Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001146.1 Hibiscus syriacus cultivar Beakdansim tig00002288_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103932
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:3329 original size:15 final size:16
Alignment explanation
Indices: 3311--3340 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3301 CATCATCCAT
3311 GTGCTCAT-CTCTATC
1 GTGCTCATCCTCTATC
3326 GTGCTCATCCTCTAT
1 GTGCTCATCCTCTAT
3341 GTACTCTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.33, G:0.13, T:0.40
Consensus pattern (16 bp):
GTGCTCATCCTCTATC
Found at i:5712 original size:43 final size:42
Alignment explanation
Indices: 5664--5747 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 42
5654 TATCAAGCTT
* *
5664 AATTTTCAAATCACAAAATTCTTTTTCAAAATTTTCATTTTTC
1 AATTTTCAAAGCACAAAATCCTTTTTCAAAA-TTTCATTTTTC
* * *
5707 AATTTTGAAAGCTCCAAATCCTTTTTCAAAATTTCATTTTT
1 AATTTTCAAAGCACAAAATCCTTTTTCAAAATTTCATTTTT
5748 GCTTTCAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 10 0.28
43 26 0.72
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (42 bp):
AATTTTCAAAGCACAAAATCCTTTTTCAAAATTTCATTTTTC
Found at i:6293 original size:6 final size:6
Alignment explanation
Indices: 6256--6297 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
6246 GATGCCTACA
*
6256 TCTTTT ATCTTTT ATCTTTT TCTCTT TC-TTT TCTTTT TCTTT
1 TCTTTT -TCTTTT -TCTTTT TCTTTT TCTTTT TCTTTT TCTTT
6298 CCCTTCTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
5 4 0.12
6 15 0.47
7 13 0.41
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:7799 original size:21 final size:21
Alignment explanation
Indices: 7754--7809 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
7744 ACTGGAATCC
7754 AAGGGATCGATCCTTT--TCA
1 AAGGGATCGATCCTTTGGTCA
* *
7773 AGGGGATTGATCCTTTGGTCA
1 AAGGGATCGATCCTTTGGTCA
*
7794 AAGGGATCAATCCTTT
1 AAGGGATCGATCCTTT
7810 TGCTAGAGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 14 0.47
21 16 0.53
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (21 bp):
AAGGGATCGATCCTTTGGTCA
Found at i:7809 original size:40 final size:41
Alignment explanation
Indices: 7754--7830 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
7744 ACTGGAATCC
* *
7754 AAGGGATCGATCCTTTT-CAAGGGGATTGATCCTTTGGTCA
1 AAGGGATCAATCCTTTTGCAAGAGGATTGATCCTTTGGTCA
*
7794 AAGGGATCAATCCTTTTGCTAGAGGATTGATCCTTTG
1 AAGGGATCAATCCTTTTGCAAGAGGATTGATCCTTTG
7831 TACCAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 16 0.48
41 17 0.52
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (41 bp):
AAGGGATCAATCCTTTTGCAAGAGGATTGATCCTTTGGTCA
Found at i:9318 original size:2 final size:2
Alignment explanation
Indices: 9311--9343 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9301 TGTGAGTAAT
9311 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9344 GTAAAGGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11385 original size:3 final size:3
Alignment explanation
Indices: 11377--11435 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
11367 TCAAAGAAAT
11377 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
11425 ATA ATA ATA AT
1 ATA ATA ATA AT
11436 GATATTAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12414 original size:3 final size:3
Alignment explanation
Indices: 12406--12439 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
12396 ATCCCCTAAA
*
12406 ATT ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
12440 CAATAAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:13905 original size:2 final size:2
Alignment explanation
Indices: 13898--13925 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13888 TCATTAGTTA
13898 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
13926 GTTCATATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16268 original size:7 final size:7
Alignment explanation
Indices: 16256--16312 Score: 60
Period size: 7 Copynumber: 8.1 Consensus size: 7
16246 CTTTGTAATG
*
16256 AACCTTA
1 AACCCTA
*
16263 AACCTTA
1 AACCCTA
**
16270 AACTATA
1 AACCCTA
16277 AACCCTA
1 AACCCTA
* *
16284 AATCATA
1 AACCCTA
16291 AACCCTA
1 AACCCTA
16298 AACCCTA
1 AACCCTA
16305 AACCCTA
1 AACCCTA
16312 A
1 A
16313 CACATAAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (7 bp):
AACCCTA
Found at i:16280 original size:14 final size:14
Alignment explanation
Indices: 16261--16323 Score: 67
Period size: 14 Copynumber: 4.5 Consensus size: 14
16251 TAATGAACCT
*
16261 TAAACCTTAAACTA
1 TAAACCCTAAACTA
16275 TAAACCCTAAA-TCA
1 TAAACCCTAAACT-A
**
16289 TAAACCCTAAACCC
1 TAAACCCTAAACTA
16303 TAAACCCTAACAC-A
1 TAAACCCTAA-ACTA
16317 TAAACCC
1 TAAACCC
16324 ATTTATGTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
13 1 0.02
14 39 0.93
15 2 0.05
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:16280 original size:21 final size:20
Alignment explanation
Indices: 16256--16323 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
16246 CTTTGTAATG
* *
16256 AACCTTAAACCTTAAACTATA
1 AACCCTAAACCATAAAC-ATA
* *
16277 AACCCTAAATCATAAACCCTA
1 AACCCTAAACCATAAA-CATA
*
16298 AACCCTAAACCCTAACACATA
1 AACCCTAAACCATAA-ACATA
16319 AACCC
1 AACCC
16324 ATTTATGTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 36 0.95
22 2 0.05
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (20 bp):
AACCCTAAACCATAAACATA
Found at i:16293 original size:28 final size:28
Alignment explanation
Indices: 16261--16323 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
16251 TAATGAACCT
* *
16261 TAAACCTTAAACTATAAACCCTAA-ATCA
1 TAAACCCTAAACCATAAACCCTAACA-CA
*
16289 TAAACCCTAAACCCTAAACCCTAACACA
1 TAAACCCTAAACCATAAACCCTAACACA
16317 TAAACCC
1 TAAACCC
16324 ATTTATGTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (28 bp):
TAAACCCTAAACCATAAACCCTAACACA
Found at i:17167 original size:11 final size:11
Alignment explanation
Indices: 17151--17203 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
17141 GTTGGTGAGT
17151 TCGAGCTTGAA
1 TCGAGCTTGAA
*
17162 TCGAGCTTCAA
1 TCGAGCTTGAA
* *
17173 TCGAGCTCGACTC
1 TCGAGCTTGA--A
*
17186 TCGAGCTTTAA
1 TCGAGCTTGAA
17197 TCGAGCT
1 TCGAGCT
17204 CTTGAAATTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
11 25 0.76
13 8 0.24
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:17239 original size:16 final size:15
Alignment explanation
Indices: 17213--17242 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17203 TCTTGAAATT
17213 CTTTTGAGTTCGAGC
1 CTTTTGAGTTCGAGC
17228 CTTTTCGAGTTCGAG
1 CTTTT-GAGTTCGAG
17243 TCGAGTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (15 bp):
CTTTTGAGTTCGAGC
Found at i:24710 original size:3 final size:3
Alignment explanation
Indices: 24702--24726 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24692 ACCAGGAATG
24702 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
24727 ATAAAGGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:25215 original size:10 final size:9
Alignment explanation
Indices: 25202--25267 Score: 61
Period size: 8 Copynumber: 7.6 Consensus size: 9
25192 CTGATTTCAT
25202 AAAAAGAAA
1 AAAAAGAAA
25211 TAAAAAG--A
1 -AAAAAGAAA
25219 AAAAAG-AA
1 AAAAAGAAA
*
25227 GAAAAG-AA
1 AAAAAGAAA
25235 AAAAAG-AA
1 AAAAAGAAA
25243 AAAAAGAAA
1 AAAAAGAAA
25252 AAAAATGAAA
1 AAAAA-GAAA
25262 AGAAAA
1 A-AAAA
25268 TAAGCAAAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
7 6 0.12
8 22 0.44
9 7 0.14
10 11 0.22
11 4 0.08
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:25231 original size:8 final size:7
Alignment explanation
Indices: 25212--25280 Score: 61
Period size: 8 Copynumber: 9.3 Consensus size: 7
25202 AAAAAGAAAT
25212 AAAAAGA
1 AAAAAGA
25219 AAAAAGA
1 AAAAAGA
25226 AGAAAAGAA
1 A-AAAAG-A
25235 AAAAAGAA
1 AAAAAG-A
25243 AAAAAGA
1 AAAAAGA
25250 AAAAA-A
1 AAAAAGA
25256 ATGAAAAGA
1 A--AAAAGA
25265 AAATAAG-
1 AAA-AAGA
*
25272 CAAAAGA
1 AAAAAGA
25279 AA
1 AA
25281 TAGAATGAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
6 5 0.09
7 19 0.36
8 25 0.47
9 4 0.08
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:25231 original size:16 final size:15
Alignment explanation
Indices: 25213--25267 Score: 76
Period size: 15 Copynumber: 3.6 Consensus size: 15
25203 AAAAGAAATA
25213 AAAAGAAAAAAGAAG
1 AAAAGAAAAAAGAAG
*
25228 AAAAGAAAAAAAGAAA
1 AAAAG-AAAAAAGAAG
25244 AAAAGAAAAAA-AATG
1 AAAAGAAAAAAGAA-G
25259 AAAAGAAAA
1 AAAAGAAAA
25268 TAAGCAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
14 2 0.06
15 20 0.56
16 14 0.39
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAAGAAG
Found at i:25247 original size:31 final size:31
Alignment explanation
Indices: 25202--25276 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
25192 CTGATTTCAT
25202 AAAAAGAAATAAAAAGAAAAAAGAA-GAAAAGAA
1 AAAAAG-AA-AAAAAGAAAAAA-AATGAAAAGAA
25235 AAAAAGAAAAAAAGAAAAAAAATGAAAAGAA
1 AAAAAGAAAAAAAGAAAAAAAATGAAAAGAA
* *
25266 AATAAGCAAAA
1 AAAAAGAAAAA
25277 GAAATAGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 2 0.05
31 29 0.74
32 2 0.05
33 6 0.15
ACGTcount: A:0.81, C:0.01, G:0.13, T:0.04
Consensus pattern (31 bp):
AAAAAGAAAAAAAGAAAAAAAATGAAAAGAA
Found at i:25276 original size:14 final size:13
Alignment explanation
Indices: 25213--25280 Score: 58
Period size: 13 Copynumber: 5.6 Consensus size: 13
25203 AAAAGAAATA
25213 AAAAGAAAA-AAG
1 AAAAGAAAATAAG
* *
25225 --AAGAAAAGAAA
1 AAAAGAAAATAAG
*
25236 AAAAGAAAAAAAG
1 AAAAGAAAATAAG
25249 AAAA-AAAAT--G
1 AAAAGAAAATAAG
25259 AAAAGAAAATAAG
1 AAAAGAAAATAAG
25272 CAAAAGAAA
1 -AAAAGAAA
25281 TAGAATGAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
10 12 0.27
11 7 0.16
12 4 0.09
13 14 0.31
14 8 0.18
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAAGAAAATAAG
Found at i:25276 original size:23 final size:24
Alignment explanation
Indices: 25202--25281 Score: 87
Period size: 23 Copynumber: 3.4 Consensus size: 24
25192 CTGATTTCAT
*
25202 AAAAAGAAATAAAAAG-AAAAAAG
1 AAAAAGAAATGAAAAGAAAAAAAG
25225 AAGAAAAGAAA--AAAAGAAAAAAAG
1 -A-AAAAGAAATGAAAAGAAAAAAAG
*
25249 AAAAA-AAATGAAAAGAAAATAAG
1 AAAAAGAAATGAAAAGAAAAAAAG
*
25272 CAAAAGAAAT
1 AAAAAGAAAT
25282 AGAATGAGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
21 3 0.06
22 4 0.08
23 22 0.45
24 12 0.24
25 8 0.16
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.05
Consensus pattern (24 bp):
AAAAAGAAATGAAAAGAAAAAAAG
Found at i:27212 original size:20 final size:20
Alignment explanation
Indices: 27187--27244 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
27177 TATTAAACCC
27187 TTCGAGCCATCTATAAGTCT
1 TTCGAGCCATCTATAAGTCT
* * *
27207 TTCGAGCAAGGCGATAAGTCT
1 TTCGAGCCA-TCTATAAGTCT
* *
27228 TTCGGGCCATCTGTAAG
1 TTCGAGCCATCTATAAG
27245 ACCTTTGGTC
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (20 bp):
TTCGAGCCATCTATAAGTCT
Found at i:27214 original size:42 final size:42
Alignment explanation
Indices: 27059--27214 Score: 104
Period size: 42 Copynumber: 3.7 Consensus size: 42
27049 ACTTGATAAG
* * **
27059 TCCTTC-AGGCCATCAATAAGTCTCTCGAGCATGATGCTTAAA
1 TCCTTCGA-GCCATCTATAAGTCTTTCGAGCATGATTATTAAA
* * * * * ** *
27101 TCCTTCGGGTCC-TCTGTAAGTCTTTAGAGTA-GAGTGCTAAG
1 TCCTTCGAG-CCATCTATAAGTCTTTCGAGCATGATTATTAAA
* * * *
27142 TCCTCCGAGCCATC-AGAAAGTATTTTGAGCATGATTATTAAA
1 TCCTTCGAGCCATCTA-TAAGTCTTTCGAGCATGATTATTAAA
*
27184 CCCTTCGAGCCATCTATAAGTCTTTCGAGCA
1 TCCTTCGAGCCATCTATAAGTCTTTCGAGCA
27215 AGGCGATAAG
Statistics
Matches: 81, Mismatches: 27, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
40 2 0.02
41 25 0.31
42 51 0.63
43 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (42 bp):
TCCTTCGAGCCATCTATAAGTCTTTCGAGCATGATTATTAAA
Found at i:28492 original size:16 final size:15
Alignment explanation
Indices: 28447--28488 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
28437 AACGTCTTTT
28447 AAATTATTTTAAGAA
1 AAATTATTTTAAGAA
28462 AAATTATTTTAAGAA
1 AAATTATTTTAAGAA
*
28477 AAATCATTTTAA
1 AAATTATTTTAA
28489 AGAAGACGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (15 bp):
AAATTATTTTAAGAA
Found at i:29040 original size:2 final size:2
Alignment explanation
Indices: 29033--29082 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
29023 TAGGAACTTT
29033 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29075 TA TA TA TA
1 TA TA TA TA
29083 ATCTAATGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31056 original size:116 final size:117
Alignment explanation
Indices: 30638--31161 Score: 362
Period size: 116 Copynumber: 4.5 Consensus size: 117
30628 TTCTTGAGTT
* * * * * *
30638 ACAAGTTCTTATTATTATGAACTTCTTTTCCT-TATTGGATGAGTTATTCTCA-TATGAACT-AT
1 ACAAGTTCTTCTCATTATGAACTTCTTCTCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTT
**** * * * * **
30700 CTGCCAGAAATGCTCATCCA-ACTCCTTCTGTGATGAAATCGAGTAAAGGTTGA
66 CTAATGGAAATG-TGATCCACA-TCCTTATGTGATTAAATAGAACAAAGGTTGA
*
30753 ACAAGTTCTTCTCATTATGAATTTCTTCTCC-CTCATCGGATGAGTTCTTCTCATTATGAACTC-
1 ACAAGTTCTTCTCATTATGAACTTCTTCTCCTCT-ATCGGATGAGTTCTTCTCATTATGAACTCT
** * * * * * * *
30816 TCTGGTAGAAATAATGATCCACCTCTTTCTGTGATTAAATCGAACAAAGGTTGG
65 TCTAATGGAAAT-GTGATCCACATCCTTATGTGATTAAATAGAACAAAGGTTGA
** * * *
30870 GTAAGTTCTTTTCATTATGAACTT-TTC-CCT-TATCGGACGAGTTCTTCTCATTATGAACCCTT
1 ACAAGTTCTTCTCATTATGAACTTCTTCTCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTT
* * * **
30932 CCATTGGAAATGCTGATCCATATCCTTATGTGATGTATTTAG-AC-AA-GTTGA
66 CTAATGGAAATG-TGATCCACATCCTTATGTGAT-TAAATAGAACAAAGGTTGA
* *
30983 ACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTAT-GGGTGAGTTCTTCTTATTATGAACTCT
1 ACAAGTTCTTCTCATTATGAACTTCTTCTCC-TCTATCGGATGAGTTCTTCTCATTATGAACTCT
* * ** * ** **
31047 TTTAATGGAAATAGTGATCCACCTTATTCTACGA-TAGAATAGGGC--AGGTTGA
65 TCTAATGGAAAT-GTGATCCACATCCTTATGTGATTA-AATAGAACAAAGGTTGA
* * * * * *
31099 ATAAGTTCTTCTCATCATGAACTTCTCCTTCCACT-TAGGAAGAGTTCTTCTCATTATGAACTC
1 ACAAGTTCTTCTCATTATGAACTTCTTC-TCCTCTATCGGATGAGTTCTTCTCATTATGAACTC
31162 CTCGTTAGAA
Statistics
Matches: 327, Mismatches: 62, Indels: 39
0.76 0.14 0.09
Matches are distributed among these distances:
113 25 0.08
114 34 0.10
115 65 0.20
116 126 0.39
117 77 0.24
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (117 bp):
ACAAGTTCTTCTCATTATGAACTTCTTCTCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTT
CTAATGGAAATGTGATCCACATCCTTATGTGATTAAATAGAACAAAGGTTGA
Found at i:33058 original size:17 final size:17
Alignment explanation
Indices: 33025--33057 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33015 TTATTTTCAG
33025 ATTTGTATTTTACTTTT
1 ATTTGTATTTTACTTTT
33042 ATTTGTATTTTA-TTTT
1 ATTTGTATTTTACTTTT
33058 TTTCGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.73
Consensus pattern (17 bp):
ATTTGTATTTTACTTTT
Found at i:34285 original size:23 final size:26
Alignment explanation
Indices: 34253--34302 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
34243 CCTTTTCTGA
*
34253 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
34276 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
34302 T
1 T
34303 TTCTCATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 5 0.22
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:36531 original size:14 final size:14
Alignment explanation
Indices: 36493--36546 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
36483 ATTTTAAATA
*
36493 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
36507 TTTTACATTTGCAT
1 ATTTACATTTGCAT
36521 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
36536 CTTTGCATTTG
1 ATTTACATTTG
36547 TATTGCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:42148 original size:83 final size:83
Alignment explanation
Indices: 42047--42311 Score: 460
Period size: 83 Copynumber: 3.2 Consensus size: 83
42037 AATGGAACAA
42047 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
42112 AATCATTGAATTTGGAAG
66 AATCATTGAATTTGGAAG
42130 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
*
42195 AATCATTGAATTTAGAAG
66 AATCATTGAATTTGGAAG
* * * *
42213 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
42277 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTGGAAG
*
42296 ATGAATTTGCTCATAG
1 ATGAATGTGCTCATAG
42312 TAGAAATAAG
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 4 0.02
83 170 0.98
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTGGAAG
Found at i:45038 original size:22 final size:22
Alignment explanation
Indices: 44976--45049 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 22
44966 TACACTCTTT
*
44976 AAAGATGATAGATTCTCTCTTC
1 AAAGATGATAGATTCTCTTTTC
*
44998 AAAGATGATAGATTCTCTTTTT
1 AAAGATGATAGATTCTCTTTTC
*
45020 AAAGATGATAAATTCTCTTTTC
1 AAAGATGATAGATTCTCTTTTC
*
45042 AAATATGA
1 AAAGATGA
45050 AAGCTTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (22 bp):
AAAGATGATAGATTCTCTTTTC
Found at i:45795 original size:112 final size:112
Alignment explanation
Indices: 45467--46233 Score: 975
Period size: 112 Copynumber: 6.8 Consensus size: 112
45457 CCATCATTCA
** * *
45467 ATGGATCAACATTT-CAG-GTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAAGAAGAAGAGG
1 ATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAG
*
45530 TTCATAATGAGAAGAACTTGTTCAA-CTTTTCGTTTGAATTCATCA-TCTG
64 TTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGAATTCATCACT-TG
* * *
45579 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGT
* * *
45644 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTG
65 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTG
* * ** * *
45692 ATGGATCATCATTACCAGTTAGAGTTCATAATGAGAAGAACTCATTTGAAGAAGAAGAAGAAGTT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTT
* * **
45757 CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACCCG
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTG
* * * * ** * * *
45804 GTGGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTT
* * *
45869 CATAATGAGAAGAATTTGTTCAACCTTTTCCCTGAATTCATCACTTG
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTG
* * *** * *
45916 ATGAATTATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTT
* *
45981 CATAATGAGAAGAACTTGTTTAACCTTTTGCTCGAATTCATCACTTG
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTG
* * * *
46028 ATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAATT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTT
* * *
46093 CATAATGAGAAGAATTTGTTTAACCTTTTGCCTGAATTCATCACTTG
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTG
* * *
46140 ATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGT
*
46205 TCATAATGAGAAGAGCTTGTTCAACCTTT
65 TCATAATGAGAAGAACTTGTTCAACCTTT
46234 GTTTGATGCT
Statistics
Matches: 581, Mismatches: 68, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
112 415 0.71
113 161 0.28
114 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (112 bp):
ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTT
CATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTG
Found at i:46385 original size:310 final size:309
Alignment explanation
Indices: 45971--46546 Score: 701
Period size: 308 Copynumber: 1.9 Consensus size: 309
45961 CTGAAGAGGA
* * * * * *
45971 AGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTCGAATTCATCACTTGATGGATTA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATACATCACTTCAAGGATCA
* *
46036 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAATTCATAATGA
66 ACATTTCCAGAGAAAGTTCATAATGAGAAAAACTTATCT---GACGAAGAAGAAATTCATAATGA
* * * * * *
46101 GAAGAATTTGTTTAACCTTTT-GCCT-GAATT-CATCACTTGATGGAT-T-AACTT-T-T-CCAG
128 GAAGAACTTG-TCAAACTTTTCG-CTAG-ATTACATCAC-AGAAGAATATGAA-TTGTATCCCAG
* *
46158 -AGAA-AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAAT-GAGAAGAG
188 TAGAAGAGTTCATAATGAGAAGAACTCATATGAAGAA-GAAGAAGAAGTGCATAATAG-GAAGAA
*
46220 CTTGTTCAACCTTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
251 CTTATTCAACCTTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
*
46279 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATGACACCTC-CTTCAAGGA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAAT-ACA--TCACTTCAAGGA
** * *
46343 TCAGTATTTCCAGA-AGAAGTTCATAATGAGAAAAACTTATCTGACGAAGAAGAAGTTCATAATT
63 TCAACATTTCCAGAGA-AAGTTCATAATGAGAAAAACTTATCTGACGAAGAAGAAATTCATAATG
*
46407 AGAAGAACTTGTCAAACTTTTCGCTAGATTACATCACAGAAGAATATGAATTGTCATCCCCAGTG
127 AGAAGAACTTGTCAAACTTTTCGCTAGATTACATCACAGAAGAATATGAATTGT-AT-CCCAGTA
*
46472 GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTGCATAATAGGAAGAACTTA
190 GAAGAGTTCATAATGAGAAGAACTCATATGAAGAAGAAGAAGAAGTGCATAATAGGAAGAACTTA
46537 TTCAACCTTT
255 TTCAACCTTT
46547 TGTTCGACTC
Statistics
Matches: 227, Mismatches: 24, Indels: 29
0.81 0.09 0.10
Matches are distributed among these distances:
306 18 0.08
307 40 0.18
308 47 0.21
309 3 0.01
310 44 0.19
311 2 0.01
312 4 0.02
313 38 0.17
314 31 0.14
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (309 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATACATCACTTCAAGGATCA
ACATTTCCAGAGAAAGTTCATAATGAGAAAAACTTATCTGACGAAGAAGAAATTCATAATGAGAA
GAACTTGTCAAACTTTTCGCTAGATTACATCACAGAAGAATATGAATTGTATCCCAGTAGAAGAG
TTCATAATGAGAAGAACTCATATGAAGAAGAAGAAGAAGTGCATAATAGGAAGAACTTATTCAAC
CTTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
Found at i:47158 original size:17 final size:17
Alignment explanation
Indices: 47125--47157 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47115 TTATTTTCAG
47125 ATTTGTATTTTACTTTT
1 ATTTGTATTTTACTTTT
47142 ATTTGTATTTTA-TTTT
1 ATTTGTATTTTACTTTT
47158 TTTCGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.73
Consensus pattern (17 bp):
ATTTGTATTTTACTTTT
Found at i:51102 original size:119 final size:119
Alignment explanation
Indices: 50888--51107 Score: 300
Period size: 119 Copynumber: 1.8 Consensus size: 119
50878 TTTGTGTATA
* *
50888 TTTAATTGATTAAATTTAATACTAAAATTAAATATACACAAATCAAATTAACTCAACAGTTAAGA
1 TTTAATTGACTAAATTTAATACTAAAATTAAATATACACAAACCAAATTAACTCAACAGTTAAGA
* * *
50953 GAATAGTTATTATTCTTAAATGTTTCGAATTCGAACGACTGCAGTATGAGTGAT
66 GAATAGTTATCATTCCTAAAGGTTTCGAATTCGAACGACTGCAGTATGAGTGAT
* * **
51007 TTTAATTGACTAAATTTTAATA-TAATATTAAATATACACGAACCAAATTAACTC-AGTGATTAA
1 TTTAATTGACTAAA-TTTAATACTAAAATTAAATATACACAAACCAAATTAACTCAACAG-TTAA
* * *
51070 GGGAATATTTATCATTCCTAAAGGTTTTGAATTCGAAC
64 GAGAATAGTTATCATTCCTAAAGGTTTCGAATTCGAAC
51108 ATCGACGGCT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
118 2 0.02
119 78 0.90
120 7 0.08
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (119 bp):
TTTAATTGACTAAATTTAATACTAAAATTAAATATACACAAACCAAATTAACTCAACAGTTAAGA
GAATAGTTATCATTCCTAAAGGTTTCGAATTCGAACGACTGCAGTATGAGTGAT
Found at i:53571 original size:21 final size:21
Alignment explanation
Indices: 53541--53593 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
53531 CGGTTCAACA
* *
53541 TAAATTTTTTTGAT-TTTTTAT
1 TAAATATTTTTAATATTTTT-T
53562 TAAATATTTTTAATATTTTTT
1 TAAATATTTTTAATATTTTTT
53583 T-AAT-TTTTTAA
1 TAAATATTTTTAA
53594 ATAATTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 7 0.24
20 3 0.10
21 14 0.48
22 5 0.17
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TAAATATTTTTAATATTTTTT
Found at i:53588 original size:9 final size:10
Alignment explanation
Indices: 53541--53595 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 10
53531 CGGTTCAACA
53541 TAAATTTTTT
1 TAAATTTTTT
* *
53551 TGATTTTTTAT
1 TAAATTTTT-T
*
53562 TAAATATTTT
1 TAAATTTTTT
53572 TAATATTTTTT
1 TAA-ATTTTTT
53583 T-AA-TTTTT
1 TAAATTTTTT
53591 TAAAT
1 TAAAT
53596 AATTATAACG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
8 6 0.17
9 3 0.09
10 12 0.34
11 14 0.40
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TAAATTTTTT
Found at i:54008 original size:25 final size:24
Alignment explanation
Indices: 53980--54028 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
53970 TTAATAAAAA
*
53980 AATATGTATCTAATGACAAATATTT
1 AATATATATCTAATGA-AAATATTT
* *
54005 AATATATTTCTAATGATAATATTT
1 AATATATATCTAATGAAAATATTT
54029 TAAATAACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (24 bp):
AATATATATCTAATGAAAATATTT
Found at i:55595 original size:11 final size:11
Alignment explanation
Indices: 55579--55725 Score: 123
Period size: 11 Copynumber: 12.6 Consensus size: 11
55569 TAACCCGTTT
55579 TCGAGCTTGAA
1 TCGAGCTTGAA
55590 TCGAGCTTGAA
1 TCGAGCTTGAA
* *
55601 ACGAGTTTGAA
1 TCGAGCTTGAA
55612 TCGAGCTTGAA
1 TCGAGCTTGAA
*
55623 ACGAGCTTGAA
1 TCGAGCTTGAA
55634 TCGAGCTTGAAA
1 TCGAGCTTG-AA
* *
55646 TTGAGCTTTTTAA
1 TCGAGC--TTGAA
*
55659 TCGAGCTTCTCAA
1 TCGAGC-T-TGAA
*
55672 TCGAGCTTGCA
1 TCGAGCTTGAA
* *
55683 TCGAGTTTTTCAA
1 TCGAG--CTTGAA
**
55696 TCGAGCTCAAAA
1 TCGAGCT-TGAA
55708 TCGAGCTTGAA
1 TCGAGCTTGAA
55719 TCGAGCT
1 TCGAGCT
55726 CTTAAAATTT
Statistics
Matches: 109, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
11 64 0.59
12 19 0.17
13 24 0.22
14 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:55666 original size:13 final size:13
Alignment explanation
Indices: 55657--55715 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
55647 TGAGCTTTTT
55657 AATCGAGCTTCTC
1 AATCGAGCTTCTC
*
55670 AATCGAGCTT-GC
1 AATCGAGCTTCTC
* *
55682 -ATCGAGTTTTTC
1 AATCGAGCTTCTC
**
55694 AATCGAGC-TCAA
1 AATCGAGCTTCTC
55706 AATCGAGCTT
1 AATCGAGCTT
55716 GAATCGAGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
11 8 0.22
12 11 0.31
13 17 0.47
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (13 bp):
AATCGAGCTTCTC
Found at i:55666 original size:36 final size:38
Alignment explanation
Indices: 55632--55723 Score: 111
Period size: 36 Copynumber: 2.5 Consensus size: 38
55622 AACGAGCTTG
* **
55632 AATCGAGCTTGAAATTGAGCTTTTT-AATCGAGCTTCTC
1 AATCGAGCTTGAAATCGAG-TTTTTCAATCGAGCTTCAA
*
55670 AATCGAGCTTG-CATCGAGTTTTTCAATCGAGC-TCAA
1 AATCGAGCTTGAAATCGAGTTTTTCAATCGAGCTTCAA
55706 AATCGAGCTTG-AATCGAG
1 AATCGAGCTTGAAATCGAG
55724 CTCTTAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 24 0.50
37 13 0.27
38 11 0.23
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (38 bp):
AATCGAGCTTGAAATCGAGTTTTTCAATCGAGCTTCAA
Found at i:55812 original size:31 final size:31
Alignment explanation
Indices: 55752--55812 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
55742 GTTCGAGTCT
* * *
55752 TTTCGAGTTCGAGTCGAGTTTCAATATTTTC
1 TTTCGAGTTCGAGTCGAGCTTAAAAATTTTC
55783 TTTCGAGTTCGAGTCGAGCTTAAAAATTTT
1 TTTCGAGTTCGAGTCGAGCTTAAAAATTTT
55813 AGGTTCGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.43
Consensus pattern (31 bp):
TTTCGAGTTCGAGTCGAGCTTAAAAATTTTC
Found at i:60657 original size:16 final size:16
Alignment explanation
Indices: 60636--60668 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
60626 ACAAGGTTAC
60636 TGGAGATGGGGACAGG
1 TGGAGATGGGGACAGG
60652 TGGAGATGGGGACAGG
1 TGGAGATGGGGACAGG
60668 T
1 T
60669 AAGCTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.55, T:0.15
Consensus pattern (16 bp):
TGGAGATGGGGACAGG
Found at i:65800 original size:22 final size:22
Alignment explanation
Indices: 65774--65827 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
65764 AGTGCGTATA
65774 CACTTCCGTATCAGTGCTAAGG
1 CACTTCCGTATCAGTGCTAAGG
* ** *
65796 TACTTTTGTATTAGTGCTAAGG
1 CACTTCCGTATCAGTGCTAAGG
*
65818 CATTTCCGTA
1 CACTTCCGTA
65828 ATAAAATGGA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (22 bp):
CACTTCCGTATCAGTGCTAAGG
Found at i:71053 original size:32 final size:32
Alignment explanation
Indices: 70972--71170 Score: 237
Period size: 32 Copynumber: 6.3 Consensus size: 32
70962 GAGTCGATGG
* * * *
70972 TTACCGATGTCCTTT-GAGACATATGAACAGATT
1 TTACCTATGT-CTTTCGGGACATATGGACAG-TA
71005 TTACC--TGTCTTTCGGGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGTA
*
71035 TTACCTATGTGTTTCGGGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGTA
* *
71067 TTACCTATGTCTTTCGGGACATATGAACATTA
1 TTACCTATGTCTTTCGGGACATATGGACAGTA
** * *
71099 TTTTCTATGTCTTTTGGGACATATGGACAGAA
1 TTACCTATGTCTTTCGGGACATATGGACAGTA
*
71131 TTACATATGTCTTTCGGGACATATGGACAG--
1 TTACCTATGTCTTTCGGGACATATGGACAGTA
71161 TTACCTATGT
1 TTACCTATGT
71171 TCTTAGGAAC
Statistics
Matches: 145, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
30 19 0.13
31 16 0.11
32 105 0.72
33 5 0.03
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGGACAGTA
Found at i:71140 original size:96 final size:93
Alignment explanation
Indices: 70971--71170 Score: 269
Period size: 96 Copynumber: 2.1 Consensus size: 93
70961 AGAGTCGATG
* * *
70971 GTTACCGATGTCCTTTGAGACATATGAACAGATTTTACCTGTCTTTCGGGACATATGGACAGTAT
1 GTTACCTATGTCCTTTGAGACATATGAACAGATTTTACATGTCTTTCGGGACATATGGACAGAAT
* *
71036 TACCTATGTGTTTCGGGACATATGGACA
66 TACATATGTCTTTCGGGACATATGGACA
* * *
71064 GTATTACCTATGT-CTTTCGGGACATATGAACATTATTTT-CTATGTCTTTTGGGACATATGGAC
1 G--TTACCTATGTCCTTT-GAGACATATGAACA-GATTTTAC-ATGTCTTTCGGGACATATGGAC
71127 AGAATTACATATGTCTTTCGGGACATATGGACA
61 AGAATTACATATGTCTTTCGGGACATATGGACA
71160 GTTACCTATGT
1 GTTACCTATGT
71171 TCTTAGGAAC
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
93 1 0.01
94 14 0.15
95 23 0.24
96 56 0.60
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (93 bp):
GTTACCTATGTCCTTTGAGACATATGAACAGATTTTACATGTCTTTCGGGACATATGGACAGAAT
TACATATGTCTTTCGGGACATATGGACA
Found at i:71911 original size:12 final size:12
Alignment explanation
Indices: 71894--71927 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
71884 CGAAATATTT
*
71894 CACTGTTCATGG
1 CACTGTTCATGA
71906 CACTGTTCATGA
1 CACTGTTCATGA
*
71918 CACTATTCAT
1 CACTGTTCAT
71928 TACTGTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (12 bp):
CACTGTTCATGA
Found at i:74464 original size:12 final size:12
Alignment explanation
Indices: 74437--74480 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
74427 TGTTTAATGG
74437 CCGGTCAAAG--
1 CCGGTCAAAGTT
74447 CCGGTCAAAGTT
1 CCGGTCAAAGTT
74459 CCGGTCAAAGTT
1 CCGGTCAAAGTT
*
74471 CTGGTCAAAG
1 CCGGTCAAAG
74481 GAGGTCAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 10 0.32
12 21 0.68
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.20
Consensus pattern (12 bp):
CCGGTCAAAGTT
Found at i:83909 original size:440 final size:440
Alignment explanation
Indices: 83088--83968 Score: 1735
Period size: 440 Copynumber: 2.0 Consensus size: 440
83078 TCTACGCCGA
83088 GAATCAAATCAAACTCTTCCAAAGGTAACTCCATCAGGTCGGCCAGAAAAATCTCTCCATTGATC
1 GAATCAAATCAAACTCTTCCAAAGGTAACTCCATCAGGTCGGCCAGAAAAATCTCTCCATTGATC
*
83153 TCAATAGGGCACTCTCTATAAATACGATCCAGCACAATGGACTTGCCTAAGGGACTTTGAACTAT
66 TCAATAGGGCACTCTCTATAAATACGATCCAACACAATGGACTTGCCTAAGGGACTTTGAACTAT
83218 CACCGAATGCTCAGTATTCTCAACAGGAATATTTAGACCCTCAGAAACAGAATGCGATACATAGG
131 CACCGAATGCTCAGTATTCTCAACAGGAATATTTAGACCCTCAGAAACAGAATGCGATACATAGG
*
83283 AATTGGTAGAGCCACTATCAAACAATGCAAAGTATGGAACTGAATGAATAGTAACAGTACCTGCA
196 AATTGGTAGAGCCACTATCAAACAATGCAAAGTATGGAACTAAATGAATAGTAACAGTACCTGCA
*
83348 GTCACATTAGGCCTATCACGATCTTGTCGAAGTCTGGCAGTGTAAACCAATGCAGGCTGTCTGGC
261 GTCACATTAGGCCCATCACGATCTTGTCGAAGTCTGGCAGTGTAAACCAATGCAGGCTGTCTGGC
83413 ATCAAATCTGACTGGACCCCTATTTTGAGATACACGGCCTCTACTAGTCGATCCAGATGATCTCT
326 ATCAAATCTGACTGGACCCCTATTTTGAGATACACGGCCTCTACTAGTCGATCCAGATGATCTCT
83478 CCTGAGTACGACCACCCGTAGGAGTCTAAACAGTACTCTGAGTACGAGCG
391 CCTGAGTACGACCACCCGTAGGAGTCTAAACAGTACTCTGAGTACGAGCG
83528 GAATCAAATCAAACTCTTCCAAAGGTAACTCCATCAGGTCGGCCAGAAAAATCTCTCCATTGATC
1 GAATCAAATCAAACTCTTCCAAAGGTAACTCCATCAGGTCGGCCAGAAAAATCTCTCCATTGATC
83593 TCAATAGGGCACTCTCTATAAATACGATCCAACACAATGGACTTGCCTAAGGGACTTTGAACTAT
66 TCAATAGGGCACTCTCTATAAATACGATCCAACACAATGGACTTGCCTAAGGGACTTTGAACTAT
83658 CACCGAATGCTCAGTATTCTCAACAGGAATATTTAGACCCTCAGAAACAGAATGCGATACATAGG
131 CACCGAATGCTCAGTATTCTCAACAGGAATATTTAGACCCTCAGAAACAGAATGCGATACATAGG
83723 AATTGGTAGAGCCACTATCAAACAATGCAAAGTATGGAACTAAATGAATAGTAACAGTACCTGCA
196 AATTGGTAGAGCCACTATCAAACAATGCAAAGTATGGAACTAAATGAATAGTAACAGTACCTGCA
83788 GTCACATTAGGCCCATCACGATCTTGTCGAAGTCTGGCAGTGTAAACCAATGCAGGCTGTCTGGC
261 GTCACATTAGGCCCATCACGATCTTGTCGAAGTCTGGCAGTGTAAACCAATGCAGGCTGTCTGGC
83853 ATCAAATCTGACTGGACCCCTATTTTGAGATACACGGCCTCTACTAGTCGATCCAGATGATCTCT
326 ATCAAATCTGACTGGACCCCTATTTTGAGATACACGGCCTCTACTAGTCGATCCAGATGATCTCT
83918 CCTGAGTACGACCACCCGTAGGAGTCTAAACAGTACTCTGAGTACGAGCG
391 CCTGAGTACGACCACCCGTAGGAGTCTAAACAGTACTCTGAGTACGAGCG
83968 G
1 G
83969 GAGTACGAGC
Statistics
Matches: 438, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
440 438 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (440 bp):
GAATCAAATCAAACTCTTCCAAAGGTAACTCCATCAGGTCGGCCAGAAAAATCTCTCCATTGATC
TCAATAGGGCACTCTCTATAAATACGATCCAACACAATGGACTTGCCTAAGGGACTTTGAACTAT
CACCGAATGCTCAGTATTCTCAACAGGAATATTTAGACCCTCAGAAACAGAATGCGATACATAGG
AATTGGTAGAGCCACTATCAAACAATGCAAAGTATGGAACTAAATGAATAGTAACAGTACCTGCA
GTCACATTAGGCCCATCACGATCTTGTCGAAGTCTGGCAGTGTAAACCAATGCAGGCTGTCTGGC
ATCAAATCTGACTGGACCCCTATTTTGAGATACACGGCCTCTACTAGTCGATCCAGATGATCTCT
CCTGAGTACGACCACCCGTAGGAGTCTAAACAGTACTCTGAGTACGAGCG
Found at i:86813 original size:30 final size:29
Alignment explanation
Indices: 86727--86911 Score: 182
Period size: 29 Copynumber: 6.3 Consensus size: 29
86717 CATTTTACAG
* * *
86727 AAATAGCACCCTTTTT-AAAATAATTACCA
1 AAATAGCA-CCTTTTTCGAATTAATTCCCA
* *
86756 AAATAGCA-TTATTTTTGAATTAATTCCCA
1 AAATAGCACCT-TTTTCGAATTAATTCCCA
86785 AAATAGCACCTTTTTCGAATTAAATTCCCA
1 AAATAGCACCTTTTTCGAATT-AATTCCCA
*
86815 AAATAGCA-CTTTTT-GAATTAAATTCCTA
1 AAATAGCACCTTTTTCGAATT-AATTCCCA
* * *
86843 AAATAGTACTTTTTTCAAATTAAATTCTCC-
1 AAATAGCACCTTTTTCGAATT-AATTC-CCA
*
86873 AAATAGCACCTATTTCGAATTAATTCCCA
1 AAATAGCACCTTTTTCGAATTAATTCCCA
*
86902 AAATATCACC
1 AAATAGCACC
86912 CGGTCAACGG
Statistics
Matches: 132, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.01
28 26 0.20
29 60 0.45
30 44 0.33
31 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.36
Consensus pattern (29 bp):
AAATAGCACCTTTTTCGAATTAATTCCCA
Found at i:86846 original size:58 final size:58
Alignment explanation
Indices: 86727--86911 Score: 207
Period size: 58 Copynumber: 3.2 Consensus size: 58
86717 CATTTTACAG
* * *
86727 AAATAGCACCCTTTTT-AAAAT-AATTACCAAAATAGCATTATTTTTGAATTAATTCCCA
1 AAATAGCA-CCTTTTTCAAATTAAATTCCCAAAATAGCA-TCTTTTTGAATTAATTCCCA
* *
86785 AAATAGCACCTTTTTCGAATTAAATTCCCAAAATAGCA-CTTTTTGAATTAAATTCCTA
1 AAATAGCACCTTTTTCAAATTAAATTCCCAAAATAGCATCTTTTTGAATT-AATTCCCA
* * * *
86843 AAATAGTACTTTTTTCAAATTAAATTCTCC-AAATAGCACCTATTTCGAATTAATTCCCA
1 AAATAGCACCTTTTTCAAATTAAATTC-CCAAAATAGCATCT-TTTTGAATTAATTCCCA
*
86902 AAATATCACC
1 AAATAGCACC
86912 CGGTCAACGG
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
57 17 0.16
58 50 0.46
59 33 0.31
60 8 0.07
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.36
Consensus pattern (58 bp):
AAATAGCACCTTTTTCAAATTAAATTCCCAAAATAGCATCTTTTTGAATTAATTCCCA
Found at i:86967 original size:17 final size:18
Alignment explanation
Indices: 86929--86977 Score: 82
Period size: 17 Copynumber: 2.8 Consensus size: 18
86919 CGGTCAATGA
86929 TCAACGGGTCGGGTCGGG
1 TCAACGGGTCGGGTCGGG
86947 TCAACGGGTCGGGTC-GG
1 TCAACGGGTCGGGTCGGG
*
86964 TCAACTGGTCGGGT
1 TCAACGGGTCGGGT
86978 TGAAACATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.12, C:0.22, G:0.45, T:0.20
Consensus pattern (18 bp):
TCAACGGGTCGGGTCGGG
Found at i:91947 original size:13 final size:13
Alignment explanation
Indices: 91931--91955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91921 TTATAAACGT
91931 TAATAATAATAAA
1 TAATAATAATAAA
91944 TAATAATAATAA
1 TAATAATAATAA
91956 TAGTTATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:93428 original size:38 final size:37
Alignment explanation
Indices: 93267--93599 Score: 320
Period size: 36 Copynumber: 9.2 Consensus size: 37
93257 ATATATATAC
* *
93267 TTCAAAAATATTTTTTTAAACTATATA-T-TAT-A--T
1 TTCAAAAAT-GTTTTTAAAACTATATATTATATAAGTT
*
93300 TT-AAAAA-GTTTTCAAAACTATATATTATAT-AGTT
1 TTCAAAAATGTTTTTAAAACTATATATTATATAAGTT
* *
93334 TTC-AAAATG--CTTCAAA--A-ATATTATATAAGTT
1 TTCAAAAATGTTTTTAAAACTATATATTATATAAGTT
*
93365 TTCAAAAAATGTTTTTTAAAACTATATATTATATAATTTT
1 TTC-AAAAATG-TTTTTAAAACTATATATTATATAA-GTT
* * *
93405 TTCAAAAATGTTTTTAAAACTATATGTTATATGATTT
1 TTCAAAAATGTTTTTAAAACTATATATTATATAAGTT
*
93442 TTCAAAAAAAATGTTTTTAAAACTATATATTATATAATTT
1 TTC---AAAAATGTTTTTAAAACTATATATTATATAAGTT
* *
93482 TTCAAAAATGTTTTAAAAAACTATATACTATATAAGTT
1 TTCAAAAATGTTTT-TAAAACTATATATTATATAAGTT
* *
93520 TTC-CAAATGTTTTAAAAACTATATATTATATAAGTT
1 TTCAAAAATGTTTTTAAAACTATATATTATATAAGTT
* *
93556 TTC-AAAATGTTTTGAAAACTATATAATATATAAATGTT
1 TTCAAAAATGTTTTTAAAACTATATATTATAT-AA-GTT
93594 TTCAAA
1 TTCAAA
93600 CTATATATTA
Statistics
Matches: 256, Mismatches: 21, Indels: 40
0.81 0.07 0.13
Matches are distributed among these distances:
30 23 0.09
31 9 0.04
32 9 0.04
33 12 0.05
34 7 0.03
35 1 0.00
36 55 0.21
37 28 0.11
38 52 0.20
39 20 0.08
40 40 0.16
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.45
Consensus pattern (37 bp):
TTCAAAAATGTTTTTAAAACTATATATTATATAAGTT
Found at i:93601 original size:62 final size:64
Alignment explanation
Indices: 93524--93648 Score: 184
Period size: 62 Copynumber: 2.0 Consensus size: 64
93514 TAAGTTTTCC
* * *
93524 AAATGTTTTAAAAACTATATATTATATA-AGTTTTCAAAATGTTTT-GAAAACTATATAATATAT
1 AAATGTTTTAAAAACTATATATTATATATA-TTTTCAAAATATTTTCAAAAACCATATAATATAT
*
93587 AAATGTTTT-CAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACCATATAATATA
1 AAATGTTTTAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACCATATAATATA
93649 CATTTTCGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
62 31 0.55
63 25 0.45
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.42
Consensus pattern (64 bp):
AAATGTTTTAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACCATATAATATAT
Found at i:93604 original size:98 final size:101
Alignment explanation
Indices: 93499--93687 Score: 239
Period size: 98 Copynumber: 1.9 Consensus size: 101
93489 ATGTTTTAAA
* * *
93499 AAACTATATACTATATA-AGTTTTCCAAATGTTTT-AAAAACTATATATTATATA-AGTTTTC-A
1 AAACTATATACTATATATA-TTTTCAAAATATTTTCAAAAACCATATA--ATATACA-TTTTCGA
93560 AAAT-G-TTT-TGAAAACTATATAATATATAAATGTTTTC
62 AAATCGTTTTCTGAAAACTATATAATATATAAATGTTTTC
*
93597 AAACTATATATTATATATATTTTCAAAATATTTTCAAAAACCATATAATATACATTTTCGAAAAT
1 AAACTATATACTATATATATTTTCAAAATATTTTCAAAAACCATATAATATACATTTTCGAAAAT
* *
93662 CGTTTTCTGAAAATTATATATTATAT
66 CGTTTTCTGAAAACTATATAATATAT
93688 TTTGTCAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
97 10 0.13
98 35 0.45
99 13 0.17
100 3 0.04
101 17 0.22
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (101 bp):
AAACTATATACTATATATATTTTCAAAATATTTTCAAAAACCATATAATATACATTTTCGAAAAT
CGTTTTCTGAAAACTATATAATATATAAATGTTTTC
Found at i:93615 original size:28 final size:27
Alignment explanation
Indices: 93560--93613 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
93550 TAAGTTTTCA
93560 AAATGTTTTGAAAACTATATAATATAT
1 AAATGTTTTGAAAACTATATAATATAT
* *
93587 AAATGTTTT-CAAACTATATATTATAT
1 AAATGTTTTGAAAACTATATAATATAT
93613 A
1 A
93614 TATTTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (27 bp):
AAATGTTTTGAAAACTATATAATATAT
Found at i:93716 original size:36 final size:35
Alignment explanation
Indices: 93596--93716 Score: 84
Period size: 37 Copynumber: 3.3 Consensus size: 35
93586 TAAATGTTTT
*
93596 CAAACTATATATTATATATATTTTC-AAAATATTTTCA
1 CAAACTATATA-T-TATAT-TTTTCAAAAACATTTTCA
* * * * * *
93633 AAAACCATATAATATACATTTTCGAAAATCGTTTTCTGA
1 CAAACTATATATTATA-TTTTTC-AAAAACATTTTC--A
*
93672 -AAATTATATATTATATTTTGTCAAAAACATTTTCA
1 CAAACTATATATTATATTTT-TCAAAAACATTTTCA
93707 CAAACTATAT
1 CAAACTATAT
93717 TATTGTATAC
Statistics
Matches: 63, Mismatches: 14, Indels: 15
0.68 0.15 0.16
Matches are distributed among these distances:
35 10 0.16
36 8 0.13
37 30 0.48
38 14 0.22
39 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.41
Consensus pattern (35 bp):
CAAACTATATATTATATTTTTCAAAAACATTTTCA
Found at i:94545 original size:84 final size:83
Alignment explanation
Indices: 94347--95174 Score: 836
Period size: 84 Copynumber: 10.0 Consensus size: 83
94337 GCTGTGAACT
* * * * * * *
94347 TGATTTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT--AG-CAAATAGCCCTTCTCGA
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGA
* *
94409 CTTAAGCTATGCTACAAA
66 CTTAAGTTATGCTGCAAA
* * * *
94427 TGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGC
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGA
* * *
94492 CTTGAGTTATGTTGTAAA
66 CTTAAGTTATGCTGCAAA
* * * * * *
94510 TGATATGCCCTTGAAGCTGAGTGTAATCAAACTCGAAGGTC-TT--TGACAGATAGCCCTTCTCG
1 TGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCG
* *
94572 ACTTAAGCTATACTGCAAA
65 ACTTAAGTTATGCTGCAAA
*
94591 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTCG
94656 ACTTAAGTTATGCTGCAAA
65 ACTTAAGTTATGCTGCAAA
* * * * * * *
94675 TTATATGCCTTAGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTATAG
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTCG
* * *
94740 CCTTGAGTTATGCTGTAAA
65 ACTTAAGTTATGCTGCAAA
* * * * * * * * *
94759 TGATGTTCCCTCGAAGCTGAGTGTAATCAAAATCGAGGGTCTTT-G-G-CAGATAGCCCTTCTCG
1 TGATG-TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCG
* * *
94821 ACTTGAGCTATGCTTCAAA
65 ACTTAAGTTATGCTGCAAA
* * * ** * *
94840 TGGTGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGTTGGTAGATAACCCTTATTG
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GGTGACAGATAACCCTTCTCG
94905 ACTTAAGTTATGCTGCAAA
65 ACTTAAGTTATGCTGCAAA
* * * * **
94924 TGATATGCCTTGGAGCTGAGTGGAGCCGAACTCGAAGGTCTTT-G-G-CAGATAGTCCTTCTCGA
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGA
*
94986 CTTAAGCTATGCTGCAAA
66 CTTAAGTTATGCTGCAAA
* * * * * * *
95004 TGATGTGCCTTTGAGCTGAACGTAGTCGAACTCAAAGGTATTTTGTTGGCAGATAACCCTTTTCG
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTTGGTGACAGATAACCCTTCTCG
95069 ACTTAAGTTATGCTGCAAA
65 ACTTAAGTTATGCTGCAAA
* * * * *
95088 TGATATGCCTTGGAGCTGAGCGGAGCCGAACTCGAAGGTCTTTGGTGACATATAACCCTTCTAG-
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGA
*
95152 CATTGAGTTATGCTGCAAA
66 C-TTAAGTTATGCTGCAAA
95171 TGAT
1 TGAT
95175 TTGTTTAAAA
Statistics
Matches: 601, Mismatches: 128, Indels: 35
0.79 0.17 0.05
Matches are distributed among these distances:
80 157 0.26
81 73 0.12
82 1 0.00
83 76 0.13
84 264 0.44
85 30 0.05
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (83 bp):
TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGA
CTTAAGTTATGCTGCAAA
Found at i:94546 original size:164 final size:162
Alignment explanation
Indices: 94309--95174 Score: 812
Period size: 164 Copynumber: 5.2 Consensus size: 162
94299 CAATTTATTG
* * * * * * * * *
94309 ACAGATAGCCCTTCTTGCCTTGAGCTATGCTGTGAACTTGATTTGCCTTTGAGCTGAGTGTAATC
1 ACAGATAACCCTTCTCGACTTGAGCTATGCTG-CAA-ATGATATGCCCTTGAGCTGAGCGTAGTC
* * * * *
94374 GAACTCGAAGGTCTTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTG
64 GAACTCGAAGGTCTTTAGCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATGTGCCTTG
*
94439 GAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGT
129 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
* * * * * * *
94473 CACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTTGAAGCTGAGTGTAATC
1 -ACAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATATGCCCTTG-AGCTGAGCGTAGTC
* * * * *
94538 AAACTCGAAGGTCTTT-GACAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTT
64 GAACTCGAAGGTCTTTAG-CAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATGTGCCTT
94602 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT
128 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T
* * * * *
94638 GGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATTATATG-CCTTAGAGCTGAGCGGAGTC
1 -ACAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATATGCCCTT-GAGCTGAGCGTAGTC
* * * * * *
94702 GAACTCGAAGGTCTTTTGGTCACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTTC
64 GAACTCGAAGGTC-TTTAG---CAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATG-TG
* * * * * * *
94767 CCTCGAAGCTGAGTGTAATCAAAATCGAGGGTCTTTGG-
124 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
* * * *
94805 -CAGATAGCCCTTCTCGACTTGAGCTATGCTTCAAATGGTGTG-CCTTGGAGCTGAGCGTAGTCG
1 ACAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATATGCCCTT-GAGCTGAGCGTAGTCG
* * * *
94868 AACTCAAAGGTCTTTAGTTGGTAGATAACCCTTATTGACTTAAGTTATGCTGCAAATGATATGCC
65 AACTCGAAGGTCTTTA----GCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATGTGCC
* * *
94933 TTGGAGCTGAGTGGAGCCGAACTCGAAGGTCTTTGG-
126 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
** * * * *
94969 -CAGATAGTCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAACGTAGTCGA
1 ACAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATATGCCCTTGAGCTGAGCGTAGTCGA
* * * * *
95033 ACTCAAAGGTATTTTGTTGGCAGATAACCCTTTTCGACTTAAGTTATGCTGCAAATGATATGCCT
66 ACTCGAAGG---TCT-TTAGCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATGTGCCT
* *
95098 TGGAGCTGAGCGGAGCCGAACTCGAAGGTCTTTGGT
127 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
* * *
95134 GACATATAACCCTTCTAG-CATTGAGTTATGCTGCAAATGAT
1 -ACAGATAACCCTTCTCGAC-TTGAGCTATGCTGCAAATGAT
95175 TTGTTTAAAA
Statistics
Matches: 594, Mismatches: 85, Indels: 42
0.82 0.12 0.06
Matches are distributed among these distances:
163 12 0.02
164 308 0.52
165 171 0.29
166 2 0.00
167 33 0.06
168 36 0.06
169 32 0.05
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (162 bp):
ACAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATATGCCCTTGAGCTGAGCGTAGTCGA
ACTCGAAGGTCTTTAGCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGA
GCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
Found at i:94943 original size:413 final size:412
Alignment explanation
Indices: 94360--95174 Score: 1227
Period size: 413 Copynumber: 2.0 Consensus size: 412
94350 TTTGCCTTTG
* *
94360 AGCTGAGTGTAATCGAACTCGAAGGTCTTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTACA
1 AGCTGAGTGTAATCAAAATCGAAGGTCTTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTACA
* *
94425 AATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTA
66 AATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCAAAGGTCTTTGGTCACAGATAACCCTTATA
* * * * * *
94490 GCCTTGAGTTATGTTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCAAACTCGAAGGTCTTTG
131 GACTTAAGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGTGGAACCAAACTCGAAGGTCTTTG
*
94555 ACAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
196 ACAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGA
* * *
94620 ACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATTATATGCCT
261 ACTCAAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCT
* *
94685 TAGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTATAGCCTTGAGTTA
326 TAGAGCTGAGCGGAGCCGAACTCGAAGGTC-TTTGGTCACAGATAACCCTTATAGCATTGAGTTA
*
94750 TGCTGTAAATGATGTTCCCTCGA
390 TGCTGCAAATGATGTTCCCTCGA
* * * * *
94773 AGCTGAGTGTAATCAAAATCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTGAGCTATGCTTCA
1 AGCTGAGTGTAATCAAAATCGAAGGTCTTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTACA
* * * ***
94838 AATGGTGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGTTGGTAGATAACCCTTAT
66 AATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCAAAGGTCTTT-GGTCACAGATAACCCTTAT
* * * *
94903 TGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGTGGAGCCGAACTCGAAGGTCTTT
130 AGACTTAAGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGTGGAACCAAACTCGAAGGTCTTT
* * * *
94967 GGCAGATAGTCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAACGTAGTCG
195 GACAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCG
* *
95032 AACTCAAAGGTATTTTGTTGGCAGATAACCCTTTTCGACTTAAGTTATGCTGCAAATGATATGCC
260 AACTCAAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCC
* * * *
95097 TTGGAGCTGAGCGGAGCCGAACTCGAAGGTCTTTGGTGACATATAACCCTTCTAGCATTGAGTTA
325 TTAGAGCTGAGCGGAGCCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTATAGCATTGAGTTA
95162 TGCTGCAAATGAT
390 TGCTGCAAATGAT
95175 TTGTTTAAAA
Statistics
Matches: 359, Mismatches: 42, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
412 42 0.12
413 280 0.78
414 37 0.10
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (412 bp):
AGCTGAGTGTAATCAAAATCGAAGGTCTTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTACA
AATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCAAAGGTCTTTGGTCACAGATAACCCTTATA
GACTTAAGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGTGGAACCAAACTCGAAGGTCTTTG
ACAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGA
ACTCAAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCT
TAGAGCTGAGCGGAGCCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTATAGCATTGAGTTAT
GCTGCAAATGATGTTCCCTCGA
Found at i:99185 original size:3 final size:3
Alignment explanation
Indices: 99179--99204 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
99169 GTATAAACGT
99179 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
99205 GTTGTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:99296 original size:23 final size:26
Alignment explanation
Indices: 99243--99296 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 26
99233 ATATACATGT
99243 AAATACATATAAACAAAGTAGAAAAA
1 AAATACATATAAACAAAGTAGAAAAA
99269 AAATAC-TATAAACAAA-T-GAAAAA
1 AAATACATATAAACAAAGTAGAAAAA
*
99292 TAATA
1 AAATA
99297 AAAATAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 10 0.37
24 1 0.04
25 10 0.37
26 6 0.22
ACGTcount: A:0.69, C:0.07, G:0.06, T:0.19
Consensus pattern (26 bp):
AAATACATATAAACAAAGTAGAAAAA
Found at i:99395 original size:13 final size:12
Alignment explanation
Indices: 99364--99404 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
99354 GTATAGACAA
99364 AAAAATAACAAAT
1 AAAAATAA-AAAT
99377 --AAATAAATAAT
1 AAAAATAAA-AAT
99388 AAAAATAAAAAT
1 AAAAATAAAAAT
99400 AAAAA
1 AAAAA
99405 ATGATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 1 0.04
11 9 0.36
12 8 0.32
13 7 0.28
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:100532 original size:32 final size:30
Alignment explanation
Indices: 100482--100555 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
100472 TAAATTATAG
* *
100482 AATATA-TATACTTCAAAAATATTTTTTAAAAC
1 AATATATTATA-TTC-AAAA-AGTTTTCAAAAC
* *
100514 TATATATTATATTTAAAAAGTTTTCAAAAC
1 AATATATTATATTCAAAAAGTTTTCAAAAC
100544 AATATATTATAT
1 AATATATTATAT
100556 AGTTTTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 21 0.58
31 4 0.11
32 7 0.19
33 4 0.11
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (30 bp):
AATATATTATATTCAAAAAGTTTTCAAAAC
Found at i:100654 original size:38 final size:37
Alignment explanation
Indices: 100577--100924 Score: 327
Period size: 38 Copynumber: 9.2 Consensus size: 37
100567 TACTTCAAAA
*
100577 ATATTATATAAGTTTTCAAAAATTGTTTTTTAAAACTAT
1 ATATTATATAATTTTTCAAAAA-TG-TTTTTAAAACTAT
100616 ATATTATATAATTTTTCCAAAAATGTTTTTAAAACTAT
1 ATATTATATAATTTTT-CAAAAATGTTTTTAAAACTAT
* *
100654 ATGTTATATGATTTTTCAAAAAAAATGTTTTTAAAACTAT
1 ATATTATATAATTTTTC---AAAAATGTTTTTAAAACTAT
**
100694 ATATTATATAATTTTTTCAAAAATGTTTAAAAAACTAT
1 ATATTATATAA-TTTTTCAAAAATGTTTTTAAAACTAT
* * * *
100732 ATACTATATAAGTTTTC-CAAATGTTTTAAAAACTAT
1 ATATTATATAATTTTTCAAAAATGTTTTTAAAACTAT
* *
100768 ATATTATATAAGTTTTC-AAAATGTTTTGAAAACTAT
1 ATATTATATAATTTTTCAAAAATGTTTTTAAAACTAT
* * *
100804 ATAATATATAAATGTTTTC-AAAAT-ATTTTCAAACTAT
1 ATATTATAT-AAT-TTTTCAAAAATGTTTTTAAAACTAT
* ** *
100841 ATATTATAT-ATATATTCAAAATAT-TTTCAAAAACCAT
1 ATATTATATAAT-TTTTCAAAA-ATGTTTTTAAAACTAT
*
100878 ATA--ATATACA-TTTTCAAAAATCGTTTTCTGAAAATTAT
1 ATATTATATA-ATTTTTCAAAAAT-GTTTT-T-AAAACTAT
100916 ATATTATAT
1 ATATTATAT
100925 TTTGTCAAAA
Statistics
Matches: 260, Mismatches: 32, Indels: 33
0.80 0.10 0.10
Matches are distributed among these distances:
34 2 0.01
35 18 0.07
36 64 0.25
37 40 0.15
38 74 0.28
39 17 0.07
40 39 0.15
41 6 0.02
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATTATATAATTTTTCAAAAATGTTTTTAAAACTAT
Found at i:100691 original size:78 final size:75
Alignment explanation
Indices: 100581--100924 Score: 325
Period size: 78 Copynumber: 4.6 Consensus size: 75
100571 TCAAAAATAT
* *
100581 TATATAAGTTTTCAAAAATTGTTTTTTAAAACTATATATTATATAATTTTTCCAAAAATGTTTTT
1 TATATAAGTTTTCAAAAAATG-TTTTTAAAACTATATATTATATAATTTTT-CAAAAATGTTTTA
**
100646 AAAACTATATGT
64 AAAACTATATAC
* * *
100658 TATATGATTTTTCAAAAAAAATGTTTTTAAAACTATATATTATATAATTTTTTCAAAAATGTTTA
1 TATATAAGTTTTC--AAAAAATGTTTTTAAAACTATATATTATATAA-TTTTTCAAAAATGTTTT
100723 AAAAACTATATAC
63 AAAAACTATATAC
* * * *
100736 TATATAAGTTTTC--CAAATGTTTTAAAAACTATATATTATATAAGTTTTC-AAAATGTTTTGAA
1 TATATAAGTTTTCAAAAAATGTTTTTAAAACTATATATTATATAATTTTTCAAAAATGTTTTAAA
*
100798 AACTATATAA
66 AACTATATAC
* * *
100808 TATATAAATGTTTTC--AAAAT-ATTTTCAAACTATATATTATAT-ATATATTCAAAATAT-TTT
1 TATAT-AA-GTTTTCAAAAAATGTTTTTAAAACTATATATTATATAAT-TTTTCAAAA-ATGTTT
* *
100868 CAAAAACCATATA-
62 TAAAAACTATATAC
*
100881 -ATATACA-TTTTC-AAAAATCGTTTTCTGAAAATTATATATTATAT
1 TATATA-AGTTTTCAAAAAAT-GTTTT-T-AAAACTATATATTATAT
100925 TTTGTCAAAA
Statistics
Matches: 226, Mismatches: 27, Indels: 30
0.80 0.10 0.11
Matches are distributed among these distances:
70 5 0.02
71 6 0.03
72 31 0.14
73 33 0.15
74 55 0.24
75 17 0.08
77 11 0.05
78 56 0.25
79 12 0.05
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (75 bp):
TATATAAGTTTTCAAAAAATGTTTTTAAAACTATATATTATATAATTTTTCAAAAATGTTTTAAA
AACTATATAC
Found at i:100733 original size:36 final size:35
Alignment explanation
Indices: 100546--100904 Score: 220
Period size: 36 Copynumber: 9.8 Consensus size: 35
100536 TTCAAAACAA
** *
100546 TATATTATAT-AGTTTTC-AAAAT-ACTTCAAAA-
1 TATATTATATAAGTTTTCAAAAATGTTTTAAAAAC
*
100577 -ATATTATATAAGTTTTCAAAAATTGTTTTTTAAAAC
1 TATATTATATAAGTTTTCAAAAA-TG-TTTTAAAAAC
* *
100613 TATATATTATATAATTTTTCCAAAAATGTTTTTAAAAC
1 --TATATTATATAAGTTTT-CAAAAATGTTTTAAAAAC
* * *
100651 TATATGTTATATGATTTTTCAAAAAAAATGTTTTTAAAAC
1 TATA--TTATATAAGTTTTC---AAAAATGTTTTAAAAAC
* *
100691 TATATATTATATAATTTTTTCAAAAATGTTTAAAAAAC
1 --TATATTATATAA-GTTTTCAAAAATGTTTTAAAAAC
*
100729 TATATACTATATAAGTTTTC-CAAATGTTTTAAAAAC
1 TATAT--TATATAAGTTTTCAAAAATGTTTTAAAAAC
*
100765 TATATATTATATAAGTTTTC-AAAATGTTTTGAAAAC
1 --TATATTATATAAGTTTTCAAAAATGTTTTAAAAAC
* *
100801 TATATAATATATAAATGTTTTC-AAAATATTTT-CAAAC
1 TATAT--TATAT-AA-GTTTTCAAAAATGTTTTAAAAAC
* *
100838 TATATATTATATATA-TATTCAAAATAT-TTTCAAAAAC
1 --TATATTATATA-AGTTTTCAAAA-ATGTTTTAAAAAC
* *
100875 CATATAATATACA-TTTTCAAAAATCGTTTT
1 TATATTATATA-AGTTTTCAAAAAT-GTTTT
100905 CTGAAAATTA
Statistics
Matches: 271, Mismatches: 23, Indels: 63
0.76 0.06 0.18
Matches are distributed among these distances:
30 9 0.03
31 7 0.03
32 4 0.01
33 1 0.00
34 7 0.03
35 28 0.10
36 65 0.24
37 24 0.09
38 64 0.24
39 22 0.08
40 30 0.11
41 6 0.02
42 4 0.01
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (35 bp):
TATATTATATAAGTTTTCAAAAATGTTTTAAAAAC
Found at i:100832 original size:11 final size:11
Alignment explanation
Indices: 100813--100872 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
100803 TATAATATAT
*
100813 AAATGTTTTCA
1 AAATATTTTCA
100824 AAATATTTTCA
1 AAATATTTTCA
*
100835 AACTATATATT-A
1 AA--ATATTTTCA
* *
100847 TATATATATTCA
1 -AAATATTTTCA
100859 AAATATTTTCA
1 AAATATTTTCA
100870 AAA
1 AAA
100873 ACCATATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 31 0.77
12 2 0.05
13 7 0.17
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (11 bp):
AAATATTTTCA
Found at i:101167 original size:13 final size:13
Alignment explanation
Indices: 101149--101173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101139 CGTGCGAGCC
101149 CTACTATGCCCTT
1 CTACTATGCCCTT
101162 CTACTATGCCCT
1 CTACTATGCCCT
101174 ACTCTACAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.08, T:0.36
Consensus pattern (13 bp):
CTACTATGCCCTT
Found at i:103593 original size:24 final size:23
Alignment explanation
Indices: 103549--103593 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
103539 ATGTTTTGAC
**
103549 CAGTAGATTTTGAAGTTACTGCA
1 CAGTAGATTTTGAAGCAACTGCA
*
103572 CAGTAGCTGTTTGAAGCAACTG
1 CAGTAGAT-TTTGAAGCAACTG
103594 TGAGGAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (23 bp):
CAGTAGATTTTGAAGCAACTGCA
Done.