Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003712.1 Hibiscus syriacus cultivar Beakdansim tig00007938_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: 84003
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:4165 original size:18 final size:19
Alignment explanation
Indices: 4142--4183 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
4132 GTAATAAAAT
*
4142 ATTAAAATAA-TAAAAGCG
1 ATTAAAATAAGTAAAAGCA
4160 ATT-AAATAAGTAAAAGCA
1 ATTAAAATAAGTAAAAGCA
4178 ATTAAA
1 ATTAAA
4184 GAAAAATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (19 bp):
ATTAAAATAAGTAAAAGCA
Found at i:9713 original size:18 final size:19
Alignment explanation
Indices: 9690--9731 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
9680 GTAATTAAAT
*
9690 ATTAAAATAA-TAAAAGCG
1 ATTAAAATAAGTAAAAGCA
9708 ATT-AAATAAGTAAAAGCA
1 ATTAAAATAAGTAAAAGCA
9726 ATTAAA
1 ATTAAA
9732 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (19 bp):
ATTAAAATAAGTAAAAGCA
Found at i:10171 original size:18 final size:18
Alignment explanation
Indices: 10148--10182 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10138 AAAGTCAATC
10148 TTTGATTTTGAAAAATAT
1 TTTGATTTTGAAAAATAT
10166 TTTGATTTTGAAAAATA
1 TTTGATTTTGAAAAATA
10183 AGCGCAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TTTGATTTTGAAAAATAT
Found at i:16215 original size:29 final size:30
Alignment explanation
Indices: 16167--16228 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
16157 ATTTTGGTTT
**
16167 CTAAACTTTTCAAAGTTTATACTTTAGCCA
1 CTAAACTTTTCAAAACTTATACTTTAGCCA
* *
16197 CTAAAC-TTTCAAAACTTATATTTTAGTCA
1 CTAAACTTTTCAAAACTTATACTTTAGCCA
16226 CTA
1 CTA
16229 GACAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (30 bp):
CTAAACTTTTCAAAACTTATACTTTAGCCA
Found at i:17186 original size:24 final size:24
Alignment explanation
Indices: 17159--17229 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
17149 ACCTTAAAAT
17159 TTTAAAATATATATAAAAGATAAA
1 TTTAAAATATATATAAAAGATAAA
* *
17183 TTT--AAT-TGAGAT--TA-A-AAA
1 TTTAAAATAT-ATATAAAAGATAAA
17201 TTTAAAATATATATAAAAGATAAA
1 TTTAAAATATATATAAAAGATAAA
17225 TTTAA
1 TTTAA
17230 TTGAGATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
18 6 0.17
19 1 0.03
20 7 0.20
21 2 0.06
22 7 0.20
23 1 0.03
24 11 0.31
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
TTTAAAATATATATAAAAGATAAA
Found at i:17198 original size:42 final size:42
Alignment explanation
Indices: 17152--17238 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
17142 ATAATTTACC
*
17152 TTAAAATTTTAAAATATATATAAAAGATAAATTTAATTGAGA
1 TTAAAAATTTAAAATATATATAAAAGATAAATTTAATTGAGA
17194 TTAAAAATTTAAAATATATATAAAAGATAAATTTAATTGAGA
1 TTAAAAATTTAAAATATATATAAAAGATAAATTTAATTGAGA
17236 TTA
1 TTA
17239 TATATAATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (42 bp):
TTAAAAATTTAAAATATATATAAAAGATAAATTTAATTGAGA
Found at i:18643 original size:22 final size:22
Alignment explanation
Indices: 18615--18660 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
18605 ACCGTAGAAA
*
18615 TTTTTATTGTATCATATAATTT
1 TTTTTATTGTATCATATAAATT
* *
18637 TTTTTATTGTCTTATATAAATT
1 TTTTTATTGTATCATATAAATT
18659 TT
1 TT
18661 GGTTTTTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTTTATTGTATCATATAAATT
Found at i:19993 original size:2 final size:2
Alignment explanation
Indices: 19986--20029 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
19976 ACTTGACCCG
19986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20028 AT
1 AT
20030 TTTTATTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28600 original size:17 final size:17
Alignment explanation
Indices: 28578--28612 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
28568 ACAACTCAAA
28578 TAGTTTTGGGATTAAAT
1 TAGTTTTGGGATTAAAT
28595 TAGTTTTGGGATTAAAT
1 TAGTTTTGGGATTAAAT
28612 T
1 T
28613 TTTATCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (17 bp):
TAGTTTTGGGATTAAAT
Found at i:29275 original size:13 final size:14
Alignment explanation
Indices: 29249--29278 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
29239 AGAAGCCCTG
29249 TAAAATCTATGATT
1 TAAAATCTATGATT
29263 TAAAATC-ATGATT
1 TAAAATCTATGATT
29276 TAA
1 TAA
29279 TTTGCTGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
TAAAATCTATGATT
Found at i:30580 original size:25 final size:26
Alignment explanation
Indices: 30531--30582 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
30521 TTTTTGCCCT
* * *
30531 TCTAAAATTTTTTAAGTTCGTCTCCC
1 TCTAAAATTTTATAAATTCGACTCCC
30557 TCTAAAATTTTATAAATTC-ACTCCC
1 TCTAAAATTTTATAAATTCGACTCCC
30582 T
1 T
30583 TTATCTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (26 bp):
TCTAAAATTTTATAAATTCGACTCCC
Found at i:31149 original size:11 final size:11
Alignment explanation
Indices: 31133--31186 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
31123 TTCCCCCTTG
31133 GTTTTATTTTT
1 GTTTTATTTTT
*
31144 GTTTTATGTTT
1 GTTTTATTTTT
*
31155 GCTTTATTTTT
1 GTTTTATTTTT
*
31166 ATTTTATTTTGT
1 GTTTTATTTT-T
*
31178 TTTTTATTT
1 GTTTTATTT
31187 ACGTTATCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
11 27 0.75
12 9 0.25
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.78
Consensus pattern (11 bp):
GTTTTATTTTT
Found at i:33385 original size:35 final size:36
Alignment explanation
Indices: 33334--33401 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
33324 TCCTGTTTGG
*
33334 ACTTGTTTTTTTAACTTT-ATCATATTTCTTTTTGAA
1 ACTTGTTTTTTGAACTTTGA-CATATTTCTTTTTGAA
33370 ACTTG-TTTTTGAACTTTGACATATTTCTTTTT
1 ACTTGTTTTTTGAACTTTGACATATTTCTTTTT
33402 ATGAGGATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
35 24 0.80
36 6 0.20
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.60
Consensus pattern (36 bp):
ACTTGTTTTTTGAACTTTGACATATTTCTTTTTGAA
Found at i:33830 original size:18 final size:18
Alignment explanation
Indices: 33807--33846 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
33797 AAGATTCCTT
33807 GACTTTCAAAAACACCTA
1 GACTTTCAAAAACACCTA
33825 GACTTTCAAAAACACCTA
1 GACTTTCAAAAACACCTA
33843 GACT
1 GACT
33847 ATAACAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.28, G:0.07, T:0.23
Consensus pattern (18 bp):
GACTTTCAAAAACACCTA
Found at i:34080 original size:95 final size:94
Alignment explanation
Indices: 33904--34158 Score: 352
Period size: 95 Copynumber: 2.7 Consensus size: 94
33894 AGATTATAAT
* * * * * * *
33904 ATTATATATAGAATAAAGCTTGAGCTATCCCTCTAAAGCAATTGGTTAAACGCCTCGGCTTTATT
1 ATTATATATACAATAAAGATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATG
* *
33969 GATAAGATTCAGCTAGCCTGATAAAGGTG
66 GATAAGATCCAACTAGCCTGATAAAGGTG
*
33998 ATTATAATATACAATAAAGATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACTCCCCGGCTTTAT
1 ATTAT-ATATACAATAAAGATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
*
34063 GGATAATATCCAACTAGCCTGATAAAGGTG
65 GGATAAGATCCAACTAGCCTGATAAAGGTG
* * * *
34093 ATTATA-ATACAAT-GATATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCTGCTTTATG
1 ATTATATATACAATAAAGATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATG
34156 GAT
66 GAT
34159 TCAGCTAGCC
Statistics
Matches: 144, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
92 48 0.33
93 7 0.05
94 6 0.04
95 83 0.58
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (94 bp):
ATTATATATACAATAAAGATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATG
GATAAGATCCAACTAGCCTGATAAAGGTG
Found at i:35321 original size:43 final size:43
Alignment explanation
Indices: 35205--35324 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 43
35195 ACGAATGAGC
*
35205 CATCCACGATTTCAACTCCACGA-AAGAGGATATCGTACCCACA
1 CATCCACGATTTCAACTCCACGATGA-AGGATATCGTACCCACA
* ** * * *
35248 AATCCATAATTTCAACTCCATGATGGAGGATATCGTTCCCACA
1 CATCCACGATTTCAACTCCACGATGAAGGATATCGTACCCACA
35291 CATCCACGATTTCAACTCCACGATGAAGGATATC
1 CATCCACGATTTCAACTCCACGATGAAGGATATC
35325 ATGCCTATCT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.23
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGATGAAGGATATCGTACCCACA
Found at i:35621 original size:124 final size:124
Alignment explanation
Indices: 35463--36049 Score: 816
Period size: 124 Copynumber: 4.7 Consensus size: 124
35453 CTCGAAATAT
*
35463 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * * * * * *
35528 CTACGGTTTTAATTTC-CTGACGAAGGGAATCATACTCACCAGTAACATTTATCTCTAGA
66 CCACGGTTTCAACTTCAC-GACGAAGGGAATCGTGCCCACCAGTAACATTCATCTTTAGA
* **
35587 TTGGATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAATAAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * * *
35652 CCACGGTTTCAACTTCATGACGAAGAGAATTGTGCTCACCAGTAACATTAATCTTTAGA
66 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCCCACCAGTAACATTCATCTTTAGA
* * *
35711 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGTTTAACTTCACAACGAATGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* *
35776 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCCCACCAGCAACATTCATCTTTATA
66 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCCCACCAGTAACATTCATCTTTAGA
* * * *
35835 TTGGATTTCAACTTCACGATGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAATGGGCCCT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
** * * *
35900 CCACAATTTCAACTTCACGATGAAGGGAATCGTGCCCACCAGTAACATTCATCTTCATA
66 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCCCACCAGTAACATTCATCTTTAGA
* * * * *
35959 TTGGATTTCAACTTCGCGATGAAGGATATTCAATTTAAGGCTCAACTTCACAACGAAGGGGCCCT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* *
36024 CAACGATTTCAACTTCACGACGAAGG
66 CCACGGTTTCAACTTCACGACGAAGG
36050 ATATTGTGTT
Statistics
Matches: 417, Mismatches: 45, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
124 417 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (124 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCCCACCAGTAACATTCATCTTTAGA
Found at i:36200 original size:84 final size:84
Alignment explanation
Indices: 36059--36622 Score: 644
Period size: 84 Copynumber: 6.7 Consensus size: 84
36049 GATATTGTGT
* * * * * * *
36059 TCATTTACAACACAACTCAATGCAAGAAGGGCTATTTGTCAACAAAATACCTTCGAGTTTGACTA
1 TCATTTACAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* *
36124 CGCTCAGCCCCAAGGCACA
66 CGCTCAGCTCAAAGGCACA
* * * *
36143 TCATTTACAATATAGTTCAAGGTAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTA
1 TCATTTACAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* * *
36208 CGTTCAGCTCCAAGGTACA
66 CGCTCAGCTCAAAGGCACA
* * * * * * *
36227 TCATTTACAGCATAACTTAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGACTA
1 TCATTTACAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* * *
36292 TGCTCAGCTCCAAGGCTCA
66 CGCTCAGCTCAAAGGCACA
* ** * * *
36311 TAATTTGTAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAATAAAAGACCTTCGAGTTCGACTA
1 TCATTTACAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* *
36376 CGCTCAGCTAAAAGGCATA
66 CGCTCAGCTCAAAGGCACA
* * * * * *
36395 TCATTTACAGCATAACTCAAGGCTATAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCAACTA
1 TCATTTACAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
36460 CGCTCAGCTCAAAGGCACA
66 CGCTCAGCTCAAAGGCACA
* * * * * * *
36479 TCATTTGCAGCATAGCTCAAGGCGATAAGGGATATCAT-CCAACAAAAGACCTTCAAGTTCGATT
1 TCATTTACAACATAGCTCAAGGCAAGAAGGGCTATC-TGCCAACAAAAGACCTTCGAGTTCGACT
*
36543 ACACTCAGCTCAAAGGCACA
65 ACGCTCAGCTCAAAGGCACA
* * * *
36563 TCATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAAATCTTCGAGTTC
1 TCATTTACAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTC
36623 AATTCCATTC
Statistics
Matches: 409, Mismatches: 69, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
83 1 0.00
84 407 1.00
85 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (84 bp):
TCATTTACAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCAAAGGCACA
Found at i:36340 original size:168 final size:168
Alignment explanation
Indices: 36059--36622 Score: 716
Period size: 168 Copynumber: 3.4 Consensus size: 168
36049 GATATTGTGT
* * * * * * * *
36059 TCATTTACAACACAACTCAATGCAAGAAGGGCTATTTGTCAACAAAATACCTTCGAGTTTGACTA
1 TCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* * * * * *
36124 CGCTCAGCCCCAAGGCACATCATTTACAATATAGTTCAAGGTAAGAAGGGCTATTTGCCAACAAA
66 CGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGATATTTGCCAACAAA
* * *
36189 AGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGTACA
131 AGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACA
* * * *
36227 TCATTTACAGCATAACTTAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGACTA
1 TCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* * * * * *
36292 TGCTCAGCTCCAAGGCTCATAATTTGTAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAATAAA
66 CGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGATATTTGCCAACAAA
* *
36357 AGACCTTCGAGTTCGACTACGCTCAGCTAAAAGGCATA
131 AGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACA
* * *
36395 TCATTTACAGCATAACTCAAGGCTATAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCAACTA
1 TCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* * * * *
36460 CGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCGATAAGGGATATCAT-CCAACAA
66 CGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGATAT-TTGCCAACAA
* * *
36524 AAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACA
130 AAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACA
* * * *
36563 TCATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAAATCTTCGAGTTC
1 TCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTC
36623 AATTCCATTC
Statistics
Matches: 342, Mismatches: 53, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
168 341 1.00
169 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (168 bp):
TCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGATATTTGCCAACAAA
AGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACA
Found at i:38477 original size:7 final size:7
Alignment explanation
Indices: 38465--38548 Score: 64
Period size: 7 Copynumber: 11.1 Consensus size: 7
38455 TATGTATATA
38465 TATTTTT
1 TATTTTT
38472 TA--TTT
1 TATTTTT
38477 TATTTTT
1 TATTTTT
38484 ATCATTTTT
1 -T-ATTTTT
* *
38493 TATTCTA
1 TATTTTT
38500 TATTTTT
1 TATTTTT
38507 ACTATTTTT
1 --TATTTTT
38516 TATTTTT
1 TATTTTT
38523 TATTATTATT
1 TA-T-TT-TT
38533 ATATTTTT
1 -TATTTTT
38541 TATTTTT
1 TATTTTT
38548 T
1 T
38549 TTCTTACATT
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
5 5 0.08
7 31 0.49
8 5 0.08
9 17 0.27
10 3 0.05
11 2 0.03
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (7 bp):
TATTTTT
Found at i:38489 original size:39 final size:40
Alignment explanation
Indices: 38446--38547 Score: 95
Period size: 41 Copynumber: 2.6 Consensus size: 40
38436 ATTAACTCTC
38446 TCATTATTATATGTATATATATTTT-T-TATTTTA-TTTTTA
1 TCATTATTATAT-TATATAT-TTTTATATATTTTATTTTTTA
* * *
38485 TCATT-TTTTATTCTATATTTTTACTATTTTTTATTTTTTA
1 TCATTATTATATTATATATTTTTA-TATATTTTATTTTTTA
* * *
38525 TTATTATTATATTTTTTATTTTT
1 TCATTATTATATTATATATTTTT
38548 TTTCTTACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
36 4 0.08
37 6 0.12
38 6 0.12
39 11 0.22
40 10 0.20
41 14 0.27
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.72
Consensus pattern (40 bp):
TCATTATTATATTATATATTTTTATATATTTTATTTTTTA
Found at i:38495 original size:16 final size:15
Alignment explanation
Indices: 38474--38547 Score: 71
Period size: 16 Copynumber: 4.7 Consensus size: 15
38464 ATATTTTTTA
38474 TTTTATTTTTATCATT
1 TTTTATTTTTAT-ATT
*
38490 TTTTA-TTCTATATT
1 TTTTATTTTTATATT
38504 TTTACTATTTTT-TATT
1 TTT--TATTTTTATATT
38520 TTTTATTATTATTATATT
1 TTTTA-T-TT-TTATATT
38538 TTTTATTTTT
1 TTTTATTTTT
38548 TTTCTTACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 8 0.16
15 8 0.16
16 18 0.37
17 6 0.12
18 9 0.18
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTATATT
Found at i:38503 original size:23 final size:21
Alignment explanation
Indices: 38465--38562 Score: 85
Period size: 21 Copynumber: 4.4 Consensus size: 21
38455 TATGTATATA
38465 TATTTTTTATTTTATTTTTA-
1 TATTTTTTATTTTATTTTTAC
38485 TCATTTTTTATTCTATATTTTTAC
1 T-ATTTTTTATT-T-TATTTTTAC
38509 TATTTTTTATTTTTTATTATTATTA-
1 TATTTTTTA--TTTTA-T-TT-TTAC
*
38534 TATTTTTTATTTTTTTTCTTAC
1 TATTTTTTATTTTATTT-TTAC
38556 -ATTTTTT
1 TATTTTTT
38563 CCTAATGCTT
Statistics
Matches: 66, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.02
21 22 0.33
22 2 0.03
23 22 0.33
24 3 0.05
25 13 0.20
26 3 0.05
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (21 bp):
TATTTTTTATTTTATTTTTAC
Found at i:38524 original size:17 final size:18
Alignment explanation
Indices: 38492--38542 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
38482 TTATCATTTT
*
38492 TTATTCTATATTTTTACTA
1 TTATTATAT-TTTTTACTA
* *
38511 TT-TTTTATTTTTTATTA
1 TTATTATATTTTTTACTA
38528 TTATTATATTTTTTA
1 TTATTATATTTTTTA
38543 TTTTTTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 10 0.36
18 16 0.57
19 2 0.07
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTATATTTTTTACTA
Found at i:38654 original size:23 final size:23
Alignment explanation
Indices: 38613--38656 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
38603 TATATTACCT
*
38613 TTTTATTTTATTATTTTTTTTGG
1 TTTTATTTTATTATCTTTTTTGG
38636 TTTTATTCTTATT-TCTTTTTT
1 TTTTATT-TTATTATCTTTTTT
38657 CTAGTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.80
Consensus pattern (23 bp):
TTTTATTTTATTATCTTTTTTGG
Found at i:38729 original size:11 final size:11
Alignment explanation
Indices: 38681--38728 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
38671 TTTTTCCTTG
38681 GTTTTATTTTT
1 GTTTTATTTTT
*
38692 GTTTTATGTTT
1 GTTTTATTTTT
*
38703 GCTTTATTTTT
1 GTTTTATTTTT
* *
38714 ATTTT-GTTTT
1 GTTTTATTTTT
38724 GTTTT
1 GTTTT
38729 TTTATTTACG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
10 8 0.27
11 22 0.73
ACGTcount: A:0.08, C:0.02, G:0.12, T:0.77
Consensus pattern (11 bp):
GTTTTATTTTT
Found at i:44325 original size:18 final size:18
Alignment explanation
Indices: 44302--44344 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
44292 ATTGTTTGAA
* *
44302 AAGATTGAAGTAAGTGAT
1 AAGATTGAAGTAAATAAT
* *
44320 AAGATTAAATTAAATAAT
1 AAGATTGAAGTAAATAAT
44338 AAGATTG
1 AAGATTG
44345 GACGTAAGGA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (18 bp):
AAGATTGAAGTAAATAAT
Found at i:46142 original size:80 final size:80
Alignment explanation
Indices: 46003--46457 Score: 707
Period size: 80 Copynumber: 5.7 Consensus size: 80
45993 TATAAGTCCT
* * * *
46003 TACGGACCTAAGGATATCTTGGGTAGGCCCCAAGGCATATCCTTAGGTTGGTTCTCTTTGCTGTG
1 TACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGTG
46068 TGCATAAGGTAACCC
66 TGCATAAGGTAACCC
* * *
46083 TACAGACCTAAGGATATCTTGGGTAGGTCCCAAGGCATATCCTTAGGTTGGTTCCCTTTGCTGTG
1 TACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGTG
46148 TGCATAAGGTAACCC
66 TGCATAAGGTAACCC
46163 TACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGTG
1 TACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGTG
46228 TGCATAAGGTAACCC
66 TGCATAAGGTAACCC
*
46243 TACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTGTGTTGTG
1 TACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGTG
46308 TGCATAAGGTAACCC
66 TGCATAAGGTAACCC
** * * *
46323 TACAAACCTAAGGATGTCTTAGGTAGG-CCCAAGGTATATCCTTAGGTTGGTTCCCTTAGTTGTG
1 TACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGTG
*
46387 TGCTTAAGGTAACCC
66 TGCATAAGGTAACCC
* * * * * *
46402 TATGGATCTCAGGATGTCCTTGGGTAGAT-CCAAGGTATATCCTTAGGTTGGCTCCC
1 TACGGACCTAAGGATAT-CTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCC
46458 CTTTTTGCTG
Statistics
Matches: 351, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
79 61 0.17
80 290 0.83
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (80 bp):
TACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGTG
TGCATAAGGTAACCC
Found at i:46635 original size:13 final size:13
Alignment explanation
Indices: 46617--46642 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46607 CCTCAAAAAG
46617 TCATACTATGAAT
1 TCATACTATGAAT
46630 TCATACTATGAAT
1 TCATACTATGAAT
46643 GCTTCCTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TCATACTATGAAT
Found at i:51670 original size:80 final size:80
Alignment explanation
Indices: 51536--51986 Score: 645
Period size: 80 Copynumber: 5.7 Consensus size: 80
51526 AGTCCTTACA
* * *
51536 GACCTAAAGATATCTTGGGTAGGCCCCAAGGCATATCCTTAGGTTGGTTCCCTTTGATGTGTGCA
1 GACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGATGTGTGCA
*
51601 TAAGGTAACCCTATG
66 TAAGGTAACCCTACG
* * *
51616 GACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTAGTTTCCTTTGTTGTGTGCA
1 GACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGATGTGTGCA
*
51681 TAAGGTAACCCTACA
66 TAAGGTAACCCTACG
* * *
51696 GACCTAAGAATATCCTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGCTGTGTGCA
1 GACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGATGTGTGCA
51761 TAAGGTAACCCTACG
66 TAAGGTAACCCTACG
* **
51776 GACCTAAGGATATCTTGGGTAGGTCCTAAGGTATATCCTTATATTGGTTCCCTTTGATGTGTGCA
1 GACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGATGTGTGCA
*
51841 TAAGGTAACCTTACG
66 TAAGGTAACCCTACG
* * * * *
51856 GACCTAAGGATGTCTTGGGTAGG-CCCAATGTATATCCTTAGGTTGGTTCCCTTAGCTGTGTGCT
1 GACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGATGTGTGCA
51920 TAAGGTAACCCTACG
66 TAAGGTAACCCTACG
* * * * * *
51935 GATCTAAGGATGTCCTTGAGTAGAT-CCAAGATATATCCTTAGGTTGGCTCCC
1 GACCTAAGGATAT-CTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCC
51987 CTTTTTGCTG
Statistics
Matches: 333, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
79 60 0.18
80 273 0.82
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (80 bp):
GACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGATGTGTGCA
TAAGGTAACCCTACG
Found at i:54124 original size:17 final size:18
Alignment explanation
Indices: 54083--54124 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
54073 GAAAGGTCAA
*
54083 AATTATTTTTCAAAACTTT
1 AATT-TTTTTCAAAACTCT
*
54102 ATTTTTTTTCAAAA-TCT
1 AATTTTTTTCAAAACTCT
54119 AATTTT
1 AATTTT
54125 GCTTTAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 7 0.35
18 10 0.50
19 3 0.15
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTTTTTCAAAACTCT
Found at i:54321 original size:32 final size:32
Alignment explanation
Indices: 54277--54337 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
54267 GAAAATACCA
* *
54277 TTGATTTTGAGTTCGATTCGAGCTTAACAATT
1 TTGATTTCGAGTTCGAATCGAGCTTAACAATT
* *
54309 TTGATTTCGAGTTTGAATCGATCTTAACA
1 TTGATTTCGAGTTCGAATCGAGCTTAACA
54338 TATTCGGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (32 bp):
TTGATTTCGAGTTCGAATCGAGCTTAACAATT
Found at i:55900 original size:16 final size:16
Alignment explanation
Indices: 55870--55910 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
55860 TAGATTATTT
*
55870 ATTAACATTATTTTAAA
1 ATTAA-ATTAATTTAAA
55887 ATTAAATTAATTTAAA
1 ATTAAATTAATTTAAA
*
55903 TTTAAATT
1 ATTAAATT
55911 GAAAGTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTAAATTAATTTAAA
Found at i:56149 original size:6 final size:6
Alignment explanation
Indices: 56140--56197 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
56130 TCGGGATCGT
* * ** *
56140 GTTTGG GTTTGG TTTTAG GTTTGG GTTTGG GTTTGG GTTAAG GTTAGG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
*
56188 GTTAGG GTTT
1 GTTTGG GTTT
56198 TATCTAAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.09, C:0.00, G:0.43, T:0.48
Consensus pattern (6 bp):
GTTTGG
Found at i:56178 original size:18 final size:18
Alignment explanation
Indices: 56077--56197 Score: 64
Period size: 18 Copynumber: 6.8 Consensus size: 18
56067 GGATTCGAGC
* * *
56077 TTGGATTTGGGTTCGGAT
1 TTGGGTTTGGGTTTGGGT
* * *
56095 TCGGGTTTGAGTTTGAG-
1 TTGGGTTTGGGTTTGGGT
* * *
56112 TTGGGTTCGGGTTTAGGA
1 TTGGGTTTGGGTTTGGGT
* * * *
56130 TCGGGATCGTGTTTGGGT
1 TTGGGTTTGGGTTTGGGT
* *
56148 TTGGTTTTAGGTTTGGGT
1 TTGGGTTTGGGTTTGGGT
**
56166 TTGGGTTTGGGTTAAGGT
1 TTGGGTTTGGGTTTGGGT
* *
56184 TAGGGTTAGGGTTT
1 TTGGGTTTGGGTTT
56198 TATCTAAACA
Statistics
Matches: 73, Mismatches: 29, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
17 12 0.16
18 61 0.84
ACGTcount: A:0.10, C:0.04, G:0.42, T:0.44
Consensus pattern (18 bp):
TTGGGTTTGGGTTTGGGT
Found at i:56972 original size:61 final size:60
Alignment explanation
Indices: 56890--57016 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 60
56880 GTCTCCTAGT
* ** *
56890 TTTAAATTTATTCAATTTAGTCCTAATTTAAAGATGTAACATATTAATTTAAGCTTCATA
1 TTTAAATTTATTCAATTTAGTCCAAATTTAAAGATACAACATATTAATTTAAGCATCATA
* * * * **
56950 TTTAAATTTTTTTTAATTTAGTCCAAATTTAATGTTACAATTTATTAATTTAAGCATCATA
1 TTTAAA-TTTATTCAATTTAGTCCAAATTTAAAGATACAACATATTAATTTAAGCATCATA
57011 TTTAAA
1 TTTAAA
57017 AAAAATTCAA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 6 0.11
61 50 0.89
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.48
Consensus pattern (60 bp):
TTTAAATTTATTCAATTTAGTCCAAATTTAAAGATACAACATATTAATTTAAGCATCATA
Found at i:57118 original size:18 final size:18
Alignment explanation
Indices: 57086--57224 Score: 105
Period size: 18 Copynumber: 7.9 Consensus size: 18
57076 TTAAAATTAA
*
57086 TATATATGTTATATATATAT
1 TATATA-GTT-TATATATAC
57106 TATATAGTTTATATATA-
1 TATATAGTTTATATATAC
** *
57123 T-TA-A-TGAACTATATAA
1 TATATAGTTTA-TATATAC
*
57139 TGTATAGTTTATATATAC
1 TATATAGTTTATATATAC
57157 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
57175 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
57190 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
57208 CATATACTTTATATATA
1 TATATAGTTTATATATA
57225 TAGTTTTTAT
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.03
15 15 0.15
16 6 0.06
17 6 0.06
18 55 0.57
19 6 0.06
20 6 0.06
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:57119 original size:51 final size:51
Alignment explanation
Indices: 57083--57225 Score: 205
Period size: 51 Copynumber: 2.8 Consensus size: 51
57073 ATATTAAAAT
* *
57083 TAATATATATGTTATATATATATTATATAGTTTATATATATTAATGAACTATA
1 TAATATATA-GTT-TATATATACTATATAGTTTATATATATTAATGAACAATA
* * *
57136 TAATGTATAGTTTATATATACTATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTATATAGTTTATATATATTAATGAACAATA
* *
57187 TAATATATAGTTTATATATACCATATACTTTATATATAT
1 TAATATATAGTTTATATATACTATATAGTTTATATATAT
57226 AGTTTTTATA
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 72 0.87
52 3 0.04
53 8 0.10
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.48
Consensus pattern (51 bp):
TAATATATAGTTTATATATACTATATAGTTTATATATATTAATGAACAATA
Found at i:57224 original size:31 final size:31
Alignment explanation
Indices: 57150--57237 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 31
57140 GTATAGTTTA
*
57150 TATATACTATATAGTTTATATATACTAATGAAC
1 TATATA-TATATAGTTTATATATACCAAT-AAC
57183 TATATAATATATAGTTTATATATACC-ATATAC
1 TATAT-ATATATAGTTTATATATACCAATA-AC
* *
57215 TTTATATATATAGTTTTTATATA
1 TATATATATATAGTTTATATATA
57238 TAGTTCATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
31 18 0.36
32 8 0.16
33 23 0.46
34 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.48
Consensus pattern (31 bp):
TATATATATATAGTTTATATATACCAATAAC
Found at i:57240 original size:13 final size:13
Alignment explanation
Indices: 57209--57247 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
57199 TATATATACC
*
57209 ATATACTTTATAT
1 ATATAGTTTATAT
*
57222 ATATAGTTTTTAT
1 ATATAGTTTATAT
*
57235 ATATAGTTCATAT
1 ATATAGTTTATAT
57248 GCAAAAGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (13 bp):
ATATAGTTTATAT
Found at i:57375 original size:15 final size:15
Alignment explanation
Indices: 57360--57394 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
57350 TACTTTGAAT
57360 TTATAT-AGTATAAA
1 TTATATAAGTATAAA
57374 TTATATAAGTATAAA
1 TTATATAAGTATAAA
57389 TTATAT
1 TTATAT
57395 TATATAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (15 bp):
TTATATAAGTATAAA
Found at i:57393 original size:27 final size:27
Alignment explanation
Indices: 57363--57434 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
57353 TTTGAATTTA
* * *
57363 TATAGTATAAATTATATAAGTATAAAT
1 TATAGTATAAAGTATATAAATATAAAC
* * *
57390 TATATTATATAGTATATAAATATCAAC
1 TATAGTATAAAGTATATAAATATAAAC
* *
57417 TATAGTATATAGTTTATA
1 TATAGTATAAAGTATATA
57435 TAGTTTTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (27 bp):
TATAGTATAAAGTATATAAATATAAAC
Found at i:57577 original size:18 final size:18
Alignment explanation
Indices: 57554--57588 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57544 AACAATAGTT
*
57554 TATATACATAGTATATAC
1 TATATAAATAGTATATAC
*
57572 TATATAAATAGTTTATA
1 TATATAAATAGTATATA
57589 TAGTTCATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (18 bp):
TATATAAATAGTATATAC
Found at i:57690 original size:2 final size:2
Alignment explanation
Indices: 57683--57802 Score: 84
Period size: 2 Copynumber: 58.5 Consensus size: 2
57673 ACTATTAAAC
* ** *
57683 TA TA TA TA T- TA TA TA GTT TA TA TA TA TA GG TA TA TA TA GTT TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
57726 TA CA TA TA GT- TCA TA TG TA AA CTA TA TA -A TA TA TA TA GTT TA
1 TA TA TA TA -TA T-A TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA
*
57768 AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57803 TCTAGTTGTT
Statistics
Matches: 91, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
1 3 0.03
2 82 0.90
3 6 0.07
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (2 bp):
TA
Found at i:57718 original size:14 final size:13
Alignment explanation
Indices: 57471--57799 Score: 91
Period size: 13 Copynumber: 24.9 Consensus size: 13
57461 AACTATACTA
57471 TATAGTATATATAG
1 TATA-TATATATAG
* *
57485 TTTATATATATAA
1 TATATATATATAG
57498 TATATA-ATATA-
1 TATATATATATAG
*
57509 TAAATATCAACTATAG
1 TATATAT--A-TATAG
*
57525 TATGTAGTATATA-
1 TATATA-TATATAG
* * *
57538 AATATAAACAATAG
1 TATATATA-TATAG
* *
57552 TTTATATACATAG
1 TATATATATATAG
57565 TATATACTATATA-
1 TATATA-TATATAG
* *
57578 AATAGTTTATATAG
1 TATA-TATATATAG
*
57592 TTCATTAATAAACTATA-
1 -T-A-T-ATATA-TATAG
*
57609 TATATAGTTTATACG
1 TATATA-TATATA-G
57624 TA-A-ACTATATAG
1 TATATA-TATATAG
*
57636 TTTATATATATAG
1 TATATATATATAG
57649 T-TCATATATATAG
1 TAT-ATATATATAG
* * *
57662 T-TCATATGTAAAC
1 TAT-ATATATATAG
*
57675 TAT-TAAACTATA-
1 TATATATA-TATAG
57687 TATAT-TATATAG
1 TATATATATATAG
57699 T-T-TATATATA-
1 TATATATATATAG
**
57709 TAGGTATATATAG
1 TATATATATATAG
* *
57722 TTTATACATATAG
1 TATATATATATAG
* *
57735 TTCATATGTAAACTA-
1 -T-ATATATATA-TAG
57750 TATAATATATATAG
1 TAT-ATATATATAG
* *
57764 TTTAAATATATA-
1 TATATATATATAG
57776 TATATATATATA-
1 TATATATATATAG
57788 TATATATATATA
1 TATATATATATA
57800 TATTCTAGTT
Statistics
Matches: 232, Mismatches: 48, Indels: 72
0.66 0.14 0.20
Matches are distributed among these distances:
10 2 0.01
11 16 0.07
12 46 0.20
13 106 0.46
14 32 0.14
15 13 0.06
16 8 0.03
17 4 0.02
18 5 0.02
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.44
Consensus pattern (13 bp):
TATATATATATAG
Found at i:57761 original size:29 final size:29
Alignment explanation
Indices: 57724--57791 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
57714 ATATATAGTT
* * *
57724 TATACATATAGTTCATATGTAAACTATATA
1 TATATATATAGTTCAAATATAAA-TATATA
* *
57754 -ATATATATAGTTTAAATATATATATATA
1 TATATATATAGTTCAAATATAAATATATA
57782 TATATATATA
1 TATATATATA
57792 TATATATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (29 bp):
TATATATATAGTTCAAATATAAATATATA
Found at i:57809 original size:73 final size:71
Alignment explanation
Indices: 57417--57802 Score: 231
Period size: 73 Copynumber: 5.4 Consensus size: 71
57407 AAATATCAAC
* * *
57417 TATAGTATATAGTTTATATAGTTTTTATGTATAGTTCATATGTAAACTATACTATATAGTATATA
1 TATA-TATATA-TATATATAG-TTATATATATAGTTCATATGTAAAC--TA-T-TA-A-TATATA
57482 TAGTTTATATATATAA
57 TAGTTTATATATAT-A
* ** * *
57498 TATATAATATATAAATATCAACTATAGTATGTAG-T-ATA--TAAA-TA-TAA-ACA-ATAGTTT
1 TATAT-ATATATATATAT-AGTTATA-TATATAGTTCATATGTAAACTATTAATATATATAGTTT
*
57555 ATATACATA
63 ATATATATA
*
57564 GTATATACTATATA-A-ATAG-T-T-TATATAGTTCAT-TAATAAAC---T-ATATATATAGTTT
1 -TATATA-TATATATATATAGTTATATATATAGTTCATAT-GTAAACTATTAATATATATAGTTT
** *
57619 ATACGTAAA
63 ATATATATA
*
57628 CTATATAGTTTATATATATAGTTCATATATATAGTTCATATGTAAACTATTAA-ACTATATA-TA
1 -TATATA-TATATATATATAGTT-ATATATATAGTTCATATGTAAACTATTAATA-TATATAGT-
*
57691 TTATATAGTTTA
61 TTATATA-TATA
** *
57703 TATATATAGGTATATATAGTTTATACATATAGTTCATATGTAAACTATATAATATATATAGTTTA
1 TATATATATATATATATAG-TTATATATATAGTTCATATGTAAACTAT-TAATATATATAGTTTA
*
57768 AATATATA
64 TATATATA
57776 TATATATATATATATATA--TATATATAT
1 TATATATATATATATATAGTTATATATAT
57803 TCTAGTTGTT
Statistics
Matches: 241, Mismatches: 33, Indels: 73
0.69 0.10 0.21
Matches are distributed among these distances:
60 6 0.02
61 1 0.00
62 4 0.02
63 4 0.02
64 28 0.12
65 3 0.01
66 7 0.03
67 26 0.11
68 2 0.01
69 1 0.00
70 26 0.11
71 3 0.01
73 57 0.24
74 37 0.15
75 4 0.02
77 4 0.02
79 3 0.01
80 10 0.04
81 15 0.06
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (71 bp):
TATATATATATATATATAGTTATATATATAGTTCATATGTAAACTATTAATATATATAGTTTATA
TATATA
Found at i:59525 original size:21 final size:21
Alignment explanation
Indices: 59499--59543 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
59489 TTAATTATTT
59499 TAAAAAA-ATTAAATAAAAATA
1 TAAAAAATATTAAATAAAAA-A
*
59520 TAAAAAATATTTAATAAAAAA
1 TAAAAAATATTAAATAAAAAA
59541 TAA
1 TAA
59544 TTTTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAAAAATATTAAATAAAAAA
Found at i:59525 original size:22 final size:21
Alignment explanation
Indices: 59500--59543 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
59490 TAATTATTTT
59500 AAAAAAATTAAATAAAAATATA
1 AAAAAAATTAAATAAAAA-ATA
* *
59522 AAAAATATTTAATAAAAAATA
1 AAAAAAATTAAATAAAAAATA
59543 A
1 A
59544 TTTTTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAAAATTAAATAAAAAATA
Found at i:61109 original size:45 final size:45
Alignment explanation
Indices: 61027--61149 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 45
61017 CGCTGTTATG
* * * * *
61027 CTCCGTCTCCAACACCAGATCATCA---GAAGCCGTTGCTGATGT
1 CTCCGTCACCAACACCGGATCATCATCTCAAGCCGTTGCTGAAGC
*
61069 CTCCGTCGCCAACACCGGATCATCATCTCAAGCCGTTGCTGAAGC
1 CTCCGTCACCAACACCGGATCATCATCTCAAGCCGTTGCTGAAGC
* *
61114 CTCCGTCACCAACACCGAATCATCTTCTCAAGCCGT
1 CTCCGTCACCAACACCGGATCATCATCTCAAGCCGT
61150 AGCTCAAAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 23 0.33
45 47 0.67
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (45 bp):
CTCCGTCACCAACACCGGATCATCATCTCAAGCCGTTGCTGAAGC
Found at i:61167 original size:45 final size:45
Alignment explanation
Indices: 61069--61167 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
61059 TTGCTGATGT
* * * * **
61069 CTCCGTCGCCAACACCGGATCATCATCTCAAGCCGTTGCTGAAGC
1 CTCCGTCACCAACACCGAATCATCATCTCAAGCCGTAGCTCAAAA
*
61114 CTCCGTCACCAACACCGAATCATCTTCTCAAGCCGTAGCTCAAAA
1 CTCCGTCACCAACACCGAATCATCATCTCAAGCCGTAGCTCAAAA
*
61159 CTCTGTCAC
1 CTCCGTCAC
61168 GCCGATCCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.25, C:0.38, G:0.15, T:0.21
Consensus pattern (45 bp):
CTCCGTCACCAACACCGAATCATCATCTCAAGCCGTAGCTCAAAA
Found at i:63305 original size:11 final size:12
Alignment explanation
Indices: 63281--63307 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63271 CAATAAAACA
63281 TTAAAAATATTT
1 TTAAAAATATTT
63293 TTAAAAATATTT
1 TTAAAAATATTT
63305 TTA
1 TTA
63308 TATATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTAAAAATATTT
Found at i:65408 original size:17 final size:18
Alignment explanation
Indices: 65386--65421 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
65376 TCCAAATTTG
*
65386 TTTTTATTTTATTT-TAT
1 TTTTTATATTATTTATAT
65403 TTTTTATATTATTTATAT
1 TTTTTATATTATTTATAT
65421 T
1 T
65422 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATATTATTTATAT
Found at i:65417 original size:9 final size:9
Alignment explanation
Indices: 65388--65439 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
65378 CAAATTTGTT
*
65388 TTTATTTTA
1 TTTATATTA
*
65397 TTT-TATTT
1 TTTATATTA
65405 TTTATATTA
1 TTTATATTA
65414 TTTATATTA
1 TTTATATTA
*
65423 TATATATATA
1 TTTATAT-TA
*
65433 TATATAT
1 TTTATAT
65440 ATAGTATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
8 6 0.16
9 22 0.59
10 9 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTATATTA
Found at i:65426 original size:2 final size:2
Alignment explanation
Indices: 65407--65447 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
65397 TTTTATTTTT
*
65407 TA TA T- TA TT TA TA T- TA TA TA TA TA TA TA TA TA TA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
65448 ATTTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 2 0.06
2 30 0.88
3 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:65548 original size:33 final size:33
Alignment explanation
Indices: 65511--65591 Score: 135
Period size: 33 Copynumber: 2.4 Consensus size: 33
65501 TTTCGAAAAT
*
65511 ATATATATTATATAGTTTTGAAAACATTTTAAA
1 ATATATATTATATAGTTTTGAAAACATTTGAAA
65544 ATATATATTATATAGTTTTGAAAACATTTGAAA
1 ATATATATTATATAGTTTTGAAAACATTTGAAA
*
65577 ACATATATATATATA
1 ATATATAT-TATATA
65592 TATATATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 39 0.87
34 6 0.13
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (33 bp):
ATATATATTATATAGTTTTGAAAACATTTGAAA
Found at i:65601 original size:159 final size:164
Alignment explanation
Indices: 65421--65721 Score: 419
Period size: 159 Copynumber: 1.9 Consensus size: 164
65411 TTATTTATAT
* *
65421 TATATATATATATATATATATAGTATAATTTTTAAAAATATTTTTTGAAAA-A-ATATAATATAT
1 TATATATATATATATATATATAATATAATTTTTAAAAACA--TTTTGAAAACATATATAATATAT
*
65484 AATTTTTAGAAA-GTGGTTTTCG-A-A-A-ATATATATAT-T-ATATAG-TTTTGAAAACATTTT
64 AA-TTTTA-AAACAT--TTTT-GAATATATATATATATATATAATATAGTTTTTGAAAACATTTT
65541 AAA-ATATATAT-TATATAGTTTTGAAAACATTTGAAAACA
124 AAATATATATATATATATAGTTTTGAAAACATTTGAAAACA
*
65580 TATATATATATATATATATATAATATAGTTTTTAAAAACATTTTGAAAACATATATAATATATAA
1 TATATATATATATATATATATAATATAATTTTTAAAAACATTTTGAAAACATATATAATATATAA
65645 TTTTAAAACATTTTTGAATATATATATATATATATAATATAGTTTTTGAAAACATTTTAAATATA
66 TTTTAAAACATTTTTGAATATATATATATATATATAATATAGTTTTTGAAAACATTTTAAATATA
65710 TATATATATATA
131 TATATATATATA
65722 TATATATATA
Statistics
Matches: 126, Mismatches: 4, Indels: 19
0.85 0.03 0.13
Matches are distributed among these distances:
155 1 0.01
156 5 0.04
157 13 0.10
158 8 0.06
159 60 0.48
160 1 0.01
161 6 0.05
162 18 0.14
163 8 0.06
164 6 0.05
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (164 bp):
TATATATATATATATATATATAATATAATTTTTAAAAACATTTTGAAAACATATATAATATATAA
TTTTAAAACATTTTTGAATATATATATATATATATAATATAGTTTTTGAAAACATTTTAAATATA
TATATATATATAGTTTTGAAAACATTTGAAAACA
Found at i:65628 original size:51 final size:48
Alignment explanation
Indices: 65544--65643 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 48
65534 ACATTTTAAA
* *
65544 ATATATATTATATAGTTTTGAAAACATTTGAAAACATATATATATATAT
1 ATATATATAATATAGTTTTAAAAACATTTGAAAACATATATA-ATATAT
65593 ATATATATAATATAGTTTTTAAAAACATTTTGAAAACATATATAATATAT
1 ATATATATAATATAG-TTTTAAAAACA-TTTGAAAACATATATAATATAT
65643 A
1 A
65644 ATTTTAAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
49 14 0.30
50 17 0.36
51 16 0.34
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (48 bp):
ATATATATAATATAGTTTTAAAAACATTTGAAAACATATATAATATAT
Found at i:65634 original size:49 final size:47
Alignment explanation
Indices: 65544--65643 Score: 139
Period size: 49 Copynumber: 2.1 Consensus size: 47
65534 ACATTTTAAA
* *
65544 ATATATATTATATAGTTTTGAAAACATTTGAAAACATATATATATATAT
1 ATATATATAATATAGTTTTAAAAACATTTGAAAACA-ATATATA-ATAT
65593 ATATATATAATATAGTTTTTAAAAACATTTTGAAAAC-ATATATAATAT
1 ATATATATAATATAG-TTTTAAAAACA-TTTGAAAACAATATATAATAT
65641 ATA
1 ATA
65644 ATTTTAAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
48 7 0.15
49 21 0.45
50 10 0.21
51 9 0.19
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (47 bp):
ATATATATAATATAGTTTTAAAAACATTTGAAAACAATATATAATAT
Found at i:65643 original size:37 final size:36
Alignment explanation
Indices: 65591--65837 Score: 153
Period size: 36 Copynumber: 6.8 Consensus size: 36
65581 ATATATATAT
65591 ATATATATATAATATAGTTTTTAAAAACATTTTGAAAAC
1 ATATATA-AT-ATATAGTTTTT-AAAACATTTTGAAAAC
* *
65630 ATATATAATATATA-ATTTTAAAACATTTTTGAATATATAT
1 ATATATAATATATAGTTTTTAAAACA-TTTTG-A-A-A-AC
65670 ATATATATATAATATAGTTTTTGAAAACATTTT---AA-
1 ATATATA-AT-ATATAGTTTTT-AAAACATTTTGAAAAC
* * * * * *
65705 ATATAT-ATATATA---TAT-ATATA-TAT--ATAT
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAAC
65733 ATATAT-ATATATAGTTTTTTAAAACATTTTTGAAAAC
1 ATATATAATATATAG-TTTTTAAAACA-TTTTGAAAAC
* * *
65770 ATATATATTATATTGTTTTTAAAACGTTTTGAAAAC
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAAC
*
65806 ATATATATATAATATAGTTTTGAAAACATTTT
1 ATATATA-AT-ATATAGTTTTTAAAACATTTT
65838 TTATATAATA
Statistics
Matches: 164, Mismatches: 21, Indels: 47
0.71 0.09 0.20
Matches are distributed among these distances:
26 2 0.01
27 4 0.02
28 13 0.08
29 2 0.01
32 7 0.04
33 5 0.03
35 14 0.09
36 27 0.16
37 26 0.16
38 27 0.16
39 8 0.05
40 8 0.05
41 2 0.01
42 5 0.03
43 8 0.05
44 6 0.04
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (36 bp):
ATATATAATATATAGTTTTTAAAACATTTTGAAAAC
Found at i:65712 original size:2 final size:2
Alignment explanation
Indices: 65705--65745 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
65695 AACATTTTAA
65705 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
65746 GTTTTTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:65788 original size:38 final size:38
Alignment explanation
Indices: 65591--65723 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 38
65581 ATATATATAT
65591 ATATATATATAATATAGTTTTTAAAAACA-TTTTGAAAAC
1 ATATATATAT-ATATAGTTTTT-AAAACATTTTTGAAAAC
* *
65630 ATATATA-ATATATA-ATTTTAAAACATTTTTGAATATATAT
1 ATATATATATATATAGTTTTTAAAACATTTTTG-A-A-A-AC
*
65670 ATATATATATAATATAGTTTTTGAAAACA-TTTT-AAATAT
1 ATATATATAT-ATATAGTTTTT-AAAACATTTTTGAAA-AC
65709 ATATATATATATATA
1 ATATATATATATATA
65724 TATATATATA
Statistics
Matches: 82, Mismatches: 3, Indels: 19
0.79 0.03 0.18
Matches are distributed among these distances:
35 6 0.07
36 9 0.11
37 6 0.07
38 8 0.10
39 22 0.27
40 9 0.11
41 3 0.04
42 5 0.06
43 8 0.10
44 6 0.07
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (38 bp):
ATATATATATATATAGTTTTTAAAACATTTTTGAAAAC
Found at i:65812 original size:38 final size:38
Alignment explanation
Indices: 65729--65837 Score: 141
Period size: 38 Copynumber: 2.8 Consensus size: 38
65719 ATATATATAT
65729 ATATATATATATATATAGTTTTTTAAAACATTTTTGAAAAC
1 ATATATATAT-TATATAG-TTTTTAAAACA-TTTTGAAAAC
* *
65770 --ATATATATTATATTGTTTTTAAAACGTTTTGAAAAC
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAAAC
* *
65806 ATATATATATAATATAGTTTTGAAAACATTTT
1 ATATATATATTATATAGTTTTTAAAACATTTT
65838 TTATATAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
36 10 0.17
37 10 0.17
38 32 0.53
39 8 0.13
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (38 bp):
ATATATATATTATATAGTTTTTAAAACATTTTGAAAAC
Found at i:65825 original size:27 final size:28
Alignment explanation
Indices: 65795--65849 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
65785 TTTTTAAAAC
65795 GTTTTGAAAACA-TATATATATAATATA
1 GTTTTGAAAACATTATATATATAATATA
* *
65822 GTTTTGAAAACATTTTTTATATAATATA
1 GTTTTGAAAACATTATATATATAATATA
65850 TAGTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (28 bp):
GTTTTGAAAACATTATATATATAATATA
Found at i:65848 original size:140 final size:138
Alignment explanation
Indices: 65579--65851 Score: 398
Period size: 140 Copynumber: 2.0 Consensus size: 138
65569 ATTTGAAAAC
65579 ATATATATATATATATATATATAATATAGTTTTTAAAAACATTTTGAAAACATATATAATATATA
1 ATATATATATATATATATATATAATATAGTTTTTAAAAACATTTTGAAAACATATATAATATATA
* *
65644 ATTTTAAAACATTTTTGAATATATATATATATATATAATATAGTTTTTGAAAACATTTTAAATAT
66 ATTTTAAAACAGTTTTGAATATATACATATATATATAATATAGTTTTTGAAAACATTTTAAATAT
65709 ATATATAT
131 ATATATAT
* *
65717 ATATATATATATATATATATATATATATAGTTTTTTAAAACATTTTTGAAAACATATATATTATA
1 ATATATATATATATATATATATA-ATATAGTTTTTAAAAACA-TTTTGAAAACATATATAATATA
** **
65782 TTGTTTTTAAAAC-GTTTTG-A-A-A-ACATATATATATAATATAG-TTTTGAAAACATTTTTTA
64 -TAATTTTAAAACAGTTTTGAATATATACATATATATATAATATAGTTTTTGAAAACATTTTAAA
65841 TATA-ATATAT
128 TATATATATAT
65851 A
1 A
65852 GTTTTTATAT
Statistics
Matches: 124, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
134 7 0.06
135 20 0.16
136 18 0.15
137 1 0.01
138 24 0.19
139 18 0.15
140 26 0.21
141 10 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (138 bp):
ATATATATATATATATATATATAATATAGTTTTTAAAAACATTTTGAAAACATATATAATATATA
ATTTTAAAACAGTTTTGAATATATACATATATATATAATATAGTTTTTGAAAACATTTTAAATAT
ATATATAT
Found at i:67043 original size:22 final size:22
Alignment explanation
Indices: 67018--67066 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
67008 TTTCCTTTTT
67018 ATTTATTATTATTTT-TTAATTC
1 ATTT-TTATTATTTTATTAATTC
* * *
67040 ATTTTTCTTTTTTTATTATTTC
1 ATTTTTATTATTTTATTAATTC
67062 ATTTT
1 ATTTT
67067 CACTAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (22 bp):
ATTTTTATTATTTTATTAATTC
Found at i:67060 original size:17 final size:17
Alignment explanation
Indices: 66997--67060 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 17
66987 CTTTCTGTTA
* *
66997 TTTTTGTTATTTTTC-C
1 TTTTTATTATTTTTCTT
* *
67013 TTTTTATTTATTATTATT
1 TTTTTA-TTATTTTTCTT
*
67031 TTTTAATTCATTTTTCTT
1 TTTTTATT-ATTTTTCTT
67049 TTTTTATTATTT
1 TTTTTATTATTT
67061 CATTTTCACT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
16 5 0.14
17 13 0.35
18 19 0.51
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTATTATTTTTCTT
Found at i:67157 original size:23 final size:23
Alignment explanation
Indices: 67131--67174 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
67121 TGTTTAGCCT
*
67131 TTTTCTTCTCTTTTTATTTAATA
1 TTTTCTTATCTTTTTATTTAATA
* *
67154 TTTTTTTATTTTTTTATTTAA
1 TTTTCTTATCTTTTTATTTAA
67175 CATTATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTCTTATCTTTTTATTTAATA
Found at i:67192 original size:26 final size:23
Alignment explanation
Indices: 67141--67193 Score: 61
Period size: 26 Copynumber: 2.2 Consensus size: 23
67131 TTTTCTTCTC
* *
67141 TTTTTATTTAATATTTTTTTATT
1 TTTTTATTTAATATTTTTTGACT
67164 TTTTTATTTAACATTATTTTTTGACT
1 TTTTTATTT-A-A-TATTTTTTGACT
67190 TTTT
1 TTTT
67194 CAGTAGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.36
24 1 0.04
25 1 0.04
26 14 0.56
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTTATTTAATATTTTTTGACT
Found at i:67255 original size:12 final size:12
Alignment explanation
Indices: 67238--67267 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
67228 TCGAATTGGG
*
67238 TAATTTAAGTTT
1 TAATTTAAATTT
67250 TAATTTAAATTT
1 TAATTTAAATTT
67262 TAATTT
1 TAATTT
67268 TTGCGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:73089 original size:255 final size:255
Alignment explanation
Indices: 72623--73092 Score: 683
Period size: 255 Copynumber: 1.8 Consensus size: 255
72613 TCTCCCAGCA
* *
72623 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACCAAAACCTTCGAGTTTGATTACA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGAGTTCGATTACA
* ** *
72688 TTCAACTCAAAGGCATATCAAATTTACAGTATAGTTCAAGGCGGGAAGGGTTATCTGTCAACCAA
66 TTCAACTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAA
* *
72753 AACCTTCGAGTTCGATTACATTCAACTCAAGGATATATCAAATTTACAACATAGCTCAAGGCGAG
131 AACCTTCGAGTTCGATTACATTCAACTCAAGGACATATCAAATTTACAACATAGCTCAAGGAGAG
* *
72818 AAGGGTTATTTGTCAACAAAAACCTTCGAGTTTGATTACATTCAGCTCAAAGACATATCG
196 AAGGGCTATCTGTCAACAAAAACCTTCGAGTTTGATTACATTCAGCTCAAAGACATATCG
* * * * *
72878 AATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAATAAAAACCTTTGAGTTCGATTTCA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGAGTTCGATTACA
* * * *
72943 TTCAGCTC-AAGGACATATCCAATTTACAGCATAACTCAAGGCGATAATGGTTATCTGTCAA-CA
66 TTCAACTCAAAGG-CATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCA
* * * ** *
73006 AATACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATGTCAAATTTGTAGCATAGCTCAAGGAG
130 AA-ACCTTCGAGTTCGATTACATTCAACTCAAGGACATATCAAATTTACAACATAGCTCAAGGAG
73071 AGAAGGGCTATCTGTCAACAAA
194 AGAAGGGCTATCTGTCAACAAA
73093 GACTGTCGAT
Statistics
Matches: 188, Mismatches: 25, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
254 8 0.04
255 180 0.96
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (255 bp):
AATTTACAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGAGTTCGATTACA
TTCAACTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAA
AACCTTCGAGTTCGATTACATTCAACTCAAGGACATATCAAATTTACAACATAGCTCAAGGAGAG
AAGGGCTATCTGTCAACAAAAACCTTCGAGTTTGATTACATTCAGCTCAAAGACATATCG
Found at i:73090 original size:85 final size:84
Alignment explanation
Indices: 72621--73092 Score: 613
Period size: 85 Copynumber: 5.6 Consensus size: 84
72611 TATCTCCCAG
* *
72621 CAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACCAAAACCTTCGAGTTTGATTA
1 CAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAACCTTCGAGTTCGATTA
72686 CATTCAACTCAAAGG-CATAT
65 CATTCAACTC-AAGGACATAT
* ** *
72706 CAAATTTACAGTATAGTTCAAGGCGGGAAGGGTTATCTGTCAACCAAAACCTTCGAGTTCGATTA
1 CAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAACCTTCGAGTTCGATTA
*
72771 CATTCAACTCAAGGATATAT
65 CATTCAACTCAAGGACATAT
* * * *
72791 CAAATTTACAACATAGCTCAAGGCGAGAAGGGTTATTTGTCAACAAAAACCTTCGAGTTTGATTA
1 CAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAACCTTCGAGTTCGATTA
* *
72856 CATTCAGCTCAAAGACATAT
65 CATTCAACTCAAGGACATAT
* * * * *
72876 CGAATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAATAAAAACCTTTGAGTTCGATTT
1 CAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAACCTTCGAGTTCGATTA
*
72941 CATTCAGCTCAAGGACATAT
65 CATTCAACTCAAGGACATAT
* * * *
72961 CCAATTTACAGCATAACTCAAGGCGATAATGGTTATCTGTCAACAAATACCTTCGAGTTCGATTC
1 CAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAA-ACCTTCGAGTTCGATTA
* *
73026 CATTCAACTCAAGGGCATGT
65 CATTCAACTCAAGGACATAT
** * * *
73046 CAAATTTGTAGCATAGCTCAAGGAGAGAAGGGCTATCTGTCAACAAA
1 CAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAA
73093 GACTGTCGAT
Statistics
Matches: 339, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
84 8 0.02
85 331 0.98
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (84 bp):
CAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAACCTTCGAGTTCGATTAC
ATTCAACTCAAGGACATAT
Found at i:73609 original size:13 final size:13
Alignment explanation
Indices: 73592--73630 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
73582 TTTCGTCCAG
73592 ATTTTTTTATTTT
1 ATTTTTTTATTTT
* *
73605 -GTTTTTTATATT
1 ATTTTTTTATTTT
73617 ATTTTTTTATTTT
1 ATTTTTTTATTTT
73630 A
1 A
73631 CTTATATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:73640 original size:26 final size:25
Alignment explanation
Indices: 73592--73641 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
73582 TTTCGTCCAG
* * *
73592 ATTTTTTTATTTTGTTTTTTATATT
1 ATTTTTTTATTTTCTTATATATATT
73617 ATTTTTTTATTTTACTTATATATAT
1 ATTTTTTTATTTT-CTTATATATAT
73642 ATATATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (25 bp):
ATTTTTTTATTTTCTTATATATATT
Found at i:73693 original size:35 final size:35
Alignment explanation
Indices: 73653--73913 Score: 200
Period size: 34 Copynumber: 7.3 Consensus size: 35
73643 TATATATTAT
* **
73653 TATATAATATAAT-TTTTTGAAATATTTTTTGAAAA
1 TATATAATATAATAGTTTTGAAA-ACATTTTGAAAA
* ***
73688 AATATAATATAAT--TTTTAGAAATTGGTTTTCGAAAA
1 TATATAATATAATAGTTTT-GAAA-ACATTTT-GAAAA
73724 TATAT-ATAT-ATAGTTTTGAAAACATTTTGAAAA
1 TATATAATATAATAGTTTTGAAAACATTTTGAAAA
*
73757 TATATATTAT-ATAGTTTTGAAAACATTTTGAAAA
1 TATATAATATAATAGTTTTGAAAACATTTTGAAAA
* *
73791 CATATATATAATATATAGTTTTTTAAAACATTTTGAAAACA
1 TATATA-AT-ATA-ATAG-TTTTGAAAACATTTTG-AAA-A
* * *
73832 AATATAATA-GATA-TTTTTAAAACATTTCTGAAAA
1 TATATAATATAATAGTTTTGAAAACATTT-TGAAAA
73866 TATAT-ATAATATATAGTTTTTGAAAACATTTT-AAAA
1 TATATAAT-ATA-ATAG-TTTTGAAAACATTTTGAAAA
73902 TATATATATATA
1 TATATA-ATATA
73914 TATATATATA
Statistics
Matches: 189, Mismatches: 17, Indels: 38
0.77 0.07 0.16
Matches are distributed among these distances:
33 12 0.06
34 48 0.25
35 47 0.25
36 29 0.15
37 7 0.04
38 19 0.10
39 16 0.08
40 5 0.03
41 6 0.03
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (35 bp):
TATATAATATAATAGTTTTGAAAACATTTTGAAAA
Found at i:73773 original size:34 final size:35
Alignment explanation
Indices: 73723--73915 Score: 248
Period size: 36 Copynumber: 5.4 Consensus size: 35
73713 GTTTTCGAAA
73723 ATATATATATATAGTTTTGAAAACATTTTGAAAAT
1 ATATATATATATAGTTTTGAAAACATTTTGAAAAT
73758 ATATAT-TATATAGTTTTGAAAACATTTTGAAAACAT
1 ATATATATATATAGTTTTGAAAACATTTTG-AAA-AT
* *
73794 ATATATAATATATAGTTTTTTAAAACATTTTGAAAAC
1 ATATAT-ATATATAG-TTTTGAAAACATTTTGAAAAT
* * *
73831 AAATATAATAGATA-TTTTTAAAACATTTCTGAAAAT
1 ATATAT-ATATATAGTTTTGAAAACATTT-TGAAAAT
73867 ATATATAATATATAGTTTTTGAAAACATTTT-AAAAT
1 ATATAT-ATATATAG-TTTTGAAAACATTTTGAAAAT
73903 ATATATATATATA
1 ATATATATATATA
73916 TATATATATA
Statistics
Matches: 142, Mismatches: 8, Indels: 16
0.86 0.05 0.10
Matches are distributed among these distances:
34 23 0.16
35 30 0.21
36 37 0.26
37 14 0.10
38 23 0.16
39 15 0.11
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.42
Consensus pattern (35 bp):
ATATATATATATAGTTTTGAAAACATTTTGAAAAT
Found at i:73827 original size:73 final size:71
Alignment explanation
Indices: 73723--73916 Score: 261
Period size: 73 Copynumber: 2.7 Consensus size: 71
73713 GTTTTCGAAA
73723 ATATAT-ATATATAG-TTTTGAAAACATTTTGAAAATATATATTATATAGTTTTGAAAACATTT-
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATTATATA-TTTTGAAAACATTTC
73785 TGAAAACAT
65 TG-AAA-AT
* * * * *
73794 ATATATAATATATAGTTTTTTAAAACATTTTGAAAACAAATATAATAGATATTTTTAAAACATTT
1 ATATATAATATATAGTTTTTGAAAACATTTTG-AAA-ATATATATTATATATTTTGAAAACATTT
73859 CTGAAAAT
64 CTGAAAAT
73867 ATATATAATATATAGTTTTTGAAAACATTTT-AAAATATATATATATATAT
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATAT-TATATAT
73917 ATATATATAA
Statistics
Matches: 108, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
70 6 0.06
71 15 0.14
72 8 0.07
73 47 0.44
74 19 0.18
75 13 0.12
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (71 bp):
ATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATTATATATTTTGAAAACATTTCT
GAAAAT
Found at i:73908 original size:2 final size:2
Alignment explanation
Indices: 73901--73957 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
73891 ACATTTTAAA
73901 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73942 AT AT -T AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
73958 GGTTTTGAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:73942 original size:73 final size:75
Alignment explanation
Indices: 73723--73972 Score: 200
Period size: 73 Copynumber: 3.4 Consensus size: 75
73713 GTTTTCGAAA
* * *
73723 ATATAT-ATATATAG-TTTTGAAAACATTTTGAAAATATATATTATATAG-T-T-T-TGAAA-AC
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAACAAATA-TA-ATAGATATATATAAAATAC
*
73781 AT-TTTGAAAACAT
64 ATATATG-AAA-AT
* * *
73794 ATATATAATATATAGTTTTTTAAAACATTTTGAAAACAAATATAATAGATAT-TTTTAAA-ACAT
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAACAAATATAATAGATATATATAAAATACAT
* *
73857 TTCTGAAAAT
66 ATATGAAAAT
* * * * *
73867 ATATATAATATATAGTTTTTGAAAACATTTT-AAAATATATATATATATATATATATATAATATA
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAACAAATATA-ATAGATATATATAAAATACA
*
73931 TATAT-ATATAT
65 TATATGA-AAAT
*
73942 ATATTATATATATATAGGTTTTGAAAACATT
1 ATA-TATA-ATATATAGTTTTTGAAAACATT
73973 ATATTATAAT
Statistics
Matches: 150, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
71 10 0.07
72 21 0.14
73 64 0.43
74 16 0.11
75 14 0.09
76 4 0.03
77 21 0.14
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (75 bp):
ATATATAATATATAGTTTTTGAAAACATTTTGAAAACAAATATAATAGATATATATAAAATACAT
ATATGAAAAT
Found at i:73973 original size:26 final size:24
Alignment explanation
Indices: 73946--74040 Score: 117
Period size: 23 Copynumber: 4.0 Consensus size: 24
73936 ATATATATAT
73946 TATATATATATAGGTTTTGAAAACA
1 TATATATATATA-GTTTTGAAAACA
*
73971 T-TATAT-TATAATTTTGAAAACA
1 TATATATATATAGTTTTGAAAACA
*
73993 TATATATAATATAGTTTTTAAAA-A
1 TATATAT-ATATAGTTTTGAAAACA
*
74017 CATATATATATAGTTTT-AAAACA
1 TATATATATATAGTTTTGAAAACA
74040 T
1 T
74041 TTTTGAAAGC
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
22 16 0.26
23 20 0.33
24 12 0.20
25 13 0.21
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (24 bp):
TATATATATATAGTTTTGAAAACA
Found at i:73985 original size:22 final size:23
Alignment explanation
Indices: 73948--74041 Score: 95
Period size: 22 Copynumber: 4.0 Consensus size: 23
73938 ATATATATTA
*
73948 TATATATATAGGTTTTGAAAACAT
1 TATATATATA-ATTTTGAAAACAT
73972 TATAT-TATAATTTTGAAAACAT
1 TATATATATAATTTTGAAAACAT
* *
73994 ATATATAATATAGTTTTTAAAAACA-
1 -TATAT-ATATA-ATTTTGAAAACAT
*
74019 TATATATATAGTTTT-AAAACAT
1 TATATATATAATTTTGAAAACAT
74041 T
1 T
74042 TTTGAAAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
21 6 0.10
22 17 0.28
23 14 0.23
24 10 0.16
25 4 0.07
26 10 0.16
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (23 bp):
TATATATATAATTTTGAAAACAT
Found at i:74023 original size:47 final size:47
Alignment explanation
Indices: 73946--74040 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 47
73936 ATATATATAT
*
73946 TATATATATATAGGTTTTGAAAACATTATAT-TATAATTTTGAAAACA
1 TATATATATATAGGTTTTAAAAACATTATATATATAATTTT-AAAACA
* *
73993 TATATATAATATAGTTTTTAAAAACA-TATATATATAGTTTTAAAACA
1 TATATAT-ATATAGGTTTTAAAAACATTATATATATAATTTTAAAACA
74040 T
1 T
74041 TTTTGAAAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
47 19 0.44
48 24 0.56
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (47 bp):
TATATATATATAGGTTTTAAAAACATTATATATATAATTTTAAAACA
Found at i:75489 original size:11 final size:11
Alignment explanation
Indices: 75455--75490 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
75445 TTTTCTCCTC
*
75455 TTTTTATTTAA
1 TTTTTTTTTAA
*
75466 TATTTTTTTAA
1 TTTTTTTTTAA
75477 TTTTTTTTTAA
1 TTTTTTTTTAA
75488 TTT
1 TTT
75491 AACATTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:81915 original size:23 final size:23
Alignment explanation
Indices: 81889--81949 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
81879 TCCCCTGTGG
81889 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
* * *
81912 -GGGGAATCGGTTCCCTTTGAAC
1 GGGGGAATCGGTTCCCCTTCAAA
* *
81934 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
81950 TCTGCACCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 19 0.59
23 13 0.41
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.25
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Done.