Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 49
Found at i:5134520 original size:19 final size:19
Alignment explanation
Indices: 5134493--5134677 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
5134483 GAAACCAAAA
*
5134493 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
5134512 TCACGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
5134531 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
5134550 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
5134570 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
5134586 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
5134603 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATT
* **
5134619 TCG-TTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
5134637 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
5134657 ATCTCGTTGCGA-TTTCATT
1 -TCGCGTTGCGATTTTCATT
5134676 TC
1 TC
5134678 AACCAAAAGA
Statistics
Matches: 135, Mismatches: 19, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
14 10 0.07
15 7 0.05
16 5 0.04
17 5 0.04
18 5 0.04
19 63 0.47
20 39 0.29
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:5134569 original size:39 final size:38
Alignment explanation
Indices: 5134493--5134582 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
5134483 GAAACCAAAA
*
5134493 TCGCATTGCGATTTTCATTTCACGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCACGTTGCGATTTTCATT
* *
5134531 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCAC-GTTGCGATTTTCATT
5134570 TCGCGTTGCGATT
1 TCGCGTTGCGATT
5134583 GTCTGGTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 20 0.42
39 28 0.58
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.47
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCACGTTGCGATTTTCATT
Found at i:5134593 original size:39 final size:39
Alignment explanation
Indices: 5134516--5134593 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
5134506 TTCATTTCAC
* **
5134516 GTTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCG
1 GTTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCG
5134555 GTTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 GTTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
5134594 ATAGTCATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 33 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.19, G:0.27, T:0.45
Consensus pattern (39 bp):
GTTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCG
Found at i:5134602 original size:33 final size:34
Alignment explanation
Indices: 5134565--5134653 Score: 135
Period size: 33 Copynumber: 2.6 Consensus size: 34
5134555 GTTGCGATTT
*
5134565 TCATTTCGCGTTGCGATTGTCT-GGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGGTCGCGATAG
* *
5134598 TCATTTCGCGTTGCGATTCTCTCGTTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGGTCGCGATAG
5134632 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
5134654 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
33 21 0.41
34 15 0.29
35 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (34 bp):
TCATTTCGCGTTGCGATTCTCTCGGTCGCGATAG
Found at i:5136600 original size:21 final size:21
Alignment explanation
Indices: 5136576--5136642 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
5136566 TCATTCCTCG
5136576 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
5136597 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
5136618 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
5136639 AGAG
1 AGAG
5136643 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:5136600 original size:41 final size:41
Alignment explanation
Indices: 5136550--5136645 Score: 97
Period size: 42 Copynumber: 2.3 Consensus size: 41
5136540 CCACTCCTAT
*
5136550 CATTAAAGAGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCAC
1 CATTCAAGAGCCCCTATCA-TCCTCGAAGAGGT-CCCTCCCAC
* * * * *
5136591 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CATTCAAGA-GCCCCTATCATCCTCGAAGAGGTCCCTCCCAC
5136633 CATTCAAGAGCCC
1 CATTCAAGAGCCC
5136646 GATTCACATG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
41 14 0.32
42 28 0.64
43 2 0.05
ACGTcount: A:0.24, C:0.38, G:0.18, T:0.21
Consensus pattern (41 bp):
CATTCAAGAGCCCCTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:5138093 original size:14 final size:14
Alignment explanation
Indices: 5138074--5138109 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
5138064 ATTGTTTAAT
5138074 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
5138088 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
5138102 TGATTTGT
1 TGATTTGT
5138110 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:5138326 original size:33 final size:33
Alignment explanation
Indices: 5138284--5138449 Score: 230
Period size: 33 Copynumber: 5.0 Consensus size: 33
5138274 ACGCGAAATT
5138284 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
5138317 AAATTCGCGTGGCGATTTTCATTTCGCATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
5138350 --ATTCCCTCGTTGCGATTTTCATTTCGCATTGCG
1 AAATT--CGCGTTGCGATTTTCATTTCGCATTGCG
* *
5138383 AAATTAGCGTTGCGATTTTCATTTCGCATTG-T
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
* *
5138415 AATTCTCTCGTTGCGATTTTCATTTCGCATTGCG
1 AAAT-TCGCGTTGCGATTTTCATTTCGCATTGCG
5138449 A
1 A
5138450 TAGAAATTTC
Statistics
Matches: 117, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
31 3 0.03
32 3 0.03
33 107 0.91
34 1 0.01
35 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (33 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
Found at i:5138398 original size:66 final size:66
Alignment explanation
Indices: 5138291--5138449 Score: 273
Period size: 66 Copynumber: 2.4 Consensus size: 66
5138281 ATTAAATTCG
* *
5138291 CGTTGCGATTTTCATTTCGCATTGCGAAATTCGCGTGGCGATTTTCATTTCGCATTGCGATTCCC
1 CGTTGCGATTTTCATTTCGCATTGCGAAATTAGCGTGGCGATTTTCATTTCGCATTGCAATTCCC
5138356 T
66 T
* * *
5138357 CGTTGCGATTTTCATTTCGCATTGCGAAATTAGCGTTGCGATTTTCATTTCGCATTGTAATTCTC
1 CGTTGCGATTTTCATTTCGCATTGCGAAATTAGCGTGGCGATTTTCATTTCGCATTGCAATTCCC
5138422 T
66 T
5138423 CGTTGCGATTTTCATTTCGCATTGCGA
1 CGTTGCGATTTTCATTTCGCATTGCGA
5138450 TAGAAATTTC
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 88 1.00
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
CGTTGCGATTTTCATTTCGCATTGCGAAATTAGCGTGGCGATTTTCATTTCGCATTGCAATTCCC
T
Found at i:5141973 original size:19 final size:20
Alignment explanation
Indices: 5141941--5141997 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
5141931 CATCATTTGA
*
5141941 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATAG
5141961 CTATCGC-ACGCGAAAATAG
1 CTATCGCAACGCGAAAATAG
* *
5141980 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
5141998 CGCAATGCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATAG
Found at i:5142040 original size:14 final size:16
Alignment explanation
Indices: 5142020--5142093 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
5142010 TGAAAATCGC
5142020 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
5142035 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
5142052 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
5142071 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
5142087 -TTGCGAT
1 ATTGCGAT
5142094 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:5142057 original size:19 final size:19
Alignment explanation
Indices: 5142016--5142083 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
5142006 GAAATGAAAA
5142016 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
5142032 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5142049 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5142068 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
5142084 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:5144065 original size:19 final size:18
Alignment explanation
Indices: 5144039--5144143 Score: 92
Period size: 19 Copynumber: 5.9 Consensus size: 18
5144029 ACGAAACTTA
5144039 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAATG
* * *
5144057 ACTATCGCAACGTGGAATGG
1 A-AATCGCAACGCGAAAT-G
** *
5144077 CTATCGCAATGCGAAATG
1 AAATCGCAACGCGAAATG
*
5144095 AAAATCGCAA--CGACA--
1 -AAATCGCAACGCGAAATG
5144110 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAATG
5144128 AAATCGCAACGCGAAA
1 AAATCGCAACGCGAAA
5144144 CACAAATCGC
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
14 9 0.13
16 4 0.06
17 4 0.06
18 18 0.26
19 33 0.48
20 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.22, T:0.13
Consensus pattern (18 bp):
AAATCGCAACGCGAAATG
Found at i:5144152 original size:19 final size:18
Alignment explanation
Indices: 5144110--5144154 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
5144100 CGCAACGACA
**
5144110 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAAAC
5144128 AAATCGCAACGCGAAACAC
1 AAATCGCAACGCGAAA-AC
5144147 AAATCGCA
1 AAATCGCA
5144155 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (18 bp):
AAATCGCAACGCGAAAAC
Found at i:5144191 original size:14 final size:14
Alignment explanation
Indices: 5144172--5144229 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
5144162 TTTCATTTCG
5144172 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
5144186 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
5144202 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
5144218 CGTTGCGATTTT
1 CGTTGCGATTTT
5144230 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:5144236 original size:33 final size:33
Alignment explanation
Indices: 5144155--5144245 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
5144145 ACAAATCGCA
*
5144155 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
5144188 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
5144220 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
5144246 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:5144264 original size:20 final size:19
Alignment explanation
Indices: 5144230--5144284 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
5144220 TTGCGATTTT
*
5144230 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
5144249 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
5144269 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
5144285 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:5144783 original size:18 final size:18
Alignment explanation
Indices: 5144757--5144801 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
5144747 GTCGATCAGA
*
5144757 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
5144775 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
5144793 TGATGGCTC
1 TGATGGCTC
5144802 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:5146140 original size:20 final size:20
Alignment explanation
Indices: 5146115--5146152 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5146105 AATAGTTTCT
5146115 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
5146135 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
5146153 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:5146439 original size:21 final size:21
Alignment explanation
Indices: 5146415--5146457 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
5146405 GATTTAGATA
5146415 GACGGATTTCGCCGGAGATGG
1 GACGGATTTCGCCGGAGATGG
*
5146436 GACGGATTTCGTCGGAGATGG
1 GACGGATTTCGCCGGAGATGG
5146457 G
1 G
5146458 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.44, T:0.21
Consensus pattern (21 bp):
GACGGATTTCGCCGGAGATGG
Found at i:5146669 original size:20 final size:20
Alignment explanation
Indices: 5146644--5146737 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
5146634 GATTATGTAT
5146644 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
5146664 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
5146684 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
5146705 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
5146725 TATCGCATTGCGA
1 TATCGCGTTGCGA
5146738 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:5146738 original size:20 final size:20
Alignment explanation
Indices: 5146624--5146738 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
5146614 GCGCTTTGAA
*
5146624 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
5146645 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
5146665 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
5146685 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
5146706 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
5146726 ATCGCATTGCGAT
1 ATCGCATTGCGAT
5146739 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:5146756 original size:21 final size:21
Alignment explanation
Indices: 5146727--5146819 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
5146717 ATAGTCAGTA
5146727 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
5146748 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
5146768 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
5146789 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
5146809 TCGCATTGCGA
1 TCGCATTGCGA
5146820 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:5146757 original size:41 final size:41
Alignment explanation
Indices: 5146666--5146800 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
5146656 AAAGTCAGTA
* * * ** *
5146666 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
5146706 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
5146748 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
5146789 TCGCGTTGCGAT
1 TCGCGTTGCGAT
5146801 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:5146801 original size:41 final size:41
Alignment explanation
Indices: 5146727--5146819 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
5146717 ATAGTCAGTA
5146727 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
5146768 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
5146809 TCGCATTGCGA
1 TCGCATTGCGA
5146820 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:5147307 original size:23 final size:22
Alignment explanation
Indices: 5147247--5147308 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 22
5147237 AGAATAATTA
5147247 TGCCTTTGTGACATG--TTATC
1 TGCCTTTGTGACATGTTTTATC
* * *
5147267 TACCTTTATGACACGTTTATATC
1 TGCCTTTGTGACATGTTT-TATC
*
5147290 TGCCTTTGTGCCATGTTTT
1 TGCCTTTGTGACATGTTTT
5147309 TCTTTACCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 12 0.38
22 2 0.06
23 18 0.56
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (22 bp):
TGCCTTTGTGACATGTTTTATC
Found at i:5147703 original size:22 final size:24
Alignment explanation
Indices: 5147675--5147728 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
5147665 TATGTGATCT
5147675 AGGTAAATTT-TAAAAT-ATTAAA
1 AGGTAAATTTATAAAATAATTAAA
*
5147697 AGGTAAATTTATAACATCAATTAAA
1 AGGTAAATTTATAAAAT-AATTAAA
5147722 AGGTAAA
1 AGGTAAA
5147729 AAATAGAGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 10 0.36
23 5 0.18
25 13 0.46
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.31
Consensus pattern (24 bp):
AGGTAAATTTATAAAATAATTAAA
Found at i:5152019 original size:42 final size:42
Alignment explanation
Indices: 5151972--5152087 Score: 205
Period size: 42 Copynumber: 2.8 Consensus size: 42
5151962 CCCGAATTCT
*
5151972 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACGTTTTCC
*
5152014 CGTGTTTGTTTCACGTAATTTGTTTTTCGGAAAACGTTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACGTTTTCC
*
5152056 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAA
5152088 TGTAATTCAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.16, C:0.17, G:0.20, T:0.47
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACGTTTTCC
Found at i:5152316 original size:15 final size:15
Alignment explanation
Indices: 5152268--5152353 Score: 65
Period size: 15 Copynumber: 5.9 Consensus size: 15
5152258 TAAAATAAAA
5152268 ATATATTAT--TATT
1 ATATATTATAATATT
*
5152281 AATATTTATATAATATAT
1 -ATATAT-TATAATAT-T
*
5152299 ATATATTTTAATATT
1 ATATATTATAATATT
*
5152314 ATATATAATAATA-T
1 ATATATTATAATATT
5152328 AT-TA-TATAATATT
1 ATATATTATAATATT
* *
5152341 TTATATTTTAATA
1 ATATATTATAATA
5152354 ATAATAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.11
13 4 0.07
14 10 0.18
15 21 0.37
16 7 0.12
17 8 0.14
18 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATTATAATATT
Found at i:5152316 original size:17 final size:17
Alignment explanation
Indices: 5152291--5152347 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
5152281 AATATTTATA
5152291 TAATA-TATATATATTT
1 TAATATTATATATATTT
*
5152307 TAATATTATATATA-AT
1 TAATATTATATATATTT
*
5152323 AATATATTATATAATATTT
1 TA-ATATTATAT-ATATTT
5152342 T-ATATT
1 TAATATT
5152348 TTAATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 7 0.21
17 22 0.67
18 3 0.09
19 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATATTATATATATTT
Found at i:5152328 original size:36 final size:35
Alignment explanation
Indices: 5152274--5152382 Score: 114
Period size: 36 Copynumber: 3.1 Consensus size: 35
5152264 AAAAATATAT
* *
5152274 TATTATTAATATTTATATAATATATATATATTTTAA
1 TATTA-TAATAATAATATAATATATATATATTTTAA
*
5152310 TATTATATATAATAATATATTATATA-ATATTTT-A
1 TATTATA-ATAATAATATAATATATATATATTTTAA
* * *
5152344 TATTTTAATAATAATAATAATTATTTATATATTTCAA
1 TATTATAATAATAAT-ATAA-TATATATATATTTTAA
5152381 TA
1 TA
5152383 ATATTTTAGT
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
33 8 0.13
34 10 0.16
35 14 0.23
36 26 0.43
37 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (35 bp):
TATTATAATAATAATATAATATATATATATTTTAA
Found at i:5152352 original size:27 final size:28
Alignment explanation
Indices: 5152267--5152376 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 28
5152257 TTAAAATAAA
*
5152267 AATATATTATTATTAATATTTATATAATAT
1 AATATATTA-TA-TAATATTTATATATTAT
*
5152297 ATATATATT-T-TAATA-TTATATATAAT
1 A-ATATATTATATAATATTTATATATTAT
*
5152323 AATATATTATATAATATTT-TATATTTT
1 AATATATTATATAATATTTATATATTAT
*
5152350 AATA-ATAATAATAATTATTTATATATT
1 AATATATTAT-ATAA-TATTTATATATT
5152377 TCAATAATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
25 7 0.10
26 15 0.22
27 24 0.35
28 7 0.10
29 7 0.10
30 1 0.01
31 7 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AATATATTATATAATATTTATATATTAT
Found at i:5152374 original size:29 final size:30
Alignment explanation
Indices: 5152319--5152386 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
5152309 ATATTATATA
5152319 TAATAATATATTATATAATATTTTATATTT
1 TAATAATATATTATATAATATTTTATATTT
5152349 TAATAATA-A-TA-ATAATTATTTATATATTT
1 TAATAATATATTATATAA-TATTT-TATATTT
*
5152378 CAATAATAT
1 TAATAATAT
5152387 TTTAGTAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 4 0.12
28 7 0.21
29 15 0.44
30 8 0.24
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (30 bp):
TAATAATATATTATATAATATTTTATATTT
Found at i:5152650 original size:20 final size:20
Alignment explanation
Indices: 5152552--5152641 Score: 162
Period size: 20 Copynumber: 4.5 Consensus size: 20
5152542 TTTCCAGATG
5152552 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
5152572 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
5152592 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
5152612 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
5152632 TTTTCCAGAA
1 TTTTCCAGAA
5152642 TTCAAATTCC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:5152660 original size:15 final size:15
Alignment explanation
Indices: 5152624--5152705 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
5152614 TTACAGAAAT
**
5152624 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
5152639 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
5152653 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
5152668 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
5152683 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
5152698 GTAATTCA
1 GTAATTCA
5152706 TTTTCTGGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:5152676 original size:30 final size:30
Alignment explanation
Indices: 5152624--5152705 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
5152614 TTACAGAAAT
5152624 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
5152653 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
**
5152683 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
5152706 TTTTCTGGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:5152698 original size:45 final size:44
Alignment explanation
Indices: 5152624--5152710 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
5152614 TTACAGAAAT
**
5152624 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
5152668 GTAATTCAAATTCCAGTAATTCAAATTCCAGTAATTCATTTTC
1 GTAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTTC
5152711 TGGAAAACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
Found at i:5155675 original size:14 final size:14
Alignment explanation
Indices: 5155656--5155683 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5155646 CTTGTCAAGT
5155656 GACTGTAACAATCC
1 GACTGTAACAATCC
5155670 GACTGTAACAATCC
1 GACTGTAACAATCC
5155684 AAAGGATATA
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:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (14 bp):
GACTGTAACAATCC
Found at i:5159274 original size:16 final size:16
Alignment explanation
Indices: 5159253--5159283 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5159243 GATTTTCTGT
5159253 TTTTATTGAAAAATAA
1 TTTTATTGAAAAATAA
*
5159269 TTTTATTTAAAAATA
1 TTTTATTGAAAAATA
5159284 TACATTATGA
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTTTATTGAAAAATAA
Found at i:5166369 original size:21 final size:21
Alignment explanation
Indices: 5166309--5166369 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
5166299 ATGATTAAAC
5166309 TTTTTAAATT-AA-ATC-TTT
1 TTTTTAAATTAAATATCATTT
* *
5166327 TTTTATATATTGAAATGT-ATTT
1 TTTT-TAAATT-AAATATCATTT
5166349 TTTTTAAATTAAATATCATTT
1 TTTTTAAATTAAATATCATTT
5166370 GCACATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
18 4 0.12
19 5 0.15
20 5 0.15
21 11 0.33
22 8 0.24
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTTTAAATTAAATATCATTT
Found at i:5166543 original size:27 final size:25
Alignment explanation
Indices: 5166513--5166576 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
5166503 GTAATTATCT
5166513 AAATATTTATTAATAAAATAATAATA
1 AAATATTTATTAATAAAA-AATAATA
* * *
5166539 AAA-ATATATGT-TTAAAAAATCATA
1 AAATATTTAT-TAATAAAAAATAATA
5166563 AAATATTTA-TAATA
1 AAATATTTATTAATA
5166577 TTACATCTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
23 1 0.03
24 11 0.37
25 14 0.47
26 4 0.13
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AAATATTTATTAATAAAAAATAATA
Found at i:5169708 original size:2 final size:2
Alignment explanation
Indices: 5169701--5169728 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5169691 AAAAATCATG
5169701 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
5169729 AGTCGTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5173206 original size:15 final size:15
Alignment explanation
Indices: 5173186--5173226 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
5173176 TCTCAAAGAT
5173186 GAGGAGGTGAAAAAG
1 GAGGAGGTGAAAAAG
5173201 GAGGAGGTGAAAAAG
1 GAGGAGGTGAAAAAG
*
5173216 GAGGAAGTGAA
1 GAGGAGGTGAA
5173227 TTGTATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.46, T:0.07
Consensus pattern (15 bp):
GAGGAGGTGAAAAAG
Found at i:5173447 original size:22 final size:22
Alignment explanation
Indices: 5173406--5173447 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5173396 TTTCACCATT
*
5173406 AGAAAAAAGATAAAATAAAAAA
1 AGAAAAAAGATAAAAAAAAAAA
*
5173428 AGAAAAAAGA-AGAAAAAAAA
1 AGAAAAAAGATAAAAAAAAAA
5173448 TAACGTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (22 bp):
AGAAAAAAGATAAAAAAAAAAA
Found at i:5174319 original size:16 final size:17
Alignment explanation
Indices: 5174298--5174330 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5174288 ACTAGTTTAA
5174298 TTTGATT-AATTTAAAC
1 TTTGATTAAATTTAAAC
5174314 TTTGATTCAAATTTAAA
1 TTTGATT-AAATTTAAA
5174331 ATACAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
TTTGATTAAATTTAAAC
Found at i:5179961 original size:99 final size:100
Alignment explanation
Indices: 5179777--5179975 Score: 238
Period size: 99 Copynumber: 2.0 Consensus size: 100
5179767 AGAAATATAC
* * * *
5179777 TATTACAAGAAGTATTCTTCAATATGAATTCCTACCTTCAGTTAATAACTAACAGAAGAAACATA
1 TATTACAAGAACTATTCTTCAATATAAATTCCTACCTTCAGTTAAAAACTAACAGAAAAAACATA
* * * * *
5179842 GTCCTGTGCAAATTGTATGTAGTGATTAAATCTAA
66 GTCCTCTACAAATTGAATGTAATGAATAAATCTAA
* * * ** *
5179877 TATTACAAGGACTATTCTTCCATATAAATT-TTATTTTCAGTTAAAAACTAACAGAAAAAATATA
1 TATTACAAGAACTATTCTTCAATATAAATTCCTACCTTCAGTTAAAAACTAACAGAAAAAACATA
**
5179941 GTCCTCTACCGATTGAATGTAATGAATAAATCTAA
66 GTCCTCTACAAATTGAATGTAATGAATAAATCTAA
5179976 CACAAACAAT
Statistics
Matches: 82, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
99 56 0.68
100 26 0.32
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (100 bp):
TATTACAAGAACTATTCTTCAATATAAATTCCTACCTTCAGTTAAAAACTAACAGAAAAAACATA
GTCCTCTACAAATTGAATGTAATGAATAAATCTAA
Found at i:5182899 original size:17 final size:17
Alignment explanation
Indices: 5182844--5182900 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
5182834 GGACGTTGAT
5182844 TATTTTAAATCA-TTTTA
1 TATTTTAAAT-AGTTTTA
* * *
5182861 AATTTAATAATAGTTTTT
1 TATTTTA-AATAGTTTTA
*
5182879 TATTTTAAATTGTTTTA
1 TATTTTAAATAGTTTTA
5182896 TATTT
1 TATTT
5182901 AATAATATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 19 0.61
18 12 0.39
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
TATTTTAAATAGTTTTA
Found at i:5197776 original size:14 final size:13
Alignment explanation
Indices: 5197759--5197788 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
5197749 AAAAAACTAT
5197759 TTTTTAAAATTAAA
1 TTTTTAAAA-TAAA
5197773 TTTTTAAAATAAA
1 TTTTTAAAATAAA
5197786 TTT
1 TTT
5197789 CTTTATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTTAAAATAAA
Found at i:5198830 original size:21 final size:22
Alignment explanation
Indices: 5198806--5198851 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
5198796 CGGTAAAAAA
* *
5198806 TTACTTAAAA-ATTATTATTAT
1 TTACCTAAAACATTAATATTAT
*
5198827 TTACCTAAAACATTAATATTTT
1 TTACCTAAAACATTAATATTAT
5198849 TTA
1 TTA
5198852 ACATTTCTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (22 bp):
TTACCTAAAACATTAATATTAT
Found at i:5199413 original size:3 final size:3
Alignment explanation
Indices: 5199405--5199434 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
5199395 GACCTACAAT
5199405 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5199435 GCCGACTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5200620 original size:2 final size:2
Alignment explanation
Indices: 5200615--5200643 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5200605 ATATAGAAAA
5200615 AT AT AT AT AT -T 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
5200644 TCTCAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:5201398 original size:59 final size:60
Alignment explanation
Indices: 5201264--5201400 Score: 136
Period size: 59 Copynumber: 2.3 Consensus size: 60
5201254 GACATAATGA
* * *
5201264 ATAGTC-GAGAGATCATTTTATAACTTTTAATAGTCGAGGAACTCAACAAAACAACACTCT
1 ATAGTCGGAG-GACCATTTTATAACTTTTAATAGTCGAGGAACTCAACAAAACAAAACCCT
* * * * * *
5201324 ATAGTCGGAGTACCATTTTATAAC-TTTCATAGTTGAAGG-ACTTAATACAACAAAACCCT
1 ATAGTCGGAGGACCATTTTATAACTTTTAATAGTCG-AGGAACTCAACAAAACAAAACCCT
* *
5201383 ATAGTTGGGGGACCATTT
1 ATAGTCGGAGGACCATTT
5201401 GTGAACTTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
59 39 0.62
60 21 0.33
61 3 0.05
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (60 bp):
ATAGTCGGAGGACCATTTTATAACTTTTAATAGTCGAGGAACTCAACAAAACAAAACCCT
Found at i:5206549 original size:59 final size:60
Alignment explanation
Indices: 5206478--5206590 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
5206468 GTCCCTAAAT
* **
5206478 TATAACCCTCATT-TAAATT-GATCCTTAAACTTTTGAATGTTTCAATTTCATCCTCAAAC
1 TATAACCCTCATTCTAAATTAG-GCCTTAAACTTTTGAACATTTCAATTTCATCCTCAAAC
* * *
5206537 TATAACTCTCATTCTAAATTAGGCCTTAAATTTTTGAACATTTTAATTTCATCC
1 TATAACCCTCATTCTAAATTAGGCCTTAAACTTTTGAACATTTCAATTTCATCC
5206591 AACTATGACC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 12 0.26
60 33 0.72
61 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.42
Consensus pattern (60 bp):
TATAACCCTCATTCTAAATTAGGCCTTAAACTTTTGAACATTTCAATTTCATCCTCAAAC
Found at i:5207342 original size:15 final size:15
Alignment explanation
Indices: 5207319--5207351 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
5207309 ACATTACCCT
*
5207319 CCCCGCATCCGCCCG
1 CCCCACATCCGCCCG
5207334 CCCCACATCCGCCCG
1 CCCCACATCCGCCCG
5207349 CCC
1 CCC
5207352 AGCTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.70, G:0.15, T:0.06
Consensus pattern (15 bp):
CCCCACATCCGCCCG
Found at i:5219134 original size:27 final size:28
Alignment explanation
Indices: 5219088--5219141 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
5219078 GTGGTTCAAC
* * *
5219088 ACATTTATCTTCAGCCTTCTTTTCCTCT
1 ACATTTATCATCAACCTTCTTCTCCTCT
5219116 ACATTT-TCATCAACCTTCTTCTCCTC
1 ACATTTATCATCAACCTTCTTCTCCTC
5219142 AATTCGATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.17, C:0.35, G:0.02, T:0.46
Consensus pattern (28 bp):
ACATTTATCATCAACCTTCTTCTCCTCT
Found at i:5219288 original size:162 final size:159
Alignment explanation
Indices: 5218932--5219361 Score: 707
Period size: 162 Copynumber: 2.7 Consensus size: 159
5218922 CCACAACCTG
* *
5218932 TTTATCCTCAGCCTTCTTTTCCTCTACATTTTCATCAACTTTCTTTTCCTCAATTCGATCAACAA
1 TTTATCCTCAGCCTTCTTTTCCTCTACATTTTCATCAACCTTCTTCTCCTCAATTCGATCAACAA
* * * *
5218997 CCTTGTCATCTTGAGCTTCACTGATCTTCTTCTTGTTCTTGGTTTTCGCTTTGATACCTTTCGAT
66 CCTTGTCATCTTGAGCTTCACTGATCTTCTTCTTGTTCTTGGTTTTCCCTTTGACAACTTTCAAT
5219062 GTTTGGGAAGCACTTGGTGGTTCAACACA
131 GTTTGGGAAGCACTTGGTGGTTCAACACA
*
5219091 TTTATCTTCAGCCTTCTTTTCCTCTACATTTTCATCAACCTTCTTCTCCTCAATTCGATCAACAA
1 TTTATCCTCAGCCTTCTTTTCCTCTACATTTTCATCAACCTTCTTCTCCTCAATTCGATCAACAA
*
5219156 CCTTGTCATCTTGAGCTTCACTGTTATTCTTCTTCTTCTTCTTGGTTTTCCCTTTGACAACTTTC
66 CCTTGTCATCTTGAGCTTCACTG--A-TCTTCTTCTTGTTCTTGGTTTTCCCTTTGACAACTTTC
*
5219221 AATGTTTGGGAAGCACTTGGTGGTTCAACATA
128 AATGTTTGGGAAGCACTTGGTGGTTCAACACA
* * *
5219253 TTTATCCTCAGCCTTCTTTTCGTCTACATTTTCATCAACCTTCTTCTCCTCAATTTGATCCACAA
1 TTTATCCTCAGCCTTCTTTTCCTCTACATTTTCATCAACCTTCTTCTCCTCAATTCGATCAACAA
* *
5219318 CCTTGTTATATTGAGCTTCACTGATCTTCTTCTTGTTCTTGGTT
66 CCTTGTCATCTTGAGCTTCACTGATCTTCTTCTTGTTCTTGGTT
5219362 CTGTTCTTGG
Statistics
Matches: 252, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
159 104 0.41
160 1 0.00
161 1 0.00
162 146 0.58
ACGTcount: A:0.18, C:0.27, G:0.11, T:0.44
Consensus pattern (159 bp):
TTTATCCTCAGCCTTCTTTTCCTCTACATTTTCATCAACCTTCTTCTCCTCAATTCGATCAACAA
CCTTGTCATCTTGAGCTTCACTGATCTTCTTCTTGTTCTTGGTTTTCCCTTTGACAACTTTCAAT
GTTTGGGAAGCACTTGGTGGTTCAACACA
Found at i:5221070 original size:15 final size:16
Alignment explanation
Indices: 5221024--5221071 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
5221014 GAAGGTAAAA
* * *
5221024 TTATTTTTTTATTATA
1 TTATATTTTAATTATT
*
5221040 TTATATTTTATTTATT
1 TTATATTTTAATTATT
5221056 TTATA-TTTAATTATT
1 TTATATTTTAATTATT
5221071 T
1 T
5221072 GACTAAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATATTTTAATTATT
Found at i:5223198 original size:14 final size:14
Alignment explanation
Indices: 5223181--5223272 Score: 75
Period size: 14 Copynumber: 6.6 Consensus size: 14
5223171 CAAACTAAAT
5223181 AATAAAAACAATTA
1 AATAAAAACAATTA
5223195 AATAAAAAC-ATTA
1 AATAAAAACAATTA
* *
5223208 AATACAAAC-GTTA
1 AATAAAAACAATTA
**
5223221 TAATTCAAACAATTA
1 -AATAAAAACAATTA
5223236 AATAATAAA-AACTTA
1 AATAA-AAACAA-TTA
*
5223251 AA-AAAAACACAATA
1 AATAAAAACA-ATTA
5223265 AATAAAAA
1 AATAAAAA
5223273 AAGTTCATAA
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
13 18 0.28
14 29 0.45
15 17 0.27
ACGTcount: A:0.67, C:0.10, G:0.01, T:0.22
Consensus pattern (14 bp):
AATAAAAACAATTA
Found at i:5223247 original size:17 final size:16
Alignment explanation
Indices: 5223227--5223274 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
5223217 GTTATAATTC
5223227 AAACAATTAAATAATAA
1 AAACAATTAAATAA-AA
5223244 AAAC--TTAAA-AAAA
1 AAACAATTAAATAAAA
*
5223257 ACACAA-TAAATAAAA
1 AAACAATTAAATAAAA
5223272 AAA
1 AAA
5223275 GTTCATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 5 0.19
14 6 0.23
15 11 0.42
17 4 0.15
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACAATTAAATAAAA
Found at i:5223292 original size:50 final size:51
Alignment explanation
Indices: 5223231--5223327 Score: 155
Period size: 50 Copynumber: 1.9 Consensus size: 51
5223221 TAATTCAAAC
5223231 AATTAAATAATAAAAAC-TTAAAAAAAAC-ACAATAAATAAAAA-AAGTTCAT
1 AATTAAATAATAAAAACATT-AAAAAAACTA-AATAAATAAAAATAAGTTCAT
5223281 AATTAAATAATAAAAACATTAAAAAAACTAAATAAATAAAAATAAGT
1 AATTAAATAATAAAAACATTAAAAAAACTAAATAAATAAAAATAAGT
5223328 CTATTGATGT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
50 37 0.84
51 7 0.16
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (51 bp):
AATTAAATAATAAAAACATTAAAAAAACTAAATAAATAAAAATAAGTTCAT
Found at i:5223312 original size:25 final size:26
Alignment explanation
Indices: 5223234--5223322 Score: 73
Period size: 25 Copynumber: 3.5 Consensus size: 26
5223224 TTCAAACAAT
5223234 TAAAT-AATAAAAAC-TTAAAAAAAAC
1 TAAATAAATAAAAACATT-AAAAAAAC
* * * *
5223259 -ACAATAAATAAAAAAAGTT--CATAAT
1 TA-AATAAATAAAAACA-TTAAAAAAAC
5223284 TAAAT-AATAAAAACATTAAAAAAAC
1 TAAATAAATAAAAACATTAAAAAAAC
5223309 TAAATAAATAAAAA
1 TAAATAAATAAAAA
5223323 TAAGTCTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 17 0.35
26 17 0.35
28 2 0.04
ACGTcount: A:0.71, C:0.07, G:0.01, T:0.21
Consensus pattern (26 bp):
TAAATAAATAAAAACATTAAAAAAAC
Found at i:5230737 original size:50 final size:50
Alignment explanation
Indices: 5230672--5230776 Score: 165
Period size: 50 Copynumber: 2.1 Consensus size: 50
5230662 TATATTATAC
* * * *
5230672 TTAAGGTTTAAGTTTGAGTTTCAATCGAGTTAAGTCTGAGAATATCAAAT
1 TTAAGATTCAAGTTTGAGCTTCAATCGAGTTAAATCTGAGAATATCAAAT
*
5230722 TTAAGATTCAAGTTTGAGCTTCAATCGAGTTAAATTTGAGAATATCAAAT
1 TTAAGATTCAAGTTTGAGCTTCAATCGAGTTAAATCTGAGAATATCAAAT
5230772 TTAAG
1 TTAAG
5230777 TTTTTTTGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (50 bp):
TTAAGATTCAAGTTTGAGCTTCAATCGAGTTAAATCTGAGAATATCAAAT
Found at i:5236227 original size:78 final size:78
Alignment explanation
Indices: 5236094--5236256 Score: 283
Period size: 78 Copynumber: 2.1 Consensus size: 78
5236084 TATCAATTAC
* *
5236094 TCTT-TTAATATCATTGTTTATAAAGTCTTGTTTGATATAAATTTATCGGGTGATCTCGACGGTT
1 TCTTCTTAATATCATTGTTTATAAAGTCTTGTTGGACATAAATTTATCGGGTGATCTCGACGGTT
5236158 ATGAGATTATTGT
66 ATGAGATTATTGT
*
5236171 TCTTCTTAATATTATTGTTTATAAAGTCTTGTTGGACATAAATTTATCGGGTGATCTCGACGGTT
1 TCTTCTTAATATCATTGTTTATAAAGTCTTGTTGGACATAAATTTATCGGGTGATCTCGACGGTT
*
5236236 ATGGGATTATTGT
66 ATGAGATTATTGT
5236249 TCTTCTTA
1 TCTTCTTA
5236257 GAGTTTTGGG
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 4 0.05
78 77 0.95
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.47
Consensus pattern (78 bp):
TCTTCTTAATATCATTGTTTATAAAGTCTTGTTGGACATAAATTTATCGGGTGATCTCGACGGTT
ATGAGATTATTGT
Found at i:5236983 original size:28 final size:28
Alignment explanation
Indices: 5236951--5237022 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
5236941 CCAGTGCCAT
*
5236951 TGAGTTAGTGCTTGAAGCGTTATGTCAC
1 TGAGTCAGTGCTTGAAGCGTTATGTCAC
5236979 TGAGTCAGTGCTTGAAGCGTTATGTCAC
1 TGAGTCAGTGCTTGAAGCGTTATGTCAC
*
5237007 TGAGCCAGTGCTTGAA
1 TGAGTCAGTGCTTGAA
5237023 AAATTGGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (28 bp):
TGAGTCAGTGCTTGAAGCGTTATGTCAC
Found at i:5238171 original size:354 final size:353
Alignment explanation
Indices: 5237505--5238178 Score: 1100
Period size: 354 Copynumber: 1.9 Consensus size: 353
5237495 GAAACGAGTG
* * * *
5237505 ATATTAATCTCGTATCGGGAAAAGAAGAAGATAGATCTTGAAGTTTAAAAGTGGTGACATTACAT
1 ATATTAAACTCGTATCAGAAAAAGAAGAAGATAGATCCTGAAGTTTAAAAGTGGTGACATTACAT
* * * *
5237570 ATTCTATTAAACATATTTTTCAGGAATAGAATAGTGATTATTTGAGAAGTGATTTCATGTCGATC
66 ATCCTATTAAACATATTTTTCAGGAATAGAATAATGACTATTTGAGAAGTGATTTCAAGTCGATC
* *
5237635 ATCTTAATAGATGAGATAAGTAAGGTGGATAATCATGATAAGAGCATCACGGGATTAAATGAGAA
131 ATCTTAATAAATGAGATAAGTAAGGTGGATAATCACGATAAGAGCATCACGGGATTAAATGAGAA
**
5237700 AGAATGTTAATCTCGTATCAGAAAAAGAAGAAGATAGGTCTTGAAGTTTAAAAGTGGTGGCATTG
196 AGAATGTTAATCTCGTATCAGAAAAAGAAGAAGATAGAACTTGAAGTTTAAAAGTGGTGGCATTG
* * *
5237765 CATATCTTATTAAACATATTTTTTAGGAATAGAGTAATGAATCTTTGAGAAGTGATTTCATGATA
261 CATATCTTATTAAACATATTTTTCAGGAATAAAGTAATGAATCTTAGAGAAGTGATTTCATGATA
5237830 AGAGCATCACGGGATTAAATGAGAAAGA
326 AGAGCATCACGGGATTAAATGAGAAAGA
* * *
5237858 ATATTAAACTCGTATCAGAAAAAGAAGAAGATGGGTCCTGAAGTTTAAAAGTGGTGACATTGCAT
1 ATATTAAACTCGTATCAGAAAAAGAAGAAGATAGATCCTGAAGTTTAAAAGTGGTGACATTACAT
*
5237923 ATCCTATTAAATATATATTTTCAGGAATA-AAGTAATGACTATTTGAGAAGTGATTTCAAGTCGA
66 ATCCTATTAAACATAT-TTTTCAGGAATAGAA-TAATGACTATTTGAGAAGTGATTTCAAGTCGA
* *
5237987 TCATGTTAATAAATGGGATAAGTAAGGTGGATAATCACGATAAGAGCATCACGGGATTAAATGAG
129 TCATCTTAATAAATGAGATAAGTAAGGTGGATAATCACGATAAGAGCATCACGGGATTAAATGAG
*
5238052 AAAGAATGTTAATCTCGTATCAGAAAAAGAAGAAGATAGAACTTGAAGTTTAAAAGTGGTGGTAT
194 AAAGAATGTTAATCTCGTATCAGAAAAAGAAGAAGATAGAACTTGAAGTTTAAAAGTGGTGGCAT
*
5238117 TGCATATTTTATTAAACATATTTTTCAGGAATAAAGTAAT-AACTCTTAGAGAAGTGATTTCA
259 TGCATATCTTATTAAACATATTTTTCAGGAATAAAGTAATGAA-TCTTAGAGAAGTGATTTCA
5238179 AATCGATCAT
Statistics
Matches: 295, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
353 76 0.26
354 219 0.74
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.31
Consensus pattern (353 bp):
ATATTAAACTCGTATCAGAAAAAGAAGAAGATAGATCCTGAAGTTTAAAAGTGGTGACATTACAT
ATCCTATTAAACATATTTTTCAGGAATAGAATAATGACTATTTGAGAAGTGATTTCAAGTCGATC
ATCTTAATAAATGAGATAAGTAAGGTGGATAATCACGATAAGAGCATCACGGGATTAAATGAGAA
AGAATGTTAATCTCGTATCAGAAAAAGAAGAAGATAGAACTTGAAGTTTAAAAGTGGTGGCATTG
CATATCTTATTAAACATATTTTTCAGGAATAAAGTAATGAATCTTAGAGAAGTGATTTCATGATA
AGAGCATCACGGGATTAAATGAGAAAGA
Found at i:5238264 original size:198 final size:198
Alignment explanation
Indices: 5237822--5238656 Score: 1217
Period size: 198 Copynumber: 4.2 Consensus size: 198
5237812 AGAAGTGATT
*
5237822 TCATGATAAGAGCATCACGG-GATTAAATGAGAAAGAATATTAAACTCGTATCAGAAAAAGAAGA
1 TCATGATAAGAGCATCA-GGAGATTAAATGAGAAAGAATATTAATCTCGTATCAGAAAAAGAAGA
* * * * * *
5237886 AGATGGGTCCTGAAGTTTAAAAGTGGTGACATTGCATATCCTATTAAATATATATTTTCAGGAAT
65 AGATAGATCTTGAAGTTTAAAAGTGGTGGCATTGCATATTCTATTAAACATAT-TTTTCAGGAAT
* *
5237951 AAAGTAATGACTATTTGAGAAGTGATTTCAAGTCGATCATGTTAATAAATGGGATAAGTAAGGTG
129 AAAGTAATGACTATTTGAGAAGTGATTTCAAGTCGATCATCTTAATAGATGGGATAAGTAAGGTG
5238016 GATAA
194 GATAA
* *
5238021 TCACGATAAGAGCATCACGG-GATTAAATGAGAAAGAATGTTAATCTCGTATCAGAAAAAGAAGA
1 TCATGATAAGAGCATCA-GGAGATTAAATGAGAAAGAATATTAATCTCGTATCAGAAAAAGAAGA
* * *
5238085 AGATAGAACTTGAAGTTTAAAAGTGGTGGTATTGCATATTTTATTAAACATATTTTTCAGGAATA
65 AGATAGATCTTGAAGTTTAAAAGTGGTGGCATTGCATATTCTATTAAACATATTTTTCAGGAATA
* * * * *
5238150 AAGTAATAACTCTTAGAGAAGTGATTTCAAATCGATCATCTTAATAGATGGGATAACTAAGGTGG
130 AAGTAATGACTATTTGAGAAGTGATTTCAAGTCGATCATCTTAATAGATGGGATAAGTAAGGTGG
5238215 ATAA
195 ATAA
* * *
5238219 ACATGATAAGAGCATCAGGAGATTAAATGAGAAATAATATTAATCTCGTATCGGAAAAAGAAGAA
1 TCATGATAAGAGCATCAGGAGATTAAATGAGAAAGAATATTAATCTCGTATCAGAAAAAGAAGAA
5238284 GATAGATCTTGAAGTTTAAAAGTGGTGGCATTGCATATTCTATTAAACATATTTTTCAGGAATAG
66 GATAGATCTTGAAGTTTAAAAGTGGTGGCATTGCATATTCTATTAAACATATTTTTCAGGAATA-
** * * * * *
5238349 AA-TTGTGATTGTTTGAGAAGTGATTTCATGTCGATCATCTTCATAGATGAGATAAGTAAGGTGG
130 AAGTAATGACTATTTGAGAAGTGATTTCAAGTCGATCATCTTAATAGATGGGATAAGTAAGGTGG
5238413 ATAA
195 ATAA
* **
5238417 CCATGATAAGAGCATCACAAGATTAAATGAGAAAGAATATTAATCTCGTATCAGAAAAAGAAGAA
1 TCATGATAAGAGCATCAGGAGATTAAATGAGAAAGAATATTAATCTCGTATCAGAAAAAGAAGAA
* * * *
5238482 GATAGGTCTTGAAGTTTAAAAGCGGCGGCATTGCATATTCTATTAAACATATTTTTCAGGAATAG
66 GATAGATCTTGAAGTTTAAAAGTGGTGGCATTGCATATTCTATTAAACATATTTTTCAGGAATAA
* * *
5238547 AGTAATGACTATTTGAGAAGTGATTTCAAGTCGATCATCTAAATAGATGGGATAAATAAAGTGGA
131 AGTAATGACTATTTGAGAAGTGATTTCAAGTCGATCATCTTAATAGATGGGATAAGTAAGGTGGA
5238612 TAA
196 TAA
* * * * *
5238615 TCACGATAAAAGCATCACGAGATCAAATGAAAAAGAATATTA
1 TCATGATAAGAGCATCAGGAGATTAAATGAGAAAGAATATTA
5238657 CGACTTTAAT
Statistics
Matches: 570, Mismatches: 63, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
197 3 0.01
198 460 0.81
199 107 0.19
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.29
Consensus pattern (198 bp):
TCATGATAAGAGCATCAGGAGATTAAATGAGAAAGAATATTAATCTCGTATCAGAAAAAGAAGAA
GATAGATCTTGAAGTTTAAAAGTGGTGGCATTGCATATTCTATTAAACATATTTTTCAGGAATAA
AGTAATGACTATTTGAGAAGTGATTTCAAGTCGATCATCTTAATAGATGGGATAAGTAAGGTGGA
TAA
Found at i:5240335 original size:23 final size:23
Alignment explanation
Indices: 5240245--5240323 Score: 140
Period size: 23 Copynumber: 3.4 Consensus size: 23
5240235 CGAATAAATA
* *
5240245 CACCAAAGTACCACGTAGAATTG
1 CACCGAAGTGCCACGTAGAATTG
5240268 CACCGAAGTGCCACGTAGAATTG
1 CACCGAAGTGCCACGTAGAATTG
5240291 CACCGAAGTGCCACGTAGAATTG
1 CACCGAAGTGCCACGTAGAATTG
5240314 CACCGAAGTG
1 CACCGAAGTG
5240324 TCGTGTAGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (23 bp):
CACCGAAGTGCCACGTAGAATTG
Found at i:5240347 original size:46 final size:46
Alignment explanation
Indices: 5240245--5240349 Score: 140
Period size: 46 Copynumber: 2.3 Consensus size: 46
5240235 CGAATAAATA
*
5240245 CACCAAAGTACCACGTAGAATTGCACCGAAGTGCCACGTAGAATTG
1 CACCAAAGTGCCACGTAGAATTGCACCGAAGTGCCACGTAGAATTG
* * ** *
5240291 CACCGAAGTGCCACGTAGAATTGCACCGAAGTGTCGTGTAGAATTT
1 CACCAAAGTGCCACGTAGAATTGCACCGAAGTGCCACGTAGAATTG
5240337 CA-CAATAGTGCCA
1 CACCAA-AGTGCCA
5240350 TATAAGATGT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 2 0.04
46 49 0.96
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (46 bp):
CACCAAAGTGCCACGTAGAATTGCACCGAAGTGCCACGTAGAATTG
Found at i:5241044 original size:64 final size:65
Alignment explanation
Indices: 5240969--5241092 Score: 151
Period size: 64 Copynumber: 1.9 Consensus size: 65
5240959 CACCCCTTGA
* * * *
5240969 GGTATCGGTACCCTTACTGCATTCTGTTAGT-TTTTCATTCAAGAGGGTATCAGTACCTAACTGG
1 GGTATCAGTACCCTCACTACATTCTGTGAGTCTTTTCATTCAAGAGGGTATCAGTACCTAACTGG
* * * ** *
5241033 GGTATCAGTACCCTCATTACATTCTGTGATTCTTTTCGTTTGAGAGGGTATCGGTACCTA
1 GGTATCAGTACCCTCACTACATTCTGTGAGTCTTTTCATTCAAGAGGGTATCAGTACCTA
5241093 TTGAATGGGT
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
64 25 0.51
65 24 0.49
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (65 bp):
GGTATCAGTACCCTCACTACATTCTGTGAGTCTTTTCATTCAAGAGGGTATCAGTACCTAACTGG
Found at i:5251149 original size:13 final size:13
Alignment explanation
Indices: 5251131--5251167 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
5251121 AAGAGTGCCA
5251131 TGCTTCTTTGACT
1 TGCTTCTTTGACT
5251144 TGCTTCTTTGACT
1 TGCTTCTTTGACT
5251157 TGCTTCTTTGA
1 TGCTTCTTTGA
5251168 AGTTCATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.08, C:0.22, G:0.16, T:0.54
Consensus pattern (13 bp):
TGCTTCTTTGACT
Found at i:5256803 original size:13 final size:13
Alignment explanation
Indices: 5256785--5256821 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
5256775 AAAAGTGCCA
5256785 TGCTTCTTTGACT
1 TGCTTCTTTGACT
5256798 TGCTTCTTTGACT
1 TGCTTCTTTGACT
5256811 TGCTTCTTTGA
1 TGCTTCTTTGA
5256822 AGTTCATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.08, C:0.22, G:0.16, T:0.54
Consensus pattern (13 bp):
TGCTTCTTTGACT
Found at i:5262425 original size:13 final size:13
Alignment explanation
Indices: 5262407--5262443 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
5262397 AAAAGTGCCA
5262407 TGCTTCTTTGACT
1 TGCTTCTTTGACT
5262420 TGCTTCTTTGACT
1 TGCTTCTTTGACT
5262433 TGCTTCTTTGA
1 TGCTTCTTTGA
5262444 AGTTCATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.08, C:0.22, G:0.16, T:0.54
Consensus pattern (13 bp):
TGCTTCTTTGACT
Found at i:5266856 original size:225 final size:226
Alignment explanation
Indices: 5266457--5267072 Score: 1056
Period size: 225 Copynumber: 2.8 Consensus size: 226
5266447 GTAAATTATC
* * * *
5266457 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAATATA-TTATTATTATCTTTAG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
* **
5266520 TTAATATTGTTAAATTTAAAATCTAATAATA-TTTATAAAATATCAAAACAATCAAATAATTTTT
66 TTAATATTGTTAAATTTAAATTCTAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
5266584 TGTGTAAA-TGAATTATT-AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
5266647 AAACATAAATTACATAACTTTCAAAAAAGTA
196 AAACATAAATTACATAACTTTCAAAAAAGTA
5266678 TATCATTTTTATAAAA-TGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
5266742 TTAATATTGTT-AATTTAAATTCTAATAATATTTTATAAAATATCAAACACAATCAAATAAAATT
66 TTAATATTGTTAAATTTAAATTCTAATAATATTTTATAAAATATCAAA-ACAATCAAATAAAATT
*
5266806 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
5266871 GAAACATAAATTACATAACTTTCAAAAAAGTA
195 GAAACATAAATTACATAACTTTCAAAAAAGTA
5266903 TATCATTTTTATAAAAGTGTCCA-ACTTATTTCACTGTTGAAAAC--ATTT-TTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
5266964 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
66 TTAATATTGTTAAATTTAAATTCT-AATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
5267029 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACA
130 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACA
5267073 AGAGTAGTTA
Statistics
Matches: 377, Mismatches: 9, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
220 20 0.05
221 42 0.11
222 65 0.17
223 99 0.26
224 32 0.08
225 113 0.30
226 6 0.02
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
TTAATATTGTTAAATTTAAATTCTAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTCAAAAAAGTA
Found at i:5267759 original size:19 final size:19
Alignment explanation
Indices: 5267735--5267783 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
5267725 AATGTCGAGT
5267735 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
5267754 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
5267773 TATTTTTGTAT
1 TAATTTTGTAT
5267784 GTGAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:5268838 original size:196 final size:197
Alignment explanation
Indices: 5267926--5269125 Score: 2043
Period size: 193 Copynumber: 6.2 Consensus size: 197
5267916 TGTCGATCCA
*
5267926 TATAATGTAATATGTAATTTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAGGATAT
1 TATAATGTAATATGTAA-TTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAT
*
5267990 GTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATTAATGGAAA
65 GTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAA
5268055 ACAGGGTGCACCCATAAAGTGTCGATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACCC
130 ACA-GGTGCACCCAT-AAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
5268119 -AAAG
193 AAAAG
5268123 TAT-ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
5268187 TCTAAATAATGTG-CGACACTAATAT--TTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
5268248 CAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACCCA
131 C-AGGTGCACCCAT-AAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
5268312 AAAG
194 AAAG
*
5268316 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
5268381 TCT-AATAATGTGTCGACACT-ATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA-GG-AAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
5268442 CAGGTGCACCCATAAGTGTCGATCCATATAT-AAAA-TGTCGATCCCAAAATCATCGAACCC-AA
131 CAGGTGCACCCATAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAA
5268504 AG
196 AG
5268506 TATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAA-T-TACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
5268568 TCTAAAT-ATGTGTCGACACT-A-ATA-TTTGTGTCGATA-TTTTTTTCCAGAATGAATGG-AAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
5268627 CAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
131 C-AGGTGCACCCAT-AAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
5268692 AAAG
194 AAAG
*
5268696 TATAATGT-ATATGTAATTTTTCAATCTAACCGGTACAATTATAACCGGTTTTATGAGAGGATAT
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTAT-ACCGGTTTTATGAGAGAATAT
5268760 GTCTAAATAATGTGTCG-CACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGG-AA
65 GTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAA
*
5268823 ACAGGTGCACCCATAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
130 ACAGGTGCACCCATAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
5268888 AAG
195 AAG
5268891 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATA-G
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
5268955 TCT-AA-AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
5269018 CAGGTGCACCCATAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACCCAAA
131 CAGGTGCACCCATAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAA
5269081 AG
196 AG
5269083 TATAATGTAATATGTAATTTTTTCAATCTAACCGGTACAATTA
1 TATAATGTAATATGTAA-TTTTTCAATCTAACCGGTACAATTA
5269126 CATAAAGTGT
Statistics
Matches: 965, Mismatches: 8, Indels: 64
0.93 0.01 0.06
Matches are distributed among these distances:
184 17 0.02
185 18 0.02
186 15 0.02
187 57 0.06
188 8 0.01
189 54 0.06
190 64 0.07
191 19 0.02
192 131 0.14
193 179 0.19
194 120 0.12
195 124 0.13
196 132 0.14
197 27 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (197 bp):
TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
CAGGTGCACCCATAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAA
AG
Found at i:5269196 original size:291 final size:290
Alignment explanation
Indices: 5268837--5269413 Score: 981
Period size: 291 Copynumber: 2.0 Consensus size: 290
5268827 GTGCACCCAT
5268837 AAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAAT
1 AAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAAT
5268902 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATA-GTCT-AA-AATG
66 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
5268964 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGTGCACCC
131 TGTCG--ACT-A-ATAGTTTGTGTCGATA--TTTTTTCCAGAATGAA-GGAAAACAGGTGCACCC
5269029 AT-AAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGT
189 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA-AATGT
5269091 AATATGTAATTTTTTCAATCTAACCGGTACAATTACATA
253 AATATGTAA-TTTTTCAATCTAACCGGTACAATTACATA
*
5269130 AAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGTAAT
1 AAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAAT
*
5269193 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATGTCTAAATAATG
66 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
*
5269258 TGTCGACTAATAGTTTGTGTCGATATTTTTTCCAGAATTAAGGAAAACAGGTGCACCCATAAAGT
131 TGTCGACTAATAGTTTGTGTCGATATTTTTTCCAGAATGAAGGAAAACAGGTGCACCCATAAAGT
*
5269323 GTCGATTCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAAATGTAATATGTA
196 GTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAAATGTAATATGTA
5269388 ATTTTTCAATCTAACCGGTACAATTA
261 ATTTTTCAATCTAACCGGTACAATTA
5269414 TACCGGTTTT
Statistics
Matches: 274, Mismatches: 4, Indels: 17
0.93 0.01 0.06
Matches are distributed among these distances:
287 19 0.07
288 57 0.21
289 29 0.11
290 37 0.14
291 82 0.30
292 22 0.08
293 19 0.07
294 9 0.03
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (290 bp):
AAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAAT
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
TGTCGACTAATAGTTTGTGTCGATATTTTTTCCAGAATGAAGGAAAACAGGTGCACCCATAAAGT
GTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAAATGTAATATGTA
ATTTTTCAATCTAACCGGTACAATTACATA
Found at i:5269200 original size:99 final size:98
Alignment explanation
Indices: 5269031--5269223 Score: 377
Period size: 99 Copynumber: 2.0 Consensus size: 98
5269021 GTGCACCCAT
5269031 AAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAATAT
1 AAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAATAT
5269096 GTAATTTTTTCAATCTAACCGGTACAATTACATA
66 GTAA-TTTTTCAATCTAACCGGTACAATTACATA
5269130 AAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAATAT
1 AAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAATAT
5269195 GTAATTTTTCAATCTAACCGGTACAATTA
66 GTAATTTTTCAATCTAACCGGTACAATTA
5269224 TACCGGTTTT
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 25 0.27
99 69 0.73
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (98 bp):
AAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAATAT
GTAATTTTTCAATCTAACCGGTACAATTACATA
Found at i:5269448 original size:190 final size:194
Alignment explanation
Indices: 5269126--5269670 Score: 955
Period size: 190 Copynumber: 2.8 Consensus size: 194
5269116 GGTACAATTA
5269126 CATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATG
1 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
5269189 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATGTCTAAAT
66 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATGTCTAAAT
5269254 AATGTGTCGACT-A-ATAGTTTGTGTCGATA-TTTTTTCCAGAATTAA-GGAAAACA-GGTGCAC
131 AATGTGTCGACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA-TAATGGAAAACAGGGTGC-C
5269314 C
194 C
*
5269315 CATAAAGTGTCGATTCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA-AATG
1 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
5269379 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATGTCTAAAT
66 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATGTCTAAAT
5269444 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATAATGGAAAACAGGGTGCC
131 AATGTGTCG--ACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATAATGGAAAACAGGGTGCC
5269509 C
194 C
5269510 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
1 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
5269575 TAATATGTAATTGTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATGTCTAAAT
66 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATGTCTAAAT
*
5269640 AATGTCGAC-ACTAATATAGTTTGTGTCGATA
131 AATGT-GTCGACTAATATAGTTTGTGTCGATA
5269671 CTAATTTAAA
Statistics
Matches: 341, Mismatches: 4, Indels: 17
0.94 0.01 0.05
Matches are distributed among these distances:
189 21 0.06
190 93 0.27
191 21 0.06
192 3 0.01
193 1 0.00
194 41 0.12
195 81 0.24
196 78 0.23
197 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (194 bp):
CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATGTCTAAAT
AATGTGTCGACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATAATGGAAAACAGGGTGCCC
Found at i:5270149 original size:13 final size:13
Alignment explanation
Indices: 5270131--5270156 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5270121 GATAAATATG
5270131 CATTTAGTTTTAA
1 CATTTAGTTTTAA
5270144 CATTTAGTTTTAA
1 CATTTAGTTTTAA
5270157 ATCCACATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
CATTTAGTTTTAA
Found at i:5271057 original size:23 final size:23
Alignment explanation
Indices: 5271027--5271082 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
5271017 TCAACGACAT
5271027 TAATAGGTAGCCCTTATATAATG
1 TAATAGGTAGCCCTTATATAATG
* **
5271050 TAATAGGTATCGTTTATATAATG
1 TAATAGGTAGCCCTTATATAATG
5271073 TAATAGGTAG
1 TAATAGGTAG
5271083 TGGTTATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCCCTTATATAATG
Found at i:5271089 original size:23 final size:23
Alignment explanation
Indices: 5271040--5271091 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
5271030 TAGGTAGCCC
*
5271040 TTATATAATGTAATAGGTATCGT
1 TTATATAATGTAATAGGTATCGG
5271063 TTATATAATGTAATAGGTAGT-GG
1 TTATATAATGTAATAGGTA-TCGG
5271086 TTATAT
1 TTATAT
5271092 TGTAAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (23 bp):
TTATATAATGTAATAGGTATCGG
Found at i:5271473 original size:23 final size:23
Alignment explanation
Indices: 5271447--5271510 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
5271437 ATAATAGAAC
*
5271447 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* * **
5271470 ATATAATGAAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
5271493 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
5271511 TGGTTATATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:5271517 original size:23 final size:23
Alignment explanation
Indices: 5271447--5271519 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
5271437 ATAATAGAAC
* **
5271447 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
5271470 ATATAATGAAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
5271493 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
5271516 ATAT
1 ATAT
5271520 TGTAAAGTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
23 40 0.98
24 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:5271904 original size:23 final size:21
Alignment explanation
Indices: 5271873--5271933 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
5271863 ATAGGTAAAC
*
5271873 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAG--CTT
*
5271896 ATATAATGTAATAGGT-GTTT
1 ATATAATGTAATAGGTAGCTT
5271916 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
5271934 TGGTTATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 18 0.51
21 1 0.03
22 1 0.03
23 15 0.43
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (21 bp):
ATATAATGTAATAGGTAGCTT
Found at i:5271955 original size:423 final size:424
Alignment explanation
Indices: 5271027--5272174 Score: 2063
Period size: 423 Copynumber: 2.7 Consensus size: 424
5271017 TCAACGACAT
5271027 TAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATAT
1 TAATAGGTAGCCCTTATATAATGTAATAGG-ATCGTTTATATAATGTAATAGGTAGTGGTTATAT
*
5271092 TGTAAAGTTTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTA
65 TGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTA
**
5271157 ATATTAAT-TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
130 AGGTT-ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
5271221 TTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAA
194 TTTTACGTTACGG--TATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAA
*
5271286 AACAATCAAATAATTTTTTTCTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGA
257 AACAATCAAATAA-TTTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGA
* * *
5271351 AACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTTA
321 AACAATGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTATA
5271416 AAAAGTATGGACACTTTCAATATAATAGAACATATGATG
386 AAAAGTATGGACACTTTCAATATAATAGAACATATGATG
*
5271455 TAATAGGTAGCCCTTATATAATGAAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATAT
1 TAATAGGTAGCCCTTATATAATGTAATAGG-ATCGTTTATATAATGTAATAGGTAGTGGTTATAT
*
5271520 TGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTA
65 TGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTA
5271585 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTT
130 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTT
5271650 TTTACGTTACGGTATA-TATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAAC
195 TTTACGTTACGGTATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAAC
5271714 AATCAAATAA-TTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACA
260 AATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACA
5271778 ATGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTATAAAAA
325 ATGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTATAAAAA
5271843 GTATGGACACTTTCAATATAATAGGTAAACATATGATG
390 GTATGGACACTTTCAATATAATA-G--AACATATGATG
5271881 TAATAGGTAGCCCTTATATAATGTAATAGG-T-GTTTATATAATGTAATAGGTAGTGGTTATATT
1 TAATAGGTAGCCCTTATATAATGTAATAGGATCGTTTATATAATGTAATAGGTAGTGGTTATATT
5271944 GTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
66 GTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
5272009 GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
131 GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
* * * *
5272074 TTACGTTGCGATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACA
196 TTACGTTACGGTATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACA
5272139 ATCAAATAATTTTTTGTGCAAATGAAATTATTAAAT
261 ATCAAATAATTTTTTGTGCAAATGAAATTATTAAAT
5272175 TAAATAATTC
Statistics
Matches: 699, Mismatches: 15, Indels: 15
0.96 0.02 0.02
Matches are distributed among these distances:
423 312 0.45
424 58 0.08
425 84 0.12
426 44 0.06
427 2 0.00
428 199 0.28
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (424 bp):
TAATAGGTAGCCCTTATATAATGTAATAGGATCGTTTATATAATGTAATAGGTAGTGGTTATATT
GTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
TTACGTTACGGTATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACA
ATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACAA
TGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTATAAAAAG
TATGGACACTTTCAATATAATAGAACATATGATG
Found at i:5272243 original size:25 final size:25
Alignment explanation
Indices: 5272209--5272259 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
5272199 ACAACAAATC
*
5272209 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
5272234 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
5272259 A
1 A
5272260 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:5272846 original size:39 final size:39
Alignment explanation
Indices: 5272803--5272889 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
5272793 TCCGATGCTC
*
5272803 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
5272842 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
5272881 ATCAAAATC
1 ATCAAAATC
5272890 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:5280406 original size:42 final size:42
Alignment explanation
Indices: 5280360--5280494 Score: 117
Period size: 42 Copynumber: 3.1 Consensus size: 42
5280350 CCTTCAAAGA
5280360 CTCATTCTGAGTGCCATAGTCTTCACTAGCTAACTTCACTTC
1 CTCATTCTGAGTGCCATAGTCTTCACTAGCTAACTTCACTTC
* * * * * * * ** * ****
5280402 CTCATTAATAACTTCAATAATCTTCTCCCGTTTAACCTTCAAAGA
1 CTCATT-CTGAGTGCCATAGTCTTCACTAG-CTAA-CTTCACTTC
5280447 CTCATTCTGAGTGCCATAGTCTTCACTAGCTAACTTCACTTC
1 CTCATTCTGAGTGCCATAGTCTTCACTAGCTAACTTCACTTC
5280489 CTCATT
1 CTCATT
5280495 AATAACTTCT
Statistics
Matches: 62, Mismatches: 28, Indels: 6
0.65 0.29 0.06
Matches are distributed among these distances:
42 17 0.27
43 17 0.27
44 17 0.27
45 11 0.18
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (42 bp):
CTCATTCTGAGTGCCATAGTCTTCACTAGCTAACTTCACTTC
Found at i:5280474 original size:87 final size:87
Alignment explanation
Indices: 5280328--5280503 Score: 352
Period size: 87 Copynumber: 2.0 Consensus size: 87
5280318 CTTAAAATCA
5280328 TCAATAATCTTCTCCCGTTTAACCTTCAAAGACTCATTCTGAGTGCCATAGTCTTCACTAGCTAA
1 TCAATAATCTTCTCCCGTTTAACCTTCAAAGACTCATTCTGAGTGCCATAGTCTTCACTAGCTAA
5280393 CTTCACTTCCTCATTAATAACT
66 CTTCACTTCCTCATTAATAACT
5280415 TCAATAATCTTCTCCCGTTTAACCTTCAAAGACTCATTCTGAGTGCCATAGTCTTCACTAGCTAA
1 TCAATAATCTTCTCCCGTTTAACCTTCAAAGACTCATTCTGAGTGCCATAGTCTTCACTAGCTAA
5280480 CTTCACTTCCTCATTAATAACT
66 CTTCACTTCCTCATTAATAACT
5280502 TC
1 TC
5280504 TTCACTATTA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.36
Consensus pattern (87 bp):
TCAATAATCTTCTCCCGTTTAACCTTCAAAGACTCATTCTGAGTGCCATAGTCTTCACTAGCTAA
CTTCACTTCCTCATTAATAACT
Found at i:5284365 original size:12 final size:12
Alignment explanation
Indices: 5284350--5284386 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
5284340 TATTTAAACA
5284350 GATATCAGGCCG
1 GATATCAGGCCG
5284362 GATATCAGGCCG
1 GATATCAGGCCG
*
5284374 GATATCGGGCCG
1 GATATCAGGCCG
5284386 G
1 G
5284387 GTATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.38, T:0.16
Consensus pattern (12 bp):
GATATCAGGCCG
Found at i:5284443 original size:42 final size:41
Alignment explanation
Indices: 5284388--5284481 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 41
5284378 TCGGGCCGGG
5284388 TATATAT-ATTTAAATTAAATATATAAATATTATATATATA
1 TATATATAATTTAAATTAAATATATAAATATTATATATATA
* *
5284428 TATATATTAATTTAAATTAAATTTATTAATATTATATATATA
1 TATATA-TAATTTAAATTAAATATATAAATATTATATATATA
5284470 TATATAATAATT
1 TATAT-ATAATT
5284482 ATTTTTAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
40 6 0.12
41 1 0.02
42 41 0.84
43 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (41 bp):
TATATATAATTTAAATTAAATATATAAATATTATATATATA
Found at i:5284482 original size:36 final size:36
Alignment explanation
Indices: 5284388--5284493 Score: 96
Period size: 42 Copynumber: 2.9 Consensus size: 36
5284378 TCGGGCCGGG
* * *
5284388 TATATATAT-TTA-AATTAAATATATAAATATTATATA
1 TATATATATATAATAATTAAATTTATTAATA-T-TATA
5284424 TATATATATATTAATTTAAATTAAATTTATTAATATTATA
1 TATATATATA-TAA--T-AATTAAATTTATTAATATTATA
5284464 TATATATATATAATAATT--ATTT-TTAATATT
1 TATATATATATAATAATTAAATTTATTAATATT
5284494 TATCGGGTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
33 8 0.13
34 4 0.07
36 13 0.21
37 1 0.02
38 2 0.03
39 3 0.05
40 14 0.23
41 1 0.02
42 15 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (36 bp):
TATATATATATAATAATTAAATTTATTAATATTATA
Found at i:5284583 original size:36 final size:36
Alignment explanation
Indices: 5284535--5284604 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
5284525 AAACCTGTCC
*
5284535 CCATCTCCGTCCCCGTTTAACATAAATAATTTTTCT
1 CCATCTCCGTCCCCGTTTAACATAAACAATTTTTCT
* **
5284571 CCATC-CCTGTCCCTGTTTAGTATAAACAATTTTT
1 CCATCTCC-GTCCCCGTTTAACATAAACAATTTTT
5284605 TCCCGTCCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.07
36 27 0.93
ACGTcount: A:0.24, C:0.29, G:0.07, T:0.40
Consensus pattern (36 bp):
CCATCTCCGTCCCCGTTTAACATAAACAATTTTTCT
Found at i:5285689 original size:29 final size:29
Alignment explanation
Indices: 5285643--5285703 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
5285633 TTTAAAATCT
* *
5285643 TAATATTTTTATTTATAAAATTATAGATA
1 TAATATTTTTATTAATAAAATAATAGATA
* *
5285672 TAATATTTTT-TATAATAATATAATTGATA
1 TAATATTTTTAT-TAATAAAATAATAGATA
5285701 TAA
1 TAA
5285704 ATAATATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
TAATATTTTTATTAATAAAATAATAGATA
Found at i:5287356 original size:64 final size:64
Alignment explanation
Indices: 5287205--5287356 Score: 168
Period size: 64 Copynumber: 2.4 Consensus size: 64
5287195 TAATGAAGGT
* * * **
5287205 ATGCATCGA-GCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTTATTATTAATGGA
1 ATGCATCGATGCACTACCTGTGCATCGATGCATAAAATACATTCGATGTTTTATTATTAAAAGA
* * *
5287268 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTACATTCGATGTTTATATT-TTAAAA
1 ATGCATCGATGCACTACC-TGTGCATCGATGCA-TAAAATACATTCGATGTTT-TATTATTAAAA
5287330 GA
63 GA
*
5287332 GTGCATCGATGCACTACCTGTGCAT
1 ATGCATCGATGCACTACCTGTGCAT
5287357 AGATACACCT
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
63 11 0.15
64 54 0.74
65 8 0.11
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTGTGCATCGATGCATAAAATACATTCGATGTTTTATTATTAAAAGA
Found at i:5288388 original size:2 final size:2
Alignment explanation
Indices: 5288381--5288411 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5288371 CTAATGATTA
5288381 AT AT AT 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 AT AT AT A
5288412 ACCTAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5293319 original size:10 final size:10
Alignment explanation
Indices: 5293304--5293434 Score: 53
Period size: 9 Copynumber: 13.4 Consensus size: 10
5293294 TATTATTTAT
*
5293304 ATATATGTTA
1 ATATATATTA
*
5293314 ATATATATTT
1 ATATATATTA
*
5293324 ATATATAATA
1 ATATATATTA
*
5293334 ATGATAATAATA
1 AT-AT-ATATTA
*
5293346 ATA-ATAATA
1 ATATATATTA
*
5293355 AAATATA-TA
1 ATATATATTA
*
5293364 ATAATAATAATA
1 AT-AT-ATATTA
*
5293376 ATAATATAATA
1 AT-ATATATTA
5293387 ATA-ATA-TA
1 ATATATATTA
*
5293395 ATA-ATAATA
1 ATATATATTA
*
5293404 ATA-ATAATA
1 ATATATATTA
*
5293413 ATA-ATAATA
1 ATATATATTA
*
5293422 ATA-ATAATA
1 ATATATATTA
5293431 ATAT
1 ATAT
5293435 GGGTAAAAAA
Statistics
Matches: 107, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
8 8 0.07
9 46 0.43
10 24 0.22
11 14 0.13
12 15 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
ATATATATTA
Found at i:5293319 original size:12 final size:10
Alignment explanation
Indices: 5293297--5293330 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
5293287 CTGTAATTAT
5293297 TATTTATATA
1 TATTTATATA
5293307 TATGTTAATATA
1 TAT-TT-ATATA
5293319 TATTTATATA
1 TATTTATATA
5293329 TA
1 TA
5293331 ATAATGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.45
11 4 0.18
12 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (10 bp):
TATTTATATA
Found at i:5293343 original size:3 final size:3
Alignment explanation
Indices: 5293328--5293433 Score: 173
Period size: 3 Copynumber: 36.0 Consensus size: 3
5293318 ATATTTATAT
*
5293328 ATA ATA ATG ATA ATA ATA ATA ATA ATA A-A ATA TATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
5293373 ATA ATA AT- ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5293419 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
5293434 TGGGTAAAAA
Statistics
Matches: 97, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
2 6 0.06
3 88 0.91
4 3 0.03
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:5293893 original size:113 final size:113
Alignment explanation
Indices: 5293568--5294188 Score: 987
Period size: 113 Copynumber: 5.5 Consensus size: 113
5293558 ATTGAATAAA
* * ** *
5293568 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGTTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGATGATCCATC
* * * * *
5293632 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
5293681 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC--TCTACCGGAAAAGATAATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGATGATCC
* * *
5293744 ATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTAATTATGAAC
62 ATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
5293796 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCCTCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
*
5293861 AATGATGGGTTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
5293909 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
5293974 AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * *
5294022 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCCTCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
5294087 AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
5294135 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG
5294189 CTAATCTTTC
Statistics
Matches: 476, Mismatches: 26, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
112 20 0.04
113 342 0.72
114 15 0.03
115 79 0.17
117 20 0.04
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:5294640 original size:22 final size:22
Alignment explanation
Indices: 5294615--5294669 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
5294605 CATAAAGTTT
* *
5294615 TCATCTTTGAAAAGAGAATTTG
1 TCATCTTTGAAAAGAGAATCTA
*
5294637 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
5294659 TCATCTTTGAA
1 TCATCTTTGAA
5294670 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:5295163 original size:54 final size:53
Alignment explanation
Indices: 5295034--5295184 Score: 148
Period size: 50 Copynumber: 2.9 Consensus size: 53
5295024 ATAATCACTG
* * *
5295034 GTTCATAAAACATTTGACAATACATTCATCTTTTCCTGTGGTTTCTGTCGAGAT
1 GTTCAT-AAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTCGAGAC
* * * *
5295088 G-T-A-AAACACTTGAAAACACATTCATCCTTTCTTGTGGTTTTTGCTC-AGAC
1 GTTCATAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTG-TCGAGAC
* * * *
5295138 GTTCATAAAGCGTTTGACAACACATTCATCATTTTCTGTGGCTTCTG
1 GTTCATAAA-CATTTGACAACACATTCATCCTTTCCTGTGGTTTCTG
5295185 CCAAGATTTC
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
50 38 0.49
51 3 0.04
52 2 0.03
53 4 0.05
54 30 0.39
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (53 bp):
GTTCATAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTCGAGAC
Found at i:5297349 original size:45 final size:45
Alignment explanation
Indices: 5297285--5297375 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
5297275 TTCGATGTAG
5297285 AGCCAGAATTTGTAGATTCGAAGCATTTTCATGCTACTACACTGA
1 AGCCAGAATTTGTAGATTCGAAGCATTTTCATGCTACTACACTGA
5297330 AGCCAGAATTTGTAGATTCGAAGCATTTTCATGCTACTACACTGA
1 AGCCAGAATTTGTAGATTCGAAGCATTTTCATGCTACTACACTGA
5297375 A
1 A
5297376 AAGGGCTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (45 bp):
AGCCAGAATTTGTAGATTCGAAGCATTTTCATGCTACTACACTGA
Found at i:5299481 original size:10 final size:10
Alignment explanation
Indices: 5299468--5299505 Score: 76
Period size: 10 Copynumber: 3.8 Consensus size: 10
5299458 ATTTTCCTTC
5299468 TTTTTTTTTA
1 TTTTTTTTTA
5299478 TTTTTTTTTA
1 TTTTTTTTTA
5299488 TTTTTTTTTA
1 TTTTTTTTTA
5299498 TTTTTTTT
1 TTTTTTTT
5299506 CTTTCTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:5299813 original size:2 final size:2
Alignment explanation
Indices: 5299806--5299860 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
5299796 ATAATAAAGG
5299806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5299848 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
5299861 AGGATAATGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5303473 original size:72 final size:72
Alignment explanation
Indices: 5303353--5303497 Score: 263
Period size: 72 Copynumber: 2.0 Consensus size: 72
5303343 TTCATAAAAA
*
5303353 TCTCCACTACTATGAATGTCCCGACTGATACTTTTACCATAGACTGCTTTTGGTATCAATCTGGC
1 TCTCCACTACTATGAATGTCCCGACTGATACTCTTACCATAGACTGCTTTTGGTATCAATCTGGC
5303418 AGAATCT
66 AGAATCT
* *
5303425 TCTCCACTACTCTGAATGTCCCGACTGATACTCTTACCATAGATTGCTTTTGGTATCAATCTGGC
1 TCTCCACTACTATGAATGTCCCGACTGATACTCTTACCATAGACTGCTTTTGGTATCAATCTGGC
5303490 AGAATCT
66 AGAATCT
5303497 T
1 T
5303498 TATGGATTAC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (72 bp):
TCTCCACTACTATGAATGTCCCGACTGATACTCTTACCATAGACTGCTTTTGGTATCAATCTGGC
AGAATCT
Found at i:5305122 original size:20 final size:21
Alignment explanation
Indices: 5305089--5305129 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
5305079 ACTATTATAT
5305089 ATATTTATGAATAT-ATAAAA
1 ATATTTATGAATATAATAAAA
**
5305109 ATATTTATTCATATAATAAAA
1 ATATTTATGAATATAATAAAA
5305130 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATATTTATGAATATAATAAAA
Found at i:5306061 original size:27 final size:27
Alignment explanation
Indices: 5306031--5306106 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 27
5306021 GTATATTTTT
*
5306031 TTCTCTGTTTTTTTTTTTCTCTCTGTG
1 TTCTCTGTTTTTTTTTTTCTCTCTCTG
* *
5306058 TTCTCTGTCTCCTCTTTTTTTCTGTCTCTG
1 TTCTCTGT-T--TTTTTTTTTCTCTCTCTG
*
5306088 -TCTCCGGTTTTTTTTTTTC
1 TTCT-CTGTTTTTTTTTTTC
5306107 AGGTTGGGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
27 17 0.43
28 1 0.03
29 4 0.10
30 18 0.45
ACGTcount: A:0.00, C:0.24, G:0.11, T:0.66
Consensus pattern (27 bp):
TTCTCTGTTTTTTTTTTTCTCTCTCTG
Found at i:5306552 original size:3 final size:3
Alignment explanation
Indices: 5306544--5306596 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
5306534 AATATATATT
*
5306544 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5306592 TAA TA
1 TAA TA
5306597 TGGGTAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5309582 original size:206 final size:206
Alignment explanation
Indices: 5309220--5309636 Score: 818
Period size: 206 Copynumber: 2.0 Consensus size: 206
5309210 ATTCATGGGG
5309220 TTTAATCATGCTGTGGAACTTTAGTAATATATTAAGATTTAGAAAGATTCTACTTTTGATAATAT
1 TTTAATCATGCTGTGGAACTTTAGTAATATATTAAGATTTAGAAAGATTCTACTTTTGATAATAT
5309285 AGTAAAAAATGAACCCTCACAAACAGATTGAGAGTATCCAGAGATCACCAAACTACAACAAATCC
66 AGTAAAAAATGAACCCTCACAAACAGATTGAGAGTATCCAGAGATCACCAAACTACAACAAATCC
5309350 AAAACGTTTACAAGATCTGGAAAAGCTCTAAATGAAGACTACCAACAAACTTTGAACCGAGAAGA
131 AAAACGTTTACAAGATCTGGAAAAGCTCTAAATGAAGACTACCAACAAACTTTGAACCGAGAAGA
5309415 GATTCTATGGC
196 GATTCTATGGC
5309426 TTTAATCATGCTGTGGAACTTTAGTAATATATTAAGATTTAGAAAGATTCTACTTTTGATAATAT
1 TTTAATCATGCTGTGGAACTTTAGTAATATATTAAGATTTAGAAAGATTCTACTTTTGATAATAT
5309491 AGTAAAAAATGAACCCTCACAAACAGATTGAGAGTATCCAGAGATCACCAAACTACAACAAATCC
66 AGTAAAAAATGAACCCTCACAAACAGATTGAGAGTATCCAGAGATCACCAAACTACAACAAATCC
5309556 -AAACGTTTACAAGATCTGGAAAAAGCTCTAAATGAAGACTACCAACAAACTTTGAACCGAGAAG
131 AAAACGTTTACAAGATCTGG-AAAAGCTCTAAATGAAGACTACCAACAAACTTTGAACCGAGAAG
5309620 AGATTCTATGGC
195 AGATTCTATGGC
5309632 TTTAA
1 TTTAA
5309637 AAATCGAGAA
Statistics
Matches: 210, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
205 19 0.09
206 191 0.91
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (206 bp):
TTTAATCATGCTGTGGAACTTTAGTAATATATTAAGATTTAGAAAGATTCTACTTTTGATAATAT
AGTAAAAAATGAACCCTCACAAACAGATTGAGAGTATCCAGAGATCACCAAACTACAACAAATCC
AAAACGTTTACAAGATCTGGAAAAGCTCTAAATGAAGACTACCAACAAACTTTGAACCGAGAAGA
GATTCTATGGC
Found at i:5311952 original size:17 final size:17
Alignment explanation
Indices: 5311930--5311965 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5311920 TATTCATTCG
5311930 AGCTTTCCATGACATTT
1 AGCTTTCCATGACATTT
5311947 AGCTTTCCATGACATTT
1 AGCTTTCCATGACATTT
5311964 AG
1 AG
5311966 ATAAGCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (17 bp):
AGCTTTCCATGACATTT
Found at i:5318177 original size:17 final size:16
Alignment explanation
Indices: 5318152--5318187 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
5318142 TTAGAAATTA
*
5318152 TTTTAAATAATTATAT
1 TTTTAAATAATAATAT
5318168 TTTTATAATAATAATAT
1 TTTTA-AATAATAATAT
5318185 TTT
1 TTT
5318188 CATCTCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAAATAATAATAT
Found at i:5318226 original size:26 final size:27
Alignment explanation
Indices: 5318172--5318239 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
5318162 TTATATTTTT
* *
5318172 ATAATAATAATATTTTCATCTCATAAA
1 ATAATAATAATATTTTCAACTAATAAA
* *
5318199 ATAATAA-AATATTTTTAACTAATTAA
1 ATAATAATAATATTTTCAACTAATAAA
* *
5318225 AT-TTATTAATATTTT
1 ATAATAATAATATTTT
5318240 ATTAAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 2 0.06
26 25 0.74
27 7 0.21
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (27 bp):
ATAATAATAATATTTTCAACTAATAAA
Found at i:5319396 original size:21 final size:21
Alignment explanation
Indices: 5319371--5319487 Score: 100
Period size: 21 Copynumber: 5.6 Consensus size: 21
5319361 TTTGGAATAA
*
5319371 ATCGCAATGCGATAGTCGACT
1 ATCGCATTGCGATAGTCGACT
* * *
5319392 ATCGCAATGCGA-ACTTGGACT
1 ATCGCATTGCGATA-GTCGACT
*
5319413 ATCGCATTGCGAT--T-TACAT
1 ATCGCATTGCGATAGTCGAC-T
* *
5319432 ATTCGCATTGCGATAGTCCAAGT
1 A-TCGCATTGCGATAGT-CGACT
5319455 -TCGCATTGCGATAGTCGACT
1 ATCGCATTGCGATAGTCGACT
5319475 ATCGCATTGCGAT
1 ATCGCATTGCGAT
5319488 TTACATATTC
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.03
19 3 0.04
20 16 0.20
21 55 0.70
22 1 0.01
23 1 0.01
24 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (21 bp):
ATCGCATTGCGATAGTCGACT
Found at i:5319475 original size:62 final size:62
Alignment explanation
Indices: 5319409--5319527 Score: 220
Period size: 62 Copynumber: 1.9 Consensus size: 62
5319399 TGCGAACTTG
5319409 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
* *
5319471 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTTCAAGTTCGCGTTGCGA
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGA
5319528 ATCTGGAAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (62 bp):
GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
Found at i:5319499 original size:41 final size:41
Alignment explanation
Indices: 5319372--5319510 Score: 119
Period size: 41 Copynumber: 3.4 Consensus size: 41
5319362 TTGGAATAAA
* * *
5319372 TCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGGAC-TA-
1 TCGCATTGCGATAGTCGACTATCGCATTGCG-A-TT-TACATAT
* * *
5319414 TCGCATTGCGAT--T-TACATATTCGCATTGCGATAGTCCA-AGT
1 TCGCATTGCGATAGTCGAC-TA-TCGCATTGCGAT-TTACATA-T
5319455 TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
5319496 TCGCATTGCGATAGT
1 TCGCATTGCGATAGT
5319511 TCAAGTTCGC
Statistics
Matches: 78, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
39 5 0.06
40 4 0.05
41 40 0.51
42 24 0.31
43 3 0.04
44 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (41 bp):
TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
Found at i:5319525 original size:21 final size:21
Alignment explanation
Indices: 5319433--5319527 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
5319423 GATTTACATA
*
5319433 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTTCAAG
* *
5319454 TTCGCATTGCGATAG-TCGAC
1 TTCGCATTGCGATAGTTCAAG
5319474 TATCGCATTGCGAT--TTACATA-
1 T-TCGCATTGCGATAGTT-CA-AG
5319495 TTCGCATTGCGATAGTTCAAG
1 TTCGCATTGCGATAGTTCAAG
*
5319516 TTCGCGTTGCGA
1 TTCGCATTGCGA
5319528 ATCTGGAAAC
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
20 17 0.27
21 42 0.68
22 3 0.05
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (21 bp):
TTCGCATTGCGATAGTTCAAG
Found at i:5323269 original size:15 final size:15
Alignment explanation
Indices: 5323249--5323330 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
5323239 TTCCAGAAAA
5323249 TGAATTACTGGAATT
1 TGAATTACTGGAATT
5323264 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
5323279 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
5323294 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
5323309 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
5323323 TGAATTAC
1 TGAATTAC
5323331 ATTTCTGGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:5323283 original size:30 final size:30
Alignment explanation
Indices: 5323249--5323330 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
5323239 TTCCAGAAAA
**
5323249 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
5323279 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
5323309 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
5323331 ATTTCTGGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:5323308 original size:45 final size:44
Alignment explanation
Indices: 5323244--5323330 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
5323234 TGGTTTTCCA
**
5323244 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTG
5323289 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
5323331 ATTTCTGGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTG
Done.