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 19 of 40
Found at i:3913232 original size:19 final size:19
Alignment explanation
Indices: 3913210--3913329 Score: 89
Period size: 19 Copynumber: 6.7 Consensus size: 19
3913200 CGAAATTAAA
3913210 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
3913229 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
3913244 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
3913262 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
3913277 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
3913295 TTCGCATTGCGATTTTGTCAT
1 TTCGCGTTGCGA-TTT-TCAT
3913316 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
3913330 GGACATTAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
14 17 0.22
16 6 0.08
17 6 0.08
19 28 0.37
20 3 0.04
21 7 0.09
22 9 0.12
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:3913256 original size:33 final size:33
Alignment explanation
Indices: 3913214--3913308 Score: 181
Period size: 33 Copynumber: 2.9 Consensus size: 33
3913204 ATTAAATTCG
3913214 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
3913247 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
3913280 CGTTGCGATTTTCATTTCGCATTGCGATT
1 CGTTGCGATTTTCATTTCGCATTGCGATT
3913309 TTGTCATTTC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:3913329 original size:22 final size:20
Alignment explanation
Indices: 3913280--3913329 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
3913270 GCGATTCTCT
3913280 CGTTGCGA-TTTTCATTTCG
1 CGTTGCGATTTTTCATTTCG
*
3913299 CATTGCGATTTTGTCATTTCCG
1 CGTTGCGATTTT-TCATTT-CG
3913321 CGTTGCGAT
1 CGTTGCGAT
3913330 GGACATTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 7 0.27
20 3 0.12
21 6 0.23
22 10 0.38
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTTTCATTTCG
Found at i:3915594 original size:12 final size:12
Alignment explanation
Indices: 3915577--3915601 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3915567 TTCTTCGGGA
3915577 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3915589 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3915601 C
1 C
3915602 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:3917082 original size:14 final size:14
Alignment explanation
Indices: 3917063--3917099 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3917053 CATCAATTAA
3917063 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
3917077 ACAAATCATCTTTT
1 ACAAATCAACATTT
3917091 ACAAATCAA
1 ACAAATCAA
3917100 TTAAACAATC
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:3918952 original size:19 final size:19
Alignment explanation
Indices: 3918930--3918995 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
3918920 CGAAACTTAA
3918930 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
* *
3918949 ATCGCAACGCGGAATGGCT
1 ATCGCAACGCGAAATGACT
* **
3918968 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
3918987 ATCGCAACG
1 ATCGCAACG
3918996 ACAAATCGCA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:3919012 original size:32 final size:33
Alignment explanation
Indices: 3918968--3919073 Score: 145
Period size: 32 Copynumber: 3.4 Consensus size: 33
3918958 CGGAATGGCT
*
3918968 ATCGCAATGCGAAATGAAAATCGCAACGAC-AA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
3919000 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
3919032 ATCGCAA--CG--A-CAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
3919060 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
3919074 CACAAATCGC
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
28 24 0.36
30 4 0.06
31 13 0.20
32 25 0.38
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.09
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:3919035 original size:14 final size:14
Alignment explanation
Indices: 3918984--3919068 Score: 118
Period size: 14 Copynumber: 5.9 Consensus size: 14
3918974 ATGCGAAATG
3918984 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
3918998 -AAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
3919013 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
3919029 AAAATCGCAACGAC
1 AAAATCGCAACGAC
3919043 AAAATCGCAACGAC
1 AAAATCGCAACGAC
3919057 AAAATCGCAACG
1 AAAATCGCAACG
3919069 CGAAACACAA
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
13 9 0.14
14 39 0.61
15 3 0.05
16 4 0.06
18 9 0.14
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:3919106 original size:18 final size:18
Alignment explanation
Indices: 3919080--3919199 Score: 104
Period size: 18 Copynumber: 6.6 Consensus size: 18
3919070 GAAACACAAA
*
3919080 TCGCATTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
3919098 TCGCGTTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
*
3919116 TCGCGTTGCGATTT--TG
1 TCGCGTTGCGATTTCATT
3919132 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
* **
3919149 TCGCATTGCGATAGCCATT
1 TCGCGTTGCGAT-TTCATT
*
3919168 TCCGCGTTGCGATAGTCATTT
1 T-CGCGTTGCGAT-TTCA-TT
*
3919189 TCGTGTTGCGA
1 TCGCGTTGCGA
3919200 AAGTAACTAT
Statistics
Matches: 85, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
14 8 0.09
15 3 0.04
16 2 0.02
17 2 0.02
18 32 0.38
19 12 0.14
20 23 0.27
21 3 0.04
ACGTcount: A:0.13, C:0.22, G:0.23, T:0.42
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:3919179 original size:20 final size:19
Alignment explanation
Indices: 3919145--3919199 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
3919135 TTGCGATTTT
*
3919145 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
3919164 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
3919184 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
3919200 AAGTAACTAT
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:3919690 original size:18 final size:18
Alignment explanation
Indices: 3919664--3919708 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
3919654 GTCGATCAGA
*
3919664 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
3919682 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
3919700 TGATGGCTC
1 TGATGGCTC
3919709 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:3921026 original size:20 final size:20
Alignment explanation
Indices: 3921001--3921038 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3920991 AATAGTTTCT
3921001 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
3921021 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
3921039 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:3921545 original size:19 final size:19
Alignment explanation
Indices: 3921521--3921613 Score: 80
Period size: 19 Copynumber: 4.7 Consensus size: 19
3921511 GATTATGTAT
3921521 TATCGCGTTGCGAAGTCAG
1 TATCGCGTTGCGAAGTCAG
3921540 TATCGCGTTGCGAAAGT-AG
1 TATCGCGTTGCG-AAGTCAG
* * * *
3921559 TATCTCGTTGCGAATTTTTTAT
1 TATCGCGTTGCGAA---GTCAG
*
3921581 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGA-AGTCAG
*
3921601 TATCGCATTGCGA
1 TATCGCGTTGCGA
3921614 TTTTCTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
18 2 0.03
19 25 0.42
20 19 0.32
21 1 0.02
22 12 0.20
23 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (19 bp):
TATCGCGTTGCGAAGTCAG
Found at i:3921633 original size:41 final size:40
Alignment explanation
Indices: 3921542--3921676 Score: 121
Period size: 41 Copynumber: 3.3 Consensus size: 40
3921532 GAAGTCAGTA
* * * * *
3921542 TCGCGTTGCGAAAGTAGTATCTCGTTGCGAATTTT-TTATT
1 TCGCGTTGCGATAGTAGTATCGCATTGCG-ATTTTCTCAAT
*
3921582 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAAT
1 -TCGCGTTGCGATAGT-AGTATCGCATTGCGATTTTCTCAAT
* * * *
3921624 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTA-GTA-TCGCATTGCGATTTTCTCAAT
3921665 TCGCGTTGCGAT
1 TCGCGTTGCGAT
3921677 TTACTTATTC
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 60 0.76
42 15 0.19
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (40 bp):
TCGCGTTGCGATAGTAGTATCGCATTGCGATTTTCTCAAT
Found at i:3921647 original size:20 final size:20
Alignment explanation
Indices: 3921603--3921695 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
3921593 ATAGTCAGTA
*
3921603 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-AAT
* *
3921624 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
* *
3921644 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTAAT
* *
3921665 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
3921685 TCGCATTGCGA
1 TCGCATTGCGA
3921696 ATTGGGAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTAAT
Found at i:3921677 original size:41 final size:41
Alignment explanation
Indices: 3921603--3921698 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
3921593 ATAGTCAGTA
* *
3921603 TCGCATTGCGATTTTCTCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
3921644 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
3921685 TCGCATTGCGAATT
1 TCGCATTGCGAATT
3921699 GGGAAAATCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:3922664 original size:20 final size:20
Alignment explanation
Indices: 3922639--3922728 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 20
3922629 TAAAATACTT
3922639 GCGTTGCGAAAGTCAGTATC
1 GCGTTGCGAAAGTCAGTATC
*
3922659 GCGTTGCGAAAGTAAGTATC
1 GCGTTGCGAAAGTCAGTATC
* *** * *
3922679 TCGTTGCGATTTTTTATTATC
1 GCGTTGCGA-AAGTCAGTATC
* *
3922700 GCATTGCGATAGTCAGTATC
1 GCGTTGCGAAAGTCAGTATC
*
3922720 GCATTGCGA
1 GCGTTGCGA
3922729 TTTTCTCAAT
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 43 0.77
21 13 0.23
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (20 bp):
GCGTTGCGAAAGTCAGTATC
Found at i:3922706 original size:21 final size:21
Alignment explanation
Indices: 3922673--3922752 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
3922663 TGCGAAAGTA
* * *
3922673 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
3922694 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
3922714 AGTATCGCATTGCGATTTTCTC
1 AGTATCGCATTGCGATTTT-TC
* *
3922736 AAT-TCGCGTTGCGATTT
1 AGTATCGCATTGCGATTT
3922753 ACTTATTCGC
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 16 0.35
21 26 0.57
22 4 0.09
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:3922748 original size:41 final size:41
Alignment explanation
Indices: 3922657--3922791 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
3922647 AAAGTCAGTA
* * * * *
3922657 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAAT
* *
3922697 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAAT
* ** * *
3922739 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCTCAAT
3922780 TCGCGTTGCGAT
1 TCGCGTTGCGAT
3922792 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 72 0.92
42 3 0.04
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAAT
Found at i:3922762 original size:20 final size:20
Alignment explanation
Indices: 3922718--3922810 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
3922708 ATAGTCAGTA
*
3922718 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-AAT
* *
3922739 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
* *
3922759 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTAAT
* *
3922780 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
3922800 TCGCATTGCGA
1 TCGCATTGCGA
3922811 ATTGGAAAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTAAT
Found at i:3922792 original size:41 final size:41
Alignment explanation
Indices: 3922718--3922813 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
3922708 ATAGTCAGTA
* *
3922718 TCGCATTGCGATTTTCTCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
3922759 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
3922800 TCGCATTGCGAATT
1 TCGCATTGCGAATT
3922814 GGAAAATCGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:3926380 original size:23 final size:20
Alignment explanation
Indices: 3926354--3926411 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 20
3926344 ATTCCTTCCT
3926354 CTTAATTGAATACATACAATCTC
1 CTTAATTGAA-AC-T-CAATCTC
3926377 CTTAATTG-AACTCAATCTC
1 CTTAATTGAAACTCAATCTC
3926396 CTTAATTG-AACTCAAT
1 CTTAATTGAAACTCAAT
3926412 ATTTCGTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 23 0.66
20 1 0.03
21 2 0.06
22 1 0.03
23 8 0.23
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.36
Consensus pattern (20 bp):
CTTAATTGAAACTCAATCTC
Found at i:3926394 original size:19 final size:19
Alignment explanation
Indices: 3926370--3926411 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
3926360 TGAATACATA
3926370 CAATCTCCTTAATTGAACT
1 CAATCTCCTTAATTGAACT
3926389 CAATCTCCTTAATTGAACT
1 CAATCTCCTTAATTGAACT
3926408 CAAT
1 CAAT
3926412 ATTTCGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (19 bp):
CAATCTCCTTAATTGAACT
Found at i:3930893 original size:93 final size:93
Alignment explanation
Indices: 3930786--3930955 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
3930776 AAAGCAATGC
* * *
3930786 GCCAAATTAGCTGACCAAACGACCGCACTCACCGATCCAATAATTGAAAAAG-TCATACCCACTA
1 GCCAAAGTAGCTGACCAAACAACCGCACTCACCGATCCAATAATTGAAAAAGAGC-TACCCACTA
3930850 CCGAACCAGCTGTTTCATCAATGTAAGGA
65 CCGAACCAGCTGTTTCATCAATGTAAGGA
* * * *
3930879 GCCAAAGTAGCTGACCAATCAACCTCACTCACCGATTCAATTATTGAAAAAGAGCTACCCACTAC
1 GCCAAAGTAGCTGACCAAACAACCGCACTCACCGATCCAATAATTGAAAAAGAGCTACCCACTAC
3930944 CGAACCAGCTGT
66 CGAACCAGCTGT
3930956 ACCAACCGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.36, C:0.30, G:0.15, T:0.19
Consensus pattern (93 bp):
GCCAAAGTAGCTGACCAAACAACCGCACTCACCGATCCAATAATTGAAAAAGAGCTACCCACTAC
CGAACCAGCTGTTTCATCAATGTAAGGA
Found at i:3932020 original size:34 final size:34
Alignment explanation
Indices: 3931977--3932044 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
3931967 GTCGGAAAAA
*
3931977 GGTATATAGTTGACACAAGTATGTTCAAATTTTT
1 GGTATATAGTTGACACAAGTATGTACAAATTTTT
3932011 GGTATATAGTTGACACAAGTATGTACAAATTTTT
1 GGTATATAGTTGACACAAGTATGTACAAATTTTT
3932045 TCTTACTCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.40
Consensus pattern (34 bp):
GGTATATAGTTGACACAAGTATGTACAAATTTTT
Found at i:3934288 original size:36 final size:36
Alignment explanation
Indices: 3934240--3934321 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
3934230 TTCACCATCA
*
3934240 CTTTCCCATATGCAAATCCTCGGGAAATTAATGATT
1 CTTTCCCCTATGCAAATCCTCGGGAAATTAATGATT
3934276 CTTTCCCCTATGCAAATCCTCGGGAAATTAATGATT
1 CTTTCCCCTATGCAAATCCTCGGGAAATTAATGATT
*
3934312 CTTACCCCTA
1 CTTTCCCCTA
3934322 AGCTTCCCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (36 bp):
CTTTCCCCTATGCAAATCCTCGGGAAATTAATGATT
Found at i:3935866 original size:16 final size:17
Alignment explanation
Indices: 3935835--3935868 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3935825 AAATATTATT
*
3935835 TTATTATTTATTTTAAA
1 TTATTATTTATATTAAA
3935852 TTATT-TTTATATTAAA
1 TTATTATTTATATTAAA
3935868 T
1 T
3935869 AATAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTTATATTAAA
Found at i:3937437 original size:18 final size:18
Alignment explanation
Indices: 3937414--3937457 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
3937404 ATATACCATC
3937414 ATTATCATCATCAATATT
1 ATTATCATCATCAATATT
* *
3937432 ATTATCGTCATCCATATT
1 ATTATCATCATCAATATT
3937450 ATTATCAT
1 ATTATCAT
3937458 TAATCCCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTATCATCATCAATATT
Found at i:3937725 original size:21 final size:22
Alignment explanation
Indices: 3937668--3937730 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
3937658 TACCAAAGTG
3937668 CCACATAAAATGTCCCGAAGAA
1 CCACATAAAATGTCCCGAAGAA
3937690 CCACATAAAATGTCCCGAAGAA
1 CCACATAAAATGTCCCGAAGAA
*
3937712 CCACAT-AGATGTCCCGAAG
1 CCACATAAAATGTCCCGAAG
3937731 GACCGCGTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 12 0.30
22 28 0.70
ACGTcount: A:0.41, C:0.29, G:0.16, T:0.14
Consensus pattern (22 bp):
CCACATAAAATGTCCCGAAGAA
Found at i:3937748 original size:44 final size:43
Alignment explanation
Indices: 3937668--3937789 Score: 109
Period size: 44 Copynumber: 2.7 Consensus size: 43
3937658 TACCAAAGTG
* *
3937668 CCACATAAAATGTCCCGAAGAACCACATAAAATGTCCCGAAGAA
1 CCACAT-AGATGTCCCGAAGGACCACATAAAATGTCCCGAAGAA
* * * * *
3937712 CCACATAGATGTCCCGAAGGACCGCGTATAATTGTCCTGAAGGA
1 CCACATAGATGTCCCGAAGGACCACATA-AAATGTCCCGAAGAA
* * * *
3937756 CCGCGTAGAATTGTCCCGAATGACCATATAAAAT
1 CCACATAG-A-TGTCCCGAAGGACCACATAAAAT
3937790 TATCCCAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
43 18 0.30
44 24 0.39
45 4 0.07
46 15 0.25
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (43 bp):
CCACATAGATGTCCCGAAGGACCACATAAAATGTCCCGAAGAA
Found at i:3937753 original size:23 final size:23
Alignment explanation
Indices: 3937678--3937780 Score: 95
Period size: 23 Copynumber: 4.6 Consensus size: 23
3937668 CCACATAAAA
* * * *
3937678 TGTCCCGAAGAACCACATA-AAA
1 TGTCCCGAAGGACCGCGTAGAAT
* * *
3937700 TGTCCCGAAGAACCACATAG-A-
1 TGTCCCGAAGGACCGCGTAGAAT
*
3937721 TGTCCCGAAGGACCGCGTATAAT
1 TGTCCCGAAGGACCGCGTAGAAT
*
3937744 TGTCCTGAAGGACCGCGTAGAAT
1 TGTCCCGAAGGACCGCGTAGAAT
*
3937767 TGTCCCGAATGACC
1 TGTCCCGAAGGACC
3937781 ATATAAAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
21 16 0.23
22 21 0.30
23 33 0.47
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
TGTCCCGAAGGACCGCGTAGAAT
Found at i:3939142 original size:25 final size:24
Alignment explanation
Indices: 3939114--3939161 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
3939104 AAATATGACT
*
3939114 TCAA-AATTCATTTACAAACTCCCTC
1 TCAATAATTCACTTA-AAAC-CCCTC
3939139 TCAATAATTCACTTAAAACCCCT
1 TCAATAATTCACTTAAAACCCCT
3939162 TATATTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 9 0.43
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (24 bp):
TCAATAATTCACTTAAAACCCCTC
Found at i:3942186 original size:23 final size:23
Alignment explanation
Indices: 3942107--3942236 Score: 90
Period size: 23 Copynumber: 5.8 Consensus size: 23
3942097 AAAAATTACA
*
3942107 CCAAAGTG-CCACGTAG-AATATC
1 CCAAAG-GACCACGTAGAAATGTC
* *
3942129 CCGAAGGACCACATAG--ATGTC
1 CCAAAGGACCACGTAGAAATGTC
*
3942150 CCGAAA-GACTACGTAGAAATGTC
1 CC-AAAGGACCACGTAGAAATGTC
* *
3942173 CCAAATGACCACGTAGAATTGTC
1 CCAAAGGACCACGTAGAAATGTC
* * * ** *
3942196 TCGAAGGACCACATAGATTTATC
1 CCAAAGGACCACGTAGAAATGTC
*
3942219 CCAAAGGACCGCGTAGAA
1 CCAAAGGACCACGTAGAA
3942237 TCCTCGACTC
Statistics
Matches: 84, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
21 15 0.18
22 17 0.20
23 52 0.62
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (23 bp):
CCAAAGGACCACGTAGAAATGTC
Found at i:3943782 original size:31 final size:31
Alignment explanation
Indices: 3943715--3943774 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
3943705 CAATTTAAGG
*
3943715 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
3943746 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
3943775 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:3943873 original size:19 final size:19
Alignment explanation
Indices: 3943840--3943905 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
3943830 AATGTTTTTA
* *
3943840 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
*
3943859 TGATCAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
* * *
3943878 GGAACAGTAAATCACTGTT
1 TGAACAGTAAATTACTATT
3943897 TGAACAGTA
1 TGAACAGTA
3943906 CCCGAGGCTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:3944036 original size:20 final size:21
Alignment explanation
Indices: 3944011--3944051 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
3944001 ATTTGAATAT
*
3944011 TATGAAGGGG-ATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3944031 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3944052 CCCATTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:3944373 original size:34 final size:32
Alignment explanation
Indices: 3944334--3944403 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
3944324 TTTTGTAAAG
*
3944334 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
3944368 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
3944400 GGGA
1 GGGA
3944404 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:3950382 original size:26 final size:25
Alignment explanation
Indices: 3950325--3950376 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
3950315 TTAAGTATAA
* *
3950325 ATATAAAAGATAAATAAATTATTGT
1 ATATAGAAGATAAATAAATTATTAT
3950350 ATATAGAAGATATAATAAATT-TTAT
1 ATATAGAAGATA-AATAAATTATTAT
3950375 AT
1 AT
3950377 CTTAGATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (25 bp):
ATATAGAAGATAAATAAATTATTAT
Found at i:3950591 original size:15 final size:15
Alignment explanation
Indices: 3950571--3950601 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3950561 CAACAAATAA
3950571 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
3950586 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
3950601 A
1 A
3950602 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:3950798 original size:20 final size:20
Alignment explanation
Indices: 3950762--3950799 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3950752 ATCATATTCC
**
3950762 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
3950782 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
3950800 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:3952780 original size:19 final size:20
Alignment explanation
Indices: 3952758--3952796 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
3952748 TAGTCTAATC
*
3952758 CGATTGGACCGGTCT-GAAT
1 CGATTGAACCGGTCTAGAAT
*
3952777 CGATTGAATCGGTCTAGAAT
1 CGATTGAACCGGTCTAGAAT
3952797 GAGCCGTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (20 bp):
CGATTGAACCGGTCTAGAAT
Found at i:3954368 original size:91 final size:91
Alignment explanation
Indices: 3954268--3954459 Score: 296
Period size: 91 Copynumber: 2.1 Consensus size: 91
3954258 TTCCTGCCTT
* * *
3954268 TTTTTATTCTTAGTTTTCATATTTTT-TGCTTTTGTTTCTGTTAAAGAAAACCTTTTGATTCTTC
1 TTTTTATTCTTAG-TTTCATATTTTTGTGCTTTCGTTTCTGTCAAAGAAAACCTTTTGATTATTC
*
3954332 TCCTAATGGTGGTTTTGAATGCTTTTG
65 TCCTAATGGTGCTTTTGAATGCTTTTG
* *
3954359 TTTTTATTCTTAGTTTCTTGTTTTTGTGCTTTCGTTTCTGTCAAAGAAAACCTTTTGATTATTCT
1 TTTTTATTCTTAGTTTCATATTTTTGTGCTTTCGTTTCTGTCAAAGAAAACCTTTTGATTATTCT
* *
3954424 CCTGATGGTGCTTTTGATTGCTTTTG
66 CCTAATGGTGCTTTTGAATGCTTTTG
3954450 TTTTTATTCT
1 TTTTTATTCT
3954460 CCTCCCCTTT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
90 10 0.11
91 82 0.89
ACGTcount: A:0.16, C:0.13, G:0.15, T:0.57
Consensus pattern (91 bp):
TTTTTATTCTTAGTTTCATATTTTTGTGCTTTCGTTTCTGTCAAAGAAAACCTTTTGATTATTCT
CCTAATGGTGCTTTTGAATGCTTTTG
Found at i:3955355 original size:14 final size:14
Alignment explanation
Indices: 3955336--3955363 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3955326 TAGACAAAGT
3955336 GTTGATAATTGTCG
1 GTTGATAATTGTCG
3955350 GTTGATAATTGTCG
1 GTTGATAATTGTCG
3955364 AATGGATAGG
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:0.29, T:0.43
Consensus pattern (14 bp):
GTTGATAATTGTCG
Found at i:3960274 original size:32 final size:31
Alignment explanation
Indices: 3960168--3960288 Score: 125
Period size: 32 Copynumber: 3.8 Consensus size: 31
3960158 TAAGGTGACA
* * *
3960168 CTTGGGTAGGCTTTGAGGCCCCAAGGTATTT
1 CTTGGGTAGGCTCTAAGGCCCCAAGGTATCT
* * *
3960199 CATTGGGTAGGCTCTAAGGCCCTAATGTATTCC
1 C-TTGGGTAGGCTCTAAGGCCCCAAGGTA-TCT
* * *
3960232 CTTAGGTAGGCTCTTAGGCCCCAAGGTACACT
1 CTTGGGTAGGCTCTAAGGCCCCAAGGTA-TCT
*
3960264 CTTGGATAGGCTCTAAGGCCCCAAG
1 CTTGGGTAGGCTCTAAGGCCCCAAG
3960289 ATAATCCCTT
Statistics
Matches: 72, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
31 1 0.01
32 69 0.96
33 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (31 bp):
CTTGGGTAGGCTCTAAGGCCCCAAGGTATCT
Found at i:3960274 original size:64 final size:64
Alignment explanation
Indices: 3960172--3960308 Score: 172
Period size: 64 Copynumber: 2.1 Consensus size: 64
3960162 GTGACACTTG
** * * *
3960172 GGTAGGCTTTGAGGCCCCAAGGTATTTCATTGGGTAGGCTCTAAGGCCCTAATG-TATTCCCTTA
1 GGTAGGCTTTGAGGCCCCAAGGTAACTCATTGGATAGGCTCTAAGGCCCCAA-GATAATCCCTTA
3960236 GGTAGGCTCTT-AGGCCCCAAGGTACACTC-TTGGATAGGCTCTAAGGCCCCAAGATAATCCCTT
1 GGTAGGCT-TTGAGGCCCCAAGGTA-ACTCATTGGATAGGCTCTAAGGCCCCAAGATAATCCCTT
3960299 A
64 A
*
3960300 GGTTGGCTT
1 GGTAGGCTT
3960309 CTACGCCTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
63 2 0.03
64 58 0.91
65 4 0.06
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.28
Consensus pattern (64 bp):
GGTAGGCTTTGAGGCCCCAAGGTAACTCATTGGATAGGCTCTAAGGCCCCAAGATAATCCCTTA
Found at i:3960729 original size:32 final size:31
Alignment explanation
Indices: 3960693--3960755 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
3960683 TTGGATATTG
3960693 TTGAA-TTCTATTTTTAATATATAAATGATTTT
1 TTGAACTTCTA-TTTT-ATATATAAATGATTTT
* * *
3960725 TTGAACTTGTATTTTATCTATAAATTATTTT
1 TTGAACTTCTATTTTATATATAAATGATTTT
3960756 ACAGTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 14 0.52
32 9 0.33
33 4 0.15
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (31 bp):
TTGAACTTCTATTTTATATATAAATGATTTT
Found at i:3961605 original size:3 final size:3
Alignment explanation
Indices: 3961597--3961638 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
3961587 TATCTAATTG
3961597 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3961639 GCTTATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3963702 original size:22 final size:22
Alignment explanation
Indices: 3963677--3963720 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3963667 TCAAACGATG
*
3963677 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
3963699 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
3963721 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:3967395 original size:20 final size:19
Alignment explanation
Indices: 3967351--3967396 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
3967341 TATTAAAGCG
3967351 AAAAGAAAAAAAAGCAACA
1 AAAAGAAAAAAAAGCAACA
3967370 ACAAAGAAAAAGCAAAG-AACA
1 A-AAAGAAAAA--AAAGCAACA
3967391 AAAAGA
1 AAAAGA
3967397 GGACAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 14 0.58
21 5 0.21
22 4 0.17
ACGTcount: A:0.76, C:0.11, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAAAGCAACA
Found at i:3968563 original size:4 final size:4
Alignment explanation
Indices: 3968554--3968598 Score: 76
Period size: 4 Copynumber: 11.8 Consensus size: 4
3968544 CGAGAAAAGT
3968554 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
3968599 TATGATACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
4 37 0.95
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:3969012 original size:20 final size:20
Alignment explanation
Indices: 3968989--3969050 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 20
3968979 AACAAATTTT
3968989 ATTTTGTCTCGCTTGAGACA
1 ATTTTGTCTCGCTTGAGACA
* * *
3969009 A-TTT-TCTC-TTTAAAACAA
1 ATTTTGTCTCGCTTGAGAC-A
*
3969027 ATTATGTCTCGCTTGAGAC-
1 ATTTTGTCTCGCTTGAGACA
3969046 ATTTT
1 ATTTT
3969051 TCCACAAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 9
0.64 0.17 0.19
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 9 0.30
20 5 0.17
21 5 0.17
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (20 bp):
ATTTTGTCTCGCTTGAGACA
Found at i:3969201 original size:105 final size:102
Alignment explanation
Indices: 3969072--3969310 Score: 297
Period size: 105 Copynumber: 2.3 Consensus size: 102
3969062 TGAGAATTTT
* * *
3969072 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
3969136 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
3969177 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
3969242 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
3969279 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
3969311 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 78 0.66
106 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:3969301 original size:36 final size:36
Alignment explanation
Indices: 3969256--3969340 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
3969246 ACAAAGTTGA
**
3969256 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
3969292 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
*
3969328 TCTCATTTGAGAC
1 TCTCACTTGAGAC
3969341 TATATCTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:3969664 original size:29 final size:28
Alignment explanation
Indices: 3969620--3969691 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
3969610 TTTGAACAAA
*
3969620 AAAAAAATCTTGGAGTTTGTTCCTTTTG
1 AAAAAAATCTTTGAGTTTGTTCCTTTTG
*
3969648 AATAAAAATCTTTGAG-TTGTTTCTTTTG
1 AA-AAAAATCTTTGAGTTTGTTCCTTTTG
*
3969676 AAAAAAATATTTGAGT
1 AAAAAAATCTTTGAGT
3969692 CTATTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 12 0.31
28 15 0.38
29 12 0.31
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (28 bp):
AAAAAAATCTTTGAGTTTGTTCCTTTTG
Found at i:3969716 original size:28 final size:27
Alignment explanation
Indices: 3969643--3969706 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
3969633 AGTTTGTTCC
* * *
3969643 TTTTGAATAAAAATCTTTGAGTTGTTTC
1 TTTTGAA-AAAAATATTTGAGTTATTTA
3969671 TTTTGAAAAAAATATTTGAGTCTATTTA
1 TTTTGAAAAAAATATTTGAGT-TATTTA
3969699 TTTTGAAA
1 TTTTGAAA
3969707 CAAAGTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 13 0.41
28 19 0.59
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.48
Consensus pattern (27 bp):
TTTTGAAAAAAATATTTGAGTTATTTA
Found at i:3969792 original size:50 final size:52
Alignment explanation
Indices: 3969702--3969803 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
3969692 CTATTTATTT
*
3969702 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTTTTG-CTCTCTTGAGACAATTTCGCGAAAAAATCTTTGAGTC
*
3969754 TGAAACAAAGTTTTG-TCTCTTGAGACAATTTTGCGAAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGCTCTCTTGAGACAATTTCGCG-AAAAAATCTTTGAG
3969804 ATTGTTTCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 18 0.39
52 28 0.61
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (52 bp):
TGAAACAAAGTTTTGCTCTCTTGAGACAATTTCGCGAAAAAATCTTTGAGTC
Found at i:3969828 original size:31 final size:31
Alignment explanation
Indices: 3969790--3969885 Score: 128
Period size: 31 Copynumber: 3.1 Consensus size: 31
3969780 AATTTTGCGA
3969790 AAAAAATCTTTGAGATTGTTTCATTT-AATAC
1 AAAAAATCTTTGAGATTGTTTCATTTGAA-AC
*
3969821 AAAAAATCTTTGAGATTGTTTCTTTTGAAAC
1 AAAAAATCTTTGAGATTGTTTCATTTGAAAC
3969852 -AAAAATCTTTGAG-TCTGTTTC-TTTGGAAAC
1 AAAAAATCTTTGAGAT-TGTTTCATTT-GAAAC
3969882 AAAA
1 AAAA
3969886 TTTTGTCTCT
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
29 4 0.07
30 24 0.40
31 30 0.50
32 2 0.03
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (31 bp):
AAAAAATCTTTGAGATTGTTTCATTTGAAAC
Found at i:3969858 original size:30 final size:30
Alignment explanation
Indices: 3969791--3969952 Score: 148
Period size: 30 Copynumber: 5.1 Consensus size: 30
3969781 ATTTTGCGAA
*
3969791 AAAAATCTTTGAGATTGTTTCATTT-AATAC
1 AAAAATCTTTGAGATTGTTTCTTTTGAA-AC
3969821 AAAAAATCTTTGAGATTGTTTCTTTTGAAAC
1 -AAAAATCTTTGAGATTGTTTCTTTTGAAAC
*
3969852 AAAAATCTTTGAG-TCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGAT-TGTTTCTTTTGAAAC
* * **
3969882 AAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
1 AAAA------ATCT-TTGAGATTGTTTCTTTTGAAAC
* *
3969919 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTTGAAAC
3969949 AAAA
1 AAAA
3969953 TTTTGTCTCT
Statistics
Matches: 108, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
29 1 0.01
30 52 0.48
31 29 0.27
32 2 0.02
36 3 0.03
37 20 0.19
38 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (30 bp):
AAAAATCTTTGAGATTGTTTCTTTTGAAAC
Found at i:3969919 original size:37 final size:37
Alignment explanation
Indices: 3969869--3969985 Score: 122
Period size: 37 Copynumber: 3.3 Consensus size: 37
3969859 TTTGAGTCTG
3969869 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
* * * * **
3969906 TTTCTTTTGAAACAAAA------ATCT-TTGAGTTTG
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
3969936 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
3969973 TTTCTTTTGGAAA
1 TTTC-TTTGGAAA
3969986 AAATCTTTGA
Statistics
Matches: 60, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
30 21 0.35
31 3 0.05
36 3 0.05
37 25 0.42
38 8 0.13
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (37 bp):
TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
Found at i:3969947 original size:67 final size:67
Alignment explanation
Indices: 3969839--3970005 Score: 293
Period size: 67 Copynumber: 2.5 Consensus size: 67
3969829 TTTGAGATTG
3969839 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
3969904 AA
66 AA
*
3969906 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
3969971 AA
66 AA
* *
3969973 TTTCTTTTG-GA-AAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCT
3970006 CTTAAAATGA
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
65 20 0.21
66 1 0.01
67 75 0.78
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.46
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:3970995 original size:28 final size:28
Alignment explanation
Indices: 3970924--3971005 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
3970914 TAAAAATATC
* * *
3970924 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
3970952 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
3970980 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
3971006 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:3971121 original size:43 final size:44
Alignment explanation
Indices: 3971062--3971266 Score: 190
Period size: 43 Copynumber: 4.7 Consensus size: 44
3971052 GTCATCCCCA
*
3971062 AACCAGATCTCCTCATCACGTAGGAGCCGTGTCA-ACCATAGAT
1 AACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCATAGAT
* * *
3971105 AACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
1 AACCAGACC-TCCTCATCACGTAGGAGCCGTGTCAT-ACC-ATAGAT
** * * * * **
3971151 GGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAG--
1 AACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCATAGAT
* *
3971193 -ACCAGATCTCCTCATCACGTAGGAGCCGTGTCA-ACCGTAGAT
1 AACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCATAGAT
*
3971235 AACCA-ACCGTCCTCATCACGTAGGAACCGTGT
1 AACCAGACC-TCCTCATCACGTAGGAGCCGTGT
3971267 TATCACCTTA
Statistics
Matches: 130, Mismatches: 23, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
40 4 0.03
41 29 0.22
42 3 0.02
43 55 0.42
44 2 0.02
45 5 0.04
46 31 0.24
47 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (44 bp):
AACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCATAGAT
Found at i:3971170 original size:46 final size:45
Alignment explanation
Indices: 3971064--3971386 Score: 187
Period size: 43 Copynumber: 7.4 Consensus size: 45
3971054 CATCCCCAAA
* * * **
3971064 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA--ACCATAGATAA
1 CCAGAACTCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGG
* *
3971107 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGAAC-TCCTCATCACGTAGGAACCGTGTCATCACC-TTAGATGG
* * * *
3971153 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTC-CC-CAGA---
1 CCAGAACTCCTCATCACGTAGGAACCGTGTCA-TCACCTTAGATGG
* * * **
3971194 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA--ACCGTAGATAA
1 CCAGAACTCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGG
* *
3971237 CCA-ACCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGG
1 CCAGAAC-TCCTCATCACGTAGGAACCGTGTCATCACCTT-AGATGG
* * * * * *
3971283 CCAAGAACTCTTCATCACGTATGAGCAGTGTCA--ACCCTCGA---
1 CC-AGAACTCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGG
** * * *
3971324 CCAGATTTCCTCATCACGTAGGAACCATGTCA-C-CCTTAGACGA
1 CCAGAACTCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGG
* *
3971367 CCCGAACTCTTCATCACGTA
1 CCAGAACTCCTCATCACGTA
3971387 TGAGCAGTGG
Statistics
Matches: 216, Mismatches: 43, Indels: 42
0.72 0.14 0.14
Matches are distributed among these distances:
39 2 0.01
40 31 0.14
41 31 0.14
42 3 0.01
43 69 0.32
44 5 0.02
45 11 0.05
46 38 0.18
47 24 0.11
48 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (45 bp):
CCAGAACTCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGG
Found at i:3971250 original size:130 final size:129
Alignment explanation
Indices: 3971017--3971355 Score: 511
Period size: 130 Copynumber: 2.6 Consensus size: 129
3971007 ATAACTCCTA
* * * * *
3971017 AAGATGGCCAG-CCGTCTTCATCATGTAGGAACCGTGTCATCCCCAAACCAGATCTCCTCATCAC
1 AAGATGGCCAGAAC-TCTTCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCAC
*
3971081 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
65 GTAGGAGCCGTGTCAACCATAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
*
3971146 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCATCAC
1 AAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCCTCATCAC
*
3971211 GTAGGAGCCGTGTCAACCGTAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
65 GTAGGAGCCGTGTCAACCATAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
* * *
3971276 AAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCAACCCTC-GACCAGATTTCCTCATCA
1 AAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTGTCATCCC-CAGACCAGATCTCCTCATCA
* *
3971340 CGTAGGAACCATGTCA
64 CGTAGGAGCCGTGTCA
3971356 CCCTTAGACG
Statistics
Matches: 192, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
129 32 0.17
130 130 0.68
131 30 0.16
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (129 bp):
AAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACG
TAGGAGCCGTGTCAACCATAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
Found at i:3971569 original size:3 final size:3
Alignment explanation
Indices: 3971561--3971644 Score: 161
Period size: 3 Copynumber: 28.3 Consensus size: 3
3971551 TATCTAATTG
3971561 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3971609 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3971645 GCTTATTTAT
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.03
3 78 0.98
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3978339 original size:3 final size:3
Alignment explanation
Indices: 3978323--3978371 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
3978313 TTCAATTAAT
*
3978323 TTA TTA -TA TT- TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3978369 TTA
1 TTA
3978372 AATATTATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:3979006 original size:20 final size:20
Alignment explanation
Indices: 3978899--3979074 Score: 117
Period size: 20 Copynumber: 8.8 Consensus size: 20
3978889 TATACCAACG
3978899 AATCGCAATGCG-ATAC-TGA
1 AATCGCAATGCGAATACGT-A
* * *
3978918 CTATCGCAACGCGAAATAC-AA
1 -AATCGCAATGCG-AATACGTA
*
3978939 AATCGCAATGCGATTACGT-
1 AATCGCAATGCGAATACGTA
* ** * * *
3978958 ATTCGCGTTGCGATTTTCATA
1 AATCGCAATGCGA-ATACGTA
*
3978979 ATTCGCAATGCGAATACGTA
1 AATCGCAATGCGAATACGTA
* * *
3978999 AATCGCAACGCGATTAAGTA
1 AATCGCAATGCGAATACGTA
* * *
3979019 AATCGCAATACGAATTAGGAA
1 AATCGCAATGCGAA-TACGTA
*
3979040 AATCGCAATGCAAATACGTA
1 AATCGCAATGCGAATACGTA
3979060 AATCGCAATGCGAAT
1 AATCGCAATGCGAAT
3979075 CTGACTATCG
Statistics
Matches: 119, Mismatches: 31, Indels: 12
0.73 0.19 0.07
Matches are distributed among these distances:
19 14 0.12
20 73 0.61
21 28 0.24
22 4 0.03
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (20 bp):
AATCGCAATGCGAATACGTA
Found at i:3979043 original size:41 final size:41
Alignment explanation
Indices: 3978981--3979074 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
3978971 TTTTCATAAT
* * *
3978981 TCGCAATGCGAA-TACGTAAATCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCAAATAAGTAAA
* * * *
3979021 TCGCAATACGAATTAGGAAAATCGCAATGCAAATACGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCAAATAAGTAAA
3979062 TCGCAATGCGAAT
1 TCGCAATGCGAAT
3979075 CTGACTATCG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 11 0.24
41 34 0.76
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.20
Consensus pattern (41 bp):
TCGCAATGCGAATTACGAAAATCGCAACGCAAATAAGTAAA
Found at i:3979644 original size:20 final size:19
Alignment explanation
Indices: 3979619--3979687 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 19
3979609 TAGTTTCGAG
3979619 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGC-GA
*
3979639 AATGAAAATCGCAA--TG-
1 AATGAAAATCGCAACGCGA
*
3979655 -A-GAGAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
3979672 AATGAAAATCGCAACG
1 AATGAAAATCGCAACG
3979688 AGAGAATCGC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 12 0.30
20 14 0.35
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
AATGAAAATCGCAACGCGA
Found at i:3979679 original size:33 final size:33
Alignment explanation
Indices: 3979625--3979706 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
3979615 CGAGAATGAA
*
3979625 AATCGCAACGCGGAAATGAAAATCGCAATGAGAG
1 AATCGCAACGC-GAAATGAAAATCGCAACGAGAG
3979659 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
3979692 AATCGCAACTCGAAA
1 AATCGCAACGCGAAA
3979707 CCAAATCGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 35 0.76
34 11 0.24
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:3979807 original size:20 final size:20
Alignment explanation
Indices: 3979782--3979831 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
3979772 GATTCTCTCA
3979782 TTGCGATTTTCATT-TCCGCG
1 TTGCGATTTTCATTCT-CGCG
*
3979802 TTGCGA-TTT-ATTCTCTCG
1 TTGCGATTTTCATTCTCGCG
3979820 TTGCGATTTTCA
1 TTGCGATTTTCA
3979832 GTTCAACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 12 0.46
19 7 0.27
20 7 0.27
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.48
Consensus pattern (20 bp):
TTGCGATTTTCATTCTCGCG
Found at i:3979824 original size:38 final size:33
Alignment explanation
Indices: 3979717--3979831 Score: 160
Period size: 33 Copynumber: 3.4 Consensus size: 33
3979707 CCAAATCGCA
3979717 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
3979749 TTGCGATTTTCATTTCGCGTTACGATTCTCTCA
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
3979782 TTGCGATTTTCATTTCCGCGTTGCGATTTATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGCG----ATTCTCTCG
3979820 TTGCGATTTTCA
1 TTGCGATTTTCA
3979832 GTTCAACCAA
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
32 6 0.08
33 39 0.53
34 8 0.11
38 20 0.27
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:3983334 original size:14 final size:14
Alignment explanation
Indices: 3983315--3983350 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3983305 TATGTTTAAT
3983315 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
3983329 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
3983343 TGATTTGT
1 TGATTTGT
3983351 TAATTGATGT
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:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:3983476 original size:19 final size:19
Alignment explanation
Indices: 3983454--3983538 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
3983444 AAAAATGACT
*
3983454 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
3983473 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
3983487 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
3983506 ATCGCAACGTGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
3983525 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
3983539 CTAAATCGCG
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 39 0.70
20 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:3983539 original size:19 final size:19
Alignment explanation
Indices: 3983486--3983547 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
3983476 GCAACGAGAG
3983486 AATCGCAACGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
*
3983505 AATCGCAACGTGAAACTAA
1 AATCGCAACGCGAAACTAA
3983524 AATCGCAACGCGAAACT-A
1 AATCGCAACGCGAAACTAA
3983542 AATCGC
1 AATCGC
3983548 GTTGCGATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.17
19 32 0.80
20 1 0.03
ACGTcount: A:0.45, C:0.24, G:0.18, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:3983565 original size:18 final size:18
Alignment explanation
Indices: 3983544--3983625 Score: 73
Period size: 18 Copynumber: 4.7 Consensus size: 18
3983534 CGAAACTAAA
*
3983544 TCGCGTTGCGATTTCATT
1 TCGCATTGCGATTTCATT
*
3983562 TCGCATTGCGA-TTC-TC
1 TCGCATTGCGATTTCATT
* *
3983578 TCG--TTGCAATTTTATT
1 TCGCATTGCGATTTCATT
*
3983594 TCGCATTGCGATAGTCATT
1 TCGCATTGCGAT-TTCATT
3983613 TCCGCATTGCGAT
1 T-CGCATTGCGAT
3983626 AGACATTAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 8 0.16
17 3 0.06
18 16 0.32
19 5 0.10
20 11 0.22
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:3983620 original size:20 final size:19
Alignment explanation
Indices: 3983591--3983632 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
3983581 TTGCAATTTT
*
3983591 ATTTCGCATTGCGATAGTC
1 ATTTCGCATTGCGATAGAC
3983610 ATTTCCGCATTGCGATAGAC
1 ATTT-CGCATTGCGATAGAC
3983630 ATT
1 ATT
3983633 AAGATGATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (19 bp):
ATTTCGCATTGCGATAGAC
Found at i:3986067 original size:24 final size:24
Alignment explanation
Indices: 3986033--3986086 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3986023 CTAAAACATC
*
3986033 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
3986057 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
3986081 ATCAAA
1 ATCAAA
3986087 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:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:3986782 original size:20 final size:20
Alignment explanation
Indices: 3986757--3986838 Score: 137
Period size: 20 Copynumber: 4.1 Consensus size: 20
3986747 TACACAAAAT
3986757 CGCGATTCTGACTTTCGCAA
1 CGCGATTCTGACTTTCGCAA
*
3986777 CGCGATTTTGACTTTCGCAA
1 CGCGATTCTGACTTTCGCAA
3986797 CGCGATTCTGACTTTCGCAA
1 CGCGATTCTGACTTTCGCAA
* *
3986817 CGAGATTCTGACTATCGCAA
1 CGCGATTCTGACTTTCGCAA
3986837 CG
1 CG
3986839 AGATAATACA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (20 bp):
CGCGATTCTGACTTTCGCAA
Found at i:3987189 original size:20 final size:20
Alignment explanation
Indices: 3987164--3987217 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
3987154 GCAACGGGAA
*
3987164 ATCGCAACGTGAAAATGATT
1 ATCGCAACGTGAAAATGACT
3987184 ATCGCAACGTGAAAATGACT
1 ATCGCAACGTGAAAATGACT
*
3987204 ATCGCAACGAGAAA
1 ATCGCAACGTGAAA
3987218 TCGCAACGCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.19
Consensus pattern (20 bp):
ATCGCAACGTGAAAATGACT
Found at i:3987283 original size:19 final size:19
Alignment explanation
Indices: 3987236--3987299 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
3987226 CGAAATGAAA
3987236 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
3987252 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
3987268 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3987287 TCGCATTGCGATT
1 TCGCATTGCGATT
3987300 CTCTCGTTGC
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
13 4 0.10
14 6 0.14
16 6 0.14
18 6 0.14
19 20 0.48
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:3988920 original size:42 final size:42
Alignment explanation
Indices: 3988874--3988953 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
3988864 CAATGACAGT
3988874 GGCCTCTTGAACG-GTGG-GGGGAAACTCTTGAGGGATGATAGG
1 GGCCTCTTGAACGAGTGGAGGGG--ACTCTTGAGGGATGATAGG
*
3988916 GGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGATGA
1 GGCCTCTTGAACGAGTGGAGGGGACTCTTGAGGGATGA
3988954 CATGTGAGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
42 28 0.80
43 3 0.09
44 4 0.11
ACGTcount: A:0.21, C:0.15, G:0.41, T:0.23
Consensus pattern (42 bp):
GGCCTCTTGAACGAGTGGAGGGGACTCTTGAGGGATGATAGG
Found at i:3988922 original size:21 final size:21
Alignment explanation
Indices: 3988897--3988953 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
3988887 GTGGGGGGAA
*
3988897 ACTCTTGAGGGATGATAGGGG
1 ACTCTTGAGGGATGAGAGGGG
* **
3988918 CCTCTTGAACGATTG-GAGGGG
1 ACTCTTGAGGGA-TGAGAGGGG
3988939 ACTCTTGAGGGATGA
1 ACTCTTGAGGGATGA
3988954 CATGTGAGTC
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.23, C:0.14, G:0.39, T:0.25
Consensus pattern (21 bp):
ACTCTTGAGGGATGAGAGGGG
Found at i:3989346 original size:20 final size:20
Alignment explanation
Indices: 3989299--3989405 Score: 101
Period size: 20 Copynumber: 5.4 Consensus size: 20
3989289 TAGTTTACTT
* *
3989299 TCGCAACACGAAACAT-ACTT
1 TCGCAACGCGAAA-ATGACTA
3989319 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
3989339 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* * *
3989359 TCGCACCGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
3989379 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
3989398 TCGCAACG
1 TCGCAACG
3989406 ACAAGATCGC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
19 15 0.20
20 60 0.80
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:3989400 original size:19 final size:19
Alignment explanation
Indices: 3989378--3989443 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
3989368 GGAAATGGCT
3989378 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3989397 ATCGCAA--CGACAA-G---
1 ATCGCAATGCGA-AATGAAA
3989411 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
3989430 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
3989444 CATAAATCGC
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
14 7 0.18
15 2 0.05
16 4 0.10
17 4 0.10
18 2 0.05
19 20 0.51
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3989532 original size:20 final size:19
Alignment explanation
Indices: 3989498--3989552 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
3989488 TTGCGATTTT
*
3989498 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
3989517 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
3989537 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
3989553 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:3990107 original size:18 final size:18
Alignment explanation
Indices: 3990084--3990132 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
3990074 TGGGTCGATT
3990084 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
* *
3990102 AGGTGATAGCTCGGGGTG
1 AGGTGATGGCTCTGGGTG
3990120 AGGTGATGGCTCT
1 AGGTGATGGCTCT
3990133 CAAAGTGGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.14, C:0.12, G:0.47, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:3991475 original size:20 final size:20
Alignment explanation
Indices: 3991450--3991492 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3991440 AATAGTTTCT
3991450 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
* *
3991470 GAAAATGACAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
3991490 GAA
1 GAA
3991493 TTTGATTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.21, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:3992024 original size:20 final size:20
Alignment explanation
Indices: 3991999--3992094 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
3991989 ACGATTATGT
*
3991999 ATTATCTCGTTGCGAAAGTC
1 ATTATCGCGTTGCGAAAGTC
**
3992019 ATTATCTAGTTGCGAAAGTC
1 ATTATCGCGTTGCGAAAGTC
* * *
3992039 AGTATCGCATTGCGATATTGT-
1 ATTATCGCGTTGCGA-A-AGTC
*
3992060 ATTATCGCGTTGCGATAGTC
1 ATTATCGCGTTGCGAAAGTC
* *
3992080 AGTATCGCATTGCGA
1 ATTATCGCGTTGCGA
3992095 TTTTCCAAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.03
20 43 0.70
21 14 0.23
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
ATTATCGCGTTGCGAAAGTC
Found at i:3992114 original size:41 final size:41
Alignment explanation
Indices: 3992028--3992116 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
3992018 CATTATCTAG
* ** * *
3992028 TTGCGAAAGTCAGTATCGCATTGCGATATTGTATTATCGCG
1 TTGCGATAGTCAGTATCGCATTGCGATATTCAAATATCGCA
*
3992069 TTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTCAGTATCGCATTGCGATATT-CAAATATCGCA
3992110 TTGCGAT
1 TTGCGAT
3992117 TTACTTAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 39 0.95
42 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCAGTATCGCATTGCGATATTCAAATATCGCA
Found at i:3992177 original size:21 final size:22
Alignment explanation
Indices: 3992123--3992177 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
3992113 CGATTTACTT
3992123 AATCGCAATGCG-AATTGGGAA
1 AATCGCAATGCGAAATTGGGAA
* *
3992144 AATCACAACGCGAAATT-GGAA
1 AATCGCAATGCGAAATTGGGAA
*
3992165 AATCGCATTGCGA
1 AATCGCAATGCGA
3992178 TAGTAATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (22 bp):
AATCGCAATGCGAAATTGGGAA
Found at i:4001902 original size:18 final size:16
Alignment explanation
Indices: 4001879--4001924 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
4001869 AGTTTATGAG
4001879 GGAATTAGAATCTGTGAA
1 GGAATTAGAATCTGT--A
* *
4001897 GGAATTGGAATATGTA
1 GGAATTAGAATCTGTA
4001913 GGAATTAGAATC
1 GGAATTAGAATC
4001925 CAATTCCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 11 0.46
18 13 0.54
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.28
Consensus pattern (16 bp):
GGAATTAGAATCTGTA
Found at i:4006381 original size:21 final size:21
Alignment explanation
Indices: 4006356--4006408 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4006346 GTTTCCAGAT
*
4006356 TCGCAACGCGAACATCGATTA
1 TCGCAACGCGAACATCGACTA
*
4006377 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
4006398 TCGCAATGCGA
1 TCGCAACGCGA
4006409 TTTTCCAAAT
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:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:4006503 original size:63 final size:61
Alignment explanation
Indices: 4006412--4006554 Score: 198
Period size: 63 Copynumber: 2.3 Consensus size: 61
4006402 AATGCGATTT
*
4006412 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTTCAAA-TTCGTGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTA-TTCAAAGTTC--GTTGCGATAG
* *
4006475 TCCAAGTTCGTTTCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCAAAGTTCGTTGCGATAG
*
4006536 TCGAAGTTCGCGTTGCGAT
1 TCCAAGTT--CGTTGCGAT
4006555 TTATTCCAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
61 17 0.24
62 6 0.08
63 49 0.68
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (61 bp):
TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCAAAGTTCGTTGCGATAG
Found at i:4006528 original size:42 final size:43
Alignment explanation
Indices: 4006478--4006579 Score: 181
Period size: 42 Copynumber: 2.4 Consensus size: 43
4006468 GCGATAGTCC
*
4006478 AAGTTCGTTTCGATAGTCGAAGTTCGCGTTGCGATTTATT-CA
1 AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCA
4006520 AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCA
1 AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCA
4006563 AA-TTCGTTGCGATAGTC
1 AAGTTCGTTGCGATAGTC
4006580 CAAAATCGCA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
42 54 0.93
43 4 0.07
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.36
Consensus pattern (43 bp):
AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCA
Found at i:4006571 original size:63 final size:61
Alignment explanation
Indices: 4006412--4006575 Score: 172
Period size: 63 Copynumber: 2.6 Consensus size: 61
4006402 AATGCGATTT
* *
4006412 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTTCAAATTCGTGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAATTC-CGTTGCGATTTATTTCAAATTCG-GTTGCGATAG
* * *
4006475 TCCAAGTTCGTTTCGATAGTCGAAGTTCGCGTTGCGATTTA-TTCAAAGTTC-GTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAATTC-CGTTGCGATTTATTTCAAA-TTCGGTTGCGATAG
* *
4006536 TCGAAGTTCGCGTTGCGATTTATTCCAAATT-CGTTGCGAT
1 TCCAAGTT--CGTTGCGA--TAGTCCAAATTCCGTTGCGAT
4006576 AGTCCAAAAT
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
61 17 0.19
62 6 0.07
63 57 0.65
65 8 0.09
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (61 bp):
TCCAAGTTCGTTGCGATAGTCCAAATTCCGTTGCGATTTATTTCAAATTCGGTTGCGATAG
Found at i:4006693 original size:12 final size:12
Alignment explanation
Indices: 4006672--4006704 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4006662 GACACGTATT
*
4006672 ACCACGACCACG
1 ACCACTACCACG
4006684 ACCACTACCACG
1 ACCACTACCACG
4006696 ACCACTACC
1 ACCACTACC
4006705 CGAGAAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.52, G:0.09, T:0.06
Consensus pattern (12 bp):
ACCACTACCACG
Found at i:4007506 original size:21 final size:21
Alignment explanation
Indices: 4007480--4007654 Score: 137
Period size: 21 Copynumber: 8.4 Consensus size: 21
4007470 ATTTTGGACT
*
4007480 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
4007501 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
4007522 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
* * *
4007543 ATCTCAACGAATTTGAAATAA
1 ATCGCAACGAACTTGGAATAA
* * *
4007564 ATCGCAATGAACTTCGACT--
1 ATCGCAACGAACTTGGAATAA
*
4007583 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
4007604 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
* * *
4007625 ATCACAACGAATTTGAAATAA
1 ATCGCAACGAACTTGGAATAA
4007646 ATCGCAACG
1 ATCGCAACG
4007655 CGAACTTCAA
Statistics
Matches: 117, Mismatches: 27, Indels: 20
0.71 0.16 0.12
Matches are distributed among these distances:
19 31 0.26
21 67 0.57
23 19 0.16
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:4007633 original size:42 final size:42
Alignment explanation
Indices: 4007505--4007669 Score: 253
Period size: 42 Copynumber: 4.0 Consensus size: 42
4007495 GAATAAATCG
* * *
4007505 CAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCT
1 CAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCA
* *
4007547 CAACGAATTTGAAATAAATCGCAA--TGAACTTCGACTATCG
1 CAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCA
*
4007587 CAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCA
1 CAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCA
*
4007629 CAACGAATTTGAAATAAATCGCAACGCGAACTTCAACTATC
1 CAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATC
4007670 GCAAATCAGT
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 37 0.33
42 75 0.67
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (42 bp):
CAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCA
Found at i:4007638 original size:82 final size:83
Alignment explanation
Indices: 4007501--4007673 Score: 294
Period size: 82 Copynumber: 2.1 Consensus size: 83
4007491 TTTGGAATAA
*
4007501 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCTCAACGAATTTGAAATAAAT
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAATTTGAAATAAAT
* *
4007566 CGCAA-TGAACTTCGACT
66 CGCAACCGAACTTCAACT
*
4007583 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAATTTGAAATAAAT
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAATTTGAAATAAAT
4007648 CGCAACGCGAACTTCAACT
66 CGCAAC-CGAACTTCAACT
4007667 ATCGCAA
1 ATCGCAA
4007674 ATCAGTTTCC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
82 68 0.80
84 17 0.20
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.22
Consensus pattern (83 bp):
ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAATTTGAAATAAAT
CGCAACCGAACTTCAACT
Found at i:4007670 original size:21 final size:21
Alignment explanation
Indices: 4007604--4007741 Score: 88
Period size: 21 Copynumber: 6.6 Consensus size: 21
4007594 TTTGGAATAA
*
4007604 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCAACT
* * * *
4007625 ATCACAA--CGAATTTGAAAT
1 ATCGCAACGCGAACTTCAACT
4007644 AAATCGCAACGCGAACTTCAACT
1 --ATCGCAACGCGAACTTCAACT
** **
4007667 ATCGCAAATC-AGTTTCCAGA-T
1 ATCGCAACGCGAACTT-CA-ACT
*
4007688 -TCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCAACT
**
4007708 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCAACT
*
4007729 ATCGCAATGCGAA
1 ATCGCAACGCGAA
4007742 TATGTAAATC
Statistics
Matches: 88, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
19 9 0.10
20 12 0.14
21 57 0.65
22 1 0.01
23 9 0.10
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCAACT
Found at i:4008739 original size:22 final size:22
Alignment explanation
Indices: 4008709--4008762 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
4008699 TCGGTAATTT
* *
4008709 AGTTACGAAATTGGCGAATTCT
1 AGTTGCGAAATTGGCGAATTCG
* *
4008731 TGTTGCGAAATTGGCGATTTCG
1 AGTTGCGAAATTGGCGAATTCG
4008753 AGTTGCGAAA
1 AGTTGCGAAA
4008763 ACGAAATACG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (22 bp):
AGTTGCGAAATTGGCGAATTCG
Found at i:4011076 original size:18 final size:19
Alignment explanation
Indices: 4011053--4011096 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
4011043 CCAGTAATCC
* *
4011053 TATTCC-CTGGTAATCTTT
1 TATTCCACTGATAATCTTA
4011071 TATTCCTACTGATAATCTTA
1 TATTCC-ACTGATAATCTTA
4011091 TATTCC
1 TATTCC
4011097 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.48
Consensus pattern (19 bp):
TATTCCACTGATAATCTTA
Found at i:4022069 original size:41 final size:41
Alignment explanation
Indices: 4021977--4022321 Score: 145
Period size: 41 Copynumber: 8.3 Consensus size: 41
4021967 AGCATTTCTT
* *
4021977 TACAAACGCCGCAATAGGTTCA-T-CTATAGTGGCAGTTTTTCA
1 TACAAACGCCGCAATAGATT-AGTACTTTAGTGGC-GTTTTT-A
* * * *
4022019 -ATAAGCGCCGCAACAGATTAGTACTTTAGCGGCGTTTTTA
1 TACAAACGCCGCAATAGATTAGTACTTTAGTGGCGTTTTTA
* * * * * *
4022059 TACAAACGCCGCAGTAGGGTTCA--CCTATAGTGACGTTTTTT
1 TACAAACGCCGCAATA-GATT-AGTACTTTAGTGGCGTTTTTA
* * * * *
4022100 TCAATAAACACCGCAAAAAATTAGAACTTTAGTGGCGTTTTTA
1 T--ACAAACGCCGCAATAGATTAGTACTTTAGTGGCGTTTTTA
* * * * *
4022143 TACAAACGCAGTAATAGGATTCA--CCTATAGTGGCATTTTT-
1 TACAAACGCCGCAATA-GATT-AGTACTTTAGTGGCGTTTTTA
* * * * * * *
4022183 TCAATAAACGCCGCAACATATTAGGACTTTAGCGGCATTTCTA
1 T--ACAAACGCCGCAATAGATTAGTACTTTAGTGGCGTTTTTA
** * * *
4022226 TACAAACAAC-TAA-AGACTCA-TACTTTAGTGGCATTTTTA
1 TACAAACGCCGCAATAGA-TTAGTACTTTAGTGGCGTTTTTA
* * * *
4022265 TACAAACGCCGCAATATATCAGTACTTTAGTAGCGTTTGTATT
1 TACAAACGCCGCAATAGATTAGTACTTTAGTGGCGTTT-T-TA
4022308 TACAAACGCCGCAA
1 TACAAACGCCGCAA
4022322 GTTTACAATT
Statistics
Matches: 221, Mismatches: 60, Indels: 43
0.68 0.19 0.13
Matches are distributed among these distances:
39 26 0.12
40 13 0.06
41 97 0.44
42 41 0.19
43 44 0.20
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (41 bp):
TACAAACGCCGCAATAGATTAGTACTTTAGTGGCGTTTTTA
Found at i:4022229 original size:83 final size:82
Alignment explanation
Indices: 4021958--4022232 Score: 334
Period size: 84 Copynumber: 3.3 Consensus size: 82
4021948 ACCAAATGGT
* * * *
4021958 AACTTTAGCAGCATTTCTTTACAAACGCCGCAATAGGTTCATCTATAGTGGCAGTTTTTCAATAA
1 AACTTTAGCGGCATTTCTATACAAACGCCGCAATAGGTTCACCTATAGTGGCATTTTTTCAATAA
* *
4022023 GCGCCGCAACAGATTAG
66 ACGCCGCAACAAATTAG
* * * * * *
4022040 TACTTTAGCGGCGTTTTTATACAAACGCCGCAGTAGGGTTCACCTATAGTGACGTTTTTTTCAAT
1 AACTTTAGCGGCATTTCTATACAAACGCCGCAATA-GGTTCACCTATAGTGGC-ATTTTTTCAAT
* *
4022105 AAACACCGCAAAAAATTAG
64 AAACGCCGCAACAAATTAG
* * * * *
4022124 AACTTTAGTGGCGTTTTTATACAAACGCAGTAATAGGATTCACCTATAGTGGCATTTTTTCAATA
1 AACTTTAGCGGCATTTCTATACAAACGCCGCAATAGG-TTCACCTATAGTGGCATTTTTTCAATA
*
4022189 AACGCCGCAACATATTAG
65 AACGCCGCAACAAATTAG
*
4022207 GACTTTAGCGGCATTTCTATACAAAC
1 AACTTTAGCGGCATTTCTATACAAAC
4022233 AACTAAAGAC
Statistics
Matches: 162, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
82 29 0.18
83 65 0.40
84 68 0.42
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (82 bp):
AACTTTAGCGGCATTTCTATACAAACGCCGCAATAGGTTCACCTATAGTGGCATTTTTTCAATAA
ACGCCGCAACAAATTAG
Found at i:4023353 original size:124 final size:123
Alignment explanation
Indices: 4023080--4023342 Score: 305
Period size: 124 Copynumber: 2.1 Consensus size: 123
4023070 GCGCTTACTT
* * ** *
4023080 GACAAACGCCGCTACAGATAAGTACTTTAGTGGCGTTTGTTTAAAAATGCCACCACAAAATAGTT
1 GACAAACGCCGCAACAAATTGGTACTTTAGTGGCGTTTGTTTAAAAATGCCACCACAAAATAGTA
* * * *
4023145 CTTTAGTGGCGTTTTTAGACAAATGCCGCAATATGGTACATATATCGTGGCGGTTTTA
66 CTTTAGTGACGTTTTTAGACAAACGCCGCAATAAGGTACATATATAGTGGCGGTTTTA
* * * * * * *
4023203 GACTATCGCCGCAACAAATTGGTACTTTAGTGGCGTTTGTTTACACAAA-GGCGCTACAGAATTG
1 GACAAACGCCGCAACAAATTGGTACTTTAGTGGCGTTTGTTTA-A-AAATGCCACCACAAAATAG
* * * *
4023267 TACTTTAGTGACGTTTTTCAGA-AAACGCCGTAATAAGTTTCATATATAGTGGCGTTTTTA
64 TACTTTAGTGACGTTTTT-AGACAAACGCCGCAATAAGGTACATATATAGTGGCGGTTTTA
4023327 GACAAACGCCGCAACA
1 GACAAACGCCGCAACA
4023343 TACTTGTACT
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
123 37 0.32
124 72 0.63
125 6 0.05
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (123 bp):
GACAAACGCCGCAACAAATTGGTACTTTAGTGGCGTTTGTTTAAAAATGCCACCACAAAATAGTA
CTTTAGTGACGTTTTTAGACAAACGCCGCAATAAGGTACATATATAGTGGCGGTTTTA
Found at i:4025300 original size:13 final size:13
Alignment explanation
Indices: 4025282--4025308 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4025272 ATAACAATTC
4025282 AATAGTAATTTAT
1 AATAGTAATTTAT
4025295 AATAGTAATTTAT
1 AATAGTAATTTAT
4025308 A
1 A
4025309 TGTTGACGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
AATAGTAATTTAT
Found at i:4026947 original size:43 final size:43
Alignment explanation
Indices: 4026872--4027099 Score: 172
Period size: 43 Copynumber: 5.3 Consensus size: 43
4026862 TTTTAGATAA
* * * ** *
4026872 TTTGCAGCGTTTATTCCAAAAATGCCATTATAGATATCAACCT
1 TTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCT
* * * *
4026915 TTTGTGGCGTTTATTCTAAAAACGCCGCTATAGATCT-GACCT
1 TTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCT
* * * * *
4026957 TTTCCGGCGTTTGTGTCCAAAAAAACGCCGCTATATATCTTGACTT
1 TTTGCGGCGTTTGT-TCC--AAAAACGCCGCTATAGATATCGACCT
* * *
4027003 TTTGCGGCATTTGTTCCAAAAACACCGATATAGATATCGACCT
1 TTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCT
* * * * * * * *
4027046 TTTGCAGCTTTTGTT-CTAAAATGTCACTATAAATATCAACCT
1 TTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCT
*
4027088 TTTGCGTCGTTT
1 TTTGCGGCGTTT
4027100 TTTGTTCTCA
Statistics
Matches: 146, Mismatches: 35, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
42 43 0.29
43 65 0.45
45 22 0.15
46 16 0.11
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (43 bp):
TTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCT
Found at i:4026990 original size:45 final size:45
Alignment explanation
Indices: 4026932--4027024 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
4026922 CGTTTATTCT
*
4026932 AAAAACGCCGCTATAGATC-TGACCTTTTCCGGCGTTTGTGTCCAA
1 AAAAACGCCGCTATAGATCTTGACCTTTTCCGGCATTTGT-TCCAA
* * *
4026977 AAAAACGCCGCTATATATCTTGACTTTTTGCGGCATTTGTTCCAA
1 AAAAACGCCGCTATAGATCTTGACCTTTTCCGGCATTTGTTCCAA
4027022 AAA
1 AAA
4027025 CACCGATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 26 0.60
46 17 0.40
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (45 bp):
AAAAACGCCGCTATAGATCTTGACCTTTTCCGGCATTTGTTCCAA
Found at i:4029251 original size:23 final size:23
Alignment explanation
Indices: 4029225--4029293 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
4029215 CACCACAGCT
* *
4029225 CGTATAAATGCATCGAAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
* * *
4029248 CGTAGAATTGCACCGAAGTGTCG
1 CGTATAATTGCACCGAAGTGCCA
*
4029271 CGTATAATTGCACCGTAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
4029294 TATAAGATTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (23 bp):
CGTATAATTGCACCGAAGTGCCA
Found at i:4030046 original size:63 final size:66
Alignment explanation
Indices: 4029937--4030100 Score: 169
Period size: 63 Copynumber: 2.5 Consensus size: 66
4029927 ATCCCTTGAC
* *
4029937 GGGTGCATCGATGCACTA-TCTATGCATCGATACA-TAAATCCTATTCGATG-TTTGTA-TTTAA
1 GGGTGCATCGATGCACTACT-TGTGCATCGATACACTAAATACTATTCGATGTTTTGTATTTTAA
4029998 AG
65 AG
* *
4030000 GGGTGCATCGATGCACTACTTGTGCATCGATACACT-GATGAC-ATTCGATGTTTTTTTATTTTA
1 GGGTGCATCGATGCACTACTTGTGCATCGATACACTAAAT-ACTATTCGATG-TTTTGTATTTTA
*
4030063 AAT
64 AAG
** * * *
4030066 TAGTGCATCGATGCACTTCATGTGCATCAATACAC
1 GGGTGCATCGATGCACTACTTGTGCATCGATACAC
4030101 CTTGAATAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
63 41 0.48
64 3 0.04
65 5 0.06
66 36 0.42
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (66 bp):
GGGTGCATCGATGCACTACTTGTGCATCGATACACTAAATACTATTCGATGTTTTGTATTTTAAA
G
Found at i:4036220 original size:23 final size:23
Alignment explanation
Indices: 4036202--4036262 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
4036192 CTCGTACAAA
*
4036202 TGCACCAAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
4036225 TACACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
4036248 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
4036263 TATAAGATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:4041881 original size:23 final size:24
Alignment explanation
Indices: 4041855--4041906 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
4041845 ATAATACATC
* *
4041855 TTAACTTAAATTCACATATT-ATA
1 TTAAATTAAATTAACATATTAATA
*
4041878 TTAAATTAAATTAACATCTTAATA
1 TTAAATTAAATTAACATATTAATA
4041902 TTAAA
1 TTAAA
4041907 AATACATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (24 bp):
TTAAATTAAATTAACATATTAATA
Found at i:4041986 original size:30 final size:29
Alignment explanation
Indices: 4041951--4042010 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 29
4041941 ATTATAAGAA
4041951 TAAAATATATTTTATTTTTATCTTAAATTT
1 TAAAATATATTTTATTTTTATCTT-AATTT
4041981 TAAAATATATTTTATTTTTATCTTAATTT
1 TAAAATATATTTTATTTTTATCTTAATTT
4042010 T
1 T
4042011 GATTTAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 6 0.20
30 24 0.80
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (29 bp):
TAAAATATATTTTATTTTTATCTTAATTT
Found at i:4042901 original size:29 final size:30
Alignment explanation
Indices: 4042861--4042927 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
4042851 TAATCTTATA
* *
4042861 ATATTTTGAAA-TTGAGATAAAAATAAAAT
1 ATATTTTAAAATTTAAGATAAAAATAAAAT
4042890 ATATTTTAAAATTTAAGATAAAAATAAAAT
1 ATATTTTAAAATTTAAGATAAAAATAAAAT
4042920 ATATTTTA
1 ATATTTTA
4042928 TTCTTATAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 10 0.29
30 25 0.71
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATTTTAAAATTTAAGATAAAAATAAAAT
Found at i:4043023 original size:5 final size:5
Alignment explanation
Indices: 4042987--4043021 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
4042977 TGTTAAGATG
*
4042987 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT ATAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
4043022 ATGTGAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TTAAT
Found at i:4054351 original size:22 final size:22
Alignment explanation
Indices: 4054326--4054373 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
4054316 ATTAGTCATT
4054326 GATAATACATAAATATGGCATA
1 GATAATACATAAATATGGCATA
4054348 GATAATACATAAATATGGCATA
1 GATAATACATAAATATGGCATA
4054370 GATA
1 GATA
4054374 TACTTGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (22 bp):
GATAATACATAAATATGGCATA
Found at i:4054687 original size:75 final size:75
Alignment explanation
Indices: 4054559--4054737 Score: 200
Period size: 75 Copynumber: 2.4 Consensus size: 75
4054549 CTAGACTTTG
* * * *
4054559 ATATTATGATTT-AAGTCTTAAGATTTGACACTTTAATATTATATTTTGATTATGAATTTTATTA
1 ATATTATAATTTGAA-TCTTGAGATTTGACACTTTAATATTATATATTAATTATGAATTTTATTA
* *
4054623 TTCTAGAGTTA
65 TTCTAAACTTA
* * * * * *
4054634 ATATTGTGATTTGAATTTTGAGATTTGACATTTTAATATTGT-TATTAATTTATGAATTTTATTG
1 ATATTATAATTTGAATCTTGAGATTTGACACTTTAATATTATATATTAA-TTATGAATTTTATTA
4054698 TTCTAAACTTA
65 TTCTAAACTTA
* *
4054709 ATATTATAATTTGAGTCTTGATATTTGAC
1 ATATTATAATTTGAATCTTGAGATTTGAC
4054738 TTTATTTATA
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
74 4 0.05
75 81 0.93
76 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (75 bp):
ATATTATAATTTGAATCTTGAGATTTGACACTTTAATATTATATATTAATTATGAATTTTATTAT
TCTAAACTTA
Found at i:4059735 original size:58 final size:58
Alignment explanation
Indices: 4059666--4059788 Score: 165
Period size: 58 Copynumber: 2.1 Consensus size: 58
4059656 AAAAATGTTA
* ** *
4059666 AAAAAATAATAATAAAACCTGTAGTACATTTTTTAACGTATATTAAGACTATCGTACT
1 AAAAAATAATAATAAAACCTATAACACATTTTTTAACGTATATTAAGACTATCGCACT
* * * *
4059724 AAAAAATAATAATAAAACTTATAACACTTTTTTTATCGTATATTAAGACTGTCGCACT
1 AAAAAATAATAATAAAACCTATAACACATTTTTTAACGTATATTAAGACTATCGCACT
*
4059782 ATAAAAT
1 AAAAAAT
4059789 TACCTGTATT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (58 bp):
AAAAAATAATAATAAAACCTATAACACATTTTTTAACGTATATTAAGACTATCGCACT
Found at i:4061105 original size:20 final size:20
Alignment explanation
Indices: 4061082--4061123 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4061072 TCGGTAAAAA
* *
4061082 TTACTTAAAATATTATTATT
1 TTACCTAAAATATTAATATT
4061102 TTACCTAAAATATTAATATT
1 TTACCTAAAATATTAATATT
4061122 TT
1 TT
4061124 TAATATTTCC
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:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
TTACCTAAAATATTAATATT
Done.