Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 120 of 150
Found at i:36964485 original size:16 final size:15
Alignment explanation
Indices: 36964441--36964486 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
36964431 ATCCAAATTT
36964441 ATTAATATTATAATAA
1 ATTAA-ATTATAATAA
*
36964457 A-TAAAATAT-ATAA
1 ATTAAATTATAATAA
36964470 ACTTAAATTATAATAA
1 A-TTAAATTATAATAA
36964486 A
1 A
36964487 AATACTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 5 0.20
14 4 0.16
15 10 0.40
16 6 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTAAATTATAATAA
Found at i:36971952 original size:24 final size:25
Alignment explanation
Indices: 36971900--36971959 Score: 86
Period size: 24 Copynumber: 2.4 Consensus size: 25
36971890 AAAAATAAAA
* *
36971900 ATTTATCAAAATATTATCTTTTTTT
1 ATTTACCAAAATATTATCTATTTTT
36971925 ATTTACCAAAATATTAT-TATTTTT
1 ATTTACCAAAATATTATCTATTTTT
*
36971949 ATTTACTAAAA
1 ATTTACCAAAA
36971960 AAAACCTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTACCAAAATATTATCTATTTTT
Found at i:36971960 original size:25 final size:25
Alignment explanation
Indices: 36971907--36971960 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
36971897 AAAATTTATC
* *
36971907 AAAATATTATCTTTTTTTATTTACC
1 AAAATATTATCTATTTTTATTTACA
36971932 AAAATATTAT-TATTTTTATTTACTA
1 AAAATATTATCTATTTTTATTTAC-A
36971957 AAAA
1 AAAA
36971961 AAACCTGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (25 bp):
AAAATATTATCTATTTTTATTTACA
Found at i:36972000 original size:9 final size:10
Alignment explanation
Indices: 36971969--36972007 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
36971959 AAAAACCTGC
36971969 AAAAGCCTGGA
1 AAAAG-CTGGA
36971980 AAAAGCTGGA
1 AAAAGCTGGA
36971990 AAAAGCT-GA
1 AAAAGCTGGA
*
36971999 AAAAACTGG
1 AAAAGCTGG
36972008 GTCAGGCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 8 0.31
10 13 0.50
11 5 0.19
ACGTcount: A:0.51, C:0.13, G:0.26, T:0.10
Consensus pattern (10 bp):
AAAAGCTGGA
Found at i:36972091 original size:4 final size:4
Alignment explanation
Indices: 36972084--36972221 Score: 87
Period size: 4 Copynumber: 35.0 Consensus size: 4
36972074 GAAGGAGACG
* * *
36972084 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GGAAG GAAG GAGAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GAAA GA-AA GAAA GAAA
* * *
36972134 G-AA -AAA GAAG GAAA TGAAA G-GA GAAA -AAA AAAA GAAA G-AA G-AA
1 GAAA GAAA GAAA GAAA -GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
*
36972177 GAAGA GGAAA GGAGAA GAAA -AAA GAAA G-AA -AAA GAAG GAAA GAAA
1 GAA-A -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
36972222 AGGAAAGGAG
Statistics
Matches: 111, Mismatches: 9, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
3 22 0.20
4 66 0.59
5 18 0.16
6 5 0.05
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:36972142 original size:10 final size:10
Alignment explanation
Indices: 36972127--36972254 Score: 66
Period size: 10 Copynumber: 12.6 Consensus size: 10
36972117 GAAGGAGAGG
36972127 AAAGAAAGAA
1 AAAGAAAGAA
*
36972137 AAAG-AAGGA
1 AAAGAAAGAA
* *
36972146 AATGAAAGGA
1 AAAGAAAGAA
*
36972156 GAA-AAA-AA
1 AAAGAAAGAA
36972164 AAAGAAAGAA
1 AAAGAAAGAA
* *
36972174 GAAGAAGAGGA
1 AAAGAA-AGAA
*
36972185 AAGGAGAAGAAA
1 AAAGA-AAG-AA
36972197 AAAGAAAGAA
1 AAAGAAAGAA
*
36972207 AAAGAAGGAA
1 AAAGAAAGAA
*
36972217 AGAA-AAGGAA
1 A-AAGAAAGAA
*
36972227 AGGAGAAGAGAA
1 A-AAGAA-AGAA
*
36972239 AAAAAAAGAA
1 AAAGAAAGAA
*
36972249 GAAGAA
1 AAAGAA
36972255 GAAGAAGAGG
Statistics
Matches: 90, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
8 3 0.03
9 13 0.14
10 46 0.51
11 18 0.20
12 10 0.11
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:36972168 original size:37 final size:35
Alignment explanation
Indices: 36972127--36972221 Score: 131
Period size: 33 Copynumber: 2.7 Consensus size: 35
36972117 GAAGGAGAGG
36972127 AAAGAAAGAAAAAGAAGGAAATGAAAGGAGAAAAAAA
1 AAAGAAAGAAAAAGAAGGAAA-GAAAGGAG-AAAAAA
* * *
36972164 AAAGAAAGAAGAAGAA-G-AGGAAAGGAGAAGAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAGGAGAAAAAA
36972197 AAAGAAAGAAAAAGAAGGAAAGAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAA
36972222 AGGAAAGGAG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
33 20 0.39
34 9 0.18
35 6 0.12
36 1 0.02
37 15 0.29
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (35 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAGGAGAAAAAA
Found at i:36972175 original size:3 final size:3
Alignment explanation
Indices: 36972169--36972267 Score: 52
Period size: 3 Copynumber: 35.0 Consensus size: 3
36972159 AAAAAAAAGA
* * *
36972169 AAG AAG AAG AAG AGG AAAG GAG AAG AA- AA- AAG AAAG AAA AAG AAG
1 AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG
* * * *
36972214 GA- AAG AA- AAG GA- AAG GAG AAG -AG AA- AA- AAA AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
36972256 AAG AAG AGG AAG
1 AAG AAG AAG AAG
36972268 GAAGGGAAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
2 14 0.19
3 54 0.74
4 5 0.07
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:36972210 original size:70 final size:73
Alignment explanation
Indices: 36972083--36972265 Score: 200
Period size: 70 Copynumber: 2.5 Consensus size: 73
36972073 AGAAGGAGAC
* * **
36972083 GGAAAGAAAGAAAGAAAGAAAGAAAGAA-AGG-AAGGAAGGAGAGGAAAGAAAGAAAAAGAAGGA
1 GGAAAGAAAAAAAGAAAG-AAG-AAGAAGAGGAAAGG-AGAAGAAAAAAGAAAGAAAAAGAAGGA
36972146 AATG-AAAGG-A
63 AA-GAAAAGGAA
36972156 -GAAA-AAAAAAAGAAAGAAGAAGAAGAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAAG
1 GGAAAGAAAAAAAGAAAGAAGAAGAAGAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAAG
36972219 AAAAGGAAA
66 AAAAGG-AA
*
36972228 GGAGAAGAGAAAAAA-AAAGAAGAAGAAGAAGAAGAGGA
1 GGA-AAGA-AAAAAAGAAAGAAGAAGAAGAGGAA-AGGA
36972266 AGGAAGGGAA
Statistics
Matches: 95, Mismatches: 5, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
69 6 0.06
70 37 0.39
71 15 0.16
72 5 0.05
73 2 0.02
74 2 0.02
75 18 0.19
76 10 0.11
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (73 bp):
GGAAAGAAAAAAAGAAAGAAGAAGAAGAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAAG
AAAAGGAA
Found at i:36972232 original size:75 final size:70
Alignment explanation
Indices: 36972084--36972265 Score: 181
Period size: 75 Copynumber: 2.5 Consensus size: 70
36972074 GAAGGAGACG
* * **
36972084 GAAAGAAAGAAAGAAAGAAAGAAAGAA-AGG-AAGGAAGGAGAGGAAAGAAAGAAAAAGAAGGAA
1 GAAA-AAAAAAAGAAAG-AAG-AAGAAGAGGAAAGG-AGAAGAAAAAAGAAAGAAAAAGAAGGAA
*
36972147 ATGAAAGGA
62 AGGAAAGGA
36972156 GAAAAAAAAAAGAAAGAAGAAGAAGAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAA
1 GAAAAAAAAAAGAAAGAAGAAGAAGAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAA-G---G-A
36972221 AAGGAAAGGA
61 AAGGAAAGGA
* *
36972231 GAAGAGAAAAAA-AAAGAAGAAGAAGAAGAAGAGGA
1 GAA-AAAAAAAAGAAAGAAGAAGAAGAGGAA-AGGA
36972266 AGGAAGGGAA
Statistics
Matches: 94, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
69 5 0.05
70 27 0.29
71 16 0.17
72 4 0.04
74 1 0.01
75 30 0.32
76 11 0.12
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (70 bp):
GAAAAAAAAAAGAAAGAAGAAGAAGAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGGA
AAGGA
Found at i:36972410 original size:26 final size:27
Alignment explanation
Indices: 36972336--36972430 Score: 81
Period size: 29 Copynumber: 3.5 Consensus size: 27
36972326 TTAAAAATAT
*
36972336 ATGTTATGTACATTATACGTATTTTAAT
1 ATGTTATGTACATTATACGTATTTT-AG
* *
36972364 ATTTTATTTAGCA-TATA--TATTTT-G
1 ATGTTATGTA-CATTATACGTATTTTAG
*
36972388 ATGTTATGTACATTATACGTATTTATATT
1 ATGTTATGTACATTATACGTATTT-TA-G
*
36972417 ATGGTATGTACATT
1 ATGTTATGTACATT
36972431 GTATGTTGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
23 2 0.04
24 12 0.23
26 11 0.21
27 1 0.02
28 12 0.23
29 15 0.28
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (27 bp):
ATGTTATGTACATTATACGTATTTTAG
Found at i:36972418 original size:24 final size:26
Alignment explanation
Indices: 36972339--36972430 Score: 73
Period size: 26 Copynumber: 3.4 Consensus size: 26
36972329 AAAATATATG
36972339 TTATGTACATTATACGTATTTTAATA
1 TTATGTACATTATACGTATTTTAATA
* * *
36972365 TTTTATTTAGCA-TATA--TATTTTGATG
1 --TTATGTA-CATTATACGTATTTTAATA
*
36972391 TTATGTACATTATACGTATTTATATTA
1 TTATGTACATTATACGTATTT-TAATA
36972418 TGGTATGTACATT
1 T--TATGTACATT
36972431 GTATGTTGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.20
26 13 0.26
27 3 0.06
28 10 0.20
29 12 0.24
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (26 bp):
TTATGTACATTATACGTATTTTAATA
Found at i:36973039 original size:216 final size:211
Alignment explanation
Indices: 36972700--36973101 Score: 603
Period size: 216 Copynumber: 1.9 Consensus size: 211
36972690 AAATACGGAT
*
36972700 AAAAATATACGAACAAATGGCCGAAGTAAGAGTGTATTAGTAAATTTTTAAAAAAATTCAGAAAT
1 AAAAATATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAAATTTTTAAAAAAATTCAGAAAT
* *
36972765 AATCAATACAAATAATTGAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAA
66 AATCAATACAAATAATTCAAACAAAATATACTGAAATAATATAAAATAATAAAATACGAAAATAA
*
36972830 TATATTTTTATTCAAAGTAATAAAAA-CGGGGAAAATAATAATACGAGCAAAGGGCAGGGAAAAA
131 TATATTTTTATTAAAAGTAATAAAAATC---GAAAA-AATAATACGAGCAAAGGGCAGGGAAAAA
36972894 ATGTTTTTTTTTGATTTACC
192 ATGTTTTTTTTTGATTTACC
* * **
36972914 AAAAA-ATACGAACAAATGGCGGAAGTAAGAGTGTAGTAATACTAACTTTTT-TTAAAATTCAGA
1 AAAAATATACGAACAAATGGCCGAAGTAAGAGTGTA-T--TACTAAATTTTTAAAAAAATTCAGA
* * *
36972977 AATAATTAATACAAAATATTTCAAAGAAAATATACTGAAATAATATAAAATAATAAAATACGAAA
63 AATAATCAATAC-AAATAATTCAAACAAAATATACTGAAATAATATAAAATAATAAAATACGAAA
*
36973042 ATAATATATTTTTATTAAAAGTAATAAAAATCGAAAAAATAATACGAGCAAATGGCAGGG
127 ATAATATATTTTTATTAAAAGTAATAAAAATCGAAAAAATAATACGAGCAAAGGGCAGGG
36973102 GTAAAGGTTA
Statistics
Matches: 171, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
213 51 0.30
214 11 0.06
215 21 0.12
216 87 0.51
217 1 0.01
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (211 bp):
AAAAATATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAAATTTTTAAAAAAATTCAGAAAT
AATCAATACAAATAATTCAAACAAAATATACTGAAATAATATAAAATAATAAAATACGAAAATAA
TATATTTTTATTAAAAGTAATAAAAATCGAAAAAATAATACGAGCAAAGGGCAGGGAAAAAATGT
TTTTTTTTGATTTACC
Found at i:36976352 original size:21 final size:18
Alignment explanation
Indices: 36976315--36976349 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
36976305 TGATCGCCAC
36976315 CACATTCTTCTTCACCAG
1 CACATTCTTCTTCACCAG
36976333 CACATTCTTCTTCACCA
1 CACATTCTTCTTCACCA
36976350 CCAACCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.03, T:0.34
Consensus pattern (18 bp):
CACATTCTTCTTCACCAG
Found at i:36977224 original size:13 final size:13
Alignment explanation
Indices: 36977206--36977232 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36977196 CAACAACAAC
36977206 AATAATAATAATA
1 AATAATAATAATA
36977219 AATAATAATAATA
1 AATAATAATAATA
36977232 A
1 A
36977233 CTAAAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:36977488 original size:27 final size:27
Alignment explanation
Indices: 36977450--36977523 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
36977440 AATACGAGTA
36977450 GTGCCGCCAATGGCATTGGCACCATTG
1 GTGCCGCCAATGGCATTGGCACCATTG
*
36977477 GTGCCGCCAATGGCATTGGCACCTTTG
1 GTGCCGCCAATGGCATTGGCACCATTG
*
36977504 GTGACGCCAATGGCATTGGC
1 GTGCCGCCAATGGCATTGGC
36977524 CTGACCCAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.23
Consensus pattern (27 bp):
GTGCCGCCAATGGCATTGGCACCATTG
Found at i:36982379 original size:2 final size:2
Alignment explanation
Indices: 36982372--36982401 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36982362 TTAGAGTTTG
36982372 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36982402 ATTTTATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36984477 original size:11 final size:11
Alignment explanation
Indices: 36984444--36984480 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
36984434 AAGAGAGAAT
*
36984444 GATGCTTGATG
1 GATGCTTGAGG
*
36984455 AATGCTTGAGG
1 GATGCTTGAGG
36984466 GATGCTTGAGG
1 GATGCTTGAGG
36984477 GATG
1 GATG
36984481 ATGAATGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.22, C:0.08, G:0.41, T:0.30
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:36985092 original size:38 final size:38
Alignment explanation
Indices: 36985047--36985122 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
36985037 TTGCATGAAA
*
36985047 ACTATATAATAAAGTATAAAATCACATTTTAATAATTT
1 ACTATATAATAAAGCATAAAATCACATTTTAATAATTT
36985085 ACTATATAATAAAGCATAAAATCACATTTTAATAATTT
1 ACTATATAATAAAGCATAAAATCACATTTTAATAATTT
36985123 TTATGTCCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (38 bp):
ACTATATAATAAAGCATAAAATCACATTTTAATAATTT
Found at i:36989745 original size:19 final size:19
Alignment explanation
Indices: 36989718--36989763 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
36989708 ATCAATTCGT
*
36989718 TTAAACATTCTCA-CATGTA
1 TTAATCATTC-CATCATGTA
*
36989737 TTAATCATTCCATCATTTA
1 TTAATCATTCCATCATGTA
36989756 -TAATCATT
1 TTAATCATT
36989764 TTGTAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (19 bp):
TTAATCATTCCATCATGTA
Found at i:36992144 original size:13 final size:14
Alignment explanation
Indices: 36992110--36992143 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
36992100 GTGCTTCTTG
36992110 AACTTTTAACCCTA
1 AACTTTTAACCCTA
36992124 AACTTTTAA-CCTA
1 AACTTTTAACCCTA
36992137 ACACTTT
1 A-ACTTT
36992144 ATAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTTTTAACCCTA
Found at i:36992241 original size:16 final size:18
Alignment explanation
Indices: 36992215--36992247 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36992205 TTAATTTAAA
36992215 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
36992232 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
36992248 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:36992247 original size:17 final size:17
Alignment explanation
Indices: 36992199--36992247 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
36992189 CATATTATTT
36992199 ATTAAATTAA--TTT-A
1 ATTAAATTAATTTTTCA
*
36992213 AATAAATTAATTTTTCA
1 ATTAAATTAATTTTTCA
36992230 ATTAAA-TAATTTTCTCA
1 ATTAAATTAATTTT-TCA
36992247 A
1 A
36992248 CCCAATTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 9 0.31
16 10 0.34
17 10 0.34
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAATTAATTTTTCA
Found at i:37000285 original size:139 final size:139
Alignment explanation
Indices: 37000089--37000867 Score: 350
Period size: 139 Copynumber: 5.6 Consensus size: 139
37000079 CAGCTCGCAT
* * * ** * * *
37000089 TAACTGTTTTGGAGGCTGCGGTGTTGAACCTATGAGCCTTAAGATCACAAATAAGAGCTTGAGCT
1 TAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATCAGAGATGAGAGCTT-AGCT
* ** ** * * * * *
37000154 CTCGCTAAC-AGTTTTAGAGGCT-GTGACATCGGTCTTGCGAGCCTTAGGATCACAACTTGGAG-
65 CTCGCTAACTA-TTTTAGAGGATACAG-CATCGAACCTGCGAACCTTAAGATCAAAACTAGGAGC
37000216 CTTAGCTCTCGC
128 CTTAGCTCTCGC
* * * *
37000228 TAACTATTTTAGAGGCAGCGATATTGAACCTGCGAGCCTTAAGATCAGAGCTGAGAGCCTTAACT
1 TAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATCAGAGATGAGAG-CTTAGCT
* * *
37000293 CTCGCTAACTATTTTAGAGGATACAGTATTGAACCTGCGAACTTTAAGATCAAAACTAGGAGCCT
65 CTCGCTAACTATTTTAGAGGATACAGCATCGAACCTGCGAACCTTAAGATCAAAACTAGGAGCCT
37000358 TAGCTCTCGC
130 TAGCTCTCGC
* * * * *
37000368 TAACTATTTTTGGGGACTGCGGTATTGAACCTGCTAGCATTAAGATC-GCAGTTGAGAGCTTTAG
1 TAACTATTTTAGAGG-CTGCGGTATTGAACCTGCGAGCCTTAAGATCAG-AGATGAGAGC-TTAG
* * * * *** * * * * * * ** *
37000432 CCCTCGCTAACTATTTTTGGGGGTTGTGATATTGAACCTGCGAGCCCTAAGATTATAGTTGGGAG
63 CTCTCGCTAACTATTTTAGAGGATACAG-CATCGAACCTGCGAACCTTAAGATCAAAACTAGGAG
*
37000497 -GTTAGCTCTCGC
127 CCTTAGCTCTCGC
* * * * * * ** * * * *
37000509 TAACTATTTTAAAGGTTGTGGTATTGAACTTACAAGTATTAATATCATAGCTGGGAGCTTTAGCT
1 TAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATCAGAGATGAGAGC-TTAGCT
* * * * * ** * * * *
37000574 TTCGTTAACTTTTTTTG-GGACTAC-GATATTAAAACTGC-AAGCCCTAAGATCATAGCTTA-GA
65 CTCGCTAACTATTTTAGAGGA-TACAG-CATCGAACCTGCGAA-CCTTAAGATCAAAAC-TAGGA
*
37000635 G-CTTGAGCTCTTGC
126 GCCTT-AGCTCTCGC
* * * * * * * **
37000649 TAACTATTTTAGAGGTTGTGGTATTGAAACTGTGAGCCATAAGATCATAGCTG-GAGACTTATTT
1 TAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATCAGAGATGAGAG-CTTAGCT
* * ** * * *
37000713 CTCTG-TATCTATTTTAGAGGCTATGGTATTGAACTTGC-AAGCCTTAAGATCACAAA-T-GAGA
65 CTC-GCTAACTATTTTAGAGGATACAGCATCGAACCTGCGAA-CCTTAAGATCA-AAACTAG-GA
* *
37000774 GCATTAGCTTTCGC
126 GCCTTAGCTCTCGC
* * * * * * * * *
37000788 TAAAT-TTTTTGAGGGCTGTGGTATTGAACATGTGAGCCCTAAGATTACA-ACTGGGAGCTTTAG
1 TAACTATTTTAGA-GGCTGCGGTATTGAACCTGCGAGCCTTAAGATCAGAGA-TGAGAGC-TTAG
*
37000851 CTTTCGCTAACTATTTT
63 CTCTCGCTAACTATTTT
37000868 CTTTTAGAGG
Statistics
Matches: 497, Mismatches: 117, Indels: 51
0.75 0.18 0.08
Matches are distributed among these distances:
138 8 0.02
139 216 0.43
140 163 0.33
141 82 0.16
142 28 0.06
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (139 bp):
TAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATCAGAGATGAGAGCTTAGCTC
TCGCTAACTATTTTAGAGGATACAGCATCGAACCTGCGAACCTTAAGATCAAAACTAGGAGCCTT
AGCTCTCGC
Found at i:37000432 original size:71 final size:70
Alignment explanation
Indices: 37000089--37000867 Score: 392
Period size: 70 Copynumber: 11.1 Consensus size: 70
37000079 CAGCTCGCAT
* * * * ** ** *
37000089 TAACTGTTTTGGAGG-CTGCGGTGTTGAACCTATGAGCCTTAAGATCACAAATAAGAG-CTTGAG
1 TAACTATTTTAGAGGACTGCGATATTGAACCTGCGAGCCTTAAGATCA-AGCTGAGAGCCTT-AG
37000152 CTCTCGC
64 CTCTCGC
* * * ** * * *
37000159 TAAC-AGTTTTAGAGG-CTGTGACATCGGTCTTGCGAGCCTTAGGATCACAACTTG-GAG-CTTA
1 TAACTA-TTTTAGAGGACTGCGATATTGAACCTGCGAGCCTTAAGATCA-AGC-TGAGAGCCTTA
37000220 GCTCTCGC
63 GCTCTCGC
* *
37000228 TAACTATTTTAGAGG-CAGCGATATTGAACCTGCGAGCCTTAAGATCAGAGCTGAGAGCCTTAAC
1 TAACTATTTTAGAGGACTGCGATATTGAACCTGCGAGCCTTAAGATCA-AGCTGAGAGCCTTAGC
37000292 TCTCGC
65 TCTCGC
* * * *
37000298 TAACTATTTTAGAGGA-TAC-AGTATTGAACCTGCGAACTTTAAGATCAAAACT-AGGAGCCTTA
1 TAACTATTTTAGAGGACTGCGA-TATTGAACCTGCGAGCCTTAAGATC-AAGCTGA-GAGCCTTA
37000360 GCTCTCGC
63 GCTCTCGC
* * * * * * * *
37000368 TAACTATTTTTGGGGACTGCGGTATTGAACCTGCTAGCATTAAGATCGCAGTTGAGAGCTTTAGC
1 TAACTATTTTAGAGGACTGCGATATTGAACCTGCGAGCCTTAAGATC-AAGCTGAGAGCCTTAGC
*
37000433 CCTCGC
65 TCTCGC
* * ** * * * * * *
37000439 TAACTATTTTTGGGGGTTGTGATATTGAACCTGCGAGCCCTAAGATTATAGTTGGGAG-GTTAGC
1 TAACTATTTTAGAGGACTGCGATATTGAACCTGCGAGCCTTAAGATCA-AGCTGAGAGCCTTAGC
37000503 TCTCGC
65 TCTCGC
* * * * * * * ** * * *
37000509 TAACTATTTTAAAGG-TTGTGGTATTGAACTTACAAGTATTAATATCATAGCTGGGAGCTTTAGC
1 TAACTATTTTAGAGGACTGCGATATTGAACCTGCGAGCCTTAAGATCA-AGCTGAGAGCCTTAGC
* *
37000573 TTTCGT
65 TCTCGC
* * * * * * * *
37000579 TAACTTTTTTTG-GGACTACGATATTAAAACTGCAAGCCCTAAGATCATAGCTTAGAG-CTTGAG
1 TAACTATTTTAGAGGACTGCGATATTGAACCTGCGAGCCTTAAGATCA-AGCTGAGAGCCTT-AG
*
37000642 CTCTTGC
64 CTCTCGC
* * * * * * * **
37000649 TAACTATTTTAGAGG-TTGTGGTATTGAAACTGTGAGCCATAAGATCATAGCTG-GAGACTTATT
1 TAACTATTTTAGAGGACTGCGATATTGAACCTGCGAGCCTTAAGATCA-AGCTGAGAGCCTTAGC
37000712 TCTCTG-
65 TCTC-GC
* ** * * * ** *
37000718 TATCTATTTTAGAGG-CTATGGTATTGAACTTGCAAGCCTTAAGATCACAAATGAGAGCATTAGC
1 TAACTATTTTAGAGGACTGCGATATTGAACCTGCGAGCCTTAAGATCA-AGCTGAGAGCCTTAGC
*
37000782 TTTCGC
65 TCTCGC
* * * * * * * * * *
37000788 TAAAT-TTTTTGAGGGCTGTGGTATTGAACATGTGAGCCCTAAGATTACAA-CTGGGAGCTTTAG
1 TAACTATTTTAGAGGACTGCGATATTGAACCTGCGAGCCTTAAGA-T-CAAGCTGAGAGCCTTAG
*
37000851 CTTTCGC
64 CTCTCGC
37000858 TAACTATTTT
1 TAACTATTTT
37000868 CTTTTAGAGG
Statistics
Matches: 548, Mismatches: 136, Indels: 49
0.75 0.19 0.07
Matches are distributed among these distances:
68 2 0.00
69 147 0.27
70 299 0.55
71 97 0.18
72 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (70 bp):
TAACTATTTTAGAGGACTGCGATATTGAACCTGCGAGCCTTAAGATCAAGCTGAGAGCCTTAGCT
CTCGC
Found at i:37000502 original size:141 final size:139
Alignment explanation
Indices: 37000201--37000519 Score: 352
Period size: 141 Copynumber: 2.3 Consensus size: 139
37000191 CGAGCCTTAG
* * *
37000201 GATCACAACTTGGAGCTTAGCTCTCGCTAACTATTTTAGAGGCAGCGATATTGAACCTGCGAGCC
1 GATCAAAACTAGGAGCTTAGCTCTCGCTAACTATTTTAGAGGCAGCGATATTGAACCTGCGAGCA
*
37000266 TTAAGATCAGAGCTGAGAGCCTTAACTCTCGCTAACTATTTTAGAGGATACAGTATTGAACCTGC
66 TTAAGATCAGAGCTGAGAGCCTTAACCCTCGCTAACTATTTTAGAGGATACAGTATTGAACCTGC
**
37000331 GAACTTTAA
131 GAACCCTAA
* * * * *
37000340 GATCAAAACTAGGAGCCTTAGCTCTCGCTAACTATTTTTGGGGACTGCGGTATTGAACCTGCTAG
1 GATCAAAACTAGGAG-CTTAGCTCTCGCTAACTATTTTAGAGG-CAGCGATATTGAACCTGCGAG
* * * * * * ***
37000405 CATTAAGATC-GCAGTTGAGAGCTTTAGCCCTCGCTAACTATTTTTGGGGGTTGTGATATTGAAC
64 CATTAAGATCAG-AGCTGAGAGCCTTAACCCTCGCTAACTATTTTAGAGGATACAG-TATTGAAC
*
37000469 CTGCGAGCCCTAA
127 CTGCGAACCCTAA
* * ** * *
37000482 GATTATAGTTGGGAGGTTAGCTCTCGCTAACTATTTTA
1 GATCAAAACTAGGAGCTTAGCTCTCGCTAACTATTTTA
37000520 AAGGTTGTGG
Statistics
Matches: 148, Mismatches: 28, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
139 13 0.09
140 26 0.18
141 81 0.55
142 28 0.19
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (139 bp):
GATCAAAACTAGGAGCTTAGCTCTCGCTAACTATTTTAGAGGCAGCGATATTGAACCTGCGAGCA
TTAAGATCAGAGCTGAGAGCCTTAACCCTCGCTAACTATTTTAGAGGATACAGTATTGAACCTGC
GAACCCTAA
Found at i:37005239 original size:169 final size:169
Alignment explanation
Indices: 37004944--37005263 Score: 541
Period size: 169 Copynumber: 1.9 Consensus size: 169
37004934 CTAAAATAGA
* * *
37004944 CATATTGTTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTGTACATTACAGATACTATGGCCA
1 CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTATACATTACAGATACTATGGCCA
* * *
37005009 GGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTTTAATCGATCTGCAGCA
66 AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
*
37005074 TACATTTCATGTCTTTTTTTTTTTGCAATCGATCTGCAG
131 TACATTTCATGTCTTCTTTTTTTTGCAATCGATCTGCAG
* * *
37005113 CATACTGTTAGTTTATGCCATTGTTCTAGATGTCAATTTTCTATACATTATAGATACTGTGGCCA
1 CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTATACATTACAGATACTATGGCCA
*
37005178 AGGAAACATTAGATCAAGTTATGGTTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
66 AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
37005243 TACATTTCATGTCTTCTTTTT
131 TACATTTCATGTCTTCTTTTT
37005264 GTAATGGCAT
Statistics
Matches: 140, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
169 140 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (169 bp):
CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTATACATTACAGATACTATGGCCA
AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
TACATTTCATGTCTTCTTTTTTTTGCAATCGATCTGCAG
Found at i:37006183 original size:16 final size:15
Alignment explanation
Indices: 37006149--37006222 Score: 58
Period size: 16 Copynumber: 4.7 Consensus size: 15
37006139 ATAATTGAAT
* *
37006149 TATTTATTACAATTT
1 TATTTATTACAACTC
* *
37006164 TATTCTATTATAGCTC
1 TATT-TATTACAACTC
37006180 TATTTCATTACAACTC
1 TATTT-ATTACAACTC
* *
37006196 TATTATATTACAATTT
1 TATT-TATTACAACTC
37006212 TAATTTATTAC
1 T-ATTTATTAC
37006223 GACGAACCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
15 5 0.11
16 38 0.81
17 4 0.09
ACGTcount: A:0.32, C:0.14, G:0.01, T:0.53
Consensus pattern (15 bp):
TATTTATTACAACTC
Found at i:37014831 original size:36 final size:36
Alignment explanation
Indices: 37014784--37014860 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
37014774 CGAACTTTTT
37014784 TTTAGCTAAGTGTGATTGGATACTAGTAAAATCATC
1 TTTAGCTAAGTGTGATTGGATACTAGTAAAATCATC
37014820 TTTAGCTAAGTGTGATTGGATACTAGTAAAATCATC
1 TTTAGCTAAGTGTGATTGGATACTAGTAAAATCATC
37014856 TTTAG
1 TTTAG
37014861 GAAAAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (36 bp):
TTTAGCTAAGTGTGATTGGATACTAGTAAAATCATC
Found at i:37018032 original size:13 final size:13
Alignment explanation
Indices: 37018011--37018055 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
37018001 TTCCTTAATC
*
37018011 TTTAATTTATTAT
1 TTTATTTTATTAT
37018024 TTTATTTTAGTTA-
1 TTTATTTTA-TTAT
37018037 TTTATTTTAATTAT
1 TTTATTTT-ATTAT
37018051 TTTAT
1 TTTAT
37018056 CTGACTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:37019565 original size:14 final size:14
Alignment explanation
Indices: 37019530--37019570 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
37019520 AAACATCGAT
37019530 CCTAGACCTTGAAC
1 CCTAGACCTTGAAC
*
37019544 TCTAGACCTTGAAC
1 CCTAGACCTTGAAC
* *
37019558 CCTGGACCCTGAA
1 CCTAGACCTTGAA
37019571 TCTTAAACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (14 bp):
CCTAGACCTTGAAC
Found at i:37019620 original size:21 final size:21
Alignment explanation
Indices: 37019574--37019621 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
37019564 CCCTGAATCT
37019574 TAAACCTTCGACCTTGGACCC
1 TAAACCTTCGACCTTGGACCC
* **
37019595 CAAACCTT-GAACCTTGGATGC
1 TAAACCTTCG-ACCTTGGACCC
37019616 TAAACC
1 TAAACC
37019622 CTAAACTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (21 bp):
TAAACCTTCGACCTTGGACCC
Found at i:37019689 original size:14 final size:14
Alignment explanation
Indices: 37019670--37019733 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
37019660 CCTAAACCTT
*
37019670 GGGTCCAAGGTACA
1 GGGTCCAAGGTTCA
* *
37019684 GGGTCCCTAGGTCCA
1 GGGT-CCAAGGTTCA
* *
37019699 GGGTCCATGGTTTA
1 GGGTCCAAGGTTCA
*
37019713 GGGTTCAAGGTTCA
1 GGGTCCAAGGTTCA
*
37019727 GGATCCA
1 GGGTCCA
37019734 TAGTTTAGGG
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
14 26 0.68
15 12 0.32
ACGTcount: A:0.20, C:0.22, G:0.34, T:0.23
Consensus pattern (14 bp):
GGGTCCAAGGTTCA
Found at i:37019733 original size:28 final size:27
Alignment explanation
Indices: 37019692--37019751 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
37019682 CAGGGTCCCT
* * *
37019692 AGGTCCAGGGTCCATGGTTTAGGGTTC
1 AGGTTCAGGATCCATAGTTTAGGGTTC
37019719 AAGGTTCAGGATCCATAGTTTAGGGTTC
1 -AGGTTCAGGATCCATAGTTTAGGGTTC
37019747 AGGTT
1 AGGTT
37019752 AAAAAAATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.20, C:0.15, G:0.33, T:0.32
Consensus pattern (27 bp):
AGGTTCAGGATCCATAGTTTAGGGTTC
Found at i:37020971 original size:43 final size:43
Alignment explanation
Indices: 37020910--37021226 Score: 427
Period size: 43 Copynumber: 7.4 Consensus size: 43
37020900 GCGTCGCTAA
* * *
37020910 CTTTAGCGGTGCTTTTCCCACAAACGTCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
37020953 CTTTAGCGGTGCTTTTCCCACAATCGCCGCTAAATACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
*
37020996 CTTTAGCGGCGCCTTTCCCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
** * * * *
37021039 CTTTAATGGCGCTTTTACCACAAACGCCGCTATAGACCACGAT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
** * *
37021082 CTTTAGCGATGCTTTTACCACAAACGCCGCTAAAGACTATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* *
37021125 CTTTAGCGGCGTTTTTTCCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
*
37021168 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
37021211 TTTTAGTGGCGTTTTT
1 CTTTAGCGGCGCTTTT
37021227 TTTAAAAACG
Statistics
Matches: 240, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 240 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
Found at i:37021449 original size:19 final size:19
Alignment explanation
Indices: 37021425--37021462 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37021415 TACAAAAATG
*
37021425 TTAAAAGTTAAAATGATAA
1 TTAAAAGTCAAAATGATAA
37021444 TTAAAAGTCAAAATGATAA
1 TTAAAAGTCAAAATGATAA
37021463 AAATACTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (19 bp):
TTAAAAGTCAAAATGATAA
Found at i:37027177 original size:9 final size:9
Alignment explanation
Indices: 37027165--37027674 Score: 215
Period size: 9 Copynumber: 60.4 Consensus size: 9
37027155 TTAAGTAAAC
37027165 TATGTAAGT
1 TATGTAAGT
37027174 TATGT-A-T
1 TATGTAAGT
**
37027181 TACATAAGT
1 TATGTAAGT
* *
37027190 TATTTATGTAT
1 TATGTAAG--T
*
37027201 TATGTAAGC
1 TATGTAAGT
37027210 TATGTAAGT
1 TATGTAAGT
37027219 TATGTAAGT
1 TATGTAAGT
**
37027228 GCTGT-A-T
1 TATGTAAGT
37027235 TATGTAAGT
1 TATGTAAGT
*
37027244 TATATAAGT
1 TATGTAAGT
* *
37027253 TATGTAGGC
1 TATGTAAGT
37027262 TATGT-A-T
1 TATGTAAGT
*
37027269 TATGGAAGT
1 TATGTAAGT
*
37027278 TATTTAAGT
1 TATGTAAGT
*
37027287 TGTGTAAGT
1 TATGTAAGT
37027296 GT-TGT-A-T
1 -TATGTAAGT
37027303 TATGTAAGT
1 TATGTAAGT
37027312 TATGT-A-T
1 TATGTAAGT
*
37027319 TATATAAGTTT
1 TATGTAAG--T
**
37027330 TATGTAAAA
1 TATGTAAGT
37027339 TATGTAAG-
1 TATGTAAGT
**
37027347 T-TGTATTT
1 TATGTAAGT
*
37027355 TATGAAAGT
1 TATGTAAGT
*
37027364 TATATAAGT
1 TATGTAAGT
* *
37027373 TATGTAGGC
1 TATGTAAGT
37027382 TATGT-A-T
1 TATGTAAGT
*
37027389 TATGCAAGT
1 TATGTAAGT
*
37027398 TATTTAAGT
1 TATGTAAGT
*
37027407 TGTGTAAGT
1 TATGTAAGT
37027416 GT-TGT-A-T
1 -TATGTAAGT
*
37027423 TATGTAAGA
1 TATGTAAGT
37027432 TATGTAAG-
1 TATGTAAGT
**
37027440 T-TGTATTT
1 TATGTAAGT
37027448 TATGTAAGT
1 TATGTAAGT
*
37027457 TCTGT-A-T
1 TATGTAAGT
*
37027464 TATGTATGT
1 TATGTAAGT
37027473 TATGTAAGT
1 TATGTAAGT
*
37027482 TGTGT-AG-
1 TATGTAAGT
* *
37027489 AATGTAAGC
1 TATGTAAGT
37027498 TATGTAAGT
1 TATGTAAGT
*
37027507 TAAGTAAGT
1 TATGTAAGT
**
37027516 GGTGT-A-T
1 TATGTAAGT
37027523 TATGTAAGT
1 TATGTAAGT
*
37027532 TATGCAAGCTT
1 TATGTAAG--T
*
37027543 ATATATAAGT
1 -TATGTAAGT
37027553 TATGT-A-T
1 TATGTAAGT
*
37027560 TATGTTA-T
1 TATGTAAGT
*
37027568 TATG-CA-T
1 TATGTAAGT
*
37027575 TATGTAATT
1 TATGTAAGT
*
37027584 TAT-TATGT
1 TATGTAAGT
37027592 TAT-T-A--
1 TATGTAAGT
*
37027597 TATATAAGT
1 TATGTAAGT
37027606 TATGTAAGT
1 TATGTAAGT
*
37027615 TAT-TATGT
1 TATGTAAGT
37027623 TAT-T-A--
1 TATGTAAGT
*
37027628 TATATAAGT
1 TATGTAAGT
37027637 TATGTAAGT
1 TATGTAAGT
37027646 TATGTAAGT
1 TATGTAAGT
**
37027655 GGTGT-A-T
1 TATGTAAGT
37027662 TATGTAAGT
1 TATGTAAGT
37027671 TATG
1 TATG
37027675 CAAGCTTATA
Statistics
Matches: 370, Mismatches: 83, Indels: 96
0.67 0.15 0.17
Matches are distributed among these distances:
5 6 0.02
6 4 0.01
7 67 0.18
8 48 0.13
9 221 0.60
10 3 0.01
11 15 0.04
12 6 0.02
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
TATGTAAGT
Found at i:37027239 original size:34 final size:34
Alignment explanation
Indices: 37027195--37027683 Score: 196
Period size: 34 Copynumber: 14.8 Consensus size: 34
37027185 TAAGTTATTT
*
37027195 ATGTATTATGTAAGCTATGTAAGTTATGTAAGTG
1 ATGTATTATGTAAGTTATGTAAGTTATGTAAGTG
* * *
37027229 CTGTATTATGTAAGTTATATAAGTTATGTAGGCT-
1 ATGTATTATGTAAGTTATGTAAGTTATGTAAG-TG
* * *
37027263 ATGTATTATGGAAGTTATTTAAGTTGTGTAAGTG
1 ATGTATTATGTAAGTTATGTAAGTTATGTAAGTG
* *
37027297 TTGTATTATGTAAGTTATGT-A-TTATATAA--G
1 ATGTATTATGTAAGTTATGTAAGTTATGTAAGTG
** ** *
37027327 -T-T-TTATGTAAAATATGTAAG-T-TGTATTTT
1 ATGTATTATGTAAGTTATGTAAGTTATGTAAGTG
* * * * *
37027356 ATGAAAGTTATATAAGTTATGTAGGCTATGT-A-TT
1 ATG-TA-TTATGTAAGTTATGTAAGTTATGTAAGTG
* * * *
37027390 ATGCAAGTTATTTAAGTTGTGTAAGTGT-TGT-A-TT
1 ATG-TA-TTATGTAAGTTATGTAAGT-TATGTAAGTG
* ** *
37027424 ATGTAAGATATGTAAG-T-TGTATTTTATGTAAGTT
1 ATGT-A-TTATGTAAGTTATGTAAGTTATGTAAGTG
* *
37027458 CTGTATTATGTATGTTATGTAAG-T-TGT--GT-
1 ATGTATTATGTAAGTTATGTAAGTTATGTAAGTG
* *
37027487 A-G-A--ATGTAAGCTATGTAAGTTAAGTAAGTG
1 ATGTATTATGTAAGTTATGTAAGTTATGTAAGTG
* * * *
37027517 GTGTATTATGTAAGTTATGCAAGCTTATATATAAGTT
1 ATGTATTATGTAAGTTATGTAAG--T-TATGTAAGTG
* * *
37027554 ATGTATTATGTTATTATGCATTATGTAATTTAT-TATGTT
1 ATGTATTATG-TA--A-G--TTATGTAAGTTATGTAAGTG
* * *
37027593 AT-TA-TATATAAGTTATGTAAGTTAT-TATGTT
1 ATGTATTATGTAAGTTATGTAAGTTATGTAAGTG
*
37027624 AT-TA-TATATAAGTTATGTAAGTTATGTAAGTG
1 ATGTATTATGTAAGTTATGTAAGTTATGTAAGTG
* *
37027656 GTGTATTATGTAAGTTATGCAAGCTTAT
1 ATGTATTATGTAAGTTATGTAAG-TTAT
37027684 ATATAATTAT
Statistics
Matches: 352, Mismatches: 61, Indels: 83
0.71 0.12 0.17
Matches are distributed among these distances:
25 14 0.04
26 1 0.00
27 19 0.05
28 4 0.01
29 3 0.01
30 4 0.01
31 45 0.13
32 30 0.09
33 10 0.03
34 166 0.47
35 7 0.02
36 6 0.02
37 19 0.05
38 4 0.01
39 7 0.02
40 4 0.01
41 2 0.01
43 7 0.02
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (34 bp):
ATGTATTATGTAAGTTATGTAAGTTATGTAAGTG
Found at i:37027258 original size:25 final size:25
Alignment explanation
Indices: 37027148--37027224 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
37027138 TGATATATAT
*
37027148 TTATGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAGCTATGTAAG
*
37027173 TTATGTATTACA-TAAG---T-T-AT
1 TTATGTATTA-AGTAAGCTATGTAAG
*
37027193 TTATGTATTATGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGCTATGTAAG
37027218 TTATGTA
1 TTATGTA
37027225 AGTGCTGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
20 15 0.37
21 1 0.02
22 1 0.02
23 1 0.02
24 1 0.02
25 21 0.51
26 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAGCTATGTAAG
Found at i:37027327 original size:16 final size:16
Alignment explanation
Indices: 37027165--37027674 Score: 174
Period size: 16 Copynumber: 29.8 Consensus size: 16
37027155 TTAAGTAAAC
37027165 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
* *
37027181 TACATAAGTTATTTATGTAT
1 T--AT--GTAAGTTATGTAT
*
37027201 TATGTAAGCTATGTAAGT
1 TATGTAAGTTATGT-A-T
**
37027219 TATGTAAGTGCTGTAT
1 TATGTAAGTTATGTAT
*
37027235 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
37027253 TATGTAGGCTATGTAT
1 TATGTAAGTTATGTAT
* *
37027269 TATGGAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
37027287 TGTGTAAGTGT-TGTAT
1 TATGTAAGT-TATGTAT
37027303 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
* *
37027319 TATATAAGTTTTATGTAAAA
1 TATGTAAG--TTATGT--AT
* * *
37027339 TATGTAAGTTGTATTT
1 TATGTAAGTTATGTAT
* *
37027355 TATGAAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
37027373 TATGTAGGCTATGTAT
1 TATGTAAGTTATGTAT
* *
37027389 TATGCAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
37027407 TGTGTAAGTGT-TGTAT
1 TATGTAAGT-TATGTAT
* *
37027423 TATGTAAGATATGTAAG
1 TATGTAAGTTATGT-AT
**
37027440 T-TGTATTTTATGTAAGT
1 TATGTAAGTTATGT-A-T
*
37027457 TCTGT-A-TTATGTATGT
1 TATGTAAGTTATGTA--T
* *
37027473 TATGTAAGTTGTGTAG
1 TATGTAAGTTATGTAT
* *
37027489 AATGTAAGCTATGTAAGT
1 TATGTAAGTTATGT-A-T
* **
37027507 TAAGTAAGTGGTGTAT
1 TATGTAAGTTATGTAT
*
37027523 TATGTAAGTTATGCAAGCTT
1 TATGTAAGTTATG-TA---T
*
37027543 ATATATAAGTTATGTAT
1 -TATGTAAGTTATGTAT
* *
37027560 TATGTTA-TTATGCAT
1 TATGTAAGTTATGTAT
*
37027575 TATGTAATTTATTATGTTATT
1 TATGTAA---GTTATG-TA-T
*
37027596 ATATATAAGTTATGTAAGT
1 -TATGTAAGTTATGT-A-T
*
37027615 TAT-TATGTTAT-TA-
1 TATGTAAGTTATGTAT
*
37027628 TATATAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
**
37027646 TATGTAAGTGGTGTAT
1 TATGTAAGTTATGTAT
37027662 TATGTAAGTTATG
1 TATGTAAGTTATG
37027675 CAAGCTTATA
Statistics
Matches: 362, Mismatches: 84, Indels: 96
0.67 0.15 0.18
Matches are distributed among these distances:
13 3 0.01
14 7 0.02
15 18 0.05
16 151 0.42
17 25 0.07
18 102 0.28
19 14 0.04
20 23 0.06
21 13 0.04
22 6 0.02
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:37027334 original size:68 final size:68
Alignment explanation
Indices: 37027165--37027335 Score: 202
Period size: 68 Copynumber: 2.5 Consensus size: 68
37027155 TTAAGTAAAC
* *
37027165 TATGTAAGTTATGTATTACATAAGTTATTTATGTATTATGTAAGCTATGTAAGTTATGTAAGTGC
1 TATGTAAGTTATGTATTATATAAG-T-TTTATGTATTATGGAAGCTATGTAAGTTATGTAAGTGC
37027230 TGTAT
64 TGTAT
* * ** * * * *
37027235 TATGTAAGTTATATAAGTTATGT-AG-GCTATGTATTATGGAAGTTATTTAAGTTGTGTAAGTGT
1 TATGTAAGTTATGT-A-TTATATAAGTTTTATGTATTATGGAAGCTATGTAAGTTATGTAAGTGC
37027298 TGTAT
64 TGTAT
37027303 TATGTAAGTTATGTATTATATAAGTTTTATGTA
1 TATGTAAGTTATGTATTATATAAGTTTTATGTA
37027336 AAATATGTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
66 5 0.06
67 3 0.04
68 55 0.66
70 13 0.16
71 3 0.04
72 4 0.05
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (68 bp):
TATGTAAGTTATGTATTATATAAGTTTTATGTATTATGGAAGCTATGTAAGTTATGTAAGTGCTG
TAT
Found at i:37027462 original size:25 final size:25
Alignment explanation
Indices: 37027397--37027487 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 25
37027387 ATTATGCAAG
*
37027397 TTATTTAAGTTGTGTAAG-TGT-TGT
1 TTATGTAAGTTGTGTAAGTTGTAT-T
* *
37027421 ATTATGTAAGATATGTAAGTTGTATT
1 -TTATGTAAGTTGTGTAAGTTGTATT
* * *
37027447 TTATGTAAGTTCTGT-ATTATGTATG
1 TTATGTAAGTTGTGTAAGT-TGTATT
37027472 TTATGTAAGTTGTGTA
1 TTATGTAAGTTGTGTA
37027488 GAATGTAAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
24 2 0.04
25 47 0.87
26 4 0.07
27 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.22, T:0.51
Consensus pattern (25 bp):
TTATGTAAGTTGTGTAAGTTGTATT
Found at i:37027493 original size:25 final size:25
Alignment explanation
Indices: 37027441--37027507 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
37027431 ATATGTAAGT
* **
37027441 TGTATTTTATGTAAGTTCTGTATTA
1 TGTATGTTATGTAAGTTCTGTAGAA
*
37027466 TGTATGTTATGTAAGTTGTGTAGAA
1 TGTATGTTATGTAAGTTCTGTAGAA
* *
37027491 TGTAAGCTATGTAAGTT
1 TGTATGTTATGTAAGTT
37027508 AAGTAAGTGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.48
Consensus pattern (25 bp):
TGTATGTTATGTAAGTTCTGTAGAA
Found at i:37027494 original size:41 final size:41
Alignment explanation
Indices: 37027409--37027496 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
37027399 ATTTAAGTTG
***
37027409 TGTAAGTGTTGTATTATGTAAGATATGTAAGTTGTATTTTA
1 TGTAAGTGTTGTATTATGTAAGATATGTAAGTTGTATAGAA
* * *
37027450 TGTAAGT-TCTGTATTATGTATGTTATGTAAGTTGTGTAGAA
1 TGTAAGTGT-TGTATTATGTAAGATATGTAAGTTGTATAGAA
37027491 TGTAAG
1 TGTAAG
37027497 CTATGTAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (41 bp):
TGTAAGTGTTGTATTATGTAAGATATGTAAGTTGTATAGAA
Found at i:37027570 original size:8 final size:8
Alignment explanation
Indices: 37027552--37027628 Score: 54
Period size: 8 Copynumber: 9.5 Consensus size: 8
37027542 TATATATAAG
37027552 TTATG-TA
1 TTATGTTA
37027559 TTATGTTA
1 TTATGTTA
37027567 TTATGCATTA
1 TTATG--TTA
37027577 TGTAAT-TTA
1 T-T-ATGTTA
37027586 TTATGTTA
1 TTATGTTA
*
37027594 TTAT-ATA
1 TTATGTTA
*
37027601 -TAAGTTA
1 TTATGTTA
*
37027608 TGTAAGTTA
1 T-TATGTTA
37027617 TTATGTTA
1 TTATGTTA
37027625 TTAT
1 TTAT
37027629 ATATAAGTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
6 2 0.04
7 11 0.19
8 25 0.44
9 12 0.21
10 4 0.07
11 1 0.02
12 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (8 bp):
TTATGTTA
Found at i:37027576 original size:15 final size:14
Alignment explanation
Indices: 37027552--37027628 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 14
37027542 TATATATAAG
37027552 TTATGTATTATGTTA
1 TTATG-ATTATGTTA
*
37027567 TTATGCATTATGTAA
1 TTATG-ATTATGTTA
37027582 TT-T-ATTATGTTA
1 TTATGATTATGTTA
*
37027594 TTAT-ATATAAGTTA
1 TTATGAT-TATGTTA
*
37027608 TGTAAGTTATTATGTTA
1 T-T-A-TGATTATGTTA
37027625 TTAT
1 TTAT
37027629 ATATAAGTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
12 10 0.20
13 3 0.06
14 9 0.18
15 17 0.33
16 2 0.04
17 8 0.16
18 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (14 bp):
TTATGATTATGTTA
Found at i:37027608 original size:19 final size:19
Alignment explanation
Indices: 37027586--37027641 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
37027576 ATGTAATTTA
37027586 TTATGTTATTATATATAAG
1 TTATGTTATTATATATAAG
*
37027605 TTATG-TA--A-GT-T-A-
1 TTATGTTATTATATATAAG
37027617 TTATGTTATTATATATAAG
1 TTATGTTATTATATATAAG
37027636 TTATGT
1 TTATGT
37027642 AAGTTATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
12 5 0.18
13 3 0.11
14 1 0.04
15 2 0.07
16 2 0.07
17 1 0.04
18 3 0.11
19 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (19 bp):
TTATGTTATTATATATAAG
Found at i:37027612 original size:31 final size:31
Alignment explanation
Indices: 37027574--37027648 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
37027564 TTATTATGCA
*
37027574 TTATGTAATTTATTATGTTATTATATATAAG
1 TTATGTAAGTTATTATGTTATTATATATAAG
37027605 TTATGTAAGTTATTATGTTATTATATATAAG
1 TTATGTAAGTTATTATGTTATTATATATAAG
37027636 TTATGTAAGTTAT
1 TTATGTAAGTTAT
37027649 GTAAGTGGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (31 bp):
TTATGTAAGTTATTATGTTATTATATATAAG
Found at i:37027786 original size:45 final size:45
Alignment explanation
Indices: 37027720--37027819 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
37027710 ATTAATACTA
* *
37027720 ATAAATTTTATTACTAATAAATTTAGAACACTTATTTAGAAAACTT
1 ATAAA-TTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
37027766 ATAAATTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
1 ATAAATTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
37027811 ATAAATTTA
1 ATAAATTTA
37027820 GAAAACTTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
45 47 0.90
46 5 0.10
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (45 bp):
ATAAATTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
Found at i:37027803 original size:13 final size:13
Alignment explanation
Indices: 37027785--37027812 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37027775 ATACTAATAA
37027785 ATTTAGAAAACTT
1 ATTTAGAAAACTT
37027798 ATTTAGAAAACTT
1 ATTTAGAAAACTT
37027811 AT
1 AT
37027813 AAATTTAGAA
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:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:37027820 original size:17 final size:17
Alignment explanation
Indices: 37027753--37027830 Score: 96
Period size: 17 Copynumber: 4.9 Consensus size: 17
37027743 TAGAACACTT
37027753 ATTTAGAAAACTTATAA
1 ATTTAGAAAACTTATAA
* *
37027770 ATTT--AATACTAATAA
1 ATTTAGAAAACTTATAA
37027785 ATTTAGAAAAC-T-T--
1 ATTTAGAAAACTTATAA
37027798 ATTTAGAAAACTTATAA
1 ATTTAGAAAACTTATAA
37027815 ATTTAGAAAACTTATA
1 ATTTAGAAAACTTATA
37027831 TAGATATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.22
14 1 0.02
15 15 0.29
17 24 0.47
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.37
Consensus pattern (17 bp):
ATTTAGAAAACTTATAA
Found at i:37027843 original size:18 final size:17
Alignment explanation
Indices: 37027756--37027843 Score: 64
Period size: 17 Copynumber: 5.5 Consensus size: 17
37027746 AACACTTATT
37027756 TAGAAAACTTATAAAT-
1 TAGAAAACTTATAAATA
* * * *
37027772 T-TAATACTAATAAATT
1 TAGAAAACTTATAAATA
37027788 TAGAAAACTTAT---T-
1 TAGAAAACTTATAAATA
*
37027801 TAGAAAACTTATAAATT
1 TAGAAAACTTATAAATA
37027818 TAGAAAACTTATATAGATA
1 TAGAAAACTTATA-A-ATA
37027837 T-GAAAAC
1 TAGAAAAC
37027844 AATATTTATA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
13 12 0.21
14 1 0.02
15 11 0.19
16 3 0.05
17 20 0.35
18 7 0.12
19 3 0.05
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (17 bp):
TAGAAAACTTATAAATA
Found at i:37028135 original size:21 final size:21
Alignment explanation
Indices: 37028109--37028148 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37028099 TCCAAAATTT
37028109 ATTGCGTTTTTGGCACGAATG
1 ATTGCGTTTTTGGCACGAATG
*
37028130 ATTGCGTTTTTTGCACGAA
1 ATTGCGTTTTTGGCACGAA
37028149 CGTAGCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (21 bp):
ATTGCGTTTTTGGCACGAATG
Found at i:37030562 original size:7 final size:7
Alignment explanation
Indices: 37030550--37030588 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
37030540 GTAAGTATAT
37030550 CCCTAAC
1 CCCTAAC
37030557 CCCTAAC
1 CCCTAAC
*
37030564 CCTTAAC
1 CCCTAAC
*
37030571 CTCTAAC
1 CCCTAAC
37030578 CCCTAAC
1 CCCTAAC
37030585 CCCT
1 CCCT
37030589 CTTTTACAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.26, C:0.54, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:37030741 original size:21 final size:20
Alignment explanation
Indices: 37030693--37030732 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
37030683 CCTTAAATCA
* *
37030693 CTAACTCTTAACCTCTAACC
1 CTAACCCTTAACCCCTAACC
37030713 CTAAACCCTTAACCCCTAAC
1 CT-AACCCTTAACCCCTAAC
37030733 TGCTAACCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (20 bp):
CTAACCCTTAACCCCTAACC
Found at i:37030859 original size:74 final size:76
Alignment explanation
Indices: 37030735--37030880 Score: 201
Period size: 74 Copynumber: 1.9 Consensus size: 76
37030725 CCCCTAACTG
* *
37030735 CTAACCCATAAACCTTATTTAATATATAAATTTAAAACCACTAATTAATCTAAACCCTAAA-CCA
1 CTAACCCATAAACATTATTTAATATATAAATTTAAAACCACTAATGAATCTAAACCCTAAAGCC-
37030799 TAACCTGAATCC
65 TAACCTGAATCC
* * *
37030811 CTAACCCCTAAATATTATTT-A-ATATAAA-TTAAAACACGCTAATGAATCTAAACCCTAAAGCC
1 CTAACCCATAAACATTATTTAATATATAAATTTAAAAC-CACTAATGAATCTAAACCCTAAAGCC
37030873 TAACCTGA
65 TAACCTGA
37030881 CATCGAATCC
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
73 7 0.11
74 36 0.57
75 3 0.05
76 17 0.27
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.28
Consensus pattern (76 bp):
CTAACCCATAAACATTATTTAATATATAAATTTAAAACCACTAATGAATCTAAACCCTAAAGCCT
AACCTGAATCC
Found at i:37030952 original size:134 final size:134
Alignment explanation
Indices: 37030814--37031081 Score: 500
Period size: 134 Copynumber: 2.0 Consensus size: 134
37030804 TGAATCCCTA
37030814 ACCCCTAAATATTATTTAATATAAATTAAAACACGCTAATGAATCTAAACCCTAAAGCCTAACCT
1 ACCCCTAAATATTATTTAATATAAATTAAAACACGCTAATGAATCTAAACCCTAAAGCCTAACCT
* * *
37030879 GACATCGAATCCATAAACCCGAAATCTCTAACTCTTAATCTCTAACCCCTAACCCCTAAATCACA
66 GACACCGAATCCATAAACCCAAAATCCCTAACTCTTAATCTCTAACCCCTAACCCCTAAATCACA
37030944 ACCC
131 ACCC
*
37030948 ACCCCTAAATATTATTTAATATAAATTAAAACACGCTAATTAATCTAAACCCTAAAGCCTAACCT
1 ACCCCTAAATATTATTTAATATAAATTAAAACACGCTAATGAATCTAAACCCTAAAGCCTAACCT
37031013 GACACCGAATCCATAAACCCAAAATCCCTAACTCTTAATCTCTAACCCCTAACCCCTAAATCACA
66 GACACCGAATCCATAAACCCAAAATCCCTAACTCTTAATCTCTAACCCCTAACCCCTAAATCACA
37031078 ACCC
131 ACCC
37031082 TTAAACCAGA
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 130 1.00
ACGTcount: A:0.41, C:0.31, G:0.04, T:0.24
Consensus pattern (134 bp):
ACCCCTAAATATTATTTAATATAAATTAAAACACGCTAATGAATCTAAACCCTAAAGCCTAACCT
GACACCGAATCCATAAACCCAAAATCCCTAACTCTTAATCTCTAACCCCTAACCCCTAAATCACA
ACCC
Found at i:37031114 original size:14 final size:15
Alignment explanation
Indices: 37031091--37031123 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37031081 CTTAAACCAG
*
37031091 AATCCTTAA-TCCAT
1 AATCCCTAATTCCAT
37031105 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
37031120 AATC
1 AATC
37031124 TATAAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:37031440 original size:20 final size:19
Alignment explanation
Indices: 37031407--37031452 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
37031397 ATTGAATTTT
37031407 AATT-AATATAAATAAACA
1 AATTAAATATAAATAAACA
37031425 AATTAAATAGTAAATAAACA
1 AATTAAATA-TAAATAAACA
*
37031445 AATAAAAT
1 AATTAAAT
37031453 GTTTTAGCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 4 0.16
19 4 0.16
20 17 0.68
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
AATTAAATATAAATAAACA
Found at i:37031737 original size:41 final size:41
Alignment explanation
Indices: 37031455--37031737 Score: 316
Period size: 41 Copynumber: 6.9 Consensus size: 41
37031445 AATAAAATGT
* * *
37031455 TTTAGCGGCGCTTTTTTAAAAACGCCGCTAAAAGCCAGAGC
1 TTTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGCCCGATC
* * * ** *
37031496 ATTAGCGGCGCATTTTAAAAAACGCCGCT-ACAGCTCTTAGC
1 TTTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGC-CCGATC
* * * * *
37031537 ATTAGTGGCGCTTTTTCAAAAATGCCTCTAAAAGCCCGATC
1 TTTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGCCCGATC
* * * * *
37031578 TTTAGTGACGCTATTTAAAAAACACCGCTAAAAGCCCAATC
1 TTTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGCCCGATC
* * *
37031619 TTTAGCGGCACTATTTAAAAAACGCCGCTAAAAGCCCAATC
1 TTTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGCCCGATC
*
37031660 TTTAGCGGCGCTATTTAAAAAACGCCGCTAAAAGCCCGATC
1 TTTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGCCCGATC
* * *
37031701 TTTAGCGGCGCTTTTTCAAAAACACTGCTAAAAGCCC
1 TTTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGCCC
37031738 CGAAAGGTTA
Statistics
Matches: 207, Mismatches: 33, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
40 4 0.02
41 199 0.96
42 4 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (41 bp):
TTTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGCCCGATC
Found at i:37031822 original size:40 final size:40
Alignment explanation
Indices: 37031772--37031907 Score: 143
Period size: 40 Copynumber: 3.4 Consensus size: 40
37031762 TGAGCTTAGG
* * *
37031772 TTTTTTGCGGCGTTTTTTA-GAAAATCGCCGCTAATGATC-A
1 TTTTTAGCGGCG--TTTTACGAAAAGCGCCGCTAATGCTCGA
* * *
37031812 TTTTTAGCGGCGCTGTACTAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCGA
* *
37031852 TCTTTA-CTGGCGTTTTACGTAAAGCGCCGCTAATGCTCGA
1 TTTTTAGC-GGCGTTTTACGAAAAGCGCCGCTAATGCTCGA
*
37031892 TTTTTAGCGGCATTTT
1 TTTTTAGCGGCGTTTT
37031908 TTTGTCAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.04
39 18 0.23
40 57 0.72
41 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCGA
Found at i:37032003 original size:21 final size:21
Alignment explanation
Indices: 37031974--37032017 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
37031964 ACACCAAAAC
* **
37031974 AGGCTTTTAGCGGCTTTTTTT
1 AGGCCTTTAGCGGCGATTTTT
37031995 AGGCCTTTAGCGGCGATTTTT
1 AGGCCTTTAGCGGCGATTTTT
37032016 AG
1 AG
37032018 TGCCGTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.27, T:0.43
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGATTTTT
Found at i:37032178 original size:42 final size:43
Alignment explanation
Indices: 37032087--37032264 Score: 288
Period size: 43 Copynumber: 4.2 Consensus size: 43
37032077 AAATAAACCA
*
37032087 GCTAAA-AGTCATGACCTTTAGCGGTGCTTTTCCCACAAACGCC
1 GCTAAAGAG-CATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
37032130 GCTAAAGAGCATAACCTTTAGCGGCGCTTTT-CCACAAACACC
1 GCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
37032172 GCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
37032215 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAAAAACGCC
1 GCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
37032258 GCTAAAG
1 GCTAAAG
37032265 GTCATGAAAA
Statistics
Matches: 126, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
42 40 0.32
43 84 0.67
44 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (43 bp):
GCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
Found at i:37032232 original size:85 final size:87
Alignment explanation
Indices: 37032087--37032271 Score: 297
Period size: 85 Copynumber: 2.2 Consensus size: 87
37032077 AAATAAACCA
* *
37032087 GCTAAA-AGTCATGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAGAGCATAACCTTTAG
1 GCTAAAGAGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATAACCTTTAG
*
37032151 CGGCGCTTTT-CCACAAACACC
66 CGGCGCTTTTCCCAAAAACACC
*
37032172 GCTAAAGAG-CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAG
1 GCTAAAGAGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATAACCTTTAG
*
37032236 CGGCGCTTTTCCCAAAAACGCC
66 CGGCGCTTTTCCCAAAAACACC
37032258 GCTAAAG-GTCATGA
1 GCTAAAGAGTCATGA
37032272 AAAATAGAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
85 69 0.75
86 23 0.25
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (87 bp):
GCTAAAGAGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATAACCTTTAG
CGGCGCTTTTCCCAAAAACACC
Found at i:37034227 original size:2 final size:2
Alignment explanation
Indices: 37034222--37034282 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
37034212 TTATTTGCAA
37034222 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37034264 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
37034283 CTCATGTACA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37035771 original size:21 final size:21
Alignment explanation
Indices: 37035730--37035771 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37035720 AGTTTCCCTT
* *
37035730 TTTCTTTCTTTTTCTTCTTTC
1 TTTCTTTCTTTTCCCTCTTTC
*
37035751 TTTCTTTCTTTTCCCTGTTTC
1 TTTCTTTCTTTTCCCTCTTTC
37035772 GTTTGCTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTCTTTCTTTTCCCTCTTTC
Found at i:37035831 original size:3 final size:3
Alignment explanation
Indices: 37035823--37035873 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
37035813 TTTTTACTTT
37035823 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37035871 ATA
1 ATA
37035874 TCTTTTAACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37039121 original size:34 final size:34
Alignment explanation
Indices: 37039045--37039123 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
37039035 ATCACAATGC
* **
37039045 CAGTAATCAGTAGGGCCTTTGCCCAATTTTAGTAA
1 CAGT-ATCAGTAGGGCCTTAGCCCAATAATAGTAA
* *
37039080 TAGTATCAGTGGGGCCTTAGCCC-ATAATAGTAA
1 CAGTATCAGTAGGGCCTTAGCCCAATAATAGTAA
37039113 CAGATATCAGT
1 CAG-TATCAGT
37039124 CATGCAGTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
33 10 0.27
34 24 0.65
35 3 0.08
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (34 bp):
CAGTATCAGTAGGGCCTTAGCCCAATAATAGTAA
Found at i:37039604 original size:27 final size:26
Alignment explanation
Indices: 37039569--37039693 Score: 135
Period size: 27 Copynumber: 4.7 Consensus size: 26
37039559 CATTTCATCT
**
37039569 CCTA-GGGGTATAACAGTCATTTTAC
1 CCTATGGGGTATTTCAGTCATTTTAC
*
37039594 CCTATGAGGGTATTTCGGTCATTTTAC
1 CCTATG-GGGTATTTCAGTCATTTTAC
* *
37039621 CCTGTGGAGGTATTTCAGTCATTCTAC
1 CCTATGG-GGTATTTCAGTCATTTTAC
* *
37039648 CCTATGGTGGTATTTCGGTCATTTTAT
1 CCTATGG-GGTATTTCAGTCATTTTAC
*
37039675 CCTATAGAGGTATTTCAGT
1 CCTAT-GGGGTATTTCAGT
37039694 TATAACAATG
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.05
26 2 0.02
27 76 0.92
28 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (26 bp):
CCTATGGGGTATTTCAGTCATTTTAC
Found at i:37039688 original size:54 final size:54
Alignment explanation
Indices: 37039582--37039693 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
37039572 AGGGGTATAA
* * *
37039582 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTGTGGAGGTATTT
1 CAGTCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATAGAGGTATTT
*
37039636 CAGTCATTCTACCCTATG-GTGGTATTTCGGTCATTTTATCCTATAGAGGTATTT
1 CAGTCATTCTACCCTATGAG-GGTATTTCGGTCATTTTACCCTATAGAGGTATTT
37039690 CAGT
1 CAGT
37039694 TATAACAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.02
54 52 0.98
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (54 bp):
CAGTCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATAGAGGTATTT
Found at i:37040099 original size:15 final size:15
Alignment explanation
Indices: 37040079--37040118 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
37040069 CAGATTCCCT
37040079 TTGTTCCGAACACTC
1 TTGTTCCGAACACTC
37040094 TTGTTCCGAACACTC
1 TTGTTCCGAACACTC
37040109 TTGTTCCGAA
1 TTGTTCCGAA
37040119 AATCAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (15 bp):
TTGTTCCGAACACTC
Found at i:37044824 original size:2 final size:2
Alignment explanation
Indices: 37044817--37044855 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
37044807 NNNNTACTAT
37044817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37044856 GTAAACATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37048377 original size:18 final size:18
Alignment explanation
Indices: 37048354--37048399 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
37048344 ACAAAATATG
37048354 GTTGGAAAAGTAAAAGGT
1 GTTGGAAAAGTAAAAGGT
37048372 GTTGGAAAAGTAAAAGGT
1 GTTGGAAAAGTAAAAGGT
37048390 GTTGGAAAAG
1 GTTGGAAAAG
37048400 ATGCACAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.22
Consensus pattern (18 bp):
GTTGGAAAAGTAAAAGGT
Found at i:37050366 original size:12 final size:13
Alignment explanation
Indices: 37050349--37050378 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
37050339 TCCCCTTTTC
37050349 TTTTCTTCCCCT-
1 TTTTCTTCCCCTG
37050361 TTTTCTTCCCCTG
1 TTTTCTTCCCCTG
37050374 TTTTC
1 TTTTC
37050379 GTCTCTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.00, C:0.37, G:0.03, T:0.60
Consensus pattern (13 bp):
TTTTCTTCCCCTG
Found at i:37050633 original size:5 final size:5
Alignment explanation
Indices: 37050623--37050680 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
37050613 GATATATATA
* * *
37050623 ATAAT ATAAT ATAAT ATAAC ATAAC ATAAC ATAAT ATATTAT ATAAT A-AA-
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA--AT ATAAT ATAAT
37050673 ATAAT ATA
1 ATAAT ATA
37050681 CATAACATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
3 1 0.02
4 4 0.09
5 37 0.79
7 5 0.11
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:37050636 original size:10 final size:10
Alignment explanation
Indices: 37050623--37050690 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
37050613 GATATATATA
*
37050623 ATAATATAAT
1 ATAATATAAC
37050633 ATAATATAAC
1 ATAATATAAC
*
37050643 ATAACATAAC
1 ATAATATAAC
*
37050653 ATAATATATTAT
1 ATAATATA--AC
37050665 ATAATA-AA-
1 ATAATATAAC
37050673 ATAATAT-AC
1 ATAATATAAC
*
37050682 ATAACATAA
1 ATAATATAA
37050691 AAATCTCATA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
8 7 0.15
9 7 0.15
10 26 0.54
11 1 0.02
12 7 0.15
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAATATAAC
Found at i:37050694 original size:20 final size:19
Alignment explanation
Indices: 37050618--37050692 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 19
37050608 TTATTGATAT
* *
37050618 ATATA-ATAATATAATATA
1 ATATACATAACATAAAATA
*
37050636 ATATAACATAACATAACATA
1 ATAT-ACATAACATAAAATA
*
37050656 ATATATTATATA-ATAAAATA
1 ATATA-CATA-ACATAAAATA
37050676 ATATACATAACATAAAA
1 ATATACATAACATAAAA
37050693 ATCTCATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 5 0.11
19 11 0.23
20 30 0.64
21 1 0.02
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (19 bp):
ATATACATAACATAAAATA
Found at i:37057881 original size:5 final size:5
Alignment explanation
Indices: 37057824--37057871 Score: 62
Period size: 5 Copynumber: 9.6 Consensus size: 5
37057814 GATATATATA
* *
37057824 ATAAT ATAAT ATAAT ATAAC ATAAT ATAAT AT-AT AATAAA ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATA
37057872 CATAACATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 2 0.05
5 34 0.92
6 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:37058719 original size:20 final size:20
Alignment explanation
Indices: 37058694--37058733 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37058684 TATTTTGCAT
37058694 GCATAGCAAAATTGTGACAA
1 GCATAGCAAAATTGTGACAA
37058714 GCATAGCAAAATTGTGACAA
1 GCATAGCAAAATTGTGACAA
37058734 ACAAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (20 bp):
GCATAGCAAAATTGTGACAA
Found at i:37060977 original size:19 final size:19
Alignment explanation
Indices: 37060953--37060990 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
37060943 TTTTTCTAAC
37060953 ACGTTGTGCATAGAATTGG
1 ACGTTGTGCATAGAATTGG
37060972 ACGTTGTGCATAGAATTGG
1 ACGTTGTGCATAGAATTGG
37060991 TTTCCTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
ACGTTGTGCATAGAATTGG
Found at i:37064011 original size:2 final size:2
Alignment explanation
Indices: 37064004--37064029 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37063994 AATTAAAGCA
37064004 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
37064030 TAAATCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37068936 original size:22 final size:22
Alignment explanation
Indices: 37068914--37068973 Score: 50
Period size: 22 Copynumber: 2.6 Consensus size: 22
37068904 TCCGATTAGA
* * *
37068914 AAAATAAATAAAAAGAA-GAAG
1 AAAAAAAATAAAAACAACAAAG
*
37068935 AAAAGAAAATAGAAACAACAAAG
1 AAAA-AAAATAAAAACAACAAAG
37068958 AAGAAAGAAATAAAAA
1 AA-AAA-AAATAAAAA
37068974 AATAGAGAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 4 0.13
22 10 0.33
23 6 0.20
24 10 0.33
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.07
Consensus pattern (22 bp):
AAAAAAAATAAAAACAACAAAG
Found at i:37070759 original size:22 final size:22
Alignment explanation
Indices: 37070731--37070847 Score: 129
Period size: 22 Copynumber: 5.6 Consensus size: 22
37070721 AAGCTTGCTA
37070731 GGCACAAAGCCTGAATAACACC
1 GGCACAAAGCCTGAATAACACC
* *
37070753 GGCACAAAGACTAAATAACACC
1 GGCACAAAGCCTGAATAACACC
*
37070775 GGCACAAAGCCT-ACT---A--
1 GGCACAAAGCCTGAATAACACC
* *
37070791 GACACAAAGCCTGAATAACACT
1 GGCACAAAGCCTGAATAACACC
*
37070813 GCCACAAAGCCTGAATAACACC
1 GGCACAAAGCCTGAATAACACC
*
37070835 GGCACGAAGCCTG
1 GGCACAAAGCCTG
37070848 CTAGGCATAA
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
16 11 0.14
17 2 0.03
18 1 0.01
20 1 0.01
21 2 0.03
22 62 0.78
ACGTcount: A:0.41, C:0.31, G:0.18, T:0.10
Consensus pattern (22 bp):
GGCACAAAGCCTGAATAACACC
Found at i:37070803 original size:60 final size:60
Alignment explanation
Indices: 37070710--37070867 Score: 217
Period size: 60 Copynumber: 2.6 Consensus size: 60
37070700 AACTTTTAAT
* * *
37070710 ACACCGGCACTAAGCTTGCTAGGCACAAAGCCTGAATAACACCGGCACAAAGACTAAATA
1 ACACCGGCACAAAGCCTGCTAGGCACAAAGCCTGAATAACACCGCCACAAAGACTAAATA
* * * * *
37070770 ACACCGGCACAAAGCCTACTAGACACAAAGCCTGAATAACACTGCCACAAAGCCTGAATA
1 ACACCGGCACAAAGCCTGCTAGGCACAAAGCCTGAATAACACCGCCACAAAGACTAAATA
* * *
37070830 ACACCGGCACGAAGCCTGCTAGGCATAAAGCCCGAATA
1 ACACCGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
37070868 GCAATATAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 85 1.00
ACGTcount: A:0.39, C:0.30, G:0.18, T:0.12
Consensus pattern (60 bp):
ACACCGGCACAAAGCCTGCTAGGCACAAAGCCTGAATAACACCGCCACAAAGACTAAATA
Found at i:37076808 original size:33 final size:33
Alignment explanation
Indices: 37076766--37076832 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
37076756 TTAACTAGAT
37076766 TTCAAGCCTTTGGAAGTCATCCCAACCATTCCA
1 TTCAAGCCTTTGGAAGTCATCCCAACCATTCCA
37076799 TTCAAGCCTTTGGAAGTCATCCCAACCATTCCA
1 TTCAAGCCTTTGGAAGTCATCCCAACCATTCCA
37076832 T
1 T
37076833 CTAATGGACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (33 bp):
TTCAAGCCTTTGGAAGTCATCCCAACCATTCCA
Found at i:37078945 original size:25 final size:25
Alignment explanation
Indices: 37078911--37078961 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
37078901 CTTTCAAAGG
37078911 TATGGCTGCTTATCCGTCAGAACCT
1 TATGGCTGCTTATCCGTCAGAACCT
37078936 TATGGCTGCTTATCCGTCAGAACCT
1 TATGGCTGCTTATCCGTCAGAACCT
37078961 T
1 T
37078962 CTTTGGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (25 bp):
TATGGCTGCTTATCCGTCAGAACCT
Found at i:37087147 original size:28 final size:28
Alignment explanation
Indices: 37087089--37087150 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
37087079 AGAAAAATTA
* **
37087089 AAAAAATTCTAAATAAATAAATATTGTT
1 AAAAAATTCTAAATAAATAAATAATACT
*
37087117 AAAAAATTCT-AATATATAAATAAATACT
1 AAAAAATTCTAAATAAATAAAT-AATACT
37087145 AAAAAA
1 AAAAAA
37087151 ATATTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (28 bp):
AAAAAATTCTAAATAAATAAATAATACT
Found at i:37094012 original size:9 final size:9
Alignment explanation
Indices: 37093998--37094028 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
37093988 GTTAAACGAA
37093998 TCGAGTTAT
1 TCGAGTTAT
*
37094007 TCGAGTTAA
1 TCGAGTTAT
37094016 TCGAGTTAT
1 TCGAGTTAT
37094025 TCGA
1 TCGA
37094029 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:37094099 original size:9 final size:9
Alignment explanation
Indices: 37094082--37094118 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
37094072 TGAGTTTTCG
37094082 AATTCGAAT
1 AATTCGAAT
*
37094091 AACTCGAAT
1 AATTCGAAT
*
37094100 AATTTGAAT
1 AATTCGAAT
37094109 AATTCGAAT
1 AATTCGAAT
37094118 A
1 A
37094119 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:37096807 original size:5 final size:5
Alignment explanation
Indices: 37096799--37096823 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37096789 CACAAACCAA
37096799 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
37096824 CCATCAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:37099020 original size:23 final size:23
Alignment explanation
Indices: 37098994--37099040 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
37098984 AGGGTCTAAT
*
37098994 AAAAATT-TCCAAAAATTTTTAAA
1 AAAAATTAT-CAAAAAATTTTAAA
*
37099017 AAAAATTATGAAAAAATTTTAAA
1 AAAAATTATCAAAAAATTTTAAA
37099040 A
1 A
37099041 TTTTGACTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAAATTATCAAAAAATTTTAAA
Found at i:37106720 original size:14 final size:15
Alignment explanation
Indices: 37106696--37106726 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
37106686 TTATCCTTTT
37106696 TTTTTATTTGAACAA
1 TTTTTATTTGAACAA
37106711 TTTTTA-TTGAACAA
1 TTTTTATTTGAACAA
37106725 TT
1 TT
37106727 ATGTATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (15 bp):
TTTTTATTTGAACAA
Found at i:37108413 original size:12 final size:12
Alignment explanation
Indices: 37108398--37108435 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
37108388 TATCTATTAT
37108398 AATATTTCTCTG
1 AATATTTCTCTG
37108410 AATATTTCTCTG
1 AATATTTCTCTG
37108422 AATATTTCTCTG
1 AATATTTCTCTG
37108434 AA
1 AA
37108436 CTCTCCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (12 bp):
AATATTTCTCTG
Found at i:37115421 original size:13 final size:13
Alignment explanation
Indices: 37115370--37115421 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
37115360 TTTAAACCAA
*
37115370 ACTTTTCAAAAGC
1 ACTTTTCAAAAAC
*
37115383 A-TTCTCAAAAAC
1 ACTTTTCAAAAAC
* *
37115395 ACTTTTCCACAAC
1 ACTTTTCAAAAAC
37115408 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
37115421 A
1 A
37115422 ATGAAGAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
12 10 0.32
13 21 0.68
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:37123596 original size:14 final size:14
Alignment explanation
Indices: 37123577--37123608 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
37123567 GAGAAAATCA
37123577 TTTTTTAAAATATT
1 TTTTTTAAAATATT
*
37123591 TTTTTTTAAATATT
1 TTTTTTAAAATATT
37123605 TTTT
1 TTTT
37123609 ATGTGCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTTAAAATATT
Found at i:37131530 original size:10 final size:10
Alignment explanation
Indices: 37131515--37131550 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
37131505 CTGTACCAAT
37131515 TCGTCAGGAG
1 TCGTCAGGAG
37131525 TCGTCAGGAG
1 TCGTCAGGAG
37131535 TCGTCAGGAG
1 TCGTCAGGAG
37131545 TCGTCA
1 TCGTCA
37131551 CACTATCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.19, C:0.22, G:0.36, T:0.22
Consensus pattern (10 bp):
TCGTCAGGAG
Found at i:37135810 original size:46 final size:45
Alignment explanation
Indices: 37135743--37136329 Score: 759
Period size: 46 Copynumber: 13.6 Consensus size: 45
37135733 TTTGAGTACT
* *
37135743 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
37135789 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
37135825 TCTGATCAAGAGACAAAGTGATAAGTGGTAACTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
37135871 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
37135907 TCTGATCAAGTGAAAAAGTGATAA---GT-G-TTA--T--AC-T-
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
37135941 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
37135987 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
37136033 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
37136078 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
37136123 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
37136169 TCTGATCAAATGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
37136214 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
37136260 TCTGATCAAGTGACAAAGCGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
37136305 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
37136330 ATCATATGTA
Statistics
Matches: 492, Mismatches: 23, Indels: 55
0.86 0.04 0.10
Matches are distributed among these distances:
34 23 0.05
35 1 0.00
36 67 0.14
37 4 0.01
38 2 0.00
40 7 0.01
42 3 0.01
43 13 0.03
44 7 0.01
45 153 0.31
46 212 0.43
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:37135820 original size:36 final size:36
Alignment explanation
Indices: 37135779--37135967 Score: 220
Period size: 36 Copynumber: 5.0 Consensus size: 36
37135769 GGTAGCTTTA
37135779 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
37135815 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAACTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---G------T
37135860 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
37135897 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
37135933 GTTATAC-T-TCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
37135967 G
1 G
37135968 GTAGCTTTAG
Statistics
Matches: 136, Mismatches: 7, Indels: 22
0.82 0.04 0.13
Matches are distributed among these distances:
34 26 0.19
35 1 0.01
36 73 0.54
37 1 0.01
39 1 0.01
43 1 0.01
45 1 0.01
46 32 0.24
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:37136097 original size:91 final size:91
Alignment explanation
Indices: 37135941--37136329 Score: 685
Period size: 91 Copynumber: 4.3 Consensus size: 91
37135931 GTGTTATACT
37135941 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
**
37136006 GATAAGTGGTAGTTTTAGCTACACTTA
66 GATAAGTGGTAG-CCTAGCTACACTTA
* *
37136033 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
37136097 GATAAGTGGTAGCCTAGCTACACTTA
66 GATAAGTGGTAGCCTAGCTACACTTA
*
37136123 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAATGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
37136188 GATAAGTGGTAGCCTAGCTACACTTA
66 GATAAGTGGTAGCCTAGCTACACTTA
*
37136214 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGC
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
37136279 GATAAGTGGTAGCCTAGCTACACTTA
66 GATAAGTGGTAGCCTAGCTACACTTA
*
37136305 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
37136330 ATCATATGTA
Statistics
Matches: 286, Mismatches: 10, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
89 12 0.04
90 48 0.17
91 195 0.68
92 31 0.11
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (91 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCCTAGCTACACTTA
Found at i:37136187 original size:136 final size:137
Alignment explanation
Indices: 37135743--37136329 Score: 810
Period size: 136 Copynumber: 4.5 Consensus size: 137
37135733 TTTGAGTACT
* * *
37135743 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
37135808 GAT-A-----AG--T-GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAACTTTAGCT
66 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
37135864 ACACTTA
131 ACACTTA
* *
37135871 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
37135926 GATAAGT-GT----TA--T--AC-T-TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
66 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
37135980 ACACTTA
131 ACACTTA
* *
37135987 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
37136052 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCT
66 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
37136116 ACACTTA
131 ACACTTA
*
37136123 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAATGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
37136188 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
66 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
37136253 ACACTTA
131 ACACTTA
* * *
37136260 TCTGATCAAGTGACAAAGCGATAAGTGGTAGC-CTAGCTACACTTATCTGATC-AGGGAC-AAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
37136322 GATAAGTG
66 GATAAGTG
37136330 ATCATATGTA
Statistics
Matches: 416, Mismatches: 15, Indels: 50
0.86 0.03 0.10
Matches are distributed among these distances:
116 67 0.16
117 1 0.00
118 29 0.07
119 3 0.01
120 3 0.01
121 1 0.00
122 4 0.01
124 3 0.01
125 2 0.00
126 31 0.07
127 2 0.00
128 22 0.05
131 2 0.00
133 1 0.00
134 12 0.03
135 6 0.01
136 152 0.37
137 75 0.18
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (137 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
ACACTTA
Found at i:37142738 original size:2 final size:2
Alignment explanation
Indices: 37142731--37142757 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37142721 AGGTGTGATA
37142731 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
37142758 TTGGTGTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:37145060 original size:18 final size:17
Alignment explanation
Indices: 37145027--37145065 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
37145017 TTTTATAAAT
37145027 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
37145045 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
37145062 TGTG
1 TGTG
37145066 GAAGGAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:37145318 original size:23 final size:23
Alignment explanation
Indices: 37145291--37145343 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
37145281 AGTGTTATTG
*
37145291 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGACTACAT
*
37145314 TTCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGACTACAT
37145337 ATCAGTG
1 ATCAGTG
37145344 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGACTACAT
Found at i:37155560 original size:261 final size:253
Alignment explanation
Indices: 37155096--37155840 Score: 975
Period size: 246 Copynumber: 2.9 Consensus size: 253
37155086 GGATCTGTTG
* * **
37155096 AAGATTCTGAACATAAATCCAAAAGATTAGCCAAAGCCAAAGCCAATGCTAGCCTATCAACTTCA
1 AAGATTCTGAACACAAATCCAAAAGATTAGCCGAAGCTGAAGCCAATGCTAGCCTATCAACTTCA
** *
37155161 GCAGGAGAAACTAACAGCTTGAATTGCATAAAAAATGGTGAACAGATACAAAATATGTCTCGACA
66 GCAGGAGAAACTAACAGCTTGAATAACATAAAAAATGGTGAACAGATACAAAATATGTCTCGTCA
*
37155226 AGAAGGTATCATGGGCACATCACAATCAATGGAAGATAAT-TGCAAGGCCATTGATAGCATCCCA
131 AGAAGGTATCATGGACACATCACAATCAATGGAAGATAATCT-CAAGGCCATTGATAGCATCCCA
* *
37155290 GATGTTGATAATGCTACAAAGGGTACATCTATCGACCATGACATTGCTGCGAAAGCATCAAAGCA
195 GATGTTGATAACGCTACAAAGGGTACATCTATC-ACCATGACA------C-AAAGCATCAAAACA
37155355 AA
252 AA
*
37155357 AAGATTCTGAACACAAATCCAAAAGATTAGCCGAAGTTGAAGCCAATGCTAGCCTATCAACTTCA
1 AAGATTCTGAACACAAATCCAAAAGATTAGCCGAAGCTGAAGCCAATGCTAGCCTATCAACTTCA
* * * * *
37155422 GCAGGAGAAACTAACCGCTTGAATAACATTAGAAATGGTCAACAGATGCAAAATATGTCTCGTCA
66 GCAGGAGAAACTAACAGCTTGAATAACATAAAAAATGGTGAACAGATACAAAATATGTCTCGTCA
* *
37155487 AGAAGGTATCATGGACACGTCACAATCAATGGAAGATAATCTCAAGGCCCTTGATAGCATCCCAG
131 AGAAGGTATCATGGACACATCACAATCAATGGAAGATAATCTCAAGGCCATTGATAGCATCCCAG
* * *
37155552 AAGTTGATAACGCTACAAAGGGTACATCTAT---C---A-ACAAAGCATCAAAACCAG
196 ATGTTGATAACGCTACAAAGGGTACATCTATCACCATGACACAAAGCATCAAAACAAA
* ** * * *
37155603 AAGATTCTGAACACAAGTCCAAAATTTTAGCTGAAGCTGAAGCCAACGCTAGCTTATCAACTTCA
1 AAGATTCTGAACACAAATCCAAAAGATTAGCCGAAGCTGAAGCCAATGCTAGCCTATCAACTTCA
* * *
37155668 GCAGGAGAAGCTAAGAGCTTGAATAACATAAAAAATGGTGAACAAATACAAAATATGTCTCGTCA
66 GCAGGAGAAACTAACAGCTTGAATAACATAAAAAATGGTGAACAGATACAAAATATGTCTCGTCA
* ** * ** * *
37155733 ACAAGGTATCATGGATGCATCACCATCAGGGGAAGATAATCTCAAGGCCATTGATGGCATCCTAG
131 AGAAGGTATCATGGACACATCACAATCAATGGAAGATAATCTCAAGGCCATTGATAGCATCCCAG
* * *
37155798 GTGTTAATACCGCTACAAAGGGTACATCTATCAACCATGACAC
196 ATGTTGATAACGCTACAAAGGGTACATCTATC-ACCATGACAC
37155841 TGTGGTGAGA
Statistics
Matches: 425, Mismatches: 50, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
246 210 0.49
247 1 0.00
250 1 0.00
253 2 0.00
254 3 0.01
257 1 0.00
261 206 0.48
262 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (253 bp):
AAGATTCTGAACACAAATCCAAAAGATTAGCCGAAGCTGAAGCCAATGCTAGCCTATCAACTTCA
GCAGGAGAAACTAACAGCTTGAATAACATAAAAAATGGTGAACAGATACAAAATATGTCTCGTCA
AGAAGGTATCATGGACACATCACAATCAATGGAAGATAATCTCAAGGCCATTGATAGCATCCCAG
ATGTTGATAACGCTACAAAGGGTACATCTATCACCATGACACAAAGCATCAAAACAAA
Found at i:37157476 original size:17 final size:17
Alignment explanation
Indices: 37157450--37157482 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37157440 CATCCATGCA
*
37157450 AACTGTGAGCTCACTAG
1 AACTGAGAGCTCACTAG
37157467 AACTGAGAGCTCACTA
1 AACTGAGAGCTCACTA
37157483 ACATTGCGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (17 bp):
AACTGAGAGCTCACTAG
Found at i:37161160 original size:17 final size:17
Alignment explanation
Indices: 37161103--37161162 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
37161093 TATGAATTGC
*
37161103 GAGCTCACCAAA-TATGC
1 GAGCTCACCAAACT-TGA
* *
37161120 GAGCTCACAAAGACTTTA
1 GAGCTCACCAA-ACTTGA
*
37161138 -ACCTCACCAAACTTGA
1 GAGCTCACCAAACTTGA
37161154 GAGCTCACC
1 GAGCTCACC
37161163 TGCGAGTTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
16 5 0.15
17 25 0.76
18 2 0.06
19 1 0.03
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.18
Consensus pattern (17 bp):
GAGCTCACCAAACTTGA
Found at i:37170961 original size:22 final size:23
Alignment explanation
Indices: 37170936--37170980 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
37170926 ACCACAAATT
37170936 CTTTATTTAAAA-TGTAAATAAG
1 CTTTATTTAAAATTGTAAATAAG
*
37170958 CTTTATTTAAAATTGTGAATAAG
1 CTTTATTTAAAATTGTAAATAAG
37170981 AAAGACTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (23 bp):
CTTTATTTAAAATTGTAAATAAG
Found at i:37172789 original size:17 final size:17
Alignment explanation
Indices: 37172767--37172815 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
37172757 AATAGGGAAA
*
37172767 GTAATCTTAGAAGATAT
1 GTAATCTTATAAGATAT
37172784 GTAATCTTATAAGATAT
1 GTAATCTTATAAGATAT
37172801 GTAATCTTATAAGAT
1 GTAATCTTATAAGAT
37172816 TTGATTTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (17 bp):
GTAATCTTATAAGATAT
Found at i:37174163 original size:19 final size:19
Alignment explanation
Indices: 37174139--37174209 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
37174129 AGAGGCATAT
37174139 TTTTATATTTTTATAAAAA
1 TTTTATATTTTTATAAAAA
37174158 TTTTATGTATTTTTATAGAAAA
1 TTTTA--TATTTTTATA-AAAA
** **
37174180 AATTAT-TTTTT-TAGTAA
1 TTTTATATTTTTATAAAAA
37174197 TTTTATATTTTTA
1 TTTTATATTTTTA
37174210 AAGTTTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
17 6 0.15
18 7 0.17
19 10 0.24
20 1 0.02
21 10 0.24
22 7 0.17
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATATTTTTATAAAAA
Found at i:37176235 original size:28 final size:29
Alignment explanation
Indices: 37176201--37176259 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
37176191 TTAACAAATG
*
37176201 ACAAGAACAAG-AAAATGCAGAAAAATTA
1 ACAAGAACAAGAAAAAAGCAGAAAAATTA
*
37176229 ACAAGAACAAGAAAAAAGTAGAAAAATTA
1 ACAAGAACAAGAAAAAAGCAGAAAAATTA
37176258 AC
1 AC
37176260 CCTACAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.66, C:0.10, G:0.14, T:0.10
Consensus pattern (29 bp):
ACAAGAACAAGAAAAAAGCAGAAAAATTA
Found at i:37189082 original size:17 final size:16
Alignment explanation
Indices: 37189052--37189102 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 16
37189042 AATTTTTAAA
37189052 TATAC-TTTATATTTT
1 TATACTTTTATATTTT
37189067 TAT-CATTTTAATATTTTT
1 TATAC-TTTT-ATA-TTTT
37189085 TATACTTTTATATTTT
1 TATACTTTTATATTTT
37189101 TA
1 TA
37189103 ATTTTTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
14 1 0.03
15 3 0.10
16 9 0.29
17 6 0.19
18 11 0.35
19 1 0.03
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TATACTTTTATATTTT
Found at i:37189084 original size:18 final size:17
Alignment explanation
Indices: 37189052--37189101 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
37189042 AATTTTTAAA
37189052 TATAC-TTTATA-TTTT
1 TATACTTTTATATTTTT
37189067 TAT-CATTTTAATATTTTT
1 TATAC-TTTT-ATATTTTT
37189085 TATACTTTTATATTTTT
1 TATACTTTTATATTTTT
37189102 AATTTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.03
15 3 0.10
16 3 0.10
17 11 0.37
18 11 0.37
19 1 0.03
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (17 bp):
TATACTTTTATATTTTT
Found at i:37189106 original size:7 final size:8
Alignment explanation
Indices: 37189057--37189108 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
37189047 TTAAATATAC
37189057 TTTATATT
1 TTTATATT
37189065 TTTATCATT
1 TTTAT-ATT
*
37189074 TTAATATTT
1 TTTATA-TT
*
37189083 TTTATACT
1 TTTATATT
37189091 TTTATATT
1 TTTATATT
37189099 TTTA-ATT
1 TTTATATT
37189106 TTT
1 TTT
37189109 TAATAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
7 6 0.16
8 18 0.47
9 14 0.37
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTATATT
Found at i:37189229 original size:29 final size:28
Alignment explanation
Indices: 37189157--37189251 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 28
37189147 TTTATAATTC
37189157 TTTTAT-ATTTTTCATAATATATTAATAATA
1 TTTTATAATTTTTCAT-A-AT-TTAATAATA
**
37189187 TTTTATAACATTTCATGAATTTAATACAT-
1 TTTTATAATTTTTCAT-AATTTAATA-ATA
*
37189216 TTTTATAATTTTTCTATAATTT-CTAA-A
1 TTTTATAATTTTTC-ATAATTTAATAATA
37189243 TTTTATAAT
1 TTTTATAAT
37189252 ATGCTTTACA
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
27 10 0.18
28 2 0.04
29 23 0.42
30 12 0.22
31 8 0.15
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (28 bp):
TTTTATAATTTTTCATAATTTAATAATA
Found at i:37189332 original size:35 final size:34
Alignment explanation
Indices: 37189262--37189333 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
37189252 ATGCTTTACA
* *
37189262 TTTTTTTCATATGTTTCATAATATATTTAATAAT
1 TTTTTTTCATAAGTTTCATAATATATTTAAAAAT
37189296 TTTTTTTC-TAAGTTTCCTATAATAT-TTTAACAAAT
1 TTTTTTTCATAAGTTT-C-ATAATATATTTAA-AAAT
37189331 TTT
1 TTT
37189334 AGGCTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 6 0.18
34 14 0.42
35 13 0.39
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (34 bp):
TTTTTTTCATAAGTTTCATAATATATTTAAAAAT
Found at i:37196603 original size:10 final size:12
Alignment explanation
Indices: 37196573--37196613 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 12
37196563 AAAACTAAAA
*
37196573 AATAATAACTAT
1 AATAAAAACTAT
37196585 AAT-AAAACT-T
1 AATAAAAACTAT
37196595 AA-AAAAACTAT
1 AATAAAAACTAT
37196606 AATAAAAA
1 AATAAAAA
37196614 AAAACACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
10 9 0.36
11 8 0.32
12 8 0.32
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAAAAACTAT
Found at i:37196887 original size:21 final size:21
Alignment explanation
Indices: 37196846--37196888 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
37196836 ACCCCAAACT
* *
37196846 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
37196867 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
37196888 C
1 C
37196889 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:37198227 original size:153 final size:152
Alignment explanation
Indices: 37197994--37198285 Score: 458
Period size: 153 Copynumber: 1.9 Consensus size: 152
37197984 AGCTCTCCAA
* * *
37197994 TTTTTTAAAAATAGCAGTATTTCTTTAGTTTTTATATAGGTGACGCCATTCTACATGGCTCCACC
1 TTTTTTAAAAATAGCAGTATTTCTCTAGTATTTATATAGGTGACGCCATTCTACATGACTCCACC
* * *
37198059 AAAAACAGAAATTTTTTATTGGGTTTCTTGATGTGGCATGTTGGTGGTGTCAAACTCTTTGGCTC
66 AAAAAAAG-AATTTTTTATTGGGTTTCTTGATGTGGCATGTTGGTGGTGCCAAACTCTATGGCTC
*
37198124 TACCAATTTTTACCTGAAATAAT
130 CACCAATTTTTACCTGAAATAAT
* *
37198147 TTTTTTTAAAATAGCAGTATTTCTCTAGTATTTATATAGGTGAGGCCATTCTACATGACTCCACC
1 TTTTTTAAAAATAGCAGTATTTCTCTAGTATTTATATAGGTGACGCCATTCTACATGACTCCACC
* * * *
37198212 AAAAAAATAATTTTTTATTGGGTTTTTTGATGTGGGATGTTGGTGGTGCCAAATTCTATGGCTCC
66 AAAAAAAGAATTTTTTATTGGGTTTCTTGATGTGGCATGTTGGTGGTGCCAAACTCTATGGCTCC
37198277 ACCAATTTT
131 ACCAATTTT
37198286 CACCATAGAT
Statistics
Matches: 126, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
152 60 0.48
153 66 0.52
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (152 bp):
TTTTTTAAAAATAGCAGTATTTCTCTAGTATTTATATAGGTGACGCCATTCTACATGACTCCACC
AAAAAAAGAATTTTTTATTGGGTTTCTTGATGTGGCATGTTGGTGGTGCCAAACTCTATGGCTCC
ACCAATTTTTACCTGAAATAAT
Found at i:37201860 original size:108 final size:106
Alignment explanation
Indices: 37201673--37201872 Score: 319
Period size: 108 Copynumber: 1.9 Consensus size: 106
37201663 TGGATTAAGA
* *
37201673 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTGGCTATTTGATCAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
* *
37201738 CCTCGAATTTCCAAACGCAAAATATTGTCTTACTTCGAAAT
66 CCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
* *
37201779 TTTAAAAGGATATTTGGCTATTTGATCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGATCAAACGAG--AAATCGAAACCCAGCACATTAGGGCACAT
*
37201844 TTTCTCGAATCTCCAAACGCAAAACATTG
64 TTCCTCGAATCTCCAAACGCAAAACATTG
37201873 CCTTTATTAT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
106 31 0.36
108 54 0.64
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGATCAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
CCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
Found at i:37208488 original size:27 final size:28
Alignment explanation
Indices: 37208425--37208496 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
37208415 GTCCCTGCTC
*
37208425 TTATTAAAAATTAGAAAAATTATTAAATT
1 TTATTAAAAATTAGAAAAA-TATTAAAAT
*
37208454 TTAATAAAAA-TATGAAAAA-ATTAAAAT
1 TTATTAAAAATTA-GAAAAATATTAAAAT
37208481 TTATTAAAAATTAGAA
1 TTATTAAAAATTAGAA
37208497 TTTTTTATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 19 0.50
28 4 0.11
29 15 0.39
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (28 bp):
TTATTAAAAATTAGAAAAATATTAAAAT
Done.