Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006902.1 Hibiscus syriacus cultivar Beakdansim tig00017627_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: 195944
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:3422 original size:63 final size:64
Alignment explanation
Indices: 3370--3531 Score: 245
Period size: 65 Copynumber: 2.5 Consensus size: 64
3360 CGGTGCACCA
*
3370 AGTGTGCATCGATGCATAAAATGCATTCGATGTTTT-GAAAAGCCTGAGTGCATTGATGCATGG
1 AGTGTGCATCGATGCATAAAATGCATTCGATGTTTTAGAAAAGCCTGAGTGCATCGATGCATGG
** * *
3433 TCTGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAATCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATAAAATGCATTCGATGTTTT-AGAAAAGCCTGAGTGCATCGATGCATGG
* *
3498 AGAGTGCATCGATGCATAAAATACATTCGATGTT
1 AGTGTGCATCGATGCATAAAATGCATTCGATGTT
3532 CAATTTATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
63 34 0.39
65 54 0.61
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATAAAATGCATTCGATGTTTTAGAAAAGCCTGAGTGCATCGATGCATGG
Found at i:3567 original size:20 final size:20
Alignment explanation
Indices: 3542--3580 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3532 CAATTTATTC
3542 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
3562 ATTGGTGCATCGGTGCATG
1 ATTGGTGCATCGATGCATG
3581 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.36, T:0.31
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:3570 original size:65 final size:65
Alignment explanation
Indices: 3373--3579 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 65
3363 TGCACCAAGT
* * *
3373 GTGCATCGATGCATAAAATGCATTCGATGTTT--TGAAAAGCCTGAGTGCATTGATGCATGG-TC
1 GTGCATCGATGCATAAAATACATTCGATGTTTCAT-AAAATCCTGAGTGCATCGATGCATGGAT-
3435 T-
64 TG
*
3436 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAATCCTGAGTGCATCGATGCATGGA--
1 GTGCATCGATGCATAAAATACATTCGATG-TTTCATAAAATCCTGAGTGCATCGATGCATGGATT
3499 G
65 G
** * *
3500 AGTGCATCGATGCATAAAATACATTCGATG-TTCAATTTATTCATTG-GTGCATCGATGCATGGA
1 -GTGCATCGATGCATAAAATACATTCGATGTTTC-ATAAAATC-CTGAGTGCATCGATGCATGGA
3563 TTG
63 TTG
*
3566 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
3580 GCCTTTGAAA
Statistics
Matches: 126, Mismatches: 8, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
63 32 0.25
64 25 0.20
65 67 0.53
66 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATACATTCGATGTTTCATAAAATCCTGAGTGCATCGATGCATGGATTG
Found at i:6810 original size:18 final size:19
Alignment explanation
Indices: 6769--6811 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
6759 ACGATCAATA
6769 TTCATCGAAGTAATGTTAC
1 TTCATCGAAGTAATGTTAC
*
6788 ATCAT-GAAGTAATGCTT-C
1 TTCATCGAAGTAATG-TTAC
6806 TTCATC
1 TTCATC
6812 AATACCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (19 bp):
TTCATCGAAGTAATGTTAC
Found at i:9191 original size:17 final size:16
Alignment explanation
Indices: 9159--9203 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
9149 TAGTCATAAT
*
9159 TGTTTTTAAAATTTAA
1 TGTTTTAAAAATTTAA
9175 TGTTTTAAAAATATTAA
1 TGTTTTAAAAAT-TTAA
*
9192 -ATTTTAAAAATT
1 TGTTTTAAAAATT
9204 AATTATGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 1 0.04
16 21 0.81
17 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
TGTTTTAAAAATTTAA
Found at i:14282 original size:24 final size:24
Alignment explanation
Indices: 14250--14303 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
14240 AATTCTAGGA
*
14250 AAACAATAACAAAATAAATTCATC
1 AAACCATAACAAAATAAATTCATC
14274 AAACCATAACAAAATAAATTCATC
1 AAACCATAACAAAATAAATTCATC
14298 AAACCA
1 AAACCA
14304 ACCAACAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.61, C:0.20, G:0.00, T:0.19
Consensus pattern (24 bp):
AAACCATAACAAAATAAATTCATC
Found at i:18810 original size:3 final size:3
Alignment explanation
Indices: 18798--18845 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
18788 TCTACAAAAA
18798 TAT T-T TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18842 TAT T
1 TAT T
18846 TTCCAAGCCC
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:19541 original size:25 final size:23
Alignment explanation
Indices: 19513--19572 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
19503 AATTTTAGCA
19513 TTTTTTATTATTATT-TATTTTAT
1 TTTTTTATTATTATTAT-TTTTAT
*
19536 GTTTTTTACTTCTTATTATTTTTAT
1 -TTTTTTA-TTATTATTATTTTTAT
*
19561 TTTATT-TTATTA
1 TTTTTTATTATTA
19573 CTTTTAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 5 0.16
24 12 0.39
25 13 0.42
26 1 0.03
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTTATTATTATTATTTTTAT
Found at i:19543 original size:34 final size:30
Alignment explanation
Indices: 19517--19575 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
19507 TTAGCATTTT
19517 TTATTATTATTTATTTTATGTTTTTTACTTC
1 TTATTATT-TTTATTTTATGTTTTTTACTTC
*
19548 TTATTATTTTTATTTTAT-TTTATTACTT
1 TTATTATTTTTATTTTATGTTTTTTACTT
19576 TTAGAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 9 0.33
30 10 0.37
31 8 0.30
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (30 bp):
TTATTATTTTTATTTTATGTTTTTTACTTC
Found at i:19663 original size:15 final size:15
Alignment explanation
Indices: 19614--19664 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 15
19604 CCTTTGATTC
*
19614 ATTTAATATTATATAT
1 ATTTAATATT-TATTT
*
19630 ATATATATATTTGATTT
1 ATTTA-ATATTT-ATTT
19647 ATTTAATATTTATTT
1 ATTTAATATTTATTT
19662 ATT
1 ATT
19665 ATTTCTTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 7 0.23
16 11 0.37
17 12 0.40
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
ATTTAATATTTATTT
Found at i:23856 original size:124 final size:124
Alignment explanation
Indices: 23635--24367 Score: 1110
Period size: 124 Copynumber: 5.9 Consensus size: 124
23625 TTGAACTCGA
*
23635 AGCAACATTCATCTTTAGATT-GATTTCAACTTCACGACGAATGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * * * * * *
23699 TTTATAACGAAGGGGTCATCCACGATTTTAACTTCACGGCAAAGGATATCGCGCCCACC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
* * * *
23758 GGCAACATTCATATTTAGATTGGATTTCAACTTCACAACGAAGGATATTCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * *
23823 TTCATAACGAAGGGGCCATCCAAGATTTCAACTTCACGACGAATGATATCGTGCCCACC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
** *
23882 ATTAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCGAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * *
23947 TTTACAACGAAAGGACCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
* * *
24006 AGTAACATTCATTTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTTAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * *
24071 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCATGATGAAGGATATCGTGCCCACT
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
* * ** *
24130 AGCAACATTCATCTTTAGTTTGGATTTAAACTTCACGTTGAATGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* *
24195 TTCACAACGAAGGGGCCATCCACGATTTTAACTTCACGACGAAGGATATCATG-CCACC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
* * *
24253 AACAACATTCATCTTTAGATTGGATTTCAACTTCATGAAGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
*
24318 TTCACAACGAAGGGGCCATCTACGATTTCAACTTCACGACGAAGGATATC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATC
24368 CAATTCAAGG
Statistics
Matches: 551, Mismatches: 58, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
123 129 0.23
124 422 0.77
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (124 bp):
AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
Found at i:24230 original size:66 final size:66
Alignment explanation
Indices: 24152--24553 Score: 256
Period size: 66 Copynumber: 6.3 Consensus size: 66
24142 CTTTAGTTTG
* ** *
24152 GATTTAAACTTCACGTTGAATGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
24217 C
66 C
* * * * * ***
24218 GATTTTAACTTCACGACGAAGGATAT-C-ATGCCA-CCAACAACATTCATC--TTTA---G--AT
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGC-TCAAC-TTCA-CAACGAAGGGGCCAT
**
24273 --TG
63 CCAC
* * *
24275 GATTTCAACTTCATGAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCTA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
24340 C
66 C
* * * *
24341 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTTACAATGAAGGGGTCATTCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
24406 C
66 C
* * ** ** * * * **
24407 GATTTTAACTTCACAACGAAGGATATCGTACCCACAAG--AAACATT-A-ATCTTTA---G--AT
1 GATTTCAACTTCACGACGAAGGATATCCAATTCA-AGGCTCAAC-TTCACAAC-GAAGGGGCCAT
**
24463 --TG
63 CCAC
* * *
24465 GATTTCAACTTCACGGCGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
24530 C
66 C
24531 GATTTCAACTTCACGACGAAGGA
1 GATTTCAACTTCACGACGAAGGA
24554 CATCGTACCC
Statistics
Matches: 246, Mismatches: 61, Indels: 58
0.67 0.17 0.16
Matches are distributed among these distances:
57 26 0.11
58 34 0.14
59 16 0.07
60 5 0.02
61 1 0.00
62 3 0.01
63 1 0.00
64 14 0.06
65 10 0.04
66 134 0.54
67 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (66 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
C
Found at i:24330 original size:34 final size:34
Alignment explanation
Indices: 24279--24396 Score: 93
Period size: 34 Copynumber: 3.5 Consensus size: 34
24269 AGATTGGATT
*
24279 TCAACTTCATGAA-GAAGGATATCCAATTCAAGGC
1 TCAACTTCA-CAACGAAGGATATCCAATTCAAGGC
** * **
24313 TCAACTTCACAACGAAGG--GGCC-A-TCTACGATT
1 TCAACTTCACAACGAAGGATATCCAATTC-AAG-GC
*
24345 TCAACTTCACGACGAAGGATATCCAATTCAAGGC
1 TCAACTTCACAACGAAGGATATCCAATTCAAGGC
* *
24379 TCAACTTTACAATGAAGG
1 TCAACTTCACAACGAAGG
24397 GGTCATTCAC
Statistics
Matches: 62, Mismatches: 15, Indels: 14
0.68 0.16 0.15
Matches are distributed among these distances:
30 2 0.03
31 3 0.05
32 19 0.31
33 2 0.03
34 31 0.50
35 3 0.05
36 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.23
Consensus pattern (34 bp):
TCAACTTCACAACGAAGGATATCCAATTCAAGGC
Found at i:24398 original size:313 final size:314
Alignment explanation
Indices: 24028--24647 Score: 938
Period size: 313 Copynumber: 2.0 Consensus size: 314
24018 TTTTAGATTG
*
24028 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTTAACTTCACAACGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
** * * * * * *
24093 CGATTTCAACTTCATGATGAAGGATATCGTGCCCACTAGCAACATTCATCTTTAGTTTGGATTTA
66 CGATTTCAACTTCACAACGAAGGATATCGTACCCACAAGAAACATTAATCTTTAGATTGGATTTA
** *
24158 AACTTCACGTTGAATGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCACGATTT
131 AACTTCACGGCGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCACGATTT
* * * *
24223 TAACTTCACGACGAAGGATATCAT-GCCACCAACAACATTCATCTTTAGATTGGATTTCAACTTC
196 CAACTTCACGACGAAGGACATCATACCCACCAACAACATCCATCTTTAGATTGGATTTCAACTTC
* * *
24287 ATGAA-GAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCTAC
261 A-CAACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGGGCCATCTAC
* * * *
24341 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTTACAATGAAGGGGTCATTCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
* *
24406 CGATTTTAACTTCACAACGAAGGATATCGTACCCACAAGAAACATTAATCTTTAGATTGGATTTC
66 CGATTTCAACTTCACAACGAAGGATATCGTACCCACAAGAAACATTAATCTTTAGATTGGATTTA
* *
24471 AACTTCACGGCGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCACGATTT
131 AACTTCACGGCGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCACGATTT
* *
24536 CAACTTCACGACGAAGGACATCGTACCCACCAGCAACATCCATCTTTAGATTGGATTTCAACTTC
196 CAACTTCACGACGAAGGACATCATACCCACCAACAACATCCATCTTTAGATTGGATTTCAACTTC
* *
24601 ACAACAAATGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGC
261 ACAACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGGGC
24648 ATGTGTCAAC
Statistics
Matches: 274, Mismatches: 31, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
313 198 0.72
314 76 0.28
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (314 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
CGATTTCAACTTCACAACGAAGGATATCGTACCCACAAGAAACATTAATCTTTAGATTGGATTTA
AACTTCACGGCGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCACGATTT
CAACTTCACGACGAAGGACATCATACCCACCAACAACATCCATCTTTAGATTGGATTTCAACTTC
ACAACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGGGCCATCTAC
Found at i:24428 original size:32 final size:32
Alignment explanation
Indices: 24313--24428 Score: 92
Period size: 32 Copynumber: 3.6 Consensus size: 32
24303 AATTCAAGGC
*
24313 TCAACTTCACAACGAAGGGGCCA-TCTACGATT
1 TCAACTTCACAACGAAGGGGTCATTC-ACGATT
* ** * **
24345 TCAACTTCACGACGAAGGATATCCAATTCAAG-GC
1 TCAACTTCACAACGAAGG-GGT-C-ATTCACGATT
* *
24379 TCAACTTTACAATGAAGGGGTCATTCACGATT
1 TCAACTTCACAACGAAGGGGTCATTCACGATT
*
24411 TTAACTTCACAACGAAGG
1 TCAACTTCACAACGAAGG
24429 ATATCGTACC
Statistics
Matches: 61, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
31 6 0.10
32 33 0.54
33 1 0.02
34 16 0.26
35 3 0.05
36 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (32 bp):
TCAACTTCACAACGAAGGGGTCATTCACGATT
Found at i:24503 original size:124 final size:124
Alignment explanation
Indices: 24341--24646 Score: 459
Period size: 124 Copynumber: 2.5 Consensus size: 124
24331 GGCCATCTAC
* * *
24341 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTTACAATGAAGGGGTCATTCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCA
* * *
24406 CGATTTTAACTTCACAACGAAGGATATCGTACCCACAAGAAACATTAATCTTTAGATTG
66 CGATTTCAACTTCACAACGAAGGACATCGTACCCACAAGAAACATCAATCTTTAGATTG
* *
24465 GATTTCAACTTCACGGCGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCA
* * * *
24530 CGATTTCAACTTCACGACGAAGGACATCGTACCCACCAGCAACATCCATCTTTAGATTG
66 CGATTTCAACTTCACAACGAAGGACATCGTACCCACAAGAAACATCAATCTTTAGATTG
* * * * *
24589 GATTTCAACTTCACAACAAATGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGG
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGG
24647 CATGTGTCAA
Statistics
Matches: 163, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
124 163 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (124 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCA
CGATTTCAACTTCACAACGAAGGACATCGTACCCACAAGAAACATCAATCTTTAGATTG
Found at i:25593 original size:3 final size:3
Alignment explanation
Indices: 25585--25622 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
25575 AATATTTTAT
25585 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
25623 TTTGTAAGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:25623 original size:12 final size:13
Alignment explanation
Indices: 25577--25623 Score: 73
Period size: 12 Copynumber: 3.8 Consensus size: 13
25567 TATACAAAAA
25577 TATT-TTATTTAT
1 TATTATTATTTAT
25589 TATTATTA-TTAT
1 TATTATTATTTAT
25601 TATTATTATTTAT
1 TATTATTATTTAT
25614 T-TTATTATTT
1 TATTATTATTT
25624 TTGTAAGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 25 0.76
13 8 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTATTATTTAT
Found at i:26304 original size:14 final size:15
Alignment explanation
Indices: 26287--26348 Score: 69
Period size: 14 Copynumber: 4.3 Consensus size: 15
26277 TTAATTTTAG
26287 TATTT-TTTTATTAT
1 TATTTATTTTATTAT
26301 TATTTATTTTA-TAT
1 TATTTATTTTATTAT
*
26315 TTTTTACTTCTTATTAT
1 TATTTA-TT-TTATTAT
26332 T-TTTATTTTATT-T
1 TATTTATTTTATTAT
26345 TATT
1 TATT
26349 ACTTTTATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
13 2 0.05
14 20 0.48
15 9 0.21
16 7 0.17
17 4 0.10
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTATTTTATTAT
Found at i:26328 original size:28 final size:26
Alignment explanation
Indices: 26297--26393 Score: 78
Period size: 28 Copynumber: 3.7 Consensus size: 26
26287 TATTTTTTTA
*
26297 TTATTATTTATTTTATATTTTTTACTT
1 TTATTATTTATTTTAT-TTTATTACTT
26324 CTTATTATTTTTATTTTATTTTATTACTT
1 -TTATTA--TTTATTTTATTTTATTACTT
* **
26353 TTATAATTTAACATT-TTTTATT--TT
1 TTATTATTT-ATTTTATTTTATTACTT
26377 TT-TTATTT-TTTTATTTT
1 TTATTATTTATTTTATTTT
26394 TTCCCTTTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
21 2 0.03
22 4 0.07
23 5 0.09
24 4 0.07
26 10 0.17
27 3 0.05
28 11 0.19
29 9 0.16
30 10 0.17
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (26 bp):
TTATTATTTATTTTATTTTATTACTT
Found at i:26355 original size:35 final size:36
Alignment explanation
Indices: 26267--26355 Score: 85
Period size: 35 Copynumber: 2.5 Consensus size: 36
26257 AAAAAGTTGG
* * * *
26267 TTTTATTTTTTTAATTTTAGTATTTTTTTATTATTA
1 TTTTATTTTATTAATTTTACTATCTTATTATTATTA
* *
26303 -TTTATTTTA-TATTTTTTACT-TCTTATTATTTTTA
1 TTTTATTTTATTA-ATTTTACTATCTTATTATTATTA
*
26337 TTTTATTTTATTACTTTTA
1 TTTTATTTTATTAATTTTA
26356 TAATTTAACA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
34 13 0.30
35 28 0.65
36 2 0.05
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.74
Consensus pattern (36 bp):
TTTTATTTTATTAATTTTACTATCTTATTATTATTA
Found at i:26362 original size:16 final size:15
Alignment explanation
Indices: 26307--26362 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
26297 TTATTATTTA
*
26307 TTTTATATTTTTTAC
1 TTTTATATTTATTAC
26322 TTCTTATTATTT-TTA-
1 TT-TTA-TATTTATTAC
26337 TTTTAT-TTTATTAC
1 TTTTATATTTATTAC
26351 TTTTATAATTTA
1 TTTTAT-ATTTA
26363 ACATTTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
12 3 0.09
13 4 0.11
14 9 0.26
15 4 0.11
16 10 0.29
17 5 0.14
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATATTTATTAC
Found at i:26394 original size:9 final size:9
Alignment explanation
Indices: 26366--26395 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
26356 TAATTTAACA
26366 TTTTTTATT
1 TTTTTTATT
26375 TTTTTTA-T
1 TTTTTTATT
26383 TTTTTTATT
1 TTTTTTATT
26392 TTTT
1 TTTT
26396 CCCTTTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTATT
Found at i:26394 original size:14 final size:14
Alignment explanation
Indices: 26267--26394 Score: 61
Period size: 14 Copynumber: 9.3 Consensus size: 14
26257 AAAAAGTTGG
*
26267 TTTTATTTTTTTAA
1 TTTTATTTTTTTAT
*
26281 TTTTAGTATTTTT-T
1 TTTTA-TTTTTTTAT
* *
26295 TATTA-TTATTTA-
1 TTTTATTTTTTTAT
26307 TTTTATATTTTTTACT
1 TTTTAT-TTTTTTA-T
*
26323 TCTTATTATTTTTA-
1 TTTTATT-TTTTTAT
* *
26337 TTTTATTTTATTAC
1 TTTTATTTTTTTAT
** * *
26351 TTTTATAATTTAAC
1 TTTTATTTTTTTAT
* *
26365 ATTT-TTTATTT-T
1 TTTTATTTTTTTAT
26377 TTTTATTTTTTTAT
1 TTTTATTTTTTTAT
26391 TTTT
1 TTTT
26395 TCCCTTTGAT
Statistics
Matches: 82, Mismatches: 22, Indels: 20
0.66 0.18 0.16
Matches are distributed among these distances:
12 11 0.13
13 14 0.17
14 39 0.48
15 7 0.09
16 11 0.13
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (14 bp):
TTTTATTTTTTTAT
Found at i:26462 original size:25 final size:25
Alignment explanation
Indices: 26399--26449 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
26389 ATTTTTTCCC
26399 TTTGATTCATTTAATATTATATATA
1 TTTGATTCATTTAATATTATATATA
*
26424 TTTGATTCATTTAATATT-TATTTA
1 TTTGATTCATTTAATATTATATATA
26448 TT
1 TT
26450 ATTTCTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTGATTCATTTAATATTATATATA
Found at i:27699 original size:2 final size:2
Alignment explanation
Indices: 27692--27716 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27682 ATTATATTTC
27692 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27717 ATTATAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28036 original size:2 final size:2
Alignment explanation
Indices: 28029--28065 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
28019 TATCTAAAAT
28029 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28066 GAAATATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28576 original size:12 final size:12
Alignment explanation
Indices: 28543--28577 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
28533 TATATTAAAT
28543 TAAAAATATGAC
1 TAAAAATATGAC
28555 TAAATTAATATGAC
1 TAAA--AATATGAC
28569 TAAAAATAT
1 TAAAAATAT
28578 TGTATGGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.43
14 12 0.57
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (12 bp):
TAAAAATATGAC
Found at i:28714 original size:34 final size:34
Alignment explanation
Indices: 28654--28727 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 34
28644 TTATGTATCA
*
28654 ATATAGTATATGTTTTGAAAACA-TTTTGAAAAT
1 ATATAATATATGTTTTGAAAACATTTTTGAAAAT
28687 ATATAATATATAGTTTTGAAAGA-ATTTTTTGAAAAT
1 ATATAATATAT-GTTTTGAAA-ACA-TTTTTGAAAAT
28723 ATATA
1 ATATA
28728 TAATACTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
33 10 0.28
34 10 0.28
35 1 0.03
36 15 0.42
ACGTcount: A:0.45, C:0.01, G:0.11, T:0.43
Consensus pattern (34 bp):
ATATAATATATGTTTTGAAAACATTTTTGAAAAT
Found at i:28729 original size:33 final size:31
Alignment explanation
Indices: 28653--28729 Score: 77
Period size: 34 Copynumber: 2.3 Consensus size: 31
28643 TTTATGTATC
28653 AATATAGTATATGTTTTGAAAACATTTTGAAA
1 AATATA-TATATGTTTTGAAAACATTTTGAAA
28685 ATATATAATATATAGTTTTGAAAGA-ATTTTTTG-AA
1 A-ATAT-ATATAT-GTTTTGAAA-ACA--TTTTGAAA
28720 AATATATATA
1 AATATATATA
28730 ATACTATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
32 1 0.03
33 14 0.36
34 15 0.38
35 4 0.10
36 5 0.13
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.43
Consensus pattern (31 bp):
AATATATATATGTTTTGAAAACATTTTGAAA
Found at i:28750 original size:20 final size:21
Alignment explanation
Indices: 28725--28763 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
28715 TTGAAAATAT
28725 ATATAATACTATTT-TTTAAA
1 ATATAATACTATTTATTTAAA
*
28745 ATATAATGCTATTTATTTA
1 ATATAATACTATTTATTTA
28764 TTTATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (21 bp):
ATATAATACTATTTATTTAAA
Found at i:28778 original size:18 final size:18
Alignment explanation
Indices: 28755--28789 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
28745 ATATAATGCT
*
28755 ATTTATTTATTTATTTTC
1 ATTTATTTATTCATTTTC
28773 ATTTATTTATTCATTTT
1 ATTTATTTATTCATTTT
28790 GTTATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTATTTATTCATTTTC
Found at i:29519 original size:18 final size:18
Alignment explanation
Indices: 29496--29538 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
29486 CTTTAGATTA
*
29496 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
29514 TTTATTTAATTATTATCT
1 TTTATTTAATTATTATCT
29532 TTTATTT
1 TTTATTT
29539 TAAAAACAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:29618 original size:15 final size:13
Alignment explanation
Indices: 29600--29658 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
29590 TATATTTCCC
29600 TTTTATTTATTATTA
1 TTTTATTT-TT-TTA
29615 TTTTATTTTGTTTTA
1 TTTTA-TTT-TTTTA
29630 TTTT-TTTATTTT-
1 TTTTATTT-TTTTA
*
29642 TTATATTTTTTTA
1 TTTTATTTTTTTA
29655 TTTT
1 TTTT
29659 TCTTTTATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 7 0.19
13 13 0.35
15 12 0.32
16 5 0.14
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:29630 original size:18 final size:17
Alignment explanation
Indices: 29609--29659 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
29599 CTTTTATTTA
*
29609 TTATTATTTTATTTTGTT
1 TTATTTTTTTATTTT-TT
29627 TTATTTTTTTATTTTTT
1 TTATTTTTTTATTTTTT
*
29644 ATATTTTTTTATTTTT
1 TTATTTTTTTATTTTT
29660 CTTTTATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (17 bp):
TTATTTTTTTATTTTTT
Found at i:29643 original size:25 final size:26
Alignment explanation
Indices: 29600--29659 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
29590 TATATTTCCC
*
29600 TTTTA-TTTATTATTATTTTAT-TTT
1 TTTTATTTTTTTATTATTTTATATTT
29624 GTTTTATTTTTTTATT-TTTTATATTT
1 -TTTTATTTTTTTATTATTTTATATTT
29650 TTTTATTTTT
1 TTTTATTTTT
29660 CTTTTATGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 21 0.66
26 11 0.34
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.82
Consensus pattern (26 bp):
TTTTATTTTTTTATTATTTTATATTT
Found at i:29767 original size:28 final size:27
Alignment explanation
Indices: 29726--29784 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
29716 ATATAACATT
29726 TTTTTTAAATTTAATATTTCATTATTTGA
1 TTTTTTAAATTTAATATTTCA-TATTT-A
* *
29755 TTTTTT-AATTTAATTTTTTATATTTA
1 TTTTTTAAATTTAATATTTCATATTTA
29781 TTTT
1 TTTT
29785 ATTTTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 5 0.18
27 5 0.18
28 12 0.43
29 6 0.21
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTTTAAATTTAATATTTCATATTTA
Found at i:29782 original size:31 final size:31
Alignment explanation
Indices: 29747--29805 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
29737 TAATATTTCA
* * *
29747 TTATTTGATTTTTTAATTTAATTTTTTATAT
1 TTATTTGATTTTATAATCTAATGTTTTATAT
*
29778 TTATTTTATTTTATAATCTAATGTTTTA
1 TTATTTGATTTTATAATCTAATGTTTTA
29806 ACCTTTTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (31 bp):
TTATTTGATTTTATAATCTAATGTTTTATAT
Found at i:29784 original size:12 final size:13
Alignment explanation
Indices: 29726--29784 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
29716 ATATAACATT
29726 TTTTTTAAATTTAA
1 TTTTTT-AATTTAA
*
29740 TATTTCATT-ATTTGA
1 T-TTT--TTAATTTAA
29755 TTTTTTAATTTAA
1 TTTTTTAATTTAA
29768 TTTTTTATATTT-A
1 TTTTTTA-ATTTAA
29781 TTTT
1 TTTT
29785 ATTTTATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
12 2 0.05
13 17 0.45
14 8 0.21
15 9 0.24
17 2 0.05
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTTTTAATTTAA
Found at i:32594 original size:16 final size:16
Alignment explanation
Indices: 32573--32605 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
32563 GAAGCTATTT
32573 ACTTGCACGGTTTAAC
1 ACTTGCACGGTTTAAC
32589 ACTTGCACGGTTTAAC
1 ACTTGCACGGTTTAAC
32605 A
1 A
32606 AGAGAAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (16 bp):
ACTTGCACGGTTTAAC
Found at i:34046 original size:53 final size:53
Alignment explanation
Indices: 33969--34071 Score: 188
Period size: 53 Copynumber: 1.9 Consensus size: 53
33959 CAAGATCGAT
*
33969 GGAGGGGAATCAAGTAAGAAACCTCATATTAAGAAGAAAGAGAGAGAAATGAG
1 GGAGGGGAATCAAGTAAGAAACCTCATATGAAGAAGAAAGAGAGAGAAATGAG
*
34022 GGAGGGGAATCAAGTAAGAAACCTCCTATGAAGAAGAAAGAGAGAGAAAT
1 GGAGGGGAATCAAGTAAGAAACCTCATATGAAGAAGAAAGAGAGAGAAAT
34072 TAATAACATC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.49, C:0.09, G:0.30, T:0.13
Consensus pattern (53 bp):
GGAGGGGAATCAAGTAAGAAACCTCATATGAAGAAGAAAGAGAGAGAAATGAG
Found at i:41123 original size:25 final size:25
Alignment explanation
Indices: 41090--41139 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
41080 AAGAAAAATT
* *
41090 TATTAATTTATATATATATATAAGA
1 TATTAATTTATATAGAAATATAAGA
* *
41115 TATTTATTTATTTAGAAATATAAGA
1 TATTAATTTATATAGAAATATAAGA
41140 AAAGGGCTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (25 bp):
TATTAATTTATATAGAAATATAAGA
Found at i:42892 original size:3 final size:3
Alignment explanation
Indices: 42884--42936 Score: 61
Period size: 3 Copynumber: 17.0 Consensus size: 3
42874 AATATTTATT
* **
42884 TAA TAA TAA TAA TGTA TAA TAA TAA TAA TTT TAA TAA TAA TAA TATA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
42931 TAA TAA
1 TAA TAA
42937 AAGGCAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
3 37 0.88
4 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:43163 original size:45 final size:45
Alignment explanation
Indices: 43091--43431 Score: 585
Period size: 45 Copynumber: 7.6 Consensus size: 45
43081 AAGGTCTTAT
* * * ** *
43091 CATCTTGCACTGTAGGTCTTATGGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
43136 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
43181 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
43226 CATCATACACTGAAGGGCTTAGAGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
43271 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
43316 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
43360 CATCCTGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
43405 CATCATGCACTGAAGGGCTTACAGATG
1 CATCATGCACTGAAGGGCTTACAGATG
43432 TGGGAAATAG
Statistics
Matches: 281, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
44 43 0.15
45 238 0.85
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (45 bp):
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
Found at i:44118 original size:23 final size:23
Alignment explanation
Indices: 44092--44147 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 23
44082 AATAAAGCTT
44092 TCATCTTTGAAAAAAAGAATCTA
1 TCATCTTTGAAAAAAAGAATCTA
* *
44115 TCATCTTT-AAAGAGAGAATCTA
1 TCATCTTTGAAAAAAAGAATCTA
44137 TCATCTTTGAA
1 TCATCTTTGAA
44148 GAGTATAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 20 0.67
23 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (23 bp):
TCATCTTTGAAAAAAAGAATCTA
Found at i:48189 original size:15 final size:15
Alignment explanation
Indices: 48169--48198 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48159 GTAATATTTA
48169 CCAGACTCATTGTAT
1 CCAGACTCATTGTAT
*
48184 CCAGACTCTTTGTAT
1 CCAGACTCATTGTAT
48199 TACCCACTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (15 bp):
CCAGACTCATTGTAT
Found at i:49626 original size:7 final size:8
Alignment explanation
Indices: 49602--49635 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
49592 ATGTAAATAC
*
49602 AAATGTAA
1 AAATGCAA
49610 AAATGCAA
1 AAATGCAA
*
49618 AAATGAAA
1 AAATGCAA
49626 AAATGCAA
1 AAATGCAA
49634 AA
1 AA
49636 TACAAATGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.68, C:0.06, G:0.12, T:0.15
Consensus pattern (8 bp):
AAATGCAA
Found at i:49627 original size:16 final size:16
Alignment explanation
Indices: 49602--49635 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
49592 ATGTAAATAC
*
49602 AAATGTAAAAATGCAA
1 AAATGAAAAAATGCAA
49618 AAATGAAAAAATGCAA
1 AAATGAAAAAATGCAA
49634 AA
1 AA
49636 TACAAATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.12, T:0.15
Consensus pattern (16 bp):
AAATGAAAAAATGCAA
Found at i:49901 original size:43 final size:43
Alignment explanation
Indices: 49821--49906 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
49811 TCGTGCATCA
* *
49821 AACAAAACTTTACATATAGGGGACAACTTTCAGTCCTATCTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* *
49864 AACAAAACTTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
49907 TCTAAAGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.30
Consensus pattern (43 bp):
AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:51334 original size:16 final size:18
Alignment explanation
Indices: 51302--51336 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
51292 TTAAAAAAAG
51302 AAAAAAATCAAATAAATT
1 AAAAAAATCAAATAAATT
51320 AAAAAAA-CAAA-AAATT
1 AAAAAAATCAAATAAATT
51336 A
1 A
51337 GAACTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAAAATCAAATAAATT
Found at i:54976 original size:139 final size:140
Alignment explanation
Indices: 54618--55019 Score: 498
Period size: 139 Copynumber: 2.9 Consensus size: 140
54608 GGTGATGTTC
* * * *
54618 CAACTCCCTATGCGATAGAAACAAGCTAAGGTTGAACAAGTTCTTCTCATTATG-ACTTCTTCTC
1 CAACTCCATATGCGAT-GAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTC
* * * * * *
54682 CCTTATCGGATAAGTTTTTCTCATTATTAACTCTCCCCTGGACATGTTGATCCCTCGAGTGAGGT
65 CCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGT
*
54747 GTTGTTGATTT
130 ATTGTTGATTT
* * * * **
54758 GAA----ATAT-TG-TTAATCGAGCTAAGGCTGAGTAATGTT-TTCTCATTATGAACTTCTTTTC
1 CAACTCCATATGCGATGAATCGAGCTAAGGTTGAACAA-GTTCTTCTCATTATGAACTTCTTTTC
*
54816 CCTCATCGGATGAATTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGT
65 CCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGT
54881 ATTGTTGA-TT
130 ATTGTTGATTT
*
54891 CAACTCCATATGCGATGAATCGGGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTCC
1 CAACTCCATATGCGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTCC
** * * * *
54956 CTCATTAGATGAGTTCTTCTCATTGTGAACTCTCCATTTGAAGTGTTGATCCCTCGAGTGAGGT
66 CTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGT
55020 GTCACTAATT
Statistics
Matches: 221, Mismatches: 32, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
133 31 0.14
134 78 0.35
135 1 0.00
136 3 0.01
137 4 0.02
138 4 0.02
139 98 0.44
140 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (140 bp):
CAACTCCATATGCGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTCC
CTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTA
TTGTTGATTT
Found at i:55608 original size:90 final size:90
Alignment explanation
Indices: 55459--56316 Score: 1265
Period size: 90 Copynumber: 9.5 Consensus size: 90
55449 GATTTAAAAA
* * *
55459 AAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAAATCTCATTTGAAAACATCCTGCACTAAAGG
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTC-TAAAATCTCATATGAAAACATCCTGCACTGAAGG
* *
55524 TCTTATGGTTGGCCCGAAGGACTTAA
65 TCTTATGGATGGCCCGAAGGACTTAC
* * *
55550 AAATCAGGAAACCCCCGAAGGCGTT-GTTTCTAAAATCTCATTTGAAAACACCCTGCACTGAAGG
1 AAATCAAGAAACCCCCGAAGGC-TTAGTTTCTAAAATCTCATATGAAAACATCCTGCACTGAAGG
* * * *
55614 TCATACGGATGGCCCGAAAGATTTAC
65 TCTTATGGATGGCCCGAAGGACTTAC
* * *
55640 AAATCAAGAAACCCCCAAAGGCTTAGTTTTCTAAAATCTCATTTGAAAACATCCTGCACTAAAGG
1 AAATCAAGAAACCCCCGAAGGCTTAG-TTTCTAAAATCTCATATGAAAACATCCTGCACTGAAGG
55705 TCTTATGGATGGCCCGAAGGACTTAC
65 TCTTATGGATGGCCCGAAGGACTTAC
* * * * *
55731 AAATCAAGAAACTCCCGAGGGCTTAGTTTCTAAAATCTGATATGAAAACATCTTGCACTAAAGGT
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAACATCCTGCACTGAAGGT
* *
55796 CTTATGGATGACCTGAAGGACTTAC
66 CTTATGGATGGCCCGAAGGACTTAC
* * * *
55821 AAATCAAGAAACCCTCGAAGGCTTAGTTTTTAAAATCTCATATGAAAATATCATGCACTGAAGGT
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAACATCCTGCACTGAAGGT
*
55886 CTTATGGATAGCCCGAAGGACTTAC
66 CTTATGGATGGCCCGAAGGACTTAC
* * *
55911 AAATCAAGAAACCCCCG-AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTCCATTGAAGGT
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAACATCCTGCACTGAAGGT
* *
55975 CTTATGGATGACTCGAAGGACTTAC
66 CTTATGGATGGCCCGAAGGACTTAC
* * * *
56000 AAATCAAGAAGCCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAATATCCTGCATTGAAAGT
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAACATCCTGCACTGAAGGT
*
56065 CTTATGGATGGCACGAAGGACTTAC
66 CTTATGGATGGCCCGAAGGACTTAC
*
56090 AAATCAAGAAACCCCTGAAGGCTTAGTTTCTAAAATCTCATATGAAAACATCCTGCACTGAAGGT
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAACATCCTGCACTGAAGGT
56155 CTTATGGATGGCCCGAAGGACTTAC
66 CTTATGGATGGCCCGAAGGACTTAC
* *
56180 AAATTAAGAAA-CCCCTAAGGCTTAGTTTCTAAAATC-CTATATGAAAACATCCTGCACTGAAGG
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTC-ATATGAAAACATCCTGCACTGAAGG
*
56243 TCTTATGGATGGCCCAAAGGACTTAC
65 TCTTATGGATGGCCCGAAGGACTTAC
* *
56269 AAATCAAGAAACCCACAAAGGCTTAGTTTCTAAAATCTCATATGAAAA
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAA
56317 TATCATGTTG
Statistics
Matches: 693, Mismatches: 67, Indels: 15
0.89 0.09 0.02
Matches are distributed among these distances:
88 1 0.00
89 164 0.24
90 419 0.60
91 107 0.15
92 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (90 bp):
AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAACATCCTGCACTGAAGGT
CTTATGGATGGCCCGAAGGACTTAC
Found at i:56001 original size:179 final size:178
Alignment explanation
Indices: 55459--56316 Score: 1225
Period size: 179 Copynumber: 4.8 Consensus size: 178
55449 GATTTAAAAA
* *
55459 AAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAAATCTCATTTGAAAACATCCTGCACTAAAGG
1 AAATCAAGAAACCCC-GAAGGCTTAGTTT-TTAAAATCTCATATGAAAACATCCTGCACTGAAGG
* * *
55524 TCTTATGGTTGGCCCGAAGGACTTAAAAATCAGGAAACCCCCGAAGGCGTT-GTTTCTAAAATCT
64 TCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCG-AGGC-TTAGTTTCTAAAATCT
* * * * * * *
55588 CATTTGAAAACACCCTGCACTGAAGGTCATACGGATGGCCCGAAAGATTTAC
127 CATATGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTAC
* * *
55640 AAATCAAGAAACCCCCAAAGGCTTAGTTTTCTAAAATCTCATTTGAAAACATCCTGCACTAAAGG
1 AAATCAAGAAA-CCCCGAAGGCTTAGTTTT-TAAAATCTCATATGAAAACATCCTGCACTGAAGG
* *
55705 TCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACTCCCGAGGGCTTAGTTTCTAAAATCTG
64 TCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGA-GGCTTAGTTTCTAAAATCTC
* * *
55770 ATATGAAAACATCTTGCACTAAAGGTCTTATGGATGACCTGAAGGACTTAC
128 ATATGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTAC
* *
55821 AAATCAAGAAACCCTCGAAGGCTTAGTTTTTAAAATCTCATATGAAAATATCATGCACTGAAGGT
1 AAATCAAGAAACCC-CGAAGGCTTAGTTTTTAAAATCTCATATGAAAACATCCTGCACTGAAGGT
*
55886 CTTATGGATAGCCCGAAGGACTTACAAATCAAGAAACCCCCGAGGCTTAGTTTCTAAAATCTCAT
65 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAGGCTTAGTTTCTAAAATCTCAT
* * * *
55951 TTGAAAACATCCTCCATTGAAGGTCTTATGGATGACTCGAAGGACTTAC
130 ATGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTAC
* * * * *
56000 AAATCAAGAAGCCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAATATCCTGCATTGAAAGT
1 AAATCAAGAA-ACCCCGAAGGCTTAGTTTTTAAAATCTCATATGAAAACATCCTGCACTGAAGGT
* *
56065 CTTATGGATGGCACGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTAAAATCTCA
65 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCG-AGGCTTAGTTTCTAAAATCTCA
*
56130 TATGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAC
129 TATGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTAC
* * *
56180 AAATTAAGAAACCCCTAAGGCTTAGTTTCTAAAATC-CTATATGAAAACATCCTGCACTGAAGGT
1 AAATCAAGAAACCCCGAAGGCTTAGTTTTTAAAATCTC-ATATGAAAACATCCTGCACTGAAGGT
* **
56244 CTTATGGATGGCCCAAAGGACTTACAAATCAAGAAACCCACAAAGGCTTAGTTTCTAAAATCTCA
65 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCC-CCGAGGCTTAGTTTCTAAAATCTCA
56309 TATGAAAA
129 TATGAAAA
56317 TATCATGTTG
Statistics
Matches: 614, Mismatches: 54, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
178 1 0.00
179 272 0.44
180 159 0.26
181 178 0.29
182 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (178 bp):
AAATCAAGAAACCCCGAAGGCTTAGTTTTTAAAATCTCATATGAAAACATCCTGCACTGAAGGTC
TTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAGGCTTAGTTTCTAAAATCTCATA
TGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTAC
Found at i:56069 original size:269 final size:267
Alignment explanation
Indices: 55459--56316 Score: 1272
Period size: 269 Copynumber: 3.2 Consensus size: 267
55449 GATTTAAAAA
* *
55459 AAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAAATCTCATTTGAAAACATCCTGCACTAAAGG
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTC-TAAAATCTCATATGAAAACATCCTGCACTAAAGG
* * *
55524 TCTTATGGTTGGCCCGAAGGACTTAAAAATCAGGAAACCCCCGAAGGCGTT-GTTTCTAAAATCT
65 TCTTATGGATGG-CCGAAGGACTTACAAATCAAGAAA-CCCCGAAGGC-TTAGTTTCTAAAATCT
* * * * * *
55588 CATTTGAAAACACCCTGCACTGAAGGTCATACGGATGGCCCGAAAGATTTACAAATCAAGAAACC
127 CATATGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACC
*
55653 CCCAAAGGCTTAGTTTTCTAAAATCTCATTTGAAAACATCCTGCACTAAAGGTCTTATGGATGGC
192 CCC-AAGGCTTAG-TTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGC
55718 CCGAAGGACTTAC
255 CCGAAGGACTTAC
* * * *
55731 AAATCAAGAAACTCCCGAGGGCTTAGTTTCTAAAATCTGATATGAAAACATCTTGCACTAAAGGT
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAACATCCTGCACTAAAGGT
* *
55796 CTTATGGATGACCTGAAGGACTTACAAATCAAGAAACCCTCGAAGGCTTAGTTTTTAAAATCTCA
66 CTTATGGATGGCC-GAAGGACTTACAAATCAAGAAACCC-CGAAGGCTTAGTTTCTAAAATCTCA
* * *
55861 TATGAAAATATCATGCACTGAAGGTCTTATGGATAGCCCGAAGGACTTACAAATCAAGAAACCCC
129 TATGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCC
* * * * *
55926 CGAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTCCATTGAAGGTCTTATGGATGACTCGA
194 CAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGA
55991 AGGACTTAC
259 AGGACTTAC
* * *
56000 AAATCAAGAAGCCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAATATCCTGCATTGAAA-G
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAACATCCTGCACT-AAAGG
56064 TCTTATGGATGGCACGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTAAAATCTC
65 TCTTATGGATGGC-CGAAGGACTTACAAATCAAGAAACCCC-GAAGGCTTAGTTTCTAAAATCTC
*
56129 ATATGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAAATTAAGAAACCC
128 ATATGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCC
* *
56194 CTAAGGCTTAGTTTCTAAAATC-CTATATGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCC
193 CCAAGGCTTAGTTTCTAAAATCTC-ATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCC
*
56258 AAAGGACTTAC
257 GAAGGACTTAC
* *
56269 AAATCAAGAAACCCACAAAGGCTTAGTTTCTAAAATCTCATATGAAAA
1 AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAA
56317 TATCATGTTG
Statistics
Matches: 529, Mismatches: 50, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
268 2 0.00
269 342 0.65
270 19 0.04
271 139 0.26
272 27 0.05
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (267 bp):
AAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAACATCCTGCACTAAAGGT
CTTATGGATGGCCGAAGGACTTACAAATCAAGAAACCCCGAAGGCTTAGTTTCTAAAATCTCATA
TGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCA
AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAG
GACTTAC
Found at i:63609 original size:13 final size:14
Alignment explanation
Indices: 63591--63621 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
63581 TCCTATGTAC
63591 ATAATA-AAGTAAA
1 ATAATACAAGTAAA
63604 ATAATACAAGTAAA
1 ATAATACAAGTAAA
63618 ATAA
1 ATAA
63622 ATATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (14 bp):
ATAATACAAGTAAA
Found at i:68438 original size:23 final size:24
Alignment explanation
Indices: 68406--68470 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
68396 GTAAAATTCT
* *
68406 ATTTTTTAACTGCTAACTTTGCTA
1 ATTTTCTAACTGCTAACTTCGCTA
* *
68430 A-TTTCTAACCGCTAAC-GCGCTA
1 ATTTTCTAACTGCTAACTTCGCTA
*
68452 ATTTTCTAACTTCTAACTT
1 ATTTTCTAACTGCTAACTT
68471 ATAACTTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
22 5 0.16
23 26 0.81
24 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (24 bp):
ATTTTCTAACTGCTAACTTCGCTA
Found at i:70386 original size:25 final size:25
Alignment explanation
Indices: 70349--70402 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
70339 TTTAAAAAAA
70349 TTCACGTGCTCTTTTCTTC-TTCTTC
1 TTCACGTGCTCTTTTC-TCATTCTTC
*
70374 TTCACGTGGTCTTTTCTCATTCTTC
1 TTCACGTGCTCTTTTCTCATTCTTC
70399 TTCA
1 TTCA
70403 AAACAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.07, C:0.30, G:0.09, T:0.54
Consensus pattern (25 bp):
TTCACGTGCTCTTTTCTCATTCTTC
Found at i:76207 original size:28 final size:26
Alignment explanation
Indices: 76175--76236 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
76165 CACCCGCAGC
* *
76175 ATCCATCCACCCATTAATATATCTATCT
1 ATCCATCCACCCA-T-ATATATATATAT
*
76203 ATCCATCCATCCATATATATATATAT
1 ATCCATCCACCCATATATATATATAT
76229 ATCCATCC
1 ATCCATCC
76237 CTTGACAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 18 0.58
27 1 0.03
28 12 0.39
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.35
Consensus pattern (26 bp):
ATCCATCCACCCATATATATATATAT
Found at i:76844 original size:23 final size:23
Alignment explanation
Indices: 76818--76872 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
76808 AAATCCTATG
76818 TCATC-CCTCTTTTAACTCAAGGC
1 TCATCTCCTC-TTTAACTCAAGGC
76841 TCATCTCCTCTTTAACTCAAGGC
1 TCATCTCCTCTTTAACTCAAGGC
76864 TCATCTCCT
1 TCATCTCCT
76873 GACATCCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 27 0.87
24 4 0.13
ACGTcount: A:0.20, C:0.36, G:0.07, T:0.36
Consensus pattern (23 bp):
TCATCTCCTCTTTAACTCAAGGC
Found at i:77696 original size:14 final size:14
Alignment explanation
Indices: 77661--77699 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
77651 GGAGAAATTC
*
77661 AAAAAACAAAAAAA
1 AAAAAATAAAAAAA
*
77675 AAAGAAATAAAAATA
1 AAA-AAATAAAAAAA
77690 AAAAAATAAA
1 AAAAAATAAA
77700 TTAAGGCAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.87, C:0.03, G:0.03, T:0.08
Consensus pattern (14 bp):
AAAAAATAAAAAAA
Found at i:78943 original size:2 final size:2
Alignment explanation
Indices: 78936--78984 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
78926 GTGAAGTAGA
78936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78978 AT AT AT A
1 AT AT AT A
78985 ATTTTATTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:79742 original size:22 final size:22
Alignment explanation
Indices: 79702--79744 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
79692 CTATATGTCT
*
79702 TCTGATTCGAGTGGTAGAGGTC
1 TCTGATTCGAGTCGTAGAGGTC
79724 TCTGATTCGAG-CGTCAGAGGT
1 TCTGATTCGAGTCGT-AGAGGT
79745 GGGTGGGAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (22 bp):
TCTGATTCGAGTCGTAGAGGTC
Found at i:80449 original size:21 final size:21
Alignment explanation
Indices: 80423--80464 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
80413 TTTAAATTAC
80423 GAATCATTATTATAACATTTT
1 GAATCATTATTATAACATTTT
*
80444 GAATCATTATTATAATATTTT
1 GAATCATTATTATAACATTTT
80465 ATGATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
GAATCATTATTATAACATTTT
Found at i:89407 original size:19 final size:20
Alignment explanation
Indices: 89372--89413 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
89362 TCGGTACTGG
*
89372 ATGAACAGTACTGGTAAAAA
1 ATGAACAGTAATGGTAAAAA
89392 ATGAACA-TAATGGTAAAAA
1 ATGAACAGTAATGGTAAAAA
89411 ATG
1 ATG
89414 TAGCAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.21
Consensus pattern (20 bp):
ATGAACAGTAATGGTAAAAA
Found at i:94440 original size:18 final size:19
Alignment explanation
Indices: 94412--94451 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
94402 AGTAGTATCG
*
94412 ATACTATAGTATTGATACC
1 ATACTATAGTATCGATACC
94431 ATAC-ATAGTATCGATACC
1 ATACTATAGTATCGATACC
94449 ATA
1 ATA
94452 TGAGTATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (19 bp):
ATACTATAGTATCGATACC
Found at i:97191 original size:20 final size:20
Alignment explanation
Indices: 97154--97192 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
97144 TCGAGGCTGC
* *
97154 AAGAACAGTATCGGTACTTG
1 AAGAACAATATCGATACTTG
*
97174 AAGAACAATGTCGATACTT
1 AAGAACAATATCGATACTT
97193 TCTGGGGAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (20 bp):
AAGAACAATATCGATACTTG
Found at i:99647 original size:19 final size:21
Alignment explanation
Indices: 99620--99689 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 21
99610 TGCAAAAATG
*
99620 GTATTGATACCATA-ATAG-A
1 GTATCGATACCATAGATAGTA
*
99639 GTATCGATACCATAGTGTAGTA
1 GTATCGATACCATAG-ATAGTA
* **
99661 GTATCGATACCGT-GATAGGG
1 GTATCGATACCATAGATAGTA
99681 GTATCGATA
1 GTATCGATA
99690 TAAGGATGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
19 13 0.31
20 12 0.29
21 4 0.10
22 13 0.31
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (21 bp):
GTATCGATACCATAGATAGTA
Found at i:100676 original size:2 final size:2
Alignment explanation
Indices: 100669--100721 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
100659 ACCATAAAAG
100669 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100711 TA TA TA TA TA T
1 TA TA TA TA TA T
100722 CTTTCTGACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:102535 original size:45 final size:45
Alignment explanation
Indices: 102449--102850 Score: 493
Period size: 45 Copynumber: 8.9 Consensus size: 45
102439 CATACTTATT
* * *
102449 ATGCA-CCATTATGCATTTTCATTTATGGCATTCTTTCATGCCAATA
1 ATGCACCCA-TATGCA-TTTCAATTATGGCATCCTTTCATGCCGATA
* *
102495 ATGCACCCATATGCATTTTAATCATGGCATCCTTTCATGCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
*
102540 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGTCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
* * * * *
102585 ATGCACCCATATGCATTTCAATTATGTCATCATTTTATCCCAATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
* *
102630 ATGCACCCATATGCATTTCAATTATGACATTCTTTCATGCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
* * *
102675 ATGTACCCATATGCATTTGAATTATGGCATCCTTTCATGTCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
* ** * *
102720 ATTCATACATATGCATTTCAATTATGGCATCCTTTTATGTCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
* * *
102765 ATGCACTCATATGCATTTTAATTATGGCATCCTTTCATGACGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
* * * * * *
102810 ATACA-CTATTATACATTTCATTTATGGTATCCATTCATGCC
1 ATGCACCCA-TATGCATTTCAATTATGGCATCCTTTCATGCC
102851 TTTTATACAA
Statistics
Matches: 308, Mismatches: 46, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
44 1 0.00
45 293 0.95
46 11 0.04
47 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.38
Consensus pattern (45 bp):
ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
Found at i:103027 original size:49 final size:49
Alignment explanation
Indices: 102974--103075 Score: 159
Period size: 49 Copynumber: 2.1 Consensus size: 49
102964 AATCTTTTAC
* * * *
102974 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTCTG
1 TCAAAGGCACTTAACCTTTCATCTAACTGGCATAACTGACACCTTTCTG
*
103023 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAACTGACACCTTTCTG
1 TCAAAGGCACTTAACCTTTCATCTAACTGGCATAACTGACACCTTTCTG
103072 TCAA
1 TCAA
103076 TGCACAGTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (49 bp):
TCAAAGGCACTTAACCTTTCATCTAACTGGCATAACTGACACCTTTCTG
Found at i:103221 original size:67 final size:67
Alignment explanation
Indices: 103023--103222 Score: 337
Period size: 67 Copynumber: 3.0 Consensus size: 67
103013 CATCTTTCTG
*
103023 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAACTGACACCTTTCTGTCAATGCACAGTTAGA
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAACTGACACCTTTCTGTCAATGCACAGTTAGG
*
103088 TC
66 CC
* * *
103090 TCAAAGGCACTTAGCCTTTCATCTAACTGGCTTAATTGACACCTTTCTATCAATGCACAGTTAGG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAACTGACACCTTTCTGTCAATGCACAGTTAGG
103155 CC
66 CC
* *
103157 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAACTGACACCTTTTTGTCAATGCACAATTAGG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAACTGACACCTTTCTGTCAATGCACAGTTAGG
103222 C
66 C
103223 ATTGTTTATG
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 123 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (67 bp):
TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAACTGACACCTTTCTGTCAATGCACAGTTAGG
CC
Found at i:103377 original size:57 final size:56
Alignment explanation
Indices: 103224--103403 Score: 182
Period size: 57 Copynumber: 3.1 Consensus size: 56
103214 CAATTAGGCA
* * * *
103224 TTGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAAATATAAGAAATTCGTAAT
1 TTGTTTATGAATTTCCGTATGGGAACTTTATGTGCAAAAAT-TAAGAAATTCATAAT
* * * *
103281 TTGTTTATAAATTTCCTTATGGGAAC-TGAGTGTGCAAAAAGTTAAGGAATTCATAAT
1 TTGTTTATGAATTTCCGTATGGGAACTTTA-TGTGCAAAAA-TTAAGAAATTCATAAT
** * * * *
103338 TTGTTTATGAATTTCCGTATAAGAACTTTATTTGTAAAAACTAAGAAATTATATGAAT
1 TTGTTTATGAATTTCCGTATGGGAACTTTATGTGCAAAAATTAAGAAATT-CAT-AAT
103396 TTGTTTAT
1 TTGTTTAT
103404 TGGTATTGTG
Statistics
Matches: 100, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
56 9 0.09
57 77 0.77
58 14 0.14
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (56 bp):
TTGTTTATGAATTTCCGTATGGGAACTTTATGTGCAAAAATTAAGAAATTCATAAT
Found at i:103686 original size:41 final size:41
Alignment explanation
Indices: 103640--103720 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
103630 GCCTAACCCT
** *
103640 GCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAC
1 GCATTGACAGAAAAATATCAATTATGCCAGTTAGATGAAAC
*
103681 GCATTGATAGAAAAATATCAATTATGCCAGTTAGATGAAA
1 GCATTGACAGAAAAATATCAATTATGCCAGTTAGATGAAA
103721 GGCTAAGTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (41 bp):
GCATTGACAGAAAAATATCAATTATGCCAGTTAGATGAAAC
Found at i:103762 original size:108 final size:108
Alignment explanation
Indices: 103590--103787 Score: 342
Period size: 108 Copynumber: 1.8 Consensus size: 108
103580 CAGAAAGGTG
* *
103590 TCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGATGCCTAACCCTGCATTGACAGAAAGG
1 TCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACCCTGAATTGACAGAAAGG
103655 TGTCAATTATGCCAGTTAGATGAAACGCATTGATAGAAAAATA
66 TGTCAATTATGCCAGTTAGATGAAACGCATTGATAGAAAAATA
** *
103698 TCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGAATTGACATAAAGG
1 TCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACCCTGAATTGACAGAAAGG
*
103763 TGTCAATTATGTCAGTTAGATGAAA
66 TGTCAATTATGCCAGTTAGATGAAA
103788 GGCTAAGTGC
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 84 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (108 bp):
TCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACCCTGAATTGACAGAAAGG
TGTCAATTATGCCAGTTAGATGAAACGCATTGATAGAAAAATA
Found at i:103922 original size:68 final size:67
Alignment explanation
Indices: 103698--103939 Score: 322
Period size: 67 Copynumber: 3.6 Consensus size: 67
103688 TAGAAAAATA
* * *
103698 TCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGAATTGACATAAAGG
1 TCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGAGGCCTAACTGTGCATTGACAGAAAGG
103763 TG
66 TG
* * * *
103765 TCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGCATTGACAGAAATG
1 TCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGAGGCCTAACTGTGCATTGACAGAAAGG
103830 TG
66 TG
* * * * * *
103832 TCAATTATGCCAGTTAGATGAAAGGATAACTACCTTTGAGACCTAGCTCTGCATTTGATAGAAAG
1 TCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGAGGCCTAACTGTGCA-TTGACAGAAAG
103897 GTG
65 GTG
* * * *
103900 CCAATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAG
1 TCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGAG
103940 TAAAAGATTA
Statistics
Matches: 155, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
67 107 0.69
68 48 0.31
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (67 bp):
TCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGAGGCCTAACTGTGCATTGACAGAAAGG
TG
Found at i:104114 original size:45 final size:45
Alignment explanation
Indices: 104064--104553 Score: 678
Period size: 45 Copynumber: 10.9 Consensus size: 45
104054 ATATAAAAGA
* * * * *
104064 CATGAAAGGATGCCATAAATGAAATGTATAAT-AGTGTATTATCGG
1 CATGAAATGATGCCATAATTGAAATGCAT-ATGGGTGCATTATCGG
* *
104109 CATGAAAGGATGCCATAATTGAAATGCATATGGGTGTATTATCGG
1 CATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
*
104154 CATAAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
1 CATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
*
104199 CATGAAATGATGCCATAATTGAAATGCATATGGGTGTATTATCGG
1 CATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
* * * *
104244 TATGAAAGGATGCCATAATTGAAATCCATATGGGTGCCTTATCGG
1 CATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
* *
104289 CATTAAATGATGTCATAATTGAAATGCATATGGGTGCATTATCGG
1 CATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
104334 CATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
1 CATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
* * *
104379 CATGAAAGGATGTCATAATTGAAATGCATATGGGTGCATTATCAG
1 CATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
** * *
104424 CATGAAATGATGTAATAATTGAAATACATATAGGTGCATTATCGG
1 CATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
* * * *
104469 CATGAAAGGATGCCATGATTGAAATGCATATAGGTGCATTATTGG
1 CATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
* * *
104514 CATGAAATAATGTCATAAATGAAAATGCATAAT-GGTGCAT
1 CATGAAATGATGCCATAATTG-AAATGCAT-ATGGGTGCAT
104554 AATAAGTATG
Statistics
Matches: 402, Mismatches: 40, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
44 2 0.00
45 383 0.95
46 15 0.04
47 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (45 bp):
CATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTATCGG
Found at i:107442 original size:57 final size:58
Alignment explanation
Indices: 107352--107500 Score: 203
Period size: 57 Copynumber: 2.6 Consensus size: 58
107342 ACAGTCAACT
* * ** **
107352 ATTACGAAAATAACACCTTTTTTTAAAATAATTACA-AAAATATCACTTTTTTGAAATA
1 ATTACCAAAATATCA-CTTTTTTCGAAATAATTACACAAAATATCACTTTTTCAAAATA
107410 ATTACCAAAATATCACTTTTTTCGAAATAATTA-ACAAAATATCACTTTTTCAAAATA
1 ATTACCAAAATATCACTTTTTTCGAAATAATTACACAAAATATCACTTTTTCAAAATA
* *
107467 ATTACCAAAATATCATTTTTTTCGAAATATTTAC
1 ATTACCAAAATATCACTTTTTTCGAAATAATTAC
107501 GAAACTAACA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
56 1 0.01
57 67 0.83
58 13 0.16
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (58 bp):
ATTACCAAAATATCACTTTTTTCGAAATAATTACACAAAATATCACTTTTTCAAAATA
Found at i:107500 original size:29 final size:29
Alignment explanation
Indices: 107352--107500 Score: 194
Period size: 28 Copynumber: 5.2 Consensus size: 29
107342 ACAGTCAACT
* * **
107352 ATTACGAAAATAACACCTTTTTTTAAAATA
1 ATTACCAAAATATCA-CTTTTTTCGAAATA
*
107382 ATTACAAAAATATCACTTTTTT-GAAATA
1 ATTACCAAAATATCACTTTTTTCGAAATA
107410 ATTACCAAAATATCACTTTTTTCGAAATA
1 ATTACCAAAATATCACTTTTTTCGAAATA
* *
107439 ATTAACAAAATATCAC-TTTTTCAAAATA
1 ATTACCAAAATATCACTTTTTTCGAAATA
*
107467 ATTACCAAAATATCATTTTTTTCGAAATA
1 ATTACCAAAATATCACTTTTTTCGAAATA
*
107496 TTTAC
1 ATTAC
107501 GAAACTAACA
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
28 51 0.48
29 43 0.40
30 13 0.12
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (29 bp):
ATTACCAAAATATCACTTTTTTCGAAATA
Found at i:107527 original size:29 final size:27
Alignment explanation
Indices: 107492--107586 Score: 118
Period size: 30 Copynumber: 3.3 Consensus size: 27
107482 TTTTTTTCGA
*
107492 AATATTTACGAAACTAACACCTTCTTAAC
1 AATATTTACGAAACTAACA--TTTTTAAC
* *
107521 AGTATTTACGAAACTAACATTTTTTTTAAT
1 AATATTTACGAAACTAACA---TTTTTAAC
107551 AATATTTACGAAACTAACATTTTTAAC
1 AATATTTACGAAACTAACATTTTTAAC
107578 AATATTTAC
1 AATATTTAC
107587 AAAAATACCA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 16 0.28
29 18 0.31
30 24 0.41
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (27 bp):
AATATTTACGAAACTAACATTTTTAAC
Found at i:108159 original size:20 final size:20
Alignment explanation
Indices: 108134--108185 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
108124 CACTTCATTT
108134 TATTTTATTCT-TAGTGCTAA
1 TATTTTATT-TATAGTGCTAA
*
108154 TATTTTATTTATAGTGCTAT
1 TATTTTATTTATAGTGCTAA
*
108174 TAATTT-TTTATA
1 TATTTTATTTATA
108186 TTATATTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.60
Consensus pattern (20 bp):
TATTTTATTTATAGTGCTAA
Found at i:111644 original size:28 final size:28
Alignment explanation
Indices: 111612--111739 Score: 195
Period size: 28 Copynumber: 4.6 Consensus size: 28
111602 AAATAACAAT
* *
111612 TTTTTTTAAATAATTACAAAAATATCAC
1 TTTTTTGAAATAATTACCAAAATATCAC
*
111640 TTTTTCGAAATAATTACCAAAATATCAC
1 TTTTTTGAAATAATTACCAAAATATCAC
111668 TTTTTTGAAATAATTACCAAAATATCAC
1 TTTTTTGAAATAATTACCAAAATATCAC
**
111696 TTTTTCAAAATAATTACCAAAATATCA-
1 TTTTTTGAAATAATTACCAAAATATCAC
*
111723 TTTTTTGAAATATTTAC
1 TTTTTTGAAATAATTAC
111740 GAAACTAACA
Statistics
Matches: 91, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 14 0.15
28 77 0.85
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (28 bp):
TTTTTTGAAATAATTACCAAAATATCAC
Found at i:111784 original size:84 final size:82
Alignment explanation
Indices: 111595--111831 Score: 206
Period size: 84 Copynumber: 2.8 Consensus size: 82
111585 ACAGTCAACT
* * *
111595 ATTACGAAAATAACAATTTTTTTTAAATAATTACAAAAATATCACTTTTTCGAAATAATTACCAA
1 ATTACGAAAATAAC-A-TTTTTTAAAATAATTACAAAAATATCA-TTTTTTGAAATATTTACCAA
* * *
111660 AATATCACTTTTTTGAAATA
63 AATAACACCTTCTTGAAATA
* * * * * *
111680 ATTACCAAAATATCACTTTTTCAAAATAATTACCAAAATATCATTTTTTGAAATATTTACGAAAC
1 ATTACGAAAATAACA-TTTTTTAAAATAATTACAAAAATATCATTTTTTGAAATATTTACCAAAA
111745 TAACACCTTCTT-AACAGTA
65 TAACACCTTCTTGAA-A-TA
* * * * ** * * *
111764 TTTACGAAACTAACATTTTTTAATAATATTTACGAAGCTAACATTTTTTAACAATATTTACAAAA
1 ATTACGAAAATAACATTTTTTAA-AATAATTACAAAAATATCATTTTTTGA-AATATTTACCAAA
111829 ATA
64 ATA
111832 CCACTATAAC
Statistics
Matches: 122, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
82 2 0.02
83 35 0.29
84 59 0.48
85 26 0.21
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.38
Consensus pattern (82 bp):
ATTACGAAAATAACATTTTTTAAAATAATTACAAAAATATCATTTTTTGAAATATTTACCAAAAT
AACACCTTCTTGAAATA
Found at i:111795 original size:28 final size:28
Alignment explanation
Indices: 111721--111824 Score: 138
Period size: 28 Copynumber: 3.7 Consensus size: 28
111711 ACCAAAATAT
*
111721 CATTTTTTGA-AATATTTACGAAACTAA
1 CATTTTTTAACAATATTTACGAAACTAA
* * *
111748 CACCTTCTTAACAGTATTTACGAAACTAA
1 CA-TTTTTTAACAATATTTACGAAACTAA
* *
111777 CATTTTTTAATAATATTTACGAAGCTAA
1 CATTTTTTAACAATATTTACGAAACTAA
111805 CATTTTTTAACAATATTTAC
1 CATTTTTTAACAATATTTAC
111825 AAAAATACCA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 2 0.03
28 45 0.69
29 18 0.28
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (28 bp):
CATTTTTTAACAATATTTACGAAACTAA
Found at i:112398 original size:20 final size:20
Alignment explanation
Indices: 112373--112425 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
112363 CACTTCATTT
112373 TATTTTATTCT-TAGTGCTAA
1 TATTTTATT-TATAGTGCTAA
*
112393 TATTTTATTTATAGTGCTAT
1 TATTTTATTTATAGTGCTAA
112413 TAATTTT-TTTATA
1 T-ATTTTATTTATA
112426 TTATATTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 24 0.80
21 5 0.17
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (20 bp):
TATTTTATTTATAGTGCTAA
Found at i:113638 original size:2 final size:2
Alignment explanation
Indices: 113631--113685 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
113621 TGTCAATAAG
113631 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113673 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
113686 ACCCTATTTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120571 original size:24 final size:24
Alignment explanation
Indices: 120512--120574 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 24
120502 ATTTTTCGGA
*
120512 TAAAAAACCGATTTTTTATCCGGTT
1 TAAAAAACCGGTTTTTTATCCGG-T
120537 TGAAAAAAACCGGTTTTTTATCCGG-
1 T--AAAAAACCGGTTTTTTATCCGGT
120562 TAAAACAACCGGT
1 TAAAA-AACCGGT
120575 CGTTCAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
23 4 0.12
24 7 0.21
25 2 0.06
27 21 0.62
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (24 bp):
TAAAAAACCGGTTTTTTATCCGGT
Found at i:121003 original size:3 final size:3
Alignment explanation
Indices: 120995--121030 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
120985 ATATAGACAT
*
120995 TAA TAA TAA TAA TAA TAA TAA TAA TTAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA
121031 CCCCATTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:124605 original size:24 final size:24
Alignment explanation
Indices: 124573--124626 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
124563 AATTCTAGGA
*
124573 AAACAATAACAAAATAAATTCATC
1 AAACCATAACAAAATAAATTCATC
124597 AAACCATAACAAAATAAATTCATC
1 AAACCATAACAAAATAAATTCATC
124621 AAACCA
1 AAACCA
124627 ACCAACAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.61, C:0.20, G:0.00, T:0.19
Consensus pattern (24 bp):
AAACCATAACAAAATAAATTCATC
Found at i:125392 original size:24 final size:24
Alignment explanation
Indices: 125365--125433 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
125355 GAGGTGTCCT
125365 TCAAGCTCAATAGAAAGTGTTCTC
1 TCAAGCTCAATAGAAAGTGTTCTC
* *
125389 TCAAGCTCGATAGAAAGTGTTCTT
1 TCAAGCTCAATAGAAAGTGTTCTC
* *
125413 TCAAGATTAATAGAAAGTGTT
1 TCAAGCTCAATAGAAAGTGTT
125434 TTTTTCACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (24 bp):
TCAAGCTCAATAGAAAGTGTTCTC
Found at i:126504 original size:21 final size:21
Alignment explanation
Indices: 126467--126510 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
126457 ACTTTCTTAG
*
126467 CATTATCATATATATTATTAT
1 CATTATCATATATATTATCAT
*
126488 CATTATC-TCTATCATTATCAT
1 CATTATCATATAT-ATTATCAT
126509 CA
1 CA
126511 AATTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (21 bp):
CATTATCATATATATTATCAT
Found at i:126774 original size:23 final size:23
Alignment explanation
Indices: 126743--126834 Score: 121
Period size: 23 Copynumber: 4.0 Consensus size: 23
126733 CACCACAGCT
*
126743 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
*
126766 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
126789 CGTAGGATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
* *
126812 CGTAAAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
126835 TATAATGTCC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:136072 original size:3 final size:3
Alignment explanation
Indices: 136060--136106 Score: 69
Period size: 3 Copynumber: 15.3 Consensus size: 3
136050 TCTACAAAAA
136060 TAT T-T TAT TAT TATT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
136106 T
1 T
136107 TTTGCAGGCC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:136082 original size:13 final size:13
Alignment explanation
Indices: 136067--136107 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
136057 AAATATTTTA
136067 TTATTATTTATTA-
1 TTATTA-TTATTAT
136080 TTATTATTATTAT
1 TTATTATTATTAT
136093 TTATTATTATTAT
1 TTATTATTATTAT
136106 TT
1 TT
136108 TTGCAGGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:136088 original size:19 final size:19
Alignment explanation
Indices: 136060--136106 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
136050 TCTACAAAAA
136060 TATT-TTATTATTATTTAT
1 TATTATTATTATTATTTAT
136078 TATTATTATTATTATTTAT
1 TATTATTATTATTATTTAT
136097 TATTATTATT
1 TATTATTATT
136107 TTTGCAGGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTATTATTATTATTTAT
Found at i:136804 original size:25 final size:23
Alignment explanation
Indices: 136776--136835 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
136766 AATTTTAGCA
136776 TTTTTTATTATTATT-TATTTTAT
1 TTTTTTATTATTATTAT-TTTTAT
*
136799 GTTTTTTACTTCTTATTATTTTTAT
1 -TTTTTTA-TTATTATTATTTTTAT
*
136824 TTTATT-TTATTA
1 TTTTTTATTATTA
136836 CTTTTAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 5 0.16
24 12 0.39
25 13 0.42
26 1 0.03
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTTATTATTATTATTTTTAT
Found at i:136814 original size:28 final size:28
Alignment explanation
Indices: 136783--136838 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
136773 GCATTTTTTA
*
136783 TTATTA-TTTATTTTATGTTTTTTACTTC
1 TTATTATTTTATTTTAT-TTTATTACTTC
136811 TTATTATTTTTATTTTATTTTATTACTT
1 TTATTA-TTTTATTTTATTTTATTACTT
136839 TTAGAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 6 0.24
29 9 0.36
30 10 0.40
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (28 bp):
TTATTATTTTATTTTATTTTATTACTTC
Found at i:136912 original size:11 final size:11
Alignment explanation
Indices: 136878--136925 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 11
136868 CATTTGATTC
136878 ATTTAATATTAT
1 ATTTAATATT-T
136890 ATATATATATATTT
1 AT-T-TA-ATATTT
136904 ATTTAATATTT
1 ATTTAATATTT
*
136915 ATTTATTATTT
1 ATTTAATATTT
136926 CTTATCTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 16 0.50
12 4 0.12
13 2 0.06
14 5 0.16
15 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTAATATTT
Found at i:139711 original size:95 final size:95
Alignment explanation
Indices: 139600--139800 Score: 341
Period size: 95 Copynumber: 2.1 Consensus size: 95
139590 ATATTATAAT
*
139600 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCC-GACTTT
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTATAAAGCAATTGGTTAAACGCCCCAG-CTTT
139664 ATGGATAAGATTCAGCTAGCCTGATAAAGGTG
64 ATGGATAAGATTCAGCTAGCCTGATAAAGGTG
* *
139696 ATTATAATATACAATAAAGCTTGAGTTGTCTCTATAGAGCAATTGGTTAAACGCCCCAGCTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTATAAAGCAATTGGTTAAACGCCCCAGCTTTAT
*
139761 GGATAATATTCAGCTAGCCTGATAAAGGTG
66 GGATAAGATTCAGCTAGCCTGATAAAGGTG
139791 ATTATAATAT
1 ATTATAATAT
139801 TAAGCTGTCC
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
95 93 0.93
96 7 0.07
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTATAAAGCAATTGGTTAAACGCCCCAGCTTTAT
GGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:141495 original size:66 final size:66
Alignment explanation
Indices: 141409--141624 Score: 193
Period size: 66 Copynumber: 3.4 Consensus size: 66
141399 CTTTAGATTG
141409 GATTTCAACTTCACGACGAAGGATATTCAATTCAAGGATCAACTTCACAACAAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATTCAATTCAAGGATCAACTTCACAACAAAGGGGCCATCCA
141474 C
66 C
* * * * ** * ***
141475 GATTTCAACTTCATGACGAAGGATA-TC-GTGCCCATCAGCAACATTCATC--TTTA---G--AT
1 GATTTCAACTTCACGACGAAGGATATTCAAT-TCAAGGATCAAC-TTCA-CAACAAAGGGGCCAT
*
141531 -TA-
63 CCAC
* * *
141533 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATTCAATTCAAGGATCAACTTCACAACAAAGGGGCCATCCA
141598 C
66 C
*
141599 GATTTTAACTTCACGACGAAGGATAT
1 GATTTCAACTTCACGACGAAGGATAT
141625 CGTGCCACCA
Statistics
Matches: 111, Mismatches: 25, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
57 1 0.01
58 28 0.25
59 9 0.08
60 3 0.03
62 2 0.02
64 3 0.03
65 11 0.10
66 53 0.48
67 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (66 bp):
GATTTCAACTTCACGACGAAGGATATTCAATTCAAGGATCAACTTCACAACAAAGGGGCCATCCA
C
Found at i:142085 original size:124 final size:124
Alignment explanation
Indices: 141015--142074 Score: 1636
Period size: 124 Copynumber: 8.6 Consensus size: 124
141005 TTGAACTCGA
*
141015 AGCAACATTCATCATTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * * * * * *
141080 TTTACAACGAATGGGTCATTCATGATTTCAACTTCACGACGAAGGATATCGGGCCTACC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
* * *
141139 AGCAACATTCATATTTAGATTGGATTTCAACTTCACGATGAAGGATATTCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * * * *
141204 TTCATAACGAAGGGGTCATCTACGATTTCAACTTCACAATGAAGGATATCGTGCCCACC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
*
141263 AGCAACATTCATCTTTAGATTGGAATTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * *
141328 TTCACAACGAAGGGGTCATCCACGATTTCAACTTCACGATGAAGGATATCGTGCTCACC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
* * * *
141387 AACAACAATCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATTCAATTCAAGGATCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * *
141452 TTCACAACAAAGGGGCCATCCACGATTTCAACTTCATGACGAAGGATATCGTGCCCATC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
*
141511 AGCAACATTCATCTTTAGATTAGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
*
141576 TTCACAACGAAGGGGCCATCCACGATTTTAACTTCACGACGAAGGATATCGTG-CCACC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
* * * *
141634 AACAACATTCATCTTTCGATTGGATTTCAAATTCACAACGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * * * *
141699 TTCACAACGAAGGGGCCATCCACGATTTCAATTTTATGACGACGGATATCGTACCCACC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
* *
141758 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACTATGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* *
141823 TTCACAACGAAGAGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGTCCACC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
*
141882 AGCAACATTCATCTTTAGATTGGATTTTAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * * *
141947 TTCACAATGAAGGGGTCATCCATGATTTCAACTTCACGACGAAGGACATCGTGCCCACC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
* * * ** *
142006 AGCAACATCCATCTTTAGATTGGATTTCAACTTCACAACAAATTATATCCAATTCAAAGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
142071 TTCA
66 TTCA
142075 TAGTGAAGGG
Statistics
Matches: 854, Mismatches: 81, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
123 111 0.13
124 743 0.87
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (124 bp):
AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACC
Found at i:142086 original size:495 final size:496
Alignment explanation
Indices: 141015--142074 Score: 1647
Period size: 495 Copynumber: 2.1 Consensus size: 496
141005 TTGAACTCGA
*
141015 AGCAACATTCATCATTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* * * * * *
141080 TTTACAACGAATGGGTCATTCATGATTTCAACTTCACGACGAAGGATATCGGGCCTACCAGCAAC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGGGCCTACCAACAAC
* * * * *
141145 ATTCATATTTAGATTGGATTTCAACTTCACGATGAAGGATATTCAATTCAAGGCTCAACTTCATA
131 ATTCATATTTAGATTGGATTTCAAATTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACA
* * * *
141210 ACGAAGGGGTCATCTACGATTTCAACTTCACAATGAAGGATATCGTGCCCACCAGCAACATTCAT
196 ACGAAGGGGCCATCCACGATTTCAACTTCACAACGAAGGATATCGTACCCACCAGCAACATTCAT
141275 CTTTAGATTGGAATTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAG
261 CTTTAGATTGGAATTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAG
* * *
141340 GGGTCATCCACGATTTCAACTTCACGATGAAGGATATCGTGCTCACCAACAACAATCATCTTTAG
326 AGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCTCACCAACAACAATCATCTTTAG
*
141405 ATTGGATTTCAACTTCACGACGAAGGATATTCAATTCAAGGATCAACTTCACAACAAAGGGGCCA
391 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGATCAACTTCACAACAAAGGGGCCA
* * *
141470 TCCACGATTTCAACTTCATGACGAAGGATATCGTGCCCATC
456 TCCACGATTTCAACTTCACGACGAAGGACATCGTGCCCACC
*
141511 AGCAACATTCATCTTTAGATTAGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
* *
141576 TTCACAACGAAGGGGCCATCCACGATTTTAACTTCACGACGAAGGATATCGTGCC-ACCAACAAC
66 TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGGGCCTACCAACAAC
* *
141640 ATTCATCTTTCGATTGGATTTCAAATTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACA
131 ATTCATATTTAGATTGGATTTCAAATTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACA
* * ** *
141705 ACGAAGGGGCCATCCACGATTTCAATTTTATGACGACGGATATCGTACCCACCAGCAACATTCAT
196 ACGAAGGGGCCATCCACGATTTCAACTTCACAACGAAGGATATCGTACCCACCAGCAACATTCAT
* * *
141770 CTTTAGATTGGATTTCAACTTCACTATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAG
261 CTTTAGATTGGAATTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAG
* *
141835 AGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTG-TCCACCAGCAACATTCATCTTTA
326 AGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCT-CACCAACAACAATCATCTTTA
* * ** *
141899 GATTGGATTTTAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAATGAAGGGGTC
390 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGATCAACTTCACAACAAAGGGGCC
*
141964 ATCCATGATTTCAACTTCACGACGAAGGACATCGTGCCCACC
455 ATCCACGATTTCAACTTCACGACGAAGGACATCGTGCCCACC
* * * ** *
142006 AGCAACATCCATCTTTAGATTGGATTTCAACTTCACAACAAATTATATCCAATTCAAAGCTCAAC
1 AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
142071 TTCA
66 TTCA
142075 TAGTGAAGGG
Statistics
Matches: 512, Mismatches: 51, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
494 1 0.00
495 400 0.78
496 111 0.22
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (496 bp):
AGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC
TTCACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGGGCCTACCAACAAC
ATTCATATTTAGATTGGATTTCAAATTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACA
ACGAAGGGGCCATCCACGATTTCAACTTCACAACGAAGGATATCGTACCCACCAGCAACATTCAT
CTTTAGATTGGAATTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAG
AGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCTCACCAACAACAATCATCTTTAG
ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGATCAACTTCACAACAAAGGGGCCA
TCCACGATTTCAACTTCACGACGAAGGACATCGTGCCCACC
Found at i:143028 original size:3 final size:3
Alignment explanation
Indices: 143016--143068 Score: 65
Period size: 3 Copynumber: 17.3 Consensus size: 3
143006 TCTACAAAAA
143016 TAT T-T TAT TAT TATT TATT TAT TCAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TA-T TAT T-AT TAT TAT TAT TAT TAT TAT TAT
143063 T-T TAT T
1 TAT TAT T
143069 TTTGTAAGCC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.09
3 32 0.70
4 10 0.22
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:143765 original size:25 final size:23
Alignment explanation
Indices: 143737--143796 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
143727 AATTTTAGCA
143737 TTTTTTATTATTATT-TATTTTAT
1 TTTTTTATTATTATTAT-TTTTAT
*
143760 GTTTTTTACTTCTTATTATTTTTAT
1 -TTTTTTA-TTATTATTATTTTTAT
*
143785 TTTATT-TTATTA
1 TTTTTTATTATTA
143797 CTTTTAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 5 0.16
24 12 0.39
25 13 0.42
26 1 0.03
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTTATTATTATTATTTTTAT
Found at i:143767 original size:34 final size:30
Alignment explanation
Indices: 143741--143799 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
143731 TTAGCATTTT
143741 TTATTATTATTTATTTTATGTTTTTTACTTC
1 TTATTATT-TTTATTTTATGTTTTTTACTTC
*
143772 TTATTATTTTTATTTTAT-TTTATTACTT
1 TTATTATTTTTATTTTATGTTTTTTACTT
143800 TTAGAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 9 0.33
30 10 0.37
31 8 0.30
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (30 bp):
TTATTATTTTTATTTTATGTTTTTTACTTC
Found at i:143876 original size:11 final size:11
Alignment explanation
Indices: 143862--143888 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
143852 ATATATATAT
143862 TATTTATTTAA
1 TATTTATTTAA
143873 TATTTATTTAA
1 TATTTATTTAA
143884 TATTT
1 TATTT
143889 CTTATTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:144526 original size:23 final size:21
Alignment explanation
Indices: 144488--144532 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
144478 GCTATATTTT
*
144488 TTATTTTTTTATAATAAAAAA
1 TTATTTTTTTAAAATAAAAAA
144509 TTATTTTTTTAAAAAATAAAAAA
1 TTATTTTTTT--AAAATAAAAAA
144532 T
1 T
144533 AATAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
23 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATTTTTTTAAAATAAAAAA
Found at i:144529 original size:21 final size:21
Alignment explanation
Indices: 144488--144530 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
144478 GCTATATTTT
*
144488 TTATTTTTTTATAATAAAAAA
1 TTATTTTTTTATAAAAAAAAA
*
144509 TTATTTTTTTAAAAAATAAAAA
1 TTATTTTTTTATAAAA-AAAAA
144531 ATAATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATTTTTTTATAAAAAAAAA
Found at i:146616 original size:84 final size:83
Alignment explanation
Indices: 146427--146602 Score: 227
Period size: 84 Copynumber: 2.1 Consensus size: 83
146417 TAATTTTATC
* *
146427 TTTAGGAATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTAGGATATTATTTTTAATA
1 TTTAGGAATTTTAGTTTAAATAATTTTAAGTATTTTAATTAGGATTTAAGATATTATTTTTAATA
*
146492 TATTTTATCTTATCTTTGT
66 TA-TTTATCTTAACTTTGT
* * *
146511 TTTAGGAATTTTAGTCTAAATAATTTTAAGTGTTTTAATTATGATTTAAGATATTA-TTTT-ATG
1 TTTAGGAATTTTAGTTTAAATAATTTTAAGTATTTTAATTAGGATTTAAGATATTATTTTTAAT-
146574 A-A-TTATCTTTAAC-TTGTT
65 ATATTTATC-TTAACTTTG-T
146592 TTTAGGAATTT
1 TTTAGGAATTT
146603 GAAGGTTATA
Statistics
Matches: 83, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
80 8 0.10
81 16 0.19
82 3 0.04
83 5 0.06
84 51 0.61
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.55
Consensus pattern (83 bp):
TTTAGGAATTTTAGTTTAAATAATTTTAAGTATTTTAATTAGGATTTAAGATATTATTTTTAATA
TATTTATCTTAACTTTGT
Found at i:147103 original size:18 final size:18
Alignment explanation
Indices: 147080--147122 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
147070 CTTTAGATTA
*
147080 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
147098 TTTATTTAATTATTATCT
1 TTTATTTAATTATTATCT
147116 TTTATTT
1 TTTATTT
147123 TAAAAATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:147244 original size:31 final size:31
Alignment explanation
Indices: 147209--147315 Score: 83
Period size: 33 Copynumber: 3.1 Consensus size: 31
147199 TTATTATTAT
147209 TATTTATTTTTTTTTCTTTTAACATTTTTTA
1 TATTTATTTTTTTTTCTTTTAACATTTTTTA
147240 TATTTTATTATTTTTCTT-TTTTGAA-ATTTAATATTTTA
1 TA-TTTATT-TTTTT-TTCTTTT-AACA--T--T-TTTTA
147278 TTCATTTATTTTATTTTTTCTTTTAACATTTTTTA
1 -T-ATTTA-TTT-TTTTTTCTTTTAACATTTTTTA
147313 TAT
1 TAT
147316 AACATTTTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 28
0.69 0.00 0.31
Matches are distributed among these distances:
31 2 0.03
32 6 0.10
33 12 0.20
34 5 0.08
35 6 0.10
36 1 0.02
37 1 0.02
38 6 0.10
39 10 0.16
40 12 0.20
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (31 bp):
TATTTATTTTTTTTTCTTTTAACATTTTTTA
Found at i:147261 original size:16 final size:15
Alignment explanation
Indices: 147162--147261 Score: 51
Period size: 17 Copynumber: 6.1 Consensus size: 15
147152 TCTTTACTAC
147162 TATTATTTATTATTTTAT
1 TATTATTT-TT-TTTT-T
147180 TA-TATTTTCCTTTTATT
1 TATTATTTT--TTTT-TT
* *
147197 TATTATTATTATTATT
1 TATTATT-TTTTTTTT
147213 TATT-TTTTTTTCTTT
1 TATTATTTTTTT-TTT
**
147228 TAACATTTTTTATATTT
1 TATTATTTTTT-T-TTT
147245 TATTATTTTTCTTTTT
1 TATTATTTTT-TTTTT
147261 T
1 T
147262 GAAATTTAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 20
0.69 0.10 0.22
Matches are distributed among these distances:
14 4 0.06
15 6 0.09
16 17 0.27
17 26 0.41
18 9 0.14
19 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTATTTTTTTTTT
Found at i:147327 original size:73 final size:71
Alignment explanation
Indices: 147194--147327 Score: 189
Period size: 73 Copynumber: 1.9 Consensus size: 71
147184 TTTTCCTTTT
* ***
147194 ATTTATTATTATTATTATTTATTTTTTTTTCTTTTAACATTTTTTATATTTTATTATTTTTCTTT
1 ATTTAATATTATTATTATTTATTTTTTTTTCTTTTAACATTTTTTATATAACATTATTTTTCTTT
147259 TTTGAA
66 TTTGAA
*
147265 ATTTAATATT-TTATTCATTTATTTTATTTTTTCTTTTAACATTTTTTATATAACATTTTTTTT
1 ATTTAATATTATTATT-ATTTA-TTT-TTTTTTCTTTTAACATTTTTTATATAACATTATTTTT
147328 TAAAATTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
70 5 0.09
71 14 0.25
72 3 0.05
73 33 0.60
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (71 bp):
ATTTAATATTATTATTATTTATTTTTTTTTCTTTTAACATTTTTTATATAACATTATTTTTCTTT
TTTGAA
Found at i:147337 original size:67 final size:69
Alignment explanation
Indices: 147194--147359 Score: 191
Period size: 67 Copynumber: 2.4 Consensus size: 69
147184 TTTTCCTTTT
* **
147194 ATTTATTATTATTATT-ATTTA-TTTTTTTTTCTTTTAACATTTTTTATATTTTATTATTTTTCT
1 ATTTAATATT-TTATTCATTTATTTTTTTTTTCTTTTAACATTTTTTATA--TTA-TACATTTCT
*
147257 TTTTTGAA
62 TTTTTAAA
147265 ATTTAATATTTTATTCATTTATTTTATTTTTTCTTTTAACATTTTTTATA-TA-ACATTT-TTTT
1 ATTTAATATTTTATTCATTTATTTT-TTTTTTCTTTTAACATTTTTTATATTATACATTTCTTTT
147327 TTAAA
65 TTAAA
*
147332 ATTTAATATTTCATTC-TTTGATTTTTTT
1 ATTTAATATTTTATTCATTT-ATTTTTTT
147360 AATTTAATTT
Statistics
Matches: 86, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
66 6 0.07
67 28 0.33
68 4 0.05
70 7 0.08
71 14 0.16
72 3 0.03
73 24 0.28
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.69
Consensus pattern (69 bp):
ATTTAATATTTTATTCATTTATTTTTTTTTTCTTTTAACATTTTTTATATTATACATTTCTTTTT
TAAA
Found at i:147474 original size:12 final size:12
Alignment explanation
Indices: 147457--147483 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
147447 GAATCGAGTC
147457 TTTAAATTTTAA
1 TTTAAATTTTAA
147469 TTTAAATTTTAA
1 TTTAAATTTTAA
147481 TTT
1 TTT
147484 TCGCAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAAATTTTAA
Found at i:154319 original size:23 final size:23
Alignment explanation
Indices: 154293--154339 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
154283 TCCTGAATCT
154293 AGGTACGGAAGAGGAAAGAAAGG
1 AGGTACGGAAGAGGAAAGAAAGG
154316 AGGTACGGAAGAGGAAAGAAAGG
1 AGGTACGGAAGAGGAAAGAAAGG
154339 A
1 A
154340 AGTCAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.43, T:0.04
Consensus pattern (23 bp):
AGGTACGGAAGAGGAAAGAAAGG
Found at i:157548 original size:44 final size:44
Alignment explanation
Indices: 157466--157549 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
157456 AATATTTTGC
* * *
157466 TTAGGGTGAAAACCCGAAAGGGCACCCTAAGTTGAAAAAAACAT
1 TTAGGGTGAAAACCCGAAAGGACACCCTAAATTAAAAAAAACAT
* * *
157510 TTAGGGTGAAAACCCGAAATGACGCCTTAAATTAAAAAAA
1 TTAGGGTGAAAACCCGAAAGGACACCCTAAATTAAAAAAA
157550 TGTGTGTCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (44 bp):
TTAGGGTGAAAACCCGAAAGGACACCCTAAATTAAAAAAAACAT
Found at i:160641 original size:25 final size:26
Alignment explanation
Indices: 160607--160657 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
160597 TTCGTATTTG
160607 CATGGATAAT-CATAATATCCAGCAC
1 CATGGATAATGCATAATATCCAGCAC
*
160632 CATGGATAATGCATAATATTCAGCAC
1 CATGGATAATGCATAATATCCAGCAC
160658 TATGCTTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (26 bp):
CATGGATAATGCATAATATCCAGCAC
Found at i:160675 original size:37 final size:37
Alignment explanation
Indices: 160634--160706 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
160624 TCCAGCACCA
*
160634 TGGATAATGCATAATATTCAGCACTATGCTTTCCCAG
1 TGGATAATGCATAATATTCAGCACCATGCTTTCCCAG
160671 TGGATAATGCATAATATTCAGCACCATGCTTTCCCA
1 TGGATAATGCATAATATTCAGCACCATGCTTTCCCA
160707 TGGTGGGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (37 bp):
TGGATAATGCATAATATTCAGCACCATGCTTTCCCAG
Found at i:162386 original size:32 final size:32
Alignment explanation
Indices: 162345--162412 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
162335 TGAAATGGTC
162345 TCTTTAAATTGTTGTTCATAGGTTAACCAGAG
1 TCTTTAAATTGTTGTTCATAGGTTAACCAGAG
* *
162377 TCTTTAAATTTTTGTTCATAGGTTAAGCAGAG
1 TCTTTAAATTGTTGTTCATAGGTTAACCAGAG
162409 TCTT
1 TCTT
162413 CACTCACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (32 bp):
TCTTTAAATTGTTGTTCATAGGTTAACCAGAG
Found at i:162474 original size:6 final size:6
Alignment explanation
Indices: 162463--162506 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
162453 AAAGGAGCGT
* * *
162463 GGAAAA GGAAAA GGAAAA GGAAAA GGAAAA AGATAT GGAAAA GG
1 GGAAAA GGAAAA GGAAAA GGAAAA GGAAAA GGAAAA GGAAAA GG
162507 GTCAAAAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.61, C:0.00, G:0.34, T:0.05
Consensus pattern (6 bp):
GGAAAA
Done.