Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004415.1 Hibiscus syriacus cultivar Beakdansim tig00009680_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: 108947
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Found at i:1260 original size:20 final size:18
Alignment explanation
Indices: 1225--1263 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
1215 TAATCAAATG
1225 ATATTATTTAGTATTTTT
1 ATATTATTTAGTATTTTT
*
1243 ATATATATTTTGTGATTTTT
1 ATAT-TATTTAGT-ATTTTT
1263 A
1 A
1264 GGTAGAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (18 bp):
ATATTATTTAGTATTTTT
Found at i:5191 original size:24 final size:24
Alignment explanation
Indices: 5137--5192 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
5127 ATTTCCTGAA
* * *
5137 TGCACAAATAGTGTCACGTAGAAT
1 TGCACATATAGTGCCACATAGAAT
5161 TGCACATATAGTGCCACATAGAAT
1 TGCACATATAGTGCCACATAGAAT
5185 TGCACATA
1 TGCACATA
5193 AAGTACTGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (24 bp):
TGCACATATAGTGCCACATAGAAT
Found at i:7104 original size:22 final size:22
Alignment explanation
Indices: 7079--7130 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7069 ATAATAGAGA
*
7079 ATTTCATGTATG-ATAATTTTCT
1 ATTTCATGTA-GAATAATTTCCT
*
7101 ATTTCTTGTAGAATAATTTCCT
1 ATTTCATGTAGAATAATTTCCT
*
7123 ATTCCATG
1 ATTTCATG
7131 CTTTCATCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (22 bp):
ATTTCATGTAGAATAATTTCCT
Found at i:7296 original size:23 final size:23
Alignment explanation
Indices: 7259--7306 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
7249 TCTTTCCTTA
*
7259 ATTAAATAATGAATTAAAAATTT
1 ATTAAATAATAAATTAAAAATTT
* **
7282 ATTAAATATTAAATTACCAATTT
1 ATTAAATAATAAATTAAAAATTT
7305 AT
1 AT
7307 CCTTAAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTAAATAATAAATTAAAAATTT
Found at i:18318 original size:22 final size:22
Alignment explanation
Indices: 18293--18362 Score: 131
Period size: 22 Copynumber: 3.2 Consensus size: 22
18283 TCAATCGGTT
*
18293 GAATTAGTCTGACCGGTCGGAA
1 GAATTGGTCTGACCGGTCGGAA
18315 GAATTGGTCTGACCGGTCGGAA
1 GAATTGGTCTGACCGGTCGGAA
18337 GAATTGGTCTGACCGGTCGGAA
1 GAATTGGTCTGACCGGTCGGAA
18359 GAAT
1 GAAT
18363 CGGATGACGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.26, C:0.17, G:0.34, T:0.23
Consensus pattern (22 bp):
GAATTGGTCTGACCGGTCGGAA
Found at i:18630 original size:14 final size:14
Alignment explanation
Indices: 18611--18638 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18601 ATCATAACAA
18611 AATTATATAACTAT
1 AATTATATAACTAT
18625 AATTATATAACTAT
1 AATTATATAACTAT
18639 TTTTCACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:21793 original size:18 final size:19
Alignment explanation
Indices: 21770--21807 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
21760 ATTCGGTTTT
21770 AATCGAATTA-ATCGATTA
1 AATCGAATTAGATCGATTA
*
21788 AATCGAATTAGTTCGATTA
1 AATCGAATTAGATCGATTA
21807 A
1 A
21808 TTCGGTCGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (19 bp):
AATCGAATTAGATCGATTA
Found at i:22050 original size:17 final size:17
Alignment explanation
Indices: 22028--22066 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
22018 TGAATCAAAT
22028 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
22045 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
22062 -AATTA
1 TAATTA
22067 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:23896 original size:22 final size:20
Alignment explanation
Indices: 23858--23898 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
23848 ATTCCGTTTG
*
23858 ACTAATATTATGAAAATGAT
1 ACTAATATTAAGAAAATGAT
23878 ACTAATATATAAGACAAATGA
1 ACTAATAT-TAAGA-AAATGA
23899 GATTAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.29
Consensus pattern (20 bp):
ACTAATATTAAGAAAATGAT
Found at i:25446 original size:12 final size:12
Alignment explanation
Indices: 25429--25453 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25419 CGAAAATTAG
25429 AAAATTTAAATT
1 AAAATTTAAATT
25441 AAAATTTAAATT
1 AAAATTTAAATT
25453 A
1 A
25454 CTCGATTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTTAAATT
Found at i:27040 original size:3 final size:3
Alignment explanation
Indices: 27010--27068 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
27000 GAAAAATTAA
* * *
27010 AAT AA- AAT AAGT AAT AA- AAT ATT AAT AAT AAT AGT GAT AAT AAAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
27055 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
27069 ATATAAAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.09
3 36 0.78
4 6 0.13
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27057 original size:16 final size:16
Alignment explanation
Indices: 27010--27071 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
27000 GAAAAATTAA
27010 AATAA-AATAAGT-AAT
1 AATAATAATAA-TAAAT
*
27025 AA-AATATTAAT-AAT
1 AATAATAATAATAAAT
* *
27039 AATAGTGATAATAAAT
1 AATAATAATAATAAAT
27055 AATAATAATAATAAAT
1 AATAATAATAATAAAT
27071 A
1 A
27072 TAAAAACTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
14 8 0.21
15 12 0.32
16 18 0.47
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (16 bp):
AATAATAATAATAAAT
Found at i:27074 original size:25 final size:25
Alignment explanation
Indices: 27010--27068 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
27000 GAAAAATTAA
*
27010 AATAA-AATAA-G-TAATAAAATATT
1 AATAATAATAATGATAAT-AAATAAT
*
27033 AATAATAATAGTGATAATAAATAAT
1 AATAATAATAATGATAATAAATAAT
27058 AATAATAATAA
1 AATAATAATAA
27069 ATATAAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 5 0.17
24 4 0.13
25 17 0.57
26 4 0.13
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (25 bp):
AATAATAATAATGATAATAAATAAT
Found at i:27168 original size:17 final size:17
Alignment explanation
Indices: 27146--27202 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
27136 ATATTTTTAA
27146 AAAAATATATAATTTTC
1 AAAAATATATAATTTTC
* *
27163 AAAAATAT-T-TTTTTT
1 AAAAATATATAATTTTC
**
27178 AAAACCATATAATTTTC
1 AAAAATATATAATTTTC
27195 AAAAATAT
1 AAAAATAT
27203 TTTAAAAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
17 18 0.60
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATATATAATTTTC
Found at i:27175 original size:32 final size:32
Alignment explanation
Indices: 27107--27205 Score: 119
Period size: 32 Copynumber: 3.1 Consensus size: 32
27097 AAACCGTTTC
* *
27107 TTTTAAAAATTATATATAAATTTCCAAAAATA-T
1 TTTTAAAAA-AATATAT-AATTTTCAAAAATATT
27140 TTTTAAAAAAATATATAATTTTCAAAAATATT
1 TTTTAAAAAAATATATAATTTTCAAAAATATT
** **
27172 TTTTTTAAAACCATATAATTTTCAAAAATATT
1 TTTTAAAAAAATATATAATTTTCAAAAATATT
27204 TT
1 TT
27206 AAAAATTATA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
31 13 0.22
32 37 0.63
33 9 0.15
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (32 bp):
TTTTAAAAAAATATATAATTTTCAAAAATATT
Found at i:27238 original size:24 final size:24
Alignment explanation
Indices: 27206--27251 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
27196 AAAATATTTT
27206 AAAAATTATATATTATATATTTCA
1 AAAAATTATATATTATATATTTCA
27230 AAAAATTATATATTATATATTT
1 AAAAATTATATATTATATATTT
27252 ATTTTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAAATTATATATTATATATTTCA
Found at i:27273 original size:39 final size:38
Alignment explanation
Indices: 27229--27399 Score: 148
Period size: 39 Copynumber: 4.4 Consensus size: 38
27219 TATATATTTC
27229 AAAAAATTATATATTATATATTTATTTTCAAAATGTTTA
1 AAAAAATTATATATTATATATTT-TTTTCAAAATGTTTA
* *
27268 AAAAAACTATATAATATATATATTTTTTCAAAAATGTTT-
1 AAAAAATTATATATTATATAT-TTTTTTC-AAAATGTTTA
** * * *
27307 TGAAAACTATATATTATAT-TTTTTTGTAAAAACGTTTTA
1 AAAAAATTATATATTATATATTTTTT-TCAAAATG-TTTA
* * * * *
27346 AACAAATTATATAATATATAAATGTTTTCAAAATGTTTT
1 AAAAAATTATATATTATAT-ATTTTTTTCAAAATGTTTA
*
27385 AAAAACTATATATAT
1 AAAAAAT-TATATAT
27400 ATTTTCAAAA
Statistics
Matches: 104, Mismatches: 20, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
37 10 0.10
38 5 0.05
39 62 0.60
40 23 0.22
41 4 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (38 bp):
AAAAAATTATATATTATATATTTTTTTCAAAATGTTTA
Found at i:27346 original size:78 final size:76
Alignment explanation
Indices: 27230--27404 Score: 228
Period size: 78 Copynumber: 2.3 Consensus size: 76
27220 ATATATTTCA
* * * * *
27230 AAAAATTATATATTATATATTTATTTTCAAAATGTTTAAAAAAACTATATAATATATATATTTTT
1 AAAAACTATATATTATAT-TTTATTTTAAAAACGTTTAAAAAAACTATATAATATATAAATGTTT
27295 TCAAAAATGTTTT
65 TC-AAAATGTTTT
* * *
27308 GAAAACTATATATTATATTTT-TTTGTAAAAACGTTTTAAACAAATTATATAATATATAAATGTT
1 AAAAACTATATATTATATTTTATTT-TAAAAACG-TTTAAAAAAACTATATAATATATAAATGTT
27372 TTCAAAATGTTTT
64 TTCAAAATGTTTT
27385 AAAAACTATATA-TATATTTT
1 AAAAACTATATATTATATTTT
27405 CAAAATGTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
76 11 0.13
77 30 0.35
78 45 0.52
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (76 bp):
AAAAACTATATATTATATTTTATTTTAAAAACGTTTAAAAAAACTATATAATATATAAATGTTTT
CAAAATGTTTT
Found at i:27426 original size:31 final size:30
Alignment explanation
Indices: 27358--27428 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 30
27348 CAAATTATAT
*
27358 AATATATAAATGTTTTCAAAATGTTTTAAA
1 AATATATAAATATTTTCAAAATGTTTTAAA
* *
27388 AACTATATATATATTTTCAAAATGTTTTCGAA
1 AA-TATATAAATATTTTCAAAATGTTTT-AAA
27420 AATATATAA
1 AATATATAA
27429 TAAATAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.06
31 29 0.83
32 4 0.11
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (30 bp):
AATATATAAATATTTTCAAAATGTTTTAAA
Found at i:28082 original size:84 final size:84
Alignment explanation
Indices: 27963--28582 Score: 658
Period size: 84 Copynumber: 7.5 Consensus size: 84
27953 CGACAATTTT
* * * * * * *
27963 GTTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATGATGTGCCCTAGAGCTGATCGTAG
1 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAGAGCTGATCGTAG
*
28028 TCGAACTCGAAGGTCTTTT
66 TCGAACTCGAAGGTCTTTG
* * * * * * * *
28047 GTTGGCAGACAACCCTTTTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAGAGCTGATCGTAG
*
28112 TAGAACTCGAAGGTCTTTG
66 TCGAACTCGAAGGTCTTTG
* * *
28131 GTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT-GT
1 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAG-AGCTGA-TCGT
* **
28195 AATCGAACTCGGGGGTC--T-
64 AGTCGAACTCGAAGGTCTTTG
* * * * *
28213 -TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAGAGCTGATCGTAG
*
28277 TCGAACTCAAAGGTCTTTG
66 TCGAACTCGAAGGTCTTTG
* *
28296 GTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT-GT
1 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAG-AGCTGA-TCGT
* **
28360 AATCGAACTCGGGGGTCTTTG
64 AGTCGAACTCGAAGGTCTTTG
* * * * *
28381 G-T---AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAGAGCTGATCGTAG
*
28442 TCGAACTCAAAGGTCTTTG
66 TCGAACTCGAAGGTCTTTG
* *
28461 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGGTGTGCCCTCAAAGCTGAGT-GT
1 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT-AGAGCTGA-TCGT
* **
28525 AATCGAACTCGGGGGTC--T-
64 AGTCGAACTCGAAGGTCTTTG
* *
28543 -TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
1 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
28583 AGTTTGTTTA
Statistics
Matches: 447, Mismatches: 73, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
80 47 0.11
81 127 0.28
82 1 0.00
83 2 0.00
84 202 0.45
85 68 0.15
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (84 bp):
GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAGAGCTGATCGTAG
TCGAACTCGAAGGTCTTTG
Found at i:28257 original size:249 final size:247
Alignment explanation
Indices: 27961--28582 Score: 722
Period size: 249 Copynumber: 2.5 Consensus size: 247
27951 CTCGACAATT
* * * * *
27961 TTGTTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATGATGTGCCCTAGAGCTGATCGT
1 TTGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTAGAGCTGATCGT
* *
28026 AGTCGAACTCGAAGGTCTTTTGTTGGCAGACAACCCTT-TTAGACTTAAGTTGTGCTGCAAATGA
66 AGTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTCTT-GACTTAAGTTATGCTGCAAATGA
* * * *
28090 TATG-CCTTGGAGCTGAGCGTAGTAGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTTGAC
130 TATGCCCTCGAAGCTGAGCGTAATAGAACTCGAAGGTC--T--TTGGTAGATAACCCTTCTCGAC
* * ***
28154 TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC
191 TTAAGCTATGCTGCAAATGATGTGCCCTCG-AGCTGAGCGTAATCGAACTCAAAGGTC
* * *
28212 -T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGT
1 TTGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTAGAGCTGATCGT
* *
28275 AGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGAT
66 AGTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTCTTGACTTAAGTTATGCTGCAAATGAT
* * * ** *
28340 GTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTAGATAGCCCTTCTCGACTTAAG
131 ATGCCCTCGAAGCTGAGCGTAATAGAACTCGAAGGTCTTTGGTAGATAACCCTTCTCGACTTAAG
* * *
28405 CTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC
196 CTATGCTGCAAATGATGTGCCCTCGAGCTGAGCGTAATCGAACTCAAAGGTC
* * * *
28457 TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGGTGTGCCCTCAAAGCTGAG
1 -TT-GTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCT-AGAGCTGA-
* ** * * * *
28522 T-GTAATCGAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
62 TCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTCTTGACTTAAGTTATGCTGCAAA
28582 T
127 T
28583 AGTTTGTTTA
Statistics
Matches: 319, Mismatches: 44, Indels: 21
0.83 0.11 0.05
Matches are distributed among these distances:
245 22 0.07
246 84 0.26
247 1 0.00
248 2 0.01
249 160 0.50
250 50 0.16
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (247 bp):
TTGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTAGAGCTGATCGT
AGTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTCTTGACTTAAGTTATGCTGCAAATGAT
ATGCCCTCGAAGCTGAGCGTAATAGAACTCGAAGGTCTTTGGTAGATAACCCTTCTCGACTTAAG
CTATGCTGCAAATGATGTGCCCTCGAGCTGAGCGTAATCGAACTCAAAGGTC
Found at i:28270 original size:165 final size:165
Alignment explanation
Indices: 27963--28582 Score: 949
Period size: 165 Copynumber: 3.7 Consensus size: 165
27953 CGACAATTTT
* * * * * * *
27963 GTTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATGATGTGCCCTAG-AGCTGA-TCGT
1 GTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT-GT
* ** * * * * * *
28026 AGTCGAACTCGAAGGTCTTTTGTTGGCAGACAACCCTTTTAGACTTAAGTTGTGCTGCAAATGAT
65 AATCGAACTCGGGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
* * *
28091 ATGCC-TTGGAGCTGAGCGTAGTAGAACTCGAAGGTCTTTG
126 GTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
*
28131 GTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
1 GTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
28196 ATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
66 ATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
28261 GTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
131 GTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
28296 GTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
1 GTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
*
28361 ATCGAACTCGGGGGTCTTTGGTAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
66 ATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
28426 GTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
131 GTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
* * *
28461 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGGTGTGCCCTCAAAGCTGAGTGTA
1 GTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
28526 ATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
66 ATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
28583 AGTTTGTTTA
Statistics
Matches: 423, Mismatches: 26, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
165 352 0.83
166 3 0.01
168 45 0.11
169 22 0.05
170 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (165 bp):
GTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
ATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
GTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
Found at i:31999 original size:19 final size:19
Alignment explanation
Indices: 31975--32020 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
31965 AGTTAATGTG
*
31975 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAAAAA
31994 AATGCAAAGAAAATAAAAA
1 AATGCAAAGAAAATAAAAA
32013 AATGCAAA
1 AATGCAAA
32021 ATGTCTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.70, C:0.09, G:0.11, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAAAAA
Found at i:33712 original size:12 final size:12
Alignment explanation
Indices: 33695--33719 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33685 CGAAAATTAG
33695 AAAATTTAAATT
1 AAAATTTAAATT
33707 AAAATTTAAATT
1 AAAATTTAAATT
33719 A
1 A
33720 CTCGATTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTTAAATT
Found at i:35309 original size:3 final size:3
Alignment explanation
Indices: 35279--35337 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
35269 GAAAAATTAA
* * *
35279 AAT AA- AAT AAGT AAT AA- AAT ATT AAT AAT AAT AGT GAT AAT AAAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
35324 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
35338 ATATAAAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.09
3 36 0.78
4 6 0.13
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:35326 original size:16 final size:16
Alignment explanation
Indices: 35279--35340 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
35269 GAAAAATTAA
35279 AATAA-AATAAGT-AAT
1 AATAATAATAA-TAAAT
*
35294 AA-AATATTAAT-AAT
1 AATAATAATAATAAAT
* *
35308 AATAGTGATAATAAAT
1 AATAATAATAATAAAT
35324 AATAATAATAATAAAT
1 AATAATAATAATAAAT
35340 A
1 A
35341 TAAAAACTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
14 8 0.21
15 12 0.32
16 18 0.47
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (16 bp):
AATAATAATAATAAAT
Found at i:35343 original size:25 final size:25
Alignment explanation
Indices: 35279--35337 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
35269 GAAAAATTAA
*
35279 AATAA-AATAA-G-TAATAAAATATT
1 AATAATAATAATGATAAT-AAATAAT
*
35302 AATAATAATAGTGATAATAAATAAT
1 AATAATAATAATGATAATAAATAAT
35327 AATAATAATAA
1 AATAATAATAA
35338 ATATAAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 5 0.17
24 4 0.13
25 17 0.57
26 4 0.13
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (25 bp):
AATAATAATAATGATAATAAATAAT
Found at i:35414 original size:32 final size:31
Alignment explanation
Indices: 35376--35482 Score: 119
Period size: 32 Copynumber: 3.4 Consensus size: 31
35366 AAACCGTTTC
*
35376 TTTTTAAAATTATATATAAATTTCCAAAAATA
1 TTTTTAAAATTATATAT-AATTTTCAAAAATA
**
35408 TTTTTAAAAAAATATATAATTTTCAAAAATA
1 TTTTTAAAATTATATATAATTTTCAAAAATA
*
35439 TTTTTTTAAAA--ACCATATAATTTTCAAAAATA
1 --TTTTTAAAATTA-TATATAATTTTCAAAAATA
*
35471 TTTTAAAAATTA
1 TTTTTAAAATTA
35483 AAAATTATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
30 8 0.12
31 14 0.22
32 34 0.52
33 9 0.14
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (31 bp):
TTTTTAAAATTATATATAATTTTCAAAAATA
Found at i:35437 original size:17 final size:17
Alignment explanation
Indices: 35415--35471 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
35405 ATATTTTTAA
35415 AAAAATATATAATTTTC
1 AAAAATATATAATTTTC
*
35432 AAAAATAT-T--TTTTT
1 AAAAATATATAATTTTC
*
35446 AAAAACCATATAATTTTC
1 AAAAA-TATATAATTTTC
35464 AAAAATAT
1 AAAAATAT
35472 TTTAAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 9 0.28
15 2 0.06
16 2 0.06
17 10 0.31
18 9 0.28
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAATATATAATTTTC
Found at i:35515 original size:36 final size:36
Alignment explanation
Indices: 35444--35533 Score: 85
Period size: 37 Copynumber: 2.5 Consensus size: 36
35434 AAATATTTTT
**
35444 TTAAAAACCATATAATTTTCAAAAATATTTT-AAAAA
1 TTAAAAATTATAT-ATTTTCAAAAATATTTTAAAAAA
*
35480 TTAAAAATTATATATTTTC-AAAATGTTTTTCAAAAAA
1 TTAAAAATTATATATTTTCAAAAAT-ATTTT-AAAAAA
* * *
35517 TTATATATTATCTATTT
1 TTAAAAATTATATATTT
35534 ATTTTCAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
34 5 0.11
35 10 0.22
36 11 0.24
37 19 0.42
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (36 bp):
TTAAAAATTATATATTTTCAAAAATATTTTAAAAAA
Found at i:35576 original size:39 final size:38
Alignment explanation
Indices: 35488--35699 Score: 175
Period size: 39 Copynumber: 5.5 Consensus size: 38
35478 AATTAAAAAT
* * *
35488 TATATATTTTCAAAATGTTTTTCAAAAAATTATATATTATC
1 TATATATTTTCAAAATG--TTT-AAAAAACTATATAATATA
* *
35529 TATTTATTTTCAAATTGTTTAAAAAAACTATATAATATA
1 TATATATTTTCAAAATGTTT-AAAAAACTATATAATATA
**
35568 TATATATTTTCAAAAATGTTTTGAAAACTATAT-AT-TA
1 TATATATTTTC-AAAATGTTTAAAAAACTATATAATATA
* * * * *
35605 TATTTTTTTGTAAAAACGTTTTAAACAAATTATATAATATA
1 TATATATTT-TCAAAATG-TTTAAA-AAACTATATAATATA
* * *
35646 TAAATGTTTTCAAAATGTTTTAAAAAC--TAT-ATAT-
1 TATATATTTTCAAAATGTTTAAAAAACTATATAATATA
35680 TATATATTTTCAAAATGTTT
1 TATATATTTTCAAAATGTTT
35700 TCGAAAATAT
Statistics
Matches: 139, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
34 18 0.13
35 4 0.03
36 3 0.02
37 14 0.10
38 10 0.07
39 51 0.37
40 16 0.12
41 23 0.17
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (38 bp):
TATATATTTTCAAAATGTTTAAAAAACTATATAATATA
Found at i:35628 original size:78 final size:77
Alignment explanation
Indices: 35491--35689 Score: 238
Period size: 78 Copynumber: 2.5 Consensus size: 77
35481 TAAAAATTAT
* * * * **
35491 ATATTTTCAAAATGTTTTTCAAAAAATTATATATTATCTATTTATTTTCAAATTG-TTTAAAAAA
1 ATATTTTCAAAATG-TTTT--AAAAACTATATATTATATATTT-TTGTAAAAACGTTTTAAAAAA
*
35555 ACTATATAATATATAT
62 ACTATATAATATATAA
* * * *
35571 ATATTTTCAAAAATGTTTTGAAAACTATATATTATATTTTTTTGTAAAAACGTTTTAAACAAATT
1 ATATTTTC-AAAATGTTTTAAAAACTATATATTATATATTTTTGTAAAAACGTTTTAAAAAAACT
35636 ATATAATATATAA
65 ATATAATATATAA
*
35649 ATGTTTTCAAAATGTTTTAAAAACTATATATTATATATTTT
1 ATATTTTCAAAATGTTTTAAAAACTATATATTATATATTTT
35690 CAAAATGTTT
Statistics
Matches: 103, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
77 38 0.37
78 47 0.46
80 12 0.12
81 6 0.06
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (77 bp):
ATATTTTCAAAATGTTTTAAAAACTATATATTATATATTTTTGTAAAAACGTTTTAAAAAAACTA
TATAATATATAA
Found at i:35943 original size:7 final size:7
Alignment explanation
Indices: 35931--35964 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
35921 TATCATTAAC
35931 TATAATA
1 TATAATA
35938 TATAATA
1 TATAATA
35945 TA-AATA
1 TATAATA
35951 TATAATA
1 TATAATA
35958 TTATAAT
1 -TATAAT
35965 TGATTTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 13 0.52
8 6 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:35952 original size:13 final size:13
Alignment explanation
Indices: 35934--35958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35924 CATTAACTAT
35934 AATATATAATATA
1 AATATATAATATA
35947 AATATATAATAT
1 AATATATAATAT
35959 TATAATTGAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATATAATATA
Found at i:37472 original size:31 final size:33
Alignment explanation
Indices: 37424--37502 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
37414 TTTAAATAGT
* *
37424 TATTATATTTTATATT-AAT-ATATTTATGTAAC
1 TATTAT-TTTTTTATTAAATAATATTTATATAAC
*
37456 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATT-AAATAATATTTATATAAC
*
37490 TATTATTTATTTA
1 TATTATTTTTTTA
37503 GAATTATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 8 0.20
32 6 0.15
33 3 0.08
34 23 0.57
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (33 bp):
TATTATTTTTTTATTAAATAATATTTATATAAC
Found at i:37641 original size:6 final size:6
Alignment explanation
Indices: 37630--37706 Score: 154
Period size: 6 Copynumber: 12.8 Consensus size: 6
37620 TTTTTTATAA
37630 TTAATG TTAATG TTAATG TTAATG TTAATG TTAATG TTAATG TTAATG
1 TTAATG TTAATG TTAATG TTAATG TTAATG TTAATG TTAATG TTAATG
37678 TTAATG TTAATG TTAATG TTAATG TTAAT
1 TTAATG TTAATG TTAATG TTAATG TTAAT
37707 ATTTAAATTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.51
Consensus pattern (6 bp):
TTAATG
Found at i:37730 original size:17 final size:17
Alignment explanation
Indices: 37708--37761 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
37698 AATGTTAATA
37708 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
37725 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
37742 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
37759 TTT
1 TTT
37762 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:39373 original size:21 final size:21
Alignment explanation
Indices: 39343--39415 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
39333 TATGCCATCT
* *
39343 CCGCAAGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
39364 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
39385 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
39406 CCGCAGGGTT
1 CCGCAGGGTT
39416 TTATACCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
20 2 0.04
21 43 0.91
22 2 0.04
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:40041 original size:34 final size:34
Alignment explanation
Indices: 39936--40041 Score: 149
Period size: 34 Copynumber: 3.1 Consensus size: 34
39926 ATAAATGTTT
*
39936 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * *
39970 TAAAAATAAAAATAATATTATTTGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * *
40004 TTAAAATATAAATTATAGTATTCGAAATTTAACA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
40038 TTAA
1 TTAA
40042 GTTTCAACTT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAAA
Found at i:40805 original size:128 final size:128
Alignment explanation
Indices: 40395--40884 Score: 885
Period size: 128 Copynumber: 3.8 Consensus size: 128
40385 TTACCTGATT
*
40395 TACTGATATATTTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
40460 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
* *
40523 TACTGATATGA-ATAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT
1 TACTGATAT-ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT
40587 CTGACAAAATAATGGAAGGCGC-CCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
65 CTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
*
40650 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGATATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *
40715 TGACAAAATAATAGAAGGCGCGCCCCCGGGAACGCGCCTTCTAGTCCCTTGAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
40778 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
40843 TGACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCA
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCA
40885 TGTGAATAGT
Statistics
Matches: 347, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
126 1 0.00
127 121 0.35
128 224 0.65
129 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
Found at i:40846 original size:255 final size:256
Alignment explanation
Indices: 40395--40884 Score: 894
Period size: 255 Copynumber: 1.9 Consensus size: 256
40385 TTACCTGATT
*
40395 TACTGATATATTTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
40460 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTA
66 TGACAAAATAATAGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTA
40525 CTGATATGAATAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATGAATAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
40590 ACAAAATAATGGAAGGCG-CCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
196 ACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
*
40650 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGATATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
40715 TGACAAAATAATAGAAGGCGCGCCCCCGGGAACGCGCCTTCTAGTCCCTTGAGAAATAATAGGTA
66 TGACAAAATAATAGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTA
* *
40780 CTGATAT-ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
131 CTGATATGA-ATAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
40844 GACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCA
195 GACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCA
40885 TGTGAATAGT
Statistics
Matches: 226, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
254 1 0.00
255 204 0.90
256 21 0.09
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (256 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATAGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTA
CTGATATGAATAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
ACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
Found at i:46103 original size:51 final size:51
Alignment explanation
Indices: 46027--46153 Score: 161
Period size: 51 Copynumber: 2.5 Consensus size: 51
46017 TTAGCAGTAA
* * *
46027 AGCGCG-CCCTCTGCACCGCGCTATACGATGATTTGGCGT-CACTTGGGGTAT
1 AGCGCGCCCCT-TGCACCGCGCTATACGATGATATGGCATACACGT-GGGTAT
*
46078 AGCGCGCCCCTTGCACCGCGCTATACGGTGATATGGCATACACGTGGGTAT
1 AGCGCGCCCCTTGCACCGCGCTATACGATGATATGGCATACACGTGGGTAT
*
46129 AGCGCGGCCCC-TGCAGCGCGCTATA
1 AGCGC-GCCCCTTGCACCGCGCTATA
46154 TGCCACGTAG
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
51 55 0.81
52 13 0.19
ACGTcount: A:0.17, C:0.31, G:0.30, T:0.21
Consensus pattern (51 bp):
AGCGCGCCCCTTGCACCGCGCTATACGATGATATGGCATACACGTGGGTAT
Found at i:50026 original size:12 final size:12
Alignment explanation
Indices: 50003--50045 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
49993 TCATCATCAC
*
50003 CATCGTCATCGT
1 CATCGTCGTCGT
*
50015 CATTGTCGTCGT
1 CATCGTCGTCGT
50027 CATCGTCGTCGT
1 CATCGTCGTCGT
50039 CATCGTC
1 CATCGTC
50046 TTGCGCAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.12, C:0.33, G:0.21, T:0.35
Consensus pattern (12 bp):
CATCGTCGTCGT
Found at i:50032 original size:6 final size:6
Alignment explanation
Indices: 49989--50045 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
49979 ACTCCTCGCT
* ** * * *
49989 GTCATC ATCATC ACCATC GTCATC GTCATT GTCGTC GTCATC GTCGTC
1 GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC
50037 GTCATC GTC
1 GTCATC GTC
50046 TTGCGCAGGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.16, C:0.33, G:0.18, T:0.33
Consensus pattern (6 bp):
GTCATC
Found at i:52080 original size:110 final size:111
Alignment explanation
Indices: 51886--52106 Score: 374
Period size: 110 Copynumber: 2.0 Consensus size: 111
51876 ATTATAAAAA
* * *
51886 TTAATTCTTAATCTAATAATAATGTATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATAATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
51951 AATTAAAACGTTAAAATGTTATC-GTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTA-CAGTATCAGCAAAGTGTAGAGATAT
*
51997 TTAATTCTTAATCTAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATAATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
52061 AATTAAAACGTTAAAATGTTACAGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACAGTATCAGCAAAGTGTAGAGATAT
52107 ATGATTTCCA
Statistics
Matches: 104, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
109 1 0.01
110 70 0.67
111 33 0.32
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATAATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACAGTATCAGCAAAGTGTAGAGATAT
Found at i:52206 original size:16 final size:16
Alignment explanation
Indices: 52162--52216 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
52152 GCAAAAGAAT
*
52162 TATATTAGTAAAATATTA
1 TATAATAGTAAAA-A-TA
*
52180 AATAA-AGTAAAAATA
1 TATAATAGTAAAAATA
52195 TATAATAGTAAAAATA
1 TATAATAGTAAAAATA
52211 TTATAA
1 -TATAA
52217 AATATACCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 6 0.19
16 11 0.34
17 12 0.38
18 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (16 bp):
TATAATAGTAAAAATA
Found at i:52215 original size:17 final size:17
Alignment explanation
Indices: 52160--52216 Score: 66
Period size: 16 Copynumber: 3.4 Consensus size: 17
52150 CTGCAAAAGA
*
52160 ATTATATTAGT-AAAAT
1 ATTATAATAGTAAAAAT
52176 ATTA-AATAAAGTAAAAAT
1 ATTATAAT--AGTAAAAAT
52194 A-TATAATAGTAAAAAT
1 ATTATAATAGTAAAAAT
52210 ATTATAA
1 ATTATAA
52217 AATATACCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 2 0.06
16 14 0.40
17 10 0.29
18 9 0.26
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
ATTATAATAGTAAAAAT
Found at i:52451 original size:51 final size:51
Alignment explanation
Indices: 52396--52509 Score: 158
Period size: 51 Copynumber: 2.2 Consensus size: 51
52386 AGCGTGCTTT
* * * *
52396 AGGGGCCGCGCTATA-CCCACGTGTATGCCAGATCACCGTATAGCGCGGTGC
1 AGGGGGCGCGCTATACCCCACGTG-ACGCCAAATCACCGTATAGCGCGATGC
* *
52447 AGGGGGCGCGCTATACCCCACGTGGCGCCAAATCATCGTATAGCGCGATGC
1 AGGGGGCGCGCTATACCCCACGTGACGCCAAATCACCGTATAGCGCGATGC
52498 AGGGGGCGCGCT
1 AGGGGGCGCGCT
52510 TTACTGCTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 48 0.86
52 8 0.14
ACGTcount: A:0.19, C:0.31, G:0.34, T:0.16
Consensus pattern (51 bp):
AGGGGGCGCGCTATACCCCACGTGACGCCAAATCACCGTATAGCGCGATGC
Found at i:53428 original size:18 final size:17
Alignment explanation
Indices: 53405--53438 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
53395 AAATATCTTC
53405 AATTTCTAATTTTGGTCT
1 AATTTCT-ATTTTGGTCT
*
53423 AATTTCTCTTTTGGTC
1 AATTTCTATTTTGGTC
53439 CCTCTCATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.56
Consensus pattern (17 bp):
AATTTCTATTTTGGTCT
Found at i:55572 original size:13 final size:13
Alignment explanation
Indices: 55554--55588 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
55544 TCACACTTTG
55554 TGGGTTGGCTACT
1 TGGGTTGGCTACT
55567 TGGGTTGGCTACT
1 TGGGTTGGCTACT
55580 TGGGTTGGC
1 TGGGTTGGC
55589 ACTGTTGCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.06, C:0.14, G:0.43, T:0.37
Consensus pattern (13 bp):
TGGGTTGGCTACT
Found at i:62698 original size:19 final size:19
Alignment explanation
Indices: 62674--62722 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
62664 TTTCTTCGAT
62674 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* * * *
62693 ATTAAACAATTAATATATG
1 ATTAAAAAATAAATAAATA
*
62712 ATTTAAAAATA
1 ATTAAAAAATA
62723 GGATTTATTT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:62964 original size:15 final size:14
Alignment explanation
Indices: 62940--62990 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
62930 TGAAAATAAT
62940 AATT-AAAATAAAGG
1 AATTAAAAATAAA-G
*
62954 AATTAAAAATATAG
1 AATTAAAAATAAAG
*
62968 TATTAAAATATAAA-
1 AATTAAAA-ATAAAG
62982 AATTAAAAA
1 AATTAAAAA
62991 ATAATCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 1 0.03
14 19 0.61
15 11 0.35
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (14 bp):
AATTAAAAATAAAG
Found at i:64087 original size:3 final size:3
Alignment explanation
Indices: 64079--64131 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
64069 CTGTAATATG
* * * *
64079 TAA TAA TAA TATT TAT TAA TAA AAA TAT TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
64124 TAA TAA TA
1 TAA TAA TA
64132 TAAATAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:64109 original size:12 final size:12
Alignment explanation
Indices: 64092--64140 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
64082 TAATAATATT
64092 TATTAATAAAAA
1 TATTAATAAAAA
64104 TATTAATAATAATA
1 TATTAATAA-AA-A
* *
64118 TAATAATAATAA
1 TATTAATAAAAA
*
64130 TATAAATAAAA
1 TATTAATAAAA
64141 CCGGGACAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 18 0.60
13 3 0.10
14 9 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATTAATAAAAA
Found at i:64770 original size:40 final size:40
Alignment explanation
Indices: 64686--64822 Score: 240
Period size: 40 Copynumber: 3.5 Consensus size: 40
64676 GTTGAACAAA
* * *
64686 TTCTTCTTATTATGAACTTCTTCTT-CTTTTTCAGATGAG
1 TTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAG
64725 TTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAG
64765 TTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAG
64805 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
64823 TTCTCTGGAA
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 23 0.24
40 71 0.76
ACGTcount: A:0.18, C:0.24, G:0.09, T:0.48
Consensus pattern (40 bp):
TTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAG
Found at i:64901 original size:113 final size:112
Alignment explanation
Indices: 64763--65845 Score: 795
Period size: 113 Copynumber: 9.6 Consensus size: 112
64753 TCTTCAGATG
*
64763 AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
64828 TGGAAAAACTGATCCATCAAGTGATGGATTTGAGTAAATGGTTGAACA
66 TGGAAAAACTGATCCATCAAGTGATGGATTTGAGCAAA-GGTTGAACA
* * *
64876 AGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAAC-CT-TC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* ** * *
64938 TGGCAACGCTGATCCATCGAA-TGATGAATTTGAGCAAATGGTTGAATA
66 TGGAAAAACTGATCCATC-AAGTGATGGATTTGAGCAAA-GGTTGAACA
* * *
64986 AGTTCTTCTCATTATGAACTTCTTATTTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTC
1 AGTTCTTCTCATTATGAACTTC-T-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
* *** ** * ** * *
65051 ACTGGAAAGGTTGATCCATTGAGTGATGAATTCAAGTGAAAAGTTGAACA
64 TCTGGAAAAACTGATCCATCAAGTGATGGATTTGAG-CAAAGGTTGAACA
65101 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-T-TTC
**** * * * * * * * * ** *
65166 TTCCTTCTTCAGA-TGAGTTCTTCTCA-TTATGAACTCGA-C-CTGG-T-AATA
64 -T-C-TGGAAAAACTGA-TCCATC-AAGTGATGGATTTGAGCAAAGGTTGAACA
* * * ** * ** ****** * **
65214 TTGATCCATCGAATGATGAA-TTCAAGC-GAAAAGTTGA-ACAAGTTCTTCTCATTATGAACTTT
1 -AG-TTCTTCTCATTATGAACTTC-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT
* * * * * *
65276 CTCTGGAAAAGTCTATGCTAATCTATCTCCTTATGTGATAGA-GTCATGCAAAAGGTTGAACA
63 CTCTGGAAAA----A--CTGATCCA--T-C--AAGTGATGGATTTGA-GC-AAAGGTTGAACA
*
65338 AATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
** * *
65402 TGGAAATGCGGATCCATCAAGTAATGGATTTGAGCAAAAGGTTGAACA
66 TGGAAAAACTGATCCATCAAGTGATGGATTTGAGC-AAAGGTTGAACA
* *
65450 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
** * * * * *
65515 TGGAAAATTTGATCCATCGAGTGAT-GAATTCAACAAAAG-TGAACA
66 TGGAAAAACTGATCCATCAAGTGATGGATTTGAGCAAAGGTTGAACA
* *
65560 AGTTC-T-TCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * ** *
65623 TGG--TAACTGATCCATCGAA-TGAT-GAATCAAGCGAAAAG-TGAACA
66 TGGAAAAACTGATCCATC-AAGTGATGGATTTGAGC-AAAGGTTGAACA
* **
65667 AATTC-TCTCATTATG-A-TT-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC-
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCT
* *** * * * * *
65727 CTGGTAATTTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
65 CTGGAAAAACTGATCCATCAAGTGATGGATTTGAGC-AAAGGTTGAACA
65776 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
65840 TGGAAA
66 TGGAAA
65846 TGTTGATCCA
Statistics
Matches: 764, Mismatches: 151, Indels: 111
0.74 0.15 0.11
Matches are distributed among these distances:
105 42 0.05
106 24 0.03
107 30 0.04
108 78 0.10
109 12 0.02
110 83 0.11
111 13 0.02
112 97 0.13
113 204 0.27
114 15 0.02
115 73 0.10
116 4 0.01
117 10 0.01
118 17 0.02
119 5 0.01
120 1 0.00
122 17 0.02
123 36 0.05
124 3 0.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (112 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAACTGATCCATCAAGTGATGGATTTGAGCAAAGGTTGAACA
Found at i:65145 original size:40 final size:40
Alignment explanation
Indices: 65101--65200 Score: 200
Period size: 40 Copynumber: 2.5 Consensus size: 40
65091 AAGTTGAACA
65101 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
65141 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
65181 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
65201 CGACCTGGTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.19, C:0.24, G:0.10, T:0.47
Consensus pattern (40 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:65187 original size:153 final size:155
Alignment explanation
Indices: 64986--65274 Score: 467
Period size: 153 Copynumber: 1.9 Consensus size: 155
64976 TGGTTGAATA
* *
64986 AGTTCTTCTCATTATGAACTTCTTATTTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTC
1 AGTTCTTCTCATTATGAACTTCTTATCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-C
* * * *
65051 A-CTGGAAAGGTTGATCCATTGAGTGATGAATTCAAGTGAAAAGTTGAACAAGTTCTTCTCATTA
65 ACCTGGAAAGATTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTA
65115 TGAACTTCTTCTTCCTTCTTCAGATG
130 TGAACTTCTTCTTCCTTCTTCAGATG
*
65141 AGTTCTTCTCATTATGAACTTC-T-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
1 AGTTCTTCTCATTATGAACTTCTTATCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCCA
* *
65204 CCTGGTAATATTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTAT
66 CCTGGAAAGATTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTAT
65269 GAACTT
131 GAACTT
65275 TCTCTGGAAA
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
152 1 0.01
153 100 0.81
154 1 0.01
155 22 0.18
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (155 bp):
AGTTCTTCTCATTATGAACTTCTTATCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCCA
CCTGGAAAGATTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTAT
GAACTTCTTCTTCCTTCTTCAGATG
Found at i:66288 original size:22 final size:22
Alignment explanation
Indices: 66263--66317 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
66253 GATAAAGCTT
*
66263 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
66285 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
66307 TCATCTTTGAA
1 TCATCTTTGAA
66318 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:73866 original size:14 final size:14
Alignment explanation
Indices: 73828--73881 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
73818 CATAAAAATA
* *
73828 CAAATGCAAAGATG
1 CAAATGTAAATATG
73842 CCAAATGTAAATATG
1 -CAAATGTAAATATG
* *
73857 CAAATATAAAAATG
1 CAAATGTAAATATG
*
73871 TAAATGTAAAT
1 CAAATGTAAAT
73882 TATTTAAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.54, C:0.09, G:0.13, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:75466 original size:16 final size:15
Alignment explanation
Indices: 75445--75494 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
75435 ATTCTTGAAT
75445 AAAATAAATAAATAAA
1 AAAAT-AATAAATAAA
*
75461 AAAATAATAATATATA
1 AAAATAATAA-ATAAA
*
75477 AAAATAATAAGTAAA
1 AAAATAATAAATAAA
75492 AAA
1 AAA
75495 TTTGAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAATAATAAATAAA
Found at i:76294 original size:2 final size:2
Alignment explanation
Indices: 76287--76320 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
76277 TATTATTTAT
* *
76287 TA TA TA TA TA TA TA TA TA TT TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
76321 AATAATAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:76338 original size:12 final size:11
Alignment explanation
Indices: 76320--76384 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 11
76310 ATATTTATAT
*
76320 AAATAATAAGA
1 AAATAATAATA
76331 ATAATAATAA-A
1 A-AATAATAATA
76342 AGTAATAATAATA
1 A--AATAATAATA
* *
76355 AAATAATATTGC
1 AAATAATAAT-A
76367 AAATAATAATTA
1 AAATAATAA-TA
76379 AAATAA
1 AAATAA
76385 AAGGAATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
11 11 0.24
12 31 0.69
13 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (11 bp):
AAATAATAATA
Found at i:76348 original size:15 final size:15
Alignment explanation
Indices: 76321--76362 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
76311 TATTTATATA
76321 AATAATAAG-AATAAT
1 AATAA-AAGTAATAAT
76336 AATAAAAGTAATAAT
1 AATAAAAGTAATAAT
76351 AATAAAA-TAATA
1 AATAAAAGTAATA
76363 TTGCAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (15 bp):
AATAAAAGTAATAAT
Found at i:76376 original size:3 final size:3
Alignment explanation
Indices: 76321--76362 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
76311 TATTTATATA
*
76321 AAT AAT AAG AAT AAT AAT AA- AAGT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT A
76363 TTGCAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:77695 original size:3 final size:3
Alignment explanation
Indices: 77687--77754 Score: 84
Period size: 3 Copynumber: 22.7 Consensus size: 3
77677 CTGTAATATG
* * * *
77687 TAA TAA TAA TATT TAT TAA TAA AAA TAT TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
77732 TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
77755 TAAATAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.04
3 53 0.93
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:80154 original size:2 final size:2
Alignment explanation
Indices: 80147--80171 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
80137 TATATTTTTA
80147 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
80172 CCAACTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85389 original size:35 final size:35
Alignment explanation
Indices: 85336--85450 Score: 131
Period size: 35 Copynumber: 3.3 Consensus size: 35
85326 AAAATAGTCC
* * * *
85336 TCAATTTCATTCCTAAACCCCAATTTTCAAAGTAAT
1 TCAATTTAATT-CTAAACCCCAAATTCCAAAATAAT
* *
85372 TCAATTTTATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
85407 TCAATTAAATTCTAAACCTCAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
85442 TCAATTTAA
1 TCAATTTAA
85451 GGGTTAGAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
35 57 0.85
36 10 0.15
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:87255 original size:35 final size:35
Alignment explanation
Indices: 87215--87326 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
87205 TCTAAACCTT
* * *
87215 AAATTGAAGTATTTTAGAATTTGGGGTTTAGAATT
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
* *
87250 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
* *
87285 AAATTGAATTACTTTGGAAATTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
87320 AAATTGA
1 AAATTGA
87327 TGAATGTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.35, C:0.01, G:0.23, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
Found at i:89875 original size:2 final size:2
Alignment explanation
Indices: 89868--89894 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
89858 ATGTTTTCTA
89868 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
89895 ATGTTTTTGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90918 original size:12 final size:11
Alignment explanation
Indices: 90903--90982 Score: 56
Period size: 12 Copynumber: 6.5 Consensus size: 11
90893 TAAAAACAAA
90903 AATATTAATATT
1 AATA-TAATATT
90915 AATAATAATA-T
1 AAT-ATAATATT
90926 -ATATAATATGT
1 AATATAATAT-T
90937 AATATATATATT
1 AATATA-ATATT
90949 AAAATATAATATAT
1 --AATATAATAT-T
90963 AGACTATAATATAT
1 A-A-TATAATAT-T
90977 AATATA
1 AATATA
90983 TTTTTAAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 20
0.74 0.00 0.26
Matches are distributed among these distances:
9 6 0.10
10 2 0.03
11 2 0.03
12 19 0.33
13 11 0.19
14 18 0.31
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (11 bp):
AATATAATATT
Found at i:90939 original size:7 final size:7
Alignment explanation
Indices: 90903--90983 Score: 66
Period size: 7 Copynumber: 12.0 Consensus size: 7
90893 TAAAAACAAA
90903 AATAT-T
1 AATATAT
90909 AATAT-T
1 AATATAT
90915 AATA-AT
1 AATATAT
90921 AATATATAT
1 -A-ATATAT
*
90930 AATATGT
1 AATATAT
90937 AATATAT
1 AATATAT
90944 -ATAT-T
1 AATATAT
*
90949 AAAATAT
1 AATATAT
90956 AATATAT
1 AATATAT
*
90963 AGA-CTAT
1 A-ATATAT
90970 AATATAT
1 AATATAT
90977 AATATAT
1 AATATAT
90984 TTTTAAAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
5 1 0.02
6 19 0.31
7 34 0.56
8 5 0.08
9 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:90958 original size:19 final size:20
Alignment explanation
Indices: 90916--90999 Score: 79
Period size: 19 Copynumber: 4.4 Consensus size: 20
90906 ATTAATATTA
*
90916 ATAATA-ATATATATAATAT
1 ATAATATATATATATAAAAT
*
90935 GTAATATATATAT-TAAAAT
1 ATAATATATATATATAAAAT
* *
90954 ATAATATATAGACTATAATAT
1 ATAATATATATA-TATAAAAT
*
90975 ATAATATAT-T-TTTAAAA-
1 ATAATATATATATATAAAAT
90992 ATAATATA
1 ATAATATA
91000 CCTATTATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
17 8 0.15
18 5 0.09
19 20 0.37
20 7 0.13
21 14 0.26
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (20 bp):
ATAATATATATATATAAAAT
Found at i:91045 original size:27 final size:25
Alignment explanation
Indices: 91005--91070 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 25
90995 ATATACCTAT
*
91005 TATTATATA-TAAATGGTA-TATGTA
1 TATTATATATTAAAT-GTATTATATA
91029 CTATTATATATTCAAATGTATTATATA
1 -TATTATATATT-AAATGTATTATATA
91056 TATATATATATTAAA
1 TAT-TATATATTAAA
91071 AATACTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
25 9 0.25
26 10 0.28
27 17 0.47
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (25 bp):
TATTATATATTAAATGTATTATATA
Found at i:91400 original size:2 final size:2
Alignment explanation
Indices: 91395--91499 Score: 50
Period size: 2 Copynumber: 55.0 Consensus size: 2
91385 TTAGAGAGAG
*
91395 TA TA TA -A TA TA CTA TCA TA TA TA -A TA AA TA TA CTA TA -A TA
1 TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA -TA TA TA TA
* *
91435 TA TA -A AA T- TA -A TA TA T- TA TA TGA AA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
* *
91473 TA -A TA AA TA TA CTA TA -A TA AA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
91500 ATAAAATACT
Statistics
Matches: 79, Mismatches: 9, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
1 10 0.13
2 60 0.76
3 9 0.11
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (2 bp):
TA
Found at i:91424 original size:21 final size:19
Alignment explanation
Indices: 91395--91502 Score: 91
Period size: 21 Copynumber: 5.5 Consensus size: 19
91385 TTAGAGAGAG
91395 TATAT-AATATACTATCATA
1 TATATAAATATACTAT-ATA
91414 TATAATAAATATACTATA-A
1 TAT-ATAAATATACTATATA
*
91433 TATATAAA-ATTAATATAT-
1 TATATAAATA-TACTATATA
91451 TATATGAAATAATA-TATATA
1 TATAT-AAAT-ATACTATATA
91471 TATAATAAATATACTATAATA
1 TAT-ATAAATATACTAT-ATA
*
91492 AATATATAATA
1 TATATA-AATA
91503 AAATACTATT
Statistics
Matches: 75, Mismatches: 2, Indels: 22
0.76 0.02 0.22
Matches are distributed among these distances:
17 1 0.01
18 16 0.21
19 18 0.24
20 18 0.24
21 22 0.29
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.40
Consensus pattern (19 bp):
TATATAAATATACTATATA
Found at i:91477 original size:30 final size:29
Alignment explanation
Indices: 91429--91517 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 29
91419 TAAATATACT
* *
91429 ATAATATATAAAATTAATATATTATATGAA
1 ATAATATATATAA-TAATATAATATATGAA
91459 ATAATATATATATATAATA-AATATACT-ATA
1 ATAATATATATA-ATAATATAATATA-TGA-A
* *
91489 ATAA-ATATATAATAAAATACTAT-TGAA
1 ATAATATATATAATAATATAATATATGAA
91516 AT
1 AT
91518 TTGAAATAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
27 4 0.08
28 6 0.12
29 17 0.34
30 22 0.44
31 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (29 bp):
ATAATATATATAATAATATAATATATGAA
Found at i:91495 original size:34 final size:34
Alignment explanation
Indices: 91414--91499 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
91404 TACTATCATA
* *
91414 TATAATAAATATACTATAATATATAAAATTAATATAT
1 TATAATAAATA-A-TAT-ATATATAAAATAAATATAC
*
91451 TAT-ATGAAATAATATATATATATAATAAATATAC
1 TATAAT-AAATAATATATATATAAAATAAATATAC
91485 TATAATAAAT-ATATA
1 TATAATAAATAATATA
91500 ATAAAATACT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
33 5 0.11
34 23 0.52
35 5 0.11
36 3 0.07
37 8 0.18
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (34 bp):
TATAATAAATAATATATATATAAAATAAATATAC
Found at i:91496 original size:25 final size:26
Alignment explanation
Indices: 91459--91511 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
91449 ATTATATGAA
91459 ATAATATATATATATAATAAATATACT
1 ATAATATATATATATAATAAA-ATACT
91486 ATAATA-A-ATATATAATAAAATACT
1 ATAATATATATATATAATAAAATACT
91510 AT
1 AT
91512 TGAAATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.27
25 12 0.46
26 1 0.04
27 6 0.23
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (26 bp):
ATAATATATATATATAATAAAATACT
Found at i:91710 original size:24 final size:24
Alignment explanation
Indices: 91678--91735 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
91668 TATATTAAAT
91678 CATCATATTAGATGATATAATACA
1 CATCATATTAGATGATATAATACA
* *
91702 TATTATATTAGATGATATAATACA
1 CATCATATTAGATGATATAATACA
91726 CATCATATTA
1 CATCATATTA
91736 TCATTTTGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (24 bp):
CATCATATTAGATGATATAATACA
Found at i:101512 original size:12 final size:12
Alignment explanation
Indices: 101497--101536 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
101487 TAGAAGCTCG
101497 TTTATAAGTTCA
1 TTTATAAGTTCA
* * *
101509 TTTAGAAGCTCG
1 TTTATAAGTTCA
101521 TTTATAAGTTCA
1 TTTATAAGTTCA
101533 TTTA
1 TTTA
101537 GAAACTTGTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (12 bp):
TTTATAAGTTCA
Found at i:101517 original size:24 final size:24
Alignment explanation
Indices: 101485--101573 Score: 133
Period size: 24 Copynumber: 3.7 Consensus size: 24
101475 AACAATCTTG
101485 TTTAGAAGCTCGTTTATAAGTTCA
1 TTTAGAAGCTCGTTTATAAGTTCA
101509 TTTAGAAGCTCGTTTATAAGTTCA
1 TTTAGAAGCTCGTTTATAAGTTCA
* * *
101533 TTTAGAAACTTGTTTATAAGTTAA
1 TTTAGAAGCTCGTTTATAAGTTCA
* *
101557 TTGATAAGCTCGTTTAT
1 TTTAGAAGCTCGTTTAT
101574 TTTTTTTTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (24 bp):
TTTAGAAGCTCGTTTATAAGTTCA
Done.