Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006235.1 Hibiscus syriacus cultivar Beakdansim tig00014862_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: 996025
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:2246 original size:135 final size:135
Alignment explanation
Indices: 1935--2620 Score: 824
Period size: 136 Copynumber: 5.1 Consensus size: 135
1925 TGAACTGATC
* * * *
1935 AACATTTCCAATGGAGAGTTCAT-ATGAGAAGAACTCACCCGAAAAAGGGAAAAGAAGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
* * * ** * * * * *
1999 TGAGAATAGCTTGTTCAATTTATCACTCGATTCACGACATTTCGAATTAGTGGCGCCTCGCTTGA
66 TGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATATTT-GAATCAGTGACGCCTCGCTTAA
2064 GGGATT
130 GGGATT
*
2070 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGTGGGAGAAGAAGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
* * * * *
2135 TGAGAAGAGCTTGTTCGACCTATCGCTCGATTCACGATATTTAAATCAGCGACGCCTCACTTTAG
66 TGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATATTTGAATCAGTGACGCCTCGCTTAAG
2200 GGATT
131 GGATT
* *
2205 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTTATCCGAAAGAGGGAGAAGAGGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
* * * ** * * *
2270 TGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTTGAAGCAGCAATGTCTCGCTTGA
66 TGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATA-TTTGAATCAGTGACGCCTCGCTTAA
2335 GGGATT
130 GGGATT
* * * * * *
2341 GATATTTCCATTGGAGAGTTCATAATGAG-AGAATCTCCTCCGAAAGAGGGAG-AGAAAGTTTAT
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAA-CTCATCCGAAAGAGGGAGAAG-AAGTTCAT
* * * *
2404 AATGAGAAGAACTTATTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTT
64 AATGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATATTT-GAATCAGTGACGCCTCGCTT
2469 AAGGGATT
128 AAGGGATT
* *
2477 GACATTTTAAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAA-A-GGAGAAGAAGTTCAT
1 AACA-TTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGA-AAGAGGGAGAAGAAGTTCAT
* * * * * * *
2540 AATGAGAAGAACTTGTTCGACCTATTGCTAGATTCACAATACTTCGAATCAGTAACACCTCACTT
64 AATGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATA-TTTGAATCAGTGACGCCTCGCTT
2605 AAGGGATT
128 AAGGGATT
2613 AACATTTC
1 AACATTTC
2621 CAAAAGAAAA
Statistics
Matches: 472, Mismatches: 69, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
135 154 0.33
136 277 0.59
137 35 0.07
138 6 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (135 bp):
AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATATTTGAATCAGTGACGCCTCGCTTAAG
GGATT
Found at i:2441 original size:271 final size:271
Alignment explanation
Indices: 1935--2620 Score: 860
Period size: 271 Copynumber: 2.5 Consensus size: 271
1925 TGAACTGATC
* * *
1935 AACATTTCCAATGGAGAGTTCAT-ATGAGAAGAACTCACCCGAAAAAGGGAAAAGAAGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCG-AAAAGGGAGAAGAAGTTCATAA
* * * ** ** * * ** ***
1999 TGAGAATAGCTTGTTCAATTTATCACTCGATTCACGACATTTCGAATTAGTGGCGCCTCGCTTGA
65 TGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTCGAAGCAGCAACGCCTCGCTTGA
*
2064 GGGATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGTGGGAGAAGAAGT
130 GGGATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGT
* * * *
2129 TCATAATGAGAAGAGCTTGTTCGACCTATCGCTCGATTCACGATATTT-AAATCAGCGACGCCTC
195 TCATAATGAGAAGAACTTATTCGACCTATCACTCGATTCACGACATTTCAAATCAGCGACGCCTC
*
2193 ACTTTAGGGATT
260 ACTTAAGGGATT
* *
2205 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTTATCCGAAAGAGGGAGAAGAGGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAA-AGGGAGAAGAAGTTCATAA
* * *
2270 TGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTTGAAGCAGCAATGTCTCGCTTGA
65 TGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTCGAAGCAGCAACGCCTCGCTTGA
* * * * *
2335 GGGATTGATATTTCCATTGGAGAGTTCATAATGAG-AGAATCTCCTCCGAAAGAGGGAG-AGAAA
130 GGGATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAA-CTCATCCGAAAGAGGGAGAAG-AA
* * * *
2398 GTTTATAATGAGAAGAACTTATTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCC
193 GTTCATAATGAGAAGAACTTATTCGACCTATCACTCGATTCACGACATTTCAAATCAGCGACGCC
*
2463 TCGCTTAAGGGATT
258 TCACTTAAGGGATT
* *
2477 GACATTTTAAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAA-GGAGAAGAAGTTCATA
1 AACA-TTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGA-AAAGGGAGAAGAAGTTCATA
* * * * * * *
2541 ATGAGAAGAACTTGTTCGACCTATTGCTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
64 ATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTCGAAGCAGCAACGCCTCGCTTG
2606 AGGGATTAACATTTC
129 AGGGATTAACATTTC
2621 CAAAAGAAAA
Statistics
Matches: 355, Mismatches: 54, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
270 31 0.09
271 174 0.49
272 110 0.31
273 38 0.11
274 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (271 bp):
AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAAGGGAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTCGAAGCAGCAACGCCTCGCTTGAG
GGATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTT
CATAATGAGAAGAACTTATTCGACCTATCACTCGATTCACGACATTTCAAATCAGCGACGCCTCA
CTTAAGGGATT
Found at i:2705 original size:95 final size:96
Alignment explanation
Indices: 2541--2719 Score: 234
Period size: 95 Copynumber: 1.9 Consensus size: 96
2531 GAAGTTCATA
**
2541 ATGAGAAGAACTTGTTCGACCTATTGCTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
1 ATGAGAAGAACTTGTTCGACCTATCACTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
2606 AGGGATTAACATTTCCAAAAGAAAAATCACG
66 AGGGATTAACATTTCCAAAAGAAAAATCACG
* * * * * * * ** *
2637 ATGAGAAGAA-TTGTTTGACCTATCACTCGATTCACGATATTTTGAATCAGTGACGCCTTGCTTG
1 ATGAGAAGAACTTGTTCGACCTATCACTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
*
2701 AGGGATTAACATTTTCAAA
66 AGGGATTAACATTTCCAAA
2720 TGGAGAGTTC
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
95 60 0.86
96 10 0.14
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (96 bp):
ATGAGAAGAACTTGTTCGACCTATCACTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
AGGGATTAACATTTCCAAAAGAAAAATCACG
Found at i:2818 original size:232 final size:233
Alignment explanation
Indices: 2405--3110 Score: 1168
Period size: 231 Copynumber: 3.0 Consensus size: 233
2395 AAAGTTTATA
* * *
2405 ATGAGAAGAACTTATTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTTA
1 ATGAGAAGAACTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
* * *
2470 AGGGATTGACATTTTAAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAA-AGGAGAAGAA
66 AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAA
* *
2534 GTTCATAATGAGAAGAACTTGTTCGACCTATTGCTAGATTCACAATACTTCGAATCAGTAACACC
131 GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
*
2599 TCACTTAAGGGATTAACATTTCCAAAAGAAAAATCACG
196 TCACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
* *
2637 ATGAGAAGAA-TTGTTTGACCTATCACTCGATTCACGATATTTTGAATCAGTGACGCCTTGCTTG
1 ATGAGAAGAACTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
*
2701 AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGGAGAAGAA
66 AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAA
2766 GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
131 GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
**
2831 TCACTTAAGGGATCAACATTTTTAAAAGAAAAATCACG
196 TCACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
*
2869 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCA-TGACGCCTTGC-TG
1 ATGAGAAGAACTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
*
2932 AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGGGGGAGAAGAA
66 AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAA
* * * *
2997 GTTCATAATGAGAAGAACTTATTTGACATATTGCTAGATTCACAACACTTCGAATCAGCAATACC
131 GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
* * * *
3062 TCACTAAATGGATCAACATTTCCAGAAGAAAAATCACA
196 TCACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
3100 ATGAGAAGAAC
1 ATGAGAAGAAC
3111 CTGCGACTTG
Statistics
Matches: 443, Mismatches: 29, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
231 268 0.60
232 138 0.31
233 37 0.08
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (233 bp):
ATGAGAAGAACTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAA
GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
TCACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
Found at i:7582 original size:3 final size:3
Alignment explanation
Indices: 7574--7627 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
7564 TTAATATATT
* * *
7574 TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7622 TAA TAA
1 TAA TAA
7628 ATAAATCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:8003 original size:124 final size:122
Alignment explanation
Indices: 7774--8056 Score: 342
Period size: 124 Copynumber: 2.3 Consensus size: 122
7764 GTTGAATAAA
* *
7774 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGTTGACCTA
1 TTCTT-TCTTT-TTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGCTAACCTA
* * * * *
7839 TTTCCTTATGTGATAGAGTCATTCAAAAGGTTAAATAAGCTCTTCTCATTATGAACTTC
64 TCTACTTATGTGATAGAATCATGCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTC
** * * *
7898 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTT-TTCTGGAAATGTTGATGCTAATCT
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG---GGATGATGCTAACCT
* * * *
7962 ATCTACTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTC
63 ATCTACTTATGTGATAGAATCATGCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTC
8022 TTC-TTC---TTCAGATGAGTTCTTCTCATTATGAACTT
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTT
8057 CTTTTTCTTC
Statistics
Matches: 140, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
120 29 0.21
121 4 0.03
122 30 0.21
123 8 0.06
124 69 0.49
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (122 bp):
TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGCTAACCTATC
TACTTATGTGATAGAATCATGCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTC
Found at i:8043 original size:36 final size:36
Alignment explanation
Indices: 8003--8091 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
7993 TTGAACAAGC
* *
8003 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
*
8039 TCTTCTCATTATGAACTTCTTTTTCTTCAGATGAAT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
8075 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
8092 CTACCTGGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.48
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
Found at i:8220 original size:38 final size:39
Alignment explanation
Indices: 8145--8247 Score: 145
Period size: 38 Copynumber: 2.6 Consensus size: 39
8135 AGGTTGAACA
8145 AATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGACG
1 AATTCTTCTCATTATGAAC----TCTTCCTTCTTCAGATGACG
8188 AATTCTTCTCATTATGAACTCTT-CTTCTTCAGATGACG
1 AATTCTTCTCATTATGAACTCTTCCTTCTTCAGATGACG
* *
8226 AGTTCTTCTGATTATGAACTCT
1 AATTCTTCTCATTATGAACTCT
8248 ATCTGGCAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
38 35 0.60
39 4 0.07
43 19 0.33
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (39 bp):
AATTCTTCTCATTATGAACTCTTCCTTCTTCAGATGACG
Found at i:8231 original size:19 final size:19
Alignment explanation
Indices: 8173--8234 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
8163 CTTATTCTTC
8173 CTTCTTCAGATGACGAATT
1 CTTCTTCAGATGACGAATT
* **
8192 CTTC-TCATTATGAAC-TCTT
1 CTTCTTCA-GATG-ACGAATT
*
8211 CTTCTTCAGATGACGAGTT
1 CTTCTTCAGATGACGAATT
8230 CTTCT
1 CTTCT
8235 GATTATGAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 5 0.15
19 23 0.70
20 5 0.15
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (19 bp):
CTTCTTCAGATGACGAATT
Found at i:8267 original size:154 final size:147
Alignment explanation
Indices: 7986--8362 Score: 573
Period size: 154 Copynumber: 2.5 Consensus size: 147
7976 TAGAATTATG
* *
7986 CAAAAGGTTGAACAAGCTCTTCTCATTGTGAAC--TTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
8048 TATGAACTTCTTTTTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCA
66 TATGAAC-TCTTCTTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCA
8113 TCAAATGATGAATTTAAA
130 TCAAATGATGAATTTAAA
*
8131 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGACGAATTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTCTTCCTTCTTCAGATGA-G--TTCTTC
* *
8196 TCATTATGAACTCTTCTTCTTCAGATGACGAGTTCTTCTGATTATGAACTCTATCTGGCAATGTT
62 TCATTATGAACTCTTCTTCTTCAGATGA--A-TTCTTCTCATTATGAACTCTACCTGGCAATGTT
*
8261 AATCCATCAATTGATGAATTTAAA
124 AATCCATCAAATGATGAATTTAAA
8285 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTCTTCCTTCTTCAGATGAGTTCTTCTCA
8350 TTATGAACT-TTCT
65 TTATGAACTCTTCT
8363 CTGGAAAAGC
Statistics
Matches: 212, Mismatches: 10, Indels: 15
0.89 0.04 0.06
Matches are distributed among these distances:
145 30 0.14
148 5 0.02
149 13 0.06
150 5 0.02
151 34 0.16
152 17 0.08
153 2 0.01
154 106 0.50
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (147 bp):
CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTTCTTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCAT
CAAATGATGAATTTAAA
Found at i:8356 original size:113 final size:113
Alignment explanation
Indices: 8190--9057 Score: 1252
Period size: 113 Copynumber: 7.7 Consensus size: 113
8180 AGATGACGAA
** * * * *
8190 TTCTTCTCATTATGAAC-TCTTCTT-CTTC-AGATGACGAGTTCTTCTGATTATGAACTCTATCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACTTTCTCT
* * * * * **
8252 GGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGAACAAG
65 GGAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
8301 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
8366 GAAAAGCTGATCCATCAATTGATGAATTCAGGCAAAAGGTTGAACAAG
66 GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
8414 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
8479 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
* *
8527 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGCGTTCTTCTCATTATGAACTTCCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * * *
8592 G-AAAGTTTGATCCATCAAGTGATG-GTTTTGAACAAAAAGTTGAACAAA
66 GAAAAG-CTGATCCATCAAGTGATGAATTTAG-GCAAAAGGTTGAACAAG
* *
8640 TTCTTCTCATTATGAA--T-TTATT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTC
* * * * * **
8701 -CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAG
62 TCTGGAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
8752 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
8817 GAAAAGCTGATCCATCAATTGATGAATTCAGGCAAAAGGTTGAACAAG
66 GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
8865 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
8930 GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
8978 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
9043 GAAATGTTGATCCAT
66 GAAAAGCTGATCCAT
9058 TGTTATGGAT
Statistics
Matches: 692, Mismatches: 49, Indels: 30
0.90 0.06 0.04
Matches are distributed among these distances:
109 11 0.02
110 4 0.01
111 18 0.03
112 87 0.13
113 555 0.80
114 2 0.00
115 4 0.01
116 11 0.02
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
Found at i:9055 original size:451 final size:450
Alignment explanation
Indices: 8188--9057 Score: 1643
Period size: 451 Copynumber: 1.9 Consensus size: 450
8178 TCAGATGACG
* * *
8188 AATTCTTCTCATTATGAACTCTTCTTCTTCAGATGACGAGTTCTTCTGATTATGAACTCTATCTG
1 AATTCTTCTCATTATGAACTATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTG
*
8253 GCAATGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
66 GCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
8318 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
8383 ATTGATGAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
196 ATTGATGAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
8448 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCA
261 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCA
*
8513 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGCGTTCTTCTCATT
326 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
8578 ATGAACTTCCTCTGGAAAGTTTGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACA
391 ATGAACTTCCTCTGGAAAGTTTGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACA
*
8638 AATTCTTCTCATTATGAATTTATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
1 AATTCTTCTCATTATGAA-CTATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
8703 GGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAA
65 GGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAA
8768 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
130 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
8833 AATTGATGAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
195 AATTGATGAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
*
8898 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTAGGC
260 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGC
8963 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
325 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
9028 TATGAACTTTCTCTGGAAA-TGTTGATCCAT
390 TATGAACTTCCTCTGGAAAGT-TTGATCCAT
9058 TGTTATGGAT
Statistics
Matches: 410, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
450 19 0.05
451 391 0.95
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (450 bp):
AATTCTTCTCATTATGAACTATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTG
GCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
ATTGATGAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCA
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTCCTCTGGAAAGTTTGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACA
Found at i:9934 original size:115 final size:115
Alignment explanation
Indices: 9758--10073 Score: 535
Period size: 115 Copynumber: 2.8 Consensus size: 115
9748 GATCATGTAG
* * * *
9758 TTCATCTTTTAATTCCAATGATTGGTTCTGTAG-TTCCTACCAAACCAGATCAAATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAAATAACTCAAAG
9822 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
*
9872 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATATCAAACCAGATCAAATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAAATAACTCAAAG
*
9937 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
** *
9987 TTCATCTTTCAAATTTAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAAATAACTCAAAG
*
10052 AACACTTCCATAAGATGCTATT
66 AACACTTCCAGAAGATGCTATT
10074 AGCACATTTA
Statistics
Matches: 190, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
114 30 0.16
115 160 0.84
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.34
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAAATAACTCAAAG
AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
Found at i:10236 original size:83 final size:83
Alignment explanation
Indices: 10025--10245 Score: 336
Period size: 82 Copynumber: 2.7 Consensus size: 83
10015 TGTGGTTTCA
* * * **
10025 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCATAAGATGCTATTAGCACATTTATCTTTT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
**
10090 AAATTCAATGATTGGTTT
66 AAATTCAATGATTAATTT
* *
10108 TACC-AACCAGATCAGATAACTTAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
*
10172 AAATTTAATGATTAATTT
66 AAATTCAATGATTAATTT
*
10190 TACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
10246 GGCATTTGTT
Statistics
Matches: 125, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
82 72 0.58
83 53 0.42
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
AAATTCAATGATTAATTT
Found at i:11252 original size:19 final size:19
Alignment explanation
Indices: 11228--11353 Score: 68
Period size: 19 Copynumber: 6.6 Consensus size: 19
11218 TTCATAGAAG
11228 AATAAATTGAATTTTCGAA
1 AATAAATTGAATTTTCGAA
*
11247 AATAAATTGAA-TCTC--A
1 AATAAATTGAATTTTCGAA
*
11263 AATAAATTGAA-CTT-G-A
1 AATAAATTGAATTTTCGAA
* * * *
11279 AATAGATAGAATTTT-TATC
1 AATAAATTGAATTTTCGA-A
* *
11298 AATAAATTATGTTAATTCATAGAA
1 AATAAA-T-TG--AATT-TTCGAA
11322 GAATAAATTGAATTTTCGAA
1 -AATAAATTGAATTTTCGAA
11342 AATAAATTGAAT
1 AATAAATTGAAT
11354 CTCAAATAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 22
0.69 0.13 0.19
Matches are distributed among these distances:
16 23 0.28
17 2 0.02
18 3 0.04
19 28 0.35
20 5 0.06
21 5 0.06
23 6 0.07
24 2 0.02
25 7 0.09
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (19 bp):
AATAAATTGAATTTTCGAA
Found at i:11369 original size:95 final size:95
Alignment explanation
Indices: 11206--11386 Score: 362
Period size: 95 Copynumber: 1.9 Consensus size: 95
11196 ACTTATTTCA
11206 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
1 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
11271 GAACTTGAAATAGATAGAATTTTTATCAAT
66 GAACTTGAAATAGATAGAATTTTTATCAAT
11301 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
1 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
11366 GAACTTGAAATAGATAGAATT
66 GAACTTGAAATAGATAGAATT
11387 GTATTCAAAG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 86 1.00
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (95 bp):
AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
GAACTTGAAATAGATAGAATTTTTATCAAT
Found at i:11425 original size:95 final size:95
Alignment explanation
Indices: 11206--11410 Score: 283
Period size: 95 Copynumber: 2.2 Consensus size: 95
11196 ACTTATTTCA
** * *
11206 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
1 AAATTATGACAATACATAGAAGAAAAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
*
11271 GAACTTGAAATAGATAGAATTTTTATCAAT
66 GAACTTGAAATAGATAGAATTTATATCAAT
** * *
11301 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
1 AAATTATGACAATACATAGAAGAAAAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
11366 GAACTTGAAATAGATAGAATTGTAT-TC-A-
66 GAACTTGAAATAGATAGAATT-TATATCAAT
*
11394 AAGTTATGACAA-ACATA
1 AAATTATGACAATACATA
11411 AGATTGATAA
Statistics
Matches: 104, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
92 4 0.04
93 9 0.09
94 1 0.01
95 88 0.85
96 2 0.02
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (95 bp):
AAATTATGACAATACATAGAAGAAAAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
GAACTTGAAATAGATAGAATTTATATCAAT
Found at i:22305 original size:26 final size:26
Alignment explanation
Indices: 22249--22305 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
22239 TATTAATAAG
* *
22249 AAAATATATACATACTATGAAAATAA
1 AAAATATATAAATACTATGAAAAGAA
* *
22275 TAAATATATAAAATA-TTTGAAAAGAA
1 AAAATATAT-AAATACTATGAAAAGAA
22301 AAAAT
1 AAAAT
22306 TGTAAATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (26 bp):
AAAATATATAAATACTATGAAAAGAA
Found at i:24383 original size:3 final size:3
Alignment explanation
Indices: 24375--24418 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
24365 TTAATATATT
* *
24375 TAA TAA TAA TAA TAA TTA TTA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24419 ATCAAAATGG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:25617 original size:43 final size:43
Alignment explanation
Indices: 25569--25658 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
25559 ATAACTGGAG
*
25569 ATTAAAACGTAATGTTAAATATGATTTTGAAAAAATAATAATA
1 ATTAAAACGTAATGGTAAATATGATTTTGAAAAAATAATAATA
25612 ATTAAAACGTAATGGTAAATATGATTTTGAAAAAATAATAATA
1 ATTAAAACGTAATGGTAAATATGATTTTGAAAAAATAATAATA
25655 ATTA
1 ATTA
25659 GATGATCGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.34
Consensus pattern (43 bp):
ATTAAAACGTAATGGTAAATATGATTTTGAAAAAATAATAATA
Found at i:31900 original size:24 final size:24
Alignment explanation
Indices: 31871--31916 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
31861 ATTTATCTTT
*
31871 TAAATTTTATAAAAAATGTATATA
1 TAAATTTTATAAAAAATATATATA
*
31895 TAAATTTTATTAAAAATATATA
1 TAAATTTTATAAAAAATATATA
31917 AATTTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TAAATTTTATAAAAAATATATATA
Found at i:33255 original size:3 final size:3
Alignment explanation
Indices: 33249--33302 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
33239 AACGATGATG
33249 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33297 ATA ATA
1 ATA ATA
33303 TGGAATTAGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46803 original size:28 final size:28
Alignment explanation
Indices: 46768--46827 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
46758 ATTCGGTTGA
46768 TTTTTTAATAAATTATTTCGATTTAGAT
1 TTTTTTAATAAATTATTTCGATTTAGAT
*
46796 TTTTTTAATAAATTATTTCGATTTTGAT
1 TTTTTTAATAAATTATTTCGATTTAGAT
46824 TTTT
1 TTTT
46828 ATATTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (28 bp):
TTTTTTAATAAATTATTTCGATTTAGAT
Found at i:47303 original size:21 final size:20
Alignment explanation
Indices: 47255--47303 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
47245 TTATTTATAT
47255 AAAATATAATATAATATAAA
1 AAAATATAATATAATATAAA
47275 AAATATATAATATAATATAAA
1 AAA-ATATAATATAATATAAA
47296 AATAATAT
1 AA-AATAT
47304 TATGGTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.11
21 23 0.85
22 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATAATATAATATAAA
Found at i:47341 original size:16 final size:17
Alignment explanation
Indices: 47322--47358 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
47312 TAAAATATTA
47322 TTTTA-AATAATTAC-AT
1 TTTTACAATAA-TACTAT
47338 TTTTACAATAATACTAT
1 TTTTACAATAATACTAT
47355 TTTT
1 TTTT
47359 TATCCTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTACAATAATACTAT
Found at i:47420 original size:23 final size:23
Alignment explanation
Indices: 47368--47412 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
47358 TTATCCTATA
*
47368 AAATTATAAATAATAAAATATTG
1 AAATTAAAAATAATAAAATATTG
47391 AATATTAAAAAT-ATAAAATATT
1 AA-ATTAAAAATAATAAAATATT
47413 TTAAATTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATTAAAAATAATAAAATATTG
Found at i:49617 original size:15 final size:16
Alignment explanation
Indices: 49569--49620 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
49559 CCTATTCAAT
* *
49569 TTGAACTTGAAAAGAC
1 TTGAACTTCAAATGAC
*
49585 CTGAA-TTCAAATTGAC
1 TTGAACTTCAAA-TGAC
49601 TTGAACTT-AAATGAC
1 TTGAACTTCAAATGAC
49616 TTGAA
1 TTGAA
49621 TAAGTAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 14 0.47
16 14 0.47
17 2 0.07
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (16 bp):
TTGAACTTCAAATGAC
Found at i:68271 original size:13 final size:13
Alignment explanation
Indices: 68255--68294 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
68245 GCCCCGATTA
68255 CCCGATTACCCGC
1 CCCGATTACCCGC
*
68268 CCCGATTACTCGC
1 CCCGATTACCCGC
68281 CCCGA-TACCCGC
1 CCCGATTACCCGC
68293 CC
1 CC
68295 GATAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.15, C:0.55, G:0.15, T:0.15
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:68321 original size:2 final size:2
Alignment explanation
Indices: 68314--68405 Score: 52
Period size: 2 Copynumber: 49.0 Consensus size: 2
68304 TAAAAATAAT
* * *
68314 TA TA TA TA TA TA TA TA TA TA -A TA T- TA -A TA AA TT TA -A TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
68352 TA AA TA -A AA AA TA TA TA TT TA TA TA TT TA -A TT TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68392 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
68406 CCCGGCCCGA
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
1 6 0.09
2 61 0.91
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:68437 original size:12 final size:12
Alignment explanation
Indices: 68403--68445 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
68393 ATATATATAT
*
68403 ATACCCGGCCCG
1 ATACCCGGCCCA
* * *
68415 ATTCTCAGCCCA
1 ATACCCGGCCCA
68427 ATACCCGGCCCA
1 ATACCCGGCCCA
68439 ATACCCG
1 ATACCCG
68446 TTTAAATAAC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.23, C:0.47, G:0.16, T:0.14
Consensus pattern (12 bp):
ATACCCGGCCCA
Found at i:72872 original size:31 final size:33
Alignment explanation
Indices: 72822--72884 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
72812 GTCCTCCAAG
72822 GATCCATGGACTTTTTAAAATGAT-AGACTTTT
1 GATCCATGGACTTTTTAAAATGATAAGACTTTT
72854 GATCCATGGAC-TTTTAAAATGATAAGACTTT
1 GATCCATGGACTTTTTAAAATGATAAGACTTT
72885 CATAACAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (33 bp):
GATCCATGGACTTTTTAAAATGATAAGACTTTT
Found at i:76796 original size:2 final size:2
Alignment explanation
Indices: 76791--76828 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
76781 TGATATATTT
76791 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
76829 TTGATAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:82398 original size:2 final size:2
Alignment explanation
Indices: 82393--82424 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
82383 TTTAAAAATA
82393 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
82425 TAAACTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85848 original size:18 final size:18
Alignment explanation
Indices: 85800--85848 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
85790 ATAATTTTAA
85800 ATTTATACTAAAAATACAT
1 ATTTATA-TAAAAATACAT
* *
85819 A-TTATTTCAAAATACGAT
1 ATTTATATAAAAATAC-AT
85837 ATTTATATAAAA
1 ATTTATATAAAA
85849 GAAGTAGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (18 bp):
ATTTATATAAAAATACAT
Found at i:90401 original size:19 final size:20
Alignment explanation
Indices: 90362--90408 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
90352 AATAATAAAT
90362 ATTTTTAAA-TTAAAATATG
1 ATTTTTAAAGTTAAAATATG
90381 ATTTTTAAAGTGT-AAAT-TG
1 ATTTTTAAAGT-TAAAATATG
90400 A-TTTTAAAG
1 ATTTTTAAAG
90409 AAAGGACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.31
19 12 0.46
20 5 0.19
21 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.47
Consensus pattern (20 bp):
ATTTTTAAAGTTAAAATATG
Found at i:94459 original size:3 final size:3
Alignment explanation
Indices: 94451--94488 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
94441 CGTTTCGGTT
94451 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
94489 GTTTGACAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:96884 original size:19 final size:18
Alignment explanation
Indices: 96855--96904 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
96845 AATGAAAAAA
*
96855 AGAAGAGGAGAAGAAATAAG
1 AGAAGAAGAGAAGAAAT--G
96875 AGAA-AAGAGAAAGAAATG
1 AGAAGAAGAG-AAGAAATG
96893 AGAAGAAGAGAA
1 AGAAGAAGAGAA
96905 TATCGGTTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 7 0.26
19 9 0.33
20 11 0.41
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (18 bp):
AGAAGAAGAGAAGAAATG
Found at i:96888 original size:20 final size:19
Alignment explanation
Indices: 96854--96904 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 19
96844 GAATGAAAAA
96854 AAGAAGAGGAGAAGAAATAAGAG
1 AAGAAGA-GA-AAGAAAT--GAG
96877 AA-AAGAGAAAGAAATGAG
1 AAGAAGAGAAAGAAATGAG
96895 AAGAAGAGAA
1 AAGAAGAGAA
96905 TATCGGTTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.19
19 7 0.26
20 7 0.26
21 2 0.07
22 4 0.15
23 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (19 bp):
AAGAAGAGAAAGAAATGAG
Found at i:102270 original size:21 final size:21
Alignment explanation
Indices: 102223--102263 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
102213 TTAATCATAA
102223 AATAAACATTTTATAATATTT
1 AATAAACATTTTATAATATTT
102244 AATAAACA-TTTATAATATTT
1 AATAAACATTTTATAATATTT
102264 TATTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAAACATTTTATAATATTT
Found at i:102640 original size:20 final size:20
Alignment explanation
Indices: 102612--102659 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
102602 ATTCTCTTCT
* *
102612 TATTCTTTCTTTCTATTTTC
1 TATTATTTCTTCCTATTTTC
*
102632 TATTATTTCTTCCTCTTTTC
1 TATTATTTCTTCCTATTTTC
*
102652 TCTTATTT
1 TATTATTT
102660 ATTCTCATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTATTTCTTCCTATTTTC
Found at i:108296 original size:13 final size:13
Alignment explanation
Indices: 108261--108306 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
108251 ATCATGTTGC
* *
108261 TGTTTGGAGATAC
1 TGTTTGGAGTTAT
108274 TGTTTGGAGTTAT
1 TGTTTGGAGTTAT
*
108287 TGTTTGGAGTTGT
1 TGTTTGGAGTTAT
108300 T-TTTGGA
1 TGTTTGGA
108307 TCATGTTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 6 0.20
13 24 0.80
ACGTcount: A:0.15, C:0.02, G:0.33, T:0.50
Consensus pattern (13 bp):
TGTTTGGAGTTAT
Found at i:108633 original size:15 final size:15
Alignment explanation
Indices: 108615--108648 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
108605 GGGTTGTTTC
108615 TTTGTCTTTTGTGTA
1 TTTGTCTTTTGTGTA
108630 TTTGTCTTTTGTGTA
1 TTTGTCTTTTGTGTA
108645 TTTG
1 TTTG
108649 GTTGACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.06, G:0.21, T:0.68
Consensus pattern (15 bp):
TTTGTCTTTTGTGTA
Found at i:108941 original size:42 final size:43
Alignment explanation
Indices: 108882--108963 Score: 148
Period size: 42 Copynumber: 1.9 Consensus size: 43
108872 TGTGAGCAAA
108882 CTTCACAAGCTTGCATTTGTTAAAATATATA-CTCTTTGTAAG
1 CTTCACAAGCTTGCATTTGTTAAAATATATATCTCTTTGTAAG
108924 CTTCACAAGCTTGCATTTGTTAAAATATATATTCTCTTTG
1 CTTCACAAGCTTGCATTTGTTAAAATATATA-TCTCTTTG
108964 CTTTTGTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 31 0.82
44 7 0.18
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (43 bp):
CTTCACAAGCTTGCATTTGTTAAAATATATATCTCTTTGTAAG
Found at i:110530 original size:33 final size:33
Alignment explanation
Indices: 110493--110556 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
110483 AATTAGAAAA
110493 TAATATCTCATCTCATTAAATTA-ATTAATTTAT
1 TAATATCTCATCTCATTAAA-TAGATTAATTTAT
110526 TAATATCTCATCTCATTAAATAGATTAATTT
1 TAATATCTCATCTCATTAAATAGATTAATTT
110557 TGAGAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 2 0.07
33 28 0.93
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (33 bp):
TAATATCTCATCTCATTAAATAGATTAATTTAT
Found at i:111307 original size:17 final size:17
Alignment explanation
Indices: 111285--111334 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
111275 AATTTTTTAA
111285 AAAATAATTAGATGACT
1 AAAATAATTAGATGACT
* * *
111302 AAAAT-A-GA-ATCACA
1 AAAATAATTAGATGACT
111316 AAAATAATTAGATGACT
1 AAAATAATTAGATGACT
111333 AA
1 AA
111335 GTACATAGTT
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
14 9 0.38
15 2 0.08
16 2 0.08
17 11 0.46
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.24
Consensus pattern (17 bp):
AAAATAATTAGATGACT
Found at i:112548 original size:18 final size:18
Alignment explanation
Indices: 112506--112556 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
112496 TAATCACACA
112506 ATTTAAAAAAAAGAAATGT
1 ATTTAAAAAAAAG-AATGT
*
112525 AATTAAAAAAAAGAATG-
1 ATTTAAAAAAAAGAATGT
*
112542 ATTTTAAAAATAAGA
1 A-TTTAAAAAAAAGA
112557 GCCCAACAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 15 0.54
19 12 0.43
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (18 bp):
ATTTAAAAAAAAGAATGT
Found at i:124601 original size:21 final size:22
Alignment explanation
Indices: 124562--124607 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
124552 TTTACATACA
*
124562 TAAATATGATTTAAATTAAT-T
1 TAAAAATGATTTAAATTAATAT
124583 TAAAAATG-TTTAAATTTAATAT
1 TAAAAATGATTTAAA-TTAATAT
124605 TAA
1 TAA
124608 TTTAACAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 12 0.55
22 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
TAAAAATGATTTAAATTAATAT
Found at i:124608 original size:27 final size:27
Alignment explanation
Indices: 124570--124630 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
124560 CATAAATATG
*
124570 ATTTAA-ATTAATTTAAAAATGTTTAA
1 ATTTAATATTAATTTAAAAATATTTAA
* *
124596 ATTTAATATTAATTTAACAATATTTTA
1 ATTTAATATTAATTTAAAAATATTTAA
124623 ATATTAAT
1 AT-TTAAT
124631 TTATGAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 6 0.20
27 19 0.63
28 5 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (27 bp):
ATTTAATATTAATTTAAAAATATTTAA
Found at i:124611 original size:11 final size:11
Alignment explanation
Indices: 124595--124633 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
124585 AAAATGTTTA
124595 AATTTAATATT
1 AATTTAATATT
* *
124606 AATTTAACAAT
1 AATTTAATATT
*
124617 ATTTTAATATT
1 AATTTAATATT
124628 AATTTA
1 AATTTA
124634 TGAATGCATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
AATTTAATATT
Found at i:132047 original size:139 final size:140
Alignment explanation
Indices: 131796--132075 Score: 512
Period size: 139 Copynumber: 2.0 Consensus size: 140
131786 CAGCTACCTG
131796 CATTTAAAGAAATATATATATATATATATTGTCAGTTTGGTTATTGATATAGTAATTCATTAGCC
1 CATTTAAAGAAATATATATATATATATATTGTCAGTTTGGTTATTGATATAGTAATTCATTAGCC
131861 AGGAAGAGGAAGAGGAAAGATTAGAGAAATGGAGGATCTTCCTCGAACTTCATGCAAAACATACT
66 AGGAAGAGGAAGAGGAAAGATTAGAGAAATGGAGGATCTTCCTCGAACTTCATGCAAAACATACT
131926 GAACCATGCC
131 GAACCATGCC
*
131936 CATTTAAAG-AA-ATATATATATATATATTGTCAGTTTGGGTTATTTATATAGTAATTCATTATG
1 CATTTAAAGAAATATATATATATATATATTGTCAGTTT-GGTTATTGATATAGTAATTCATTA-G
131999 CCAGGAAGAGGAAGAGGAAAG-TTAGAGAAATGGAGGATCTTCCTCGAACTTCATGCAAAACATA
64 CCAGGAAGAGGAAGAGGAAAGATTAGAGAAATGGAGGATCTTCCTCGAACTTCATGCAAAACATA
132063 CTGAACCATGCC
129 CTGAACCATGCC
132075 C
1 C
132076 TTCCGAAGAG
Statistics
Matches: 137, Mismatches: 1, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
138 25 0.18
139 81 0.59
140 31 0.23
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (140 bp):
CATTTAAAGAAATATATATATATATATATTGTCAGTTTGGTTATTGATATAGTAATTCATTAGCC
AGGAAGAGGAAGAGGAAAGATTAGAGAAATGGAGGATCTTCCTCGAACTTCATGCAAAACATACT
GAACCATGCC
Found at i:144039 original size:216 final size:213
Alignment explanation
Indices: 143645--144076 Score: 789
Period size: 216 Copynumber: 2.0 Consensus size: 213
143635 CATGGCCTTC
143645 TGGTCCGATCCCTTTCAGAACCGCTATCACCATTGAGTTCTTATCTGTCTCTCTTTGTCCGACGT
1 TGGTCCGATCCCTTTCAGAACCGCTATCACCATTGAGTTCTTATCTGTCTCTCTTTGTCCGACGT
143710 GGAGAGGCAGTGCCGAGTGGGAACCCTGTCCTGGTTCTGGTTTGAATTTGAGAAGCAAGGTAGGT
66 GGAGAGGCAGTGCCGAGTGGGAACCCTGTCCTGGTTCTGGTTTGAATTTGAGAAGCAAGGTAGGT
143775 CGAAGCTGTACTACATCAGCAATGAGAGGCCTCATATGATATTTGGCTGCTATTG-A-ACACATT
131 CGAAGCTGTACTACATCAGCAATGAGAGGCCTCATATGATATTTGGCTGCTATTGAACACACATT
143838 GCTGCCA-TGCTAGTGCT
196 GCTGCCACTGCTAGTGCT
143855 TGGTCCGATCCCTTTCAGAACCGCTATCACCATTGAGTTTCTTATCTCTGTCTCTCTTTGTCCGA
1 TGGTCCGATCCCTTTCAGAACCGCTATCACCATTGAG-TTCTTA--TCTGTCTCTCTTTGTCCGA
143920 CGTGGAGAGGCAGGTGCCGAGTGGGAACCCTGTCCTGGTTCTGGTTTGAATTTTGAGAAGCAAGG
63 CGTGGAGAGGCA-GTGCCGAGTGGGAACCCTGTCCTGGTTCTGGTTTGAA-TTTGAGAAGCAAGG
143985 TAGGTCGAAGCTGTAACTACATCAGCAATGAGAGGCCTCATATGATATTTGGCTGCTATTGAACA
126 TAGGTCGAAGCTGT-ACTACATCAGCAATGAGAGGCCTCATATGATATTTGGCTGCTATTGAACA
144050 CACATTGCTGCCACTGCTAGTGCT
190 CACATTGCTGCCACTGCTAGTGCT
144074 TGG
1 TGG
144077 AATAAGGCCC
Statistics
Matches: 213, Mismatches: 0, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
210 37 0.17
211 6 0.03
213 31 0.15
214 37 0.17
215 28 0.13
216 46 0.22
217 1 0.00
218 14 0.07
219 13 0.06
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (213 bp):
TGGTCCGATCCCTTTCAGAACCGCTATCACCATTGAGTTCTTATCTGTCTCTCTTTGTCCGACGT
GGAGAGGCAGTGCCGAGTGGGAACCCTGTCCTGGTTCTGGTTTGAATTTGAGAAGCAAGGTAGGT
CGAAGCTGTACTACATCAGCAATGAGAGGCCTCATATGATATTTGGCTGCTATTGAACACACATT
GCTGCCACTGCTAGTGCT
Found at i:146595 original size:26 final size:26
Alignment explanation
Indices: 146566--146620 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
146556 AGGTTACTTC
146566 GGTTATCATAGAGTTCAAGGTATTAT
1 GGTTATCATAGAGTTCAAGGTATTAT
* ** * *
146592 GGTTCTTTTAGAGTTCAGGGTATTTT
1 GGTTATCATAGAGTTCAAGGTATTAT
146618 GGT
1 GGT
146621 CATTTGAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (26 bp):
GGTTATCATAGAGTTCAAGGTATTAT
Found at i:147855 original size:15 final size:15
Alignment explanation
Indices: 147835--147874 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
147825 TCACATAGAC
*
147835 ATTTTCACGTAGAAT
1 ATTTTCACGTAGAAA
* *
147850 ATTTTCACCTATAAA
1 ATTTTCACGTAGAAA
147865 ATTTTCACGT
1 ATTTTCACGT
147875 TATCAATAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.42
Consensus pattern (15 bp):
ATTTTCACGTAGAAA
Found at i:149092 original size:21 final size:21
Alignment explanation
Indices: 149066--149110 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
149056 GACTTCTGGG
* *
149066 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
149087 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
149108 CAA
1 CAA
149111 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:150824 original size:147 final size:149
Alignment explanation
Indices: 150557--150869 Score: 569
Period size: 147 Copynumber: 2.1 Consensus size: 149
150547 AGAGTCGAGG
150557 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
150622 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTA-T-
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
150685 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
150704 TCTACGCGGTCCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
150769 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGATATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
*
150834 TATGGCACTATGGTGCAAT
131 TATGGCACTACGGTGCAAT
150853 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
150870 TGCAATTATA
Statistics
Matches: 160, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
147 125 0.78
148 2 0.01
149 33 0.21
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:150864 original size:23 final size:23
Alignment explanation
Indices: 150837--150881 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
150827 ATTATTATAT
*
150837 GGCACTAT-GGTGCAATTCTACGC
1 GGCACT-TCGGTGCAATTATACGC
150860 GGCACTTCGGTGCAATTATACG
1 GGCACTTCGGTGCAATTATACG
150882 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTATACGC
Found at i:154376 original size:14 final size:15
Alignment explanation
Indices: 154357--154386 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
154347 GTCTATTTCT
154357 AGAGT-ATATGCATG
1 AGAGTAATATGCATG
154371 AGAGTAATATGCATG
1 AGAGTAATATGCATG
154386 A
1 A
154387 AGTCATGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
AGAGTAATATGCATG
Found at i:155802 original size:144 final size:146
Alignment explanation
Indices: 155524--155803 Score: 503
Period size: 144 Copynumber: 1.9 Consensus size: 146
155514 GTATATTTAT
155524 TATTTGGAACATGTGTGAAGTCTTGAAAGACACATACTTGATCCCTAGTATATGTATATGATTCT
1 TATTTGGAACATGTGTGAAGTCTTGAAAGACACATACTTGATCCCTAGTATATGTATATGATTCT
* * *
155589 TAAGGAATAATATGTGGTCCTTATGGACATTATTATATGGCACTACGGTGCAATTGTACGCGGTC
66 TAAGGAATAATATGTGGTCCTTATGGACATTATTATATGACACTACGGTGCAATTCTACGCAGTC
155654 CTTCGGGACATATGTA
131 CTTCGGGACATATGTA
155670 TATTTGG-A-ATGTGTGAAGTCTTGAAAGACACATACTTGATCCCTAGTATATGTATATGATTCT
1 TATTTGGAACATGTGTGAAGTCTTGAAAGACACATACTTGATCCCTAGTATATGTATATGATTCT
155733 TAAGGAATAATATGTGGTCCTTATGGACATTATTATATGACACTACGGTGCAATTCTACGCAG-C
66 TAAGGAATAATATGTGGTCCTTATGGACATTATTATATGACACTACGGTGCAATTCTACGCAGTC
155797 ACTTCGG
131 -CTTCGG
155804 TGCAATTATA
Statistics
Matches: 130, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
143 1 0.01
144 121 0.93
145 1 0.01
146 7 0.05
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (146 bp):
TATTTGGAACATGTGTGAAGTCTTGAAAGACACATACTTGATCCCTAGTATATGTATATGATTCT
TAAGGAATAATATGTGGTCCTTATGGACATTATTATATGACACTACGGTGCAATTCTACGCAGTC
CTTCGGGACATATGTA
Found at i:162126 original size:12 final size:13
Alignment explanation
Indices: 162111--162174 Score: 66
Period size: 12 Copynumber: 5.3 Consensus size: 13
162101 TTAAAATATA
162111 TATTATAT-TTAT
1 TATTATATATTAT
*
162123 TATTATATACTA-
1 TATTATATATTAT
* *
162135 TAGTAT-GATTAT
1 TATTATATATTAT
162147 TATTAT-TATTAT
1 TATTATATATTAT
162159 TATTAT-TATTAT
1 TATTATATATTAT
162171 TATT
1 TATT
162175 TTACAATATT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
11 3 0.07
12 39 0.89
13 2 0.05
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (13 bp):
TATTATATATTAT
Found at i:162127 original size:3 final size:3
Alignment explanation
Indices: 162119--162174 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
162109 TATATTATAT
* * *
162119 TTA TTA TTA TATA CTA -TA GTA TGA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
162164 TTA TTA TTA TT
1 TTA TTA TTA TT
162175 TTACAATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 43 0.91
4 2 0.04
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:169633 original size:21 final size:21
Alignment explanation
Indices: 169593--169647 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
169583 AAAAAAAATT
* *
169593 AAAGCAAGGATAATAAAGAAAA
1 AAAGCAAAGA-AAGAAAGAAAA
169615 AAAGCAAAGAAAGAAAGAAAA
1 AAAGCAAAGAAAGAAAGAAAA
**
169636 AAAATAAAGAAA
1 AAAGCAAAGAAA
169648 AAGGGATGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.75, C:0.04, G:0.16, T:0.05
Consensus pattern (21 bp):
AAAGCAAAGAAAGAAAGAAAA
Found at i:170776 original size:33 final size:32
Alignment explanation
Indices: 170646--170794 Score: 228
Period size: 32 Copynumber: 4.6 Consensus size: 32
170636 AAGCAATAGA
* *
170646 GGGCATC-TTGGAAGATTCAACATCACATATTG
1 GGGCATCTTTGG-AGATTCAACATCAAATGTTG
*
170678 GGGTATCTTTGGAGATTCAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
* *
170710 GGGTATCTTTGGAGATTAAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
170742 GGGCATCTTTGGAGATTCAACATCAAAATGTTG
1 GGGCATCTTTGGAGATTCAACATC-AAATGTTG
170775 GGGCATCTTTGGAGATTCAA
1 GGGCATCTTTGGAGATTCAA
170795 TATTGAATAT
Statistics
Matches: 109, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
32 77 0.71
33 32 0.29
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (32 bp):
GGGCATCTTTGGAGATTCAACATCAAATGTTG
Found at i:170949 original size:34 final size:33
Alignment explanation
Indices: 170911--171009 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 33
170901 TTTTTCTTTA
*
170911 AAAAATAAATTTGTCTCACTTGAGATAATTTCTC
1 AAAAA-AAATTTGTCTCACTTGAGACAATTTCTC
*
170945 AAAAAAATTTTTGTCTCACTTGAGACAATTTCTC
1 AAAAAAA-ATTTGTCTCACTTGAGACAATTTCTC
* * *
170979 AAAACAAATTCCGTCTCGCTTGAGACAATTT
1 AAAAAAAATT-TGTCTCACTTGAGACAATTT
171010 TTCTCTGAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
33 4 0.07
34 53 0.93
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (33 bp):
AAAAAAAATTTGTCTCACTTGAGACAATTTCTC
Found at i:171330 original size:75 final size:74
Alignment explanation
Indices: 171182--171347 Score: 187
Period size: 75 Copynumber: 2.2 Consensus size: 74
171172 AACAAAGTCA
* * * * *
171182 TCTCACTTGTGAC-TGTTTTACTTGAAAGAAGACATTTATTTGACTCAAGATTATTTTTCTCAAA
1 TCTC-CTTGAGACATGTTTTACTTAAAACAAGACATTTATTTCACTCAAGATTATGTTTCTCAAA
*
171246 ACAAGATTTG
65 ACAAAATTTG
* **
171256 TCTCGCTTGAGACATGTTTTATTTAAAACAAGACATTTTATTTCACTCAAGA-TA-GTTTCTTGA
1 TCTC-CTTGAGACATGTTTTACTTAAAACAAGACA-TTTATTTCACTCAAGATTATGTTTCTCAA
171319 AACAAAAATTTG
64 AAC-AAAATTTG
171331 TCTCCTTGAGACA-GTTT
1 TCTCCTTGAGACATGTTT
171348 CCCTTGAAAC
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
73 4 0.05
74 29 0.37
75 31 0.39
76 15 0.19
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (74 bp):
TCTCCTTGAGACATGTTTTACTTAAAACAAGACATTTATTTCACTCAAGATTATGTTTCTCAAAA
CAAAATTTG
Found at i:171355 original size:36 final size:36
Alignment explanation
Indices: 171314--171483 Score: 281
Period size: 36 Copynumber: 4.7 Consensus size: 36
171304 AAGATAGTTT
*
171314 CTTGAAACAAAAATTTGTCT-CCTTGAGACAGTTTCC
1 CTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCC
171350 CTTGAAACAAATTTTGTCTCCCTTGAGAC-GATTTCC
1 CTTGAAACAAATTTTGTCTCCCTTGAGACAG-TTTCC
171386 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCC
*
171422 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCT
1 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCC
*
171458 CTCGAAACAAATTTTGTCTCCCTTGA
1 CTTGAAACAAATTTTGTCTCCCTTGA
171484 AACAATTTTT
Statistics
Matches: 128, Mismatches: 3, Indels: 6
0.93 0.02 0.04
Matches are distributed among these distances:
35 11 0.09
36 116 0.91
37 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCC
Found at i:171373 original size:21 final size:21
Alignment explanation
Indices: 171347--171499 Score: 108
Period size: 21 Copynumber: 8.1 Consensus size: 21
171337 TGAGACAGTT
171347 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* *
171368 TCCCTTGAGAC-GA---T-T-
1 TCCCTTGAAACAAATTTTGTC
171383 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* *
171404 TCCCTTGAGAC--A----GTT
1 TCCCTTGAAACAAATTTTGTC
171419 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* *
171440 TCCCTTGAGAC--A-GTT-TC
1 TCCCTTGAAACAAATTTTGTC
*
171457 T--CTCGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
*
171476 TCCCTTGAAACAATTTTTGTC
1 TCCCTTGAAACAAATTTTGTC
171497 TCC
1 TCC
171500 ATTAAGAAGG
Statistics
Matches: 99, Mismatches: 15, Indels: 36
0.66 0.10 0.24
Matches are distributed among these distances:
15 28 0.28
16 2 0.02
17 6 0.06
18 4 0.04
19 6 0.06
20 2 0.02
21 51 0.52
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:171485 original size:57 final size:57
Alignment explanation
Indices: 171419--171585 Score: 206
Period size: 57 Copynumber: 3.0 Consensus size: 57
171409 TGAGACAGTT
* *
171419 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
* * *
171476 TCCCTTGAAACAATTTTTGTCTCCATTAAGA-AGGTTTCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACA-GTTTCCCTTGAAACAAATTTTGTC
*
171533 TTCCTT-AAGAC-AA-----TCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
1 TCCCTTGAA-ACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
171584 TC
1 TC
171586 TTGAGACGGT
Statistics
Matches: 97, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
51 35 0.36
52 1 0.01
56 4 0.04
57 57 0.59
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (57 bp):
TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
Found at i:171494 original size:93 final size:86
Alignment explanation
Indices: 171383--171644 Score: 300
Period size: 93 Copynumber: 3.0 Consensus size: 86
171373 TGAGACGATT
171383 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGA
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCT-CCTTGA
*
171448 GACAGTTTCTCTCGAAACAAATTTTGTC
65 GACA-TTTCACT-GAAACAAA----GTC
* * * *
171476 TCCCTTGAAACAATTTTTGTCTCCATTAAGA-AGGTTTCCCTTGAAACAAATTTTGTCTTCCTTA
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACA-GTTTCCCTTGAAACAAATTTTGTC-TCCTTG
* * * *
171540 AGACAATCTCCCTTGAGAC--AGTT
64 AGAC-ATTTCAC-TGAAACAAAGTC
*
171563 TCCCTTGAAACAAATTTTGTCT--CTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCTTGAG
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCTTGAG
171626 ACATTTCACTGAAACAAAG
66 ACATTTCACTGAAACAAAG
171645 ATTTTCTCGC
Statistics
Matches: 146, Mismatches: 16, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
82 5 0.03
83 5 0.03
84 11 0.08
85 29 0.20
87 23 0.16
91 1 0.01
92 1 0.01
93 68 0.47
94 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.36
Consensus pattern (86 bp):
TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCTTGAG
ACATTTCACTGAAACAAAGTC
Found at i:171552 original size:36 final size:36
Alignment explanation
Indices: 171474--171555 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
171464 ACAAATTTTG
* *
171474 TCTCCCTTGAAACAATTTTTGTCTCCATTAAGAAGG
1 TCTCCCTTGAAACAAATTTTGTCTCCATTAAGAAGA
*
171510 TTTCCCTTGAAACAAATTTTGTCTTCC-TTAAGACA-A
1 TCTCCCTTGAAACAAATTTTGTC-TCCATTAAGA-AGA
171546 TCTCCCTTGA
1 TCTCCCTTGA
171556 GACAGTTTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
36 36 0.90
37 4 0.10
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (36 bp):
TCTCCCTTGAAACAAATTTTGTCTCCATTAAGAAGA
Found at i:171649 original size:35 final size:34
Alignment explanation
Indices: 171550--171643 Score: 138
Period size: 34 Copynumber: 2.8 Consensus size: 34
171540 AGACAATCTC
171550 CCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCT
1 CCTTGAGACA-TTTCCCTTGAAACAAATTTTGTCT
*
171585 -CTTGAGACGGTTTCCCTTGAAACAAATTTTGTCT
1 CCTTGAGAC-ATTTCCCTTGAAACAAATTTTGTCT
*
171619 CCTTGAGACATTTCAC-TGAAACAAA
1 CCTTGAGACATTTCCCTTGAAACAAA
171644 GATTTTCTCG
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
33 9 0.17
34 37 0.69
35 8 0.15
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (34 bp):
CCTTGAGACATTTCCCTTGAAACAAATTTTGTCT
Found at i:171802 original size:43 final size:43
Alignment explanation
Indices: 171707--172029 Score: 335
Period size: 43 Copynumber: 7.3 Consensus size: 43
171697 TGATTTTCAA
* * **
171707 GGGTTTCTTGAAGAAAAGCTTGAGAAACCAT-GTGATATGTAG
1 GGGTTCCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAG
171749 GGGCTT-CTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAG
1 GGG-TTCCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAG
* * *
171792 GCGTTCCTTGATGACAAGCTTGAAGGACCATCGTGATATGTAG
1 GGGTTCCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAG
* * * * **
171835 GTGTTCTTTGAGGACAAGCTTGAGAAACCATCGTGATATGTAG
1 GGGTTCCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAG
* *
171878 GGGTTTCTTGATAAAAAGCTTGAGGGACCATCGTGATATGTAG
1 GGGTTCCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAG
**
171921 GGGTTCCTTGATGACAAATTTTATGACAAGCTTGAGAAACCATCGTGATATGTAG
1 GGGTTCCTTGATG---------A--A-AAGCTTGAGGGACCATCGTGATATGTAG
* * *
171976 GGGTTTCTCGATGAAAACCTTGAGGGACCATCGTGATATGTAG
1 GGGTTCCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAG
172019 GGGTTCCTTGA
1 GGGTTCCTTGA
172030 AGACAAATTT
Statistics
Matches: 235, Mismatches: 31, Indels: 29
0.80 0.11 0.10
Matches are distributed among these distances:
42 27 0.11
43 167 0.71
44 1 0.00
46 1 0.00
52 1 0.00
54 1 0.00
55 37 0.16
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (43 bp):
GGGTTCCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAG
Found at i:171865 original size:86 final size:86
Alignment explanation
Indices: 171707--172035 Score: 374
Period size: 86 Copynumber: 3.7 Consensus size: 86
171697 TGATTTTCAA
* ** *
171707 GGGTTTCTTGAAGAAAAGCTTGAGAAACCAT-GTGATATGTAGGGGCTTC-TTGATGAAAAGCTT
1 GGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAGGGG-TTCTTTGATGACAAGCTT
**
171770 GAGGGACCATCGTGATATGTAG
65 GAGAAACCATCGTGATATGTAG
* * * * * *
171792 GCGTTCCTTGATGACAAGCTTGAAGGACCATCGTGATATGTAGGTGTTCTTTGAGGACAAGCTTG
1 GGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAGGGGTTCTTTGATGACAAGCTTG
171857 AGAAACCATCGTGATATGTAG
66 AGAAACCATCGTGATATGTAG
*
171878 GGGTTTCTTGATAAAAAGCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAATTTT
1 GGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAGGGGTT-CTT--TG---------
171943 ATGACAAGCTTGAGAAACCATCGTGATATGTAG
54 ATGACAAGCTTGAGAAACCATCGTGATATGTAG
* * * *
171976 GGGTTTCTCGATGAAAACCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAAGACAA
1 GGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAGGGGTTCTTTGATGACAA
172036 ATTTGATGAA
Statistics
Matches: 206, Mismatches: 24, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
85 27 0.13
86 93 0.45
87 3 0.01
89 2 0.01
95 2 0.01
97 2 0.01
98 77 0.37
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (86 bp):
GGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATGTAGGGGTTCTTTGATGACAAGCTTG
AGAAACCATCGTGATATGTAG
Found at i:171972 original size:98 final size:98
Alignment explanation
Indices: 171841--172082 Score: 371
Period size: 98 Copynumber: 2.5 Consensus size: 98
171831 GTAGGTGTTC
* *
171841 TTTGAGGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATAAAAAGCTTGAGGGAC
1 TTTGATGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATAAAAACCTTGAGGGAC
*
171906 CATCGTGATATGTAGGGGTTCCTTGATGACAAA
66 CATCGTGATATGTAGGGGTTCCTTGAAGACAAA
* * *
171939 TTTTATGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTCGATGAAAACCTTGAGGGAC
1 TTTGATGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATAAAAACCTTGAGGGAC
172004 CATCGTGATATGTAGGGGTTCCTTGAAGACAAA
66 CATCGTGATATGTAGGGGTTCCTTGAAGACAAA
** * *
172037 TTTGATGA-ACA-CTTGAGGGACCAACGTGATATGTAGGGGTTCCTTG
1 TTTGATGACA-AGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTG
172083 GTGACAATTT
Statistics
Matches: 131, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
97 31 0.24
98 100 0.76
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (98 bp):
TTTGATGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATAAAAACCTTGAGGGAC
CATCGTGATATGTAGGGGTTCCTTGAAGACAAA
Found at i:171977 original size:55 final size:53
Alignment explanation
Indices: 171896--172093 Score: 213
Period size: 54 Copynumber: 3.9 Consensus size: 53
171886 TGATAAAAAG
171896 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAATTTTATGACAA
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAA-TTTATGACAA
** * *
171950 GCTTGAGAAACCATCGTGATATGTAGGGGTTTCTCGATG---AA---A--AC--
1 -CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAATTTATGACAA
*
171994 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAAGACAAATTTGATGA-ACA
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAATTT-ATGACA-A
* *
172048 CTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGGTGAC-AATTTA
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAATTTA
172094 GAAACTGAGC
Statistics
Matches: 119, Mismatches: 12, Indels: 27
0.75 0.08 0.17
Matches are distributed among these distances:
43 33 0.28
46 4 0.03
48 1 0.01
50 1 0.01
52 4 0.03
53 5 0.04
54 37 0.31
55 34 0.29
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAATTTATGACAA
Found at i:172251 original size:90 final size:91
Alignment explanation
Indices: 172117--172430 Score: 535
Period size: 90 Copynumber: 3.5 Consensus size: 91
172107 ATTTTCGAGA
*
172117 GTTTCTTGA-TTTTTAAGTCATTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
1 GTTTCTTGATTTTTTAAGTCATTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
*
172181 AGATCTAAGAAACTGAGCCTTCGGGG
66 AGATTTAAGAAACTGAGCCTTCGGGG
* *
172207 GTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
1 GTTTCTTGATTTTTTAAGTCATTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
172271 AGATTTAAGAAACTGAGCCTTCGGGG
66 AGATTTAAGAAACTGAGCCTTCGGGG
*
172297 GTTTCTTGATTTTTTAAGTCATTCAGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATG
1 GTTTCTTGATTTTTTAAGTCATTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
*
172362 AGATTTAAGAAACTAAGCCTTCGGGG
66 AGATTTAAGAAACTGAGCCTTCGGGG
* *
172388 GTTTCTTGATTTTTTAAGTCCTTCAGG-CAACCATAAGACCTTC
1 GTTTCTTGATTTTTTAAGTCATTCAGGCCATCCATAAGACCTTC
172431 GGGCAAAATG
Statistics
Matches: 214, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
90 111 0.52
91 103 0.48
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (91 bp):
GTTTCTTGATTTTTTAAGTCATTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
AGATTTAAGAAACTGAGCCTTCGGGG
Found at i:175712 original size:20 final size:20
Alignment explanation
Indices: 175684--175725 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
175674 CATTAATGGA
*
175684 TCAGACCGGTTCAGATTGAC
1 TCAGACCGGTTCAGATTAAC
* *
175704 TCAGGCCGGTTCGGATTAAC
1 TCAGACCGGTTCAGATTAAC
175724 TC
1 TC
175726 GGTTTGGTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (20 bp):
TCAGACCGGTTCAGATTAAC
Found at i:177774 original size:23 final size:23
Alignment explanation
Indices: 177680--177767 Score: 158
Period size: 23 Copynumber: 3.8 Consensus size: 23
177670 AATAAAATAT
*
177680 TAGGTACCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
177703 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
177726 TATGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
177749 TAGGTAGCGCTTATATAAT
1 TAGGTAGCGCTTATATAAT
177768 AAAATAGAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:178187 original size:23 final size:23
Alignment explanation
Indices: 178161--178210 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
178151 ACATATTTTA
*
178161 TTATATAAACACTACCTATTACG
1 TTATATAAACACTACCTAATACG
* *
178184 TTATATAAACGCTACCTAATATG
1 TTATATAAACACTACCTAATACG
178207 TTAT
1 TTAT
178211 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (23 bp):
TTATATAAACACTACCTAATACG
Found at i:178291 original size:87 final size:87
Alignment explanation
Indices: 178145--178403 Score: 403
Period size: 87 Copynumber: 3.0 Consensus size: 87
178135 ACAAATTAAA
* * * *
178145 TAATTAACATATTTTATTATATAAACACTACCTATTACGTTATATAA-ACGCTACCTAATATGTT
1 TAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGATG-TACCTAATATGTT
178209 ATTGTGCTTGATAATGTTTCCAG
65 ATTGTGCTTGATAATGTTTCCAG
* * * *
178232 TAATTAACCTATTTTATTATATAAGCGCTATCTATTATATTATATAAGTTGTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGATGTACCTAATATGTTA
*
178297 TTGTGCTTGATAATGTTTCGAG
66 TTGTGCTTGATAATGTTTCCAG
178319 TAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGATGTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGATGTACCTAATATGTTA
* *
178384 TTGTGCTTAATAATATTTCC
66 TTGTGCTTGATAATGTTTCC
178404 GGTTAAATGA
Statistics
Matches: 155, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
87 154 0.99
88 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.44
Consensus pattern (87 bp):
TAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGATGTACCTAATATGTTA
TTGTGCTTGATAATGTTTCCAG
Found at i:181192 original size:71 final size:70
Alignment explanation
Indices: 181079--181222 Score: 270
Period size: 71 Copynumber: 2.0 Consensus size: 70
181069 AAATTGGTAT
*
181079 TTTTAATTAAATTTGTCTCTAATAATAGAATTTTTAAAAATTTAAATATATTTAATTTATAATTA
1 TTTTAATTAAAATTGTCTCTAATAATAGAATTTTTAAAAATTTAAATATATTTAATTTATAATTA
181144 TGTTA
66 TGTTA
181149 TTTTAATTATAAATTGTCTCTAATAATAGAATTTTTAAAAATTTAAATATATTTAATTTATAATT
1 TTTTAATTA-AAATTGTCTCTAATAATAGAATTTTTAAAAATTTAAATATATTTAATTTATAATT
181214 ATGTTA
65 ATGTTA
181220 TTT
1 TTT
181223 CAAATTTTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
70 9 0.12
71 63 0.88
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (70 bp):
TTTTAATTAAAATTGTCTCTAATAATAGAATTTTTAAAAATTTAAATATATTTAATTTATAATTA
TGTTA
Found at i:181265 original size:13 final size:13
Alignment explanation
Indices: 181243--181280 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
181233 TACTATAATT
*
181243 TTAAGAAAATATA
1 TTAATAAAATATA
*
181256 TTAATTAAATATA
1 TTAATAAAATATA
181269 TTAATAAAATAT
1 TTAATAAAATAT
181281 TTATTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
TTAATAAAATATA
Found at i:181389 original size:21 final size:22
Alignment explanation
Indices: 181365--181408 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
181355 AAAACATTTC
181365 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
181386 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
181408 T
1 T
181409 AAAAATATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:181588 original size:2 final size:2
Alignment explanation
Indices: 181581--181614 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
181571 CCTTTTCTTG
181581 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
181615 TTATGTGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:181645 original size:16 final size:17
Alignment explanation
Indices: 181624--181656 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
181614 TTTATGTGAC
*
181624 TAATATGAAA-TAATAA
1 TAATATAAAAGTAATAA
181640 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
181657 CAAATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:181680 original size:12 final size:12
Alignment explanation
Indices: 181658--181704 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
181648 AAGTAATAAC
*
181658 AAATTAATATTA
1 AAATAAATATTA
*
181670 TAATAAATATTTA
1 AAATAAATA-TTA
181683 AAATAAAT-TTA
1 AAATAAATATTA
181694 AAAGTAAATAT
1 AAA-TAAATAT
181705 ATTAAATTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 6 0.21
12 12 0.41
13 11 0.38
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
AAATAAATATTA
Found at i:183052 original size:3 final size:3
Alignment explanation
Indices: 183044--183127 Score: 118
Period size: 3 Copynumber: 28.0 Consensus size: 3
183034 TAATTATATT
* *
183044 ATA ATA ATA AT- ATA TATA AT- ATAA ATA ATA ATA ATA ATA TTT ATA
1 ATA ATA ATA ATA ATA -ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
183089 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
183128 TAAGTAAAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
2 4 0.05
3 64 0.88
4 5 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:183410 original size:76 final size:76
Alignment explanation
Indices: 183284--183443 Score: 275
Period size: 76 Copynumber: 2.1 Consensus size: 76
183274 GGTCTTATGA
* * *
183284 ATGACCCTGAGGGTTTGAAAACATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
*
183349 AGGACTTACAG
66 AAGACTTACAG
*
183360 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
183425 AAGACTTACAG
66 AAGACTTACAG
183436 ATGACCCT
1 ATGACCCT
183444 GAGGGTTTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 79 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (76 bp):
ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
AAGACTTACAG
Found at i:183578 original size:76 final size:76
Alignment explanation
Indices: 183453--183954 Score: 846
Period size: 76 Copynumber: 6.6 Consensus size: 76
183443 TGAGGGTTTT
* *
183453 TCCCGAAGGC-TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAA
1 TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGGTTTGAAAA
183517 CATCAAAAAGC
66 CATCAAAAAGC
* * *
183528 TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAAGACTTACAGATGACCCTGAGGGTTTAAAAA
1 TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGGTTTGAAAA
183593 CATCAAAAAGC
66 CATCAAAAAGC
* *
183604 TCCCGAAGGCTTTTTGGAAACATCATGCACCGTAGGACTTACAGATGACCCTAAGGCTTTGAAAA
1 TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGGTTTGAAAA
183669 CATCAAAAAGC
66 CATCAAAAAGC
* *
183680 CCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTGAGGGTTTGAAAA
1 TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGGTTTGAAAA
183745 CATCAAAAAGC
66 CATCAAAAAGC
* *
183756 TCCCGAAGGC-TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAAGGTTTTGAAA
1 TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT-AAGGGTTTGAAA
183820 ACATCAAAAAGC
65 ACATCAAAAAGC
*
183832 TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTGAGGGTTTGAAAA
1 TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGGTTTGAAAA
183897 CATCAAAAAGC
66 CATCAAAAAGC
* * *
183908 TCCCGAAGGCTTTTTAGAAACATCGTGCACTGTAGGACATACAGATG
1 TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
183955 TGTGAAATAG
Statistics
Matches: 400, Mismatches: 24, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
75 50 0.12
76 310 0.77
77 40 0.10
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (76 bp):
TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGGTTTGAAAA
CATCAAAAAGC
Found at i:184267 original size:163 final size:165
Alignment explanation
Indices: 183958--184278 Score: 508
Period size: 163 Copynumber: 2.0 Consensus size: 165
183948 ACAGATGTGT
* * *
183958 GAAATAGTTTACTAAGTAAAAAAACTATGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTT
1 GAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCATACTTTTCAACAATTTCATTTTT
* * *
184023 AGAAAAGATTAAATGAAAAACTTTGGAAATCGTTTTCTCATTATGTTTCAAGATAACCTGTTGAT
66 AGAAAAGATAAAATGAAAAACTATGGAAATCGTTTTCTCATTATGTTTCAAGATAACATGTTGAT
184088 TGGGTAACATGCCCCAATCTCAAGATAAGGTGTTG
131 TGGGTAACATGCCCCAATCTCAAGATAAGGTGTTG
184123 GAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTT-ATACTTTTCAACAATTTCA-TTTT
1 GAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCATACTTTTCAACAATTTCATTTTT
* *
184186 AGAAAAGATAAAAATGAGAAACTATGGAAATCG-TTT-TCATTATGTTTTTGAA-ATAACATGTT
66 AGAAAAGAT-AAAATGAAAAACTATGGAAATCGTTTTCTCATTATG--TTTCAAGATAACATGTT
184248 GATTGGGTAACATGCCCCAATCTCAAGATAA
128 GATTGGGTAACATGCCCCAATCTCAAGATAA
184279 TGCTCATTCT
Statistics
Matches: 145, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
162 8 0.06
163 56 0.39
164 43 0.30
165 38 0.26
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (165 bp):
GAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCATACTTTTCAACAATTTCATTTTT
AGAAAAGATAAAATGAAAAACTATGGAAATCGTTTTCTCATTATGTTTCAAGATAACATGTTGAT
TGGGTAACATGCCCCAATCTCAAGATAAGGTGTTG
Found at i:184819 original size:22 final size:22
Alignment explanation
Indices: 184794--184867 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 22
184784 GATAAAGCTT
* *
184794 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTAAAAAGAGAATCTA
184816 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
*
184838 TCATCTTTAAAAAGAGAATTTA
1 TCATCTTTAAAAAGAGAATCTA
*
184860 TAATCTTT
1 TCATCTTT
184868 GAAGAGTGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:187252 original size:113 final size:114
Alignment explanation
Indices: 187057--187378 Score: 395
Period size: 107 Copynumber: 2.9 Consensus size: 114
187047 GATCATGCAG
* *
187057 TTCATC-TT-AAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAG--AGATAACTCAAAGA
1 TTCATCTTTCAAA-TCCAATGATTGGTTCTGGGGTTCCTACCAAATCAGATAGATAACTCAAAGA
* * *
187118 ACAC-TACAGAAGATGCTATTGGGCCTCCTTATTTCTACTATGAGC-AAA
65 ACACTTACAGAAGATGATATTGGGTCTCCTTATTTCTACTATAAGCAAAA
*
187166 TTCATCTTTC-AATCCAATGATTGGTTCTGTGGTTTCCTACCAAATCAGATAAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTG-GGGTTCCTACCAAATCAGAT-AGATAACTCAAAG
*
187230 AACACTTACAGAAGAT-ATATTGGGTCTCC---TTTATACTATAAGCAAAA
64 AACACTTACAGAAGATGATATTGGGTCTCCTTATTTCTACTATAAGCAAAA
* * *
187277 TTCATCTTTCAAATCTAATGATTGG----GGGGCTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCCTACCAAATCAGAT-AGATAACTCAAAGA
* *
187338 ACACTTCCAGAAGATGTTATTGGGTCTCCTTATTTCTACTA
65 ACACTTACAGAAGATGATATTGGGTCTCCTTATTTCTACTA
187379 CGAGAACGTG
Statistics
Matches: 185, Mismatches: 15, Indels: 24
0.83 0.07 0.11
Matches are distributed among these distances:
107 45 0.24
108 13 0.07
109 23 0.12
110 31 0.17
111 21 0.11
112 13 0.07
113 29 0.16
114 10 0.05
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCCTACCAAATCAGATAGATAACTCAAAGAA
CACTTACAGAAGATGATATTGGGTCTCCTTATTTCTACTATAAGCAAAA
Found at i:189489 original size:8 final size:8
Alignment explanation
Indices: 189476--189528 Score: 70
Period size: 8 Copynumber: 6.4 Consensus size: 8
189466 TTTCTCCTTC
189476 TTCTTTTT
1 TTCTTTTT
189484 TTCTTTTT
1 TTCTTTTT
*
189492 TCCTTTTT
1 TTCTTTTT
189500 TATCTTTTT
1 T-TCTTTTT
*
189509 TATCTCTTT
1 T-TCTTTTT
189518 TTCTTTTT
1 TTCTTTTT
189526 TTC
1 TTC
189529 CTTCTTTGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
8 25 0.62
9 15 0.38
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (8 bp):
TTCTTTTT
Found at i:189499 original size:17 final size:17
Alignment explanation
Indices: 189479--189531 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
189469 CTCCTTCTTC
189479 TTTTTTTCTTTTTTCCT
1 TTTTTTTCTTTTTTCCT
* *
189496 TTTTTATCTTTTTT-AT
1 TTTTTTTCTTTTTTCCT
*
189512 CTCTTTTTCTTTTTTTCCT
1 -TTTTTTTC-TTTTTTCCT
189531 T
1 T
189532 CTTTGCTGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
16 1 0.04
17 19 0.68
18 7 0.25
19 1 0.04
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTCTTTTTTCCT
Found at i:189545 original size:27 final size:26
Alignment explanation
Indices: 189515--189568 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
189505 TTTTTATCTC
189515 TTTTTCTTTTTTTCCTTCTTTGCTGGA
1 TTTTTC-TTTTTTCCTTCTTTGCTGGA
*
189542 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCCTTCTTTGCTGGA
189568 T
1 T
189569 GAGTATAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.04, C:0.17, G:0.11, T:0.69
Consensus pattern (26 bp):
TTTTTCTTTTTTCCTTCTTTGCTGGA
Found at i:192342 original size:23 final size:23
Alignment explanation
Indices: 192316--192360 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
192306 CACCACAGCT
*
192316 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
192339 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
192361 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:192618 original size:146 final size:148
Alignment explanation
Indices: 192340--192639 Score: 525
Period size: 146 Copynumber: 2.0 Consensus size: 148
192330 GAAGTGCCCC
192340 GTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
1 GTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
*
192405 ATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATAC
66 A-ATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATAC
192470 ATATGTC-CTAAAGAACCGA
130 ATATGTCTC-AAAGAACCGA
192489 GTAGAATTGCA-CGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
1 GTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
* *
192553 -ATACATATGCTAAGGATCAAGTATGTGTCTTTCGAGACTTCACACATGTTCCAAAGAATATACA
66 AATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATACA
*
192617 TATGTCTCAAAGAACCGC
131 TATGTCTCAAAGAACCGA
192635 GTAGA
1 GTAGA
192640 CCCTCGACTC
Statistics
Matches: 146, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
146 81 0.55
147 1 0.01
148 53 0.36
149 11 0.08
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (148 bp):
GTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
AATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATACA
TATGTCTCAAAGAACCGA
Found at i:193273 original size:2 final size:2
Alignment explanation
Indices: 193266--193303 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
193256 ATTTCATTTC
193266 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
193304 CCTCAAGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:193560 original size:18 final size:18
Alignment explanation
Indices: 193539--193573 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
193529 TCCCATCTAG
193539 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
193557 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
193574 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:194170 original size:21 final size:21
Alignment explanation
Indices: 194146--194190 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
194136 TCTTGTTCGT
* *
194146 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
194167 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
194188 TTG
1 TTG
194191 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:197307 original size:23 final size:23
Alignment explanation
Indices: 197281--197325 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
197271 CACCACAGCT
* *
197281 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATACACCGAAGTGCCC
* *
197304 CGTAGAATTACACCGTAGTGCC
1 CGTAGAAATACACCGAAGTGCC
197326 ATATAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCC
Found at i:197575 original size:149 final size:149
Alignment explanation
Indices: 197305--197607 Score: 543
Period size: 149 Copynumber: 2.0 Consensus size: 149
197295 GAAGTGCCCC
197305 GTAGAATTACACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
1 GTAGAATTACACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
* *
197370 ATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATAC
66 ATATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATATTCCAAAGAATATAC
197435 ATATGTCCTAAAGAACCGA
131 ATATGTCCTAAAGAACCGA
*
197454 GTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
1 GTAGAATTACACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
* *
197519 ATATACATATGCTAAGGATCAAGTATGTGTCTTTCGAGACTTCACACATATTCCAAAGAATATAC
66 ATATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATATTCCAAAGAATATAC
* *
197584 ATATGTCTTAAAGAACCGC
131 ATATGTCCTAAAGAACCGA
197603 GTAGA
1 GTAGA
197608 CCCTCGACTC
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 147 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (149 bp):
GTAGAATTACACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
ATATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATATTCCAAAGAATATAC
ATATGTCCTAAAGAACCGA
Found at i:198244 original size:2 final size:2
Alignment explanation
Indices: 198237--198268 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
198227 ATTTCATTTC
198237 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
198269 CCTCAAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:198526 original size:18 final size:18
Alignment explanation
Indices: 198505--198539 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
198495 TCCCATCTAG
198505 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
198523 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
198540 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:199148 original size:21 final size:21
Alignment explanation
Indices: 199124--199168 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
199114 TTTTGTTCGT
* *
199124 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
199145 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
199166 TTG
1 TTG
199169 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:200654 original size:14 final size:14
Alignment explanation
Indices: 200637--200675 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
200627 TAAAAGTATG
200637 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
200651 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
200666 AATG-AAAATG
1 AATGCAAAATG
200676 CATGTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:202977 original size:26 final size:27
Alignment explanation
Indices: 202945--203007 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
202935 CTAACAGACA
*
202945 AATAAAATAATTA-ATAAAATAAT-ATT
1 AATAAAATAATTATA-AAAATAATAAGT
202971 AATAAAATAA-TATAAAAATAATAAGT
1 AATAAAATAATTATAAAAATAATAAGT
202997 AATAAAA-AATT
1 AATAAAATAATT
203008 TGAAAGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 12 0.36
26 21 0.64
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (27 bp):
AATAAAATAATTATAAAAATAATAAGT
Found at i:202982 original size:3 final size:3
Alignment explanation
Indices: 202945--203001 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
202935 CTAACAGACA
* *
202945 AAT AA- AAT AATT AAT AA- AAT AAT ATT AAT AA- AAT AAT -AT AAA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
202987 AAT AAT AAGT AAT AA
1 AAT AAT AA-T AAT AA
203002 AAAATTTGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
2 8 0.18
3 30 0.68
4 6 0.14
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:202988 original size:11 final size:14
Alignment explanation
Indices: 202945--203003 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
202935 CTAACAGACA
202945 AATAAAAT-A-ATT
1 AATAAAATAATATT
202957 AATAAAATAATATT
1 AATAAAATAATATT
202971 AATAAAATAATA-T
1 AATAAAATAATATT
*
202984 -A-AAAATAATAAGT
1 AATAAAATAAT-ATT
202997 AATAAAA
1 AATAAAA
203004 AATTTGAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
11 8 0.20
12 10 0.24
13 3 0.07
14 16 0.39
15 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
AATAAAATAATATT
Found at i:203640 original size:21 final size:22
Alignment explanation
Indices: 203616--203659 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
203606 AAACATTTTC
203616 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
203637 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
203659 T
1 T
203660 AAAAATATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:203870 original size:2 final size:2
Alignment explanation
Indices: 203863--203898 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
203853 ATTATTTAAA
203863 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
203899 TTATTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:203942 original size:17 final size:17
Alignment explanation
Indices: 203920--203953 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
203910 TTTATGTGAC
203920 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
203937 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
203954 CAAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:203978 original size:16 final size:16
Alignment explanation
Indices: 203959--203991 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
203949 AATAACAAAT
203959 TAATA-TTATAAATAAA
1 TAATATTTA-AAATAAA
203975 TAATATTTAAAATAAA
1 TAATATTTAAAATAAA
203991 T
1 T
203992 TTAAAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATTTAAAATAAA
Found at i:205231 original size:79 final size:79
Alignment explanation
Indices: 205095--205251 Score: 305
Period size: 79 Copynumber: 2.0 Consensus size: 79
205085 TCTGGAATCA
*
205095 ACGACGGCGGCTGGGACGTGTCCCTAGGGTATCATCACCCTAGGGTTTCCTGTTGGATATCTCTG
1 ACGACGGCGGCTGGGACGTGTCCCTAGGGTATCATCACCCTAGGGTTTCCTGCTGGATATCTCTG
205160 GACCGTTGGATCTG
66 GACCGTTGGATCTG
205174 ACGACGGCGGCTGGGACGTGTCCCTAGGGTATCATCACCCTAGGGTTTCCTGCTGGATATCTCTG
1 ACGACGGCGGCTGGGACGTGTCCCTAGGGTATCATCACCCTAGGGTTTCCTGCTGGATATCTCTG
205239 GACCGTTGGATCT
66 GACCGTTGGATCT
205252 CGCCAGATCC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.15, C:0.26, G:0.31, T:0.27
Consensus pattern (79 bp):
ACGACGGCGGCTGGGACGTGTCCCTAGGGTATCATCACCCTAGGGTTTCCTGCTGGATATCTCTG
GACCGTTGGATCTG
Found at i:205441 original size:3 final size:3
Alignment explanation
Indices: 205435--205522 Score: 124
Period size: 3 Copynumber: 28.7 Consensus size: 3
205425 TATTATTACT
*
205435 TAA TAA TAA TAA TAA TATA TAAA TAA T-A TAAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TA-A T-AA TAA TAA T-AA TAA TAA TAA TAA TAA
*
205482 TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
205523 TAAGTAAAAT
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.03
3 68 0.88
4 6 0.08
5 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:205938 original size:42 final size:41
Alignment explanation
Indices: 205890--206002 Score: 181
Period size: 42 Copynumber: 2.7 Consensus size: 41
205880 TTCCGAATTC
* *
205890 CCGTGTTTGTTTCACGTAATTCGTTTTTCGGGAAATGTTTT
1 CCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTT
205931 CTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTT
1 C-CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTT
*
205973 CCAGTGTTTGTTTCACGTAATTGGTTTTCC
1 CC-GTGTTTGTTTCACGTAATTCGTTTTCC
206003 TGAACGTAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
41 2 0.03
42 65 0.97
ACGTcount: A:0.15, C:0.17, G:0.20, T:0.48
Consensus pattern (41 bp):
CCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTT
Found at i:206227 original size:22 final size:23
Alignment explanation
Indices: 206197--206249 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
206187 TTTATTAATT
206197 TATTAATATTTATAATAATATAA
1 TATTAATATTTATAATAATATAA
*
206220 TATT-ATATTTTTAATATTATATAA
1 TATTAATATTTATAATA--ATATAA
206244 -ATTAAT
1 TATTAAT
206250 CAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 11 0.42
23 7 0.27
24 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTATAATAATATAA
Found at i:206324 original size:30 final size:28
Alignment explanation
Indices: 206280--206355 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 28
206270 AAGATATTAT
* *
206280 ATTTTTAT-TTTAATAATGTATAATAAAAA
1 ATTTATATATTTAATAATGAATAAT--AAA
**
206309 ATTTATATATTTAATAATGAATAATATT
1 ATTTATATATTTAATAATGAATAATAAA
206337 ATTTATATATTTAAATAAT
1 ATTTATATATTT-AATAAT
206356 ATTTTAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 13 0.32
29 13 0.32
30 15 0.37
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
ATTTATATATTTAATAATGAATAATAAA
Found at i:206386 original size:23 final size:23
Alignment explanation
Indices: 206360--206404 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
206350 AATAATATTT
206360 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
206383 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
206405 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:206506 original size:30 final size:33
Alignment explanation
Indices: 206436--206499 Score: 89
Period size: 31 Copynumber: 2.0 Consensus size: 33
206426 AAATAATTTA
*
206436 TAATATTTTTATTTCACTAAAATATACAAAAAT
1 TAATATTTTTATTTCAATAAAATATACAAAAAT
206469 TAATATTTTTA-TT-AATAAAATTATA-AAAAAT
1 TAATATTTTTATTTCAATAAAA-TATACAAAAAT
206500 ACTATTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 12 0.41
32 6 0.21
33 11 0.38
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (33 bp):
TAATATTTTTATTTCAATAAAATATACAAAAAT
Found at i:206544 original size:18 final size:20
Alignment explanation
Indices: 206491--206536 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
206481 TAATAAAATT
*
206491 ATAAA-AAATACTATTTAATA
1 ATAAATAAATA-TTTTTAATA
206511 ATAAATAAATTATTTTTAATA
1 ATAAATAAA-TATTTTTAATA
206532 ATAAA
1 ATAAA
206537 AAAGTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAAATAAATATTTTTAATA
Done.