Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008821.1 Hibiscus syriacus cultivar Beakdansim tig00111989_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: 1271541
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:746 original size:24 final size:24
Alignment explanation
Indices: 695--748 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
685 GTATTCGAAA
*
695 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
719 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
743 TTTGAT
1 TTTGAT
749 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:3242 original size:20 final size:20
Alignment explanation
Indices: 3134--3240 Score: 144
Period size: 20 Copynumber: 5.3 Consensus size: 20
3124 CAACACAGAA
*
3134 ATCGCAACGC-GAATATGACT
1 ATCGCAACACGGAA-ATGACT
*
3154 ATCGCAACACGGAAATTACT
1 ATCGCAACACGGAAATGACT
3174 ATCGCAACACGGAAATGACT
1 ATCGCAACACGGAAATGACT
3194 ATCGCAACACGGAAATGACT
1 ATCGCAACACGGAAATGACT
* **
3214 ATCACAATGCGGAAATGACT
1 ATCGCAACACGGAAATGACT
*
3234 ATTGCAA
1 ATCGCAA
3241 TGAGAGAATC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
20 75 0.96
21 3 0.04
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACACGGAAATGACT
Found at i:3283 original size:52 final size:53
Alignment explanation
Indices: 3218--3334 Score: 137
Period size: 52 Copynumber: 2.2 Consensus size: 53
3208 ATGACTATCA
** * * * *
3218 CAATGCGGAAATGACTATTGCAATGAGAGAATCGTAATGCG-AAATAAAAATTG
1 CAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATAAAAATCG
* *
3271 CAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAAAATCG
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATAAAAATCG
*
3324 CAACGCGAAAT
1 CAATGCGAAAT
3335 TAGTTTCGAG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 28 0.52
53 26 0.48
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.18
Consensus pattern (53 bp):
CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATAAAAATCG
Found at i:3324 original size:20 final size:19
Alignment explanation
Indices: 3247--3334 Score: 87
Period size: 19 Copynumber: 4.8 Consensus size: 19
3237 GCAATGAGAG
* *
3247 AATCGTAATGCGAAATAAA
1 AATCGCAATGCGAAATGAA
*
3266 AATTGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3285 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
3299 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
3319 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
3335 TAGTTTCGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 8 0.14
16 5 0.09
17 2 0.04
18 3 0.05
19 27 0.48
20 11 0.20
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:3400 original size:33 final size:33
Alignment explanation
Indices: 3344--3427 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
3334 TTAGTTTCGA
*
3344 GTTGCGAATTTCATTTTCGCATTGCGATTCACTC
1 GTTGCGATTTTCA-TTTCGCATTGCGATTCACTC
*
3378 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCACTC
**
3411 GTTGCGATAGTCATTTC
1 GTTGCGATTTTCATTTC
3428 CGCGTTGCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 34 0.74
34 12 0.26
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCACTC
Found at i:5538 original size:20 final size:20
Alignment explanation
Indices: 5513--5619 Score: 169
Period size: 20 Copynumber: 5.3 Consensus size: 20
5503 GAAACTTAAA
* *
5513 ATCGCAACGCAAAAATGACT
1 ATCGCAATGCGAAAATGACT
5533 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
5553 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
5573 ATCGCAATACGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
5593 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
5613 ATCGCAA
1 ATCGCAA
5620 CGAGAGAATC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:5695 original size:20 final size:20
Alignment explanation
Indices: 5669--5868 Score: 288
Period size: 20 Copynumber: 10.3 Consensus size: 20
5659 TCTTTCGTTA
**
5669 CGATAGTCAAATTCGCATTG
1 CGATAGTCATTTTCGCATTG
*
5689 TGATAGTCATTTTCGCATTG
1 CGATAGTCATTTTCGCATTG
5709 CGATAGTCATTTTCGCATTG
1 CGATAGTCATTTTCGCATTG
5729 CGATAGTCATTTTCGCATTG
1 CGATAGTCATTTTCGCATTG
*
5749 CGATAGTCATTTTCGCATTA
1 CGATAGTCATTTTCGCATTG
5769 CGATAGTCATTTTCGCA-TG
1 CGATAGTCATTTTCGCATTG
5788 CGATAGTCATTTTCGCATTG
1 CGATAGTCATTTTCGCATTG
*
5808 CGAT--TC--TCTCG--TTG
1 CGATAGTCATTTTCGCATTG
**
5822 CGATAGTCATTTTCGTGTTG
1 CGATAGTCATTTTCGCATTG
5842 CGATAGTCATTTTCGCATTG
1 CGATAGTCATTTTCGCATTG
5862 CGATAGT
1 CGATAGT
5869 AAACTATTCT
Statistics
Matches: 163, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
14 7 0.04
16 6 0.04
18 6 0.04
19 18 0.11
20 126 0.77
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (20 bp):
CGATAGTCATTTTCGCATTG
Found at i:7724 original size:20 final size:20
Alignment explanation
Indices: 7701--7783 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 20
7691 CTGAAACTTT
7701 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
7721 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** * **
7741 CTATCGCAACGCGAATTTGA
1 AAATCGCAACACGAAAATGA
** *
7761 CTATCGCAACGCG-AAATGA
1 AAATCGCAACACGAAAATGA
7780 AAAT
1 AAAT
7784 TGCATTGCGA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 6 0.11
20 48 0.89
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.16
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:8241 original size:22 final size:22
Alignment explanation
Indices: 8180--8241 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
8170 TGACCGTGAA
* *
8180 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
8202 TG-TTATCGTC---G-TGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
8220 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
8242 GGATGTCGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
21 3 0.09
22 13 0.41
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:8499 original size:20 final size:20
Alignment explanation
Indices: 8416--8489 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
8406 GCGCTATGTA
8416 AATCGCATTGCGATAGTCA-G-
1 AATCGCATTGCGAT--TCACGT
* *
8436 ATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATTCACGT
* *
8456 ATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATTCACGT
8476 AATCGCATTGCGAT
1 AATCGCATTGCGAT
8490 AGTCAGAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 46 0.94
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (20 bp):
AATCGCATTGCGATTCACGT
Found at i:12133 original size:22 final size:22
Alignment explanation
Indices: 12086--12136 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
12076 TACATCTTCG
*
12086 AAGATGATAGATTCTCTCTCCG
1 AAGATGATAGATTCTCTCTCCA
* *
12108 AAGATGATAGATTCTCTTTTCA
1 AAGATGATAGATTCTCTCTCCA
12130 AAGATGA
1 AAGATGA
12137 AAGCTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (22 bp):
AAGATGATAGATTCTCTCTCCA
Found at i:12866 original size:46 final size:46
Alignment explanation
Indices: 12794--13218 Score: 721
Period size: 46 Copynumber: 9.3 Consensus size: 46
12784 CTATTTCCTA
* *
12794 CATCTGTAAGCCCTTTAGTGCTTGATGTTTTCAACAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* *
12840 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGAGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
*
12886 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
*
12932 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCTGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
12978 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTC-AAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* * * *
13023 CATCTGTAAGTCCTTCAGTGCATGATGTTATC-AAAACCTTCGAGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
13068 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
13114 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* *
13160 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
13205 CATCTGTAAGCCCT
1 CATCTGTAAGCCCT
13219 ACAATGCAAG
Statistics
Matches: 359, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
45 108 0.30
46 251 0.70
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (46 bp):
CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
Found at i:13103 original size:182 final size:183
Alignment explanation
Indices: 12794--13218 Score: 771
Period size: 182 Copynumber: 2.3 Consensus size: 183
12784 CTATTTCCTA
*
12794 CATCTGTAAGCCCTTTAGTGCTTGATGTTTTCAACAACCTTCGGGTCATCTGTAAGCCCTTCAGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAA-AACCTTCGGGTCATCTGTAAGCCCTTCAGT
*
12859 GCATGATGTTTTCAAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAC
65 GCATGATGTTATCAAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAC
*
12924 CTTCGGGTCATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCTGGT
130 CTTCGGGTCATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
*
12978 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
*
13043 CATGATGTTATC-AAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACC
66 CATGATGTTATCAAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACC
13107 TTCGGGTCATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
131 TTCGGGTCATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* *
13160 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCT
13219 ACAATGCAAG
Statistics
Matches: 233, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
182 159 0.68
183 41 0.18
184 33 0.14
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (183 bp):
CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
CATGATGTTATCAAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACC
TTCGGGTCATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
Found at i:13397 original size:6 final size:6
Alignment explanation
Indices: 13386--13470 Score: 64
Period size: 6 Copynumber: 13.5 Consensus size: 6
13376 CAGTTCATTT
** * * *
13386 TTATTA TTATTA AAATTA TTATGA TTATTA TTATAA ATATTA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
*
13434 TTAATA TTA-TA TATATATA TATATATA TTATTTA TTA
1 TTATTA TTATTA T-TAT-TA T-TAT-TA TTA-TTA TTA
13471 AATATTACAA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
5 3 0.05
6 42 0.66
7 7 0.11
8 12 0.19
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (6 bp):
TTATTA
Found at i:13406 original size:15 final size:15
Alignment explanation
Indices: 13386--13477 Score: 71
Period size: 15 Copynumber: 5.8 Consensus size: 15
13376 CAGTTCATTT
* **
13386 TTATTATTATTAAAA
1 TTATTAATATTATTA
13401 TTATT-ATGATTATTA
1 TTATTAAT-ATTATTA
*
13416 TTATAAATATTATTA
1 TTATTAATATTATTA
13431 TTATTAATATTA-TA
1 TTATTAATATTATTA
13445 TATATATATATATATATTA
1 T-TAT-TA-ATAT-TATTA
13464 TTTATTAAATATTA
1 -TTATT-AATATTA
13478 CAAAGCCTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
14 4 0.06
15 35 0.56
16 4 0.06
17 6 0.10
18 7 0.11
19 6 0.10
20 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (15 bp):
TTATTAATATTATTA
Found at i:13414 original size:21 final size:21
Alignment explanation
Indices: 13388--13436 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
13378 GTTCATTTTT
13388 ATTATTATTA-AAATTATTATG
1 ATTATTATTATAAA-TATTATG
*
13409 ATTATTATTATAAATATTATT
1 ATTATTATTATAAATATTATG
13430 ATTATTA
1 ATTATTA
13437 ATATTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTATTATTATAAATATTATG
Found at i:13444 original size:24 final size:25
Alignment explanation
Indices: 13390--13477 Score: 87
Period size: 24 Copynumber: 3.6 Consensus size: 25
13380 TCATTTTTAT
* *
13390 TATTATTAAA-ATTATTATGATTAT
1 TATTATTAAATATTATTATTATTAA
13414 TATTA-TAAATATTATTATTATTAA
1 TATTATTAAATATTATTATTATTAA
*
13438 TATTA-TATATATATATATATATATT-A
1 TATTATTAAATAT-TAT-TAT-TATTAA
13464 T-TTATTAAATATTA
1 TATTATTAAATATTA
13478 CAAAGCCTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
23 4 0.07
24 28 0.51
25 8 0.15
26 11 0.20
27 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (25 bp):
TATTATTAAATATTATTATTATTAA
Found at i:15270 original size:19 final size:21
Alignment explanation
Indices: 15248--15289 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
15238 TATATTTAAA
15248 ACATATATTAAT-ATAA-AAT
1 ACATATATTAATAATAATAAT
* *
15267 ACATCTATTTATAATAATAAT
1 ACATATATTAATAATAATAAT
15288 AC
1 AC
15290 TGATTTATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.53
20 4 0.21
21 5 0.26
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
ACATATATTAATAATAATAAT
Found at i:18643 original size:24 final size:24
Alignment explanation
Indices: 18593--18644 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
18583 AATCTTTAGA
** *
18593 TCTTCTTTCTTCTCGCAGTCGTTG
1 TCTTCTTTCTTCTCGCAACCGTGG
*
18617 TCTTCTTTCTTCTCTCAACCGTGG
1 TCTTCTTTCTTCTCGCAACCGTGG
18641 TCTT
1 TCTT
18645 TCTCTCTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.06, C:0.31, G:0.13, T:0.50
Consensus pattern (24 bp):
TCTTCTTTCTTCTCGCAACCGTGG
Found at i:22507 original size:17 final size:17
Alignment explanation
Indices: 22481--22521 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
22471 AAATTGGTAC
*
22481 CGATACTCTAGGAGTAT
1 CGATACTCTAGGAGTAA
*
22498 CGATATTCTAGGAGTAA
1 CGATACTCTAGGAGTAA
22515 CGATACT
1 CGATACT
22522 ACTTTAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (17 bp):
CGATACTCTAGGAGTAA
Found at i:23260 original size:11 final size:11
Alignment explanation
Indices: 23244--23282 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
23234 TATTTTTTAA
23244 TTAATTAAATT
1 TTAATTAAATT
*
23255 TTAATTTGAAAGT
1 TTAA-TT-AAATT
23268 TTAATTAAATT
1 TTAATTAAATT
23279 TTAA
1 TTAA
23283 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 12 0.50
12 4 0.17
13 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (11 bp):
TTAATTAAATT
Found at i:23932 original size:30 final size:30
Alignment explanation
Indices: 23896--23955 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
23886 TTATTAAAAA
*
23896 AATATTTCAACTTATTTGATGA-TCTCCTAC
1 AATATTTCAACTTATTTAAT-ACTCTCCTAC
23926 AATATTTCAACTTATTTAATACTCTCCTAC
1 AATATTTCAACTTATTTAATACTCTCCTAC
23956 TTGGACAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AATATTTCAACTTATTTAATACTCTCCTAC
Found at i:26948 original size:14 final size:15
Alignment explanation
Indices: 26923--26951 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26913 GTTAGATTAA
26923 AAAATATAAATAAAT
1 AAAATATAAATAAAT
26938 AAAAT-TAAATAAAT
1 AAAATATAAATAAAT
26952 TAAGAGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATATAAATAAAT
Found at i:27165 original size:43 final size:43
Alignment explanation
Indices: 27076--27170 Score: 97
Period size: 43 Copynumber: 2.2 Consensus size: 43
27066 AAAATAAAAA
** *
27076 AAAAAAAAAAAAATTAAGAAAAAAAAAGAAAATGTTATTTTTC
1 AAAAAAAAAAAAATTAAGAAAAAAAAAGAAAATGTTACGTTAC
*
27119 AAAAAAAAAGAAA-TAA-AAAAATAAAA-AAAATGTTAAACGTTAC
1 AAAAAAAAAAAAATTAAGAAAAA-AAAAGAAAATGTT--ACGTTAC
*
27162 AAAATAAAA
1 AAAAAAAAA
27171 TCAGGAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
41 13 0.30
42 7 0.16
43 24 0.55
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (43 bp):
AAAAAAAAAAAAATTAAGAAAAAAAAAGAAAATGTTACGTTAC
Found at i:27966 original size:83 final size:84
Alignment explanation
Indices: 27820--27976 Score: 192
Period size: 83 Copynumber: 1.9 Consensus size: 84
27810 GGTTGATACA
* * *
27820 CCCTCGAGCTGAATGGAATCGAACTCGAAAGTCTTCATTGACAGATAGTCCTTCTCGCCTTGAGC
1 CCCTCGAGCTGAATGAAATCGAACTC-AAAGTCTTCATTGACAGATAGACCCTCTCGCCTTGAGC
*
27885 TATGCTGTAAATTTGTTATG
65 TATGATGTAAATTTGTTATG
* * * ** *
27905 CCCTTGAGCTGAATGAAATCGAACTC-AGGTTTTTGTTGACAGATA-ACCCTCATCGCCTTGAGT
1 CCCTCGAGCTGAATGAAATCGAACTCAAAGTCTTCATTGACAGATAGACCCTC-TCGCCTTGAGC
27968 TATGATGTA
65 TATGATGTA
27977 CTAGATTGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
82 4 0.07
83 33 0.54
85 24 0.39
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (84 bp):
CCCTCGAGCTGAATGAAATCGAACTCAAAGTCTTCATTGACAGATAGACCCTCTCGCCTTGAGCT
ATGATGTAAATTTGTTATG
Found at i:28516 original size:83 final size:83
Alignment explanation
Indices: 28367--28535 Score: 196
Period size: 83 Copynumber: 2.0 Consensus size: 83
28357 TCGATAGTTT
* * * *
28367 TTTGTTGACAGATAGCCCTTCTCACCTTGAGCTATAATGTAAATTTGATACGCCCTTAAACTGAA
1 TTTGTTGACAGATAACCCTTATCACCTTAAGCTATAATGTAAATTTGATACGCCCTTAAACCGAA
28432 TGT-ATTCGAACTCGAAGG
66 TGTAATT-GAACTCGAAGG
* * * * * * * *
28450 TTTGTTGACATATAACCCTTATCGCCTTAAGCTATACTTTAAATTTGATATGCTCTTGAGCCGAA
1 TTTGTTGACAGATAACCCTTATCACCTTAAGCTATAATGTAAATTTGATACGCCCTTAAACCGAA
**
28515 TGTAATTGAGGTCGAAGG
66 TGTAATTGAACTCGAAGG
28533 TTT
1 TTT
28536 TTATGCTGGT
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
83 68 0.96
84 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (83 bp):
TTTGTTGACAGATAACCCTTATCACCTTAAGCTATAATGTAAATTTGATACGCCCTTAAACCGAA
TGTAATTGAACTCGAAGG
Found at i:33604 original size:22 final size:24
Alignment explanation
Indices: 33557--33607 Score: 79
Period size: 22 Copynumber: 2.2 Consensus size: 24
33547 TTAGATTAAA
33557 AAAAATATTAAATAAATCAAAGAG
1 AAAAATATTAAATAAATCAAAGAG
*
33581 AAAAATA-TAAATAAAT-TAAGAG
1 AAAAATATTAAATAAATCAAAGAG
33603 AAAAA
1 AAAAA
33608 AGGTAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 10 0.38
23 9 0.35
24 7 0.27
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.20
Consensus pattern (24 bp):
AAAAATATTAAATAAATCAAAGAG
Found at i:33608 original size:23 final size:23
Alignment explanation
Indices: 33556--33608 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
33546 GTTAGATTAA
33556 AAAAAATATTAAATAAATCAAAG
1 AAAAAATATTAAATAAATCAAAG
*
33579 AGAAAAATA-TAAATAAATTAAGAG
1 A-AAAAATATTAAATAAATCAA-AG
33603 AAAAAA
1 AAAAAA
33609 GGTAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.19
Consensus pattern (23 bp):
AAAAAATATTAAATAAATCAAAG
Found at i:33608 original size:24 final size:24
Alignment explanation
Indices: 33555--33608 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
33545 TGTTAGATTA
33555 AAAAAAATATTAAATAAATCAAAG
1 AAAAAAATATTAAATAAATCAAAG
* *
33579 AGAAAAATA-TAAATAAATTAAGAG
1 AAAAAAATATTAAATAAATCAA-AG
33603 AAAAAA
1 AAAAAA
33609 GGTAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (24 bp):
AAAAAAATATTAAATAAATCAAAG
Found at i:33672 original size:16 final size:16
Alignment explanation
Indices: 33653--33685 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33643 AAGATGAAGG
33653 AAATATA-AAAACATAA
1 AAATATAGAAAA-ATAA
33669 AAATATAGAAAAATAA
1 AAATATAGAAAAATAA
33685 A
1 A
33686 CAAAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
AAATATAGAAAAATAA
Found at i:34955 original size:26 final size:25
Alignment explanation
Indices: 34924--34980 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
34914 AAAAAGAAGG
34924 AAAAATATTAATAAAATAAT-AAATA
1 AAAAATATTAATAAAA-AATAAAATA
*
34949 AATAAATATTAATATAAAATAAAATA
1 AA-AAATATTAATAAAAAATAAAATA
34975 AAAAAT
1 AAAAAT
34981 CATTTTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (25 bp):
AAAAATATTAATAAAAAATAAAATA
Found at i:35080 original size:35 final size:35
Alignment explanation
Indices: 35018--35265 Score: 180
Period size: 37 Copynumber: 6.8 Consensus size: 35
35008 TGTTTTTTTT
* * * *
35018 AAATTGTTTTCAAAGCCATATAAAATATATTTTTAAA
1 AAATTGTTTTAAAAACTATATAATATATA-TTTT-AA
* *
35055 AAATTGTTTTTAAAACTATATAATATATGTTTTCAA
1 AAATTGTTTTAAAAACTATATAATATATATTTT-AA
* *
35091 AAATAT-TTTAAAAAATTATATATTATATATATTTTCAA
1 AAAT-TGTTTTAAAAACTATATA--ATATATATTTT-AA
* * *
35129 AAA-TATTTTCAAAACTATATATTATATATATTTTCA
1 AAATTGTTTTAAAAACTATATA--ATATATATTTTAA
* * *
35165 AAATAT-TTTTAAAAACTATTTATTATATACATTTTCA
1 AAAT-TGTTTTAAAAACTA--TATAATATATATTTTAA
* *
35202 AAA-TGTTTTAAAAAACTTTATATTATATATTTTAA
1 AAATTGTTTT-AAAAACTATATAATATATATTTTAA
* * *
35237 AAAATATTTTCAAAACTATATAATATATA
1 AAATTGTTTTAAAAACTATATAATATATA
35266 AGTTTTCAAA
Statistics
Matches: 174, Mismatches: 26, Indels: 24
0.78 0.12 0.11
Matches are distributed among these distances:
35 33 0.19
36 37 0.21
37 84 0.48
38 17 0.10
39 3 0.02
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (35 bp):
AAATTGTTTTAAAAACTATATAATATATATTTTAA
Found at i:35170 original size:11 final size:11
Alignment explanation
Indices: 35119--35178 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
35109 TATATTATAT
35119 ATATTTTCAAAA
1 ATATTTTC-AAA
35131 ATATTTTCAAA
1 ATATTTTCAAA
*
35142 ACTATATATT-ATAT
1 A-TAT-T-TTCA-AA
35156 ATATTTTCAAA
1 ATATTTTCAAA
*
35167 ATATTTTTAAA
1 ATATTTTCAAA
35178 A
1 A
35179 ACTATTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
11 18 0.45
12 13 0.32
13 5 0.12
14 4 0.10
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTTTCAAA
Found at i:35180 original size:37 final size:37
Alignment explanation
Indices: 35066--35411 Score: 362
Period size: 37 Copynumber: 9.6 Consensus size: 37
35056 AATTGTTTTT
* *
35066 AAAACTATATA--ATATATGTTTTCAAAAATATTTTAA
1 AAAACTATATATTATATATATTTTC-AAAATATTTTCA
*
35102 AAAATTATATATTATATATATTTTCAAAAATATTTTC-
1 AAAACTATATATTATATATATTTTC-AAAATATTTTCA
*
35139 AAAACTATATATTATATATATTTTCAAAATATTTTTA
1 AAAACTATATATTATATATATTTTCAAAATATTTTCA
* * * *
35176 AAAACTATTTATTATATACATTTTCAAAATGTTTTAA
1 AAAACTATATATTATATATATTTTCAAAATATTTTCA
* **
35213 AAAACTTTATATTATATAT-TTTAAAAAATATTTTC-
1 AAAACTATATATTATATATATTTTCAAAATATTTTCA
*
35248 AAAACTATATAATATATA-AGTTTTCAAAATATTTTCA
1 AAAACTATATATTATATATA-TTTTCAAAATATTTTCA
* * *
35285 AAAA-T-TATA-CAT-TATA---T--ATATGTTTTCA
1 AAAACTATATATTATATATATTTTCAAAATATTTTCA
*
35313 AAAACTATATATTATATATATATTTTCGAAATATTTTCA
1 AAAACTATATA-T-TATATATATTTTCAAAATATTTTCA
* *
35352 AAAACTATATATTATATATATTTTTTAAAATGTTTTCA
1 AAAACTATATATTATATATA-TTTTCAAAATATTTTCA
35390 AAAACTATATATTATATTATAT
1 AAAACTATATATTATA-TATAT
35412 ATATTTTCAA
Statistics
Matches: 261, Mismatches: 29, Indels: 38
0.80 0.09 0.12
Matches are distributed among these distances:
28 13 0.05
29 1 0.00
30 5 0.02
33 4 0.02
34 7 0.03
35 20 0.08
36 47 0.18
37 86 0.33
38 54 0.21
39 24 0.09
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (37 bp):
AAAACTATATATTATATATATTTTCAAAATATTTTCA
Found at i:35184 original size:13 final size:12
Alignment explanation
Indices: 35079--35185 Score: 54
Period size: 12 Copynumber: 8.5 Consensus size: 12
35069 ACTATATAAT
35079 ATATGTTTTCAAAA
1 ATAT-TTTT-AAAA
*
35093 ATATTTTAAAAA
1 ATATTTTTAAAA
* * *
35105 ATTATATATTATAT
1 A-TAT-TTTTAAAA
*
35119 ATATTTTCAAAA
1 ATATTTTTAAAA
*
35131 ATATTTTCAAAA
1 ATATTTTTAAAA
* * * *
35143 CTATATATTATAT
1 ATAT-TTTTAAAA
*
35156 ATA-TTTTCAAA
1 ATATTTTTAAAA
35167 ATATTTTTAAAA
1 ATATTTTTAAAA
35179 ACTATTT
1 A-TATTT
35186 ATTATATACA
Statistics
Matches: 68, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
11 7 0.10
12 32 0.47
13 20 0.29
14 9 0.13
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.48
Consensus pattern (12 bp):
ATATTTTTAAAA
Found at i:35257 original size:14 final size:12
Alignment explanation
Indices: 35117--35257 Score: 53
Period size: 12 Copynumber: 11.5 Consensus size: 12
35107 TATATATTAT
35117 ATATATTTTCAAA
1 ATATATTTT-AAA
35130 A-ATATTTTCAAA
1 ATATATTTT-AAA
* *
35142 ACTATATATT-AT
1 A-TATATTTTAAA
35154 ATATATTTTCAAA
1 ATATATTTT-AAA
35167 ATAT-TTTTAAA
1 ATATATTTTAAA
* *
35178 A-ACTATTTATTAT
1 ATA-TATTT-TAAA
* *
35191 ATACATTTTCAA
1 ATATATTTTAAA
*
35203 A-ATGTTTTAAA
1 ATATATTTTAAA
**
35214 A-A-ACTTTATATT
1 ATATA-TTT-TAAA
35226 ATATATTTTAAA
1 ATATATTTTAAA
*
35238 AAATATTTTCAAA
1 ATATATTTT-AAA
35251 ACTATAT
1 A-TATAT
35258 AATATATAAG
Statistics
Matches: 95, Mismatches: 19, Indels: 27
0.67 0.13 0.19
Matches are distributed among these distances:
10 1 0.01
11 24 0.25
12 37 0.39
13 21 0.22
14 12 0.13
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (12 bp):
ATATATTTTAAA
Found at i:35310 original size:28 final size:28
Alignment explanation
Indices: 35276--35339 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
35266 AGTTTTCAAA
*
35276 ATATTTTCAAAAATTATACATTATATAT
1 ATATTTTCAAAAACTATACATTATATAT
* *
35304 ATGTTTTCAAAAACTATATATTATATAT
1 ATATTTTCAAAAACTATACATTATATAT
35332 ATATTTTC
1 ATATTTTC
35340 GAAATATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (28 bp):
ATATTTTCAAAAACTATACATTATATAT
Found at i:35349 original size:67 final size:64
Alignment explanation
Indices: 35243--35381 Score: 192
Period size: 67 Copynumber: 2.1 Consensus size: 64
35233 TTAAAAAATA
*
35243 TTTTC-AAAACTATATAATATATAAGTTTTCAAAATATTTTCAAAAATTATACATTATATATAT
1 TTTTCAAAAACTATATAATATATAAGTTTTCAAAATATTTTCAAAAACTATACATTATATATAT
* *
35306 GTTTTCAAAAACTATATATTATATATATA-TTTTCGAAATATTTTCAAAAACTATATATTATATA
1 -TTTTCAAAAACTATATA--ATATATA-AGTTTTCAAAATATTTTCAAAAACTATACATTATATA
35370 TAT
62 TAT
*
35373 TTTTTAAAA
1 TTTTCAAAA
35382 TGTTTTCAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
64 5 0.07
65 11 0.16
66 8 0.12
67 42 0.63
68 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (64 bp):
TTTTCAAAAACTATATAATATATAAGTTTTCAAAATATTTTCAAAAACTATACATTATATATAT
Found at i:35397 original size:38 final size:39
Alignment explanation
Indices: 35304--35423 Score: 179
Period size: 39 Copynumber: 3.0 Consensus size: 39
35294 CATTATATAT
*
35304 ATGTTTTCAAAAACTATATATTATATATATATTTTCGAA
1 ATGTTTTCAAAAACTATATATTATATATATATTTTCAAA
* *
35343 ATATTTTCAAAAACTATATATTATATATAT-TTTTTAAA
1 ATGTTTTCAAAAACTATATATTATATATATATTTTCAAA
35381 ATGTTTTCAAAAACTATATATTATATTATATATATTTTCAAA
1 ATGTTTTCAAAAACTATATA-T-TA-TATATATATTTTCAAA
35423 A
1 A
35424 ACCGATGTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
38 25 0.35
39 30 0.42
40 2 0.03
41 7 0.10
42 8 0.11
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (39 bp):
ATGTTTTCAAAAACTATATATTATATATATATTTTCAAA
Found at i:39091 original size:6 final size:7
Alignment explanation
Indices: 39064--39090 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
39054 AATATTTTAT
39064 TTAAAAA
1 TTAAAAA
39071 TTAAAAA
1 TTAAAAA
39078 TTAAAAA
1 TTAAAAA
39085 TTAAAA
1 TTAAAA
39091 TAATATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TTAAAAA
Found at i:40556 original size:39 final size:34
Alignment explanation
Indices: 40474--40552 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
40464 TTTTTGGTCC
40474 ACCCGACCCGAGAACAAGGGAACCTCCATCCGAG
1 ACCCGACCCGAGAACAAGGGAACCTCCATCCGAG
* *
40508 ACTCGACCCGAGAACAAGGGAACCTCCATCCGAT
1 ACCCGACCCGAGAACAAGGGAACCTCCATCCGAG
40542 ACCCGACCCGA
1 ACCCGACCCGA
40553 CCCGAATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.32, C:0.39, G:0.22, T:0.08
Consensus pattern (34 bp):
ACCCGACCCGAGAACAAGGGAACCTCCATCCGAG
Found at i:40820 original size:253 final size:255
Alignment explanation
Indices: 40541--41123 Score: 853
Period size: 253 Copynumber: 2.3 Consensus size: 255
40531 CTCCATCCGA
40541 TACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCAAAATAATAAAAAAATTATTTCTA
1 TACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCAAAATAATAAAAAAATTATTT-TA
*
40606 TTCAATAAAAACAATGACTTAATT-G-AAAAAAATTATATATATAGAGGGTATTATTGTAATTAT
65 TTCAATAAAAACAATGACTTAATTGGAAAAAAAATTATATATAGAG-GGGTATTATTGTAATTAT
* *** * *
40669 TCCTAAATATATAAGGTAAAATTATATAT-TTTTTGGGTCGGGTTGGGTATTTTTCACCCTAAAC
129 TCCTAAATATATAAGGTAAAATTATATATATTTTCGAAACGGGTCGGATATTTTTCACCCTAAAC
* *
40733 CCG-A-ACCCGACCCAAATATCACACTTAAAAAAACCGACCCGACATGACCAAAATAAAGTT
194 CCGAACACCCGACCCAAATATCACACTTAAAAAAACCAACCCGACACGACCAAAATAAAGTT
*
40793 TCACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGAAATAATAAAAAAATTATTTTA
1 T-ACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCAAAATAATAAAAAAATTATTTTA
*
40858 TTCAATAAAAACAGTGACTTAATTGGAAAAAAAATTATATATAGAGGGGTATTATTGTAATTATT
65 TTCAATAAAAACAATGACTTAATTGGAAAAAAAATTATATATAGAGGGGTATTATTGTAATTATT
*
40923 CCTAAATATATGAGGTAAAATTATATATATTTTCGAAACGGGTCGGATATTTTTCACCCTAAACC
130 CCTAAATATATAAGGTAAAATTATATATATTTTCGAAACGGGTCGGATATTTTTCACCCTAAACC
* * *
40988 CGAACTCGACCCGACCCGAATATCACACTTAAAAAAACCAACCCGACCCGATCAAAATAAAGTT
195 CGAA--C-ACCCGACCCAAATATCACACTTAAAAAAACCAACCCGACACGACCAAAATAAAGTT
41052 T---C-ACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAATAATAAAAAAA-TAT
1 TACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCC-A----AAATAATAAAAAAATTA-
41112 TTTTATTCAATA
60 TTTTATTCAATA
41124 TATGAATAAG
Statistics
Matches: 300, Mismatches: 16, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
252 26 0.09
253 107 0.36
254 85 0.28
255 2 0.01
258 2 0.01
259 78 0.26
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (255 bp):
TACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCAAAATAATAAAAAAATTATTTTAT
TCAATAAAAACAATGACTTAATTGGAAAAAAAATTATATATAGAGGGGTATTATTGTAATTATTC
CTAAATATATAAGGTAAAATTATATATATTTTCGAAACGGGTCGGATATTTTTCACCCTAAACCC
GAACACCCGACCCAAATATCACACTTAAAAAAACCAACCCGACACGACCAAAATAAAGTT
Found at i:42456 original size:21 final size:21
Alignment explanation
Indices: 42410--42456 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
42400 CTAACAAAAA
*
42410 TCGGATTCAGATCCGGATATT
1 TCGGATTCAGATCCGGAAATT
*
42431 T-GGATATCTGATCC-GAAATT
1 TCGGAT-TCAGATCCGGAAATT
42451 TCGGAT
1 TCGGAT
42457 GTCCGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGGATTCAGATCCGGAAATT
Found at i:45045 original size:41 final size:41
Alignment explanation
Indices: 44968--45045 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
44958 TATCAGTTTC
* * **
44968 AATTGAAAGATAAGTTGTAATAATATACCTTTAAGCTCAAA
1 AATTGAAAGATAAGTTGCAATAATACACCTCCAAGCTCAAA
* *
45009 AATTGAAAGATAAGTTGCAATACTACGCCTCCAAGCT
1 AATTGAAAGATAAGTTGCAATAATACACCTCCAAGCT
45046 TTGGAATCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.28
Consensus pattern (41 bp):
AATTGAAAGATAAGTTGCAATAATACACCTCCAAGCTCAAA
Found at i:46260 original size:29 final size:29
Alignment explanation
Indices: 46218--46273 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
46208 TACCTGTGCA
* *
46218 GTTTGAAGGGTATTTTTCCAATTAATGTC
1 GTTTGAAGGGTATTTGTCCAATAAATGTC
* *
46247 GTTTGGAGGTTATTTGTCCAATAAATG
1 GTTTGAAGGGTATTTGTCCAATAAATG
46274 AATTTTTGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (29 bp):
GTTTGAAGGGTATTTGTCCAATAAATGTC
Found at i:46850 original size:28 final size:28
Alignment explanation
Indices: 46818--46883 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
46808 TATTTCTTTT
* * *
46818 TAAAATTTTAAAATTTGGTCTATTAACG
1 TAAAATTCTAAAAATTCGTCTATTAACG
*
46846 TAAAATTCTAAAAATTCGTTTATTAACG
1 TAAAATTCTAAAAATTCGTCTATTAACG
46874 TAAAATTCTA
1 TAAAATTCTA
46884 CATTTGTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (28 bp):
TAAAATTCTAAAAATTCGTCTATTAACG
Found at i:63281 original size:4 final size:4
Alignment explanation
Indices: 63272--63310 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
63262 TCGTCCATAT
* *
63272 TTTA TTTA TTTA TTTA TTTA TTTGT TTTA TTTA TATA TT
1 TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TT
63311 ATATAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 27 0.90
5 3 0.10
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:63319 original size:25 final size:25
Alignment explanation
Indices: 63271--63319 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
63261 TTCGTCCATA
* *
63271 TTTTATTTATTTATTTATTTATTTG
1 TTTTATTTATATATTTATTAATTTG
63296 TTTTATTTATATA-TTATATAATTT
1 TTTTATTTATATATTTAT-TAATTT
63320 TGAAAACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTATTTATATATTTATTAATTTG
Found at i:63381 original size:12 final size:12
Alignment explanation
Indices: 63318--63395 Score: 56
Period size: 12 Copynumber: 6.7 Consensus size: 12
63308 ATTATATAAT
*
63318 TTTGAAAACAT-
1 TTTGAAAATATA
63329 TTTGAAAATATA
1 TTTGAAAATATA
*
63341 --TG-ATATATA
1 TTTGAAAATATA
* * *
63350 GTTTGCAAATGGTT
1 -TTTGAAAAT-ATA
63364 TTTGAAAATATA
1 TTTGAAAATATA
*
63376 TTTGAAAACATA
1 TTTGAAAATATA
63388 TTTGAAAA
1 TTTGAAAA
63396 CATTTATATA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
9 6 0.12
10 2 0.04
11 10 0.19
12 22 0.42
13 11 0.21
14 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.40
Consensus pattern (12 bp):
TTTGAAAATATA
Found at i:63396 original size:12 final size:12
Alignment explanation
Indices: 63364--63398 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
63354 GCAAATGGTT
*
63364 TTTGAAAATATA
1 TTTGAAAACATA
63376 TTTGAAAACATA
1 TTTGAAAACATA
63388 TTTGAAAACAT
1 TTTGAAAACAT
63399 TTATATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (12 bp):
TTTGAAAACATA
Found at i:63481 original size:37 final size:37
Alignment explanation
Indices: 63380--63517 Score: 177
Period size: 37 Copynumber: 3.6 Consensus size: 37
63370 AATATATTTG
* *
63380 AAAACATATTTGAAAACATTTATATATTATATAGTTTTTT
1 AAAACATTTTTG-AAA-ATATATATATTATATAG-TTTTT
* * *
63420 AAAACGTTTTTGAAAATAAAATATAATATATAGTTTTT
1 AAAACATTTTTGAAAAT-ATATATATTATATAGTTTTT
63458 AAAACATTTTTGAAAATATATATATTATATAGTTTTT
1 AAAACATTTTTGAAAATATATATATTATATAGTTTTT
*
63495 AAAACATTTTAGAAAACTATATA
1 AAAACATTTTTGAAAA-TATATA
63518 ATTTTGAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
37 33 0.38
38 29 0.33
39 15 0.17
40 10 0.11
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (37 bp):
AAAACATTTTTGAAAATATATATATTATATAGTTTTT
Found at i:63527 original size:29 final size:29
Alignment explanation
Indices: 63483--63548 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
63473 ATATATATAT
* * *
63483 TATATAGTTTTTAAAACATTTTAGAAAAC
1 TATATAATTTTGAAAACATTTTAGAAAAA
* **
63512 TATATAATTTTGAAAATATTTTTTAAAAA
1 TATATAATTTTGAAAACATTTTAGAAAAA
63541 TATATAAT
1 TATATAAT
63549 ATATAATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (29 bp):
TATATAATTTTGAAAACATTTTAGAAAAA
Found at i:63552 original size:36 final size:34
Alignment explanation
Indices: 63512--63593 Score: 119
Period size: 34 Copynumber: 2.3 Consensus size: 34
63502 TTTAGAAAAC
*
63512 TATATAATTTTGAAAATATTTTTTAAAAATATATAA
1 TATATAATTTT-AAAAT-GTTTTTAAAAATATATAA
*
63548 TATATAATTTTAAAATGTTTTTAAAAATATATAT
1 TATATAATTTTAAAATGTTTTTAAAAATATATAA
63582 TATATAGATTTT
1 TATATA-ATTTT
63594 TAGAAAATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
34 22 0.51
35 10 0.23
36 11 0.26
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (34 bp):
TATATAATTTTAAAATGTTTTTAAAAATATATAA
Found at i:63570 original size:65 final size:64
Alignment explanation
Indices: 63444--63580 Score: 161
Period size: 66 Copynumber: 2.1 Consensus size: 64
63434 AATAAAATAT
* * * *
63444 AATATATAGTTTTTAAAACATTTTTGAAAATATATATATTATATAGTTTTTAAAACATTTTAGAA
1 AATATATAATTTTGAAAACATTTTTGAAAATATATATAATATATAGATTTTAAAACATTTTA-AA
* * **
63509 AACTATATAATTTTGAAAATATTTTTTAAAA-ATATATAATATATA-ATTTTAAAATGTTTTTAA
1 AA-TATATAATTTTGAAAACATTTTTGAAAATATATATAATATATAGATTTTAAAA-CATTTTAA
63572 A
64 A
63573 AATATATA
1 AATATATA
63581 TTATATAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
63 6 0.10
64 12 0.19
65 20 0.32
66 24 0.39
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (64 bp):
AATATATAATTTTGAAAACATTTTTGAAAATATATATAATATATAGATTTTAAAACATTTTAAA
Found at i:63595 original size:36 final size:35
Alignment explanation
Indices: 63512--63604 Score: 116
Period size: 34 Copynumber: 2.6 Consensus size: 35
63502 TTTAGAAAAC
* *
63512 TATATAATTTTGAAAATATTTTTTAAAAATATATAA
1 TATATAATTTTTAAAAT-GTTTTTAAAAATATATAA
*
63548 TATATAA-TTTTAAAATGTTTTTAAAAATATATAT
1 TATATAATTTTTAAAATGTTTTTAAAAATATATAA
63582 TATATAGATTTTTAGAAAATGTT
1 TATATA-ATTTTT--AAAATGTT
63605 CTTCTTTTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
34 22 0.44
35 9 0.18
36 11 0.22
38 8 0.16
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (35 bp):
TATATAATTTTTAAAATGTTTTTAAAAATATATAA
Found at i:70098 original size:165 final size:165
Alignment explanation
Indices: 69864--70942 Score: 1494
Period size: 165 Copynumber: 6.5 Consensus size: 165
69854 TATCTGCCAA
** * * * * * * * * *
69864 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGAATATCATTTGCAGCACAACTTAAGT
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTCAAGG
* *
69928 CTAGAAGGGTTGTCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAAGGCACAACA
66 CTAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAAGGCACATCA
69993 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
131 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
** * * * *
70028 CCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCACAAATTAAGT
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTCAAGG
* * *
70093 CTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCA
66 CTAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAAGGCACATCA
* * *
70158 TTTGTAGCATAGTTTAAGTCGAGAAGGGCTATCTA
131 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* *
70193 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTACAGCATAACTCAAGG
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTCAAGG
* * * *
70258 CTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
66 CTAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAAGGCACATCA
* *
70323 TTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTG
131 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
** * *
70358 CCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTTAAGT
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTCAAGG
* * * * **
70423 CTAGAAGGGTTGTCTGCCAACAAAAGACCTTTAAGTTCGACTACACTCAGCTCAGCGGCACATCA
66 CTAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAAGGCACATCA
* *
70488 TTTGCAGTATAACTTAAGTCGAGAAGGGCTATCTG
131 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
*
70523 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGG
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTCAAGG
* * * * *
70588 CTAGAAGGGTTATCTGTGACCAAAAGGCCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCA
66 CTAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAAGGCACATCA
*
70653 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCAG
131 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* * *
70688 CCAAAGACCCCCGGGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGG
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTCAAGG
* * * * *
70753 CTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCTAAGGCACATCA
66 CTAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAAGGCACATCA
70818 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
131 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* * * * * * * **
70853 CCAAAGACCCCCGGGTTCGATTACACTCAACTTCAAGGTCATATCATTTACAACATAGTTCAAGG
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTCAAGG
* * * *
70918 CAAGAAGGGCTATTTGTCAATAAAA
66 CTAGAAGGGTTATCTGTCAACAAAA
70943 TTGTCGAGTT
Statistics
Matches: 827, Mismatches: 87, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
164 29 0.04
165 798 0.96
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (165 bp):
CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTCAAGG
CTAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAAGGCACATCA
TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
Found at i:70835 original size:495 final size:495
Alignment explanation
Indices: 69864--70904 Score: 1647
Period size: 495 Copynumber: 2.1 Consensus size: 495
69854 TATCTGCCAA
* * * * *
69864 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGAATATCATTTGCAGCACAACTTAAGT
1 CCAAAGACCTTCGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCACAACTTAAGT
* * *
69928 CTAGAAGGGTTGTCTGTCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAAGGCACAACA
66 CTAGAAGGGTTGTCTGCCAACAAAAGACCTTTAAGTTCGACTACACTCAGCTCAAAGGCACAACA
* **
69993 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAG
131 TTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAG
* * * *
70058 CTTCGAGGGCACATCATTTGCAGCACAAATTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCT
196 CTTCGAGGGCACATCATTTACAGCACAAATCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCT
* * *
70123 TTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGTAGCATAGTTTAAGTCGAGAAGGGCT
261 TCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
*
70188 ATCTACCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTACAGCATAACT
326 ATCTACCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTACAACATAACT
* *
70253 CAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCA
391 CAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCA
* *
70318 TATCATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTG
456 CATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* *
70358 CCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTTAAGT
1 CCAAAGACCTTCGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCACAACTTAAGT
** *
70423 CTAGAAGGGTTGTCTGCCAACAAAAGACCTTTAAGTTCGACTACACTCAGCTCAGCGGCACATCA
66 CTAGAAGGGTTGTCTGCCAACAAAAGACCTTTAAGTTCGACTACACTCAGCTCAAAGGCACAACA
*
70488 TTTGCAGTATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAG
131 TTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAG
* * ** * *
70553 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGGCCT
196 CTTCGAGGGCACATCATTTACAGCACAAATCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCT
70618 TCGAGTTCGACTACGCTCAGCTCTAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
261 TCGAGTTCGACTACGCTCAGCTC-AACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
* *
70682 TATC-AGCCAAAGACCCCCGGGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAA
325 TATCTA-CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTACAACATAA
*
70746 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCTAAGG
389 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGG
*
70811 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
454 CACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG
** * * *
70853 CCAAAGACCCCCGGGTTCGATTACACTCAACTTCAAGGTCATATCATTTACA
1 CCAAAGACCTTCGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACA
70905 ACATAGTTCA
Statistics
Matches: 498, Mismatches: 46, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
494 33 0.07
495 463 0.93
496 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (495 bp):
CCAAAGACCTTCGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCACAACTTAAGT
CTAGAAGGGTTGTCTGCCAACAAAAGACCTTTAAGTTCGACTACACTCAGCTCAAAGGCACAACA
TTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAG
CTTCGAGGGCACATCATTTACAGCACAAATCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCT
TCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
ATCTACCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTACAACATAACT
CAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCA
CATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG
Found at i:71526 original size:21 final size:21
Alignment explanation
Indices: 71480--71526 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
71470 TTTCGTCCAT
* *
71480 ATTTTATTTATTTATTTATTT
1 ATTTTATTTATATATTTATTA
*
71501 GTTTTATTTATATA-TTATATA
1 ATTTTATTTATATATTTAT-TA
71522 ATTTT
1 ATTTT
71527 GAAAACATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTATTTATATATTTATTA
Found at i:71587 original size:12 final size:12
Alignment explanation
Indices: 71524--71601 Score: 56
Period size: 12 Copynumber: 6.7 Consensus size: 12
71514 ATTATATAAT
*
71524 TTTGAAAACAT-
1 TTTGAAAATATA
71535 TTTGAAAATATA
1 TTTGAAAATATA
*
71547 --TG-ATATATA
1 TTTGAAAATATA
* * *
71556 GTTTGCAAATGGTT
1 -TTTGAAAAT-ATA
71570 TTTGAAAATATA
1 TTTGAAAATATA
*
71582 TTTGAAAACATA
1 TTTGAAAATATA
71594 TTTGAAAA
1 TTTGAAAA
71602 CATTTATATA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
9 6 0.12
10 2 0.04
11 10 0.19
12 22 0.42
13 11 0.21
14 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.40
Consensus pattern (12 bp):
TTTGAAAATATA
Found at i:71602 original size:12 final size:12
Alignment explanation
Indices: 71570--71604 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
71560 GCAAATGGTT
*
71570 TTTGAAAATATA
1 TTTGAAAACATA
71582 TTTGAAAACATA
1 TTTGAAAACATA
71594 TTTGAAAACAT
1 TTTGAAAACAT
71605 TTATATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (12 bp):
TTTGAAAACATA
Found at i:71658 original size:38 final size:37
Alignment explanation
Indices: 71586--71799 Score: 241
Period size: 38 Copynumber: 5.6 Consensus size: 37
71576 AATATATTTG
* *
71586 AAAACATATTTGAAAACATTTATATATTATATAGTTTTTT
1 AAAACATTTTTG-AAA-ATATATATATTATATAG-TTTTT
* * *
71626 AAAACGTTTTTGAAAATACATATAATATATAGTTTTT
1 AAAACATTTTTGAAAATATATATATTATATAGTTTTT
*
71663 AAAACA-TTTTGAAAACATTTATATATTATATAGTTTTTT
1 AAAACATTTTTG-AAA-ATATATATATTATATAG-TTTTT
* * * *
71702 AAAACGTTTTTGAAAATAAAATATAATATATAGTCTTT
1 AAAACATTTTTGAAAAT-ATATATATTATATAGTTTTT
*
71740 AAAACATTTTTGAATATATATATATTATATAGTTTTT
1 AAAACATTTTTGAAAATATATATATTATATAGTTTTT
*
71777 AAAACATTTTAGAAAACTATATA
1 AAAACATTTTTGAAAA-TATATA
71800 ATTTTGAAAA
Statistics
Matches: 147, Mismatches: 21, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
36 5 0.03
37 44 0.30
38 55 0.37
39 28 0.19
40 15 0.10
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (37 bp):
AAAACATTTTTGAAAATATATATATTATATAGTTTTT
Found at i:71676 original size:76 final size:77
Alignment explanation
Indices: 71586--71792 Score: 314
Period size: 76 Copynumber: 2.7 Consensus size: 77
71576 AATATATTTG
*
71586 AAAACATATTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTTTGAAAAT-ACATATA
1 AAAACAT-TTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTTTGAAAATAAAATATA
*
71650 ATATATAGTTTTT
65 ATATATAGTCTTT
71663 AAAACATTTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTTTGAAAATAAAATATAA
1 AAAACATTTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTTTGAAAATAAAATATAA
71728 TATATAGTCTTT
66 TATATAGTCTTT
* * * *
71740 AAAACATTTTTG--AATATATATATATTATATAG-TTTTTAAAACATTTTAGAAAA
1 AAAACA-TTTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTTTGAAAA
71793 CTATATAATT
Statistics
Matches: 122, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
75 19 0.16
76 67 0.55
77 31 0.25
78 5 0.04
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (77 bp):
AAAACATTTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTTTGAAAATAAAATATAA
TATATAGTCTTT
Found at i:71809 original size:29 final size:29
Alignment explanation
Indices: 71765--71830 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
71755 ATATATATAT
* * *
71765 TATATAGTTTTTAAAACATTTTAGAAAAC
1 TATATAATTTTGAAAACATTTTAGAAAAA
* **
71794 TATATAATTTTGAAAATATTTTTTAAAAA
1 TATATAATTTTGAAAACATTTTAGAAAAA
71823 TATATAAT
1 TATATAAT
71831 ATATAATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (29 bp):
TATATAATTTTGAAAACATTTTAGAAAAA
Found at i:71834 original size:36 final size:34
Alignment explanation
Indices: 71794--71875 Score: 119
Period size: 34 Copynumber: 2.3 Consensus size: 34
71784 TTTAGAAAAC
*
71794 TATATAATTTTGAAAATATTTTTTAAAAATATATAA
1 TATATAATTTT-AAAAT-GTTTTTAAAAATATATAA
*
71830 TATATAATTTTAAAATGTTTTTAAAAATATATAT
1 TATATAATTTTAAAATGTTTTTAAAAATATATAA
71864 TATATAGATTTT
1 TATATA-ATTTT
71876 TAGAAAATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
34 22 0.51
35 10 0.23
36 11 0.26
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (34 bp):
TATATAATTTTAAAATGTTTTTAAAAATATATAA
Found at i:71877 original size:36 final size:35
Alignment explanation
Indices: 71794--71886 Score: 116
Period size: 34 Copynumber: 2.6 Consensus size: 35
71784 TTTAGAAAAC
* *
71794 TATATAATTTTGAAAATATTTTTTAAAAATATATAA
1 TATATAATTTTTAAAAT-GTTTTTAAAAATATATAA
*
71830 TATATAA-TTTTAAAATGTTTTTAAAAATATATAT
1 TATATAATTTTTAAAATGTTTTTAAAAATATATAA
71864 TATATAGATTTTTAGAAAATGTT
1 TATATA-ATTTTT--AAAATGTT
71887 CTTATTTTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
34 22 0.44
35 9 0.18
36 11 0.22
38 8 0.16
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (35 bp):
TATATAATTTTTAAAATGTTTTTAAAAATATATAA
Found at i:75255 original size:34 final size:34
Alignment explanation
Indices: 75212--75284 Score: 130
Period size: 34 Copynumber: 2.1 Consensus size: 34
75202 GTCGGAGTCA
75212 AGGTCTCTAGGGGTCATCAGAAAGAGT-GAAATCG
1 AGGTCTCTAGGGGTCATCAGAAAGAGTAG-AATCG
75246 AGGTCTCTAGGGGTCATCAGAAAGAGTAGAATCG
1 AGGTCTCTAGGGGTCATCAGAAAGAGTAGAATCG
75280 AGGTC
1 AGGTC
75285 CCTTCGAACC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 37 0.97
35 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.33, T:0.21
Consensus pattern (34 bp):
AGGTCTCTAGGGGTCATCAGAAAGAGTAGAATCG
Found at i:75722 original size:19 final size:20
Alignment explanation
Indices: 75690--75727 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
75680 TTGCATAGGA
75690 TTAGTTTAGGTTTA-ATTAT
1 TTAGTTTAGGTTTATATTAT
75709 TTAG-TTAGGTTTTATATTA
1 TTAGTTTAGG-TTTATATTA
75728 ATAATTTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (20 bp):
TTAGTTTAGGTTTATATTAT
Found at i:81952 original size:105 final size:104
Alignment explanation
Indices: 81753--81960 Score: 301
Period size: 105 Copynumber: 2.0 Consensus size: 104
81743 CATATACCCA
* * * *
81753 GATTATAATATTTTATGTATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTAGTTAAACTCT
1 GATTATAATATTATATATATACAATAAAGCTTGAACTATCCCTCTAGAGCAATTAGTTAAACTCC
*
81818 CTGACTTTATGGATAAGATTCAGCTAGCCTGATAAAGGT
66 CCGACTTTATGGATAAGATTCAGCTAGCCTGATAAAGGT
* * * *
81857 GATTATATTATATATATATATACAATAAAGCTTGAACTGTCCCTCTAGGGCAATTGGTTAAA-TG
1 GATTATAATAT-TATATATATACAATAAAGCTTGAACTATCCCTCTAGAGCAATTAGTTAAACT-
*
81921 CCCCGGCTTTATGGATAAGATTCAGCTAGCCTGATAAAGG
64 CCCCGACTTTATGGATAAGATTCAGCTAGCCTGATAAAGG
81961 CAAATTACAA
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
104 11 0.12
105 81 0.88
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (104 bp):
GATTATAATATTATATATATACAATAAAGCTTGAACTATCCCTCTAGAGCAATTAGTTAAACTCC
CCGACTTTATGGATAAGATTCAGCTAGCCTGATAAAGGT
Found at i:83786 original size:37 final size:37
Alignment explanation
Indices: 83725--83797 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
83715 TTGGGACAAG
* * * *
83725 TCAATCTTAAGCCTTTATGGAAGAGTAGTAAAGCAAA
1 TCAACCTTAAGCCTTCACGAAAGAGTAGTAAAGCAAA
*
83762 TCAACCTTAAGCCTTCACGAAAGAGTAGTGAAGCAA
1 TCAACCTTAAGCCTTCACGAAAGAGTAGTAAAGCAA
83798 GCCATCACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (37 bp):
TCAACCTTAAGCCTTCACGAAAGAGTAGTAAAGCAAA
Found at i:84002 original size:37 final size:37
Alignment explanation
Indices: 83885--84027 Score: 153
Period size: 37 Copynumber: 3.9 Consensus size: 37
83875 CTTCTGGGCC
83885 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATC-
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
** * * *
83921 ATCTTAAGTATTCACGGAAGTGTAGTGAAGTAAATTA
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
* * * *
83958 ATTTTAAGCCTTCACGTAAGAGTATTAAAGCAAATCA
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
* * * * *
83995 ACCTTAAGGCTTTATGAAAGAGTAGTGAAGCAA
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAA
84028 GCCATTAGTA
Statistics
Matches: 84, Mismatches: 22, Indels: 1
0.79 0.21 0.01
Matches are distributed among these distances:
36 31 0.37
37 53 0.63
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (37 bp):
ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
Found at i:84199 original size:229 final size:229
Alignment explanation
Indices: 83731--84413 Score: 960
Period size: 229 Copynumber: 3.0 Consensus size: 229
83721 CAAGTCAATC
* * * *
83731 TTAAGCCTTTATGGAAGAGTAGTAAAGCAAATCAACCTTAAGCCTTCACGAAAGAGTAGTGAAGC
1 TTAAGCCTTCACGTAAGAGTATTAAAGCAAATCAACCTTAAGCCTTCACGAAAGAGTAGTGAAGC
* * * * * * *
83796 AAGCCATCACTAAGCCTTCCGACTATGATGATTAAATCATTCAAGCCATCAGTAAGCCTTCCGAG
66 AAGCCATCAATAAGCCTTCCGAGTATGATGATTAAATCATTCAAGTCATCTGTAGGGCTTCTGAG
* * * * *
83861 CATGATGATTAAGTCTTCTGGGCCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCATCTT
131 TAAGATGA-TAAGTCCTCCGGGCCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCATCTT
** *
83926 AAGTATTCACGGAAGTGTAGTGAAGTAAATTAATT
195 AAGCCTTCACGGAAGAGTAGTGAAGTAAATTAATT
* * *
83961 TTAAGCCTTCACGTAAGAGTATTAAAGCAAATCAACCTTAAGGCTTTATGAAAGAGTAGTGAAGC
1 TTAAGCCTTCACGTAAGAGTATTAAAGCAAATCAACCTTAAGCCTTCACGAAAGAGTAGTGAAGC
* * * *
84026 AAGCCATTAGTAAGCCTTCCGAGTATGGTGATTAAATCATTCAAGTCATCTGTCGGGCTTCTGAG
66 AAGCCATCAATAAGCCTTCCGAGTATGATGATTAAATCATTCAAGTCATCTGTAGGGCTTCTGAG
*
84091 TAAGATGATAAGTCCTCCGGGCCATCTTAAGCCTTCATGGAAGAGTAGTGAATG-AAACCATCTT
131 TAAGATGATAAGTCCTCCGGGCCATCTTAAGCCTTCACGGAAGAGTAGTGAA-GCAAACCATCTT
* *
84155 AAACCTTCACGGAAGAGTAGTGAAGCAAATTAATT
195 AAGCCTTCACGGAAGAGTAGTGAAGTAAATTAATT
* * *
84190 TTAAGCCTTCACGTAAGATTAGTGAAA-TAAATCAACCTTAAGCCTTCACGAAAGAGTAGTGAAG
1 TTAAGCCTTCACGTAAGAGTA-TTAAAGCAAATCAACCTTAAGCCTTCACGAAAGAGTAGTGAAG
* *
84254 CAAGCCATCAATAAGCCTTCCAAGCATGATGATTAAATCATTC-AGATCATCTGTAGGGCTT-TC
65 CAAGCCATCAATAAGCCTTCCGAGTATGATGATTAAATCATTCAAG-TCATCTGTAGGGCTTCT-
* * *
84317 GAGTAAGATGATAAGTCCTCCGGGCCATCTTAAGCCTTCACGGAAGAGTAGTTAAGCAAACTATA
128 GAGTAAGATGATAAGTCCTCCGGGCCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCATC
84382 TTAAGCCTTCACGGAAGAGTAGTGAAGTAAAT
193 TTAAGCCTTCACGGAAGAGTAGTGAAGTAAAT
84414 CATCAATAAG
Statistics
Matches: 402, Mismatches: 46, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
228 4 0.01
229 274 0.68
230 124 0.31
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (229 bp):
TTAAGCCTTCACGTAAGAGTATTAAAGCAAATCAACCTTAAGCCTTCACGAAAGAGTAGTGAAGC
AAGCCATCAATAAGCCTTCCGAGTATGATGATTAAATCATTCAAGTCATCTGTAGGGCTTCTGAG
TAAGATGATAAGTCCTCCGGGCCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCATCTTA
AGCCTTCACGGAAGAGTAGTGAAGTAAATTAATT
Found at i:84213 original size:37 final size:37
Alignment explanation
Indices: 84116--84256 Score: 142
Period size: 37 Copynumber: 3.8 Consensus size: 37
84106 TCCGGGCCAT
* * * *
84116 CTTAAGCCTTCATGGAAGAGTAGTGAATG-AAA-CCAT
1 CTTAAGCCTTCACGAAAGAGTAGTGAA-GCAAATCAAC
* * * *
84152 CTTAAACCTTCACGGAAGAGTAGTGAAGCAAATTAAT
1 CTTAAGCCTTCACGAAAGAGTAGTGAAGCAAATCAAC
* * * **
84189 TTTAAGCCTTCACGTAAGATTAGTGAAATAAATCAAC
1 CTTAAGCCTTCACGAAAGAGTAGTGAAGCAAATCAAC
84226 CTTAAGCCTTCACGAAAGAGTAGTGAAGCAA
1 CTTAAGCCTTCACGAAAGAGTAGTGAAGCAA
84257 GCCATCAATA
Statistics
Matches: 86, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
35 1 0.01
36 28 0.33
37 57 0.66
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (37 bp):
CTTAAGCCTTCACGAAAGAGTAGTGAAGCAAATCAAC
Found at i:84245 original size:74 final size:73
Alignment explanation
Indices: 84117--84256 Score: 192
Period size: 74 Copynumber: 1.9 Consensus size: 73
84107 CCGGGCCATC
* * * *
84117 TTAAGCCTTCATGGAAGAGTAGTGAATGAAACCATCTTAAACCTTCACGGAAGAGTAGTGAAGCA
1 TTAAGCCTTCACGGAAGAGTAGTGAATGAAACAACCTTAAACCTTCACGAAAGAGTAGTGAAGCA
84182 AATTAATT
66 AATTAATT
* * *
84190 TTAAGCCTTCACGTAAGATTAGTGAAAT-AAATCAACCTTAAGCCTTCACGAAAGAGTAGTGAAG
1 TTAAGCCTTCACGGAAGAGTAGTG-AATGAAA-CAACCTTAAACCTTCACGAAAGAGTAGTGAAG
84254 CAA
64 CAA
84257 GCCATCAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
73 24 0.41
74 34 0.59
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (73 bp):
TTAAGCCTTCACGGAAGAGTAGTGAATGAAACAACCTTAAACCTTCACGAAAGAGTAGTGAAGCA
AATTAATT
Found at i:84269 original size:37 final size:37
Alignment explanation
Indices: 84118--84273 Score: 120
Period size: 37 Copynumber: 4.2 Consensus size: 37
84108 CGGGCCATCT
* *
84118 TAAGCCTTCATGGAAGAGTAGTGAATG-AAACCATC-T
1 TAAGCCTTCACGGAAGAGTAGTGAA-GCAAACCATCAA
* ** **
84154 TAAACCTTCACGGAAGAGTAGTGAAGCAAATTAAT-TT
1 TAAGCCTTCACGGAAGAGTAGTGAAGCAAA-CCATCAA
* * ** * * **
84191 TAAGCCTTCACGTAAGATTAGTGAAATAAATCAACCT
1 TAAGCCTTCACGGAAGAGTAGTGAAGCAAACCATCAA
* *
84228 TAAGCCTTCACGAAAGAGTAGTGAAGCAAGCCATCAA
1 TAAGCCTTCACGGAAGAGTAGTGAAGCAAACCATCAA
84265 TAAGCCTTC
1 TAAGCCTTC
84274 CAAGCATGAT
Statistics
Matches: 95, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
35 1 0.01
36 28 0.29
37 66 0.69
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (37 bp):
TAAGCCTTCACGGAAGAGTAGTGAAGCAAACCATCAA
Found at i:84269 original size:74 final size:71
Alignment explanation
Indices: 84117--84273 Score: 165
Period size: 74 Copynumber: 2.1 Consensus size: 71
84107 CCGGGCCATC
* * * *
84117 TTAAGCCTTCATGGAAGAGTAGTGAATGAAACCATCTTAAACCTTCACGGAAGAGTAGTGAAGCA
1 TTAAGCCTTCACGGAAGAGTAGTGAATGAAACAACCTTAAACCTTCACGAAAGAGTAGTGAAGCA
*
84182 AATTAA
66 AATCAA
* * *
84188 TTTTAAGCCTTCACGTAAGATTAGTGAAAT-AAATCAACCTTAAGCCTTCACGAAAGAGTAGTGA
1 --TTAAGCCTTCACGGAAGAGTAGTG-AATGAAA-CAACCTTAAACCTTCACGAAAGAGTAGTGA
84252 AGCAAGCCATCAA
62 AGCAA---ATCAA
84265 -TAAGCCTTC
1 TTAAGCCTTC
84274 CAAGCATGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
73 24 0.34
74 43 0.61
77 4 0.06
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (71 bp):
TTAAGCCTTCACGGAAGAGTAGTGAATGAAACAACCTTAAACCTTCACGAAAGAGTAGTGAAGCA
AATCAA
Found at i:84503 original size:36 final size:36
Alignment explanation
Indices: 84341--84599 Score: 191
Period size: 36 Copynumber: 7.0 Consensus size: 36
84331 GTCCTCCGGG
*
84341 CCATCTTAAGCCTTCACGGAAGAGTAGTTAAGCAAA
1 CCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAA
* * *
84377 CTATATTAAGCCTTCACGGAAGAGTAGTGAAGTAAA
1 CCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAA
* * * * * **
84413 TCATCAATAAGCCTTC-CGAGCATGA-T-GATTAATTCATTTGGG
1 CCATC-TTAAGCCTTCACG-G-AAGAGTAG-TGAA-GCA----AA
*
84455 TCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAA
1 CCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAA
** *
84491 CCATCTTAAGCCTTCACGGAAGAGCGGTGAAGCGAA
1 CCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAA
* * * * *
84527 TCATCTTAAGTCTTCACAGAAGATTAATGAAGCAAA
1 CCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAA
* ** *
84563 TCAATCCCAAGCCTTCACGGGAGAGTAGTGAAGCAAA
1 -CCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAA
84600 TTAAGATCAG
Statistics
Matches: 169, Mismatches: 41, Indels: 25
0.72 0.17 0.11
Matches are distributed among these distances:
36 97 0.57
37 41 0.24
38 4 0.02
40 5 0.03
41 14 0.08
42 8 0.05
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (36 bp):
CCATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAA
Found at i:84805 original size:14 final size:14
Alignment explanation
Indices: 84786--84831 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
84776 GTAGATATCG
*
84786 TTTTATTTATTTTA-
1 TTTTATTT-TGTTAT
84800 TTTTATTTTGTTAT
1 TTTTATTTTGTTAT
84814 TTTTA-TTT-TTAT
1 TTTTATTTTGTTAT
84826 TTTTAT
1 TTTTAT
84832 AATTATTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 9 0.31
13 7 0.24
14 13 0.45
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTATTTTGTTAT
Found at i:84821 original size:6 final size:6
Alignment explanation
Indices: 84791--84831 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
84781 TATCGTTTTA
84791 TTTA-T TTTA-T TTTATTT TGTTATT TTTATT TTTATT TTTAT
1 TTTATT TTTATT TTTA-TT T-TTATT TTTATT TTTATT TTTAT
84832 AATTATTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 9 0.27
6 16 0.48
7 5 0.15
8 3 0.09
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:84831 original size:18 final size:18
Alignment explanation
Indices: 84791--84829 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
84781 TATCGTTTTA
84791 TTTA-TTTTATTTTATTT
1 TTTATTTTTATTTTATTT
84808 TGTTATTTTTATTTTTATTT
1 T-TTATTTTTA-TTTTATTT
84828 TT
1 TT
84830 ATAATTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.05
18 3 0.16
19 6 0.32
20 9 0.47
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTATTTTTATTTTATTT
Found at i:86386 original size:19 final size:20
Alignment explanation
Indices: 86354--86391 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
86344 TTGCATACGA
86354 TTAGTTTAGGTTTA-ATTAT
1 TTAGTTTAGGTTTATATTAT
86373 TTAG-TTAGGTTTTATATTA
1 TTAGTTTAGG-TTTATATTA
86392 ATAGTTTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (20 bp):
TTAGTTTAGGTTTATATTAT
Found at i:87120 original size:291 final size:297
Alignment explanation
Indices: 86589--87179 Score: 1104
Period size: 291 Copynumber: 2.0 Consensus size: 297
86579 AATTGTATAT
86589 AAGACCCTCTAGATTCATGTGCATTTTTATTTAAGTCATTAGTTTATTTCCAATTTTAATATGTA
1 AAGACCCTCTAGATTCATGTGCATTTTTATTTAAGTCATTAGTTTATTTCCAATTTTAATATGTA
86654 TATACATACTTTTTTAAAATTTGTATTTTAGCATATCATATTTGTATTTTTTATATTTAATTCAC
66 TATACATACTTTTTTAAAATTTGTATTTTAGCA-ATCATATTTGTATTTTTTATATTTAATTCAC
86719 ATTTTGTACAATATATGTTAATATGCATGGTTTATAATTTTTTTAAATTAAAAATACATGTATAA
130 ATTTTGTACAATATATGTTAATATGCATGGTTTATAATTTTTTTAAATTAAAAATACATGTATAA
*
86784 TTTTTTGTATGTCACGTTGTATGATATTTTTAATTTTGTTTAATTAATTTTGGCATGACATCCTC
195 TTTTTTGTATGTCACGTTGTATGATATTTTTAATTTTGGTTAATTAATTTTGGCATGACATCCTC
*
86849 TTTGTACAATTTGTAAGATACATTCATATGCATAACTC
260 TTTGCACAATTTGTAAGATACATTCATATGCATAACTC
86887 AAGACCCTCTAGATTCATGTGCATTTTTATTTAAGTCATTAGTTT-TTTCCAATTTTAATATGTA
1 AAGACCCTCTAGATTCATGTGCATTTTTATTTAAGTCATTAGTTTATTTCCAATTTTAATATGTA
86951 TATACATACTTTTTTAAAATTTGTATTTTAGC-AT-ATATTTGT-TTTTTTATATTTAATTCACA
66 TATACATACTTTTTTAAAATTTGTATTTTAGCAATCATATTTGTATTTTTTATATTTAATTCACA
87013 -TTTGTAC-ATATATGTTAATATGCATGGTTTATAATTTTTTTAAATTAAAAATACATGTATAAT
131 TTTTGTACAATATATGTTAATATGCATGGTTTATAATTTTTTTAAATTAAAAATACATGTATAAT
*
87076 TTTTTGTATGTCACGTTGTATGATATTTTTAATTTTGGTTAATTAATTTTGGCATGACATCCTTT
196 TTTTTGTATGTCACGTTGTATGATATTTTTAATTTTGGTTAATTAATTTTGGCATGACATCCTCT
87141 TTGCACAATTTGTAAGATACATTCATATGCATAACTC
261 TTGCACAATTTGTAAGATACATTCATATGCATAACTC
87178 AA
1 AA
87180 CTTATAAATA
Statistics
Matches: 290, Mismatches: 3, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
291 157 0.54
292 7 0.02
293 20 0.07
294 8 0.03
295 2 0.01
297 51 0.18
298 45 0.16
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (297 bp):
AAGACCCTCTAGATTCATGTGCATTTTTATTTAAGTCATTAGTTTATTTCCAATTTTAATATGTA
TATACATACTTTTTTAAAATTTGTATTTTAGCAATCATATTTGTATTTTTTATATTTAATTCACA
TTTTGTACAATATATGTTAATATGCATGGTTTATAATTTTTTTAAATTAAAAATACATGTATAAT
TTTTTGTATGTCACGTTGTATGATATTTTTAATTTTGGTTAATTAATTTTGGCATGACATCCTCT
TTGCACAATTTGTAAGATACATTCATATGCATAACTC
Found at i:89043 original size:27 final size:27
Alignment explanation
Indices: 89005--89095 Score: 155
Period size: 27 Copynumber: 3.4 Consensus size: 27
88995 CAAAACAATG
89005 TTGAATGATTCAACACAGAAGTACATT
1 TTGAATGATTCAACACAGAAGTACATT
89032 TTGAATGATTCAACACAGAAGTACATT
1 TTGAATGATTCAACACAGAAGTACATT
* *
89059 TAGAATGATTCAACACAGAAATACATT
1 TTGAATGATTCAACACAGAAGTACATT
*
89086 CTGAATGATT
1 TTGAATGATT
89096 TAGAGCCATT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (27 bp):
TTGAATGATTCAACACAGAAGTACATT
Found at i:91308 original size:24 final size:23
Alignment explanation
Indices: 91265--91320 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
91255 ATAAATAATC
91265 ATCCAAAAACACAAAATATCCAA
1 ATCCAAAAACACAAAATATCCAA
* * *
91288 ATCCAAAGACAACCAAATATCTAA
1 ATCCAAAAAC-ACAAAATATCCAA
91312 ATACCAAAA
1 AT-CCAAAA
91321 TATCAAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 9 0.33
24 13 0.48
25 5 0.19
ACGTcount: A:0.59, C:0.25, G:0.02, T:0.14
Consensus pattern (23 bp):
ATCCAAAAACACAAAATATCCAA
Found at i:93057 original size:21 final size:21
Alignment explanation
Indices: 93018--93058 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
93008 GAATTTAATA
*
93018 TAAAATAAAAATTGAAAATTT
1 TAAAATAAAAATGGAAAATTT
* *
93039 TAAAGTAAAAATGGTAAATT
1 TAAAATAAAAATGGAAAATT
93059 AGGGTGCGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (21 bp):
TAAAATAAAAATGGAAAATTT
Found at i:93893 original size:555 final size:556
Alignment explanation
Indices: 92842--93954 Score: 1681
Period size: 555 Copynumber: 2.0 Consensus size: 556
92832 AAGTGTAAAT
* *
92842 TGAAAACAAAAAATGGGCTAAACGTTAAAAGAAAATTGATATATAAAAAATATGAACATATTTGT
1 TGAAAACAAAAAATGGGCTAAACGTTAAAAGAAAAATGATATATAAAAAATATAAACATATTTGT
* * * * * *
92907 AATTAATACAGTATGTATAAAAGTATTTAAAGTATATAAAAAATTTAAAACAAACACACACACAC
66 AATTAATACAATATATATAAAAGTATGTAAAGTACATAAAAAAATTAAAACAAACAAACACACAC
*
92972 ATAAGCAAAATAAAATTTAATTTTTTTTATTAATTTGAATTTAATATAAAATAAAAATTGAAAAT
131 ACAAGCAAAATAAAATTTAA-TTTTTTTATTAATTTGAATTTAATATAAAATAAAAATTGAAAAT
*
93037 TTTAAAGTAAAAATGGTAAATTAGGGTGCGAAAATATAGTATAAACAATATCCATTGACAAATTT
195 TTTAAAGTAAAAATGGTAAATTAGGGTGCGAAAATAAAGTATAAACAATATCCATTGACAAATTT
* *
93102 ACTCAAACTAGCAAGAAATTAAACCTAAATTAAAAAAAGGAAAATAGGTTTTAAAAGAAATTTTA
260 ACTCAAACTAGCAAGAAAGTAAACCTAAATTAAAAAAA-GAAAATAGGTTTTAAAAGAAATATTA
93167 CCTTGAATCACGATTTGGGATGAAAAGATGATGAATGCACGAATTTGATGAAGTTTGCAGAAATC
324 CCTTGAATCACGATTTGGGATGAAAAGATGATGAATGCACGAATTTGATGAAGTTTGCAGAAATC
* *
93232 AAGCTTGAAAAAAGATGCGATTTACACCCAAAATCGAGCGATTTGATGAGATTTTAGAGAGAAAT
389 AAACTTGAAAAAAGATGCGATTTACACCCAAAATCGAGCGATTTGATGAGATTTTAGAGAGAAAG
* * *
93297 GAAGGATTTCGTCATTGGCTGCTTTGTTTAGGGTTTGATAAAATAA-AAAAT-GGGAAATTTGAC
454 GAAGGATTTCATCATTGGATGCTTTGTTTAGGCTTTGATAAAATAATAAAATGGGGAAATTTGAC
*
93360 CTTTAAAACGCAAATCTAACCCCGAGTATCAGTACTTA
519 CTTTAAAACGCAAATCTAACCCCGAGTATCAATACTTA
*
93398 TGAAAACAAAAAATGGGCTAAACGTTAAAAGAAAAATGATATATATAAAAATGTAAACATATTTG
1 TGAAAACAAAAAATGGGCTAAACGTTAAAAGAAAAATGATATATA-AAAAATATAAACATATTTG
*
93463 TAATTAATACAATATATATATAAGTATGTAAAGTACATAAAAAAATTAAAACAAACAAACACACA
65 TAATTAATACAATATATATAAAAGTATGTAAAGTACATAAAAAAATTAAAACAAACAAACACACA
*
93528 CACAAGCAAAATAAAATTTAA-TTTTTTATTACTTTGAATTTAATATAAAATAAAATAAATTGAA
130 CACAAGCAAAATAAAATTTAATTTTTTTATTAATTTGAATTTAATATAAAAT--AA-AAATTGAA
** * *
93592 TAA-TTTGGAGTGAAAATGGTAAATTAGGGTGCGAAAATAAAAGTATAAACAATATCCATTGACC
192 -AATTTTAAAGTAAAAATGGTAAATTAGGGTGCGAAAAT-AAAGTATAAACAATATCCATTGACA
*
93656 AATTTAACTCAAAGTAGCAAGAAAGTAAACCTAAATTAAAAAATA-AAAATAGGTTTTAAAAGAA
255 AATTT-ACTCAAACTAGCAAGAAAGTAAACCTAAATTAAAAAA-AGAAAATAGGTTTTAAAAGAA
* *
93720 A-ATTACCTTGAATCATGATTTGGGATGGAAAGATGATG-ATGCACGAATTTGATGAA-TTTGCA
318 ATATTACCTTGAATCACGATTTGGGATGAAAAGATGATGAATGCACGAATTTGATGAAGTTTGCA
* *
93782 GAAAT-AAACTTGAAAAACGATGCGATTTACACCCAAAATCGAGCGATTTTATGAGATTTTAGAG
383 GAAATCAAACTTGAAAAAAGATGCGATTTACACCCAAAATCGAGCGATTTGATGAGATTTTAGAG
* ****
93846 ATG-AGGGAA-GACTTTCATCATTGGATGCTTTGTTTAGGCTTTGATAAAATAATTTGTTTTGGG
448 A-GAAAGGAAGGA-TTTCATCATTGGATGCTTTGTTTAGGCTTTGATAAAATAA--TAAAATGGG
* * *
93909 GAATTTTGACCTTTAAAATGCAAATCTGACCCCGAGTATCAATACT
509 GAAATTTGACCTTTAAAACGCAAATCTAACCCCGAGTATCAATACT
93955 CATTTAAATG
Statistics
Matches: 505, Mismatches: 38, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
554 2 0.00
555 127 0.25
556 56 0.11
557 115 0.23
558 75 0.15
559 94 0.19
560 35 0.07
561 1 0.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (556 bp):
TGAAAACAAAAAATGGGCTAAACGTTAAAAGAAAAATGATATATAAAAAATATAAACATATTTGT
AATTAATACAATATATATAAAAGTATGTAAAGTACATAAAAAAATTAAAACAAACAAACACACAC
ACAAGCAAAATAAAATTTAATTTTTTTATTAATTTGAATTTAATATAAAATAAAAATTGAAAATT
TTAAAGTAAAAATGGTAAATTAGGGTGCGAAAATAAAGTATAAACAATATCCATTGACAAATTTA
CTCAAACTAGCAAGAAAGTAAACCTAAATTAAAAAAAGAAAATAGGTTTTAAAAGAAATATTACC
TTGAATCACGATTTGGGATGAAAAGATGATGAATGCACGAATTTGATGAAGTTTGCAGAAATCAA
ACTTGAAAAAAGATGCGATTTACACCCAAAATCGAGCGATTTGATGAGATTTTAGAGAGAAAGGA
AGGATTTCATCATTGGATGCTTTGTTTAGGCTTTGATAAAATAATAAAATGGGGAAATTTGACCT
TTAAAACGCAAATCTAACCCCGAGTATCAATACTTA
Found at i:100769 original size:81 final size:81
Alignment explanation
Indices: 100666--101138 Score: 664
Period size: 81 Copynumber: 6.0 Consensus size: 81
100656 CTTTCATCCT
* * *
100666 AAAGGTATTTAACCTTTCATCTAACTTGCATGATTGATACCTTTCTGTCAAATGCAAAGTTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCAAAGCTAGGC
100731 ATTTAATCTTTTACTC
66 ATTTAATCTTTTACTC
* * * * *
100747 GAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAGTGCAAAGCTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCAAAGCTAGGC
100812 ATTTAATCTTTTACTC
66 ATTTAATCTTTTACTC
* * * * *
100828 AAAGGTATTTAAACTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATACACAGCTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCAAAGCTAGGC
100893 ATTTAATCTTTTACTC
66 ATTTAATCTTTTACTC
* *
100909 AAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCATATGCACAGCTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCAAAGCTAGGC
100974 ATTTAATCTTTTACTC
66 ATTTAATCTTTTACTC
* * *
100990 AAAGGTATTTAACCTTTCATCTAACT-GACATGATTGACACCTTTTTGTCAAATGCACAGCTAGA
1 AAAGGTATTTAACCTTTCATCTAACTAG-CATGATTGACACCTTTCTGTCAAATGCAAAGCTAGG
101054 CATTT-A------A---
65 CATTTAATCTTTTACTC
* *
101061 AAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACATTTATGTCAAATGCACAA-CTAGG
1 AAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCA-AAGCTAGG
101125 CATTTAATCTTTTA
65 CATTTAATCTTTTA
101139 TTTTAAAACA
Statistics
Matches: 355, Mismatches: 27, Indels: 23
0.88 0.07 0.06
Matches are distributed among these distances:
71 61 0.17
72 3 0.01
74 1 0.00
78 1 0.00
80 2 0.01
81 287 0.81
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (81 bp):
AAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCAAAGCTAGGC
ATTTAATCTTTTACTC
Found at i:101141 original size:71 final size:71
Alignment explanation
Indices: 100990--101131 Score: 232
Period size: 71 Copynumber: 2.0 Consensus size: 71
100980 TCTTTTACTC
* * *
100990 AAAGGTATTTAACCTTTCATCTAACTGACATGATTGACACCTTTTTGTCAAATGCACAGCTAGAC
1 AAAGGTATTTAACCTTTCATCTAACTGACATGATTGACACATTTATGTCAAATGCACAACTAGAC
101055 ATTTAA
66 ATTTAA
*
101061 AAAGGTATTTAACCTTTCATCTAACT-AGCATGATTGACACATTTATGTCAAATGCACAACTAGG
1 AAAGGTATTTAACCTTTCATCTAACTGA-CATGATTGACACATTTATGTCAAATGCACAACTAGA
101125 CATTTAA
65 CATTTAA
101132 TCTTTTATTT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
70 1 0.02
71 65 0.98
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (71 bp):
AAAGGTATTTAACCTTTCATCTAACTGACATGATTGACACATTTATGTCAAATGCACAACTAGAC
ATTTAA
Found at i:105700 original size:132 final size:131
Alignment explanation
Indices: 105488--105806 Score: 550
Period size: 132 Copynumber: 2.4 Consensus size: 131
105478 TGCACTGTTC
* *
105488 TTCATCTAACTTGCATTAGTGGCACCTTTCTGTTATAAATGCACCATTAGACATTTATCTTGCAT
1 TTCATCTAACTTGCATTAGTGGCACCTTTCTGTCA-AAATGCACCGTTAGACATTTATCTTGCAT
105553 TAATGGCACCTTTCTACCAAAAAGCACCGTTAGGTATTTAGTCTTTCATCCCAAAGGTATTTAAC
65 TAATGGCACCTTTCTACCAAAAAGCACCGTTAGGTATTTAGTCTTTCATCCCAAAGGTATTTAAC
105618 CT
130 CT
105620 TTCATCTAACTTGCATTAGTGGCACCTTTCTGTCAGAAATGCACCGTTAGACATTTATCTTGCAT
1 TTCATCTAACTTGCATTAGTGGCACCTTTCTGTCA-AAATGCACCGTTAGACATTTATCTTGCAT
105685 TAATGGCACCTTTCTACCAAAAAGCACCGTTAGGTATTTAGTCTTTCATCCCAAAGGTATTTAAC
65 TAATGGCACCTTTCTACCAAAAAGCACCGTTAGGTATTTAGTCTTTCATCCCAAAGGTATTTAAC
105750 CT
130 CT
* * * * *
105752 TTCATCTAACTTGCATGATTGACACCTTTCTGTC-AAATGCACAGTTAGGCATTTA
1 TTCATCTAACTTGCATTAGTGGCACCTTTCTGTCAAAATGCACCGTTAGACATTTA
105807 ATATTTTACT
Statistics
Matches: 179, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
130 19 0.11
132 160 0.89
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (131 bp):
TTCATCTAACTTGCATTAGTGGCACCTTTCTGTCAAAATGCACCGTTAGACATTTATCTTGCATT
AATGGCACCTTTCTACCAAAAAGCACCGTTAGGTATTTAGTCTTTCATCCCAAAGGTATTTAACC
T
Found at i:105832 original size:81 final size:81
Alignment explanation
Indices: 105736--106300 Score: 878
Period size: 81 Copynumber: 7.0 Consensus size: 81
105726 TCTTTCATCC
* *
105736 CAAAGGTATTTAACCTTTCATCTAACTTGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGG
*
105801 CATTTAATATTTTACT
66 CATTTAATCTTTTACT
* * * * *
105817 CAAAGGTATTTAACCTTTCATCTAACTAGTATGATTGACACATTTTTGTCAAAAGCACAGCTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGG
105882 CATTTAATCTTTTACT
66 CATTTAATCTTTTACT
* * * *
105898 CAAAGATATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATACACAGATAGA
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGG
105963 CATTTAATCTTTTACT
66 CATTTAATCTTTTACT
* * *
105979 CAAAGGTATTTAAGCTTTCATCTAACTGGCATTATTGACACCTTTCTGTCAAATGCACAACTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGG
106044 CATTTAATCTTTTACT
66 CATTTAATCTTTTACT
* * *
106060 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTAACACCTTTTTGTCAAATGCACAACTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGG
106125 CATTTAATCTTTTACT
66 CATTTAATCTTTTACT
* * *
106141 CAAAGGTATTTAACTTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGCACAGCTAGA
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGG
* *
106206 CATTTAATTTTTTATT
66 CATTTAATCTTTTACT
* * * * *
106222 CAAATGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATACACAACTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGG
106287 CATTTAATCTTTTA
66 CATTTAATCTTTTA
106301 TTTTAAAATA
Statistics
Matches: 440, Mismatches: 44, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 440 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (81 bp):
CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGG
CATTTAATCTTTTACT
Found at i:107494 original size:18 final size:18
Alignment explanation
Indices: 107471--107514 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
107461 GGAGGAATTT
107471 GAACTTAAGCCAAATAAA
1 GAACTTAAGCCAAATAAA
107489 GAACTTAAGCCAAATAAA
1 GAACTTAAGCCAAATAAA
107507 GAACTTAA
1 GAACTTAA
107515 AACATGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (18 bp):
GAACTTAAGCCAAATAAA
Found at i:107651 original size:22 final size:23
Alignment explanation
Indices: 107610--107652 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
107600 AAAGAAAAAC
107610 TAAATTTACAATTTATATATTTA
1 TAAATTTACAATTTATATATTTA
107633 TAAA-TTA-AATTTAATATATT
1 TAAATTTACAATTT-ATATATT
107653 ATTTTCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATTTACAATTTATATATTTA
Found at i:107796 original size:49 final size:50
Alignment explanation
Indices: 107750--107918 Score: 205
Period size: 49 Copynumber: 3.4 Consensus size: 50
107740 ATCATTTATA
* * *
107750 TTTTAATTAATTGTTATTAAATTGTGTAGTTCAAAATATATAATTTAATA
1 TTTTAATTAATTTTTATTGAATTGTGTAGTTCAAAATGTATAATTTAATA
* * * * **
107800 ATTTAATTGATTTTGTATTGGATTGTGTAGTTAAAAATGTATAATTTGGTA
1 TTTTAATTAATTTT-TATTGAATTGTGTAGTTCAAAATGTATAATTTAATA
* * * *
107851 TTTTAATT-TTTTTTATTGAATTGTGCATTTCAAAATGTGTAATTTAATA
1 TTTTAATTAATTTTTATTGAATTGTGTAGTTCAAAATGTATAATTTAATA
107900 TTTTAATTAATTTTTATTG
1 TTTTAATTAATTTTTATTG
107919 TGTAATTCAA
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 37 0.38
50 24 0.24
51 37 0.38
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (50 bp):
TTTTAATTAATTTTTATTGAATTGTGTAGTTCAAAATGTATAATTTAATA
Found at i:108533 original size:24 final size:24
Alignment explanation
Indices: 108497--108544 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
108487 GTGTTCATTT
* *
108497 AATGTTTATGAACATATTTGTTTA
1 AATGTTCACGAACATATTTGTTTA
* *
108521 AATGTTCACGAACGTGTTTGTTTA
1 AATGTTCACGAACATATTTGTTTA
108545 GCGTTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (24 bp):
AATGTTCACGAACATATTTGTTTA
Found at i:108578 original size:34 final size:34
Alignment explanation
Indices: 108530--108653 Score: 131
Period size: 34 Copynumber: 3.6 Consensus size: 34
108520 AAATGTTCAC
* *
108530 GAACGTGTTTGTTTAGCGTTCATTTAACGTTCGT
1 GAACATGTTCGTTTAGCGTTCATTTAACGTTCGT
* * *
108564 GAACATGTTCGTTTAGCGTTCGTTCAACGTCCGT
1 GAACATGTTCGTTTAGCGTTCATTTAACGTTCGT
* ** * * **
108598 GAACATATTTTTTTAGCGTTCATATAATGTTATT
1 GAACATGTTCGTTTAGCGTTCATTTAACGTTCGT
*
108632 GAACATGTTCATTTAGCGTTCA
1 GAACATGTTCGTTTAGCGTTCA
108654 CGAACATGTT
Statistics
Matches: 72, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 72 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (34 bp):
GAACATGTTCGTTTAGCGTTCATTTAACGTTCGT
Found at i:109325 original size:19 final size:20
Alignment explanation
Indices: 109301--109346 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
109291 GAACAATCAA
*
109301 ATTAAATAA-TATATCAAAT
1 ATTAAATAAGTATAACAAAT
109320 ATTAAATAAGTATAACAAAT
1 ATTAAATAAGTATAACAAAT
109340 ACTTAAA
1 A-TTAAA
109347 AAAAATACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTAAATAAGTATAACAAAT
Found at i:118666 original size:23 final size:23
Alignment explanation
Indices: 118636--118705 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 23
118626 AGTACCCATG
118636 CACT-AATGTGGTTGTATCGGTA
1 CACTCAATGTGGTTGTATCGGTA
118658 CACTCAATGTGGTTGTATCGGTA
1 CACTCAATGTGGTTGTATCGGTA
** * *
118681 TGCTCAATCTGGCTGTATCGGTA
1 CACTCAATGTGGTTGTATCGGTA
118704 CA
1 CA
118706 TTACCCATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 4 0.10
23 37 0.90
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (23 bp):
CACTCAATGTGGTTGTATCGGTA
Found at i:119314 original size:18 final size:18
Alignment explanation
Indices: 119264--119314 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
119254 GAATATGCAA
119264 ATGACCTTGAGATCGAAG
1 ATGACCTTGAGATCGAAG
* *
119282 ATGATCC-CGAGATCGAGG
1 ATGA-CCTTGAGATCGAAG
*
119300 ATGACCTTGATATCG
1 ATGACCTTGAGATCG
119315 TTGATGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (18 bp):
ATGACCTTGAGATCGAAG
Found at i:120978 original size:15 final size:15
Alignment explanation
Indices: 120958--120986 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
120948 ACTCTATTAG
120958 ATCAAATAAAGGATC
1 ATCAAATAAAGGATC
120973 ATCAAATAAAGGAT
1 ATCAAATAAAGGAT
120987 GAGAAGTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (15 bp):
ATCAAATAAAGGATC
Found at i:123058 original size:28 final size:28
Alignment explanation
Indices: 122996--123059 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
122986 TGGTGTAAAT
* *
122996 ATTTCAGGTTTTCATGCTTGGAGTGTAG
1 ATTTCATGTTTTAATGCTTGGAGTGTAG
*
123024 ATTTCATGTTTTAATGCTTGGAGTGTTG
1 ATTTCATGTTTTAATGCTTGGAGTGTAG
123052 ATTTCATG
1 ATTTCATG
123060 AAAATGGGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.19, C:0.09, G:0.25, T:0.47
Consensus pattern (28 bp):
ATTTCATGTTTTAATGCTTGGAGTGTAG
Found at i:124824 original size:16 final size:16
Alignment explanation
Indices: 124803--124837 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
124793 TTTAGTTACG
124803 TTATTTTAAAATCAAA
1 TTATTTTAAAATCAAA
*
124819 TTATTTTAAAATTAAA
1 TTATTTTAAAATCAAA
124835 TTA
1 TTA
124838 AATTAACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATTTTAAAATCAAA
Found at i:125435 original size:19 final size:22
Alignment explanation
Indices: 125389--125435 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 22
125379 TTTGAATCTA
*
125389 TTTAATTGTTAGTTTTAAGTTT
1 TTTAATTATTAGTTTTAAGTTT
*
125411 TATAATTATT-GTTTT-A-TTT
1 TTTAATTATTAGTTTTAAGTTT
125430 TTTAAT
1 TTTAAT
125436 ACTTTATTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 8 0.36
20 1 0.05
21 5 0.23
22 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (22 bp):
TTTAATTATTAGTTTTAAGTTT
Found at i:129031 original size:19 final size:20
Alignment explanation
Indices: 128987--129031 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
128977 ATTTATTTTT
*
128987 AATAAATTTTTATCTATGAA
1 AATAAATTTTTATCTATCAA
* *
129007 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATCTATCAA
129026 AATAAA
1 AATAAA
129032 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATCTATCAA
Found at i:131546 original size:3 final size:3
Alignment explanation
Indices: 131538--131638 Score: 148
Period size: 3 Copynumber: 33.7 Consensus size: 3
131528 ATATTATAAA
* * * *
131538 TAT TAT TAT TAT TGT TAT TAT AAT AAT AAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
131586 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
131634 TAT TA
1 TAT TA
131639 AATATATTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:131546 original size:12 final size:12
Alignment explanation
Indices: 131529--131675 Score: 59
Period size: 12 Copynumber: 11.9 Consensus size: 12
131519 TTTTTACCCA
131529 TATTATAAATAT
1 TATTATAAATAT
* * *
131541 TATTATTATTGT
1 TATTATAAATAT
131553 TATTATAATAATAAT
1 TATTAT-A-AAT-AT
* *
131568 TATTATTATTAT
1 TATTATAAATAT
*
131580 TATTATTATTATCAT
1 TATTA-TA-AAT-AT
* *
131595 TATTATTATTAT
1 TATTATAAATAT
* *
131607 TATTATTATTAT
1 TATTATAAATAT
* * *
131619 TATCATTATTAT
1 TATTATAAATAT
131631 TATTATTAAATA-
1 TATTA-TAAATAT
131643 TA-T-TAAATA-
1 TATTATAAATAT
*
131652 CATATATAAATAT
1 TAT-TATAAATAT
*
131665 TATTAAAAATA
1 TATTATAAATA
131676 ATTAATTACA
Statistics
Matches: 103, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
9 7 0.07
11 2 0.02
12 66 0.64
13 10 0.10
14 4 0.04
15 14 0.14
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (12 bp):
TATTATAAATAT
Found at i:133724 original size:17 final size:17
Alignment explanation
Indices: 133696--133739 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
133686 TTTAATTTTT
133696 AATTTTTA-ATTTTCAA
1 AATTTTTATATTTTCAA
*
133712 AATTTTTATATTTTCAT
1 AATTTTTATATTTTCAA
*
133729 AATATTTATAT
1 AATTTTTATAT
133740 GTTTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTTATATTTTCAA
Found at i:133763 original size:15 final size:13
Alignment explanation
Indices: 133743--133780 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
133733 TTTATATGTT
133743 TTATTTTATTTGCAA
1 TTATTTTATTT-C-A
133758 TTATTTTATTTCA
1 TTATTTTATTTCA
133771 TTA-TTTATTT
1 TTATTTTATTT
133781 TGTCAGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 1 0.04
15 11 0.48
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATTTTATTTCA
Found at i:144398 original size:15 final size:15
Alignment explanation
Indices: 144380--144431 Score: 86
Period size: 15 Copynumber: 3.5 Consensus size: 15
144370 GCTTGAAGAA
* *
144380 AAAAAAAGAGAAGAG
1 AAAAAAAGAAAAAAG
144395 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
144410 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
144425 AAAAAAA
1 AAAAAAA
144432 AAGGGGGGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:144408 original size:7 final size:7
Alignment explanation
Indices: 144381--144430 Score: 64
Period size: 7 Copynumber: 6.9 Consensus size: 7
144371 CTTGAAGAAA
144381 AAAAAAG
1 AAAAAAG
* *
144388 AGAAGAG
1 AAAAAAG
144395 AAAAAAAG
1 -AAAAAAG
144403 AAAAAAG
1 AAAAAAG
144410 AAAAAAAG
1 -AAAAAAG
144418 AAAAAAG
1 AAAAAAG
144425 AAAAAA
1 AAAAAA
144431 AAAGGGGGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
7 25 0.68
8 12 0.32
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:145667 original size:83 final size:83
Alignment explanation
Indices: 145528--145881 Score: 564
Period size: 83 Copynumber: 4.3 Consensus size: 83
145518 AAACATTAAC
*
145528 TGGAAGATGAATGTATTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGAC
1 TGGAAGATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGAC
145593 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
*
145611 TGGAAGATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TGGAAGATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGAC
145676 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
* * *
145694 TGGAAGATGAATGTATTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTGGAC
1 TGGAAGATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGAC
* * *
145759 AGAATCAATTATTAAATT
66 AGAACCAATCATTGAATT
* * * * * *
145777 TAGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGC
1 TGGAAGATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGAC
145842 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
* *
145860 TGGAAGATGAATTTGCTCATAG
1 TGGAAGATGAATGTACTCATAG
145882 TAGAAATAAG
Statistics
Matches: 248, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 248 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.37
Consensus pattern (83 bp):
TGGAAGATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGAC
AGAACCAATCATTGAATT
Found at i:147333 original size:113 final size:113
Alignment explanation
Indices: 146668--147332 Score: 894
Period size: 114 Copynumber: 5.9 Consensus size: 113
146658 GCGAAGATTC
* *
146668 AAATCTATC-AATTGATGGATTGA-CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 AAATC-ATCAAATTGATGGATT-ATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
*
146731 AGAGGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
64 AGAAGGAAGAAGAAGTTCATAA-GAGAAGAATTTGTTCAACCTTTTACCTG
*
146782 AATTCATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG-AG
1 AAATCATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
146846 AAAGGAAGAAGAAGTTCATAATGAGAA-AATTTGTTCAACCTTTTACCT-
66 -AAGGAAGAAGAAGTTCATAA-GAGAAGAATTTGTTCAACCTTTTACCTG
146894 AAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAG-A-AACTCATCTGAA
1 AAA-TCATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAA
*
146957 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTTTTCAACCTTTTACCT-
65 GAAGGAAGAAGAAGTTCATAA-GAGAAGAATTTGTTCAACCTTTTACCTG
147006 AAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCT---
1 AAA-TCATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAA
147068 GAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
65 GAAGGAAGAAGAAGTTCATAA-GAGAAGAATTTGTTCAACCTTTTACCTG
* * *
147117 AATTCATCAAATTGATGGATTATCTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
* * * *
147182 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTG
66 AAGGAAGAAGAAGTTCATAA-GAGAAGAATTTGTTCAACCTTTTACCTG
* * * * * * *
147231 AAATCATC-ATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATAT
1 AAATCATCAAATTGATGGATTATCTTTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCT
* * *
147294 AAATAAGGAAGAAGAAGTTCAT-A-AGAAGAACTTGTTCAA
62 GAAGAAGGAAGAAGAAGTTCATAAGAGAAGAATTTGTTCAA
147333 TAATTTCACA
Statistics
Matches: 508, Mismatches: 26, Indels: 35
0.89 0.05 0.06
Matches are distributed among these distances:
110 100 0.20
111 41 0.08
112 77 0.15
113 127 0.25
114 136 0.27
115 2 0.00
116 25 0.05
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (113 bp):
AAATCATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAAGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:147659 original size:3 final size:3
Alignment explanation
Indices: 147651--147740 Score: 101
Period size: 3 Copynumber: 29.7 Consensus size: 3
147641 TATATAAATA
* * * * * *
147651 TAT TAT TAT TGT TAT TAT AAT AAT AAT ATAT AAT AAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
147696 TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TA
147741 AATATATTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
2 2 0.03
3 71 0.91
4 5 0.06
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:149141 original size:13 final size:13
Alignment explanation
Indices: 149123--149169 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
149113 AATATATAAA
149123 TAAATATTTATTT
1 TAAATATTTATTT
*
149136 TAAATAAATTATTT
1 TAAAT-ATTTATTT
149150 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
149163 TCAATAT
1 TAAATAT
149170 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:150362 original size:18 final size:18
Alignment explanation
Indices: 150339--150403 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
150329 TTTATTAAAA
150339 AACCGAAAAACCGAACCG
1 AACCGAAAAACCGAACCG
*
150357 AACCGAAAAACCTAAACCG
1 AACCGAAAAACC-GAACCG
* *
150376 TTAA--AAAAAACTGAACCG
1 --AACCGAAAAACCGAACCG
150394 AACCGAAAAA
1 AACCGAAAAA
150404 ACCGGTTTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
16 2 0.05
18 22 0.59
19 11 0.30
21 2 0.05
ACGTcount: A:0.55, C:0.26, G:0.12, T:0.06
Consensus pattern (18 bp):
AACCGAAAAACCGAACCG
Found at i:151331 original size:20 final size:20
Alignment explanation
Indices: 151306--151399 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
151296 AATTGTGAAA
*
151306 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
151326 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
151347 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
151367 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
151387 TTCGCAACGCGAT
1 ATCGCAACGCGAT
151400 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 45 0.73
21 13 0.21
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:151994 original size:19 final size:19
Alignment explanation
Indices: 151951--151994 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
151941 GCAACGAGAG
151951 AATCGCAACGCGAATAAAA
1 AATCGCAACGCGAATAAAA
151970 AA-CGCAACGCGAA-ACAAA
1 AATCGCAACGCGAATA-AAA
151988 AATCGCA
1 AATCGCA
151995 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 6 0.26
ACGTcount: A:0.52, C:0.25, G:0.16, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAATAAAA
Found at i:152012 original size:19 final size:19
Alignment explanation
Indices: 151990--152174 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
151980 GAAACAAAAA
*
151990 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
152009 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
152028 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
152047 TCGTGGTTGCGATTTTCATT
1 TCG-CGTTGCGATTTTCATT
*
152067 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
152083 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
152100 TCGCGTTGCGA--TTC-TA
1 TCGCGTTGCGATTTTCATT
* **
152116 T--CGTTGTGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
152133 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
152153 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
152173 TC
1 TC
152175 AACCAAAAGA
Statistics
Matches: 134, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
14 17 0.13
15 1 0.01
16 5 0.04
17 5 0.04
18 1 0.01
19 58 0.43
20 46 0.34
21 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:152067 original size:39 final size:38
Alignment explanation
Indices: 151990--152174 Score: 156
Period size: 33 Copynumber: 5.1 Consensus size: 38
151980 GAAACAAAAA
*
151990 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
152028 TCGCGTTGCGATTTTTATTTCGTGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCG-CGTTGCGATTTTCATT
* * **
152067 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* * **
152100 TCGCGTTGCGA--TTC-TAT--CGTTGTGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
152133 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
152173 TC
1 TC
152175 AACCAAAAGA
Statistics
Matches: 120, Mismatches: 16, Indels: 21
0.76 0.10 0.13
Matches are distributed among these distances:
31 2 0.02
33 38 0.32
34 10 0.08
35 1 0.01
36 3 0.03
37 1 0.01
38 21 0.17
39 30 0.25
40 14 0.12
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:152151 original size:20 final size:20
Alignment explanation
Indices: 152128--152174 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
152118 GTTGTGATAG
152128 TCATTTCCGCGTTGCGATTC
1 TCATTTCCGCGTTGCGATTC
* *
152148 TCATTAT-CTCGTTGCGATTT
1 TCATT-TCCGCGTTGCGATTC
152168 TCATTTC
1 TCATTTC
152175 AACCAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.47
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATTC
Found at i:155662 original size:14 final size:14
Alignment explanation
Indices: 155643--155672 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
155633 TGTTTAATTT
155643 ATTTGTAAAAGGTG
1 ATTTGTAAAAGGTG
*
155657 ATTTGTAAAAGTTG
1 ATTTGTAAAAGGTG
155671 AT
1 AT
155673 GTGTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (14 bp):
ATTTGTAAAAGGTG
Found at i:155877 original size:19 final size:19
Alignment explanation
Indices: 155855--156005 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
155845 CGAAATTAAA
155855 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
155874 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
155889 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
155907 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
155921 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
155940 TTCGCATTGTGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
155955 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
155973 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
155992 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
156006 AGACATTAAG
Statistics
Matches: 93, Mismatches: 23, Indels: 31
0.63 0.16 0.21
Matches are distributed among these distances:
14 27 0.29
16 6 0.06
17 6 0.06
19 44 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Done.