Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 40
Found at i:6846147 original size:33 final size:33
Alignment explanation
Indices: 6846105--6846231 Score: 195
Period size: 33 Copynumber: 3.8 Consensus size: 33
6846095 ATTAAATTCG
6846105 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
*
6846138 CGTTGCGATTTTCATTTCGCATTGCGAAAT-AC-
1 CGTTGCGATTTTCATTTCGCATTGCG-ATTCACT
* *
6846170 CATATGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGT-TGCGATTTTCATTTCGCATTGCGATTCACT
6846204 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
6846232 AGTAATTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
32 4 0.05
33 77 0.91
34 4 0.05
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:6847885 original size:19 final size:18
Alignment explanation
Indices: 6847861--6847957 Score: 75
Period size: 19 Copynumber: 5.6 Consensus size: 18
6847851 TCATTTGATC
6847861 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
6847880 ATCGCAA-CG--AT-ATA
1 ATCGCAAGCGAAATGAAA
6847894 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
6847913 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
6847927 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
6847946 ATCGCAACGCGA
1 ATCGCAA-GCGA
6847958 TTTTAGTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 22
0.69 0.07 0.25
Matches are distributed among these distances:
14 16 0.26
15 5 0.08
16 4 0.07
17 4 0.07
18 5 0.08
19 27 0.44
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:6847903 original size:33 final size:33
Alignment explanation
Indices: 6847861--6847954 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
6847851 TCATTTGATC
* *
6847861 ATCGCAATGCGAAATGAAAATCGCAACGATATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
6847894 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
6847927 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
6847955 CGATTTTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:6847976 original size:19 final size:19
Alignment explanation
Indices: 6847954--6848011 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
6847944 AAATCGCAAC
6847954 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
6847973 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
*
6847987 GCGATTTTCA-TTACGCGTT
1 GCGATTTT-AGTTTCGCGTT
6848006 GCGATT
1 GCGATT
6848012 CTCTCGTTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
14 12 0.38
16 1 0.03
18 1 0.03
19 18 0.56
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:6848004 original size:33 final size:33
Alignment explanation
Indices: 6847954--6848076 Score: 158
Period size: 33 Copynumber: 3.7 Consensus size: 33
6847944 AAATCGCAAC
* *
6847954 GCGATTTT-AGTTTCGCGTTGCGATTTTGTCGTT
1 GCGATTTTCA-TTTCGCGTTGCGATTCTCTCGTT
*
6847987 GCGATTTTCATTACGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
6848020 GCGATTTTCATTTCGCATTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
** *
6848053 GCGATAGTCAATTTCGTGTTGCGA
1 GCGATTTTC-ATTTCGCGTTGCGA
6848077 CATGTTGTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
33 66 0.84
34 13 0.16
ACGTcount: A:0.13, C:0.20, G:0.24, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:6848021 original size:14 final size:14
Alignment explanation
Indices: 6848002--6848057 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
6847992 TTTCATTACG
6848002 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6848016 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
6848033 CGCATTGCGATTCTCT
1 CG--TTGCGATTCTCT
6848049 CGTTGCGAT
1 CGTTGCGAT
6848058 AGTCAATTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 15 0.43
16 7 0.20
17 7 0.20
19 6 0.17
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6848042 original size:19 final size:18
Alignment explanation
Indices: 6847985--6848044 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
6847975 GATTTTGTCG
*
6847985 TTGCGATTTTCATTACGC
1 TTGCGATTTTCATTTCGC
*
6848003 GTTGCGA--TTC-TCTCG-
1 -TTGCGATTTTCATTTCGC
6848018 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
6848036 ATTGCGATT
1 -TTGCGATT
6848045 CTCTCGTTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 6 0.18
16 6 0.18
17 7 0.21
19 14 0.42
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.45
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGC
Found at i:6850092 original size:20 final size:19
Alignment explanation
Indices: 6850069--6850136 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
6850059 GAAACTTAAA
6850069 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
6850089 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
6850109 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
6850128 ATCGCAACG
1 ATCGCAACG
6850137 ACAAAATTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:6850159 original size:33 final size:33
Alignment explanation
Indices: 6850109--6850206 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
6850099 GGAAATGGCT
6850109 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
6850142 ATTGCAAAGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
6850175 ATCGCAATGCGAAATG-AAATCGCAACG-CAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
6850206 A
1 A
6850207 CACAAATCGC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 5 0.08
32 11 0.18
33 45 0.74
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:6850177 original size:14 final size:14
Alignment explanation
Indices: 6850125--6850181 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
6850115 ATGCGAAATG
6850125 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
6850139 AAAATTGCAAAGCGAAATG
1 AAAATCGC-AA-CG--A-C
6850158 AAAATCGCAACGAC
1 AAAATCGCAACGAC
6850172 AAAATCGCAA
1 AAAATCGCAA
6850182 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 17 0.50
15 3 0.09
16 2 0.06
17 2 0.06
18 3 0.09
19 7 0.21
ACGTcount: A:0.53, C:0.21, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:6850235 original size:19 final size:18
Alignment explanation
Indices: 6850213--6850309 Score: 66
Period size: 19 Copynumber: 5.6 Consensus size: 18
6850203 AAAACACAAA
6850213 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
* *
6850232 TCGCGTTACGA-TTT--TG
1 TCGC-TTGCGATTTTCATT
*
6850248 TCG-TTGCGATTATCATT
1 TCGCTTGCGATTTTCATT
*
6850265 TCGCATTGCGA-TTT--TG
1 TCGC-TTGCGATTTTCATT
6850281 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
6850298 TCGCTTTGCGAT
1 TCGC-TTGCGAT
6850310 AGCCATTTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 20
0.67 0.10 0.23
Matches are distributed among these distances:
14 11 0.19
15 5 0.08
16 8 0.14
17 8 0.14
18 5 0.08
19 22 0.37
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:6850257 original size:14 final size:14
Alignment explanation
Indices: 6850235--6850293 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
6850225 TTTCATTTCG
*
6850235 CGTTACGATTTTGT
1 CGTTGCGATTTTGT
*
6850249 CGTTGCGATTATCATTT
1 CGTTGCGATT-T--TGT
6850266 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
6850282 CGTTGCGATTTT
1 CGTTGCGATTTT
6850294 CATTTCGCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 19 0.51
15 1 0.03
16 4 0.11
17 4 0.11
18 1 0.03
19 8 0.22
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:6850307 original size:33 final size:33
Alignment explanation
Indices: 6850218--6850309 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
6850208 ACAAATCGCA
* *
6850218 TTGCGATTTTCATTTCGCGTTACGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
6850251 TTGCGATTATCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
6850284 TTGCGATTTTCATTTCGCTTTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
6850310 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:6850316 original size:19 final size:20
Alignment explanation
Indices: 6850294--6850348 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
6850284 TTGCGATTTT
*
6850294 CATTT-CGCTTTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
6850313 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
* *
6850333 CATTTTCGTGTTGCGA
1 CATTTCCGCGTTGCGA
6850349 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.38
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:6850856 original size:18 final size:18
Alignment explanation
Indices: 6850830--6850874 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6850820 GTCGATCAGA
*
6850830 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
6850848 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
6850866 TGATGGCTC
1 TGATGGCTC
6850875 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:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:6852242 original size:20 final size:20
Alignment explanation
Indices: 6852194--6852252 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
6852184 AATAGTTTCT
** *
6852194 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
6852214 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
6852234 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
6852253 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:6852817 original size:16 final size:16
Alignment explanation
Indices: 6852796--6852828 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6852786 GATTTTGTAT
6852796 TATCGCATTGCGATAG
1 TATCGCATTGCGATAG
6852812 TATCGCATTGCGATAG
1 TATCGCATTGCGATAG
6852828 T
1 T
6852829 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (16 bp):
TATCGCATTGCGATAG
Found at i:6852835 original size:20 final size:19
Alignment explanation
Indices: 6852715--6852845 Score: 88
Period size: 20 Copynumber: 6.7 Consensus size: 19
6852705 CGCTTTGAAA
*
6852715 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGA-TA-GTAGT
* * *
6852736 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGT-AGT
* *
6852756 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
* * * *
6852776 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
6852797 ATCGCATTGCG--A-TAGT
1 ATCGCATTGCGATAGTAGT
6852813 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGT-AGT
6852833 ATCGCATTGCGAT
1 ATCGCATTGCGAT
6852846 TTTCCCAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
16 14 0.16
18 1 0.01
19 3 0.03
20 48 0.53
21 22 0.24
22 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:6852864 original size:57 final size:57
Alignment explanation
Indices: 6852756--6852866 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
6852746 GAAAGTCAGA
* * * ** *
6852756 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGT
* *
6852813 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATCGCATTGCGAT
6852867 TTACTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 43 0.96
58 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (57 bp):
ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGT
Found at i:6852956 original size:21 final size:21
Alignment explanation
Indices: 6852916--6852956 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6852906 ACTGTAGACA
** *
6852916 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
6852937 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
6852957 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:6863055 original size:37 final size:36
Alignment explanation
Indices: 6863006--6863079 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 36
6862996 ATTAAATCTT
*
6863006 TTTTATATTTTAAATTTTGTAAA-AAAATTATATAAA
1 TTTTATAATTTAAATTTTGTAAAGAAAA-TATATAAA
*
6863042 TTTTATGAATTTAAATTTTTTAAAGAAAATATATAAA
1 TTTTAT-AATTTAAATTTTGTAAAGAAAATATATAAA
6863079 T
1 T
6863080 ATTTTTCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 6 0.18
37 24 0.71
38 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (36 bp):
TTTTATAATTTAAATTTTGTAAAGAAAATATATAAA
Found at i:6864837 original size:22 final size:22
Alignment explanation
Indices: 6864790--6864843 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
6864780 TAGTATAATT
*
6864790 ATAAATTAGTTAAAAATTTAAAG
1 ATAAATTA-TTAAAAATTAAAAG
*
6864813 ATAAATTATTTAAAA-TAAAATG
1 ATAAATTATTAAAAATTAAAA-G
6864835 ATAAATTAT
1 ATAAATTAT
6864844 ACTAGTGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 16 0.57
23 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (22 bp):
ATAAATTATTAAAAATTAAAAG
Found at i:6872752 original size:27 final size:27
Alignment explanation
Indices: 6872708--6872812 Score: 77
Period size: 30 Copynumber: 3.7 Consensus size: 27
6872698 AAATTAAAGA
* * *
6872708 ATATTTTATATATCTTAAATTTTAAA-
1 ATATTTTTTTTATTTTAAATTTTAAAT
* *
6872734 ATTATTTTTTTTGTTTTAACTTATTAAAT
1 A-TATTTTTTTTATTTTAAATT-TTAAAT
* *
6872763 ATATTTTATTTTTTTTCTTAATTTATTAAAT
1 ATA-TTT-TTTTTATT-TTAAATT-TTAAAT
6872794 ATATTTATTTTTATTTTAA
1 ATATTT-TTTTTATTTTAA
6872813 TGTAGAAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
26 1 0.02
27 15 0.23
28 7 0.11
29 8 0.12
30 18 0.28
31 16 0.25
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
ATATTTTTTTTATTTTAAATTTTAAAT
Found at i:6872789 original size:31 final size:30
Alignment explanation
Indices: 6872740--6872836 Score: 115
Period size: 31 Copynumber: 3.2 Consensus size: 30
6872730 TAAAATTATT
*
6872740 TTTTTTGTTTTAACTTATTAAATATATTTTA
1 TTTTTT-TTTTAATTTATTAAATATATTTTA
6872771 TTTTTTTTCTTAATTTATTAAATATA-TTTA
1 TTTTTTTT-TTAATTTATTAAATATATTTTA
* * **
6872801 TTTTTATTTTAATGTAGAAATATATATTTTA
1 TTTTTTTTTTAATTTATTAA-ATATATTTTA
6872832 TTTTT
1 TTTTT
6872837 ATCATAAGTT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
29 9 0.16
30 18 0.31
31 31 0.53
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (30 bp):
TTTTTTTTTTAATTTATTAAATATATTTTA
Found at i:6872792 original size:59 final size:60
Alignment explanation
Indices: 6872720--6872836 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 60
6872710 ATTTTATATA
* **
6872720 TCTTAAATTTTAAA-ATTATTT-TTTTTGTTTTAACT-TATTAA-ATATATTTTATTTTTTT
1 TCTTAAATTTTAAATA-TATTTATTTTTATTTTAA-TGTAGAAATATATATTTTATTTTTTT
*
6872778 TCTTAATTTATTAAATATATTTATTTTTATTTTAATGTAGAAATATATATTTTATTTTT
1 TCTTAAATT-TTAAATATATTTATTTTTATTTTAATGTAGAAATATATATTTTATTTTT
6872837 ATCATAAGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
58 8 0.16
59 11 0.22
60 16 0.32
61 15 0.30
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (60 bp):
TCTTAAATTTTAAATATATTTATTTTTATTTTAATGTAGAAATATATATTTTATTTTTTT
Found at i:6872851 original size:30 final size:30
Alignment explanation
Indices: 6872792--6872851 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
6872782 AATTTATTAA
**
6872792 ATATATTTATTTTTATTTTAATGTAGAAAT
1 ATATATTTATTTTTATCATAATGTAGAAAT
*
6872822 ATATATTTTATTTTTATCATAA-GTTGAAAT
1 ATATA-TTTATTTTTATCATAATGTAGAAAT
6872852 TTATTTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.55
Consensus pattern (30 bp):
ATATATTTATTTTTATCATAATGTAGAAAT
Found at i:6873106 original size:29 final size:29
Alignment explanation
Indices: 6873051--6873137 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
6873041 TTATATAATG
* * *
6873051 ATAAAATATATTTTTAATTTAAAATAAAA
1 ATAAAAAATATTTTTAAGTGAAAATAAAA
**
6873080 ATAAAAAATATTTTTAAGTGATGATAAAAA
1 ATAAAAAATATTTTTAAGTGAAAAT-AAAA
** *
6873110 ATATTTAAATATATTTTAAGTTAAAATA
1 ATA-AAAAATAT-TTTTAAGTGAAAATA
6873138 TTTTTAAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
29 20 0.44
30 7 0.16
31 7 0.16
32 11 0.24
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (29 bp):
ATAAAAAATATTTTTAAGTGAAAATAAAA
Found at i:6873193 original size:22 final size:22
Alignment explanation
Indices: 6873141--6873194 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
6873131 TAAAATATTT
* *
6873141 TTAAAAAAAATGTGTTTTTAAA
1 TTAAAATAAATATGTTTTTAAA
** * *
6873163 TTATGATAAATATTTTTTTATA
1 TTAAAATAAATATGTTTTTAAA
6873185 TTAAAATAAA
1 TTAAAATAAA
6873195 AATAAATATA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (22 bp):
TTAAAATAAATATGTTTTTAAA
Found at i:6873256 original size:30 final size:29
Alignment explanation
Indices: 6873192--6873299 Score: 107
Period size: 29 Copynumber: 3.7 Consensus size: 29
6873182 ATATTAAAAT
6873192 AAAAAT-AAATATATTTAATAAGTTAAGA
1 AAAAATAAAATATATTTAATAAGTTAAGA
6873220 AAAAATAAAATATATTTAATAAGTTTAA-A
1 AAAAATAAAATATATTTAATAAG-TTAAGA
* *
6873249 CAAAAATAAAAGATAATTTTAA-AATTTAAG-
1 -AAAAATAAAATAT-A-TTTAATAAGTTAAGA
* *
6873279 ATATATAAAATATTATTTAAT
1 AAAAATAAAATA-TATTTAAT
6873300 TTTGAATAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
28 11 0.16
29 27 0.40
30 21 0.31
31 3 0.04
32 5 0.07
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAAATAAAATATATTTAATAAGTTAAGA
Found at i:6875567 original size:26 final size:27
Alignment explanation
Indices: 6875538--6875633 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 27
6875528 TAAATCTCTA
6875538 AATAAATATTAAAAAATTAAA-TTTAT
1 AATAAATATTAAAAAATTAAACTTTAT
* *
6875564 AATATTAAATATTATAAAAAATAAATTTTAAT
1 -A-A-TAAATATTA-AAAAATTAAACTTT-AT
* *
6875596 AATAAGTATTAAAAACAATTAAACTCTAT
1 AATAAATATT-AAAA-AATTAAACTTTAT
*
6875625 AATTAATAT
1 AATAAATAT
6875634 AATTTTTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 28 0.51
30 19 0.35
31 4 0.07
32 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (27 bp):
AATAAATATTAAAAAATTAAACTTTAT
Found at i:6875570 original size:14 final size:15
Alignment explanation
Indices: 6875540--6875580 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
6875530 AATCTCTAAA
* *
6875540 TAAATATTAAAAAAT
1 TAAATATTATAATAT
6875555 TAAAT-TTATAATAT
1 TAAATATTATAATAT
6875569 TAAATATTATAA
1 TAAATATTATAA
6875581 AAAATAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAATATTATAATAT
Found at i:6875572 original size:29 final size:28
Alignment explanation
Indices: 6875538--6875610 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
6875528 TAAATCTCTA
*
6875538 AATAAATATTAAAAAATTAAATTTATAAT
1 AATAAATATTAAAAAAATAAATTT-TAAT
*
6875567 ATTAAATATTATAAAAAATAAATTTTAAT
1 AATAAATATTA-AAAAAATAAATTTTAAT
*
6875596 AATAAGTATTAAAAA
1 AATAAATATTAAAAA
6875611 CAATTAAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 4 0.10
29 23 0.59
30 12 0.31
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (28 bp):
AATAAATATTAAAAAAATAAATTTTAAT
Found at i:6879337 original size:28 final size:28
Alignment explanation
Indices: 6879304--6879363 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
6879294 TAGTTTACCG
* * *
6879304 TTTCTGAATATCGTTCGATTTATATCCA
1 TTTCTGAAAATCCTCCGATTTATATCCA
6879332 TTTCTGAAAATCCTCCGATTTATATCCA
1 TTTCTGAAAATCCTCCGATTTATATCCA
6879360 TTTC
1 TTTC
6879364 ATTGCTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (28 bp):
TTTCTGAAAATCCTCCGATTTATATCCA
Found at i:6879620 original size:17 final size:17
Alignment explanation
Indices: 6879598--6879634 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6879588 GATAAAAAGT
6879598 TTGCATCTAGA-CTCTGC
1 TTGCATCTAGATC-CTGC
6879615 TTGCATCTAGATCCTGC
1 TTGCATCTAGATCCTGC
6879632 TTG
1 TTG
6879635 TGATCTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.38
Consensus pattern (17 bp):
TTGCATCTAGATCCTGC
Found at i:6880628 original size:13 final size:14
Alignment explanation
Indices: 6880610--6880641 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6880600 CTACAATATG
6880610 ATTTTT-GTGTTAT
1 ATTTTTAGTGTTAT
6880623 ATTTTTAGTGTTAT
1 ATTTTTAGTGTTAT
6880637 ATTTT
1 ATTTT
6880642 CTTACTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (14 bp):
ATTTTTAGTGTTAT
Found at i:6881081 original size:15 final size:15
Alignment explanation
Indices: 6881061--6881091 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6881051 CAACATATAG
6881061 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
6881076 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
6881091 A
1 A
6881092 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:6881272 original size:20 final size:20
Alignment explanation
Indices: 6881247--6881288 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
6881237 ATCCTATTCC
6881247 CTGGTAATCTTTTATTCTCA
1 CTGGTAATCTTTTATTCTCA
6881267 CTGGTAATCTTTTATTCTCA
1 CTGGTAATCTTTTATTCTCA
6881287 CT
1 CT
6881289 TATAATCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.50
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCTCA
Found at i:6881294 original size:20 final size:20
Alignment explanation
Indices: 6881251--6881297 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
6881241 TATTCCCTGG
*
6881251 TAATCTTTTATTCTCACTGG
1 TAATCTTTTATTCTCACTGA
*
6881271 TAATCTTTTATTCTCACTTA
1 TAATCTTTTATTCTCACTGA
6881291 TAATCTT
1 TAATCTT
6881298 ACATTTCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.04, T:0.53
Consensus pattern (20 bp):
TAATCTTTTATTCTCACTGA
Found at i:6893080 original size:31 final size:31
Alignment explanation
Indices: 6893044--6893168 Score: 162
Period size: 31 Copynumber: 4.0 Consensus size: 31
6893034 CCCGAAGGAT
* * *
6893044 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
6893075 CAGTCCATATGTCCCGAAGAAAATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
6893106 CAGTCCATATGCCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* * *
6893137 CAATCCATATATCCTGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
6893168 C
1 C
6893169 CCTCGACCCT
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
31 82 0.99
32 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:6893584 original size:21 final size:21
Alignment explanation
Indices: 6893558--6893609 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
6893548 ATGAAGAGGT
6893558 ATCGATGCACCTTGATAGTGC
1 ATCGATGCACCTTGATAGTGC
6893579 ATCGATGCACCTTGATAGTGC
1 ATCGATGCACCTTGATAGTGC
6893600 ATCGATGCAC
1 ATCGATGCAC
6893610 TCTGTTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (21 bp):
ATCGATGCACCTTGATAGTGC
Found at i:6893667 original size:21 final size:21
Alignment explanation
Indices: 6893638--6893677 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
6893628 TTTGAGCAGA
6893638 AAAATCATCTCCAAACGGCTCC
1 AAAATCATC-CCAAACGGCTCC
*
6893660 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
6893678 ATATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:6896887 original size:43 final size:43
Alignment explanation
Indices: 6896839--6896921 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
6896829 CGAATGTAAA
*
6896839 TAGTGTACCGATGCACTGCTACAATGCATCGATACAGTCACTG
1 TAGTGTACCGATGCACTACTACAATGCATCGATACAGTCACTG
* *
6896882 TAGTGTACCGATGCACTACTACAGTGCATCGATGCAGTCA
1 TAGTGTACCGATGCACTACTACAATGCATCGATACAGTCA
6896922 TTGTTCACAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (43 bp):
TAGTGTACCGATGCACTACTACAATGCATCGATACAGTCACTG
Found at i:6896907 original size:21 final size:21
Alignment explanation
Indices: 6896840--6896917 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 21
6896830 GAATGTAAAT
* *
6896840 AGTGTACCGATGCACTGCTAC
1 AGTGCACCGATGCACTACTAC
* * * * **
6896861 AATGCATCGATACAGTCACTGT
1 AGTGCACCGATGCACT-ACTAC
*
6896883 AGTGTACCGATGCACTACTAC
1 AGTGCACCGATGCACTACTAC
*
6896904 AGTGCATCGATGCA
1 AGTGCACCGATGCA
6896918 GTCATTGTTC
Statistics
Matches: 39, Mismatches: 17, Indels: 2
0.67 0.29 0.03
Matches are distributed among these distances:
21 26 0.67
22 13 0.33
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (21 bp):
AGTGCACCGATGCACTACTAC
Found at i:6897000 original size:21 final size:21
Alignment explanation
Indices: 6896974--6897021 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
6896964 AGGGGTATCG
6896974 ATGCACCTTGATAGAGCATCA
1 ATGCACCTTGATAGAGCATCA
* *
6896995 ATGCACCTTGATAGTGCATCG
1 ATGCACCTTGATAGAGCATCA
6897016 ATGCAC
1 ATGCAC
6897022 TCTGCTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (21 bp):
ATGCACCTTGATAGAGCATCA
Found at i:6898456 original size:20 final size:20
Alignment explanation
Indices: 6898431--6898485 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
6898421 CGAAATATAC
6898431 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
6898451 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
6898471 ATGCATCGATGCACC
1 ATGCATCGATGCACC
6898486 TACCCAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (20 bp):
ATGCATCGATGCACCCCTTA
Found at i:6901133 original size:195 final size:194
Alignment explanation
Indices: 6900802--6901186 Score: 565
Period size: 195 Copynumber: 2.0 Consensus size: 194
6900792 ATGGAAAACG
* * *
6900802 TTGGTCAAAAGACCACATTGAGTCTTTATTCTAAATTGGAGTGCCACGTTGAGAGAAAAAAATAG
1 TTGGTCAAAAGACCACATTGAGTCTTTATTCTAAATTGAAGGGCCACATTGAGAGAAAAAAATAG
* * * * * *
6900867 AGGAACACATTGGTTTTTTTCAAGTGGAGGGTCTCATGTACCTTTTTTCCTTGGTAATTTAATAA
66 AGGAACACATTGATTTTTTTCAAGTGGAGGGCCTCATGTACCCTTTTGCCTTGATAATTTAAGAA
*
6900932 AAATTATGGTTA-TTTTAAATATAATAATATTTTTATTTTTTAAAATAAAAATATCAAATAATA
131 AAATTATGGTTATTTTTAAATATAATAATATTTTTATTTTTTAAAATAAAAACATCAAATAATA
* * * * *
6900995 TTGGTCAAATGATCACATTGAGTATTTTTTTTCTAAATTGAAGGGCCACATTGAGAGAAAAAAGT
1 TTGGTCAAAAGACCACATTGAG--TCTTTATTCTAAATTGAAGGGCCACATTGAGAGAAAAAAAT
* * *
6901060 GGAGGGACACATTGATTTTTTTTAAGTGGAGGGCCTCATGTACCCTTTTGCCTTGATAATTTAAG
64 AGAGGAACACATTGATTTTTTTCAAGTGGAGGGCCTCATGTACCCTTTTGCCTTGATAATTTAAG
* *
6901125 AGAAATTATGGTTATTTTTAAATGTAATAATATTTTTATTTTTTAAAATAAAAACATCAAAT
129 AAAAATTATGGTTATTTTTAAATATAATAATATTTTTATTTTTTAAAATAAAAACATCAAAT
6901187 TTATCATAAT
Statistics
Matches: 169, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
193 20 0.12
195 104 0.62
196 45 0.27
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (194 bp):
TTGGTCAAAAGACCACATTGAGTCTTTATTCTAAATTGAAGGGCCACATTGAGAGAAAAAAATAG
AGGAACACATTGATTTTTTTCAAGTGGAGGGCCTCATGTACCCTTTTGCCTTGATAATTTAAGAA
AAATTATGGTTATTTTTAAATATAATAATATTTTTATTTTTTAAAATAAAAACATCAAATAATA
Found at i:6902599 original size:76 final size:76
Alignment explanation
Indices: 6902437--6902585 Score: 210
Period size: 76 Copynumber: 2.0 Consensus size: 76
6902427 ATGAGAGTAC
** * * *
6902437 CATAATAGGTTAACCTAAAATGTTATGTAGGATAAGAAAATGAGTTATAAACGATAAATGTTATG
1 CATAATAGGTTAACAAAAAATGTTAAGAAGGATAAGAAAATGAGTTATAAACGATAAATGTCATG
6902502 AATTTTATCAA
66 AATTTTATCAA
* * *
6902513 CATAACAGGTTAACAAAAAATGTTAAGAAGTG-TAAGAAAATGAGTTATAAATGGTAAATGTCAT
1 CATAATAGGTTAACAAAAAATGTTAAGAAG-GATAAGAAAATGAGTTATAAACGATAAATGTCAT
6902577 GAATTTTAT
65 GAATTTTAT
6902586 TAATATTTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
76 63 0.98
77 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.32
Consensus pattern (76 bp):
CATAATAGGTTAACAAAAAATGTTAAGAAGGATAAGAAAATGAGTTATAAACGATAAATGTCATG
AATTTTATCAA
Found at i:6902946 original size:187 final size:185
Alignment explanation
Indices: 6902598--6902986 Score: 444
Period size: 187 Copynumber: 2.1 Consensus size: 185
6902588 ATATTTTAGG
* * * ** * * ** *
6902598 TTGCGCCTAAAATGTTGCCAGAG-TTAAGCTGATGGGGCCTTAGACATTACCACGATAACAAAAA
1 TTGCGCCTAAAATATTACCAGAGTTTAAGATGATGGAACATTATATGTTCCCACGATAACAAAAA
* * * ** *
6902662 AGTTAATAGCTGAAAATGTTATATAATCTATAATAAATACGGTTGTGCCCAAGAATGTCAATATT
66 ACTTAAAAGCTGAAAATGTTATATAATCTATAATAAATACAGTTGCACCCAAGAATATCAATATT
* * *
6902727 CACGAAGAAAGTAGGTTATGATCTGTAATATTAATATTTTTATTAATAAAATGGA
131 CACGAAGAAAATAGGTTATGATCTGAAATATTAATATTTTTAATAATAAAATGGA
* *
6902782 TTGTGCCTAAATTATTACCAGAGTTTAAGATGATGGAACATTATATGTTCCCACGATAACAAAAT
1 TTGCGCCTAAAATATTACCAGAGTTTAAGATGATGGAACATTATATGTTCCCACGATAACAAAA-
* *
6902847 AACTTAAAAGCTGAAAATGTTATGA-ATATCTATAATAAATATAGTTGCACTCAAGAATATC-AT
65 AACTTAAAAGCTGAAAATGTTAT-ATA-ATCTATAATAAATACAGTTGCACCCAAGAATATCAAT
* * * * *
6902910 GGTTTACTAAGAAAATAGGTTGCT-ATCTGAAATATTAATATTTTTAATAATAAAATGGG
128 -ATTCACGAAGAAAATAGGTT-ATGATCTGAAATATTAATATTTTTAATAATAAAATGGA
*
6902969 TTGCGTCTAAAATATTAC
1 TTGCGCCTAAAATATTAC
6902987 TTTAGCTTTA
Statistics
Matches: 168, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
184 19 0.11
185 32 0.19
186 24 0.14
187 92 0.55
188 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (185 bp):
TTGCGCCTAAAATATTACCAGAGTTTAAGATGATGGAACATTATATGTTCCCACGATAACAAAAA
ACTTAAAAGCTGAAAATGTTATATAATCTATAATAAATACAGTTGCACCCAAGAATATCAATATT
CACGAAGAAAATAGGTTATGATCTGAAATATTAATATTTTTAATAATAAAATGGA
Found at i:6903157 original size:157 final size:156
Alignment explanation
Indices: 6902839--6903374 Score: 591
Period size: 157 Copynumber: 3.4 Consensus size: 156
6902829 TTCCCACGAT
* * *** *
6902839 AACAAAATAACTTAAAAGCTGAAAATGTTATGAATATCTATAATAAATATAGTTGCACTCAAGAA
1 AACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAATAAATCCGGTTGCACCCAAGAA
* * * * *
6902904 TATCATGGTTTACTAAGAAAA-TAGGTTGCTATCTGAAATATTAATATTTTTAATAATAAAATGG
66 TGTCATGGTTCACTAA-AAAATTAGGTTGCGATATGAAACATTAATATTTTT-ATAATAAAATGG
6902968 GTTGCGTCTAAAATATTACTTTAGCTTT-
129 GTTGCGT-TAAAATATTACTTTAGCTTTG
* * * * **
6902996 AACAAAACAAGTTAAAAGATAAAAATGTTATAAACATCTATAATAAATCCGGTTGTGCCCAAGAA
1 AACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAATAAATCCGGTTGCACCCAAGAA
* * * *
6903061 TGTCATGGTTCACTAAAAAATTAGGTTGCGATATGCAACATTAGTATTTTTATAATAAAACGAGT
66 TGTCATGGTTCACTAAAAAATTAGGTTGCGATATGAAACATTAATATTTTTATAATAAAATGGGT
*
6903126 TAG-GATTAAAATATTGA-TGTAG-TGTTG
131 T-GCG-TTAAAATATT-ACTTTAGCT-TTG
* * * * *
6903153 AACAAAATAAGCTT-AATGCTAAAAATGTTATTAATATCAATAATAAATTCGGTTG-AGCCAAAG
1 AACAAAATAAG-TTAAAAGCTAAAAATGTTATGAATATCTATAATAAATCCGGTTGCA-CCCAAG
* * * *
6903216 AATGTAATAGTTCACTAAGAAATTAGGTTGTGATATGAAACATTAATATTTTTATTAATAAAATG
64 AATGTCATGGTTCACTAAAAAATTAGGTTGCGATATGAAACATTAATATTTTTA-TAATAAAATG
* * *
6903281 GGTTGTGCCTAAACTATTACTTTAGCTTTG
128 GGTTGCG-TTAAAATATTACTTTAGCTTTG
* * *
6903311 AACAAAATATGTAAAAAGCTAAAAATGTTATGAATATCTATAATAAATCTGGTTGCACCCAAGA
1 AACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAATAAATCCGGTTGCACCCAAGA
6903375 CTATTATCAA
Statistics
Matches: 314, Mismatches: 51, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
155 1 0.00
156 33 0.11
157 196 0.62
158 82 0.26
159 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.33
Consensus pattern (156 bp):
AACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAATAAATCCGGTTGCACCCAAGAA
TGTCATGGTTCACTAAAAAATTAGGTTGCGATATGAAACATTAATATTTTTATAATAAAATGGGT
TGCGTTAAAATATTACTTTAGCTTTG
Found at i:6903559 original size:73 final size:72
Alignment explanation
Indices: 6903482--6903710 Score: 246
Period size: 72 Copynumber: 3.1 Consensus size: 72
6903472 ATATGATGAG
**
6903482 CGATACTTTTAAATATTGAAAAAGTTGAAGATAAGATCGAAAGTTTAAATATCGATACTTATGTG
1 CGATACTTTTAAATATTGAAAAAGTTGAAGA-AAGATCGAAAGTTTAAATATCGATACTTATACG
*
6903547 GTAAAGAT
65 ATAAAGAT
* * *
6903555 CGATACTTTTAAATATTGTAAAACTTGATA-AAAGATTGAAA-TTTAAAATATCGATACTTATAC
1 CGATACTTTTAAATATTGAAAAAGTTGA-AGAAAGATCGAAAGTTT-AAATATCGATACTTATAC
* *
6903618 GATGATGAT
64 GATAAAGAT
* * * * * *
6903627 CGATACTTTTATATATTGAAAAAAGTTGATGAAGATGATCGATAGTTAAAATATCAATACATATA
1 CGATACTTTTAAATATTG-AAAAAGTTGAAGAA-A-GATCGAAAGTTTAAATATCGATACTTATA
* *
6903692 CTATAAAGTT
63 CGATAAAGAT
6903702 CGATACTTT
1 CGATACTTT
6903711 ATCATTTATA
Statistics
Matches: 128, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
71 3 0.02
72 48 0.38
73 37 0.29
74 2 0.02
75 36 0.28
76 2 0.02
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.35
Consensus pattern (72 bp):
CGATACTTTTAAATATTGAAAAAGTTGAAGAAAGATCGAAAGTTTAAATATCGATACTTATACGA
TAAAGAT
Found at i:6907584 original size:19 final size:20
Alignment explanation
Indices: 6907560--6907597 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6907550 CAAAATAATC
*
6907560 CAATTTC-ACATTCTAACAT
1 CAATTTCAACATTCAAACAT
6907579 CAATTTCAACATTCAAACA
1 CAATTTCAACATTCAAACA
6907598 ATAATTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (20 bp):
CAATTTCAACATTCAAACAT
Found at i:6909726 original size:33 final size:33
Alignment explanation
Indices: 6909664--6909753 Score: 108
Period size: 33 Copynumber: 2.7 Consensus size: 33
6909654 AACTTTATAC
* * *
6909664 CGATGAGTTGTTGGTTAATTGGTCGAGATTTTT
1 CGATGAGTTGTTGGTTGATTGCTCAAGATTTTT
** * *
6909697 TTATGAGTCGTTGGTTGATTGCTTAAGATTTTT
1 CGATGAGTTGTTGGTTGATTGCTCAAGATTTTT
*
6909730 CGATGAGTTGTTTGTTGATTGCTC
1 CGATGAGTTGTTGGTTGATTGCTC
6909754 CATATTATGA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.17, C:0.08, G:0.28, T:0.48
Consensus pattern (33 bp):
CGATGAGTTGTTGGTTGATTGCTCAAGATTTTT
Found at i:6912015 original size:19 final size:19
Alignment explanation
Indices: 6911993--6912030 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
6911983 CTTATTTATC
6911993 TATACATTTAA-TACATTTT
1 TATA-ATTTAATTACATTTT
*
6912012 TATATTTTAATTACATTTT
1 TATAATTTAATTACATTTT
6912031 AATATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (19 bp):
TATAATTTAATTACATTTT
Found at i:6912022 original size:18 final size:19
Alignment explanation
Indices: 6911999--6912036 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6911989 TATCTATACA
*
6911999 TTTAA-TACATTTTTATAT
1 TTTAATTACATTTTAATAT
6912017 TTTAATTACATTTTAATAT
1 TTTAATTACATTTTAATAT
6912036 T
1 T
6912037 AATTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAATTACATTTTAATAT
Found at i:6915629 original size:14 final size:14
Alignment explanation
Indices: 6915606--6915678 Score: 67
Period size: 14 Copynumber: 5.1 Consensus size: 14
6915596 TTTGATAATA
6915606 TGTTCGTTTATGTT
1 TGTTCGTTTATGTT
*
6915620 TGTTCATTTATGTT
1 TGTTCGTTTATGTT
*
6915634 CGTTCGTTTATGTT
1 TGTTCGTTTATGTT
* **
6915648 AGTTTATGTT-TGCTTT
1 TGTTCGT-TTATG--TT
6915664 TGTTCGTTTATGTT
1 TGTTCGTTTATGTT
6915678 T
1 T
6915679 AGCCCAATCT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
14 34 0.74
15 4 0.09
16 8 0.17
ACGTcount: A:0.10, C:0.08, G:0.19, T:0.63
Consensus pattern (14 bp):
TGTTCGTTTATGTT
Found at i:6915877 original size:10 final size:10
Alignment explanation
Indices: 6915862--6915948 Score: 61
Period size: 10 Copynumber: 8.6 Consensus size: 10
6915852 TGTTGTTGTG
6915862 ATTTATGTTC
1 ATTTATGTTC
6915872 ATTTATGTT-
1 ATTTATGTTC
*
6915881 GTTT-TGTTC
1 ATTTATGTTC
*
6915890 ATTTATGTTT
1 ATTTATGTTC
* *
6915900 GTTTATATTC
1 ATTTATGTTC
6915910 ATTTATTGTGTTC
1 ATTTA---TGTTC
* *
6915923 GTTTATGTTT
1 ATTTATGTTC
* *
6915933 GTTTACGTTC
1 ATTTATGTTC
6915943 ATTTAT
1 ATTTAT
6915949 TGTGTTCGTT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
8 4 0.07
9 6 0.10
10 40 0.69
13 8 0.14
ACGTcount: A:0.16, C:0.07, G:0.14, T:0.63
Consensus pattern (10 bp):
ATTTATGTTC
Found at i:6915890 original size:18 final size:20
Alignment explanation
Indices: 6915863--6915931 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 20
6915853 GTTGTTGTGA
6915863 TTTATGTTCATTTATG-TTG
1 TTTATGTTCATTTATGTTTG
6915882 TTT-TGTTCATTTATGTTTG
1 TTTATGTTCATTTATGTTTG
*
6915901 TTTATATTCATTTATTGTGTTCG
1 TTTATGTTCATTTA-TGT-TT-G
6915924 TTTATGTT
1 TTTATGTT
6915932 TGTTTACGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 12 0.28
19 9 0.21
20 9 0.21
21 3 0.07
22 2 0.05
23 8 0.19
ACGTcount: A:0.14, C:0.06, G:0.14, T:0.65
Consensus pattern (20 bp):
TTTATGTTCATTTATGTTTG
Found at i:6915911 original size:38 final size:34
Alignment explanation
Indices: 6915863--6915960 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 34
6915853 GTTGTTGTGA
6915863 TTTATGTTCATTTATGTTGTTTTGTTCATTTATGTTTG
1 TTTATGTTCATTTAT-TTG---TGTTCATTTATGTTTG
* *
6915901 TTTATATTCATTTA-TTGTGTTCGTTTATGTTTG
1 TTTATGTTCATTTATTTGTGTTCATTTATGTTTG
* *
6915934 TTTACGTTCATTTA-TTGTGTTCGTTTA
1 TTTATGTTCATTTATTTGTGTTCATTTA
6915961 CATCTGTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
33 40 0.71
36 3 0.05
38 13 0.23
ACGTcount: A:0.14, C:0.07, G:0.15, T:0.63
Consensus pattern (34 bp):
TTTATGTTCATTTATTTGTGTTCATTTATGTTTG
Found at i:6915928 original size:33 final size:33
Alignment explanation
Indices: 6915885--6915979 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
6915875 TATGTTGTTT
*
6915885 TGTTCATTTATGTTTGTTTATATTCATTTATTG
1 TGTTCGTTTATGTTTGTTTATATTCATTTATTG
**
6915918 TGTTCGTTTATGTTTGTTTACGTTCATTTATTG
1 TGTTCGTTTATGTTTGTTTATATTCATTTATTG
6915951 TGTTCGTTTACATCTGTTTGTTTATATTC
1 TGTTCGTTT--A--TGTTTGTTTATATTC
6915980 GTTCATTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
33 39 0.74
35 1 0.02
37 13 0.25
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.61
Consensus pattern (33 bp):
TGTTCGTTTATGTTTGTTTATATTCATTTATTG
Found at i:6931427 original size:21 final size:22
Alignment explanation
Indices: 6931403--6931461 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 22
6931393 TAATTTTATA
*
6931403 TATATTAACTTAAAATGT-TTT
1 TATATTAACTTAAAATATATTT
6931424 TATATTAACTTATTAAATATATTT
1 TATATTAACTTA--AAATATATTT
6931448 TACTATTAACTTAA
1 TA-TATTAACTTAA
6931462 TTTAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 12 0.36
23 6 0.18
24 5 0.15
25 10 0.30
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATTAACTTAAAATATATTT
Found at i:6931448 original size:25 final size:27
Alignment explanation
Indices: 6931407--6931475 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 27
6931397 TTTATATATA
* *
6931407 TTAACTTAAAATGTTTTTA-TATTAAC
1 TTAATTTAAAATATTTTTACTATTAAC
6931433 TT-A-TT-AAATATATTTTACTATTAAC
1 TTAATTTAAAATAT-TTTTACTATTAAC
6931458 TTAATTTAAAAATATTTT
1 TTAATTT-AAAATATTTT
6931476 ATTTTTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
23 5 0.14
24 7 0.19
25 10 0.28
26 3 0.08
27 2 0.06
28 3 0.08
29 6 0.17
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (27 bp):
TTAATTTAAAATATTTTTACTATTAAC
Found at i:6931473 original size:27 final size:25
Alignment explanation
Indices: 6931421--6931477 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 25
6931411 CTTAAAATGT
*
6931421 TTTTATATTAACTTA-TTAAATATA
1 TTTTATATTAACTTATTTAAAAATA
6931445 TTTTACTATTAACTTAATTTAAAAATA
1 TTTTA-TATTAACTT-ATTTAAAAATA
6931472 TTTTAT
1 TTTTAT
6931478 TTTTATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 5 0.17
25 9 0.31
26 2 0.07
27 13 0.45
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTTATATTAACTTATTTAAAAATA
Found at i:6931516 original size:25 final size:27
Alignment explanation
Indices: 6931458--6931517 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
6931448 TACTATTAAC
* *
6931458 TTAATTTAAAAATATTTTATTTTTATT
1 TTAATTTAAAAATATTATATATTTATT
*
6931485 TTCATTTAAAAATA-TATA-ATTTATT
1 TTAATTTAAAAATATTATATATTTATT
6931510 TTAATTTA
1 TTAATTTA
6931518 TTAAAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 13 0.45
26 3 0.10
27 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TTAATTTAAAAATATTATATATTTATT
Found at i:6932719 original size:5 final size:5
Alignment explanation
Indices: 6932709--6932750 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
6932699 AGAGTGACGG
*
6932709 GAGGA GAGGA GAGGA GAGGA GAGGG GAGGA GAGGA GAGGA GA
1 GAGGA GAGGA GAGGA GAGGA GAGGA GAGGA GAGGA GAGGA GA
6932751 AAGATGGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (5 bp):
GAGGA
Found at i:6935605 original size:19 final size:19
Alignment explanation
Indices: 6935581--6935674 Score: 70
Period size: 19 Copynumber: 4.9 Consensus size: 19
6935571 AAAAATAAAT
6935581 ATAAATAATAATTATTTTA
1 ATAAATAATAATTATTTTA
**
6935600 ATAAATAATAA-TAAATTA
1 ATAAATAATAATTATTTTA
*
6935618 ACT-AATATATTATT-TTTTA
1 A-TAAATA-ATAATTATTTTA
* *
6935637 ATAAATATTAAAATATTATTA
1 ATAAATAAT-AATTATT-TTA
*
6935658 ATTAATAAT-ATTATTTT
1 ATAAATAATAATTATTTT
6935675 CATACAAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
18 14 0.25
19 30 0.53
20 3 0.05
21 10 0.18
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAAATAATAATTATTTTA
Found at i:6935662 original size:25 final size:24
Alignment explanation
Indices: 6935624--6935670 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
6935614 ATTAACTAAT
**
6935624 ATATTATTTTTTAATAAATATTAAA
1 ATATTATTAATTAAT-AATATTAAA
6935649 ATATTATTAATTAATAATATTA
1 ATATTATTAATTAATAATATTA
6935671 TTTTCATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTATTAATTAATAATATTAAA
Found at i:6935669 original size:16 final size:15
Alignment explanation
Indices: 6935643--6935672 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6935633 TTTAATAAAT
6935643 ATTAAAATATTATTA
1 ATTAAAATATTATTA
6935658 ATTAATAATATTATT
1 ATTAA-AATATTATT
6935673 TTCATACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAAAATATTATTA
Found at i:6937351 original size:14 final size:14
Alignment explanation
Indices: 6937334--6937361 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6937324 ATATTGGCAC
6937334 GTCAATATGTTTTT
1 GTCAATATGTTTTT
6937348 GTCAATATGTTTTT
1 GTCAATATGTTTTT
6937362 AGAACACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (14 bp):
GTCAATATGTTTTT
Found at i:6939278 original size:16 final size:15
Alignment explanation
Indices: 6939253--6939285 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
6939243 CAGTCAATCA
6939253 AATTTTATCTTGTAT
1 AATTTTATCTTGTAT
6939268 AATTCTTATCTTGTAT
1 AATT-TTATCTTGTAT
6939284 AA
1 AA
6939286 AACTTCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (15 bp):
AATTTTATCTTGTAT
Found at i:6941606 original size:16 final size:16
Alignment explanation
Indices: 6941587--6941617 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6941577 AGTTATTATT
6941587 ATTATATTAATATTTA
1 ATTATATTAATATTTA
*
6941603 ATTATATTATTATTT
1 ATTATATTAATATTT
6941618 TTTTCCTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATATTAATATTTA
Found at i:6949710 original size:41 final size:41
Alignment explanation
Indices: 6949653--6949734 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
6949643 ATCTAAAAAA
6949653 ACTTTTGGGAGTGGACACATATATATCAGTAATAAAGTCTT
1 ACTTTTGGGAGTGGACACATATATATCAGTAATAAAGTCTT
*
6949694 ACTTTTGGGAGTGGACACATATATATCAGTAATAAATTCTT
1 ACTTTTGGGAGTGGACACATATATATCAGTAATAAAGTCTT
6949735 TTGTACGTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (41 bp):
ACTTTTGGGAGTGGACACATATATATCAGTAATAAAGTCTT
Found at i:6962512 original size:2 final size:2
Alignment explanation
Indices: 6962507--6962546 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
6962497 ACTATATACC
*
6962507 TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6962547 AATAAACATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6965352 original size:17 final size:17
Alignment explanation
Indices: 6965330--6965362 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6965320 ACGGTCAACG
6965330 GTCAACGGTCGGGTCGA
1 GTCAACGGTCGGGTCGA
6965347 GTCAACGGTCGGGTCG
1 GTCAACGGTCGGGTCG
6965363 GGTCGGGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.24, G:0.42, T:0.18
Consensus pattern (17 bp):
GTCAACGGTCGGGTCGA
Found at i:6972720 original size:22 final size:22
Alignment explanation
Indices: 6972693--6972739 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
6972683 CAGTCAACGA
6972693 TCAACGGTCGGGTCGGGTCAGG
1 TCAACGGTCGGGTCGGGTCAGG
*
6972715 TCAACGGTCGGGTCGGGTCGGG
1 TCAACGGTCGGGTCGGGTCAGG
6972737 TCA
1 TCA
6972740 GACCGGTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.19
Consensus pattern (22 bp):
TCAACGGTCGGGTCGGGTCAGG
Found at i:6974556 original size:21 final size:21
Alignment explanation
Indices: 6974532--6974571 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6974522 CAATTATGGG
6974532 TATTCGATATTGAAATTTAAT
1 TATTCGATATTGAAATTTAAT
* * *
6974553 TATTGGATGTTGAATTTTA
1 TATTCGATATTGAAATTTA
6974572 CGTTAGAATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.50
Consensus pattern (21 bp):
TATTCGATATTGAAATTTAAT
Found at i:6976906 original size:30 final size:30
Alignment explanation
Indices: 6976872--6976942 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
6976862 CCACCGTTAA
* *
6976872 TTTTAAAATATATAGAAATGACATAATATG
1 TTTTAAAATATATAGAAATGACACAATAGG
*
6976902 TTTTAAAATATATATAAATGACACAATAGG
1 TTTTAAAATATATAGAAATGACACAATAGG
6976932 TTTTAAAATAT
1 TTTTAAAATAT
6976943 TATTTTCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.38
Consensus pattern (30 bp):
TTTTAAAATATATAGAAATGACACAATAGG
Found at i:6979356 original size:12 final size:12
Alignment explanation
Indices: 6979339--6979372 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
6979329 TATAGCAATC
*
6979339 AATTAACTTAAA
1 AATTAAGTTAAA
6979351 AATTAAGTT-AA
1 AATTAAGTTAAA
6979362 AATTAAGTTAA
1 AATTAAGTTAA
6979373 TGAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (12 bp):
AATTAAGTTAAA
Found at i:6980500 original size:22 final size:22
Alignment explanation
Indices: 6980472--6980513 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6980462 ATATTATATT
*
6980472 ATTTATAATATTTTAGATCACA
1 ATTTATAATATTTTAAATCACA
6980494 ATTTATAATATTTTAAATCA
1 ATTTATAATATTTTAAATCA
6980514 TATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTATAATATTTTAAATCACA
Found at i:6981529 original size:24 final size:24
Alignment explanation
Indices: 6981502--6981547 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6981492 ATTTTATTTT
6981502 TTAACTT-TAAAAATATTTTTTATA
1 TTAACTTAT-AAAATATTTTTTATA
*
6981526 TTAACTTATTAAATATTTTTTA
1 TTAACTTATAAAATATTTTTTA
6981548 ATTTTATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (24 bp):
TTAACTTATAAAATATTTTTTATA
Found at i:6981623 original size:2 final size:2
Alignment explanation
Indices: 6981562--6981609 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
6981552 TATTTCACTT
6981562 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6981603 TA TA TA T
1 TA TA TA T
6981610 TTTATTCATA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6981832 original size:27 final size:26
Alignment explanation
Indices: 6981770--6981851 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 26
6981760 CATAAAATTT
*
6981770 ATATTTTTAAATTAAAATAAAAATAA
1 ATATATTTAAATTAAAATAAAAATAA
* *
6981796 ACTA-ATTTTAAATTAAATTAATAATTAA
1 A-TATA-TTTAAATTAAAATAA-AAATAA
*
6981824 ATATATTTAATAAGTTAATATAAAAATA
1 ATATATTT-A-AA-TTAAAATAAAAATA
6981852 TTTTTTAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
26 1 0.02
27 21 0.49
28 8 0.19
29 6 0.14
30 7 0.16
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (26 bp):
ATATATTTAAATTAAAATAAAAATAA
Found at i:6981833 original size:17 final size:17
Alignment explanation
Indices: 6981813--6981845 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6981803 TTAAATTAAA
6981813 TTAATAA-TTAAATATAT
1 TTAATAAGTT-AATATAT
6981830 TTAATAAGTTAATATA
1 TTAATAAGTTAATATA
6981846 AAAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAATAAGTTAATATAT
Found at i:6984653 original size:28 final size:29
Alignment explanation
Indices: 6984613--6984670 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
6984603 TTTTCTATTC
6984613 AACTTCTCTTCTTCAA-ATAAAAAAAAAA
1 AACTTCTCTTCTTCAACATAAAAAAAAAA
* *
6984641 AACTTCTCTTCTTCAACATAATAAATAAA
1 AACTTCTCTTCTTCAACATAAAAAAAAAA
6984670 A
1 A
6984671 TGAAGCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (29 bp):
AACTTCTCTTCTTCAACATAAAAAAAAAA
Found at i:6986443 original size:16 final size:15
Alignment explanation
Indices: 6986421--6986496 Score: 98
Period size: 16 Copynumber: 4.9 Consensus size: 15
6986411 AACAGTTAGT
*
6986421 AATTAGCGGTTATAA
1 AATTAGCGGTTAGAA
*
6986436 AGATTAGCGGTTATAA
1 A-ATTAGCGGTTAGAA
6986452 AGATTAGCGGTTAGAA
1 A-ATTAGCGGTTAGAA
*
6986468 ATTTAGCGGTTAGAA
1 AATTAGCGGTTAGAA
6986483 AAGTTAGCGGTTAG
1 AA-TTAGCGGTTAG
6986497 CAGAGTCCGA
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.27
16 41 0.73
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.30
Consensus pattern (15 bp):
AATTAGCGGTTAGAA
Found at i:6986452 original size:47 final size:47
Alignment explanation
Indices: 6986404--6986495 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 47
6986394 CAAATAAATA
* * *
6986404 AAAGGTTAACAGTTAGTAA-TTAGCGGTTA-TAAAGATTAGCGGTTAT
1 AAAGATTAACAGTTAGAAATTTAGCGGTTAGAAAAG-TTAGCGGTTAT
* *
6986450 AAAGATTAGCGGTTAGAAATTTAGCGGTTAGAAAAGTTAGCGGTTA
1 AAAGATTAACAGTTAGAAATTTAGCGGTTAGAAAAGTTAGCGGTTA
6986496 GCAGAGTCCG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
46 15 0.38
47 20 0.51
48 4 0.10
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (47 bp):
AAAGATTAACAGTTAGAAATTTAGCGGTTAGAAAAGTTAGCGGTTAT
Found at i:6986477 original size:31 final size:31
Alignment explanation
Indices: 6986421--6986496 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 31
6986411 AACAGTTAGT
* *
6986421 AATTAGCGGTTATAAAGATTAGCGGTTATAA
1 AATTAGCGGTTAGAAAGATTAGCGGTTAGAA
*
6986452 AGATTAGCGGTTAGAAA-TTTAGCGGTTAGAA
1 A-ATTAGCGGTTAGAAAGATTAGCGGTTAGAA
6986483 AAGTTAGCGGTTAG
1 AA-TTAGCGGTTAG
6986497 CAGAGTCCGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 1 0.03
31 25 0.62
32 14 0.35
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.30
Consensus pattern (31 bp):
AATTAGCGGTTAGAAAGATTAGCGGTTAGAA
Found at i:6988417 original size:137 final size:137
Alignment explanation
Indices: 6988225--6988899 Score: 861
Period size: 137 Copynumber: 4.9 Consensus size: 137
6988215 CTTTGAGACT
* ** * * * * *
6988225 CACAGCTCCTACATGATGAGGAAATCTGGTTATCTAAAGG-TGACGCTGCTTCTACGTGATGAGG
1 CACAGTTCCTACGCGATAAGGAAGTCTGGCTATCT-AAGGATGACGCGGCTCCTACGTGATGAGG
* * *
6988289 AGATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACATCTGGCTATCATTAGGGATAAC
65 AGATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGATAAC
6988354 GGAGATAA
130 GGAGATAA
* * * * **
6988362 CACAGTTCCTATGTGATGAGGAAGTCTAGCTATCTAAGGATGACATGGCTCCTACGTGATGAGGA
1 CACAGTTCCTACGCGATAAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACGTGATGAGGA
* *
6988427 GATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGATAATG
66 GATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGATAACG
6988492 GAGATAA
131 GAGATAA
* *
6988499 CACAGTTCCTACGCGATGAGGAAGTCTGGCAATCTAAGGATGACGCGGCTCCTACGTGATGAGGA
1 CACAGTTCCTACGCGATAAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACGTGATGAGGA
* * *
6988564 GATATGGTCGGTGGATGACAATGTTCCTACGTGATGAGGACGTCTTGCCATCTTTAGGGATAATC
66 GATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGATAA-C
6988629 -GAGATAA
130 GGAGATAA
** ** *
6988636 CATGGTTCCTACGCGGCAAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCTTACGTGATGAGGA
1 CACAGTTCCTACGCGATAAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACGTGATGAGGA
* * * * * ** *
6988701 TATATGGTCGGTAGATGACATTGTTCCT-CGTGATGAGGATGTCTAACCATCTTTAGGGATAATG
66 GATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGATAACG
*
6988765 TAGATAA
131 GAGATAA
* * * ** * *
6988772 CACGGTTCCTACGTGATAAGGAAGTCTGGCTATCTAAGGGTGACGTTGCTCCCACGCGATGAGGA
1 CACAGTTCCTACGCGATAAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACGTGATGAGGA
* * * * *
6988837 GATCGGGCCGGTGGATGACATTGTTCCTACGTGATGAGGATGTCTGACCATCTTTAGGGATAA
66 GATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGATAA
6988900 TGTGTTACAA
Statistics
Matches: 477, Mismatches: 57, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
136 119 0.25
137 358 0.75
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (137 bp):
CACAGTTCCTACGCGATAAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACGTGATGAGGA
GATCTGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGATAACG
GAGATAA
Found at i:7003439 original size:14 final size:14
Alignment explanation
Indices: 7003420--7003449 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7003410 ATATAAGTGT
7003420 TTAATGTCAAATGA
1 TTAATGTCAAATGA
7003434 TTAATGTCAAATGA
1 TTAATGTCAAATGA
7003448 TT
1 TT
7003450 GAAAGTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (14 bp):
TTAATGTCAAATGA
Found at i:7005406 original size:84 final size:84
Alignment explanation
Indices: 7005247--7005522 Score: 322
Period size: 84 Copynumber: 3.3 Consensus size: 84
7005237 CTGAATGAAA
* * *
7005247 TCGAACTCGAAAGGTCTCTTGTTA-GAAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGAT
1 TCGAACTCG-AAGATCTTTTGTTACCAA-ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGAT
*
7005311 GTGCCTTTGAGCCGAGCGTAG
64 GTGCCTTTGAGCTGAGCGTAG
* * * *
7005332 TCGAACTCGGAGATCTTTTGTTACCAAATAACCCTTCTTGCCTTGAGCTATGTTACAAATGATGT
1 TCGAACTCGAAGATCTTTTGTTACCAAATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGT
7005397 GCCTTTGAGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* * ** * ** *
7005416 TCAAACTCGAAGGTC-TTTGATTGTCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATA
1 TCGAACTCGAAGATCTTTTG-TTACCAAATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATG
* * *
7005480 TGCCTTGGAGCTGAGTGAAG
65 TGCCTTTGAGCTGAGCGTAG
*
7005500 TCGAACCCGAAGATCTTTGTGTT
1 TCGAACTCGAAGATCTTT-TGTT
7005523 TCAAGAGAAA
Statistics
Matches: 161, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
83 4 0.02
84 140 0.87
85 15 0.09
86 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (84 bp):
TCGAACTCGAAGATCTTTTGTTACCAAATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGT
GCCTTTGAGCTGAGCGTAG
Found at i:7005555 original size:27 final size:27
Alignment explanation
Indices: 7005525--7005576 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
7005515 TTTGTGTTTC
*
7005525 AAGAGAAACATTTTCAAAGGTTTTTTT
1 AAGAGAAACAATTTCAAAGGTTTTTTT
*
7005552 AAGAGAATCAATTTCAAAGGTTTTT
1 AAGAGAAACAATTTCAAAGGTTTTT
7005577 GTGTTTCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (27 bp):
AAGAGAAACAATTTCAAAGGTTTTTTT
Found at i:7005723 original size:36 final size:36
Alignment explanation
Indices: 7005676--7005864 Score: 324
Period size: 36 Copynumber: 5.2 Consensus size: 36
7005666 ATTCAAATAT
7005676 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
7005712 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
7005748 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAAC
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAA
* *
7005785 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAGAGAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
7005821 TTTGTTTCAAGGGAAACAGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
7005857 CTTTGTTT
1 -TTTGTTT
7005865 TGAGTACATT
Statistics
Matches: 144, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
36 103 0.72
37 41 0.28
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:7005883 original size:73 final size:73
Alignment explanation
Indices: 7005676--7005864 Score: 335
Period size: 73 Copynumber: 2.6 Consensus size: 73
7005666 ATTCAAATAT
7005676 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAG
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
7005740 AGACAAAA
66 AGACAAAA
*
7005748 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
* *
7005813 AGAGAGAA
66 AGACAAAA
*
7005821 TTTGTTTCAAGGGAAACAGTCTCAAGAGAGACAAAACTTTGTTT
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
7005865 TGAGTACATT
Statistics
Matches: 111, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 35 0.32
73 76 0.68
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (73 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
AGACAAAA
Found at i:7006405 original size:107 final size:106
Alignment explanation
Indices: 7006213--7006578 Score: 520
Period size: 106 Copynumber: 3.4 Consensus size: 106
7006203 TGTTCTGAGG
* * * * * * * *
7006213 CCAATATCCTCCTCCGTGAAGTTAAAATTGGCTCTGGAACTGGGAAATTATTTGTTGACAGTCAA
1 CCAATATCCTTCGCTGTGAAATTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAGTCAG
*
7006278 CTGCCCCTTCGTTGTGAAGTTGAGCTTGTGA-TGTCTCGAGT
66 CCGCCCCTTCGTTGTGAAGTTGAGCTTGT-ACTGTCTCGAGT
* *
7006319 CCAATATCCTTTGCTGT-AAAGTTGAAATTGGCTCTAAAACTGGGAAGTTTATTTGTTGACAGTC
1 CCAATATCCTTCGCTGTGAAA-TTGAAATTGGCTCTGAAACTGGGAAG-TTATTTGTTGACAGTC
* *
7006383 AGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTACTGTCTGGAGT
64 AGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTACTGTCTCGAGT
* **
7006426 CCAATATCCTTCGCTGTGAAATTGAAATTGGCTCTGAAACTGGGAAGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAATTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAGTCAG
* * *
7006491 TCGCCCCTTCGTTGTGAAGTTGAGCTTGTATTGTCTTGAGT
66 CCGCCCCTTCGTTGTGAAGTTGAGCTTGTACTGTCTCGAGT
7006532 CCAATATCCTTCGCTGTGAAATTGAAATTGGCTCTGAAACTGGGAAG
1 CCAATATCCTTCGCTGTGAAATTGAAATTGGCTCTGAAACTGGGAAG
7006579 CTCTTTCGTC
Statistics
Matches: 234, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
105 2 0.01
106 135 0.58
107 94 0.40
108 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (106 bp):
CCAATATCCTTCGCTGTGAAATTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAGTCAG
CCGCCCCTTCGTTGTGAAGTTGAGCTTGTACTGTCTCGAGT
Found at i:7011986 original size:17 final size:18
Alignment explanation
Indices: 7011960--7011994 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7011950 AAAAATATCA
7011960 TAAATAAATTTATATTTT
1 TAAATAAATTTATATTTT
*
7011978 TAAAT-AATTTTTATTTT
1 TAAATAAATTTATATTTT
7011995 ATTAAACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TAAATAAATTTATATTTT
Found at i:7012032 original size:22 final size:22
Alignment explanation
Indices: 7011990--7012032 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7011980 AATAATTTTT
*
7011990 ATTTTATTAAACAACATTATAA
1 ATTTTATTAAACAACAATATAA
7012012 ATTTTATTTAAAC-ACAATATA
1 ATTTTA-TTAAACAACAATATA
7012033 TATATATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTTATTAAACAACAATATAA
Found at i:7012046 original size:4 final size:4
Alignment explanation
Indices: 7012039--7012069 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
7012029 TATATATATA
7012039 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
7012070 ATAATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:7012833 original size:28 final size:27
Alignment explanation
Indices: 7012797--7012858 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
7012787 AAAATTTTGG
7012797 CAAGTTTAA-CAACCAACGAGGT-AAGCAA
1 CAAGTTTAATCAA-C-ACGA-GTCAAGCAA
*
7012825 CAAGTTTAATGAACACGAGTCAAGCAA
1 CAAGTTTAATCAACACGAGTCAAGCAA
7012852 CAAGTTT
1 CAAGTTT
7012859 TTTTAACGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 2 0.06
27 17 0.55
28 10 0.32
29 2 0.06
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (27 bp):
CAAGTTTAATCAACACGAGTCAAGCAA
Found at i:7012873 original size:31 final size:31
Alignment explanation
Indices: 7012829--7012913 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
7012819 AAGCAACAAG
*
7012829 TTTAATGAACACGAGTCAAGCAACAAGTTTT
1 TTTAATGAACACGAGTCAAGCAACAAGTTAT
* * * *
7012860 TTTAACGAGCACGAGTCAAGTAACAGGTTAT
1 TTTAATGAACACGAGTCAAGCAACAAGTTAT
* *
7012891 TTTAATGACCACAAGTCAAGCAA
1 TTTAATGAACACGAGTCAAGCAA
7012914 AATTTTAATG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (31 bp):
TTTAATGAACACGAGTCAAGCAACAAGTTAT
Found at i:7017915 original size:22 final size:21
Alignment explanation
Indices: 7017871--7017925 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
7017861 ACGTATAATT
*
7017871 ATAAATTAGTTAAAAATTTAAAA
1 ATAAATTA-TTAAAAA-TAAAAA
* *
7017894 GTAAATTATTTAAAATAAAAA
1 ATAAATTATTAAAAATAAAAA
*
7017915 ATTAATTATTA
1 ATAAATTATTA
7017926 TTTTCATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 13 0.50
22 6 0.23
23 7 0.27
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
ATAAATTATTAAAAATAAAAA
Found at i:7018028 original size:21 final size:23
Alignment explanation
Indices: 7018004--7018053 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
7017994 GAAAAATAAT
*
7018004 ATAATTAAT-TTTTTA-TTTTAA
1 ATAATTAATGTTTTAATTTTTAA
*
7018025 ATAATTTATGTTTTAATTTTTAA
1 ATAATTAATGTTTTAATTTTTAA
*
7018048 CTAATT
1 ATAATT
7018054 TATAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.33
22 5 0.21
23 11 0.46
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATAATTAATGTTTTAATTTTTAA
Found at i:7018715 original size:160 final size:155
Alignment explanation
Indices: 7018454--7018814 Score: 458
Period size: 160 Copynumber: 2.3 Consensus size: 155
7018444 TCTGGTTTCA
* *
7018454 TTATTTCTTCAATTTTTC-TTTATTTTAAGTCTTTTTTTTACTAAATTTGAACTACATACTCCTA
1 TTATTTCTTCAA-TTGTCATTTATTTTAAGTCTTTTTTTTACCAAATTTGAACTACATACTCCTA
* * *
7018518 AAATATAGTAAAATGCATGTGCACTTTCAATTCCTCTTTTTGATAACAACTTTTTTATTTTTCAA
65 AAACATAGTAAAATACATGTGCACTTTCAATTCCTCTTTTTGATAACAA-ATTTTTATTTTTCAA
*
7018583 TTTAGTCCTTCAATTTTTCATAATCTCC
129 TTTAGTCCTTCAATTTTTCATAATAT-C
* * *
7018611 TTATTTCTTCAATTCGTCATTTATTTTACGTCCTTTTTTTTTACCAAATTTG-AGTCACATGCTC
1 TTATTTCTTCAATT-GTCATTTATTTTAAGT-C-TTTTTTTTACCAAATTTGAACT-ACATACTC
* * * *
7018675 CTAAACCATAGTAGAATATATGTGTACTTTCAATTCCTCTTTTTGATAACAAATTTTTATTTTTC
62 CTAAAACATAGTAAAATACATGTGCACTTTCAATTCCTCTTTTTGATAACAAATTTTTATTTTTC
* * *
7018740 AATTTAGTCCTTTATTTTTTTATAATATC
127 AATTTAGTCCTTCAATTTTTCATAATATC
*
7018769 TT-TTTCCTTCAATATGTGATTTATTTTAAGTCATTTTTTTTACCAA
1 TTATTT-CTTCAAT-TGTCATTTATTTTAAGTC-TTTTTTTTACCAA
7018815 TTTAAACCAC
Statistics
Matches: 178, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
156 2 0.01
157 31 0.17
158 35 0.20
159 40 0.22
160 70 0.39
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.51
Consensus pattern (155 bp):
TTATTTCTTCAATTGTCATTTATTTTAAGTCTTTTTTTTACCAAATTTGAACTACATACTCCTAA
AACATAGTAAAATACATGTGCACTTTCAATTCCTCTTTTTGATAACAAATTTTTATTTTTCAATT
TAGTCCTTCAATTTTTCATAATATC
Found at i:7018877 original size:159 final size:160
Alignment explanation
Indices: 7018454--7018865 Score: 396
Period size: 160 Copynumber: 2.6 Consensus size: 160
7018444 TCTGGTTTCA
** * * * * *
7018454 TTATTTCTTCAATTTTTC-TTTATTTTAAGT-C-TTTTTTTTACTAAATTTGAACTACATACTCC
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTTTTACCAAATTTAAACCACATGCTCA
** * * * ** * * * *
7018516 TAAAATATAGTAAAATGCATGTGCACTTTCAATTCCTCTTTTTGATAACAACTTTTTTATTTTTC
66 TAAACCACAATAGAATATATATGAACTTTCAATTACTCTTTTTGATAACAACATTTTTATTTTTC
*
7018581 AATTTAGTCCTTCAATTTTTCATAATCTCC
131 AATTTAGTCCTTCAATTTTTCATAATATCC
* * * ** *
7018611 TTATTTCTTCAATTCGTCATTTATTTTACGTCCTTTTTTTTTACCAAATTTGAGTCACATGCTCC
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTTTTACCAAATTTAAACCACATGCTCA
* * * * *
7018676 TAAACCATAGTAGAATATATGTGTACTTTCAATTCCTCTTTTTGATAACAA-ATTTTTATTTTTC
66 TAAACCACAATAGAATATATATGAACTTTCAATTACTCTTTTTGATAACAACATTTTTATTTTTC
* * *
7018740 AATTTAGTCCTTTATTTTTTTATAATAT-C
131 AATTTAGTCCTTCAATTTTTCATAATATCC
*
7018769 TT-TTTCCTTCAATAT-GTGATTTATTTTAAGT-CATTTTTTTTACC-AATTTAAACCACATGCT
1 TTATTT-CTTCAAT-TCGTCATTTATTTTAAGTCCATTTTTTTTACCAAATTTAAACCACATGCT
*
7018830 CATATACCACAATAGAATACCTATAT-AACTTT-AATT
64 CATAAACCACAATAGAATA--TATATGAACTTTCAATT
7018866 GTTATTTTTT
Statistics
Matches: 217, Mismatches: 31, Indels: 15
0.83 0.12 0.06
Matches are distributed among these distances:
156 33 0.15
157 36 0.17
158 39 0.18
159 38 0.18
160 71 0.33
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (160 bp):
TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTTTTACCAAATTTAAACCACATGCTCA
TAAACCACAATAGAATATATATGAACTTTCAATTACTCTTTTTGATAACAACATTTTTATTTTTC
AATTTAGTCCTTCAATTTTTCATAATATCC
Found at i:7023914 original size:16 final size:16
Alignment explanation
Indices: 7023893--7023926 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7023883 GCAGCTTTAC
7023893 ACTAGTTAGGCTATCA
1 ACTAGTTAGGCTATCA
7023909 ACTAGTTAGGCTATCA
1 ACTAGTTAGGCTATCA
7023925 AC
1 AC
7023927 AAAGCCAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (16 bp):
ACTAGTTAGGCTATCA
Found at i:7037153 original size:6 final size:6
Alignment explanation
Indices: 7037142--7037174 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
7037132 GTTGCAGCCA
7037142 TTGCCG TTGCCG TTGCCG TTGCCG TTGCCG TTG
1 TTGCCG TTGCCG TTGCCG TTGCCG TTGCCG TTG
7037175 AAAGGAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.30, G:0.33, T:0.36
Consensus pattern (6 bp):
TTGCCG
Found at i:7038180 original size:36 final size:36
Alignment explanation
Indices: 7038138--7038213 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
7038128 TTATAGCTAA
*
7038138 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
7038174 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
7038210 AAAA
1 AAAA
7038214 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:7042703 original size:15 final size:15
Alignment explanation
Indices: 7042685--7042714 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7042675 CCACGGTGCT
7042685 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
7042700 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
7042715 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:7043178 original size:36 final size:36
Alignment explanation
Indices: 7043136--7043211 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
7043126 TTATAGCTAA
*
7043136 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
7043172 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
7043208 AAAA
1 AAAA
7043212 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:7045325 original size:2 final size:2
Alignment explanation
Indices: 7045320--7045355 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7045310 TACTGCAGAC
7045320 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7045356 TTAACGTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7045848 original size:2 final size:2
Alignment explanation
Indices: 7045841--7045865 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7045831 AACCATCTGA
7045841 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7045866 AGATGAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7047707 original size:19 final size:19
Alignment explanation
Indices: 7047679--7047718 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
7047669 AAAAAATATA
7047679 ATTTTATTAAA-TAAAAAT
1 ATTTTATTAAATTAAAAAT
7047697 ATTTATATTAAATTAAAAAT
1 ATTT-TATTAAATTAAAAAT
7047717 AT
1 AT
7047719 AATTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 7 0.35
20 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTTATTAAATTAAAAAT
Found at i:7047731 original size:19 final size:19
Alignment explanation
Indices: 7047670--7047733 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
7047660 AATAAAATCA
*
7047670 AAAAATATAATTTTATTAAAT
1 AAAAATATAATTTTATT--TT
* * **
7047691 AAAAATATTTATATTAAATT
1 AAAAATA-TAATTTTATTTT
7047711 AAAAATATAATTTTATTTT
1 AAAAATATAATTTTATTTT
7047730 AAAA
1 AAAA
7047734 TTCAAAAAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
19 12 0.36
20 8 0.24
21 7 0.21
22 6 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAAATATAATTTTATTTT
Found at i:7047746 original size:24 final size:22
Alignment explanation
Indices: 7047684--7047747 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 22
7047674 ATATAATTTT
7047684 ATTAAATAAAAATATTTATATTAA
1 ATTAAA-AAAAAT-TTTATATTAA
*
7047708 ATTAAAAATATAATTTTATTTTAAA
1 ATTAAAAA-A-AATTTTATATT-AA
7047733 ATTCAAAAAAAATTT
1 ATT-AAAAAAAATTT
7047748 CAAAAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
23 2 0.06
24 19 0.54
25 9 0.26
26 5 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTAAAAAAAATTTTATATTAA
Found at i:7047840 original size:20 final size:19
Alignment explanation
Indices: 7047807--7047853 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7047797 ACTTTGAATC
**
7047807 AAGATTAAAATTGAATGAAA
1 AAGATTAACTTTG-ATGAAA
*
7047827 AAGTTTAACTTTGATGAAA
1 AAGATTAACTTTGATGAAA
7047846 AAGATTAA
1 AAGATTAA
7047854 AAATTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.53, C:0.02, G:0.15, T:0.30
Consensus pattern (19 bp):
AAGATTAACTTTGATGAAA
Found at i:7055381 original size:16 final size:16
Alignment explanation
Indices: 7055360--7055403 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
7055350 GAAAAAACAT
*
7055360 GAGAGAGAGTGTCAGA
1 GAGAGAGAGGGTCAGA
*
7055376 GAGAGAGTGGGT--GA
1 GAGAGAGAGGGTCAGA
7055390 GAGAGAGAGGGTCA
1 GAGAGAGAGGGTCA
7055404 TTGCTGGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 13 0.57
16 10 0.43
ACGTcount: A:0.34, C:0.05, G:0.50, T:0.11
Consensus pattern (16 bp):
GAGAGAGAGGGTCAGA
Found at i:7067933 original size:53 final size:53
Alignment explanation
Indices: 7067840--7068237 Score: 493
Period size: 53 Copynumber: 7.5 Consensus size: 53
7067830 TACCTATTCG
* ** ** * * *
7067840 TTCAGGGAGTATAGGACTCGAACAATCTTCAACAAACGGG-TCTTCTCCCTATTGT
1 TTCAGGGAG--TAGAACTCGAACAATCTTCTGCCTACGGGTTC-GCTCCCTCTTGC
*
7067895 TTCAGGGAGTAGAACTCGAACAATCTTC-G-ATCAGCGGGTTCGCTCCCTCTTGC
1 TTCAGGGAGTAGAACTCGAACAATCTTCTGCCT-A-CGGGTTCGCTCCCTCTTGC
* * * *
7067948 TTAAGGGAGTAGAACTTGAACAGTCTTCTGCCTACGAGTTCGCTCCCTCTTGC
1 TTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGC
* * * *
7068001 TTCATGGAGTAAAACTCGAACAATATTCTGCCTA-TGG-TCGCTCCCTCTTGC
1 TTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGC
* * *
7068052 TTCAGGGAGTAGAACTCGAATAATCTTCTGCATTCGGGTTCGCTCCCTCTTGC
1 TTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGC
*
7068105 TTCAGGGAGTAAAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGC
1 TTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGC
*
7068158 TTCAGGGAGTAGAACTCGAATAATCTTCTGCCTACGGGTTCG-TCCCCTCTTGC
1 TTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCT-CCCTCTTGC
*
7068211 TTCAGGGAGTGGAACTCGAACAATCTT
1 TTCAGGGAGTAGAACTCGAACAATCTT
7068238 ATGGTGTGAT
Statistics
Matches: 301, Mismatches: 34, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
51 43 0.14
52 5 0.02
53 239 0.79
54 4 0.01
55 10 0.03
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (53 bp):
TTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGC
Found at i:7068174 original size:157 final size:158
Alignment explanation
Indices: 7067884--7068237 Score: 509
Period size: 157 Copynumber: 2.2 Consensus size: 158
7067874 AACGGGTCTT
* *
7067884 CTCCCTATTGTTTCAGGGAGTAGAACTCGAACAATCTTCGATCAGCGGGTTCGCTCCCTCTTGCT
1 CTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCGAT-AGCGGGTTCGCTCCCTCTTGCT
* * * *
7067949 TAAGGGAGTAGAACTTGAACAGTCTTCTGCCTACGAGTTCGCTCCCTCTTGCTTCATGGAGTAAA
65 TAAGGGAGTAAAACTCGAACAATCTTCTGCCTACGAGTTCGCTCCCTCTTGCTTCAGGGAGTAAA
*
7068014 ACTCGAACAATATTCTGCCTA-TGG-TCG
130 ACTCGAACAATATTCTGCCTACGGGTTCG
* *
7068041 CTCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCAT-TCGGGTTCGCTCCCTCTTGC
1 CTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTC-G-ATAGCGGGTTCGCTCCCTCTTGC
* * *
7068105 TTCAGGGAGTAAAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAG
64 TTAAGGGAGTAAAACTCGAACAATCTTCTGCCTACGAGTTCGCTCCCTCTTGCTTCAGGGAGTAA
* *
7068170 AACTCGAATAATCTTCTGCCTACGGGTTCG
129 AACTCGAACAATATTCTGCCTACGGGTTCG
*
7068200 -TCCCCTCTTGCTTCAGGGAGTGGAACTCGAACAATCTT
1 CT-CCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
7068238 ATGGTGTGAT
Statistics
Matches: 176, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
157 133 0.76
158 4 0.02
159 39 0.22
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (158 bp):
CTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCGATAGCGGGTTCGCTCCCTCTTGCTT
AAGGGAGTAAAACTCGAACAATCTTCTGCCTACGAGTTCGCTCCCTCTTGCTTCAGGGAGTAAAA
CTCGAACAATATTCTGCCTACGGGTTCG
Found at i:7068350 original size:42 final size:42
Alignment explanation
Indices: 7068304--7068383 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
7068294 TGATGACCCG
7068304 AAGGATTTCATCATCATGCTCGAAAGACTTACTAATGGACCA
1 AAGGATTTCATCATCATGCTCGAAAGACTTACTAATGGACCA
*
7068346 AAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
1 AAGGATTTCATCATCATGCTCGAAAGACTTACTAATGG
7068384 CACTTACTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (42 bp):
AAGGATTTCATCATCATGCTCGAAAGACTTACTAATGGACCA
Found at i:7068390 original size:13 final size:13
Alignment explanation
Indices: 7068372--7068396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7068362 TGCTCGAAAG
7068372 ACTTACTGATGGC
1 ACTTACTGATGGC
7068385 ACTTACTGATGG
1 ACTTACTGATGG
7068397 ATTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:7068685 original size:42 final size:41
Alignment explanation
Indices: 7068605--7068704 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 41
7068595 GGTTTTACGG
* * * * *
7068605 ATGACCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAA
1 ATGACCCGAAAGACTTAGCATCATGCTCGAAAGACTTACAA
* **
7068646 ATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTG
1 ATGACCCGAAAGACTT-AGCATCATGCTCGAAAGACTTACAA
* *
7068688 ATGGCCCGACAGACTTA
1 ATGACCCGAAAGACTTA
7068705 TAAATTATGA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
41 15 0.32
42 32 0.68
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (41 bp):
ATGACCCGAAAGACTTAGCATCATGCTCGAAAGACTTACAA
Found at i:7068876 original size:213 final size:213
Alignment explanation
Indices: 7068420--7068917 Score: 766
Period size: 213 Copynumber: 2.3 Consensus size: 213
7068410 CTCTTCGGTG
* * * * *
7068420 AAGGCTTGCAAATTACTCGAAGGATTTAATCATCATGCTCGAAAGACTTACTAATGGCCCGAAGG
1 AAGGCTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* * * *
7068485 GCTTATAAATTGTGAAAATTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTCAAAAC
66 ACTTATAAATTATGAAAATTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTCAAAAC
* *
7068550 ATCGTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTACGGATGACCCGAA
131 ATAG--TTTTCATTTTCAAATTCATGTAAAAACATCCTACCCGAAGGTTTTACGGATGACCCGAA
7068615 GGACTTATCATCTTGCTCTA
194 GGACTTATCATCTTGCTCTA
*
7068635 AAGGCTTACAAATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGACA-
1 AAGGCTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGA-AG
* *
7068699 GACTTATAAATTATGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAA
65 GACTTATAAATTATGAAAATTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTCAAAA
* *
7068764 CATAAG-TTTCATTTTCAAATTCATGTAAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAA
130 CAT-AGTTTTCATTTTCAAATTCATGTAAAAACATCCTACCCGAAGGTTTTACGGATGACCCGAA
7068828 GGACTTATCATCTTGCTCTA
194 GGACTTATCATCTTGCTCTA
* * * *
7068848 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACACTAAGG
1 AAGGCTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
7068913 ACTTA
66 ACTTA
7068918 AATTTCTTAC
Statistics
Matches: 259, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
212 1 0.00
213 138 0.53
215 118 0.46
216 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (213 bp):
AAGGCTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
ACTTATAAATTATGAAAATTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTCAAAAC
ATAGTTTTCATTTTCAAATTCATGTAAAAACATCCTACCCGAAGGTTTTACGGATGACCCGAAGG
ACTTATCATCTTGCTCTA
Done.