507 ATTTTTAGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
68 14 0.23
70 47 0.77
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (68 bp):
AAAAATACTTTTTAGAAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA
TTT
Found at i:22834527 original size:58 final size:59
Alignment explanation
Indices: 22834440--22834570 Score: 192
Period size: 58 Copynumber: 2.2 Consensus size: 59
22834430 AAAAATATTT
* **
22834440 AAAAATACTTTTTAGAAAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC
1 AAAAATAATTTTTAG-AAAAACTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCTC
* *
22834500 AAAAATAATTTTTAG-AAAACTTATTTTCAAAAAAAATTGATACTTTCAAGTTTTCCTT
1 AAAAATAATTTTTAGAAAAACTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCTC
*
22834558 AAAAATATTTTTT
1 AAAAATAATTTTT
22834571 TGAATTTTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 51 0.78
60 14 0.22
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.41
Consensus pattern (59 bp):
AAAAATAATTTTTAGAAAAACTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCTC
Found at i:22834541 original size:128 final size:128
Alignment explanation
Indices: 22834313--22834567 Score: 429
Period size: 128 Copynumber: 2.0 Consensus size: 128
22834303 CTTTTCCTCG
* *
22834313 AAAATATTTTTTAGAAAAAAATTACTTTCAAGGAAAATTGATACTTTTAACTTTTCCCCAAAAAT
1 AAAATACTTTTTAGAAAAAAATTACTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAAT
* * *
22834378 ATTTTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTA
66 AATTTTTAGAAAACTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTA
* * *
22834441 AAAATACTTTTTAGAAAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 AAAATACTTTTTAGAAAAAAATTACTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAAT
*
22834506 AATTTTTAGAAAACTTATTTTCAAAAAAAATTGATACTTTCAAGTTTTCCTTAAAAATATTT
66 AATTTTTAGAAAACTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTT
22834568 TTTTGAATTT
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 118 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (128 bp):
AAAATACTTTTTAGAAAAAAATTACTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAAT
AATTTTTAGAAAACTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTA
Found at i:22834670 original size:8 final size:7
Alignment explanation
Indices: 22834632--22834669 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 7
22834622 TAATCTGATC
22834632 AATAAAT
1 AATAAAT
22834639 AAT-AAT
1 AATAAAT
22834645 AATATAAT
1 AATA-AAT
22834653 AATAAAT
1 AATAAAT
22834660 AAATAAAT
1 -AATAAAT
22834668 AA
1 AA
22834670 ACAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 6 0.21
7 8 0.29
8 14 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAAAT
Found at i:22835524 original size:22 final size:22
Alignment explanation
Indices: 22835499--22835598 Score: 109
Period size: 22 Copynumber: 4.6 Consensus size: 22
22835489 AAATAAAAGA
*
22835499 AAATAAAAAAATGTTAATAGAT
1 AAATAAAAAAATATTAATAGAT
22835521 AAATAAAAAAA-A-TAATTAGAT
1 AAATAAAAAAATATTAA-TAGAT
22835542 AAAT--AAAAATATTAATAGAT
1 AAATAAAAAAATATTAATAGAT
* * *
22835562 AAATAATAATATATAAATAGAT
1 AAATAAAAAAATATTAATAGAT
22835584 AAATAATAATAAATA
1 AAATAA-AA-AAATA
22835599 CATATATAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
19 5 0.08
20 13 0.20
21 12 0.18
22 30 0.46
23 1 0.02
24 4 0.06
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (22 bp):
AAATAAAAAAATATTAATAGAT
Found at i:22835525 original size:8 final size:7
Alignment explanation
Indices: 22835514--22835663 Score: 84
Period size: 8 Copynumber: 21.1 Consensus size: 7
22835504 AAAAAATGTT
22835514 AATAGATA
1 AATA-ATA
22835522 AATAA-A
1 AATAATA
*
22835528 AAAAATA
1 AATAATA
*
22835535 ATTAGATA
1 AATA-ATA
22835543 AATAA-A
1 AATAATA
*
22835549 AAT-ATT
1 AATAATA
22835555 AATAGATA
1 AATA-ATA
22835563 AATAAT-
1 AATAATA
22835569 AATATATA
1 AATA-ATA
22835577 AATAGATA
1 AATA-ATA
22835585 AATAAT-
1 AATAATA
22835591 AATAAATA
1 AAT-AATA
*
22835599 CATATATA
1 AATA-ATA
22835607 AATAGATA
1 AATA-ATA
22835615 AATAAT-
1 AATAATA
22835621 AAT-A-A
1 AATAATA
22835626 AATATATA
1 AATA-ATA
*
22835634 TATTAATA
1 -AATAATA
*
22835642 AATAGT-
1 AATAATA
22835648 AATAATA
1 AATAATA
22835655 AATACATA
1 AATA-ATA
22835663 A
1 A
22835664 GATACACAAA
Statistics
Matches: 111, Mismatches: 14, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
5 5 0.05
6 27 0.24
7 26 0.23
8 50 0.45
9 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:22835547 original size:4 final size:4
Alignment explanation
Indices: 22835514--22835663 Score: 64
Period size: 4 Copynumber: 38.2 Consensus size: 4
22835504 AAAAAATGTT
* * * * * *
22835514 AATA GATA AATAA AAAA AATA ATTA GATA AATA AA-A ATATT AATA GATA
1 AATA AATA AAT-A AATA AATA AATA AATA AATA AATA A-ATA AATA AATA
* * * *
22835563 AAT- AAT- AATA TATA AATA GATA AAT- AAT- AATA AATA CATA TATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * *
22835607 AATA GATA AAT- AAT- AATAA AATA TATA TATT AATA AATA GTAAT- AATA
1 AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA --AATA AATA
*
22835655 AATA CATA A
1 AATA AATA A
22835664 GATACACAAA
Statistics
Matches: 109, Mismatches: 27, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
3 23 0.21
4 76 0.70
5 7 0.06
6 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (4 bp):
AATA
Found at i:22835550 original size:41 final size:42
Alignment explanation
Indices: 22835488--22835622 Score: 132
Period size: 41 Copynumber: 3.2 Consensus size: 42
22835478 TAAGAAAAAG
*
22835488 AAAATAAA-AGA-AAATAAAAAAATGTTAATAGATAAATAA-AA
1 AAAATAAATAGATAAAT--AAAAATATTAATAGATAAATAATAA
*
22835529 AAAATAATTAGATAAATAAAAATATTAATAGATAAATAATAA
1 AAAATAAATAGATAAATAAAAATATTAATAGATAAATAATAA
* * * * *
22835571 TATATAAATAGATAAATAATAATAAATACATATATAAATAGATAA
1 AAAATAAATAGATAAATAAAAAT-ATTA-ATAGATAAATA-ATAA
*
22835616 ATAATAA
1 AAAATAA
22835623 TAAAATATAT
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
41 28 0.36
42 24 0.31
43 7 0.09
44 10 0.13
45 8 0.10
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (42 bp):
AAAATAAATAGATAAATAAAAATATTAATAGATAAATAATAA
Found at i:22835604 original size:30 final size:30
Alignment explanation
Indices: 22835514--22835662 Score: 135
Period size: 30 Copynumber: 4.9 Consensus size: 30
22835504 AAAAAATGTT
* *
22835514 AATAGATAAATAA-AAAAAATA-ATTAGATA
1 AATAGATAAATAATAATAAATACA-TATATA
* *
22835543 AATA-AAAATATTAATAGATAAATAATAATATATA
1 AATAGATAA-A-TAATA-ATAAAT-A-CATATATA
22835577 AATAGATAAATAATAATAAATACATATATA
1 AATAGATAAATAATAATAAATACATATATA
* *
22835607 AATAGATAAATAATAATAAAATATATATATT
1 AATAGATAAATAATAAT-AAATACATATATA
* *
22835638 AATAAAT-AGTAATAATAAATACATA
1 AATAGATAAATAATAATAAATACATA
22835663 AGATACACAA
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
28 3 0.03
29 13 0.13
30 35 0.35
31 19 0.19
32 11 0.11
33 6 0.06
34 10 0.10
35 4 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (30 bp):
AATAGATAAATAATAATAAATACATATATA
Found at i:22835607 original size:22 final size:21
Alignment explanation
Indices: 22835513--22835624 Score: 113
Period size: 22 Copynumber: 5.2 Consensus size: 21
22835503 AAAAAAATGT
*
22835513 TAATAGATAAATAA-AAAAAA
1 TAATAGATAAATAATAATAAA
* *
22835533 TAATTAGATAAATAAAAAT-AT
1 TAA-TAGATAAATAATAATAAA
*
22835554 TAATAGATAAATAATAATATA
1 TAATAGATAAATAATAATAAA
22835575 TAAATAGATAAATAATAATAAA
1 T-AATAGATAAATAATAATAAA
*
22835597 TACATATATAAATAGATAA-ATAA
1 TA-ATAGATAAATA-ATAATA-AA
22835620 TAATA
1 TAATA
22835625 AAATATATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
20 17 0.22
21 17 0.22
22 36 0.46
23 8 0.10
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (21 bp):
TAATAGATAAATAATAATAAA
Found at i:22835693 original size:25 final size:24
Alignment explanation
Indices: 22835654--22835709 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 24
22835644 TAGTAATAAT
*
22835654 AAATACATAAGATACACAAA-ACAAAA
1 AAATA-ATAAAATACA-AAATA-AAAA
22835680 AAATAATAAAATACAAAATAAAAA
1 AAATAATAAAATACAAAATAAAAA
22835704 AAATAA
1 AAATAA
22835710 AATAGGTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 13 0.46
25 10 0.36
26 5 0.18
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (24 bp):
AAATAATAAAATACAAAATAAAAA
Found at i:22835702 original size:23 final size:21
Alignment explanation
Indices: 22835669--22835713 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
22835659 CATAAGATAC
22835669 ACAAAACAAAAAAATAATAAAAT
1 ACAAAAC-AAAAAA-AATAAAAT
*
22835692 ACAAAATAAAAAAAATAAAAT
1 ACAAAACAAAAAAAATAAAAT
22835713 A
1 A
22835714 GGTCTACCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (21 bp):
ACAAAACAAAAAAAATAAAAT
Found at i:22839508 original size:5 final size:5
Alignment explanation
Indices: 22839500--22839532 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
22839490 CTTTTTTTCT
*
22839500 AAAAC AAAAC AAAAC AAAAC AAAAC AAATC AAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAA
22839533 GCATACATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.79, C:0.18, G:0.00, T:0.03
Consensus pattern (5 bp):
AAAAC
Found at i:22852225 original size:20 final size:21
Alignment explanation
Indices: 22852185--22852225 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22852175 ACATCCTTTG
* *
22852185 TTTCCCATTTTCTTTATTCAT
1 TTTCCCATTATCTTCATTCAT
22852206 TTTCCCATTAT-TTCATTCAT
1 TTTCCCATTATCTTCATTCAT
22852226 CATTTCATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTCCCATTATCTTCATTCAT
Found at i:22852233 original size:28 final size:28
Alignment explanation
Indices: 22852201--22852264 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
22852191 ATTTTCTTTA
22852201 TTCATTTTCCCATTATTTCA-TTCA-TCAT
1 TTCATTTT--CATTATTTCATTTCATTCAT
* *
22852229 TTCATTGTCATTTTTTCATTTCATTCAT
1 TTCATTTTCATTATTTCATTTCATTCAT
*
22852257 TTTATTTT
1 TTCATTTT
22852265 TTCCTTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 9 0.30
27 4 0.13
28 17 0.57
ACGTcount: A:0.19, C:0.19, G:0.02, T:0.61
Consensus pattern (28 bp):
TTCATTTTCATTATTTCATTTCATTCAT
Found at i:22852263 original size:14 final size:15
Alignment explanation
Indices: 22852215--22852263 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
22852205 TTTTCCCATT
22852215 ATTTCATTCATCATTTC
1 ATTTCATTCAT--TTTC
22852232 ATTGTCATT--TTTTC
1 ATT-TCATTCATTTTC
22852246 ATTTCATTCATTTT-
1 ATTTCATTCATTTTC
22852260 ATTT
1 ATTT
22852264 TTTCCTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 5 0.17
14 11 0.38
15 4 0.14
16 1 0.03
17 3 0.10
18 5 0.17
ACGTcount: A:0.20, C:0.16, G:0.02, T:0.61
Consensus pattern (15 bp):
ATTTCATTCATTTTC
Found at i:22852263 original size:22 final size:23
Alignment explanation
Indices: 22852211--22852272 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 23
22852201 TTCATTTTCC
*
22852211 CATTATTTCATTCATCATTTCATTGT
1 CATTTTTTCATT--TCA-TTCATTGT
22852237 CATTTTTTCATTTCATTCATT-T
1 CATTTTTTCATTTCATTCATTGT
* *
22852259 TATTTTTTCCTTTC
1 CATTTTTTCATTTC
22852273 TTAGTTTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 13 0.39
23 6 0.18
24 3 0.09
26 11 0.33
ACGTcount: A:0.18, C:0.19, G:0.02, T:0.61
Consensus pattern (23 bp):
CATTTTTTCATTTCATTCATTGT
Found at i:22852420 original size:31 final size:31
Alignment explanation
Indices: 22852371--22852726 Score: 249
Period size: 31 Copynumber: 11.5 Consensus size: 31
22852361 TCTTATACTA
* *
22852371 GTGCCAACAAGACTAGGCTTAAATCTTCTTG
1 GTGCCAGCTAGACTAGGCTTAAATCTTCTTG
* * * *
22852402 GTGCTAGCTAAACTAGGCTTAATTCTCCCTT-
1 GTGCCAGCTAGACTAGGCTTAAATCT-TCTTG
* * * *
22852433 GTACCAACTAGAAT-GGTCTTAAATCTT-TATA
1 GTGCCAGCTAGACTAGG-CTTAAATCTTCT-TG
* * * *
22852464 GTACCAGATAAATTAGGCTTAAATC-TCTTTG
1 GTGCCAGCTAGACTAGGCTTAAATCTTC-TTG
* *
22852495 GTGCCAACTAGACTGGGCTTAAATCTT-TATG
1 GTGCCAGCTAGACTAGGCTTAAATCTTCT-TG
*
22852526 GTGCCAGCTAGACTGGGCTTAAATCTT-TATG
1 GTGCCAGCTAGACTAGGCTTAAATCTTCT-TG
* *
22852557 GTGCCAGCTAGACTGGGCTTAATTCTTCTTG
1 GTGCCAGCTAGACTAGGCTTAAATCTTCTTG
* * * * *
22852588 GTGCTAACTAAACTAGACTTAAATCTTCATG
1 GTGCCAGCTAGACTAGGCTTAAATCTTCTTG
* * *
22852619 GTGCCAGCTAGATTGGGCTTAAATCTTCATAG
1 GTGCCAGCTAGACTAGGCTTAAATCTTC-TTG
* * * *
22852651 GTGCTAGTTAGATTAGGCTTAATTC-TCTTTG
1 GTGCCAGCTAGACTAGGCTTAAATCTTC-TTG
* * * * *
22852682 GTGTCATCTAGACTAAGCTTAATTTTTCTTG
1 GTGCCAGCTAGACTAGGCTTAAATCTTCTTG
* *
22852713 ATGCTAGCTAGACT
1 GTGCCAGCTAGACT
22852727 TGTTTAATTC
Statistics
Matches: 255, Mismatches: 58, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
29 1 0.00
30 5 0.02
31 217 0.85
32 32 0.13
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (31 bp):
GTGCCAGCTAGACTAGGCTTAAATCTTCTTG
Found at i:22852457 original size:62 final size:62
Alignment explanation
Indices: 22852371--22852722 Score: 294
Period size: 62 Copynumber: 5.7 Consensus size: 62
22852361 TCTTATACTA
* * * * *
22852371 GTGCCAACAAGACTAGGCTTAAATCTTCTTGGTGCTAGCTAAACTAGGCTTAATTCTCCCTT
1 GTGCCAACTAGACTGGGCTTAAATCTTCTTGGTGCTAGCTAAACTAGGCTTAAATCTCCATG
* * * * * * * * **
22852433 GTACCAACTAGAATGGTCTTAAATCTT-TATAGTACCAGATAAATTAGGCTTAAATCTCTTTG
1 GTGCCAACTAGACTGGGCTTAAATCTTCT-TGGTGCTAGCTAAACTAGGCTTAAATCTCCATG
* * * **
22852495 GTGCCAACTAGACTGGGCTTAAATCTT-TATGGTGCCAGCTAGACTGGGCTTAAATCTTTATG
1 GTGCCAACTAGACTGGGCTTAAATCTTCT-TGGTGCTAGCTAAACTAGGCTTAAATCTCCATG
* * * * *
22852557 GTGCCAGCTAGACTGGGCTTAATTCTTCTTGGTGCTAACTAAACTAGACTTAAATCTTCATG
1 GTGCCAACTAGACTGGGCTTAAATCTTCTTGGTGCTAGCTAAACTAGGCTTAAATCTCCATG
* * * * * * * **
22852619 GTGCCAGCTAGATTGGGCTTAAATCTTCATAGGTGCTAGTTAGATTAGGCTTAATTCTCTTTG
1 GTGCCAACTAGACTGGGCTTAAATCTTC-TTGGTGCTAGCTAAACTAGGCTTAAATCTCCATG
* * ** * * *
22852682 GTGTCATCTAGACTAAGCTTAATTTTTCTTGATGCTAGCTA
1 GTGCCAACTAGACTGGGCTTAAATCTTCTTGGTGCTAGCTA
22852723 GACTTGTTTA
Statistics
Matches: 232, Mismatches: 55, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
61 1 0.00
62 185 0.80
63 46 0.20
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (62 bp):
GTGCCAACTAGACTGGGCTTAAATCTTCTTGGTGCTAGCTAAACTAGGCTTAAATCTCCATG
Found at i:22852514 original size:93 final size:93
Alignment explanation
Indices: 22852336--22852703 Score: 330
Period size: 93 Copynumber: 3.9 Consensus size: 93
22852326 GATCTCATTT
* * * *
22852336 TGGTGCCAACTA-ACATGGGTTTAAATCTTATACTAGTGCCA-ACAAGACTAGGCTTAAATCTTC
1 TGGTGCCAGCTAGA-ATGGGCTTAAATCTT-TA-TAGTGCCAGA-TAGATTAGGCTTAAATCTTC
* * * * *
22852399 TTGGTGCTAGCTAAACTAGGCTTAATTCTCCC
62 TTGGTGCCAACTAAACTAGGCTTAAATCTTCA
* * * * * *
22852431 TTGTACCAACTAGAATGGTCTTAAATCTTTATAGTACCAGATAAATTAGGCTTAAATC-TCTTTG
1 TGGTGCCAGCTAGAATGGGCTTAAATCTTTATAGTGCCAGATAGATTAGGCTTAAATCTTC-TTG
* * *
22852495 GTGCCAACTAGACTGGGCTTAAATCTTTA
65 GTGCCAACTAAACTAGGCTTAAATCTTCA
* * * * * *
22852524 TGGTGCCAGCTAGACTGGGCTTAAATCTTTATGGTGCCAGCTAGACTGGGCTTAATTCTTCTTGG
1 TGGTGCCAGCTAGAATGGGCTTAAATCTTTATAGTGCCAGATAGATTAGGCTTAAATCTTCTTGG
* *
22852589 TGCTAACTAAACTAGACTTAAATCTTCA
66 TGCCAACTAAACTAGGCTTAAATCTTCA
* * * * *
22852617 TGGTGCCAGCTAGATTGGGCTTAAATCTTCATAGGTGCTAGTTAGATTAGGCTTAATTC-TCTTT
1 TGGTGCCAGCTAGAATGGGCTTAAATCTTTATA-GTGCCAGATAGATTAGGCTTAAATCTTC-TT
* * * *
22852681 GGTGTCATCTAGACTAAGCTTAA
64 GGTGCCAACTAAACTAGGCTTAA
22852704 TTTTTCTTGA
Statistics
Matches: 221, Mismatches: 46, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
92 2 0.01
93 150 0.68
94 45 0.20
95 23 0.10
96 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (93 bp):
TGGTGCCAGCTAGAATGGGCTTAAATCTTTATAGTGCCAGATAGATTAGGCTTAAATCTTCTTGG
TGCCAACTAAACTAGGCTTAAATCTTCA
Found at i:22852822 original size:32 final size:31
Alignment explanation
Indices: 22852746--22852892 Score: 117
Period size: 31 Copynumber: 4.9 Consensus size: 31
22852736 CTTCTCAATG
*
22852746 CCAACTAAATT-GGCTTAATTTTCTTTGGTT
1 CCAACTAAATTAGGCTTAATTTTCCTTGGTT
* * *
22852776 CTAGA-TAAACTAGGCTTATTTTTCCCTTGGTT
1 CCA-ACTAAATTAGGCTTAATTTT-CCTTGGTT
* *
22852808 CCAACTAAATTAGGCTTAATTCTCCTTGGTG
1 CCAACTAAATTAGGCTTAATTTTCCTTGGTT
* * *
22852839 CC-A--AAA-TGGGCTTAAATTTCCTTGGTG
1 CCAACTAAATTAGGCTTAATTTTCCTTGGTT
* * * *
22852866 CCAGCGAAGTTAGGTTTAATTTTCCTT
1 CCAACTAAATTAGGCTTAATTTTCCTT
22852893 AGTACCAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
27 20 0.22
28 3 0.03
30 10 0.11
31 35 0.38
32 24 0.26
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (31 bp):
CCAACTAAATTAGGCTTAATTTTCCTTGGTT
Found at i:22852853 original size:27 final size:27
Alignment explanation
Indices: 22852820--22852979 Score: 82
Period size: 27 Copynumber: 5.8 Consensus size: 27
22852810 AACTAAATTA
22852820 GGCTTAATTCTCCTTGGTGCCAAAATG
1 GGCTTAATTCTCCTTGGTGCCAAAATG
* *
22852847 GGCTTAAATT-TCCTTGGTGCCAGCGAAGTTA
1 GGCTT-AATTCTCCTTGGTGCCA---AA-ATG
* * * *
22852878 GGTTTAATTTTCCTTAGTACCAGCTAGAATG
1 GGCTTAATTCTCCTTGGTGCCA---A-AATG
* * *
22852909 GGCTTAATCCTCTTTGGTG-C----TA
1 GGCTTAATTCTCCTTGGTGCCAAAATG
22852931 GGCTTAATTCTCCTTGGTGCCAAAATG
1 GGCTTAATTCTCCTTGGTGCCAAAATG
* *
22852958 GGTTTAAATT-TCCTTGATGCCA
1 GGCTT-AATTCTCCTTGGTGCCA
22852980 GCAAAGCTGG
Statistics
Matches: 100, Mismatches: 20, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
22 18 0.18
23 1 0.01
27 33 0.33
28 8 0.08
30 7 0.07
31 32 0.32
32 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (27 bp):
GGCTTAATTCTCCTTGGTGCCAAAATG
Found at i:22852934 original size:22 final size:22
Alignment explanation
Indices: 22852909--22852950 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22852899 AGCTAGAATG
*
22852909 GGCTTAATCCTCTTTGGTGCTA
1 GGCTTAATCCTCCTTGGTGCTA
*
22852931 GGCTTAATTCTCCTTGGTGC
1 GGCTTAATCCTCCTTGGTGC
22852951 CAAAATGGGT
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:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (22 bp):
GGCTTAATCCTCCTTGGTGCTA
Found at i:22853012 original size:111 final size:111
Alignment explanation
Indices: 22852818--22853042 Score: 378
Period size: 111 Copynumber: 2.0 Consensus size: 111
22852808 CCAACTAAAT
* * *
22852818 TAGGCTTAATTCTCCTTGGTGCCAAAATGGGCTTAAATTTCCTTGGTGCCAGCGAAGTTAGGTTT
1 TAGGCTTAATTCTCCTTGGTGCCAAAATGGGCTTAAATTTCCTTGATGCCAGCAAAGCTAGGTTT
* *
22852883 AATTTTCCTTAGTACCAGCTAGAATGGGCTTAATCCTCTTTGGTGC
66 AACTTTCCTTAGTACCAGCTAGAATAGGCTTAATCCTCTTTGGTGC
* *
22852929 TAGGCTTAATTCTCCTTGGTGCCAAAATGGGTTTAAATTTCCTTGATGCCAGCAAAGCTGGGTTT
1 TAGGCTTAATTCTCCTTGGTGCCAAAATGGGCTTAAATTTCCTTGATGCCAGCAAAGCTAGGTTT
*
22852994 AACTTTCCTTAGTACCAGCTAGACTAGGCTTAATCCTCTTTGGTGC
66 AACTTTCCTTAGTACCAGCTAGAATAGGCTTAATCCTCTTTGGTGC
22853040 TAG
1 TAG
22853043 TTAGACTAGG
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (111 bp):
TAGGCTTAATTCTCCTTGGTGCCAAAATGGGCTTAAATTTCCTTGATGCCAGCAAAGCTAGGTTT
AACTTTCCTTAGTACCAGCTAGAATAGGCTTAATCCTCTTTGGTGC
Found at i:22853086 original size:31 final size:31
Alignment explanation
Indices: 22853002--22853121 Score: 109
Period size: 31 Copynumber: 3.8 Consensus size: 31
22852992 TTAACTTTCC
*
22853002 TTAGTACCAGCTAGACTAGGCTTAATCCTCT
1 TTAGTGCCAGCTAGACTAGGCTTAATCCTCT
* * *
22853033 TTGGTGCTAGTTAGACTAGGCTTAATCC-CAT
1 TTAGTGCCAGCTAGACTAGGCTTAATCCTC-T
* * * *
22853064 TTAGTGCCAGCTAGATTGGGCTTAATTCTTTT
1 TTAGTGCCAGCTAGACTAGGCTTAA-TCCTCT
* *
22853096 TTGGTGCCAGCTAAACT-GGACTTAAT
1 TTAGTGCCAGCTAGACTAGG-CTTAAT
22853122 TCTCATCTTT
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
30 1 0.01
31 48 0.68
32 22 0.31
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (31 bp):
TTAGTGCCAGCTAGACTAGGCTTAATCCTCT
Found at i:22853568 original size:19 final size:19
Alignment explanation
Indices: 22853543--22853586 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
22853533 TTTCATAATC
22853543 CAAATGCCTTTCACGAATG
1 CAAATGCCTTTCACGAATG
* * *
22853562 TAAATGCCTTTTATGAATG
1 CAAATGCCTTTCACGAATG
22853581 CAAATG
1 CAAATG
22853587 TTGATGTTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CAAATGCCTTTCACGAATG
Found at i:22856531 original size:20 final size:20
Alignment explanation
Indices: 22856489--22856533 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
22856479 TGTGATCAAT
*
22856489 TTTGACCAAGTTTTACTAAA
1 TTTGACCAAGTTTTACCAAA
* * *
22856509 TTTGACCAGGTTTTGCCATA
1 TTTGACCAAGTTTTACCAAA
22856529 TTTGA
1 TTTGA
22856534 TCAAATTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (20 bp):
TTTGACCAAGTTTTACCAAA
Done.