Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006485.1 Hibiscus syriacus cultivar Beakdansim tig00015761_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: 144163
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Found at i:3357 original size:3 final size:3
Alignment explanation
Indices: 3345--3377 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
3335 TTAACCCGAG
3345 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3378 GCATATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:4374 original size:41 final size:40
Alignment explanation
Indices: 4104--4415 Score: 124
Period size: 41 Copynumber: 7.6 Consensus size: 40
4094 AGACAAGTAC
* **
4104 TTTAGTGGCATTTCTATATAAACGCCGCTAAAGACTTGTACA
1 TTTAGTGGCATTTTTATATAAACGCCG-TAAAGACTCATA-A
* * * * *
4146 -TTAGTGTCGTTTTTATACT-AATGCCAGTAAACACTCGTAA
1 TTTAGTGGCATTTTTATA-TAAACGCC-GTAAAGACTCATAA
* * **
4186 TTTAGTGGCATTTTTATACAAA-TCCGTAATAGGAAACAT-A
1 TTTAGTGGCATTTTTATATAAACGCCGTAA-A-GACTCATAA
* * * *
4226 TATAATGGCATTTTTGA-A-AGAACGCCGTAAGAGATTCATAT
1 TTTAGTGGCATTTTT-ATATA-AACGCCGTAA-AGACTCATAA
* * **
4267 TTGTAATGGCATTTTT-TGAATAAACGTCGTAATTTA-TCAGTACA
1 TT-TAGTGGCATTTTTAT--ATAAACGCCGTAA-AGACTCA-TA-A
* * *
4311 -TTAGTGGCGA-TTGTATACAAATGCCGCTAAAGACTCATAA
1 TTTAGTGGC-ATTTTTATATAAACGCCG-TAAAGACTCATAA
* * *
4351 TTTAGTGGCATTTTTATATAAATGCCACTATAGACTCATACA
1 TTTAGTGGCATTTTTATATAAACGCC-GTAAAGACTCATA-A
* *
4393 -TTAGTGGCGTTTTTATACAAACG
1 TTTAGTGGCATTTTTATATAAACG
4416 TCGCTATAGA
Statistics
Matches: 204, Mismatches: 41, Indels: 51
0.69 0.14 0.17
Matches are distributed among these distances:
39 5 0.02
40 28 0.14
41 120 0.59
42 34 0.17
43 16 0.08
44 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (40 bp):
TTTAGTGGCATTTTTATATAAACGCCGTAAAGACTCATAA
Found at i:4411 original size:82 final size:81
Alignment explanation
Indices: 4104--4415 Score: 217
Period size: 82 Copynumber: 3.8 Consensus size: 81
4094 AGACAAGTAC
* ** * * *
4104 TTTAGTGGCATTTCTATATAAACGCCGCTAA-AGACTTGTACATTAGTGTCGTTTTTATACTAAT
1 TTTAGTGGCATTTTTATATAAACGCC-CTAATAGACTCATACATTAGTGGCGTTTTTATACAAAC
* *
4168 GCCAGTAAACACTCGTAA
65 GCC-GTAAAGACTCATAA
* * * ** * * *
4186 TTTAGTGGCATTTTTATACAAA-TCCGTAATAGGAAACATATA-TAATGGCATTTTTGA-A-AGA
1 TTTAGTGGCATTTTTATATAAACGCCCTAATA-GACTCATACATTAGTGGCGTTTTT-ATACA-A
* *
4247 ACGCCGTAAGAGATTCATAT
63 ACGCCGTAA-AGACTCATAA
* * * ** * *
4267 TTGTAATGGCATTTTT-TGAATAAACGTCGTAATTTA-TCAGTACATTAGTGGCGATTGTATACA
1 TT-TAGTGGCATTTTTAT--ATAAACGCCCTAATAGACTCA-TACATTAGTGGCGTTTTTATACA
*
4330 AATGCCGCTAAAGACTCATAA
62 AACGCCG-TAAAGACTCATAA
*
4351 TTTAGTGGCATTTTTATATAAATGCCACT-ATAGACTCATACATTAGTGGCGTTTTTATACAAAC
1 TTTAGTGGCATTTTTATATAAACGCC-CTAATAGACTCATACATTAGTGGCGTTTTTATACAAAC
4415 G
65 G
4416 TCGCTATAGA
Statistics
Matches: 171, Mismatches: 42, Indels: 34
0.69 0.17 0.14
Matches are distributed among these distances:
80 7 0.04
81 28 0.16
82 74 0.43
83 25 0.15
84 33 0.19
85 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (81 bp):
TTTAGTGGCATTTTTATATAAACGCCCTAATAGACTCATACATTAGTGGCGTTTTTATACAAACG
CCGTAAAGACTCATAA
Found at i:4423 original size:41 final size:40
Alignment explanation
Indices: 4310--4444 Score: 153
Period size: 41 Copynumber: 3.3 Consensus size: 40
4300 TTATCAGTAC
* * *
4310 ATTAGTGGCGATTGTATACAAATGCCGCTAAAGACTCATA
1 ATTAGTGGCGTTTTTATACAAATGCCGCTATAGACTCATA
* * *
4350 ATTTAGTGGCATTTTTATATAAATGCCACTATAGACTCATA
1 A-TTAGTGGCGTTTTTATACAAATGCCGCTATAGACTCATA
* * * *
4391 CATTAGTGGCGTTTTTATACAAACGTCGCTATAGAATCGTA
1 -ATTAGTGGCGTTTTTATACAAATGCCGCTATAGACTCATA
*
4432 TTTAGTGGCGTTT
1 ATTAGTGGCGTTT
4445 AGGTTAACAA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
40 13 0.16
41 65 0.82
42 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (40 bp):
ATTAGTGGCGTTTTTATACAAATGCCGCTATAGACTCATA
Found at i:5196 original size:23 final size:22
Alignment explanation
Indices: 5151--5206 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
5141 CATTTTAATA
*
5151 AAAATATTAATTATTAACATATTT
1 AAAATA-TATTTATTAACATA-TT
**
5175 AAAATATATTTATTAATTTATT
1 AAAATATATTTATTAACATATT
5197 AATAATATAT
1 AA-AATATAT
5207 AATATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.14
23 18 0.64
24 6 0.21
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAATATATTTATTAACATATT
Found at i:5211 original size:30 final size:32
Alignment explanation
Indices: 5155--5221 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 32
5145 TTAATAAAAA
*
5155 TATTAATTATTAACATATTTAAAATAT-AT-T
1 TATTAATTATTAACATATATAAAATATAATAT
* *
5185 TATTAATTTATTAATA-ATATATAATATAATAT
1 TATTAA-TTATTAACATATATAAAATATAATAT
5217 TATTA
1 TATTA
5222 CAATAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 15 0.48
31 10 0.32
32 6 0.19
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (32 bp):
TATTAATTATTAACATATATAAAATATAATAT
Found at i:6727 original size:21 final size:21
Alignment explanation
Indices: 6688--6739 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
6678 CGTTAAGACC
*
6688 TTTCAATGAAAGGGCTTAACCT
1 TTTC-ATGAAAGGACTTAACCT
* *
6710 TTTCATGAAAGGATTTAATCT
1 TTTCATGAAAGGACTTAACCT
6731 TTTCATGAA
1 TTTCATGAA
6740 GAGAATTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
TTTCATGAAAGGACTTAACCT
Found at i:8788 original size:41 final size:41
Alignment explanation
Indices: 8449--8824 Score: 204
Period size: 41 Copynumber: 9.1 Consensus size: 41
8439 TTTTAAGGGA
* *
8449 AAACGCCGGTAAAGACTTGA-ACTTTAGTGGCATTTTTATAC
1 AAACGCCGCTAAAGAC-TCATACTTTAGTGGCATTTTTATAC
* * * *
8490 AAACGTCGCTATAGACT-AGTACTTTAGCGGCGTTTTTATAC
1 AAACGCCGCTAAAGACTCA-TACTTTAGTGGCATTTTTATAC
* * *
8531 AAACGCCGCAAAAGACTCATACATTAGTGTCATTTTTATAC
1 AAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATAC
*
8572 AAACGCTAG-TAAAGACT-AGTACTTTAGTGGC-TTTTTAATAC
1 AAACGC-CGCTAAAGACTCA-TACTTTAGTGGCATTTTT-ATAC
* * ** * * *
8613 AAACTCC-ATAATAGGAAACATA-TATAATGGCATTTTTGA-AA
1 AAACGCCGCTAA-A-GACTCATACTTTAGTGGCATTTTT-ATAC
* * * * *
8654 AAACACCG-TAAGAGATTCATA-TTGTAATGGCATTTTTTTGAAT
1 AAACGCCGCTAA-AGACTCATACTT-TAGTGGCATTTTTAT--AC
* * ** * *
8697 AAAAGGCG-TAATTTA-TCAGTACATTAGTGGCGA-TTGTATAC
1 AAACGCCGCTAA-AGACTCA-TACTTTAGTGGC-ATTTTTATAC
* *
8738 AAACACCGCTAAAGACTCATACTTTAGTGGCATTTTTATAT
1 AAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATAC
* * **
8779 AAATGCCGCTATAAG-CTCGTACTTTAGTGGTGTTTTTATAC
1 AAACGCCGCTA-AAGACTCATACTTTAGTGGCATTTTTATAC
8820 AAACG
1 AAACG
8825 TCTCAATAGA
Statistics
Matches: 255, Mismatches: 57, Indels: 46
0.71 0.16 0.13
Matches are distributed among these distances:
39 1 0.00
40 18 0.07
41 187 0.73
42 24 0.09
43 23 0.09
44 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (41 bp):
AAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATAC
Found at i:10319 original size:21 final size:20
Alignment explanation
Indices: 10293--10350 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
10283 TAATTTATTA
10293 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTT-AAGTTTCTTG
*
10314 TTATGGATTTGAAGTTTGTTG
1 TTATGGATTT-AAGTTTCTTG
*
10335 TTACGGATGTTAAGTT
1 TTATGGAT-TTAAGTT
10351 CATTGGATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.21, C:0.05, G:0.24, T:0.50
Consensus pattern (20 bp):
TTATGGATTTAAGTTTCTTG
Found at i:10743 original size:42 final size:42
Alignment explanation
Indices: 10698--10779 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
10688 TTGTTTGGGA
* *
10698 AAAAATGCCACT-AAATATCATAACCTTTAGCGACGTTTGTT
1 AAAAATGCCACTAAAAAAACATAACCTTTAGCGACGTTTGTT
* **
10739 AAAAATGCCGCTAAAAAAACATAACCTTTAGTTACGTTTGT
1 AAAAATGCCACTAAAAAAACATAACCTTTAGCGACGTTTGT
10780 AAACGACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 11 0.31
42 24 0.69
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (42 bp):
AAAAATGCCACTAAAAAAACATAACCTTTAGCGACGTTTGTT
Found at i:22591 original size:21 final size:21
Alignment explanation
Indices: 22567--22612 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
22557 GACCTTTCGG
* *
22567 TGAAAGGGCTTAACCTTTTCA
1 TGAAAGGACTTAAACTTTTCA
*
22588 TGAAAGGATTTAAACTTTTCA
1 TGAAAGGACTTAAACTTTTCA
22609 TGAA
1 TGAA
22613 GAGAATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
TGAAAGGACTTAAACTTTTCA
Found at i:26049 original size:39 final size:41
Alignment explanation
Indices: 25988--26108 Score: 156
Period size: 40 Copynumber: 3.0 Consensus size: 41
25978 TAAGCAAAAA
* *
25988 GCCAGTAAAGACTCAGACTTTAGTGGCGTTTTTATA-AAAC
1 GCCAATAAAGACTCATACTTTAGTGGCGTTTTTATACAAAC
*
26028 GCCAATATAGACT-ATACTTTAGTGGCGTTTTTATACAAAC
1 GCCAATAAAGACTCATACTTTAGTGGCGTTTTTATACAAAC
** * * *
26068 GCCGCTAAAGACTCGTACTTTAGTGCCGTTTTTATATAAAC
1 GCCAATAAAGACTCATACTTTAGTGGCGTTTTTATACAAAC
26109 ACCGCTACTA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 21 0.30
40 25 0.36
41 24 0.34
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (41 bp):
GCCAATAAAGACTCATACTTTAGTGGCGTTTTTATACAAAC
Found at i:26100 original size:41 final size:41
Alignment explanation
Indices: 25993--26183 Score: 199
Period size: 41 Copynumber: 4.6 Consensus size: 41
25983 AAAAAGCCAG
**
25993 TAAAGACTCAG-ACTTTAGTGGCGTTTTTATA-AAACGCCAA
1 TAAAGACTC-GTACTTTAGTGGCGTTTTTATACAAACGCCGC
* *
26033 TATAGACT-ATACTTTAGTGGCGTTTTTATACAAACGCCGC
1 TAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
* * *
26073 TAAAGACTCGTACTTTAGTGCCGTTTTTATATAAACACCGC
1 TAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
* * * * * *
26114 TACTATAGAATTGTGCTTCAGTGGCGTTTTTATACAAAAGCTGC
1 TA--A-AGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
*
26158 TAAAGACTCGTACTTTAGTTGCGTTT
1 TAAAGACTCGTACTTTAGTGGCGTTT
26184 GTAAACTTTA
Statistics
Matches: 122, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
39 20 0.16
40 21 0.17
41 48 0.39
42 1 0.01
43 1 0.01
44 31 0.25
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (41 bp):
TAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
Found at i:28136 original size:296 final size:298
Alignment explanation
Indices: 27590--28155 Score: 739
Period size: 296 Copynumber: 1.9 Consensus size: 298
27580 TGAAAATTGC
* *
27590 TTTGAGTTTCCGTGAAAAAGAACTCTAGTATAAAGAAGTACTCTTCGTTGAAAATGATTGTGGTT
1 TTTGAGTGTCCGTGAAAAAGAACTCTAGTATAAAGAAGTACTCTTCGTCGAAAATGATTGTGGTT
* * * * * *
27655 TGAACCAACGTTTGGTGAGAATATATGAGGTCTGAGACTGATATTAGAACTTACTGTATTTTCTG
66 TGAACCAACATTTGGTGAGAACATAAGAGGTCT-AGAC--ATACTAGAACTTACTGTATTATCCG
* * * * * *
27720 TCATGAATATGTTCTCTATTAGGCTCTTATGACATGTAGTATGTGTATTGCGTTGTGAATCAATT
128 TCACGAATATGTTCTCTATTAGGCTCCTAAGACATGAAGTATCTGTATTGCGTTATGAATCAATT
* * * *
27785 CCATCAAGCTCCAGATTTTGCATATTATTTCATTAAATTGGTATAGTTGAACTTGATTCTTAAGT
193 ACACCAAGCTCCAGATTTTGCATATTATTTCATTAAATTGGTATAGTTAAACTTGATTCTTAAAT
27850 TATGATTTCATTAATCATTATAATGGTATAGTTGAACTTGT
258 TATGATTTCATTAATCATTATAATGGTATAGTTGAACTTGT
* * * **
27891 TTTGAGTGTCCGTGAAAAAG-ACTCGTAGTATAGAGAAGTA-TCTATTGTCGGAGGTGATTTGTG
1 TTTGAGTGTCCGTGAAAAAGAACTC-TAGTATAAAGAAGTACTCT-TCGTCGAAAATGA-TTGTG
* *
27954 GTTTGAACCAACATTTGGTGAGAACATAAGATGTCT-G-C-TACTAGAACTTTCTGTATTATCCG
63 GTTTGAACCAACATTTGGTGAGAACATAAGAGGTCTAGACATACTAGAACTTACTGTATTATCCG
* * * * *
28016 TCACGAATCTGTTCTCTGTTAGGCTCCTAAGACATGAAGTTTCTGTGTTGTGTTATGAATCAATT
128 TCACGAATATGTTCTCTATTAGGCTCCTAAGACATGAAGTATCTGTATTGCGTTATGAATCAATT
* *
28081 ACACCAAGCTCCAGTTTTTGCATATTATTTCTTTATAA-TGGTATAGTTAAACTTGATTCTTAAA
193 ACACCAAGCTCCAGATTTTGCATATTATTTCATTA-AATTGGTATAGTTAAACTTGATTCTTAAA
28145 TTATGATTTCA
257 TTATGATTTCA
28156 ATTTTATTAA
Statistics
Matches: 229, Mismatches: 32, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
296 140 0.61
297 2 0.01
299 1 0.00
300 8 0.03
301 41 0.18
302 37 0.16
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (298 bp):
TTTGAGTGTCCGTGAAAAAGAACTCTAGTATAAAGAAGTACTCTTCGTCGAAAATGATTGTGGTT
TGAACCAACATTTGGTGAGAACATAAGAGGTCTAGACATACTAGAACTTACTGTATTATCCGTCA
CGAATATGTTCTCTATTAGGCTCCTAAGACATGAAGTATCTGTATTGCGTTATGAATCAATTACA
CCAAGCTCCAGATTTTGCATATTATTTCATTAAATTGGTATAGTTAAACTTGATTCTTAAATTAT
GATTTCATTAATCATTATAATGGTATAGTTGAACTTGT
Found at i:28504 original size:41 final size:41
Alignment explanation
Indices: 28444--28554 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
28434 GTGATTATTT
*
28444 ACTCGTACTTTAGTGTCGTTTTAATACAAACGCCGCTAAAG
1 ACTCGTACTTTAGTGTCGTTTTAATACAAACGCCACTAAAG
* * ** *
28485 ACTCGTACTTTAGTTTCGTTTTTATACAATTGCCACTAAAT
1 ACTCGTACTTTAGTGTCGTTTTAATACAAACGCCACTAAAG
* * * *
28526 ACTCGTACTTAAGTGGCATTTTTATACAA
1 ACTCGTACTTTAGTGTCGTTTTAATACAA
28555 GCGTCGTAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (41 bp):
ACTCGTACTTTAGTGTCGTTTTAATACAAACGCCACTAAAG
Found at i:28825 original size:41 final size:41
Alignment explanation
Indices: 28654--28827 Score: 120
Period size: 41 Copynumber: 4.2 Consensus size: 41
28644 TAATTTATCA
* * * * * * *
28654 ATACATTAGTGTCGCTTTTATACAAAAGCCGCCAATGACTG
1 ATACTTTAGTGGCGTTTTTATACAAAAGCTGCTAAAGACTC
* * * *
28695 ATACATTAGTGGCATTTTTATACAAACATC-GC-AATAAACTC
1 ATACTTTAGTGGCGTTTTTATACAAA-AGCTGCTAA-AGACTC
* * * * * * * *
28736 GTACTTTAGTGGTGTTTTTATACATACG-TCACTATAGAATT
1 ATACTTTAGTGGCGTTTTTATACAAAAGCT-GCTAAAGACTC
*
28777 ATGCTTTAGTGGCGTTTTTATACAAAAGCTGCTAAAGACTC
1 ATACTTTAGTGGCGTTTTTATACAAAAGCTGCTAAAGACTC
28818 ATACTTTAGT
1 ATACTTTAGT
28828 TGTGTTTGTA
Statistics
Matches: 98, Mismatches: 29, Indels: 12
0.71 0.21 0.09
Matches are distributed among these distances:
40 2 0.02
41 92 0.94
42 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (41 bp):
ATACTTTAGTGGCGTTTTTATACAAAAGCTGCTAAAGACTC
Found at i:30675 original size:239 final size:244
Alignment explanation
Indices: 30245--30695 Score: 617
Period size: 239 Copynumber: 1.8 Consensus size: 244
30235 TTGAAGATGA
* * *
30245 TTGTGGTTTGAACCAACGTTTGGTGAGAACATATGAGGTCTGAGACTGATATTAGAACTTACTGT
1 TTGTGGTTTGAACCAACATTTGGTGAGAACATAGGAGG-CT--GACTGATACTAGAACTTACTGT
* * * * * *
30310 ATTTTCTGTCATGAATCTGTTCTCTATTAGGCTCTTATGACATGTAGTATGTGTATTGCGTTGTG
63 ATTATC--TCA-GAATCTGTTCTCTATTAGGCTCCTAAGACATGAAGTATATGTATTGCGTTATG
*
30375 AATCAATTCCATCAAGCTCCAGATTTTGCATATTATTTCAATAAATTGGTATAGTTGAACTTGAT
125 AATCAATTCCATCAAGCTCCAGATTTTGCATATTATTTCAATAAATTGATATAGTTGAACTTGAT
*
30440 TCTTAAGTTATGATTTCCTTAATCATTATAATGGTATAGTTGACATGTAGGTGAT
190 TCTTAAATTATGATTTCCTTAATCATTATAATGGTATAGTTGACATGTAGGTGAT
* *
30495 TTGTGGTTTGAACCAACATTTGGTGAGAACATAGGAGG-T-A-TGCTACTAGAACTTTCTGTATT
1 TTGTGGTTTGAACCAACATTTGGTGAGAACATAGGAGGCTGACTGATACTAGAACTTACTGTATT
* * * * *
30557 ATC-C-GAATCTGTTCTCTGTTAGGCTCCTAAGTCATGAAGTTTATGTGTTGTGTTATGAATCAA
66 ATCTCAGAATCTGTTCTCTATTAGGCTCCTAAGACATGAAGTATATGTATTGCGTTATGAATCAA
* *
30620 TTCCATCAAGCTCCAGTTTTTGCATATTATTTCATTAGAA-TGATATAGTTGAACTTGATTCTTA
131 TTCCATCAAGCTCCAGATTTTGCATATTATTTCAATA-AATTGATATAGTTGAACTTGATTCTTA
30684 AATTATGATTTC
195 AATTATGATTTC
30696 AATTTTAATA
Statistics
Matches: 180, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
239 118 0.66
240 2 0.01
241 1 0.01
244 21 0.12
245 1 0.01
248 1 0.01
250 36 0.20
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (244 bp):
TTGTGGTTTGAACCAACATTTGGTGAGAACATAGGAGGCTGACTGATACTAGAACTTACTGTATT
ATCTCAGAATCTGTTCTCTATTAGGCTCCTAAGACATGAAGTATATGTATTGCGTTATGAATCAA
TTCCATCAAGCTCCAGATTTTGCATATTATTTCAATAAATTGATATAGTTGAACTTGATTCTTAA
ATTATGATTTCCTTAATCATTATAATGGTATAGTTGACATGTAGGTGAT
Found at i:31660 original size:21 final size:21
Alignment explanation
Indices: 31631--31689 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
31621 TAATTTATTA
31631 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* * *
31652 TTATAGATTTGAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
31673 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
31690 ATTGGATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.05, G:0.22, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:31981 original size:44 final size:44
Alignment explanation
Indices: 31913--32005 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
31903 ATTCACAAAT
*
31913 GCCACTATATGACATAACATTTAGCGGTATTTTTGGGA-ATAAAC
1 GCCACTATATGACAAAACATTTAGCGGTATTTTTGGGACA-AAAC
* * * *
31957 GCCATTATATGTCAAAATATTTAGCGGTGTTTTTGGGACAAAAC
1 GCCACTATATGACAAAACATTTAGCGGTATTTTTGGGACAAAAC
32001 GCCAC
1 GCCAC
32006 AAAAAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (44 bp):
GCCACTATATGACAAAACATTTAGCGGTATTTTTGGGACAAAAC
Found at i:33307 original size:28 final size:28
Alignment explanation
Indices: 33267--33321 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
33257 TTGTTTCACT
33267 GAAAATAGTTTACAGAAAATG-AAATCAG
1 GAAAATAGTTTACAG-AAATGTAAATCAG
33295 GAAAAT-GTTTTACAGAAATGTAAATCA
1 GAAAATAG-TTTACAGAAATGTAAATCA
33322 TTTTCCAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.25
Consensus pattern (28 bp):
GAAAATAGTTTACAGAAATGTAAATCAG
Found at i:37476 original size:61 final size:61
Alignment explanation
Indices: 37381--37501 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
37371 ATAATAGAGA
*
37381 ATTACTTATCCCTATCATAAAACCTTATACTCATGTTTTCAGCTTTCAGAGCTTATAAAGG
1 ATTACTTATCCCTATCATAAAACCTTATACTCATGTTTTCAGCTTTAAGAGCTTATAAAGG
37442 ATTACTTATCCCTATCATAAAACCTTATACTCATGTTTTCAGCTTTAAGAGCTTATAAAG
1 ATTACTTATCCCTATCATAAAACCTTATACTCATGTTTTCAGCTTTAAGAGCTTATAAAG
37502 TATGTTTTAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (61 bp):
ATTACTTATCCCTATCATAAAACCTTATACTCATGTTTTCAGCTTTAAGAGCTTATAAAGG
Found at i:38426 original size:455 final size:448
Alignment explanation
Indices: 37573--38482 Score: 1588
Period size: 455 Copynumber: 2.0 Consensus size: 448
37563 TCCTTATTAG
37573 AATTAAGAATCCATCAATGTGACAATTTTAGTTCTACTAAATGCCAGAGTGTTCATTGTGTTATT
1 AATTAAGAATCCATCAATGTGACAATTTTAGTTCTACTAAATGCCAGAGTGTTCATTGTGTTATT
37638 CCAGATCCTGAAATTAGATTGGAGCGGATGAAGAGCTCTATATTAGAAATAGTTAGGACTAGGAG
66 CCAGATCCTGAAATTAGATTGGAGCGGATGAAGAGCTCTATATTAGAAATAGTTAGGACTAGGAG
* * *
37703 ATAATTATATTAGTTTGTTGAAGCTGTAGATTGCCTTAAATAAGGAAAATTTATCTCATTATTCC
131 ATAATTATATTAGTTTGCTGAAGCTGTAGATTGCCTGAAATAAGGAAAATTTATCTCACTATTCC
*
37768 AAAGAACCGAAAGAGTCAAAGCAAATCTAGAGTACCAGCTTCATTGAACAAATGACTTTTACCGA
196 AAAGAACCGAAAGAGGCAAAGCAAATCTAGAGTACCAGCTTCATTGAACAAATGACTTTTACCGA
*
37833 CCCATCCACCGGAAACGAGAATAGGGAACTTCAATTGAAACAAACAGGTAAATTCCATTAATGGG
261 CCCACCCACCGGAAACGAGAATAGGGAACTTCAATTGAAACAAACAGGTAAATTCCATTAATGGG
*
37898 TGAAGAACTATAGGAGGAAGAGATCTGCATGAACAAGCCAACCAATGCTGGCAAAAGCAATCGAG
326 TGAAGAACTATAGGAGGAAGAGATCTGCATGAAAAAGCCAACCAATGCTGGCAAAAGCAATCGAG
* *
37963 AACATATCTCAATATATGGCTTCCTAGTCCCAGCCCATTTGTTGTTGTTCTTTATGAA
391 AACATATCTCAATAAATGGCTTCCTAGTCCCAACCCATTTGTTGTTGTTCTTTATGAA
*
38021 AATTAAGAATCCATCAATGTGACAGTTTTAGTTCTACTAAATGCCAGAGTGTTCATTGTGTTATT
1 AATTAAGAATCCATCAATGTGACAATTTTAGTTCTACTAAATGCCAGAGTGTTCATTGTGTTATT
* *
38086 CCAGATCCTGACATTAGATTGGAGCGGATGAAGAGCTCTATATTGGAAATGGTTAGGAACTTAGG
66 CCAGATCCTGAAATTAGATTGGAGCGGATGAAGAGCTCTATATTAGAAA----TA-G---TTAGG
38151 ACTAGGAGATAATTATATTAGTTTGCTGAAGCTGTAGATTGCCTGAAATAAGGAAAATTTATCTC
123 ACTAGGAGATAATTATATTAGTTTGCTGAAGCTGTAGATTGCCTGAAATAAGGAAAATTTATCTC
*
38216 ACTGTTCCAAAGAACCGAAAGAGGCAAAGCAAATCTAGAGTACCAGCTTCATTGAAC-AATGACT
188 ACTATTCCAAAGAACCGAAAGAGGCAAAGCAAATCTAGAGTACCAGCTTCATTGAACAAATGACT
* *
38280 TTTACCGACCCACCCACCGGAAGCGAGAATAGGGAACTTCAATTGAAACAAACAGTTAAATTCCA
253 TTTACCGACCCACCCACCGGAAACGAGAATAGGGAACTTCAATTGAAACAAACAGGTAAATTCCA
*
38345 TTAATGGGTGAAGAACTATAGGAGGAAGAGATCTGCATGAAAAAGCCAGCCAATGCTGGCAAAAG
318 TTAATGGGTGAAGAACTATAGGAGGAAGAGATCTGCATGAAAAAGCCAACCAATGCTGGCAAAAG
* *
38410 CATTCGAGAGCATATCTCAATAAATGGCTTCCTAGTCCCAACCCATTTGTTGTTGTTCTTTATGA
383 CAATCGAGAACATATCTCAATAAATGGCTTCCTAGTCCCAACCCATTTGTTGTTGTTCTTTATGA
38475 A
448 A
38476 AATTAAG
1 AATTAAG
38483 CAACAAATTG
Statistics
Matches: 437, Mismatches: 17, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
448 111 0.25
452 2 0.00
453 1 0.00
455 201 0.46
456 122 0.28
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (448 bp):
AATTAAGAATCCATCAATGTGACAATTTTAGTTCTACTAAATGCCAGAGTGTTCATTGTGTTATT
CCAGATCCTGAAATTAGATTGGAGCGGATGAAGAGCTCTATATTAGAAATAGTTAGGACTAGGAG
ATAATTATATTAGTTTGCTGAAGCTGTAGATTGCCTGAAATAAGGAAAATTTATCTCACTATTCC
AAAGAACCGAAAGAGGCAAAGCAAATCTAGAGTACCAGCTTCATTGAACAAATGACTTTTACCGA
CCCACCCACCGGAAACGAGAATAGGGAACTTCAATTGAAACAAACAGGTAAATTCCATTAATGGG
TGAAGAACTATAGGAGGAAGAGATCTGCATGAAAAAGCCAACCAATGCTGGCAAAAGCAATCGAG
AACATATCTCAATAAATGGCTTCCTAGTCCCAACCCATTTGTTGTTGTTCTTTATGAA
Found at i:40160 original size:3 final size:3
Alignment explanation
Indices: 40154--40208 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
40144 TTAATCCGAT
40154 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
40202 ATA ATA A
1 ATA ATA A
40209 ACATATATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46636 original size:21 final size:21
Alignment explanation
Indices: 46612--46655 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
46602 CCTTTCGGTG
*
46612 AAAGGGCTTAACCTTTTCATA
1 AAAGGACTTAACCTTTTCATA
* *
46633 AAAGGATTTAATCTTTTCATA
1 AAAGGACTTAACCTTTTCATA
46654 AA
1 AA
46656 GAGAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (21 bp):
AAAGGACTTAACCTTTTCATA
Found at i:49716 original size:41 final size:41
Alignment explanation
Indices: 49606--49758 Score: 116
Period size: 41 Copynumber: 3.8 Consensus size: 41
49596 CGTTTTAAGA
* * * *
49606 AAAAACGCCGGC-AAAGACTCGAACTTTAGTGGCGTTTTAT
1 AAAAACGCCAGCTAAAGACTAGTACTTTAGTGGTGTTTTAT
* * * *
49646 AAAAAAGTC-GCTATAGACAAGTACTTTAGTGGTGTTTCTAT
1 AAAAACGCCAGCTAAAGACTAGTACTTTAGTGGTGTTT-TAT
* * * *
49687 ATAAACGCC-GCTAAAGACTGGTACATTAGTGTTGTTTTTAT
1 AAAAACGCCAGCTAAAGACTAGTACTTTAGTGGTG-TTTTAT
* * * *
49728 ACAAATGCCAG-TAAAGACTCGTAATTTAGTG
1 AAAAACGCCAGCTAAAGACTAGTACTTTAGTG
49759 ACATTTTTAT
Statistics
Matches: 89, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 2 0.02
40 27 0.30
41 56 0.63
42 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (41 bp):
AAAAACGCCAGCTAAAGACTAGTACTTTAGTGGTGTTTTAT
Found at i:49952 original size:41 final size:41
Alignment explanation
Indices: 49873--49989 Score: 121
Period size: 41 Copynumber: 2.9 Consensus size: 41
49863 AATTTATCAG
* * *
49873 TACATTAGTGGCGA-TTGTATACAAACGCCGCTAAAGACTCA
1 TACATTAGTGGC-ATTTTTATACAAACGTCGCTATAGACTCA
* * * **
49914 TA-ATTTAGTGGCATTTTTATATAAATGTTGCTATAGACTTG
1 TACA-TTAGTGGCATTTTTATACAAACGTCGCTATAGACTCA
*
49955 TACATTAGTGGCGTTTTTATACAAACGTCGCTATA
1 TACATTAGTGGCATTTTTATACAAACGTCGCTATA
49990 ATTTCCTTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
40 2 0.03
41 58 0.95
42 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (41 bp):
TACATTAGTGGCATTTTTATACAAACGTCGCTATAGACTCA
Found at i:50217 original size:22 final size:22
Alignment explanation
Indices: 50174--50217 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
50164 ATATATTGAT
* *
50174 TAATATTTTTAATAATATAATA
1 TAATATTATTAATAATACAATA
* *
50196 TAATATTATTATTATTACAATA
1 TAATATTATTAATAATACAATA
50218 ATATACTCAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATATTATTAATAATACAATA
Found at i:50422 original size:23 final size:21
Alignment explanation
Indices: 50395--50449 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
50385 TAGTCTAATA
50395 ATATTATAAAAATTCCTTAAAAT
1 ATATTATAAAAATT--TTAAAAT
*
50418 ATATTTATTAATAATTTTAAAAT
1 ATA-TTA-TAAAAATTTTAAAAT
*
50441 ATAATATAA
1 ATATTATAA
50450 TATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
23 13 0.46
24 3 0.11
25 7 0.25
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTATAAAAATTTTAAAAT
Found at i:50450 original size:21 final size:23
Alignment explanation
Indices: 50411--50457 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
50401 TAAAAATTCC
*
50411 TTAAAATATATTTATTAATAATT
1 TTAAAATATATATATTAATAATT
*
50434 TTAAAATATA-ATA-TAATATTT
1 TTAAAATATATATATTAATAATT
50455 TTA
1 TTA
50458 TTTTTATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAATATATATATTAATAATT
Found at i:52089 original size:21 final size:21
Alignment explanation
Indices: 52059--52103 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
52049 TAATTTATTA
*
52059 TTATGGATTTCAAGTTTCTTG
1 TTATGAATTTCAAGTTTCTTG
* *
52080 TTATGAATTTGAAGTTTGTTG
1 TTATGAATTTCAAGTTTCTTG
52101 TTA
1 TTA
52104 CGGATGTCTA
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:0.22, C:0.04, G:0.20, T:0.53
Consensus pattern (21 bp):
TTATGAATTTCAAGTTTCTTG
Found at i:52341 original size:44 final size:43
Alignment explanation
Indices: 52272--52363 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
52262 TTTTACATTC
* *
52272 ACAAACACCACTATATGACATAACATATAGCGGCGTTTTTCGGA
1 ACAAACACCACTATATGACAAAACATATAGCGGCATTTTT-GGA
* * * * * *
52316 ACAAACGCCATTATATGTCAAAACATTTAGTGGCATTTTTGGG
1 ACAAACACCACTATATGACAAAACATATAGCGGCATTTTTGGA
52359 ACAAA
1 ACAAA
52364 ATGCCACAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 7 0.17
44 33 0.82
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (43 bp):
ACAAACACCACTATATGACAAAACATATAGCGGCATTTTTGGA
Found at i:54337 original size:23 final size:23
Alignment explanation
Indices: 54311--54356 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
54301 CCCAGCTACT
54311 GCCCCACGAGTTCTTCACCAACC
1 GCCCCACGAGTTCTTCACCAACC
54334 GCCCCACGAGTTCTTCACCAACC
1 GCCCCACGAGTTCTTCACCAACC
54357 AATACTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.48, G:0.13, T:0.17
Consensus pattern (23 bp):
GCCCCACGAGTTCTTCACCAACC
Found at i:56125 original size:20 final size:21
Alignment explanation
Indices: 56080--56138 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 21
56070 TGCATGGTAG
56080 TGCATCGATGCACCTGTTAAAGAA
1 TGCATCGATGCA-CT-TT-AAGAA
56104 TGCATCGATGCACTTT-AGAA
1 TGCATCGATGCACTTTAAGAA
*
56124 TGCACCGATGCACTT
1 TGCATCGATGCACTT
56139 CAATGGGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.53
22 2 0.06
23 2 0.06
24 12 0.35
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (21 bp):
TGCATCGATGCACTTTAAGAA
Found at i:65672 original size:23 final size:21
Alignment explanation
Indices: 65620--65681 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
65610 TTTTGGTGCA
*
65620 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
65640 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
65661 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
65682 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:69452 original size:2 final size:2
Alignment explanation
Indices: 69445--69471 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
69435 ATACTGAGAG
69445 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 T
69472 GATTGTGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72634 original size:21 final size:21
Alignment explanation
Indices: 72610--72655 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
72600 GACCTTTCGG
*
72610 TGAAAGGGCTTAACCTTTACA
1 TGAAAGGACTTAACCTTTACA
* * *
72631 TGAAAGGATTTAATCTTTTCA
1 TGAAAGGACTTAACCTTTACA
72652 TGAA
1 TGAA
72656 GATAATTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
TGAAAGGACTTAACCTTTACA
Found at i:79517 original size:3 final size:3
Alignment explanation
Indices: 79505--79540 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
79495 TTAACCCGAG
79505 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
79541 GCATATATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:80320 original size:41 final size:41
Alignment explanation
Indices: 80263--80370 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
80253 CTATAGACAA
* * * **
80263 GTACTTTAGTGGCGTTTCTATATAAATGCCGCTAAAGACTC
1 GTACATTAGTGGCGTTTTTATACAAATGCCAATAAAGACTC
*
80304 GTACATTAGTGTCGTTTTTATACAAATGCCAATAAAGACTC
1 GTACATTAGTGGCGTTTTTATACAAATGCCAATAAAGACTC
80345 GTA-ATTTAGTGGCGTTTTTATACAAA
1 GTACA-TTAGTGGCGTTTTTATACAAA
80371 CTCCGTAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.02
41 58 0.98
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (41 bp):
GTACATTAGTGGCGTTTTTATACAAATGCCAATAAAGACTC
Found at i:80569 original size:41 final size:40
Alignment explanation
Indices: 80468--80602 Score: 108
Period size: 41 Copynumber: 3.3 Consensus size: 40
80458 CAATTTATCA
* * * * *
80468 GTACATTAGTGGCGATTGTATACAAACGCCACTAAAGACTC
1 GTAC-TTAGTGGCGCTTTTATACAAACGTCACTATAGAATC
* * * ** * * * *
80509 ATAATTTATTGGCATTTTTATATAAATGTCTCTATAGACTC
1 GT-ACTTAGTGGCGCTTTTATACAAACGTCACTATAGAATC
*
80550 GTACATTAGTGGCGCTTTTATACAAACGTCACTATAGAATT
1 GTAC-TTAGTGGCGCTTTTATACAAACGTCACTATAGAATC
80591 GTACTTAGTGGC
1 GTACTTAGTGGC
80603 TTTTATGTTT
Statistics
Matches: 71, Mismatches: 21, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
40 9 0.13
41 61 0.86
42 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (40 bp):
GTACTTAGTGGCGCTTTTATACAAACGTCACTATAGAATC
Found at i:81295 original size:12 final size:12
Alignment explanation
Indices: 81274--81366 Score: 57
Period size: 12 Copynumber: 7.6 Consensus size: 12
81264 AAATATATAA
*
81274 AATATATTTATT
1 AATATATTTAAT
*
81286 AATATTTTTAAT
1 AATATATTTAAT
*
81298 AATATA-ATAAT
1 AATATATTTAAT
*
81309 AATAATATTACAAT
1 AAT-ATATT-TAAT
*
81323 AATAATATTACAAT
1 AAT-ATATT-TAAT
* *
81337 AATATACTCAAT
1 AATATATTTAAT
81349 --TATATTATAAT
1 AATATATT-TAAT
81360 AATATAT
1 AATATAT
81367 GATACTATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
10 5 0.08
11 10 0.15
12 22 0.33
13 9 0.14
14 20 0.30
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (12 bp):
AATATATTTAAT
Found at i:81310 original size:11 final size:11
Alignment explanation
Indices: 81296--81365 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
81286 AATATTTTTA
81296 ATAAT-ATAAT
1 ATAATAATAAT
*
81306 AATAATAATATT
1 -ATAATAATAAT
*
81318 ACAATAATAAT
1 ATAATAATAAT
* *
81329 ATTACAATAAT
1 ATAATAATAAT
* *
81340 ATACTCAATTAT
1 ATAAT-AATAAT
*
81352 ATTATAATAAT
1 ATAATAATAAT
81363 ATA
1 ATA
81366 TGATACTATT
Statistics
Matches: 43, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
11 31 0.72
12 12 0.28
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:81313 original size:14 final size:14
Alignment explanation
Indices: 81294--81340 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
81284 TTAATATTTT
* *
81294 TAATAATATAATAA
1 TAATAATATTACAA
81308 TAATAATATTACAA
1 TAATAATATTACAA
81322 TAATAATATTACAA
1 TAATAATATTACAA
81336 TAATA
1 TAATA
81341 TACTCAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATAATATTACAA
Found at i:81314 original size:17 final size:17
Alignment explanation
Indices: 81294--81340 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
81284 TTAATATTTT
*
81294 TAATAATATAATAATAA
1 TAATAATACAATAATAA
*
81311 TAATATTACAATAATAA
1 TAATAATACAATAATAA
81328 T-AT--TACAATAATA
1 TAATAATACAATAATA
81341 TACTCAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 10 0.36
16 2 0.07
17 16 0.57
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATAATACAATAATAA
Found at i:81569 original size:21 final size:23
Alignment explanation
Indices: 81530--81576 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
81520 TAAAAAGTCC
*
81530 TTAAAATATATTTATTAATAATT
1 TTAAAATATATATATTAATAATT
*
81553 TTAAAATATA-ATA-TAATATTT
1 TTAAAATATATATATTAATAATT
81574 TTA
1 TTA
81577 TTTTTTATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAATATATATATTAATAATT
Found at i:81681 original size:14 final size:13
Alignment explanation
Indices: 81663--81706 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
81653 AAAATTATAG
81663 AAATAATATTTTA
1 AAATAATATTTTA
81676 ATAATAATATTTTGA
1 A-AATAATATTTT-A
81691 AAATAATAATTTTA
1 AAATAAT-ATTTTA
81705 AA
1 AA
81707 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.04
14 20 0.71
15 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
AAATAATATTTTA
Found at i:81682 original size:28 final size:29
Alignment explanation
Indices: 81651--81705 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
81641 ATTTTTATTT
81651 ATAAAATTATAG-AAATAAT-ATTTTAATA
1 ATAAAATT-TAGAAAATAATAATTTTAATA
* *
81679 ATAATATTTTGAAAATAATAATTTTAA
1 ATAAAATTTAGAAAATAATAATTTTAA
81706 ATTTTTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (29 bp):
ATAAAATTTAGAAAATAATAATTTTAATA
Found at i:81881 original size:14 final size:14
Alignment explanation
Indices: 81864--81890 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
81854 TTCATTTTAG
81864 GAAAAATGTTTTCT
1 GAAAAATGTTTTCT
81878 GAAAAATGTTTTC
1 GAAAAATGTTTTC
81891 AGTGAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (14 bp):
GAAAAATGTTTTCT
Found at i:83555 original size:21 final size:21
Alignment explanation
Indices: 83511--83555 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
83501 TATTATTATA
*
83511 GATTTCAAGTTTCTTCTTATG
1 GATTTCAAGTTTCTTCTTACG
* * *
83532 GATTTGAAGTTTGTTGTTACG
1 GATTTCAAGTTTCTTCTTACG
83553 GAT
1 GAT
83556 GTCTAATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.49
Consensus pattern (21 bp):
GATTTCAAGTTTCTTCTTACG
Found at i:83994 original size:27 final size:27
Alignment explanation
Indices: 83956--84024 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
83946 ATCGCTACCA
* *
83956 TTTGCAGCGTTTGTTTTAGTGGTGTTT
1 TTTGCGGCGTTTGTTTTAGTGGTGCTT
* *
83983 TTTGCGGTGTTTGGTTTAGTGGTGCTT
1 TTTGCGGCGTTTGTTTTAGTGGTGCTT
84010 TTTGCGGCGTTTGTT
1 TTTGCGGCGTTTGTT
84025 ATTTGACTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.04, C:0.09, G:0.33, T:0.54
Consensus pattern (27 bp):
TTTGCGGCGTTTGTTTTAGTGGTGCTT
Found at i:84038 original size:16 final size:16
Alignment explanation
Indices: 84026--84057 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
84016 GCGTTTGTTA
84026 TTTGACT-ATTTTGGT
1 TTTGACTGATTTTGGT
84041 TTTGACTGA-TTTGGT
1 TTTGACTGATTTTGGT
84056 TT
1 TT
84058 ACCCGGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.94
16 1 0.06
ACGTcount: A:0.12, C:0.06, G:0.22, T:0.59
Consensus pattern (16 bp):
TTTGACTGATTTTGGT
Found at i:85527 original size:22 final size:23
Alignment explanation
Indices: 85495--85537 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
85485 TATTCTAATA
85495 TTTTTAAAAT-AACAATATTAAG
1 TTTTTAAAATAAACAATATTAAG
* *
85517 TTTTTATAATAAATAATATTA
1 TTTTTAAAATAAACAATATTA
85538 TTTATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTTTAAAATAAACAATATTAAG
Found at i:93422 original size:68 final size:67
Alignment explanation
Indices: 93313--93446 Score: 216
Period size: 68 Copynumber: 2.0 Consensus size: 67
93303 AAGTCTCGCA
* *
93313 CCCCTTTAACCCTTTTTCATTTTTCCCCTTGACCTATTTTTTTCATTC-CTGGCGTTTACCCAAA
1 CCCCTTTAACCATTTTTCATTTTTCCCCTTGACCTA-TTTTTTCATTCTC-GGCGTTTACACAAA
93377 CTCG
64 CTCG
*
93381 CCCCTTTAACCATTTTTCATTTTTCCCCTTGACCTATTTTTTCATTCTCGTCGTTTACACAAACT
1 CCCCTTTAACCATTTTTCATTTTTCCCCTTGACCTATTTTTTCATTCTCGGCGTTTACACAAACT
93446 C
66 C
93447 ATTTGCTGCT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
67 26 0.42
68 36 0.58
ACGTcount: A:0.16, C:0.33, G:0.06, T:0.45
Consensus pattern (67 bp):
CCCCTTTAACCATTTTTCATTTTTCCCCTTGACCTATTTTTTCATTCTCGGCGTTTACACAAACT
CG
Found at i:94052 original size:31 final size:32
Alignment explanation
Indices: 94017--94088 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 32
94007 AAAATATATT
*
94017 TATTAATATT-TTACTAATATACT-AAAAATAA
1 TATTAATATTACTA-TAATATACTCAAAAATAA
* * *
94048 TATTATTATTACTATAATATACTCAATAATTA
1 TATTAATATTACTATAATATACTCAAAAATAA
*
94080 TAATAATAT
1 TATTAATAT
94089 ATGATACTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
31 18 0.55
32 15 0.45
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (32 bp):
TATTAATATTACTATAATATACTCAAAAATAA
Found at i:96254 original size:21 final size:21
Alignment explanation
Indices: 96228--96287 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
96218 TAATTTATTA
96228 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
96249 TTATGGATTTAAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
* *
96270 TTACGGGATGTCAAGTTT
1 TTA-TGGATTTCAAGTTT
96288 ATTGGATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
21 22 0.67
22 11 0.33
ACGTcount: A:0.22, C:0.07, G:0.23, T:0.48
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:96669 original size:41 final size:42
Alignment explanation
Indices: 96624--96702 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 42
96614 AAATAGCGGT
* *
96624 GTTTGGAAAAAATGCCACT-AAATATCATAACCTTTAGCAAC
1 GTTTGGAAAAAATGCCACTAAAAAAACATAACCTTTAGCAAC
** *
96665 GTTTGTTAAAAATGCCGCTAAAAAAACATAACCTTTAG
1 GTTTGGAAAAAATGCCACTAAAAAAACATAACCTTTAG
96703 TTGCGTTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 16 0.50
42 16 0.50
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.28
Consensus pattern (42 bp):
GTTTGGAAAAAATGCCACTAAAAAAACATAACCTTTAGCAAC
Found at i:106237 original size:44 final size:44
Alignment explanation
Indices: 106129--106296 Score: 148
Period size: 44 Copynumber: 3.9 Consensus size: 44
106119 AATTTAGATA
* * * * * *
106129 TTTTGTGACGTTTGTA-ACAAAAAACGCCGTTATATACCAGACC
1 TTTTGTGACGTTTGTATCCGAAAAACGCCGCTATATATCACACT
* * *
106172 TTTTG-CAGCGTTTGTAT--GAAAAATGCTGCTATATATCACACCT
1 TTTTGTGA-CGTTTGTATCCGAAAAACGCCGCTATATATCACA-CT
* * *
106215 TTTT-TGACGTTTGTATCCGAAAAACACCGCTATATAACAGACT
1 TTTTGTGACGTTTGTATCCGAAAAACGCCGCTATATATCACACT
* * *
106258 TTTTGTGGCGTTTGTATCCAAAAAACGCCGCTAAATATC
1 TTTTGTGACGTTTGTATCCGAAAAACGCCGCTATATATC
106297 TTAACCATTT
Statistics
Matches: 99, Mismatches: 19, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
42 27 0.27
43 25 0.25
44 47 0.47
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (44 bp):
TTTTGTGACGTTTGTATCCGAAAAACGCCGCTATATATCACACT
Found at i:108418 original size:3 final size:3
Alignment explanation
Indices: 108410--108444 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
108400 AATCCGATAC
108410 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
108445 ACATATATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:108774 original size:22 final size:21
Alignment explanation
Indices: 108749--108800 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
108739 GGTTAAGACC
* *
108749 TTTCGGTGAAAGGGCTTAACCT
1 TTTC-GTGAAAGGACTTAAACT
* *
108771 TTTCATGAAAGGATTTAAACT
1 TTTCGTGAAAGGACTTAAACT
108792 TTTCGTGAA
1 TTTCGTGAA
108801 GAGAATTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (21 bp):
TTTCGTGAAAGGACTTAAACT
Found at i:111156 original size:30 final size:30
Alignment explanation
Indices: 111120--111181 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
111110 CAGGAATAAC
111120 GGTATACCAACGTGTCTTATCATTGCACAA
1 GGTATACCAACGTGTCTTATCATTGCACAA
111150 GGTATACCAACGTGTCTTATCATTGCACAA
1 GGTATACCAACGTGTCTTATCATTGCACAA
111180 GG
1 GG
111182 GTTATTGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (30 bp):
GGTATACCAACGTGTCTTATCATTGCACAA
Found at i:112331 original size:41 final size:41
Alignment explanation
Indices: 112266--112472 Score: 234
Period size: 41 Copynumber: 5.0 Consensus size: 41
112256 TTTTAAGCAA
* * *
112266 AAACGCCAGTAAAGACTTGAACTTTAGTGGCGTTTTTATAC
1 AAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATAC
* ** * * *
112307 AAATGTTACTATAGACTAGTACTTTAGTGGCGTTTTAATAC
1 AAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATAC
* * *
112348 AAACGCCGCTAAAGACTCGTACTTTAGTGTCGTTTTAATAC
1 AAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATAC
* **
112389 AAACGCCGCTAAAGACTCGTACTTTAGTTTCGTTTTTATAC
1 AAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATAC
** * * *
112430 AATTGCCACTAAATACTCGTACTTAAGTGGCATTTTTATAC
1 AAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATAC
112471 AA
1 AA
112473 GCGTCGTAAT
Statistics
Matches: 141, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 141 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (41 bp):
AAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATAC
Found at i:112743 original size:41 final size:41
Alignment explanation
Indices: 112587--112745 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
112577 TTAAGGTCGC
* * * * *
112587 TTTTATACAAAAGCCGCTAATGACTGATACATTAGTGGCAT
1 TTTTATACAAAAGCTGCTAAAGACTCATACTTTAGTGGCGT
* * * *
112628 TTTTATACAAACATC-GC-AATAAACTCGTACTTTAGTGGTGT
1 TTTTATACAAA-AGCTGCTAA-AGACTCATACTTTAGTGGCGT
* * * * * * *
112669 TTTTATACATACG-TCACTATAGAATTATGCTTTAGTGGCGT
1 TTTTATACAAAAGCT-GCTAAAGACTCATACTTTAGTGGCGT
112710 TTTTATACAAAAGCTGCTAAAGACTCATACTTTAGT
1 TTTTATACAAAAGCTGCTAAAGACTCATACTTTAGT
112746 TGTGTTTGTA
Statistics
Matches: 86, Mismatches: 26, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
40 2 0.02
41 80 0.93
42 4 0.05
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (41 bp):
TTTTATACAAAAGCTGCTAAAGACTCATACTTTAGTGGCGT
Found at i:114810 original size:92 final size:94
Alignment explanation
Indices: 114704--114890 Score: 360
Period size: 93 Copynumber: 2.0 Consensus size: 94
114694 TCATTCCTTG
114704 ATTTCTTGTGATTATTTTGTTTGAAATATAAGAAGTTG-TGATATTGGATTTGTTGATAATAAGA
1 ATTTCTTGTGATTATTTTGTTTGAAATATAAGAAGTTGTTGATATTGGATTTGTTGATAATAAGA
114768 TGCGGTTGCCATTCCAATGTGTG-TATTT
66 TGCGGTTGCCATTCCAATGTGTGTTATTT
114796 ATTTCTTGTGATTATTTTGTTTGAAATATAAGAAGTTGTTGATATTGGATTTGTTGATAATAAGA
1 ATTTCTTGTGATTATTTTGTTTGAAATATAAGAAGTTGTTGATATTGGATTTGTTGATAATAAGA
114861 TGCGGTTGCCATTCCAATGTGTGTTATTT
66 TGCGGTTGCCATTCCAATGTGTGTTATTT
114890 A
1 A
114891 GTTGTTGTTT
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
92 38 0.41
93 49 0.53
94 6 0.06
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.46
Consensus pattern (94 bp):
ATTTCTTGTGATTATTTTGTTTGAAATATAAGAAGTTGTTGATATTGGATTTGTTGATAATAAGA
TGCGGTTGCCATTCCAATGTGTGTTATTT
Found at i:115575 original size:21 final size:21
Alignment explanation
Indices: 115546--115604 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
115536 TAATTTATTA
115546 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* * *
115567 TTATAGATTTGAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
115588 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
115605 ATTGGATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.05, G:0.22, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:115870 original size:44 final size:44
Alignment explanation
Indices: 115822--115964 Score: 225
Period size: 44 Copynumber: 3.2 Consensus size: 44
115812 TTTTACATTC
* * *
115822 ACAAATGCCACTATATGTCATAACATTTAGCGGCATTTTTGGGA
1 ACAAACGCCATTATATGTCAAAACATTTAGCGGCATTTTTGGGA
**
115866 ACAAACGCCATTATATGTCAAAACATTTAGCGGTGTTTTTGGGA
1 ACAAACGCCATTATATGTCAAAACATTTAGCGGCATTTTTGGGA
115910 ACAAACGCCATTATATGTCAAAACATTTAGCGGCATTTTTGGG-
1 ACAAACGCCATTATATGTCAAAACATTTAGCGGCATTTTTGGGA
115953 ACAAAACGCCAT
1 AC-AAACGCCAT
115965 AAAAAAAGAT
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 2 0.02
44 89 0.98
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (44 bp):
ACAAACGCCATTATATGTCAAAACATTTAGCGGCATTTTTGGGA
Found at i:117264 original size:28 final size:28
Alignment explanation
Indices: 117224--117278 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
117214 TTGTTTCACT
117224 GAAAATAGTTTACAGAAAATG-AAATCAG
1 GAAAATAGTTTACAG-AAATGTAAATCAG
117252 GAAAAT-GTTTTACAGAAATGTAAATCA
1 GAAAATAG-TTTACAGAAATGTAAATCA
117279 TTTTCCAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.25
Consensus pattern (28 bp):
GAAAATAGTTTACAGAAATGTAAATCAG
Found at i:121436 original size:61 final size:61
Alignment explanation
Indices: 121341--121461 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
121331 ACAATAGAGA
*
121341 ATTACTTACCCCTATCATAAAACCTTATACTCATGTTTTCAGCTTTCAGAGCTTATAAAGG
1 ATTACTTACCCCTATCATAAAACCTTATACTCATGTTTTCAGCTTTAAGAGCTTATAAAGG
*
121402 ATTACTTATCCCTATCATAAAACCTTATACTCATGTTTTCAGCTTTAAGAGCTTATAAAG
1 ATTACTTACCCCTATCATAAAACCTTATACTCATGTTTTCAGCTTTAAGAGCTTATAAAG
121462 TATGTTTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.37
Consensus pattern (61 bp):
ATTACTTACCCCTATCATAAAACCTTATACTCATGTTTTCAGCTTTAAGAGCTTATAAAGG
Found at i:122386 original size:455 final size:448
Alignment explanation
Indices: 121533--122442 Score: 1626
Period size: 455 Copynumber: 2.0 Consensus size: 448
121523 TCCTTATTAG
121533 AATTAAGAATCCATCAATGTGACAATTTTAGTTCTACTAAATGCCAGAGTGTTCATTGTGTTATT
1 AATTAAGAATCCATCAATGTGACAATTTTAGTTCTACTAAATGCCAGAGTGTTCATTGTGTTATT
121598 CCAGATCCTGAAATTAGATTGGAGCGGATGAAGAGCTCTATATTAGAAATAGTTAGGACTAGGAG
66 CCAGATCCTGAAATTAGATTGGAGCGGATGAAGAGCTCTATATTAGAAATAGTTAGGACTAGGAG
* *
121663 ATAATTATATTAGTTTGTTGAAGCTGTAGATTGCCTGAAATAAGGAAAATTTATCTCATTGTTCC
131 ATAATTATATTAGTTTGCTGAAGCTGTAGATTGCCTGAAATAAGGAAAATTTATCTCACTGTTCC
121728 AAAGAACCGAAAGAGGCAAAGCAAATCTAGAGTACCAGCTTCATTGAACAAATGACTTTTATCGA
196 AAAGAACCGAAAGAGGCAAAGCAAATCTAGAGTACCAGCTTCATTGAACAAATGACTTTTATCGA
* *
121793 CCCATCCACCGGAAACTAGAATAGGGAACTTCAATTGAAACAAACAGTTAAATTCCATTAATGGG
261 CCCACCCACCGGAAACGAGAATAGGGAACTTCAATTGAAACAAACAGTTAAATTCCATTAATGGG
121858 TGAAGAACTATAGGAGGAAGAGATCTGCATGAACAAGCCAGCCAATGCTGGCAAAAGCAATCGAG
326 TGAAGAACTATAGGAGGAAGAGATCTGCATGAACAAGCCAGCCAATGCTGGCAAAAGCAATCGAG
* *
121923 AACATATCTCAATATATGGCTTCCTAGTCCCAGCCCATTTGTTGTTGTTCTTTATGAA
391 AACATATCTCAATAAATGGCTTCCTAGTCCCAACCCATTTGTTGTTGTTCTTTATGAA
*
121981 AATTAAGAATCCATCAATGTGACAGTTTTAGTTCTACTAAATGCCAGAGTGTTCATTGTGTTATT
1 AATTAAGAATCCATCAATGTGACAATTTTAGTTCTACTAAATGCCAGAGTGTTCATTGTGTTATT
*
122046 CCAGATCCTGACATTAGATTGGAGCGGATGAAGAGCTCTATATTAGAAATGGTTAGGAACTTAGG
66 CCAGATCCTGAAATTAGATTGGAGCGGATGAAGAGCTCTATATTAGAAA----TA-G---TTAGG
122111 ACTAGGAGATAATTATATTAGTTTGCTGAAGCTGTAGATTGCCTGAAATAAGGAAAATTTATCTC
123 ACTAGGAGATAATTATATTAGTTTGCTGAAGCTGTAGATTGCCTGAAATAAGGAAAATTTATCTC
122176 ACTGTTCCAAAGAACCGAAAGAGGCAAAGCAAATCTAGAGTACCAGCTTCATTGAAC-AATGACT
188 ACTGTTCCAAAGAACCGAAAGAGGCAAAGCAAATCTAGAGTACCAGCTTCATTGAACAAATGACT
*
122240 TTTA-CTGACCCACCCACCGGAAGCGAGAATAGGGAACTTCAATTGAAACAAACAGTTAAATTCC
253 TTTATC-GACCCACCCACCGGAAACGAGAATAGGGAACTTCAATTGAAACAAACAGTTAAATTCC
122304 ATTAATGGGTGAAGAACTATAGGAGGAAGAGATCTGCATGAACAAGCCAGCCAATGCTGGCAAAA
317 ATTAATGGGTGAAGAACTATAGGAGGAAGAGATCTGCATGAACAAGCCAGCCAATGCTGGCAAAA
* *
122369 GCATTCGAGAGCATATCTCAATAAATGGCTTCCTAGTCCCAACCCATTTGTTGTTGTTCTTTATG
382 GCAATCGAGAACATATCTCAATAAATGGCTTCCTAGTCCCAACCCATTTGTTGTTGTTCTTTATG
122434 AA
447 AA
122436 AATTAAG
1 AATTAAG
122443 CAACAAATTG
Statistics
Matches: 442, Mismatches: 11, Indels: 11
0.95 0.02 0.02
Matches are distributed among these distances:
448 112 0.25
452 2 0.00
453 1 0.00
454 1 0.00
455 201 0.45
456 125 0.28
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (448 bp):
AATTAAGAATCCATCAATGTGACAATTTTAGTTCTACTAAATGCCAGAGTGTTCATTGTGTTATT
CCAGATCCTGAAATTAGATTGGAGCGGATGAAGAGCTCTATATTAGAAATAGTTAGGACTAGGAG
ATAATTATATTAGTTTGCTGAAGCTGTAGATTGCCTGAAATAAGGAAAATTTATCTCACTGTTCC
AAAGAACCGAAAGAGGCAAAGCAAATCTAGAGTACCAGCTTCATTGAACAAATGACTTTTATCGA
CCCACCCACCGGAAACGAGAATAGGGAACTTCAATTGAAACAAACAGTTAAATTCCATTAATGGG
TGAAGAACTATAGGAGGAAGAGATCTGCATGAACAAGCCAGCCAATGCTGGCAAAAGCAATCGAG
AACATATCTCAATAAATGGCTTCCTAGTCCCAACCCATTTGTTGTTGTTCTTTATGAA
Found at i:134192 original size:21 final size:21
Alignment explanation
Indices: 134168--134211 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
134158 CCTTTCGGTG
*
134168 AAAGGGCTTAACCTTTTCATA
1 AAAGGACTTAACCTTTTCATA
* *
134189 AAAGGATTTAATCTTTTCATA
1 AAAGGACTTAACCTTTTCATA
134210 AA
1 AA
134212 GAGAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (21 bp):
AAAGGACTTAACCTTTTCATA
Found at i:136582 original size:40 final size:40
Alignment explanation
Indices: 136484--136652 Score: 141
Period size: 41 Copynumber: 4.1 Consensus size: 40
136474 ATTTTAAGCA
* *
136484 AAAACGCCGATAAAGACTAGAACTTTAGTGGTGTTTTCATAC
1 AAAA-GCCGTTAAAGACTAGTACTTTAGTGGTGTTTT-ATAC
* *
136526 AAACGCCGTTATAGACTAGTACTTTAGTGGTGTTTTATAC
1 AAAAGCCGTTAAAGACTAGTACTTTAGTGGTGTTTTATAC
* *
136566 AAAAG-TGTCTAAAGACTTGTACTTTAGT-GTCGTTTTTATAC
1 AAAAGCCGT-TAAAGACTAGTACTTTAGTGGT-G-TTTTATAC
** *
136607 AAACA-CCACTAATGACTCA-TACTTTAGTAGCGT-TTTTATAC
1 AAA-AGCCGTTAAAGACT-AGTACTTTAGT-G-GTGTTTTATAC
136648 AAAAG
1 AAAAG
136653 TTTTAATAGG
Statistics
Matches: 104, Mismatches: 13, Indels: 21
0.75 0.09 0.15
Matches are distributed among these distances:
39 4 0.04
40 27 0.26
41 67 0.64
42 4 0.04
44 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (40 bp):
AAAAGCCGTTAAAGACTAGTACTTTAGTGGTGTTTTATAC
Found at i:136591 original size:81 final size:82
Alignment explanation
Indices: 136494--136653 Score: 195
Period size: 81 Copynumber: 2.0 Consensus size: 82
136484 AAAACGCCGA
* * *
136494 TAAAGACTAGAACTTTAGTGGT-GTTTTCATACAAACGCC-GTTATAGACT-AGTACTTTAGT-G
1 TAAAGACTAGAACTTTAGT-GTCGTTTTCATACAAACACCACTAAT-GACTCA-TACTTTAGTAG
136555 -GTGTTTTATACAAAAGTGTC
63 CGT-TTTTATACAAAAGTGTC
* * *
136575 TAAAGACTTGTACTTTAGTGTCGTTTTTATACAAACACCACTAATGACTCATACTTTAGTAGCGT
1 TAAAGACTAGAACTTTAGTGTCGTTTTCATACAAACACCACTAATGACTCATACTTTAGTAGCGT
136640 TTTTATACAAAAGT
66 TTTTATACAAAAGT
136654 TTTAATAGGA
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
80 2 0.03
81 45 0.66
82 19 0.28
83 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (82 bp):
TAAAGACTAGAACTTTAGTGTCGTTTTCATACAAACACCACTAATGACTCATACTTTAGTAGCGT
TTTTATACAAAAGTGTC
Found at i:143678 original size:60 final size:60
Alignment explanation
Indices: 143577--143728 Score: 143
Period size: 60 Copynumber: 2.5 Consensus size: 60
143567 GATGAACTTG
* * * * * *
143577 GGGATGAATTTGGAATATTCAATAGTTT-AGAGACTAATTTAGAAAGAATA-TTATCA-TTT
1 GGGATGAAATTAGAATATTCAAAAGTTTAAGAGACAAATTTAG-AAGAAGAGTGAT-AGTTT
*
143636 AGGGATGAAATTAGAATATTCAAAAGTTTAAG-GA-AAATTTTAGAATAAGAGTGATAGTTT
1 -GGGATGAAATTAGAATATTCAAAAGTTTAAGAGACAAA-TTTAGAAGAAGAGTGATAGTTT
* *
143696 GAGGATGAAATTAGAGTATTTAAAAGTTTAAGA
1 G-GGATGAAATTAGAATATTCAAAAGTTTAAGA
143729 ATCAATTTAA
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
59 9 0.12
60 66 0.86
61 2 0.03
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.34
Consensus pattern (60 bp):
GGGATGAAATTAGAATATTCAAAAGTTTAAGAGACAAATTTAGAAGAAGAGTGATAGTTT
Found at i:143757 original size:60 final size:60
Alignment explanation
Indices: 143638--143760 Score: 151
Period size: 60 Copynumber: 2.0 Consensus size: 60
143628 TATCATTTAG
* *
143638 GGATGAAATTAGAATATTCAAAAGTTTAAGGAAAATTTTAGAATAAGAGTGATAGTTTGA
1 GGATGAAATTAGAATATTCAAAAGTTTAAGGAAAATTTTAAAATAAGAGTGATAATTTGA
* * * * *
143698 GGATGAAATTAGAGTATTTAAAAGTTTAA-GAATCAA-TTTAAAATGAGGGTTATAATTTGA
1 GGATGAAATTAGAATATTCAAAAGTTTAAGGAA--AATTTTAAAATAAGAGTGATAATTTGA
143758 GGA
1 GGA
143761 CATATGAGGC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 3 0.06
60 49 0.91
61 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.33
Consensus pattern (60 bp):
GGATGAAATTAGAATATTCAAAAGTTTAAGGAAAATTTTAAAATAAGAGTGATAATTTGA
Done.