Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009575.1 Hibiscus syriacus cultivar Beakdansim tig00116943_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: 458240
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:3162 original size:14 final size:14
Alignment explanation
Indices: 3143--3178 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3133 ATTGTTTAAT
3143 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
3157 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
3171 TGATTTGT
1 TGATTTGT
3179 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:3400 original size:33 final size:32
Alignment explanation
Indices: 3358--3484 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
3348 ATTAAATTCG
*
3358 CGTTGCGATTTTCATTTCGCATTGCGGTTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
3391 CGTTGCGATTTTCATTTCGCATTGTGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
3424 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
3457 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
3485 AGTAATTTTC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.94
35 2 0.02
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:3434 original size:66 final size:66
Alignment explanation
Indices: 3351--3480 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 66
3341 ACGCGAAATT
* *
3351 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGGTTCCCTCGTTGCGATTTTCATTTCGCATTGT
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGT
3416 G
66 G
*
3417 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTG
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
3481 CGATAGTAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGT
G
Found at i:5788 original size:12 final size:12
Alignment explanation
Indices: 5771--5795 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5761 TCTTCGGGGA
5771 CTTTTTCTTCTT
1 CTTTTTCTTCTT
5783 CTTTTTCTTCTT
1 CTTTTTCTTCTT
5795 C
1 C
5796 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:6004 original size:24 final size:24
Alignment explanation
Indices: 5970--6023 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
5960 CTGAAACATC
* *
5970 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
5994 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
6018 ATCAAA
1 ATCAAA
6024 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:7101 original size:20 final size:20
Alignment explanation
Indices: 7076--7136 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
7066 GACATTCATT
7076 TGGCTATCGCAACGCGAAAA
1 TGGCTATCGCAACGCGAAAA
7096 TGGCTATCGCAACGCGAAAA
1 TGGCTATCGCAACGCGAAAA
*
7116 TGGCTATCGCAACGAGAAAA
1 TGGCTATCGCAACGCGAAAA
7136 T
1 T
7137 CGCAATGCGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (20 bp):
TGGCTATCGCAACGCGAAAA
Found at i:7179 original size:33 final size:32
Alignment explanation
Indices: 7142--7211 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 32
7132 AAAATCGCAA
7142 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGA-TTTCTCGT
** ** **
7175 TGCGATTTTCATTTCGCATTGCGATTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTCTCGT
7207 TGCGA
1 TGCGA
7212 TAGCCATTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (32 bp):
TGCGAAATGAAAATCGCATTGCGATTTCTCGT
Found at i:7196 original size:19 final size:16
Alignment explanation
Indices: 7155--7205 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 16
7145 GAAATGAAAA
7155 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
7171 TCG--TTGCGATTTTC
1 TCGCATTGCGATTTTC
7185 ATTTCGCATTGCGA-TTTC
1 ---TCGCATTGCGATTTTC
7203 TCG
1 TCG
7206 TTGCGATAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
14 11 0.37
15 3 0.10
16 3 0.10
17 3 0.10
18 4 0.13
19 6 0.20
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.45
Consensus pattern (16 bp):
TCGCATTGCGATTTTC
Found at i:7208 original size:32 final size:32
Alignment explanation
Indices: 7155--7231 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
7145 GAAATGAAAA
***
7155 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGA-TTTCTCGTTGCGATAGCCATT
7188 TCGCATTGCGATTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTCTCGTTGCGATAGCCATT
*
7220 TCGCGTTGCGAT
1 TCGCATTGCGAT
7232 AGTGTTTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 29 0.73
33 11 0.28
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (32 bp):
TCGCATTGCGATTTCTCGTTGCGATAGCCATT
Found at i:7336 original size:14 final size:14
Alignment explanation
Indices: 7317--7353 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7307 CATCAATTAA
7317 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
7331 ACAAATCATCTTTT
1 ACAAATCAACATTT
7345 ACAAATCAA
1 ACAAATCAA
7354 TTAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:9253 original size:20 final size:19
Alignment explanation
Indices: 9218--9284 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
9208 GAAACTTAAA
*
9218 ATCGCAACGTGAAATGACT
1 ATCGCAACGCGAAATGACT
*
9237 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
9257 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
9276 ATCGCAACG
1 ATCGCAACG
9285 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 23 0.57
20 17 0.43
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:9333 original size:38 final size:33
Alignment explanation
Indices: 9257--9320 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
9247 GGAAATGGCT
*
9257 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
9290 ATCGCAACGCGAAATG-AAATCGCAACG-CAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
9321 CGCAAAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 4 0.13
32 11 0.37
33 15 0.50
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:9370 original size:14 final size:14
Alignment explanation
Indices: 9351--9408 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
9341 TTTCATTTCG
9351 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
9365 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
9381 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
9397 CGTTGCGATTTT
1 CGTTGCGATTTT
9409 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:9415 original size:33 final size:33
Alignment explanation
Indices: 9334--9424 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
9324 AAAAATCGCA
*
9334 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
9367 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
9399 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
9425 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:9443 original size:20 final size:19
Alignment explanation
Indices: 9409--9463 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
9399 TTGCGATTTT
*
9409 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
9428 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
9448 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
9464 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:9959 original size:18 final size:18
Alignment explanation
Indices: 9933--9977 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
9923 GTCGATCAGA
*
9933 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGAGAGG
*
9951 TGATAGCTCTGGGAGAGG
1 TGATGGCTCTGGGAGAGG
9969 TGATGGCTC
1 TGATGGCTC
9978 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.13, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGAGAGG
Found at i:11320 original size:20 final size:20
Alignment explanation
Indices: 11295--11337 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
11285 AATAGTTTCT
11295 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
11315 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
11335 GAA
1 GAA
11338 TTCGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:11634 original size:20 final size:22
Alignment explanation
Indices: 11609--11655 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
11599 TCTGAGAGAT
11609 GGAGAT-A-GACGGATTTCGCC
1 GGAGATGAGGACGGATTTCGCC
*
11629 GGAGATGAGGACGGATTTCGTC
1 GGAGATGAGGACGGATTTCGCC
11651 GGAGA
1 GGAGA
11656 CGGGTGAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.26, C:0.15, G:0.40, T:0.19
Consensus pattern (22 bp):
GGAGATGAGGACGGATTTCGCC
Found at i:11938 original size:21 final size:21
Alignment explanation
Indices: 11905--12025 Score: 65
Period size: 21 Copynumber: 5.9 Consensus size: 21
11895 TGCGAAAGTA
* * *
11905 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
11926 ATTATCGCATTGCGA-TAATC
1 AGTATCGCATTGCGATTTTTC
11946 AGTATCGCATTGCGA-TTTTC
1 AGTATCGCATTGCGATTTTTC
** *
11966 ACAATTCGCGTTGCGATTTACTT-
1 AGTA-TCGCATTGCGATTT--TTC
11989 A-T-TCGCATTGCGATTTTCTC
1 AGTATCGCATTGCGATTTT-TC
* *
12009 AAT-TCGCGTTGCGATTT
1 AGTATCGCATTGCGATTT
12026 ACTTATTCGC
Statistics
Matches: 78, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 35 0.45
21 36 0.46
22 2 0.03
23 1 0.01
24 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:11950 original size:41 final size:41
Alignment explanation
Indices: 11827--11964 Score: 109
Period size: 41 Copynumber: 3.4 Consensus size: 41
11817 CGCTTTGAAA
* * * * * *
11827 ATCGCATTGCGATTATGTATTATCGCGTTACGAAAGTCAGA
1 ATCGCATTGCGATTTTTTATTATCGCATTGCGAAAGTAAGT
* *** * * *
11868 ATCGCGTTGCGA-AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTTTATTATCGCATTGCGAAAGTAAGT
* * *
11908 ATCTCGTTGCGATTTTTTATTATCGCATTGCGATAA-TCAGT
1 ATCGCATTGCGATTTTTTATTATCGCATTGCGA-AAGTAAGT
11949 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
11965 CACAATTCGC
Statistics
Matches: 76, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
40 31 0.41
41 43 0.57
42 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTTTTTATTATCGCATTGCGAAAGTAAGT
Found at i:11953 original size:20 final size:21
Alignment explanation
Indices: 11847--11961 Score: 103
Period size: 20 Copynumber: 5.7 Consensus size: 21
11837 GATTATGTAT
*
11847 TATCGCGTTACGA-AAGTCAG
1 TATCGCGTTGCGATAAGTCAG
*
11867 AATCGCGTTGCGA-AAGTCAG
1 TATCGCGTTGCGATAAGTCAG
*
11887 TATCGCGTTGCGA-AAGTAAG
1 TATCGCGTTGCGATAAGTCAG
* *** * *
11907 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAAGTCAG
*
11928 TATCGCATTGCGATAA-TCAG
1 TATCGCGTTGCGATAAGTCAG
*
11948 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
11962 TTTCACAATT
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
20 64 0.82
21 14 0.18
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (21 bp):
TATCGCGTTGCGATAAGTCAG
Found at i:11980 original size:41 final size:41
Alignment explanation
Indices: 11950--12042 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
11940 ATAATCAGTA
* *
11950 TCGCATTGCGATTTTCACAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCACAATTCGCGTTGCGATTCACGTAT
* * *
11991 TCGCATTGCGATTTTCTCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCACAATTCGCGTTGCGATTCACGTAT
12032 TCGCATTGCGA
1 TCGCATTGCGA
12043 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCACAATTCGCGTTGCGATTCACGTAT
Found at i:11994 original size:20 final size:20
Alignment explanation
Indices: 11950--12042 Score: 107
Period size: 20 Copynumber: 4.5 Consensus size: 20
11940 ATAATCAGTA
*
11950 TCGCATTGCGATTTTCAC-AAT
1 TCGCATTGCGA-TTT-ACTTAT
*
11971 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* *
11991 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-TAT
*
12012 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
12032 TCGCATTGCGA
1 TCGCATTGCGA
12043 ATTGGGAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.03
20 32 0.52
21 27 0.44
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:19538 original size:17 final size:17
Alignment explanation
Indices: 19511--19549 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
19501 AATTTACAAT
19511 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
19527 TAATTATAAATAATATC
1 TAATTATAAATAATATC
19544 TAATTA
1 TAATTA
19550 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:21550 original size:60 final size:60
Alignment explanation
Indices: 21479--21593 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
21469 AAATGGTTCA
*
21479 TCGACTATAGGATACTGCTTTGTTGAGT-CTCCGACTATTAAAAAGTTACAAAATGATCCT
1 TCGACTATAGGACACTGCTTTGTTGAGTCCTCCGACTATT-AAAAGTTACAAAATGATCCT
** *
21539 TCGACTATAGGACGTTGCTTTGTTGAGTCCTTCGACTATTAAAAGTTACAAAATG
1 TCGACTATAGGACACTGCTTTGTTGAGTCCTCCGACTATTAAAAGTTACAAAATG
21594 GTCACTCAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 40 0.80
61 10 0.20
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (60 bp):
TCGACTATAGGACACTGCTTTGTTGAGTCCTCCGACTATTAAAAGTTACAAAATGATCCT
Found at i:21606 original size:60 final size:60
Alignment explanation
Indices: 21494--21606 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
21484 TATAGGATAC
*
21494 TGCTTTGTTGAGTCTCCGACTATTAAAAAGTTACAAAATGATCCTTCGACTATAGGACGT
1 TGCTTTGTTGAGTCTCCGACTATTAAAAAGTTACAAAATGATCCTTCAACTATAGGACGT
* *
21554 TGCTTTGTTGAGTCCTTCGACTATT-AAAAGTTACAAAATGGTCAC-TCAACTAT
1 TGCTTTGTTGAGT-CTCCGACTATTAAAAAGTTACAAAATGATC-CTTCAACTAT
21607 TCATTATGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
60 37 0.77
61 11 0.23
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (60 bp):
TGCTTTGTTGAGTCTCCGACTATTAAAAAGTTACAAAATGATCCTTCAACTATAGGACGT
Found at i:30046 original size:40 final size:40
Alignment explanation
Indices: 29983--30059 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
29973 ACATAATGTA
** * *
29983 CATGACAATGATTTGTGTGACCTTATTAACACTGCATCTG
1 CATGACAATGATACGTCTCACCTTATTAACACTGCATCTG
30023 CATGACAATGATACGTCTCACCTTATTAACACTGCAT
1 CATGACAATGATACGTCTCACCTTATTAACACTGCAT
30060 GTAGAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (40 bp):
CATGACAATGATACGTCTCACCTTATTAACACTGCATCTG
Found at i:32195 original size:127 final size:128
Alignment explanation
Indices: 31983--32238 Score: 374
Period size: 127 Copynumber: 2.0 Consensus size: 128
31973 CTAGAATACA
* * *
31983 AACGCCAATACATTGAAAATTTTAATTATTTAAAAGTTTAGAATTTGATTTTTATTAAGTTAAAG
1 AACGCCAATACATTGAAAATATTAATTATTTAAAAGCTTAGAATTTGATTTTTATTAAGTTAAAA
* *
32048 GTAATTAAAAAATAACATATGTTTTAATTATTTGACAATGAATGTTGAAACCATTCTTGCAAT
66 GCAATTAAAAAATAAAATATGTTTTAATTATTTGACAATGAATGTTGAAACCATTCTTGCAAT
*
32111 AACGCCAATACATT-AAAA-ATTGATTATTTAAAAGCTTAGAATTT-ATTTTTTTATTAAGTTAA
1 AACGCCAATACATTGAAAATATTAATTATTTAAAAGCTTAGAATTTGA--TTTTTATTAAGTTAA
* ** * *
32173 AAGCGATTGTAAAATAAAATATGTTTTAATTATTTGACAATGAATGTTGAAACCCTTCTTGTAAT
64 AAGCAATTAAAAAATAAAATATGTTTTAATTATTTGACAATGAATGTTGAAACCATTCTTGCAAT
32238 A
1 A
32239 GGCGTTTTTC
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
125 1 0.01
126 23 0.20
127 77 0.67
128 14 0.12
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (128 bp):
AACGCCAATACATTGAAAATATTAATTATTTAAAAGCTTAGAATTTGATTTTTATTAAGTTAAAA
GCAATTAAAAAATAAAATATGTTTTAATTATTTGACAATGAATGTTGAAACCATTCTTGCAAT
Found at i:42327 original size:24 final size:24
Alignment explanation
Indices: 42300--42354 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
42290 TTGTGCTGAG
*
42300 GGCTATTCTGAATATATATAAATT
1 GGCTATTCTGAAGATATATAAATT
42324 GGCTATTCTGAAGATATATAAATT
1 GGCTATTCTGAAGATATATAAATT
*
42348 TGCTATT
1 GGCTATT
42355 ATGTTACCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.42
Consensus pattern (24 bp):
GGCTATTCTGAAGATATATAAATT
Found at i:43721 original size:18 final size:18
Alignment explanation
Indices: 43698--43732 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43688 GTTCTTAAGG
*
43698 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
43716 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
43733 AATATTTAGT
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:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:46924 original size:18 final size:18
Alignment explanation
Indices: 46897--46946 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
46887 AATGTAATTT
46897 GGCATCGATACCTAGGCA
1 GGCATCGATACCTAGGCA
*
46915 GGCATTGATACCTAGGCA
1 GGCATCGATACCTAGGCA
*
46933 GTGTATCGATACCT
1 G-GCATCGATACCT
46947 CAGTTAAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (18 bp):
GGCATCGATACCTAGGCA
Found at i:47760 original size:18 final size:18
Alignment explanation
Indices: 47737--47771 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47727 GTTCTTAAGG
* *
47737 AGTGGTCTTTTGGGACAT
1 AGTGGTCATTCGGGACAT
47755 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
47772 AATATTTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.31
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:50888 original size:29 final size:29
Alignment explanation
Indices: 50846--50925 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 29
50836 TCCCGGGGAT
50846 AGGTCGCCATGCACGCCCAGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
* ***
50875 AGGTCACCATGCACGCCCAGCGACCTGGT
1 AGGTCGCCATGCACGCCCAGCGACCTACC
50904 AGGTCGCCATGCACGCCCAGCG
1 AGGTCGCCATGCACGCCCAGCG
50926 CCCAGAGCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.20, C:0.41, G:0.28, T:0.11
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:51164 original size:29 final size:29
Alignment explanation
Indices: 51117--51195 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
51107 TGCAACGTGG
*
51117 GTAGGTCGCCAGGGAATCCCAGCGATATT
1 GTAGGTCGCCAAGGAATCCCAGCGATATT
* *
51146 GTAGGTCGCCAAGGCATCCCATCGATATT
1 GTAGGTCGCCAAGGAATCCCAGCGATATT
*
51175 GTAGGTCGCCAAGGGATCCCA
1 GTAGGTCGCCAAGGAATCCCA
51196 ACGACCTATG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (29 bp):
GTAGGTCGCCAAGGAATCCCAGCGATATT
Found at i:51317 original size:12 final size:11
Alignment explanation
Indices: 51297--51332 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
51287 GAAATCAACT
51297 GCATTATTGCA
1 GCATTATTGCA
*
51308 GCACTTATTGCT
1 GCA-TTATTGCA
51320 GCATTATTGCA
1 GCATTATTGCA
51331 GC
1 GC
51333 CCGTGAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:51533 original size:8 final size:9
Alignment explanation
Indices: 51503--51540 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
51493 TAAGTTTTTT
51503 TTTTAATTA
1 TTTTAATTA
51512 TTTTAATTA
1 TTTTAATTA
*
51521 GTTT-ATTA
1 TTTTAATTA
51529 TTTTAAATTA
1 TTTT-AATTA
51539 TT
1 TT
51541 AGTTTGTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 12 0.48
10 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTAATTA
Found at i:51662 original size:28 final size:27
Alignment explanation
Indices: 51623--51675 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
51613 ATATTAAAAA
51623 AATAATTAATTAGTGTGTTAGTTAGTCT
1 AATAATTAATTAGTGTG-TAGTTAGTCT
* *
51651 AATATTTAATTAGTTTGTAGTTAGT
1 AATAATTAATTAGTGTGTAGTTAGT
51676 TAAATAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (27 bp):
AATAATTAATTAGTGTGTAGTTAGTCT
Found at i:51681 original size:27 final size:29
Alignment explanation
Indices: 51622--51686 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
51612 TATATTAAAA
51622 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
* *
51651 -AATATTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
51677 AAATAGTTAA
1 AAATAATTAA
51687 GTTATATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 15 0.47
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:51825 original size:18 final size:18
Alignment explanation
Indices: 51802--51856 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
51792 AATAATTATT
51802 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
51820 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
51832 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
51849 TAAATTAG
1 TAAATTAG
51857 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:51908 original size:21 final size:21
Alignment explanation
Indices: 51884--51923 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
51874 GTTAATTAGT
51884 TTGTTAGTTTAAGTAATATTA
1 TTGTTAGTTTAAGTAATATTA
*
51905 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTAATAT
51924 CATATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (21 bp):
TTGTTAGTTTAAGTAATATTA
Found at i:52169 original size:30 final size:30
Alignment explanation
Indices: 52101--52204 Score: 115
Period size: 30 Copynumber: 3.4 Consensus size: 30
52091 ATTAGTTAAT
* *
52101 TAGTTTTTTAGTAGTAAATTATAATTAAA-AA
1 TAGTTTATTAGT-TTAAATTAT-ATTAAAGAA
*
52132 TCA-TTTATTAGTTTAATTTATATTAAAGAA
1 T-AGTTTATTAGTTTAAATTATATTAAAGAA
*
52162 TAGTTTATTAG-TTAACGTTATATTAAAGAA
1 TAGTTTATTAGTTTAA-ATTATATTAAAGAA
52192 TAGTTTATTAGTT
1 TAGTTTATTAGTT
52205 GTTTAAGGGA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
29 11 0.17
30 42 0.66
31 10 0.16
32 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (30 bp):
TAGTTTATTAGTTTAAATTATATTAAAGAA
Found at i:54532 original size:14 final size:14
Alignment explanation
Indices: 54513--54560 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
54503 TTCAAGTCGT
54513 AAATCATTACTATC
1 AAATCATTACTATC
54527 AAATCATTAC--T-
1 AAATCATTACTATC
* *
54538 AAATTATTAATATC
1 AAATCATTACTATC
54552 AAATCATTA
1 AAATCATTA
54561 AATATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 8 0.29
12 1 0.04
13 1 0.04
14 18 0.64
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:54603 original size:48 final size:48
Alignment explanation
Indices: 54532--54704 Score: 202
Period size: 58 Copynumber: 3.4 Consensus size: 48
54522 CTATCAAATC
* *
54532 ATTACTAAATTATTAATATCAAATCATTAAATATTAATAATAAATTATT
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAAATTATT
54581 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAAT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAAT--A--A--ATTA-T--T
* *
54638 CATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 -ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAAATT-ATT
54688 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
54705 AATCATTAAT
Statistics
Matches: 109, Mismatches: 4, Indels: 22
0.81 0.03 0.16
Matches are distributed among these distances:
48 32 0.29
49 23 0.21
50 2 0.02
52 4 0.04
53 1 0.01
54 5 0.05
55 1 0.01
56 1 0.01
57 1 0.01
58 39 0.36
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (48 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAAATTATT
Found at i:54624 original size:21 final size:21
Alignment explanation
Indices: 54512--54618 Score: 79
Period size: 25 Copynumber: 4.6 Consensus size: 21
54502 GTTCAAGTCG
*
54512 TAAATCATTACTATCAAATCATT
1 TAAAT-ATTAATATCAAATCA-T
54535 ACTAAATTATTAATATCAAATCAT
1 --TAAA-TATTAATATCAAATCAT
* *
54559 TAAATATTAATAATAAATTATTAT
1 TAAATATTAAT-ATCAA--ATCAT
*
54583 TACTAATCATTACTATCAAATCAT
1 TA--AAT-ATTAATATCAAATCAT
54607 TAAATATTAATA
1 TAAATATTAATA
54619 ATAAATTATT
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
21 13 0.19
22 11 0.16
24 13 0.19
25 18 0.26
26 8 0.12
27 5 0.07
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATATTAATATCAAATCAT
Found at i:54629 original size:21 final size:22
Alignment explanation
Indices: 54532--54629 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 22
54522 CTATCAAATC
*
54532 ATTACTAAATTATTAATATCAA
1 ATTATTAAATTATTAATATCAA
* *
54554 ATCATTAAA-TATTAATAATAAA
1 ATTATTAAATTATTAAT-ATCAA
* *
54576 TTATTATTACTAATCATTACTATCAA
1 --ATTATTA--AATTATTAATATCAA
*
54602 ATCATTAAA-TATTAATAAT-AA
1 ATTATTAAATTATTAAT-ATCAA
54623 ATTATTA
1 ATTATTA
54630 TTACTAATCA
Statistics
Matches: 58, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
21 20 0.34
22 15 0.26
24 12 0.21
26 6 0.10
27 5 0.09
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTATTAAATTATTAATATCAA
Found at i:54644 original size:10 final size:10
Alignment explanation
Indices: 54629--54655 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
54619 ATAAATTATT
54629 ATTACTAATC
1 ATTACTAATC
54639 ATTACTAATC
1 ATTACTAATC
54649 ATTACTA
1 ATTACTA
54656 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:54712 original size:21 final size:21
Alignment explanation
Indices: 54688--54775 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
54678 TAATTTCATT
*
54688 ATTACTAATCATTACTAAATC
1 ATTAATAATCATTACTAAATC
* *
54709 ATTAAT-ATCAAATCATTAAAT-
1 ATTAATAATC--ATTACTAAATC
* * *
54730 ATTAATAATAATT--T-CATT
1 ATTAATAATCATTACTAAATC
*
54748 ATTACTAATCATTACTAAATC
1 ATTAATAATCATTACTAAATC
54769 ATTAATA
1 ATTAATA
54776 TCAAATCATT
Statistics
Matches: 49, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
17 2 0.04
18 12 0.24
20 6 0.12
21 19 0.39
22 10 0.20
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTAATAATCATTACTAAATC
Found at i:54726 original size:60 final size:60
Alignment explanation
Indices: 54581--54907 Score: 579
Period size: 60 Copynumber: 5.5 Consensus size: 60
54571 ATAAATTATT
* *
54581 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
54639 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
54698 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
54758 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
54818 ATTACTAAAACATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
54878 ATTACTAAATCATTACTATCAAATCATTAA
1 ATTACTAAATCATTACTATCAAATCATTAA
54908 TATCTAAAGC
Statistics
Matches: 259, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
58 43 0.17
59 19 0.07
60 197 0.76
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:57392 original size:20 final size:20
Alignment explanation
Indices: 57359--57400 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
57349 ATTAATATAA
57359 TATAACTTAAACTAACAAAC
1 TATAACTTAAACTAACAAAC
* *
57379 TATAATTTATACTAACAAAC
1 TATAACTTAAACTAACAAAC
57399 TA
1 TA
57401 ATTAACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (20 bp):
TATAACTTAAACTAACAAAC
Found at i:58099 original size:53 final size:53
Alignment explanation
Indices: 58024--58129 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
58014 AAGCATGGAC
58024 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
58077 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
58130 GGGCGTGCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.11, C:0.19, G:0.43, T:0.26
Consensus pattern (53 bp):
TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
Found at i:58135 original size:30 final size:31
Alignment explanation
Indices: 58099--58221 Score: 157
Period size: 30 Copynumber: 4.1 Consensus size: 31
58089 TTTGGCGAGC
*
58099 TGGGCGTGCATGG-AGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGTAGGTCGCTGGGCGTGCA
* *
58129 TGGGCGTGCATGG-AGGTCGTTGGGCGTGCTC
1 TGGGCGTGCATGGTAGGTCGCTGGGCGTGC-A
58160 TGGGCGTGC-TGGTAGGTCGCTGGGCGTGCA
1 TGGGCGTGCATGGTAGGTCGCTGGGCGTGCA
* *
58190 T-GGCG-ACCTGGTAGGTCGCTGGGCGTGCA
1 TGGGCGTGCATGGTAGGTCGCTGGGCGTGCA
58219 TGG
1 TGG
58222 CGACCTACCC
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
28 1 0.01
29 26 0.31
30 34 0.40
31 24 0.28
ACGTcount: A:0.08, C:0.20, G:0.49, T:0.24
Consensus pattern (31 bp):
TGGGCGTGCATGGTAGGTCGCTGGGCGTGCA
Found at i:58177 original size:61 final size:60
Alignment explanation
Indices: 58098--58217 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 60
58088 CTTTGGCGAG
* * *
58098 CTGGGCGTGCATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGG-AGGTCGTTGGGCGTGCT
1 CTGGGCGTGCATGGAGGTCGCTGGGCGTGCAT-GGCG-ACATGGTAGGTCGCTGGGCGTGCT
*
58159 CTGGGCGTGC-TGGTAGGTCGCTGGGCGTGCATGGCGACCTGGTAGGTCGCTGGGCGTGC
1 CTGGGCGTGCATGG-AGGTCGCTGGGCGTGCATGGCGACATGGTAGGTCGCTGGGCGTGC
58218 ATGGCGACCT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
59 4 0.08
60 22 0.42
61 27 0.51
ACGTcount: A:0.07, C:0.21, G:0.48, T:0.23
Consensus pattern (60 bp):
CTGGGCGTGCATGGAGGTCGCTGGGCGTGCATGGCGACATGGTAGGTCGCTGGGCGTGCT
Found at i:58204 original size:29 final size:30
Alignment explanation
Indices: 58112--58227 Score: 130
Period size: 29 Copynumber: 3.9 Consensus size: 30
58102 GCGTGCATGG
* * *
58112 AGGTCGTTGGGCGTGCATGGGCGTGCATGG-
1 AGGTCGCTGGGCGTGCATGGGCG-ACCTGGT
* * **
58142 AGGTCGTTGGGCGTGCTCTGGGCGTGCTGGT
1 AGGTCGCTGGGCGTGC-ATGGGCGACCTGGT
58173 AGGTCGCTGGGCGTGCAT-GGCGACCTGGT
1 AGGTCGCTGGGCGTGCATGGGCGACCTGGT
58202 AGGTCGCTGGGCGTGCAT-GGCGACCT
1 AGGTCGCTGGGCGTGCATGGGCGACCT
58228 ACCCCCGGGA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
29 35 0.46
30 20 0.26
31 21 0.28
ACGTcount: A:0.09, C:0.22, G:0.47, T:0.23
Consensus pattern (30 bp):
AGGTCGCTGGGCGTGCATGGGCGACCTGGT
Found at i:65905 original size:23 final size:23
Alignment explanation
Indices: 65857--65905 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
65847 TCACCTCTTG
* * * *
65857 AAATTTTAGAAGTTTGTCCCTTA
1 AAATTTTAAAAGTTCGTCACTCA
65880 AAATTTTAAAAGTTCGTCACTCA
1 AAATTTTAAAAGTTCGTCACTCA
65903 AAA
1 AAA
65906 ATTAAAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (23 bp):
AAATTTTAAAAGTTCGTCACTCA
Found at i:69154 original size:18 final size:18
Alignment explanation
Indices: 69131--69165 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69121 TTCCATCCGG
*
69131 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
69149 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
69166 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:70458 original size:10 final size:8
Alignment explanation
Indices: 70435--70481 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
70425 TCAAAGTTTT
70435 GGTCAACAG
1 GGTCAAC-G
70444 TGGTCAACG
1 -GGTCAACG
70453 ACGGTCAACG
1 --GGTCAACG
70463 GGTCAAC-
1 GGTCAACG
70470 GGTCAACG
1 GGTCAACG
70478 GGTC
1 GGTC
70482 GGGTCGAGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 11 0.32
9 1 0.03
10 15 0.44
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:70473 original size:15 final size:15
Alignment explanation
Indices: 70453--70481 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70443 GTGGTCAACG
70453 ACGGTCAACGGGTCA
1 ACGGTCAACGGGTCA
70468 ACGGTCAACGGGTC
1 ACGGTCAACGGGTC
70482 GGGTCGAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.28, G:0.34, T:0.14
Consensus pattern (15 bp):
ACGGTCAACGGGTCA
Found at i:74291 original size:18 final size:18
Alignment explanation
Indices: 74268--74302 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
74258 TTCCATCCGG
*
74268 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
74286 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
74303 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:75605 original size:8 final size:8
Alignment explanation
Indices: 75592--75626 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
75582 GGTTAACGAC
75592 GGTCAACG
1 GGTCAACG
75600 GGTCAAC-
1 GGTCAACG
75607 GGTCAACG
1 GGTCAACG
75615 GGTCAACG
1 GGTCAACG
75623 GGTC
1 GGTC
75627 GAGTCAACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.23, C:0.26, G:0.37, T:0.14
Consensus pattern (8 bp):
GGTCAACG
Found at i:75610 original size:15 final size:15
Alignment explanation
Indices: 75590--75623 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
75580 GTGGTTAACG
75590 ACGGTCAACGGGTCA
1 ACGGTCAACGGGTCA
75605 ACGGTCAACGGGTCA
1 ACGGTCAACGGGTCA
75620 ACGG
1 ACGG
75624 GTCGAGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.35, T:0.12
Consensus pattern (15 bp):
ACGGTCAACGGGTCA
Found at i:75662 original size:13 final size:13
Alignment explanation
Indices: 75613--75644 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
75603 CAACGGTCAA
75613 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
75626 CGAGTCAACGGGT
1 CGGGTCAACGGGT
75639 CGGGTC
1 CGGGTC
75645 GGGTCAACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.25, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:75664 original size:18 final size:18
Alignment explanation
Indices: 75607--75667 Score: 86
Period size: 18 Copynumber: 3.2 Consensus size: 18
75597 ACGGGTCAAC
75607 GGTCAACGGGTCAACGGGTCG
1 GGTCAACGGGT---CGGGTCG
*
75628 AGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
75646 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
75664 GGTC
1 GGTC
75668 GGTCGGTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 28 0.74
21 10 0.26
ACGTcount: A:0.15, C:0.23, G:0.46, T:0.16
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:75673 original size:4 final size:5
Alignment explanation
Indices: 75634--75680 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
75624 GTCGAGTCAA
*
75634 CGGGT CGGGT CGGGT CAACGGGT CGGGT CGGGT C-GGT CGGTT CGGGT
1 CGGGT CGGGT CGGGT ---CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT
75681 TGTGACGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
4 4 0.11
5 27 0.75
8 5 0.14
ACGTcount: A:0.04, C:0.21, G:0.53, T:0.21
Consensus pattern (5 bp):
CGGGT
Found at i:78819 original size:28 final size:28
Alignment explanation
Indices: 78779--78835 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
78769 AATATTATCA
* * * *
78779 TTTTGGTCCAAATAGATATTTAAAGTAT
1 TTTTGATCAAAATAGACACTTAAAGTAT
*
78807 TTTTGATCAAAATAGGCACTTAAAGTAT
1 TTTTGATCAAAATAGACACTTAAAGTAT
78835 T
1 T
78836 CAATTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (28 bp):
TTTTGATCAAAATAGACACTTAAAGTAT
Found at i:80647 original size:27 final size:27
Alignment explanation
Indices: 80609--80662 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
80599 CCTTAATCCA
*
80609 TCTATACAACAACGTGAAATAGAGGGT
1 TCTATACAACAACGTGAAAGAGAGGGT
* *
80636 TCTATACGACAATGTGAAAGAGAGGGT
1 TCTATACAACAACGTGAAAGAGAGGGT
80663 CAGAAGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (27 bp):
TCTATACAACAACGTGAAAGAGAGGGT
Found at i:90187 original size:28 final size:28
Alignment explanation
Indices: 90155--90222 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
90145 AGTCTATCTT
*
90155 ATTTTGATCACTAACTTTAAATTAATAC
1 ATTTTGATCACTAACTTTAAAATAATAC
* * *
90183 ATTTTGATTACTAATTTTAAAATATTAC
1 ATTTTGATCACTAACTTTAAAATAATAC
*
90211 ATTTTAATCACT
1 ATTTTGATCACT
90223 TATGTTTAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (28 bp):
ATTTTGATCACTAACTTTAAAATAATAC
Found at i:91280 original size:36 final size:33
Alignment explanation
Indices: 91233--91314 Score: 119
Period size: 33 Copynumber: 2.4 Consensus size: 33
91223 CGCCCCGATT
*
91233 TTATATATATAATATTTTTTTTATTTTTTATATTAA
1 TTATATATATAATA--TTTTATA-TTTTTATATTAA
91269 TTATATATATAATATTTTATATTTTTATATTAA
1 TTATATATATAATATTTTATATTTTTATATTAA
91302 TTATATAATATAA
1 TTATAT-ATATAA
91315 ACCCTAAACT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
33 18 0.41
34 12 0.27
36 14 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (33 bp):
TTATATATATAATATTTTATATTTTTATATTAA
Found at i:91574 original size:108 final size:108
Alignment explanation
Indices: 91452--91669 Score: 373
Period size: 108 Copynumber: 2.0 Consensus size: 108
91442 AATGTAGTTT
91452 TCTATTTTTTTAATGAAAAATACAGTTTTTCTCGGGATCAGATCGGGTTCAGGTACAACATTTCA
1 TCTATTTTTTTAATGAAAAATACAGTTTTTCTCGGGATCAGATCGGGTTCAGGTACAACATTTCA
* * * *
91517 GATCGAGTTCGGGGACGGGACAAAAAAAATCTTCGAAGAAGTG
66 GATCAAGTTCGGAGACAGGACAAAAAAAATCTCCGAAGAAGTG
* *
91560 TCTATTTTTTTAATGAAAAATACAGTTTTTCTCGGGATCAGGTCGGGTTCGGGTACAACATTTCA
1 TCTATTTTTTTAATGAAAAATACAGTTTTTCTCGGGATCAGATCGGGTTCAGGTACAACATTTCA
*
91625 GATCAAGTTCGGAGATAGGACAAAAAAAATCTCCGAAGAAGTG
66 GATCAAGTTCGGAGACAGGACAAAAAAAATCTCCGAAGAAGTG
91668 TC
1 TC
91670 CGATAAAAAA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 103 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (108 bp):
TCTATTTTTTTAATGAAAAATACAGTTTTTCTCGGGATCAGATCGGGTTCAGGTACAACATTTCA
GATCAAGTTCGGAGACAGGACAAAAAAAATCTCCGAAGAAGTG
Found at i:93899 original size:36 final size:36
Alignment explanation
Indices: 93817--94236 Score: 302
Period size: 36 Copynumber: 11.7 Consensus size: 36
93807 CCATATATAT
* ** * *
93817 ATATATATATTATATAGTTTAAAAAATATTTTTAAAA
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
*
93854 CATGTATATAATATATAGTTTTTAAAACATTTTGAAA
1 -ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
93891 TTAAATATAATATATAGTTTTTAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
*
93928 ATATATATATTATATAGTTTTTAAAACATTTT-AGAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGA-AA
*
93964 ATAAATATAATATATAGTTTTTAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
*
94001 ATATATATATTATATAGTTTTT-AAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* ****
94036 ATATATATAGT-T-T--TAAAAAAAACATTTTGAAAAACATA
1 ATATATATAATATATAGTTTTTAAAACATTTTG----A-A-A
* *
94074 TATATATATATATTATATAGTTTTGAAATCATTTTGAAA
1 -ATATATATA-A-TATATAGTTTTTAAAACATTTTGAAA
* *
94113 A-CT-TATAATATATAGTTTTAAAAACATTTTTG--A
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
* * * *
94146 A-A-A-CT-ATATA-A-TTTTGAAAATATTTTTAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* * * *
94176 AAAAATATAATATATA-ATTTTAAAATACTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
94212 ATATATAT--TATATAGTTTTTGAAAA
1 ATATATATAATATATAGTTTTT-AAAA
94237 ATATTTTATA
Statistics
Matches: 310, Mismatches: 42, Indels: 62
0.75 0.10 0.15
Matches are distributed among these distances:
28 4 0.01
29 9 0.03
30 3 0.01
31 7 0.02
32 12 0.04
33 4 0.01
34 28 0.09
35 39 0.13
36 84 0.27
37 68 0.22
38 26 0.08
39 10 0.03
40 1 0.00
41 2 0.01
42 1 0.00
43 1 0.00
45 11 0.04
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:93952 original size:73 final size:71
Alignment explanation
Indices: 93821--94236 Score: 359
Period size: 73 Copynumber: 5.8 Consensus size: 71
93811 ATATATATAT
* * * * * *
93821 ATATATTATATAGTTTAAAAAATATTTTTAAAACATGTATATAATATATAGTTTTTAAAACATTT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAA-ATATATATATTATATAGTTTTTAAAACATTT
93886 TGAAATTAA
65 TGAAA--AA
*
93895 ATATAATATATAGTTTTTAAAACATTTTTGAAAATATATATATTATATAGTTTTTAAAACATTTT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAATATATATATTATATAGTTTTTAAAACATTTT
93960 AGAAATAA
66 -GAAA-AA
*
93968 ATATAATATATAGTTTTTAAAACATTTTTGAAAATATATATATTATATAGTTTTT-AAACATTTT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAATATATATATTATATAGTTTTTAAAACATTTT
94032 G---AA
66 GAAAAA
94035 A-AT-ATATATAGTTTTAAAAAAAACA-TTTTGAAAAACATATATATATATATATTATATAGTTT
1 ATATAATATATAGTTTT---AAAAACATTTTTG------A-A-A-ATATATATATTATATAGTTT
* * *
94097 TGAAATCATTTTGAAAAC
54 TTAAAACATTTTGAAAAA
* *
94115 TTATAATATATAGTTTTAAAAACATTTTTGAAAACTATATA-ATT-T-T-G-----AAAATATTT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAA-TATATATATTATATAGTTTTTAAAACA-TT
*
94171 TTAAAAAAA
64 TT-GAAAAA
*
94180 ATATAATATATAATTTTAAAATAC--TTTTG-AAA-ATATATATTATATAGTTTTTGAAAA
1 ATATAATATATAGTTTTAAAA-ACATTTTTGAAAATATATATATTATATAGTTTTT-AAAA
94237 ATATTTTATA
Statistics
Matches: 290, Mismatches: 18, Indels: 71
0.77 0.05 0.19
Matches are distributed among these distances:
61 5 0.02
62 3 0.01
63 8 0.03
64 10 0.03
65 36 0.12
66 4 0.01
67 8 0.03
68 7 0.02
69 1 0.00
70 1 0.00
71 9 0.03
72 16 0.06
73 90 0.31
74 34 0.12
75 1 0.00
76 21 0.07
77 9 0.03
79 7 0.02
80 6 0.02
81 2 0.01
82 12 0.04
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (71 bp):
ATATAATATATAGTTTTAAAAACATTTTTGAAAATATATATATTATATAGTTTTTAAAACATTTT
GAAAAA
Found at i:94125 original size:34 final size:36
Alignment explanation
Indices: 94080--94230 Score: 119
Period size: 34 Copynumber: 4.5 Consensus size: 36
94070 CATATATATA
* * *
94080 TATATATTATATAGTTTTGAAATCA-TTTTGAAAAC
1 TATATAATATATAGTTTTAAAAACATTTTTGAAAAC
94115 T-TATAATATATAGTTTTAAAAACATTTTTGAAAAC
1 TATATAATATATAGTTTTAAAAACATTTTTGAAAAC
* * * *
94150 ----T-ATATA-A-TTTTGAAAATATTTTTAAAAAA
1 TATATAATATATAGTTTTAAAAACATTTTTGAAAAC
* *
94179 AATATAATATATAATTTTAAAATAC--TTTTGAAAA-
1 TATATAATATATAGTTTTAAAA-ACATTTTTGAAAAC
*
94213 TATATATTATATAGTTTT
1 TATATAATATATAGTTTT
94231 TGAAAAATAT
Statistics
Matches: 94, Mismatches: 13, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
29 18 0.19
30 1 0.01
31 5 0.05
32 1 0.01
33 1 0.01
34 40 0.43
35 20 0.21
36 7 0.07
37 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (36 bp):
TATATAATATATAGTTTTAAAAACATTTTTGAAAAC
Found at i:94154 original size:29 final size:29
Alignment explanation
Indices: 94121--94186 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
94111 AAACTTATAA
* *
94121 TATATAGTTTTAAAAACATTTTTGAAAAC
1 TATATAATTTTAAAAACATTTTTAAAAAC
* * *
94150 TATATAATTTTGAAAATATTTTTAAAAAA
1 TATATAATTTTAAAAACATTTTTAAAAAC
*
94179 AATATAAT
1 TATATAAT
94187 ATATAATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (29 bp):
TATATAATTTTAAAAACATTTTTAAAAAC
Found at i:94189 original size:147 final size:146
Alignment explanation
Indices: 93928--94200 Score: 349
Period size: 147 Copynumber: 1.8 Consensus size: 146
93918 ATTTTTGAAA
* *
93928 ATATATATATTATATAGTTTTTAAAACATTTTAGAAATAAATATAATATATAGTTTTTAAAACAT
1 ATATATATATTATATAGTTTTGAAAACATTTTAGAAATAAATATAATATATAGTTTTAAAAACAT
* * *
93993 TTTTGAAAATATATATATTATATAGTTTTTAAACATTTTGAAAATATATATAGTTTTAAAAAAAA
66 TTTTGAAAATATATATATTAAATAGTTTTTAAACA---TAAAAATATATATAATTTTAAAAAAAA
94058 CATTTTGAAAAACATATAT
128 CATTTTGAAAAACATATAT
* **
94077 ATATATATATTATATAGTTTTGAAATCATTTT-GAAA-ACTTATAATATATAGTTTTAAAAACAT
1 ATATATATATTATATAGTTTTGAAAACATTTTAGAAATAAATATAATATATAGTTTTAAAAACAT
*
94140 TTTTGAAAACTATATAATTTTGAAAATA-TTTTTAAA-A-AAAATATAATATATAATTTTAAAA
66 TTTTGAAAA-TATAT-ATATT--AAATAGTTTTTAAACATAAAA-AT-ATATATAATTTTAAAA
94201 TACTTTTGAA
Statistics
Matches: 109, Mismatches: 9, Indels: 14
0.83 0.07 0.11
Matches are distributed among these distances:
145 3 0.03
146 2 0.02
147 48 0.44
148 9 0.08
149 35 0.32
150 8 0.07
151 4 0.04
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (146 bp):
ATATATATATTATATAGTTTTGAAAACATTTTAGAAATAAATATAATATATAGTTTTAAAAACAT
TTTTGAAAATATATATATTAAATAGTTTTTAAACATAAAAATATATATAATTTTAAAAAAAACAT
TTTGAAAAACATATAT
Found at i:94208 original size:110 final size:108
Alignment explanation
Indices: 93868--94212 Score: 271
Period size: 110 Copynumber: 3.1 Consensus size: 108
93858 TATATAATAT
* *
93868 ATAGTTTTTAAAACA-TTTTGAAATTAAATATAATATATAGTTTTTAAAACATTTTTGAAAATAT
1 ATAGTTTTGAAAACATTTTTGAAA--ATATATAATATATAG-TTTTAAAACATTTTTGAAAATAT
* * * * * * * *
93932 AT-ATATT-ATATAGTTTTTAAAACATTTTAGA-A-ATAAATATAATA
63 ATAATTTTAAAATACTTTTTAAAAAAATATA-ATATATAATTTTAA-A
* *
93976 TATAGTTTTTAAAACATTTTTGAAAATATATATATTATATAGTTTTTAAACA-TTTTGAAAATAT
1 -ATAGTTTTGAAAACATTTTTGAAAATATATA-A-TATATAGTTTTAAAACATTTTTGAAAATAT
* * * * *
94040 ATATAGTTTTAAAAAAAACATTTTGAAAAACATAT-ATATATATATATT-AT
63 ATA-A-TTTT--AAAATAC-TTTTTAAAAAAATATAATATATA-ATTTTAAA
*
94090 ATAGTTTTGAAATCA-TTTTGAAAACT-TATAATATATAGTTTTAAAAACATTTTTGAAAACTAT
1 ATAGTTTTGAAAACATTTTTGAAAA-TATATAATATATAGTTTT-AAAACATTTTTGAAAA-TAT
94153 ATAATTTTGAAAATA-TTTTTAAAAAAAATATAATATATAATTTTAAA
63 ATAATTTT-AAAATACTTTTT-AAAAAAATATAATATATAATTTTAAA
*
94200 ATACTTTTGAAAA
1 ATAGTTTTGAAAA
94213 TATATATTAT
Statistics
Matches: 190, Mismatches: 26, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
108 24 0.13
109 38 0.20
110 51 0.27
111 13 0.07
112 23 0.12
113 21 0.11
114 4 0.02
115 14 0.07
116 2 0.01
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (108 bp):
ATAGTTTTGAAAACATTTTTGAAAATATATAATATATAGTTTTAAAACATTTTTGAAAATATATA
ATTTTAAAATACTTTTTAAAAAAATATAATATATAATTTTAAA
Found at i:94250 original size:25 final size:24
Alignment explanation
Indices: 94204--94248 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
94194 TTTAAAATAC
94204 TTTTGAAAATATATATTATATAGT
1 TTTTGAAAATATATATTATATAGT
*
94228 TTTTGAAAA-ATATTTTATATA
1 TTTTGAAAATATATATTATATA
94249 TAATATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (24 bp):
TTTTGAAAATATATATTATATAGT
Found at i:95565 original size:17 final size:18
Alignment explanation
Indices: 95545--95608 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 18
95535 TATTATTATA
95545 TTATTATTGTTT-TTTTC-
1 TTATTATT-TTTATTTTCT
95562 TTATT-TTTTTATTTTCT
1 TTATTATTTTTATTTTCT
*
95579 TTATTACTTTGTTATTATTAT
1 TTATTA-TTT-TTATT-TTCT
*
95600 TTTTTATTT
1 TTATTATTT
95609 AATACTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 3 0.08
16 7 0.18
17 10 0.26
19 3 0.08
20 8 0.21
21 8 0.21
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.77
Consensus pattern (18 bp):
TTATTATTTTTATTTTCT
Found at i:95617 original size:14 final size:14
Alignment explanation
Indices: 95573--95624 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
95563 TATTTTTTTA
*
95573 TTTTCTTTATTACT
1 TTTTATTTATTACT
*
95587 TTGTTA-TTATTATT
1 TT-TTATTTATTACT
*
95601 TTTTATTTAATACT
1 TTTTATTTATTACT
95615 TTTT-TTTATT
1 TTTTATTTATT
95625 TACATTCATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 8 0.26
14 21 0.68
15 2 0.06
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTATTTATTACT
Found at i:95900 original size:20 final size:20
Alignment explanation
Indices: 95877--95919 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
95867 TTATCATCAT
95877 TTTTTCCTTT-TCTTATTTTA
1 TTTTTCCTTTGTCTTA-TTTA
*
95897 TTTTTCCTTTGTTTTATTTA
1 TTTTTCCTTTGTCTTATTTA
95917 TTT
1 TTT
95920 ATTTATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.09, C:0.12, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTCCTTTGTCTTATTTA
Found at i:99536 original size:95 final size:89
Alignment explanation
Indices: 99410--99653 Score: 295
Period size: 95 Copynumber: 2.7 Consensus size: 89
99400 TATAATATTA
* *
99410 TATATATACAATAAAGGTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCTCCGGCTTTATGGA
1 TATATATACAATAAA-GTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCTCCGGCTTTATGGA
* *
99475 TAATATTCAGCTAGCCTGATAAAGGTG
65 TAAGATTCAGCTAACCTGATAAA-G-G
* * *
99502 ATTATACTATACAATAAAGCTTAAGCTGTCCCTCTA-AGGCAATTAGTTAAACGCTCCGGTTTTA
1 --TATA-TATACAATAAAG-TTGAGCTGTCCCTCTAGA-GCAATTGGTTAAACGCTCCGGCTTTA
99566 TGGATAAGATTCAGCTAACCTGATAAAGG
61 TGGATAAGATTCAGCTAACCTGATAAAGG
*
99595 TAT-T-TAC-AT--A-TTGAGCTGTCCCTCTAGAGCAATTGGTTAAACACTCCGGCTTTATGGAT
1 TATATATACAATAAAGTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCTCCGGCTTTATGGAT
99654 TCAGCTAGCC
Statistics
Matches: 135, Mismatches: 11, Indels: 19
0.82 0.07 0.12
Matches are distributed among these distances:
83 43 0.32
84 1 0.01
85 1 0.01
87 2 0.01
88 3 0.02
89 1 0.01
91 3 0.02
93 1 0.01
94 7 0.05
95 73 0.54
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (89 bp):
TATATATACAATAAAGTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCTCCGGCTTTATGGAT
AAGATTCAGCTAACCTGATAAAGG
Found at i:100848 original size:36 final size:39
Alignment explanation
Indices: 100806--100889 Score: 106
Period size: 36 Copynumber: 2.3 Consensus size: 39
100796 TAATTATTAT
100806 TATATATATAATAT-TAATAAATT-TA-ATTTAAATTAAA
1 TATATATATAATATATAAT-AATTATATATTTAAATTAAA
* *
100843 -ATATATAT-ATATATAATATTTATATATTTAATTTAAA
1 TATATATATAATATATAATAATTATATATTTAAATTAAA
100880 TATATATATA
1 TATATATATA
100890 CCCGACCCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
35 7 0.17
36 14 0.35
37 11 0.28
38 8 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (39 bp):
TATATATATAATATATAATAATTATATATTTAAATTAAA
Found at i:100868 original size:17 final size:17
Alignment explanation
Indices: 100844--100889 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
100834 TAAATTAAAA
100844 TATATATATATATAATAT
1 TATATATATATATAAT-T
100862 T-TATATAT-T-TAATT
1 TATATATATATATAATT
*
100876 TAAATATATATATA
1 TATATATATATATA
100890 CCCGACCCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
14 2 0.08
15 10 0.42
16 2 0.08
17 9 0.38
18 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATATATATATAATT
Found at i:100904 original size:12 final size:12
Alignment explanation
Indices: 100887--100917 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
100877 AAATATATAT
100887 ATACCCGACCCG
1 ATACCCGACCCG
100899 ATACCCGACCCG
1 ATACCCGACCCG
100911 ATACCCG
1 ATACCCG
100918 TTTAAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.48, G:0.16, T:0.10
Consensus pattern (12 bp):
ATACCCGACCCG
Found at i:100987 original size:41 final size:41
Alignment explanation
Indices: 100942--101030 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
100932 TATGCTAAAC
* * *
100942 GGGGATAC-CCATTTCCCCGTGATTTTCTCCGATTACCCGAT
1 GGGGAT-CTCCATTTACCCGCGATTTCCTCCGATTACCCGAT
*
100983 GGGGATCTCCGTTTACCCGCGATTTCCTCCGATTACCCGAT
1 GGGGATCTCCATTTACCCGCGATTTCCTCCGATTACCCGAT
*
101024 GGAGATC
1 GGGGATC
101031 CCCGTTTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.02
41 41 0.98
ACGTcount: A:0.17, C:0.31, G:0.22, T:0.29
Consensus pattern (41 bp):
GGGGATCTCCATTTACCCGCGATTTCCTCCGATTACCCGAT
Found at i:101036 original size:41 final size:41
Alignment explanation
Indices: 100957--101038 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
100947 TACCCATTTC
* * * *
100957 CCCGTGATTTTCTCCGATTACCCGATGGGGATCTCCGTTTA
1 CCCGCGATTTCCTCCGATTACCCGATGGAGATCCCCGTTTA
100998 CCCGCGATTTCCTCCGATTACCCGATGGAGATCCCCGTTTA
1 CCCGCGATTTCCTCCGATTACCCGATGGAGATCCCCGTTTA
101039 AATCCCCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.16, C:0.33, G:0.21, T:0.30
Consensus pattern (41 bp):
CCCGCGATTTCCTCCGATTACCCGATGGAGATCCCCGTTTA
Found at i:101388 original size:72 final size:73
Alignment explanation
Indices: 101268--101493 Score: 285
Period size: 72 Copynumber: 2.9 Consensus size: 73
101258 TTATCGGCAT
* *
101268 CATAACTCAAGGGTTTTCTGTTAGCCAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACA
1 CATAACTCAAGGG--TTCTGTCAGCCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACA
101333 TCATTTACAG
64 TCATTTACAG
*
101343 CATAACTCAAGGG-TCTGTCAGCCAAGACCTTCGAGTTCGACTACGCTCTGCTCCAAGGCACATC
1 CATAACTCAAGGGTTCTGTCAGCCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
101407 ATTTACAG
66 ATTTACAG
101415 CATAACTCAAGGCTAGAAAGGTTATCTGTCA-CCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1 CATAACTC-A----AG---GG-T-TCTGTCAGCC-AAGACCTTCGAGTTCGACTACGCTCAGCTC
*
101479 CAAGGCATATCATTT
55 CAAGGCACATCATTT
101494 GTAACATAAC
Statistics
Matches: 134, Mismatches: 5, Indels: 16
0.86 0.03 0.10
Matches are distributed among these distances:
72 64 0.48
73 1 0.01
75 13 0.10
77 2 0.01
80 2 0.01
82 2 0.01
83 50 0.37
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (73 bp):
CATAACTCAAGGGTTCTGTCAGCCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
ATTTACAG
Found at i:101568 original size:84 final size:83
Alignment explanation
Indices: 101366--102154 Score: 781
Period size: 84 Copynumber: 9.5 Consensus size: 83
101356 TCTGTCAGCC
* * * * *
101366 AAGACCTTCGAGTTCGACTACGCTCTGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* *
101431 AAAGGTTATCTGTCACCA
66 AAGGGTTATCTGCCACCA
* * *
101449 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAACATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* *
101514 AAGAGTTATCTACCAACCA
66 AAGGGTTATCTGCC-ACCA
* * * * **
101533 AAGACCTTTGAGTTCGACTACGCTCAACTCAAAGGCACATCATTTGCATCATAGTTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
101598 AAGGGCTATCTG---CCA
66 AAGGGTTATCTGCCACCA
* * * * * * * * * * *
101613 AAGACCCTCCAGTTCGATTACACTCAGCTTCAAGGGTACATCATTTACAGTATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGA
* **
101678 GAAGGGTTATTTGTGACCAA
65 GAAGGGTTATCTGCCACC-A
* * *
101698 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATTATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
101763 AAGGGTTATCTGCCAACCA
66 AAGGGTTATCTGCC-ACCA
* *
101782 AAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
101847 AAGGGCTATCTG---CCA
66 AAGGGTTATCTGCCACCA
* * * * * * * * * * * *
101862 AAGACCCTCGAGTTCGATTACACTCAGTTTCGAGGGCACATAATTTACAACATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAG-CTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
* **
101927 GAAGGGTTATCAGTGACCAA
65 GAAGGGTTATCTGCCACC-A
* *
101947 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATTATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
102012 AAGGGTTATCTGCCAAACA
66 AAGGGTTATCTGCC-ACCA
* * * * * * * * * * * *
102031 AAGACCTTTGAGTTCGATTACACTCAACT-CAACGACATATCATTTGCGGTATAGC-TCAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGA
* *
102094 GAAGGGATGTCTGCCA--A
65 GAAGGGTTATCTGCCACCA
*
102111 AA-ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
102155 ATAGTATAGC
Statistics
Matches: 576, Mismatches: 115, Indels: 34
0.79 0.16 0.05
Matches are distributed among these distances:
79 33 0.06
80 60 0.10
81 71 0.12
82 1 0.00
83 88 0.15
84 263 0.46
85 60 0.10
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (83 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTATCTGCCACCA
Found at i:101729 original size:249 final size:247
Alignment explanation
Indices: 101366--102187 Score: 1126
Period size: 249 Copynumber: 3.3 Consensus size: 247
101356 TCTGTCAGCC
* * *
101366 AAGACCTTCGAGTTCGACTACGCTCTGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAG
1 AAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAG
* * *
101431 AAAGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
66 AAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATTATTTG
* * * *
101495 TAACATAACTTAAGTCGAGAAGAGTTATCTACCAACCAAAGACCTTTGAGTTCGACTACGCTCAA
131 CAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAA
101560 CTCAAAGGCACATCATTTGCATCATAGTTTAAGTCGAGAAGGGCTATCTGCCA
196 CTCAAAGGCACATCATTTGCATCATAG-TTAAGTCGAGAAGGGCTATCTGCCA
* * * * *
101613 AAGACCCTCCAGTTCGATTACACTCAGCTTCAAGGGTACATCATTTACAGTATAACTCAAGGCTA
1 AAGACCCTCGAGTTCGACTACACTCAGCTCCAA-GGCACATCATTTACAGCATAACTCAAGGCTA
* *
101678 GAAGGGTTATTTGTGACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATTATTT
65 GAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATTATTT
* *
101743 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCA
130 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCA
* * *
101808 GCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCA
195 ACTCAAAGGCACATCATTTGCATCATAG-TTAAGTCGAGAAGGGCTATCTGCCA
* * * * * *
101862 AAGACCCTCGAGTTCGATTACACTCAGTTTCGAGGGCACATAATTTACAACATAACTCAAGGCTA
1 AAGACCCTCGAGTTCGACTACACTCAG-CTCCAAGGCACATCATTTACAGCATAACTCAAGGCTA
*
101927 GAAGGGTTATCAGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATTATTT
65 GAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATTATTT
* * *
101992 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAACAAAGACCTTTGAGTTCGATTACACTCA
130 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCA
* * * * * * * * * *
102057 ACTCAACGACATATCATTTGCGGT-ATAGCTCAGGCTAGAAGGGATGTCTGCCA
195 ACTCAAAGGCACATCATTTGC-ATCATAGTTAAGTCGAGAAGGGCTATCTGCCA
* * * * * * * *
102110 AAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTATAGTATAGCTCAAGGCAAG
1 AAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAG
*
102175 AAGGGCTATCTGT
66 AAGGGTTATCTGT
102188 CAATAAAATT
Statistics
Matches: 502, Mismatches: 69, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
247 66 0.13
248 86 0.17
249 348 0.69
250 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (247 bp):
AAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAG
AAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATTATTTG
CAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAA
CTCAAAGGCACATCATTTGCATCATAGTTAAGTCGAGAAGGGCTATCTGCCA
Found at i:101918 original size:165 final size:162
Alignment explanation
Indices: 101294--102154 Score: 800
Period size: 165 Copynumber: 5.3 Consensus size: 162
101284 TCTGTTAGCC
* *
101294 AAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAAC-----TC---
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* * * *
101351 AAGGGTCTGTCAGCC-AAGACCTTCGAGTTCGACTACGCTCTGCTCCAAGGCACATCATTTACAG
66 AAGGGT-TATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAG
* *
101415 CATAACTCAAGGCTAGAAAGGTTATCTGTCACCA
130 CATAACTCAAGGCGAGAAGGGTTATCTG-CACCA
* * *
101449 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAACATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* * * * * * *
101514 AAGAGTTATCTACCAACCAAAGACCTTTGAGTTCGACTACGCTCAACTCAAAGGCACATCATTTG
66 AAGGGTTATCT----GCCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTA
* ** * * *
101579 CATCATAGTTTAAGTCGAGAAGGGCTATCTG--CCA
127 CAGCATAACTCAAGGCGAGAAGGGTTATCTGCACCA
* * * * * * * * * * *
101613 AAGACCCTCCAGTTCGATTACACTCAGCTTCAAGGGTACATCATTTACAGTATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGA
* * *
101678 GAAGGGTTATTTGTGACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATTATTT
65 GAAGGGTTA--TCTG-CC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTT
* * *
101743 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCA
126 ACAGCATAACTCAAGGCGAGAAGGGTTATCTG-C-ACCA
* *
101782 AAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* * * * * * * *
101847 AAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGTTTCGAGGGCACATAATTTACAA
66 AAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAG-CTCCAAGGCACATCATTTACAG
*
101912 CATAACTCAAGGCTAGAAGGGTTATCAGTG-ACCAA
130 CATAACTCAAGGCGAGAAGGGTTATC--TGCACC-A
* *
101947 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATTATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* * * * *
102012 AAGGGTTATCTGCCAAACAAAGACCTTTGAGTTCGATTACACTCAACT-CAACGACATATCATTT
66 AAGGGTTATCTG-C---CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAA-GGCACATCATTT
* * * * * * *
102076 GCGGTATAGCTC-AGGCTAGAAGGGATGTCTG--CCA
126 ACAGCATAACTCAAGGCGAGAAGGGTTATCTGCACCA
* *
102110 AAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
102155 ATAGTATAGC
Statistics
Matches: 576, Mismatches: 99, Indels: 54
0.79 0.14 0.07
Matches are distributed among these distances:
155 50 0.09
160 2 0.00
162 3 0.01
163 49 0.09
164 64 0.11
165 213 0.37
166 6 0.01
167 84 0.15
168 49 0.09
169 56 0.10
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (162 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGC
ATAACTCAAGGCGAGAAGGGTTATCTGCACCA
Found at i:102865 original size:37 final size:37
Alignment explanation
Indices: 102721--103146 Score: 350
Period size: 36 Copynumber: 12.0 Consensus size: 37
102711 TTATCTTTTA
* * *
102721 TTAAAACATTTTTAAAACATGTATATAATATATAGTTT
1 TTAAAACATTTTTGAAA-ATATATATATTATATAGTTT
* * *
102759 TGAAAACATGTTTGAAAACATTTATATATTATATAGTTT
1 TTAAAACATTTTTG-AAA-ATATATATATTATATAGTTT
* *
102798 TTAAAACA-TTTTGAAAATAAATATAATATATAGTTT
1 TTAAAACATTTTTGAAAATATATATATTATATAGTTT
*
102834 TTAAAACATTTTTTAAAATATATATATTATATAGTTT
1 TTAAAACATTTTTGAAAATATATATATTATATAGTTT
* * * * *
102871 TTAAAACA-TTTTGGAAGTAAATATAATATATAATTT
1 TTAAAACATTTTTGAAAATATATATATTATATAGTTT
102907 TTAAAACATTTTTGAAAATATATATATTATATAGTTT
1 TTAAAACATTTTTGAAAATATATATATTATATAGTTT
102944 TT-AAACA-TTTTGAAAATATATATAGTT-TA-A----
1 TTAAAACATTTTTGAAAATATATATA-TTATATAGTTT
*
102974 -AAAAACA-TTTTGAAAAACATATATATATTATATAGTTT
1 TTAAAACATTTTTG--AAA-ATATATATATTATATAGTTT
* *
103012 TGAAATCA-TTTTGAAAACT-TATA-A-TATATAGTTT
1 TTAAAACATTTTTGAAAA-TATATATATTATATAGTTT
*
103046 TAAAAACATTTTTGAAAACTATATA-ATT-T-T-G---
1 TTAAAACATTTTTGAAAA-TATATATATTATATAGTTT
* ** * *
103077 --GAAACATTTTAAAAAATATATATAATATATA-ATT
1 TTAAAACATTTTTGAAAATATATATATTATATAGTTT
* *
103111 TTAAAATACTTTTG-AAA-ATATATATTATATAGTTT
1 TTAAAACATTTTTGAAAATATATATATTATATAGTTT
103146 T
1 T
103147 CGGAAAATAT
Statistics
Matches: 319, Mismatches: 40, Indels: 61
0.76 0.10 0.15
Matches are distributed among these distances:
28 6 0.02
29 15 0.05
30 11 0.03
31 1 0.00
32 5 0.02
33 11 0.03
34 32 0.10
35 38 0.12
36 80 0.25
37 66 0.21
38 15 0.05
39 39 0.12
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
TTAAAACATTTTTGAAAATATATATATTATATAGTTT
Found at i:102873 original size:73 final size:73
Alignment explanation
Indices: 102743--103070 Score: 381
Period size: 73 Copynumber: 4.5 Consensus size: 73
102733 TAAAACATGT
* * *
102743 ATATAATATATAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAGTTTTTAAAACATT
1 ATATAATATATAGTTTTAAAAACAT-TTTTAAAA-ATATATATATTATATAGTTTTTAAAACATT
102808 TTGAAAATAA
64 TTGAAAATAA
* *
102818 ATATAATATATAGTTTTTAAAACATTTTTTAAAATATATATATTATATAGTTTTTAAAACATTTT
1 ATATAATATATAGTTTTAAAAACATTTTTAAAAATATATATATTATATAGTTTTTAAAACATTTT
* *
102883 GGAAGTAA
66 GAAAATAA
* * *
102891 ATATAATATATAATTTTTAAAACATTTTTGAAAATATATATATTATATAGTTTTT-AAACATTTT
1 ATATAATATATAGTTTTAAAAACATTTTTAAAAATATATATATTATATAGTTTTTAAAACATTTT
102955 G-----AA
66 GAAAATAA
* * * *
102958 A-AT-ATATATAGTTTAAAAAAACATTTTGAAAAACATATATATATTATATAGTTTTGAAATCAT
1 ATATAATATATAGTTT-TAAAAACATTTT-TAAAA-ATATATATATTATATAGTTTTTAAAACAT
103021 TTTGAAAACT--
63 TTTGAAAA-TAA
*
103031 -TATAATATATAGTTTTAAAAACATTTTTGAAAACTATATA
1 ATATAATATATAGTTTTAAAAACATTTTT-AAAAATATATA
103071 ATTTTGGAAA
Statistics
Matches: 222, Mismatches: 18, Indels: 29
0.83 0.07 0.11
Matches are distributed among these distances:
65 10 0.05
66 12 0.05
67 6 0.03
68 21 0.09
69 9 0.04
72 16 0.07
73 107 0.48
74 17 0.08
75 24 0.11
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (73 bp):
ATATAATATATAGTTTTAAAAACATTTTTAAAAATATATATATTATATAGTTTTTAAAACATTTT
GAAAATAA
Found at i:103042 original size:102 final size:101
Alignment explanation
Indices: 102891--103146 Score: 301
Period size: 100 Copynumber: 2.5 Consensus size: 101
102881 TTGGAAGTAA
* *
102891 ATATAATATATAATTTTTAAAA-CATTTTTGAAAATATATATATTATATAGTTTT-TAAACA-TT
1 ATATAATATATAA-TTTTAAAATCACTTTTGAAAATATATA-A-TATATAGTTTTAAAAACATTT
102953 TTGAAAA-TATATATAGTTTAAAAAAACATTTTGAAAAACATAT
63 TTGAAAACTATATA-A-TTT-AAAAAACATTTT-AAAAA-ATAT
* * *
102996 ATATATTATATAGTTTTGAAATCA-TTTTGAAAACT-TATAATATATAGTTTTAAAAACATTTTT
1 ATATAATATATAATTTTAAAATCACTTTTGAAAA-TATATAATATATAGTTTTAAAAACATTTTT
***
103059 GAAAACTATATAATTTTGGAAACATTTTAAAAAATAT
65 GAAAACTATATAATTTAAAAAACATTTTAAAAAATAT
*
103096 ATATAATATATAATTTTAAAAT-ACTTTTGAAAATATATATTATATAGTTTT
1 ATATAATATATAATTTTAAAATCACTTTTGAAAATATATAATATATAGTTTT
103147 CGGAAAATAT
Statistics
Matches: 133, Mismatches: 11, Indels: 19
0.82 0.07 0.12
Matches are distributed among these distances:
99 2 0.02
100 47 0.35
101 5 0.04
102 20 0.15
103 9 0.07
104 30 0.23
105 20 0.15
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.44
Consensus pattern (101 bp):
ATATAATATATAATTTTAAAATCACTTTTGAAAATATATAATATATAGTTTTAAAAACATTTTTG
AAAACTATATAATTTAAAAAACATTTTAAAAAATAT
Found at i:103240 original size:28 final size:29
Alignment explanation
Indices: 103176--103240 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
103166 AATAATAATA
*
103176 TTATTATTATCGTTGTTATTAATTTTTAT
1 TTATTTTTATCGTTGTTATTAATTTTTAT
* *
103205 TAATTTTTTATC-TT-TTATTAATTTTATTT
1 TTA-TTTTTATCGTTGTTATTAATTTT-TAT
103234 TTATTTT
1 TTATTTT
103241 AATTGTCCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 15 0.50
29 8 0.27
30 7 0.23
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (29 bp):
TTATTTTTATCGTTGTTATTAATTTTTAT
Found at i:104568 original size:2 final size:2
Alignment explanation
Indices: 104557--104588 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
104547 GTGTTTTTTC
*
104557 AT AT AC 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
104589 TATTACTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:106529 original size:75 final size:75
Alignment explanation
Indices: 106436--106621 Score: 239
Period size: 75 Copynumber: 2.5 Consensus size: 75
106426 ATAAATAAAG
* * * *
106436 TCAAATATCAAGACTCAAACCACAATATTAAGTTTAGAACAGTAAAATTCATAAACAAACCACAA
1 TCAAATTTCAAGACTCAAACCACAATATTAAGTCTAGAACAATAAAATCCATAAACAAACCACAA
106501 TATTAAAATA
66 TATTAAAATA
* * * * * *
106511 TCAAATTTCAAGATTCAAACCACAATATTAACTCTAGAATAATAAAATCCATAATCAAATCATAA
1 TCAAATTTCAAGACTCAAACCACAATATTAAGTCTAGAACAATAAAATCCATAAACAAACCACAA
* *
106576 TATTAAAGTG
66 TATTAAAATA
*
106586 TCAAATCTT-AAGACTCAAACCAGAATATTAAGTCTA
1 TCAAAT-TTCAAGACTCAAACCACAATATTAAGTCTA
106622 AAAAAGTATT
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
75 93 0.98
76 2 0.02
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.27
Consensus pattern (75 bp):
TCAAATTTCAAGACTCAAACCACAATATTAAGTCTAGAACAATAAAATCCATAAACAAACCACAA
TATTAAAATA
Found at i:112947 original size:21 final size:21
Alignment explanation
Indices: 112896--112948 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
112886 GTTTCCAGAT
*
112896 TCGCAACGCGAACTTCAACTA
1 TCGCAATGCGAACTTCAACTA
*
112917 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCAACTA
*
112938 TCGCATTGCGA
1 TCGCAATGCGA
112949 TTTACATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTCAACTA
Found at i:112966 original size:20 final size:20
Alignment explanation
Indices: 112938--112992 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
112928 ACTTCGACTA
*
112938 TCGCATTGCGATTTACATA-T
1 TCGCGTTGCGATTTACA-AGT
* *
112958 TCGCGTTGCGATAGTCCAAGT
1 TCGCGTTGCGAT-TTACAAGT
112979 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
112993 TCCAAGTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (20 bp):
TCGCGTTGCGATTTACAAGT
Found at i:112983 original size:21 final size:20
Alignment explanation
Indices: 112961--113541 Score: 646
Period size: 21 Copynumber: 27.9 Consensus size: 20
112951 TACATATTCG
112961 CGTTGCGATAG-TCCAAGTT
1 CGTTGCGATAGCTCCAAGTT
**
112980 CGCGTTGCGAT-TTTCCAAGTT
1 --CGTTGCGATAGCTCCAAGTT
*
113001 CATTGCGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
*
113022 CGTTGCGATAGTCCCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
113043 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
*
113064 CGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAG-CTCCAAGTT
* * *
113085 CGCTGCGATACTCTCCAAATT
1 CGTTGCGATA-GCTCCAAGTT
113106 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
113127 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
113148 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
*
113169 CGTTGCGATAATCTCCAAGTT
1 CGTTGCGAT-AGCTCCAAGTT
*
113190 CGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAG-CTCCAAGTT
113211 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
* *
113232 CGTTGTGATAGTCTCCAAATT
1 CGTTGCGATAG-CTCCAAGTT
* * *
113253 CGTTGTGATAGTCTCAAACTT
1 CGTTGCGATAG-CTCCAAGTT
*
113274 CGTTGCGATAGTCTCAAAGTT
1 CGTTGCGATAG-CTCCAAGTT
*
113295 CGTTACGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
*
113316 CGTTGCTATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
*
113337 CGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAG-CTCCAAGTT
*
113358 CGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAG-CTCCAAGTT
113379 CGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAG-CTCCAAGTT
*
113400 CGTTGCGATAATCTCCAAGTT
1 CGTTGCGAT-AGCTCCAAGTT
*
113421 CGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAG-CTCCAAGTT
* *
113442 CGTTGCGATAATCTCCAAATT
1 CGTTGCGAT-AGCTCCAAGTT
*
113463 CGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAG-CTCCAAGTT
*
113484 CGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAG-CTCCAAGTT
*
113505 CGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAG-CTCCAAGTT
*
113526 CATTGCGATAG-TCCAA
1 CGTTGCGATAGCTCCAA
113542 AATCGCAACG
Statistics
Matches: 513, Mismatches: 36, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
19 13 0.03
20 3 0.01
21 494 0.96
22 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCTCCAAGTT
Found at i:113040 original size:42 final size:42
Alignment explanation
Indices: 112961--113538 Score: 867
Period size: 42 Copynumber: 13.8 Consensus size: 42
112951 TACATATTCG
*
112961 CGTTGCGATAG--TCCAAGTTCGCGTTGCGAT--TTTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTT--CGTTGCGATAGTCTCCAAGTT
* *
113001 CATTGCGATAGTCTCCAAGTTCGTTGCGATAGTCCCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
*
113043 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
* * *
113085 CGCTGCGATACTCTCCAAATTCGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
113127 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
* *
113169 CGTTGCGATAATCTCCAAGTTCGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
* *
113211 CGTTGCGATAGTCTCCAAGTTCGTTGTGATAGTCTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
* * * *
113253 CGTTGTGATAGTCTCAAACTTCGTTGCGATAGTCTCAAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
* *
113295 CGTTACGATAGTCTCCAAGTTCGTTGCTATAGTCTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
* *
113337 CGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
*
113379 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAATCTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
* * *
113421 CGTTGCGATAGTCTCCAAATTCGTTGCGATAATCTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
* *
113463 CGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
* *
113505 CGTTGCGATAGTCTCCAAATTCATTGCGATAGTC
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
113539 CAAAATCGCA
Statistics
Matches: 494, Mismatches: 40, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
40 19 0.04
42 475 0.96
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.34
Consensus pattern (42 bp):
CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
Found at i:113070 original size:63 final size:63
Alignment explanation
Indices: 112961--113538 Score: 869
Period size: 63 Copynumber: 9.2 Consensus size: 63
112951 TACATATTCG
* * *
112961 CGTTGCGATAG--TCCAAGTTCGCGTTGCGAT--TTTCCAAGTTCATTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTT--CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
*
113022 CGTTGCGATAGTCCCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
* * * *
113085 CGCTGCGATACTCTCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
*
113148 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAATCTCCAAGTTCGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
* * *
113211 CGTTGCGATAGTCTCCAAGTTCGTTGTGATAGTCTCCAAATTCGTTGTGATAGTCT-CAAACTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAA-TT
* * * *
113274 CGTTGCGATAGTCTCAAAGTTCGTTACGATAGTCTCCAAGTTCGTTGCTATAGTCTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
* * *
113337 CGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAGTT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
* * *
113400 CGTTGCGATAATCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAATCTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
* *
113463 CGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAATT
1 CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
*
113526 CATTGCGATAGTC
1 CGTTGCGATAGTC
113539 CAAAATCGCA
Statistics
Matches: 473, Mismatches: 38, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
61 20 0.04
62 4 0.01
63 446 0.94
64 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.34
Consensus pattern (63 bp):
CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATT
Found at i:114274 original size:21 final size:21
Alignment explanation
Indices: 114248--114508 Score: 352
Period size: 21 Copynumber: 12.5 Consensus size: 21
114238 TGCGATTTTG
* *
114248 GACTATCGCAATGAATTTGGA
1 GACTATCGCAACGAACTTGGA
*
114269 GACTATCGCAACAAACTTGGA
1 GACTATCGCAACGAACTTGGA
* * *
114290 GACTATCACAACAAATTTGGA
1 GACTATCGCAACGAACTTGGA
114311 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
114332 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
114353 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
* *
114374 GACTATCACAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
114395 GACTAAT-GCAACGAACTTGGA
1 GACT-ATCGCAACGAACTTGGA
114416 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
114437 GACTATCGCAACGCACTTGGA
1 GACTATCGCAACGAACTTGGA
*
114458 GACTATCGTAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
114479 -A-AATCGCAACGCAAACTT-G-
1 GACTATCGCAACG--AACTTGGA
114498 GACTATCGCAA
1 GACTATCGCAA
114509 TGCGAATATG
Statistics
Matches: 216, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
19 8 0.04
20 5 0.02
21 201 0.93
22 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (21 bp):
GACTATCGCAACGAACTTGGA
Found at i:114933 original size:13 final size:13
Alignment explanation
Indices: 114915--114972 Score: 98
Period size: 13 Copynumber: 4.5 Consensus size: 13
114905 CATGTTGCTT
*
114915 TTTGGAGCTTCTG
1 TTTGGAGCTACTG
114928 TTTGGAGCTACTG
1 TTTGGAGCTACTG
114941 TTTGGAGCTACTG
1 TTTGGAGCTACTG
*
114954 TTTGGAGTTACTG
1 TTTGGAGCTACTG
114967 TTTGGA
1 TTTGGA
114973 TTTGCTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.14, C:0.12, G:0.31, T:0.43
Consensus pattern (13 bp):
TTTGGAGCTACTG
Found at i:115349 original size:15 final size:15
Alignment explanation
Indices: 115329--115360 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
115319 ATGATTTCTC
*
115329 TGTCTTTTGTGTTTT
1 TGTCTTTTGTGTATT
115344 TGTCTTTTGTGTATT
1 TGTCTTTTGTGTATT
115359 TG
1 TG
115361 GTTGACAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.03, C:0.06, G:0.22, T:0.69
Consensus pattern (15 bp):
TGTCTTTTGTGTATT
Found at i:117143 original size:41 final size:42
Alignment explanation
Indices: 117097--117179 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
117087 ATTTGACCAA
*
117097 ATCCACA-TAGTAAAACAATTAAAAGTCTATAATTTATCTCT
1 ATCCACATTAATAAAACAATTAAAAGTCTATAATTTATCTCT
* * * *
117138 ATCCACATTAATACAGCAATTAAAATTTTATAATTTATCTCT
1 ATCCACATTAATAAAACAATTAAAAGTCTATAATTTATCTCT
117180 TCTTCGTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 7 0.19
42 29 0.81
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.37
Consensus pattern (42 bp):
ATCCACATTAATAAAACAATTAAAAGTCTATAATTTATCTCT
Found at i:121995 original size:20 final size:20
Alignment explanation
Indices: 121970--122007 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
121960 TATTAGGGTT
121970 AAATGATATTTTAATATTTG
1 AAATGATATTTTAATATTTG
*
121990 AAATGATATTTTATTATT
1 AAATGATATTTTAATATT
122008 ATTTTAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
AAATGATATTTTAATATTTG
Found at i:122157 original size:29 final size:29
Alignment explanation
Indices: 122125--122219 Score: 66
Period size: 29 Copynumber: 3.2 Consensus size: 29
122115 AATTAGTCCT
122125 CAAACTTTTAAACATTCCAATTTCATCCC
1 CAAACTTTTAAACATTCCAATTTCATCCC
* * * * * * *
122154 CAAA-TCATGACCATCATTCTAAATTGATCCT
1 CAAACT-TTTA--AACATTCCAATTTCATCCC
* * *
122185 CAAACTTTTGAATATTCCAATTTCTTCCC
1 CAAACTTTTAAACATTCCAATTTCATCCC
122214 CAAACT
1 CAAACT
122220 ATGGCCATAA
Statistics
Matches: 45, Mismatches: 17, Indels: 8
0.64 0.24 0.11
Matches are distributed among these distances:
28 1 0.02
29 24 0.53
31 19 0.42
32 1 0.02
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (29 bp):
CAAACTTTTAAACATTCCAATTTCATCCC
Found at i:122202 original size:60 final size:60
Alignment explanation
Indices: 122107--122272 Score: 203
Period size: 60 Copynumber: 2.8 Consensus size: 60
122097 AATATAAATT
* *
122107 TCATTCTAAATT-AGTCCTCAAACTTTTAAACATTCCAATTTCATCCCCAAA-TCATGACCA
1 TCATTCTAAATTGA-TCCTCAAACTTTTGAATATTCCAATTTCATCCCCAAACT-ATGACCA
* *
122167 TCATTCTAAATTGATCCTCAAACTTTTGAATATTCCAATTTCTTCCCCAAACTATGGCCA
1 TCATTCTAAATTGATCCTCAAACTTTTGAATATTCCAATTTCATCCCCAAACTATGACCA
* * * * *
122227 TAATTCTAGATTGGTCC-CTAAACTTTTGAATCTTCCAATTCCATCC
1 TCATTCTAAATTGATCCTC-AAACTTTTGAATATTCCAATTTCATCC
122273 AAATATGTTA
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
59 1 0.01
60 90 0.97
61 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (60 bp):
TCATTCTAAATTGATCCTCAAACTTTTGAATATTCCAATTTCATCCCCAAACTATGACCA
Found at i:122555 original size:60 final size:60
Alignment explanation
Indices: 122431--122555 Score: 135
Period size: 60 Copynumber: 2.1 Consensus size: 60
122421 TTGATGGATC
* * * * * *
122431 AATTTAGAATTAAGGTCATATTTTGGGTATGAAATTGAAATCCTCAAAATTTTGAGAACT
1 AATTTAGAATGAAGGTCATATTTTGGGTATGAAATTGAAATACTAAAAAATTTAAGAACA
* * * * *
122491 AATTTAGAATGAGGGTCATATTTTAGGG-ATGGAATTGGAATATTAAAAAATTTAAGGACA
1 AATTTAGAATGAAGGTCATATTTT-GGGTATGAAATTGAAATACTAAAAAATTTAAGAACA
122551 AATTT
1 AATTT
122556 GAAATAGGAG
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
60 50 0.94
61 3 0.06
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (60 bp):
AATTTAGAATGAAGGTCATATTTTGGGTATGAAATTGAAATACTAAAAAATTTAAGAACA
Found at i:122726 original size:23 final size:23
Alignment explanation
Indices: 122696--122767 Score: 135
Period size: 23 Copynumber: 3.1 Consensus size: 23
122686 AAAGAAAAGC
122696 ATGTAACACTCTATGAACGTTAT
1 ATGTAACACTCTATGAACGTTAT
*
122719 ATGTAACACTCTATGAACTTTAT
1 ATGTAACACTCTATGAACGTTAT
122742 ATGTAACACTCTATGAACGTTAT
1 ATGTAACACTCTATGAACGTTAT
122765 ATG
1 ATG
122768 CACATTTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (23 bp):
ATGTAACACTCTATGAACGTTAT
Found at i:122940 original size:15 final size:15
Alignment explanation
Indices: 122917--122973 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
122907 GTTTACTAAA
* *
122917 GAATTATTAAGCGCT
1 GAATGATTAAGCGTT
*
122932 GAATGATTAAGCATT
1 GAATGATTAAGCGTT
**
122947 GAATGATTCAAATGTT
1 GAATGATT-AAGCGTT
122963 GAATGATTAAG
1 GAATGATTAAG
122974 AGGCTCTGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 22 0.65
16 12 0.35
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (15 bp):
GAATGATTAAGCGTT
Found at i:123197 original size:2 final size:2
Alignment explanation
Indices: 123190--123224 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
123180 CCCCTAAATT
123190 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 T
123225 CAGATGAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:125093 original size:8 final size:8
Alignment explanation
Indices: 125061--125103 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
125051 AAATATATCA
125061 ATAATAAT
1 ATAATAAT
*
125069 ATGAATTAT
1 AT-AATAAT
*
125078 AAAATAAT
1 ATAATAAT
125086 ATAATAAT
1 ATAATAAT
125094 ATAATAAT
1 ATAATAAT
125102 AT
1 AT
125104 TTTTTAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 24 0.80
9 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (8 bp):
ATAATAAT
Found at i:125153 original size:16 final size:16
Alignment explanation
Indices: 125134--125170 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
125124 ATATTAATTT
125134 ATAA-ATATTATTTATA
1 ATAATATATT-TTTATA
125150 ATAATATATTTTTATA
1 ATAATATATTTTTATA
125166 A-AATA
1 ATAATA
125171 ATTGGATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 11 0.55
17 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAATATATTTTTATA
Found at i:125170 original size:15 final size:14
Alignment explanation
Indices: 125124--125170 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
125114 TAATTAGGAT
125124 ATATTAATTTAT-AA
1 ATATT-ATTTATAAA
125138 ATATTATTTATAATA
1 ATATTATTTATAA-A
*
125153 ATATATTTTTATAAA
1 ATAT-TATTTATAAA
125168 ATA
1 ATA
125171 ATTGGATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 9 0.31
16 8 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATTATTTATAAA
Found at i:125553 original size:38 final size:40
Alignment explanation
Indices: 125511--125593 Score: 104
Period size: 37 Copynumber: 2.2 Consensus size: 40
125501 ATATATATAT
*
125511 TAATATAGTATAATTTTT-GAAAA-TATTTTTGAAAA-ATA
1 TAATATA-TATAATTTTTAGAAAACGATTTTTGAAAACATA
*
125549 T-A-ATATATAATTTTTAGAAAACGGTTTTTGAAAACATA
1 TAATATATATAATTTTTAGAAAACGATTTTTGAAAACATA
125587 TAATATA
1 TAATATA
125594 CTGTTTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
35 10 0.26
36 8 0.21
37 11 0.29
38 5 0.13
39 1 0.03
40 3 0.08
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.42
Consensus pattern (40 bp):
TAATATATATAATTTTTAGAAAACGATTTTTGAAAACATA
Found at i:125593 original size:36 final size:35
Alignment explanation
Indices: 125512--125622 Score: 113
Period size: 36 Copynumber: 3.2 Consensus size: 35
125502 TATATATATT
* **
125512 AATATAGTATAATTTTT-GAAAA-TATTTTTGAAA
1 AATATAATATAATTTTTAGAAAACGGTTTTTGAAA
125545 AATATAATATATAATTTTTAGAAAACGGTTTTTGAAA
1 AATAT-A-ATATAATTTTTAGAAAACGGTTTTTGAAA
* *
125582 ACATATAATATACTGTTTA-AAAATCGGTTTTT-AAA
1 A-ATATAATATAATTTTTAGAAAA-CGGTTTTTGAAA
125617 AATATA
1 AATATA
125623 TATTATATAG
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
33 5 0.07
34 6 0.09
35 18 0.27
36 23 0.34
37 11 0.16
38 4 0.06
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (35 bp):
AATATAATATAATTTTTAGAAAACGGTTTTTGAAA
Found at i:125655 original size:34 final size:34
Alignment explanation
Indices: 125574--125743 Score: 150
Period size: 33 Copynumber: 4.9 Consensus size: 34
125564 AGAAAACGGT
* * * *
125574 TTTTGAAAACATATA-ATATACTGTTTAAAAATCGGT
1 TTTTGAAAATATATATATATAGT-TTTCAAAAT--GA
* *
125610 TTTTAAAAATATATATTATATAGTTTTGAAAATGA
1 TTTTGAAAATATATA-TATATAGTTTTCAAAATGA
* **
125645 CTTTTGAATATATATAT-TATAG-TTTCCCAATGA
1 -TTTTGAAAATATATATATATAGTTTTCAAAATGA
* *
125678 TTTTTGAAAAAATATATATATAGTTTTCAAAA-CA
1 -TTTTGAAAATATATATATATAGTTTTCAAAATGA
*
125712 TTTTGAAAATATATATATATAGTTTTGAAAAT
1 TTTTGAAAATATATATATATAGTTTTCAAAAT
125744 ATATAATATA
Statistics
Matches: 110, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
33 51 0.46
34 11 0.10
35 8 0.07
36 26 0.24
37 8 0.07
38 6 0.05
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (34 bp):
TTTTGAAAATATATATATATAGTTTTCAAAATGA
Found at i:125738 original size:22 final size:23
Alignment explanation
Indices: 125712--125765 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
125702 TTTCAAAACA
125712 TTTTGAAAATATAT-ATATATAG
1 TTTTGAAAATATATAATATATAG
125734 TTTTGAAAATATATAATATATAG
1 TTTTGAAAATATATAATATATAG
125757 TTTTGAAAA
1 TTTTGAAAA
125766 CATTTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 14 0.45
23 17 0.55
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.44
Consensus pattern (23 bp):
TTTTGAAAATATATAATATATAG
Found at i:125754 original size:124 final size:134
Alignment explanation
Indices: 125608--125906 Score: 340
Period size: 124 Copynumber: 2.3 Consensus size: 134
125598 TTAAAAATCG
* * * *
125608 GTTTTTAAAAATATATATTATATAGTTTTGAAAATGACTTTT-GAATATATAT-AT-TAT-AGTT
1 GTTTTTGAAAATATATAATATATAGTTTTGAAAATCA-TTTTAAAATATATATAATATATAAGTT
** * *
125669 TCCCAATGA-TTTTTGAAAAA-ATAT-ATATATAG-TTTTCAAAACA-TTTTGAAAA-TATATAT
65 TCAAAAT-ATTTTTTGAAAAATATATAATATATAGTTTTTAAAAACATTTTTAAAAAGTATATAT
125728 -ATATA
129 AATATA
*
125733 G-TTTTGAAAATATATAATATATAGTTTTGAAAA-CATTTTAAAAATATATATAATATATAATTT
1 GTTTTTGAAAATATATAATATATAGTTTTGAAAATCATTTT-AAAATATATATAATATATAAGTT
* *
125796 TGAAAATATTTTTTGAAAAATATATAATATATAGTTTTTAAAAATATTTTTAAAAAGTATATATA
65 TCAAAATATTTTTTGAAAAATATATAATATATAGTTTTTAAAAACATTTTTAAAAAGTATATATA
125861 ATATA
130 ATATA
* *
125866 GTTTTTGAAAACATATGATATATAGCTTTT-AAAAT-ATTTTA
1 GTTTTTGAAAATATATAATATATAG-TTTTGAAAATCATTTTA
125907 TTTTCAGAAA
Statistics
Matches: 146, Mismatches: 13, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
122 4 0.03
123 1 0.01
124 39 0.27
125 3 0.02
126 4 0.03
127 18 0.12
128 4 0.03
129 8 0.05
130 9 0.06
131 8 0.05
132 7 0.05
133 7 0.05
134 30 0.21
135 4 0.03
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (134 bp):
GTTTTTGAAAATATATAATATATAGTTTTGAAAATCATTTTAAAATATATATAATATATAAGTTT
CAAAATATTTTTTGAAAAATATATAATATATAGTTTTTAAAAACATTTTTAAAAAGTATATATAA
TATA
Found at i:125766 original size:56 final size:58
Alignment explanation
Indices: 125679--125804 Score: 186
Period size: 56 Copynumber: 2.2 Consensus size: 58
125669 TCCCAATGAT
* * *
125679 TTTTGAAAAAATATATATATAGTTTTCAAAACATTTT-GAAA-ATATAT-ATATATAG
1 TTTTGAAAATATATATATATAGTTTTCAAAACATTTTAAAAATATATATAATATATAA
*
125734 TTTTGAAAATATATAATATATAGTTTTGAAAACATTTTAAAAATATATATAATATATAA
1 TTTTGAAAATATAT-ATATATAGTTTTCAAAACATTTTAAAAATATATATAATATATAA
125793 TTTTGAAAATAT
1 TTTTGAAAATAT
125805 TTTTTGAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
55 13 0.21
56 22 0.35
57 3 0.05
58 6 0.10
59 19 0.30
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.43
Consensus pattern (58 bp):
TTTTGAAAATATATATATATAGTTTTCAAAACATTTTAAAAATATATATAATATATAA
Found at i:125787 original size:36 final size:38
Alignment explanation
Indices: 125742--125879 Score: 171
Period size: 37 Copynumber: 3.7 Consensus size: 38
125732 AGTTTTGAAA
125742 ATATATAATATATAG-TTTTGAAAACA-TTTTAAAAAT
1 ATATATAATATATAGTTTTTGAAAACATTTTTAAAAAT
* * *
125778 ATATATAATATATA-ATTTTGAAAATATTTTTTGAAAA-
1 ATATATAATATATAGTTTTTGAAAACA-TTTTTAAAAAT
* *
125815 ATATATAATATATAGTTTTTAAAAATATTTTTAAAAAGT
1 ATATATAATATATAGTTTTTGAAAACATTTTTAAAAA-T
125854 ATATAT-A-ATATAGTTTTTGAAAACAT
1 ATATATAATATATAGTTTTTGAAAACAT
125880 ATGATATATA
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
36 24 0.27
37 40 0.45
38 19 0.21
39 6 0.07
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (38 bp):
ATATATAATATATAGTTTTTGAAAACATTTTTAAAAAT
Done.