Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007710.1 Hibiscus syriacus cultivar Beakdansim tig00109925_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: 668603
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 3
Found at i:1465 original size:42 final size:41
Alignment explanation
Indices: 1406--1527 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 41
1396 GCCCGACTCG
* * *
1406 CCTATCATCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* *
1447 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCA-TCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * * * *
1489 ACTGTCATCGTTGAAGAAGTCC-CTCCCACCATTCAAGAG
1 CCTATCATC-CTCAAG-AGTCCACTCCCACCGTTCAAGAG
1528 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 9 0.13
42 53 0.79
43 5 0.07
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (41 bp):
CCTATCATCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:1485 original size:21 final size:21
Alignment explanation
Indices: 1461--1527 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1451 TCATTCCTCG
1461 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
1482 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
1503 AGAAGT-CCCTCCCACCATTCA
1 AG-AGTCCCCTCCCACCGTTCA
1524 AGAG
1 AGAG
1528 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2888 original size:13 final size:14
Alignment explanation
Indices: 2863--2897 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2853 ATTGTTTAAT
2863 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
2877 TGATTTGT-AAAGT
1 TGATTTGTAAAAGG
2890 TGATTTGT
1 TGATTTGT
2898 TTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:2906 original size:13 final size:14
Alignment explanation
Indices: 2850--2898 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 14
2840 TGCTTATTTT
*
2850 TTGA-TTGTTTAA-
1 TTGATTTGTTAAAG
*
2862 TTGATTTGTAAAAG
1 TTGATTTGTTAAAG
*
2876 GTGATTTG-TAAAG
1 TTGATTTGTTAAAG
2889 TTGATTTGTT
1 TTGATTTGTT
2899 TAATTGATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.14
13 17 0.59
14 8 0.28
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (14 bp):
TTGATTTGTTAAAG
Found at i:3087 original size:18 final size:17
Alignment explanation
Indices: 3066--3162 Score: 75
Period size: 18 Copynumber: 5.8 Consensus size: 17
3056 CGCGAAATTA
*
3066 ATTCGCGTTGCGATTTTC
1 ATTCGCATTGCGA-TTTC
3084 ATTCGCATTGCGA-TTC
1 ATTCGCATTGCGATTTC
3100 -TCTCG--TTGCGATTTC
1 AT-TCGCATTGCGATTTC
3115 ATTTCGCATTGCGA-TTC
1 A-TTCGCATTGCGATTTC
3132 -TCTCG--TTGCGATTTTC
1 AT-TCGCATTGCGA-TTTC
3148 ATTTCGCATTGCGAT
1 A-TTCGCATTGCGAT
3163 AGTAATTTCC
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
14 12 0.18
15 5 0.08
16 15 0.23
17 7 0.11
18 20 0.31
19 6 0.09
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (17 bp):
ATTCGCATTGCGATTTC
Found at i:3110 original size:14 final size:14
Alignment explanation
Indices: 3091--3144 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
3081 TTCATTCGCA
3091 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
3105 TTGCGATTTCATTTCG
1 TTGCGA-TTC-TCTCG
3121 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
3137 TTGCGATT
1 TTGCGATT
3145 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 14 0.41
15 3 0.09
16 8 0.24
17 3 0.09
18 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:3153 original size:33 final size:33
Alignment explanation
Indices: 3071--3162 Score: 170
Period size: 32 Copynumber: 2.8 Consensus size: 33
3061 AATTAATTCG
3071 CGTTGCGATTTTCA-TTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
3103 CGTTGCGA-TTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
3135 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
3163 AGTAATTTCC
Statistics
Matches: 58, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
31 5 0.09
32 34 0.59
33 19 0.33
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:6914 original size:14 final size:14
Alignment explanation
Indices: 6895--6931 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6885 CATCAATTAA
6895 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
6909 ACAAATCATCTTTT
1 ACAAATCAACATTT
6923 ACAAATCAA
1 ACAAATCAA
6932 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:7326 original size:19 final size:20
Alignment explanation
Indices: 7288--7337 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
7278 CATCATTTGA
*
7288 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGCGAAAATGG
7308 CTATCGCAACGCG-AAATGG
1 CTATCGCAACGCGAAAATGG
*
7327 TTATCGCAACG
1 CTATCGCAACG
7338 AGAATATCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:7403 original size:19 final size:19
Alignment explanation
Indices: 7379--7426 Score: 89
Period size: 18 Copynumber: 2.6 Consensus size: 19
7369 GCGATTTTCG
7379 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7398 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7416 TTGCGATTTTC
1 TTGCGATTTTC
7427 TCGTTGCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:7561 original size:14 final size:13
Alignment explanation
Indices: 7542--7577 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
7532 CATCAATTAA
7542 ACAAATCAACATTT
1 ACAAATCAAC-TTT
*
7556 ACAAATCATCTTT
1 ACAAATCAACTTT
7569 ACAAATCAA
1 ACAAATCAA
7578 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (13 bp):
ACAAATCAACTTT
Found at i:9468 original size:20 final size:19
Alignment explanation
Indices: 9433--9499 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
9423 GAAACTTAAA
*
9433 ATCGCAATGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
9452 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
9472 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
9491 ATCGCAACG
1 ATCGCAACG
9500 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 23 0.57
20 17 0.43
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:9494 original size:19 final size:19
Alignment explanation
Indices: 9414--9531 Score: 86
Period size: 20 Copynumber: 6.4 Consensus size: 19
9404 TAGTTTACTT
* *
9414 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
9434 TCGCAATGCGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
9453 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
9473 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
9492 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
9506 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
9524 TCGCAACG
1 TCGCAACG
9532 ACAAAATCGC
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 12 0.15
19 24 0.30
20 28 0.35
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:9507 original size:14 final size:14
Alignment explanation
Indices: 9488--9545 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
9478 ATGCGAAATG
9488 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
9502 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
9518 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
9534 AAAATCGCAACG
1 AAAATCGCAACG
9546 CGAAACACAA
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:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:9530 original size:32 final size:33
Alignment explanation
Indices: 9472--9550 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
9462 GGAAATGGCT
*
9472 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
9505 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
9537 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
9551 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:9579 original size:19 final size:19
Alignment explanation
Indices: 9557--9620 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
9547 GAAACACAAA
9557 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
9576 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
9592 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
9609 TCGCATTGCGAT
1 TCGCATTGCGAT
9621 AGCCATTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 17 0.46
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:9639 original size:20 final size:19
Alignment explanation
Indices: 9605--9659 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
9595 TTGCGATTTT
*
9605 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
9624 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
9644 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
9660 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:10157 original size:18 final size:18
Alignment explanation
Indices: 10131--10212 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
10121 GTCGAATAGA
*
10131 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
10149 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
*
10167 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
10185 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
10203 TGATGGCTCT
1 TGATGGCTCT
10213 CGAAGTGGAG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.16, C:0.15, G:0.43, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:10172 original size:36 final size:36
Alignment explanation
Indices: 10131--10212 Score: 164
Period size: 36 Copynumber: 2.3 Consensus size: 36
10121 GTCGAATAGA
10131 TGATGGCTCTAGGTGAGGTGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGTGAGGTGATAGCTCTGGGCGAGG
10167 TGATGGCTCTAGGTGAGGTGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGTGAGGTGATAGCTCTGGGCGAGG
10203 TGATGGCTCT
1 TGATGGCTCT
10213 CGAAGTGGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.16, C:0.15, G:0.43, T:0.27
Consensus pattern (36 bp):
TGATGGCTCTAGGTGAGGTGATAGCTCTGGGCGAGG
Found at i:11553 original size:20 final size:19
Alignment explanation
Indices: 11519--11571 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
11509 AATAGTTTCT
11519 GAAAATGAAATCGCAACAC
1 GAAAATGAAATCGCAACAC
* *
11538 GAAAATGACTATCGCAACGC
1 GAAAATGA-AATCGCAACAC
* *
11558 GAAACTAAAATCGC
1 GAAAATGAAATCGC
11572 GTTGCGATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.13
Consensus pattern (19 bp):
GAAAATGAAATCGCAACAC
Found at i:12056 original size:20 final size:20
Alignment explanation
Indices: 12031--12124 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
12021 GATTATGTAT
12031 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
12051 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
12071 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
12092 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
12112 TATCGCATTGCGA
1 TATCGCGTTGCGA
12125 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:12125 original size:20 final size:20
Alignment explanation
Indices: 12011--12125 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
12001 CGCTTTGAAA
*
12011 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
12032 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
12052 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
12072 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
12093 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
12113 ATCGCATTGCGAT
1 ATCGCATTGCGAT
12126 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:12144 original size:41 final size:41
Alignment explanation
Indices: 12053--12187 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
12043 AAAGTCAGTA
* * * ** *
12053 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
12093 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
12135 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
12176 TCGCGTTGCGAT
1 TCGCGTTGCGAT
12188 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:12158 original size:20 final size:20
Alignment explanation
Indices: 12114--12206 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
12104 ATAGTCAGTA
* **
12114 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
12135 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
12155 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
12176 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
12196 TCGCATTGCGA
1 TCGCATTGCGA
12207 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:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:12188 original size:41 final size:41
Alignment explanation
Indices: 12114--12209 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
12104 ATAGTCAGTA
*
12114 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
12155 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
12196 TCGCATTGCGAATT
1 TCGCATTGCGAATT
12210 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:41232 original size:6 final size:6
Alignment explanation
Indices: 41221--41247 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
41211 GGTCGGATCG
41221 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
41248 AATAAGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:41437 original size:41 final size:41
Alignment explanation
Indices: 41343--41423 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
41333 ATTGTAGACT
* *
41343 ATCGCAACGCGATTTTCAAATATCACGACGCGAAATGGAAA
1 ATCGCAATGCGATTTTCAAATATCACAACGCGAAATGGAAA
* *
41384 ATCGCAATGCGATTTTCAACTATCGCAACGCGAAATGGAA
1 ATCGCAATGCGATTTTCAAATATCACAACGCGAAATGGAA
41424 CACGAATTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (41 bp):
ATCGCAATGCGATTTTCAAATATCACAACGCGAAATGGAAA
Found at i:63527 original size:2 final size:2
Alignment explanation
Indices: 63522--63546 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
63512 TATATATGTA
63522 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
63547 ATAAGTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:87091 original size:15 final size:15
Alignment explanation
Indices: 87054--87092 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
87044 CATACCTTTA
87054 AATGATTCAGTGCTG
1 AATGATTCAGTGCTG
*
87069 AATAATTCAGTGCTG
1 AATGATTCAGTGCTG
*
87084 ACTGATTCA
1 AATGATTCA
87093 ATAAAACAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (15 bp):
AATGATTCAGTGCTG
Found at i:99063 original size:19 final size:19
Alignment explanation
Indices: 99027--99062 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
99017 TTTAAAATTA
99027 TTAAAATTATTATATTTTC
1 TTAAAATTATTATATTTTC
*
99046 TTAAATTTATT-TATTTT
1 TTAAAATTATTATATTTT
99063 TGATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTAAAATTATTATATTTTC
Found at i:104338 original size:54 final size:54
Alignment explanation
Indices: 104280--104407 Score: 143
Period size: 54 Copynumber: 2.4 Consensus size: 54
104270 GGAACATAAT
* * *
104280 TGGAAACCAAATTTCTAGAAGGGAATCAAACTCGGCAACTAG-CG-TCATATTTTC
1 TGGAAACCAAATTTCTAGAAAGGAATCAAACTCGGCAACTAGTCGATC-CA-TTAC
* * * * * *
104334 TGGAAATCAAACTTCTAGAAAGGATTCAAATTCGGCATCTAGTGGATCCATTAC
1 TGGAAACCAAATTTCTAGAAAGGAATCAAACTCGGCAACTAGTCGATCCATTAC
104388 TGGAAACCAAATTTCTAGAA
1 TGGAAACCAAATTTCTAGAA
104408 CAAAATCAAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
54 57 0.93
55 2 0.03
56 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (54 bp):
TGGAAACCAAATTTCTAGAAAGGAATCAAACTCGGCAACTAGTCGATCCATTAC
Found at i:107518 original size:48 final size:48
Alignment explanation
Indices: 107442--107573 Score: 174
Period size: 48 Copynumber: 2.8 Consensus size: 48
107432 CCTGGTACTT
*
107442 TAGCACCACCGTCACACAGACATCAGACACGTGCTAAGTACCATATAG
1 TAGCACCACCGTCACACAGACGTCAGACACGTGCTAAGTACCATATAG
* * * **
107490 TAGCACCACCGTCACACATACGTTAGACATGTGCTAAGTTTCATATAG
1 TAGCACCACCGTCACACAGACGTCAGACACGTGCTAAGTACCATATAG
* ** *
107538 TAGCATCATTGTCACATAGACGTCAGACACGTGCTA
1 TAGCACCACCGTCACACAGACGTCAGACACGTGCTA
107574 TAAGTATAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (48 bp):
TAGCACCACCGTCACACAGACGTCAGACACGTGCTAAGTACCATATAG
Found at i:109664 original size:31 final size:31
Alignment explanation
Indices: 109628--109705 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
109618 TAATACAAAA
*
109628 TTACCAATTTACCCTTAAAATTTAAATATCT
1 TTACCAATTTACCCTTAAAATTTAAATATAT
*
109659 TTACCAAATTACCCTTAAAATTTAAATATAT
1 TTACCAATTTACCCTTAAAATTTAAATATAT
109690 TTACCAATTTACCCTT
1 TTACCAATTTACCCTT
109706 TAATTTCATG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (31 bp):
TTACCAATTTACCCTTAAAATTTAAATATAT
Found at i:111616 original size:31 final size:31
Alignment explanation
Indices: 111572--111649 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
111562 TAATACAAAA
* *
111572 TTACCAATTTACCCTTAAAATTTAAATATCT
1 TTACCAAATTACCCTTAAAATTTAAATATAT
*
111603 TTACTAAATTACCCTTAAAATTTAAATATAT
1 TTACCAAATTACCCTTAAAATTTAAATATAT
*
111634 TTACCAATTTACCCTT
1 TTACCAAATTACCCTT
111650 TAATTTCATG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (31 bp):
TTACCAAATTACCCTTAAAATTTAAATATAT
Found at i:127107 original size:13 final size:13
Alignment explanation
Indices: 127089--127115 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
127079 TCTTGCGACA
127089 CGATCCGATAAAT
1 CGATCCGATAAAT
127102 CGATCCGATAAAT
1 CGATCCGATAAAT
127115 C
1 C
127116 AAGCCGAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (13 bp):
CGATCCGATAAAT
Found at i:137737 original size:23 final size:21
Alignment explanation
Indices: 137711--137753 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
137701 GAAAAAATAA
137711 TAATATATTTTAAAATTTTTTAG
1 TAATATATTTT--AATTTTTTAG
*
137734 TAATTTATTTTAATTTTTTA
1 TAATATATTTTAATTTTTTA
137754 TATTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TAATATATTTTAATTTTTTAG
Found at i:137765 original size:21 final size:21
Alignment explanation
Indices: 137724--137763 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
137714 TATATTTTAA
137724 AATTTTTTAGTAATTTATTTT
1 AATTTTTTAGTAATTTATTTT
137745 AATTTTTTA-T-ATTTATTTT
1 AATTTTTTAGTAATTTATTTT
137764 TTTGAACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 1 0.05
21 9 0.47
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (21 bp):
AATTTTTTAGTAATTTATTTT
Found at i:137940 original size:25 final size:25
Alignment explanation
Indices: 137906--137962 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
137896 CGTAATCAAT
137906 CACGTCACTAGCCACCATAGACCAC
1 CACGTCACTAGCCACCATAGACCAC
137931 CACGTCACTAGCCACCATAGACCAC
1 CACGTCACTAGCCACCATAGACCAC
137956 CACGTCA
1 CACGTCA
137963 ACATCATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.32, C:0.44, G:0.12, T:0.12
Consensus pattern (25 bp):
CACGTCACTAGCCACCATAGACCAC
Found at i:139370 original size:3 final size:3
Alignment explanation
Indices: 139362--139431 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
139352 CATTACCAAG
139362 ATA ATA ATA ATA ATA ATA ATA 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
139410 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
139432 AAAGCCCCAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:141607 original size:2 final size:2
Alignment explanation
Indices: 141589--141622 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
141579 ACCCGATCCG
*
141589 AT AT AA AT AT A- 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 AT AT A
141623 ATTTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:143225 original size:22 final size:21
Alignment explanation
Indices: 143189--143248 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 21
143179 ATTATTGTTG
143189 TCCAAATACCCTAAATCTGTAAA
1 TCCAAA-A-CCTAAATCTGTAAA
* *
143212 TCTCAAAACTTAAATCTTTAAA
1 TC-CAAAACCTAAATCTGTAAA
143234 TCCAAAACCTAAATC
1 TCCAAAACCTAAATC
143249 CTTAACCCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 12 0.36
22 14 0.42
23 3 0.09
24 4 0.12
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (21 bp):
TCCAAAACCTAAATCTGTAAA
Found at i:143241 original size:21 final size:22
Alignment explanation
Indices: 143198--143253 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
143188 GTCCAAATAC
*
143198 CCTAAATCTGTAAATCTCAAAA
1 CCTAAATCTTTAAATCTCAAAA
*
143220 CTTAAATCTTTAAATC-CAAAA
1 CCTAAATCTTTAAATCTCAAAA
*
143241 CCTAAATCCTTAA
1 CCTAAATCTTTAA
143254 CCCTAACACT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (22 bp):
CCTAAATCTTTAAATCTCAAAA
Found at i:148060 original size:18 final size:18
Alignment explanation
Indices: 148037--148073 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
148027 ACATGAATAG
*
148037 GGTGATGACAGTTAGCTC
1 GGTGATGACAGTCAGCTC
148055 GGTGATGACAGTCAGCTC
1 GGTGATGACAGTCAGCTC
148073 G
1 G
148074 ATCATGAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (18 bp):
GGTGATGACAGTCAGCTC
Found at i:148080 original size:18 final size:18
Alignment explanation
Indices: 148041--148080 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
148031 GAATAGGGTG
* * *
148041 ATGACAGTTAGCTCGGTG
1 ATGACAGTCAGCTCGATC
148059 ATGACAGTCAGCTCGATC
1 ATGACAGTCAGCTCGATC
148077 ATGA
1 ATGA
148081 AGCAAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (18 bp):
ATGACAGTCAGCTCGATC
Found at i:148164 original size:21 final size:21
Alignment explanation
Indices: 148140--148182 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
148130 AGTGAAGAAG
148140 CTATTCCAGCAGAATCGAGTT
1 CTATTCCAGCAGAATCGAGTT
148161 CTATTCCAGCAGAATCGAGTT
1 CTATTCCAGCAGAATCGAGTT
148182 C
1 C
148183 CACCACTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (21 bp):
CTATTCCAGCAGAATCGAGTT
Found at i:148307 original size:17 final size:17
Alignment explanation
Indices: 148285--148326 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
148275 GTAAGAGTGG
148285 TATTTCAAAACCTAAGA
1 TATTTCAAAACCTAAGA
148302 TATTTCAAAACCTAAGA
1 TATTTCAAAACCTAAGA
148319 TATTTCAA
1 TATTTCAA
148327 GCCACTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (17 bp):
TATTTCAAAACCTAAGA
Found at i:161407 original size:21 final size:21
Alignment explanation
Indices: 161377--161432 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
161367 TGAGTTACAA
*
161377 GCGACGGCCGCAATAGCGTCC
1 GCGACGGCCGCAATAGCGCCC
* *
161398 GCGACAGCCGCAATAGTGCCC
1 GCGACGGCCGCAATAGCGCCC
*
161419 ACGACGGCCGCAAT
1 GCGACGGCCGCAAT
161433 CACGGTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.38, G:0.30, T:0.09
Consensus pattern (21 bp):
GCGACGGCCGCAATAGCGCCC
Found at i:164019 original size:3 final size:3
Alignment explanation
Indices: 164011--164036 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
164001 CAGGAGTGTT
164011 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
164037 GTTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:165084 original size:2 final size:2
Alignment explanation
Indices: 165077--165102 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
165067 ATTTACCACA
165077 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
165103 TCTTGAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:165793 original size:20 final size:20
Alignment explanation
Indices: 165750--165827 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
165740 TTTGGTTCAC
* *
165750 GGAATGTAAGATTATCC-GTA
1 GGAATGAAAGATTA-CCAGTG
*
165770 GGAATGTAAGATTACCAGTG
1 GGAATGAAAGATTACCAGTG
*
165790 GGAATAAAAGATTACCAGTG
1 GGAATGAAAGATTACCAGTG
*
165810 GGAATGAAAGTTTACCAG
1 GGAATGAAAGATTACCAG
165828 GGAATAGGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
19 2 0.04
20 50 0.96
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.24
Consensus pattern (20 bp):
GGAATGAAAGATTACCAGTG
Found at i:181634 original size:66 final size:67
Alignment explanation
Indices: 181507--181637 Score: 167
Period size: 66 Copynumber: 2.0 Consensus size: 67
181497 ATATCCTCTA
* * * * *
181507 TTTTTTCTTAAAAATCATCCTTAATGTTACATTTTATTTCTATCCTATGTTTTGATTATTAAATT
1 TTTTTTCTTAAAAATCATACTTAATATTACATTTTATTTCTATCCTATATCTTGATCATTAAATT
181572 AT
66 AT
* **
181574 TTTTTTCTT-AAAATCATACTTAATATTATATTTTATTTCTATTTTAATATCTT-ATCATTAAAT
1 TTTTTTCTTAAAAATCATACTTAATATTACATTTTATTTCTATCCT-ATATCTTGATCATTAAAT
181637 T
65 T
181638 TGACCATTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
66 41 0.75
67 14 0.25
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (67 bp):
TTTTTTCTTAAAAATCATACTTAATATTACATTTTATTTCTATCCTATATCTTGATCATTAAATT
AT
Found at i:182188 original size:14 final size:14
Alignment explanation
Indices: 182169--182200 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
182159 AATATCCTTT
182169 TACACTGCTATAAA
1 TACACTGCTATAAA
182183 TACACTGCTATAAA
1 TACACTGCTATAAA
182197 TACA
1 TACA
182201 TCCCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (14 bp):
TACACTGCTATAAA
Found at i:195126 original size:23 final size:23
Alignment explanation
Indices: 195100--195147 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
195090 ATAAAGTACA
*
195100 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
195123 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
195146 AT
1 AT
195148 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:195549 original size:21 final size:20
Alignment explanation
Indices: 195519--195572 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
195509 GATAGACACT
*
195519 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
195540 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
195563 TTACATTATA
1 TTACATTATA
195573 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:195560 original size:23 final size:23
Alignment explanation
Indices: 195534--195596 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
195524 ATATAACCAT
195534 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
195557 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
195580 TACCTATTACATCATAT
1 TACCTATTACATTATAT
195597 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:196428 original size:181 final size:183
Alignment explanation
Indices: 195887--196523 Score: 1210
Period size: 181 Copynumber: 3.5 Consensus size: 183
195877 TGATGTAGAC
195887 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATAT
1 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATAT
195952 TACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTTTAAA
66 TACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTTTAAA
196017 TTATATCGACACAATTTTCTTCCAATATGGACATAAAGTACCGACACAATATT
131 TTATATCGACACAATTTTCTTCCAATATGGACATAAAGTACCGACACAATATT
*
196070 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACTGGTATATTTATACCGGTTATA
1 -AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATA
196135 TTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTTTAA
65 TTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTTTAA
196200 ATTATATCGACACAATTTTCTTCCAATATGGACATAAAGTACCGACACAATATT
130 ATTATATCGACACAATTTTCTTCCAATATGGACATAAAGTACCGACACAATATT
196254 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATA-TT-TACCGGTTATAT
1 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATAT
196317 TACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTTTAAA
66 TACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTTTAAA
196382 TTATATCGACACAATTTTCTTCCAATATGGACATAAAGTACCGACACAATATT
131 TTATATCGACACAATTTTCTTCCAATATGGACATAAAGTACCGACACAATATT
196435 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGG--TATTTATACCGGTTATAT
1 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATAT
**
196498 TACAAAATTATCTATTTTATTATAAT
66 TACAAAATTATCTATTACATTATAAT
196524 ATGTTGAAAG
Statistics
Matches: 447, Mismatches: 4, Indels: 7
0.98 0.01 0.02
Matches are distributed among these distances:
179 2 0.00
180 2 0.00
181 211 0.47
182 2 0.00
183 48 0.11
184 182 0.41
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (183 bp):
AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTATAT
TACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTTTAAA
TTATATCGACACAATTTTCTTCCAATATGGACATAAAGTACCGACACAATATT
Found at i:198277 original size:197 final size:200
Alignment explanation
Indices: 197173--198382 Score: 2126
Period size: 198 Copynumber: 6.1 Consensus size: 200
197163 TTCTATATAA
197173 ACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
1 ACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
*
197238 ACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
66 ACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
* *
197303 C-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAAAAAAA
131 CTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGGAAAAAAA
197366 TATCG
196 TATCG
197371 ACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
1 ACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
197436 ACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGATCGACA
66 ACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
* ***
197500 C-TTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAA
131 CTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGGAAAAAAA
197563 TATCG
196 TATCG
197568 ACACAAACTATA-TAGTGTCGACACATTA-TTAGACTTATTCTCTCATAAAACCGGTATAATTGT
1 ACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
197631 ACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
66 ACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
* ***
197696 CTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAA
131 CTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGGAAAAAAA
197761 TATCG
196 TATCG
*
197766 ACACAAAC--TATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAATCGGTATAATTGT
1 ACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
197829 ACCGGTTAGATT--AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
66 ACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
* ***
197892 CTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAA
131 CTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGGAAAAAAA
197957 TATCG
196 TATCG
197962 ACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
1 ACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
198027 ACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
66 ACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
*
198092 CTTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCT-GGAAAAAAA
131 CTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGGAAAAAAA
198155 TATCG
196 TATCG
198160 ACACAAACTATATTAGTGTCGACACATTA-TTAGACTTATTCTCTCATAAAACCGGTATAATTGT
1 ACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
198224 ACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
66 ACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
* *
198289 CTTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAAAAAAA
131 CTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGG-GAAAAAA
198353 ATATCG
195 ATATCG
*
198359 ACACAAACTATATTAGTATCGACA
1 ACACAAACTATATTAGTGTCGACA
198383 TGACCCTTAA
Statistics
Matches: 984, Mismatches: 16, Indels: 23
0.96 0.02 0.02
Matches are distributed among these distances:
195 71 0.07
196 206 0.21
197 246 0.25
198 326 0.33
199 46 0.05
200 89 0.09
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (200 bp):
ACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
ACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
CTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGGAAAAAAA
TATCG
Found at i:198490 original size:18 final size:18
Alignment explanation
Indices: 198467--198520 Score: 90
Period size: 18 Copynumber: 2.9 Consensus size: 18
198457 ACATAAAAAA
198467 TATAAATCGTATACAAAT
1 TATAAATCGTATACAAAT
198485 TATAAATCGTATACAAAAT
1 TATAAATCGTATAC-AAAT
*
198504 TATAAATCTTATACAAA
1 TATAAATCGTATACAAA
198521 ATTAACTCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 17 0.50
19 17 0.50
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (18 bp):
TATAAATCGTATACAAAT
Found at i:198505 original size:19 final size:19
Alignment explanation
Indices: 198462--198524 Score: 101
Period size: 19 Copynumber: 3.4 Consensus size: 19
198452 TATTCACATA
*
198462 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
198481 -AAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
198499 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
198518 AAAATTA
1 AAAATTA
198525 ACTCGACATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.41
19 24 0.59
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:200355 original size:33 final size:33
Alignment explanation
Indices: 200318--200383 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
200308 CATCTTAATA
*
200318 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
200351 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
200384 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:202520 original size:23 final size:23
Alignment explanation
Indices: 202494--202540 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
202484 TATTTTCAGA
*
202494 GGATAT-TTAGCTTATATTTCATC
1 GGATATGTTA-CTTATATTTAATC
*
202517 GGATATGTTATTTATATTTAATC
1 GGATATGTTACTTATATTTAATC
202540 G
1 G
202541 ATACAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.49
Consensus pattern (23 bp):
GGATATGTTACTTATATTTAATC
Found at i:202733 original size:20 final size:18
Alignment explanation
Indices: 202679--202724 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
202669 TCCGGTATCA
202679 TTTTACCGTTTTATCATT
1 TTTTACCGTTTTATCATT
*
202697 TTGATACCGGTTTTATCATAT
1 TT-TTACC-GTTTTATCAT-T
202718 TTTTACC
1 TTTTACC
202725 TGTTATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 4 0.17
20 14 0.61
21 3 0.13
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (18 bp):
TTTTACCGTTTTATCATT
Found at i:203352 original size:226 final size:224
Alignment explanation
Indices: 202954--203397 Score: 748
Period size: 226 Copynumber: 2.0 Consensus size: 224
202944 TTAAAACTGC
*
202954 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTTATGTTTCCACCTACAATAT
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTCCACCTACAATAT
**
203019 TAATTTAATAATTTAATTTACACAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTATTT
66 TAATTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTT
* *
203084 AGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAGT
131 AGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTC-ACAGTGAAATAAGT
*
203149 ATGGACACTTTTATAAAAATGATATATACT
195 ATGGACACTTTTATAAAAAGGATATATACT
*
203179 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATG-TTTCCACCTACAAT
*
203244 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTG-TTTGATATTTTAT-AAATATTA
64 ATTAATTTAATAATTTAATTTACAC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
203307 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATAA
128 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAA
203372 GTATGGACACTTTTATAAAAAGGATA
193 GTATGGACACTTTTATAAAAAGGATA
203398 GATAATTTAC
Statistics
Matches: 206, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
225 41 0.20
226 100 0.49
227 51 0.25
228 14 0.07
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (224 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTCCACCTACAATAT
TAATTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTT
AGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAGTA
TGGACACTTTTATAAAAAGGATATATACT
Found at i:207387 original size:20 final size:20
Alignment explanation
Indices: 207364--207409 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
207354 TCATACATCC
207364 TAAAATT-ATGATTTAAATTT
1 TAAAATTGATGA-TTAAATTT
*
207384 T-AAATTGATTATTAAATTT
1 TAAAATTGATGATTAAATTT
207403 TCAAAAT
1 T-AAAAT
207410 ACTATAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 14 0.64
20 4 0.18
21 4 0.18
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (20 bp):
TAAAATTGATGATTAAATTT
Found at i:214819 original size:65 final size:65
Alignment explanation
Indices: 214715--214844 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
214705 GCAACATCAG
214715 CTTCTGCTAACTGGTGGTTCAGTTTTTCTAGAGCCTTCATAAAAGCAAAGCAAAGTGTAAGCAAA
1 CTTCTGCTAACTGGTGGTTCAGTTTTTCTAGAGCCTTCATAAAAGCAAAGCAAAGTGTAAGCAAA
214780 CTTCTGCTAACTGGTGGTTCAGTTTTTCTAGAGCCTTCATAAAAGCAAAGCAAAGTGTAAGCAAA
1 CTTCTGCTAACTGGTGGTTCAGTTTTTCTAGAGCCTTCATAAAAGCAAAGCAAAGTGTAAGCAAA
214845 GGCACATATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (65 bp):
CTTCTGCTAACTGGTGGTTCAGTTTTTCTAGAGCCTTCATAAAAGCAAAGCAAAGTGTAAGCAAA
Found at i:216335 original size:28 final size:28
Alignment explanation
Indices: 216295--216431 Score: 238
Period size: 28 Copynumber: 4.9 Consensus size: 28
216285 AAAGGACCAC
*
216295 TATGTCCCGAAGGACCACATAGAACACA
1 TATGTCCCGAAGGACCACGTAGAACACA
*
216323 TATGTCCCGAAGGACCACATAGAACACA
1 TATGTCCCGAAGGACCACGTAGAACACA
*
216351 TATGTCCCGAAGGACCTCGTAGAACACA
1 TATGTCCCGAAGGACCACGTAGAACACA
216379 TATGTCCCGAAGGACCACGTAGAACACA
1 TATGTCCCGAAGGACCACGTAGAACACA
*
216407 TATGTCCCGAAGGACCGCGTAGAAC
1 TATGTCCCGAAGGACCACGTAGAAC
216432 CATCGACTCT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 105 1.00
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.15
Consensus pattern (28 bp):
TATGTCCCGAAGGACCACGTAGAACACA
Found at i:217780 original size:18 final size:19
Alignment explanation
Indices: 217757--217793 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
217747 CTTCATCTCC
*
217757 TCCGA-TCTTCTCCCGCCG
1 TCCGATTCTTCCCCCGCCG
217775 TCCGATTCTTCCCCCGCCG
1 TCCGATTCTTCCCCCGCCG
217794 CCCTTCCCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.05, C:0.51, G:0.16, T:0.27
Consensus pattern (19 bp):
TCCGATTCTTCCCCCGCCG
Found at i:222894 original size:34 final size:32
Alignment explanation
Indices: 222812--222894 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 32
222802 TGATTTCTCA
* *
222812 AAATATATATATTTTAATATTAAAATTTAAAT
1 AAATAGATATCTTTTAATATTAAAATTTAAAT
* *
222844 AGATAGATATCTTTTAATATTCAAATTTAAAT
1 AAATAGATATCTTTTAATATTAAAATTTAAAT
*
222876 AAATAATAGTATCTTTTAA
1 AAAT-AGA-TATCTTTTAA
222895 CCTGAGATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 31 0.72
33 2 0.05
34 10 0.23
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (32 bp):
AAATAGATATCTTTTAATATTAAAATTTAAAT
Found at i:222984 original size:68 final size:67
Alignment explanation
Indices: 222813--223010 Score: 179
Period size: 68 Copynumber: 2.9 Consensus size: 67
222803 GATTTCTCAA
* * *
222813 AATATATATATTTTAATATTAAA-ATTTAAATAG--ATAGATATCTTTTAATATTCAAATTTAAA
1 AATA-ATATCTTTTAAT-TTAAATATTTAAA-AGATATAGATACCTTTTAATATTCAAACTTAAA
*
222875 TAAAT
63 GAAAT
* * * * * *
222880 AATAGTATCTTTTAACCTGAGATATTCAAAAGATATAGATACCTTTTAATATTCAAACTTGAAGA
1 AATAATATCTTTTAA-TTTAAATATTTAAAAGATATAGATACCTTTTAATATTCAAACTTAAAGA
*
222945 GAT
65 AAT
** * *
222948 AATAATATCTTTTAATTTAAATATTTAAAAGAATATA-ATTATATTTCAATATTCAAAATTAAA
1 AATAATATCTTTTAATTTAAATATTTAAAAG-ATATAGA-TACCTTTTAATATTCAAACTTAAA
223011 TAGATAACAA
Statistics
Matches: 104, Mismatches: 21, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
66 14 0.13
67 23 0.22
68 67 0.64
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.41
Consensus pattern (67 bp):
AATAATATCTTTTAATTTAAATATTTAAAAGATATAGATACCTTTTAATATTCAAACTTAAAGAA
AT
Found at i:223016 original size:68 final size:68
Alignment explanation
Indices: 222850--223048 Score: 190
Period size: 68 Copynumber: 2.9 Consensus size: 68
222840 AAATAGATAG
* * * * * *
222850 ATATCTTTTAATATTCAAATTTAAATAAATAATA-GTATCTTTTAACCTGAGATATTCAAAAGAT
1 ATATCTTTTAATATTCAAAATTAAATAGATAATACATATCTTTTAACTTTAAATATTCAAAAGAT
222914 ATA
66 ATA
* * * * *
222917 GATACCTTTTAATATTCAAACTTGAAGAGATAATA-ATATCTTTTAA-TTTAAATATTTAAAAGA
1 -ATATCTTTTAATATTCAAAATTAAATAGATAATACATATCTTTTAACTTTAAATATTCAAAAG-
222980 ATATA
64 ATATA
* * * *
222985 ATTATATTTCAATATTCAAAATTAAATAGATAACAAACATAT-TTTTAATTTTAAATATTCAAAA
1 A-TATCTTTTAATATTCAAAATTAAATAGAT-A-ATACATATCTTTTAACTTTAAATATTCAAAA
223049 AAAAAATTTC
Statistics
Matches: 107, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
67 13 0.12
68 67 0.63
69 1 0.01
70 8 0.07
71 18 0.17
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (68 bp):
ATATCTTTTAATATTCAAAATTAAATAGATAATACATATCTTTTAACTTTAAATATTCAAAAGAT
ATA
Found at i:227744 original size:20 final size:21
Alignment explanation
Indices: 227719--227811 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
227709 TTTTCCCAAT
*
227719 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
227739 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
227760 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
227780 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
227801 TCGCAATGCGA
1 TCGCAATGCGA
227812 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:227764 original size:41 final size:41
Alignment explanation
Indices: 227719--227811 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
227709 TTTTCCCAAT
227719 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
227760 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
227801 TCGCAATGCGA
1 TCGCAATGCGA
227812 TACTTACTAT
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:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:227824 original size:41 final size:41
Alignment explanation
Indices: 227738--227872 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
227728 GAATAAGTAA
** *
227738 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
227779 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
227820 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
* *
227861 TTTGCAACGCGA
1 ATCGCAACGCGA
227873 TACTGACTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 5 0.06
41 73 0.91
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:227825 original size:20 final size:20
Alignment explanation
Indices: 227800--227893 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
227790 AATTGGGAAA
*
227800 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
227820 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
227841 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
227861 TTTGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
227881 TTCGCAACGCGAT
1 ATCGCAACGCGAT
227894 TTACATAATC
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 42 0.70
21 12 0.20
22 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:228107 original size:21 final size:21
Alignment explanation
Indices: 228081--228123 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
228071 CACTCTCTCA
228081 CCCATCTCCGACGAAATCCGT
1 CCCATCTCCGACGAAATCCGT
*
228102 CCCATCTCCGGCGAAATCCGT
1 CCCATCTCCGACGAAATCCGT
228123 C
1 C
228124 TATCTAAATC
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:0.21, C:0.44, G:0.16, T:0.19
Consensus pattern (21 bp):
CCCATCTCCGACGAAATCCGT
Found at i:229680 original size:18 final size:18
Alignment explanation
Indices: 229659--229703 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
229649 TCCACTTCGG
* *
229659 GAGCTATCACCTCGCCCA
1 GAGCTATCACCCCACCCA
229677 GAGCTATCACCCCACCCA
1 GAGCTATCACCCCACCCA
*
229695 GAGCCATCA
1 GAGCTATCA
229704 TCTGATCGAC
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:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCTATCACCCCACCCA
Found at i:230249 original size:14 final size:14
Alignment explanation
Indices: 230230--230287 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
230220 ATGCGAAATG
230230 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
230244 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
230260 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
230276 AAAATCGCAACG
1 AAAATCGCAACG
230288 CGAAATGAAA
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:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:230272 original size:32 final size:33
Alignment explanation
Indices: 230214--230304 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
230204 GGAAATGGCT
*
230214 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
230247 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
230279 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
230305 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:230298 original size:19 final size:19
Alignment explanation
Indices: 230176--230309 Score: 92
Period size: 19 Copynumber: 7.6 Consensus size: 19
230166 TAGTTTACTT
* **
230176 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
230195 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
230215 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
230234 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
230248 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
230266 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
230280 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
230299 TCGCAATGCGA
1 TCGCAACGCGA
230310 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 35 0.38
20 17 0.18
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:230340 original size:14 final size:14
Alignment explanation
Indices: 230321--230378 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
230311 TTGTGTTTCG
*
230321 CGTTGCAATTTTGT
1 CGTTGCGATTTTGT
*
230335 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
230351 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
230367 CGTTGCGATTTT
1 CGTTGCGATTTT
230379 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:230385 original size:33 final size:32
Alignment explanation
Indices: 230316--230394 Score: 131
Period size: 32 Copynumber: 2.4 Consensus size: 32
230306 GCGATTTGTG
*
230316 TTTCGCGTTGCAATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
230348 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
*
230381 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
230395 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:230393 original size:19 final size:19
Alignment explanation
Indices: 230337--230436 Score: 61
Period size: 19 Copynumber: 5.5 Consensus size: 19
230327 AATTTTGTCG
*
230337 TTGCGA-TTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
*
230355 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
230369 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
***
230388 TTGCGATAGCCATTTC-CA
1 TTGCGATTTTCATTTCGCA
** *
230406 CGTTGCGATAGTCATTTCGCG
1 --TTGCGATTTTCATTTCGCA
230427 TTGCGATTTT
1 TTGCGATTTT
230437 AAGTTTCGTG
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
14 6 0.09
15 3 0.05
16 4 0.06
17 4 0.06
18 11 0.17
19 21 0.32
20 15 0.23
21 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:230413 original size:20 final size:19
Alignment explanation
Indices: 230388--230433 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
230378 TCATTTCGCA
230388 TTGCGATAGCCATTTCCACG
1 TTGCGATAGCCATTT-CACG
* *
230408 TTGCGATAGTCATTTCGCG
1 TTGCGATAGCCATTTCACG
230427 TTGCGAT
1 TTGCGAT
230434 TTTAAGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (19 bp):
TTGCGATAGCCATTTCACG
Found at i:232931 original size:24 final size:24
Alignment explanation
Indices: 232904--232957 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
232894 GTATTCGAAA
* *
232904 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
232928 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
232952 TTTGAT
1 TTTGAT
232958 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:233149 original size:12 final size:12
Alignment explanation
Indices: 233132--233156 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
233122 ATATAATCCT
233132 GAAGAAGAAAAA
1 GAAGAAGAAAAA
233144 GAAGAAGAAAAA
1 GAAGAAGAAAAA
233156 G
1 G
233157 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:235373 original size:19 final size:19
Alignment explanation
Indices: 235351--235467 Score: 119
Period size: 19 Copynumber: 6.7 Consensus size: 19
235341 GGAAATTACT
235351 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
235370 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
235384 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
235403 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
235422 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
235436 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
235455 ATCGCAACGCGAA
1 ATCGCAATGCGAA
235468 TTTAATTTCG
Statistics
Matches: 79, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
14 18 0.23
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 49 0.62
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:235410 original size:52 final size:52
Alignment explanation
Indices: 235351--235467 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
235341 GGAAATTACT
*
235351 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAA
*
235403 ATCGCAATGCGAAATGAAAATCGCAACGAGGGAATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAA
*
235455 ATCGCAACGCGAA
1 ATCGCAATGCGAA
235468 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAA
Found at i:235485 original size:19 final size:20
Alignment explanation
Indices: 235463--235505 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
235453 AAATCGCAAC
235463 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
235482 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
235502 GCGA
1 GCGA
235506 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:235490 original size:14 final size:14
Alignment explanation
Indices: 235491--235524 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
235481 TGCGATTTTC
235491 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
235505 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
235519 ATTTTC
1 ATTTTC
235525 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:235667 original size:14 final size:14
Alignment explanation
Indices: 235648--235684 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
235638 CATCAATTAA
235648 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
235662 ACAAATCACCTTTT
1 ACAAATCAACTTTT
235676 ACAAATCAA
1 ACAAATCAA
235685 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:237111 original size:41 final size:42
Alignment explanation
Indices: 237066--237148 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
237056 CGATGACAGT
* *
237066 GGCCTCTTGAACGGT-GGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
237107 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
237149 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 13 0.36
42 23 0.64
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.22
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:239216 original size:19 final size:19
Alignment explanation
Indices: 239086--239207 Score: 128
Period size: 19 Copynumber: 6.6 Consensus size: 19
239076 GTCTTTGGTT
*
239086 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
* *
239105 GATATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
239124 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
239142 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
239157 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
239177 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
239196 GAAATGAAAATC
1 GAAATGAAAATC
239208 ACAATGCGAT
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
14 10 0.12
15 2 0.02
18 2 0.02
19 53 0.62
20 18 0.21
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:239234 original size:19 final size:18
Alignment explanation
Indices: 239212--239278 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 18
239202 AAAATCACAA
*
239212 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-ATTTCGCGT
239231 TGCGATTTTTATTTCGCGT
1 TGCGA-TTTTATTTCGCGT
*
239250 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTT-CGCGT
239270 TGCGATTTT
1 TGCGATTTT
239279 CATTCTCGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.02
19 26 0.62
20 15 0.36
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:239822 original size:20 final size:20
Alignment explanation
Indices: 239797--239848 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
239787 TGCTATGTAA
*
239797 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTAAGT
239817 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGAAAGTAAGT
*
239837 ATCTCGTTGCGA
1 ATCGCGTTGCGA
239849 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTAAGT
Found at i:239875 original size:41 final size:41
Alignment explanation
Indices: 239816--239893 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
239806 CGAAAGTCAG
* * * *
239816 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTAT
1 TATCGCATTACGAAAGTAAGTATCGCATTGCGATTTTGTAT
*
239857 TATCGCATTACGATAGTAAGTATCGCATTGCGATTTT
1 TATCGCATTACGAAAGTAAGTATCGCATTGCGATTTT
239894 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCATTACGAAAGTAAGTATCGCATTGCGATTTTGTAT
Found at i:239908 original size:21 final size:21
Alignment explanation
Indices: 239879--239971 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
239869 ATAGTAAGTA
239879 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
239900 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
239920 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
239941 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
239961 TCGCATTGCGA
1 TCGCATTGCGA
239972 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:239924 original size:41 final size:41
Alignment explanation
Indices: 239879--239971 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
239869 ATAGTAAGTA
239879 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
239920 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
239961 TCGCATTGCGA
1 TCGCATTGCGA
239972 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:243893 original size:18 final size:18
Alignment explanation
Indices: 243870--243904 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
243860 AGGGATTATC
*
243870 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
243888 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
243905 AACTTTCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:246545 original size:28 final size:28
Alignment explanation
Indices: 246513--246568 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
246503 AACAGATCCT
246513 TCAAAAATTAAAGCAACGCAGGAATGGC
1 TCAAAAATTAAAGCAACGCAGGAATGGC
*
246541 TCAAAAATTGAAGCAACGCAGGAATGGC
1 TCAAAAATTAAAGCAACGCAGGAATGGC
246569 AGATGCCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (28 bp):
TCAAAAATTAAAGCAACGCAGGAATGGC
Found at i:256217 original size:27 final size:27
Alignment explanation
Indices: 256187--256249 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
256177 ATGATATTCA
256187 TTGTAGAAAAAACTCTTTCAGCACTTG
1 TTGTAGAAAAAACTCTTTCAGCACTTG
*
256214 TTGTAGAAAAAACTCTTTCATCACTTG
1 TTGTAGAAAAAACTCTTTCAGCACTTG
*
256241 ATGTAGAAA
1 TTGTAGAAA
256250 CTGAGAGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (27 bp):
TTGTAGAAAAAACTCTTTCAGCACTTG
Found at i:260402 original size:19 final size:19
Alignment explanation
Indices: 260378--260414 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
260368 GACTAGAGAA
260378 GGGGTAATACGATTAAAAG
1 GGGGTAATACGATTAAAAG
*
260397 GGGGTAATATGATTAAAA
1 GGGGTAATACGATTAAAA
260415 ACTTACAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.24
Consensus pattern (19 bp):
GGGGTAATACGATTAAAAG
Found at i:260641 original size:22 final size:22
Alignment explanation
Indices: 260593--260641 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
260583 GTGTGAATGT
* *
260593 ACTTCCGTATCAGTGCTAAGGC
1 ACTTCCGTATCAGTACTAAAGC
*
260615 TCTTCCGTA-CTAGTACTAAAGC
1 ACTTCCGTATC-AGTACTAAAGC
260637 ACTTC
1 ACTTC
260642 AGTTATTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (22 bp):
ACTTCCGTATCAGTACTAAAGC
Found at i:273476 original size:26 final size:26
Alignment explanation
Indices: 273439--273490 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
273429 TTTTACTACT
273439 AAGACCAATCAATGTGTTAATGTTTA
1 AAGACCAATCAATGTGTTAATGTTTA
*
273465 AAGACCACTCAATGTGTTAATGTTTA
1 AAGACCAATCAATGTGTTAATGTTTA
273491 TGAGTATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (26 bp):
AAGACCAATCAATGTGTTAATGTTTA
Found at i:283294 original size:23 final size:22
Alignment explanation
Indices: 283251--283294 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
283241 TATCATTTAT
* *
283251 TTATTTATTTTTTATATTATTC
1 TTATTTATTTTCTATAATATTC
*
283273 TTATTATATTTTCTCTAATATT
1 TTATT-TATTTTCTATAATATT
283295 TTACATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATTTATTTTCTATAATATTC
Found at i:295108 original size:105 final size:105
Alignment explanation
Indices: 294746--295505 Score: 1077
Period size: 105 Copynumber: 7.4 Consensus size: 105
294736 TTGTCAACGA
*
294746 CAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* *
294811 TTCACGACGAAGGGACCGCTGGTTCT-AACAATAACTTCC
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCC
** * * *
294850 CAATTTTGGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACTGCAGACAACACAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
294915 TTCACGACGAAGGGACCGCTGGTTGT---CAACAACTTCT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCC
** * *
294952 CAATTTTGGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
295017 TTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCC
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCC
* * *
295057 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCTAGACAACGTAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
295122 TTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCC
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCC
* *
295162 CAATTTTAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
295227 TTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCC
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCC
* * *
295267 CAA-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAAGCAAGTTTAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* * ***
295331 TTCACGACGAAGGGACCGCTGTTTGTCAATGAACCTTTTCC
66 TTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCC
* *
295372 CAATTTCAGAACCAA--T----TT--CA---AAGGATATTGGACTCCAGACACCGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* *
295426 TTCACAACGAAGGGACCGCTGGTTGTCAACAACAACTACC
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCC
* * *
295466 CAATCTCAGAGTTCGATTTCAACTTCAC-GACGAAGGATAT
1 CAATTTCAGAG-CCAATTTCAACTTCACAG-CGAAGGATAT
295506 CATGCTCATG
Statistics
Matches: 591, Mismatches: 47, Indels: 34
0.88 0.07 0.05
Matches are distributed among these distances:
94 15 0.03
95 60 0.10
97 1 0.00
98 2 0.00
100 2 0.00
101 2 0.00
102 99 0.17
103 1 0.00
104 171 0.29
105 221 0.37
106 17 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (105 bp):
CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
TTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCC
Found at i:295487 original size:95 final size:95
Alignment explanation
Indices: 295297--295475 Score: 252
Period size: 95 Copynumber: 1.9 Consensus size: 95
295287 CTTCACAGCG
* * * *
295297 AAGGATATTGGACTCCAGACAAAGCAAGTTTAACTTCACGACGAAGGGACCGCTGTTTGTCAATG
1 AAGGATATTGGACTCCAGACAAAGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATC
*** * *
295362 AACCTTTTCCCAATTTCAGAACCAATTTCA
66 AACAACTACCCAATCTCAGAACCAATTTCA
**
295392 AAGGATATTGGACTCCAGACACCGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAA-C
1 AAGGATATTGGACTCCAGACAAAGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATC
295456 AACAACTACCCAATCTCAGA
66 AACAACTACCCAATCTCAGA
295476 GTTCGATTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
94 15 0.21
95 58 0.79
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (95 bp):
AAGGATATTGGACTCCAGACAAAGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATC
AACAACTACCCAATCTCAGAACCAATTTCA
Found at i:296921 original size:28 final size:29
Alignment explanation
Indices: 296864--296923 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
296854 ATTATTATCA
*
296864 TTATTCTTATTTATCATTTATTTATTATT
1 TTATTCTTATTTATCATTTATTTAATATT
296893 TTATTCTTA-TTAT-ATTT-TCTCTAATATT
1 TTATTCTTATTTATCATTTAT-T-TAATATT
296921 TTA
1 TTA
296924 CACATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 1 0.04
27 5 0.18
28 13 0.46
29 9 0.32
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (29 bp):
TTATTCTTATTTATCATTTATTTAATATT
Found at i:299813 original size:41 final size:41
Alignment explanation
Indices: 299787--299870 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
299777 TCTATATCAT
**
299787 GGTAGGAGTATCGATAAACCCCCATAGGGGTATCAATATTG
1 GGTAGGAGTATCGATAAACCCCCATAGGAATATCAATATTG
*
299828 GGTAGGAGTATCGATAAACCCCCATATGG-GTATCAATATTG
1 GGTAGGAGTATCGATAAACCCCCATA-GGAATATCAATATTG
299869 GG
1 GG
299871 GTTTTTTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 40 0.95
42 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (41 bp):
GGTAGGAGTATCGATAAACCCCCATAGGAATATCAATATTG
Found at i:300045 original size:20 final size:20
Alignment explanation
Indices: 300022--300070 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
300012 CAGTAAGTGG
*
300022 GTATCGATAC-CAAAGGTTTA
1 GTATCGATACTCAAAGG-TCA
*
300042 GTATCGATACTGAAAGGTCA
1 GTATCGATACTCAAAGGTCA
300062 GTATCGATA
1 GTATCGATA
300071 AAAATGAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (20 bp):
GTATCGATACTCAAAGGTCA
Found at i:302405 original size:28 final size:30
Alignment explanation
Indices: 302355--302410 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
302345 CCCAAAACAA
* *
302355 ATAAATTTATAAAAATATTAATTTTATTCT
1 ATAAATATATAAAAATATTAATTATATTCT
*
302385 ATAAATATAT-AAAGTA-TAATTATATT
1 ATAAATATATAAAAATATTAATTATATT
302411 TATTTTCGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 9 0.39
29 5 0.22
30 9 0.39
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (30 bp):
ATAAATATATAAAAATATTAATTATATTCT
Found at i:304456 original size:19 final size:19
Alignment explanation
Indices: 304412--304459 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
304402 ATTATAATGT
* *
304412 TATTTAATA-TATCAAATA
1 TATTTAAAATTATAAAATA
*
304430 TAACTTAAAATTATAAAATA
1 T-ATTTAAAATTATAAAATA
304450 TATTTAAAAT
1 TATTTAAAAT
304460 ATTATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 14 0.58
20 9 0.38
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
TATTTAAAATTATAAAATA
Found at i:306948 original size:14 final size:14
Alignment explanation
Indices: 306929--306962 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
306919 TCATGTAGAG
306929 AAAAATAATAG-ATA
1 AAAAATAAT-GCATA
306943 AAAAATAATGCATA
1 AAAAATAATGCATA
306957 AAAAAT
1 AAAAAT
306963 GTATTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (14 bp):
AAAAATAATGCATA
Found at i:310271 original size:42 final size:42
Alignment explanation
Indices: 310172--310272 Score: 105
Period size: 42 Copynumber: 2.3 Consensus size: 42
310162 CCGCAAAAAG
* *
310172 TAGCGGCGTTTGTGAATAGAAAACGCCGCAAAAGCCTAGTTCTA
1 TAGCGGCGTTT-T-AATAGAAAACGCCGCAAAAGCCAAGCTCTA
* * * *
310216 TAGCGGCATTTTTATTA-AAAACGCTGCAAAATGTCAAGCTCTA
1 TAGCGGC-GTTTTAATAGAAAACGCCGCAAAA-GCCAAGCTCTA
310259 TAGCGGCGTTTTAA
1 TAGCGGCGTTTTAA
310273 AAAAAATGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
42 18 0.38
43 18 0.38
44 8 0.17
45 3 0.06
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (42 bp):
TAGCGGCGTTTTAATAGAAAACGCCGCAAAAGCCAAGCTCTA
Found at i:312282 original size:29 final size:29
Alignment explanation
Indices: 312249--312326 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
312239 TAAATTGATA
* *
312249 TCATTACTTACATCATTTAATTAAAGATG
1 TCATTGCTTACATCATTTAAGTAAAGATG
* *
312278 TCATTGTTTACATCATTTAAGTAATGATG
1 TCATTGCTTACATCATTTAAGTAAAGATG
312307 TCATTGCTTACATCAATTTA
1 TCATTGCTTACATC-ATTTA
312327 GTTAGGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 38 0.88
30 5 0.12
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (29 bp):
TCATTGCTTACATCATTTAAGTAAAGATG
Found at i:317040 original size:29 final size:29
Alignment explanation
Indices: 317005--317086 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
316995 AAACTAAATT
* *
317005 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
317034 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
317063 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
317087 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:318448 original size:19 final size:19
Alignment explanation
Indices: 318424--318461 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
318414 CCACGACGAC
318424 AGGGTTACATGCCATTAAG
1 AGGGTTACATGCCATTAAG
318443 AGGGTTACATGCCATTAAG
1 AGGGTTACATGCCATTAAG
318462 TGTTGTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
AGGGTTACATGCCATTAAG
Found at i:320658 original size:211 final size:210
Alignment explanation
Indices: 320286--320703 Score: 818
Period size: 211 Copynumber: 2.0 Consensus size: 210
320276 ATAACCAATT
320286 ATTAAAACAAAAAACATTATTAATATATACATATATATTACATTAAAATTTATAAATTTAAAAAG
1 ATTAAAACAAAAAACATTATTAATATATACATATATATTACATTAAAATTTATAAATTTAAAAAG
320351 TTTGTTCTATAAATGTTGCTCCAAATACTTTTTAATTGCAATGTTAGTTTTCACGTAGTATTTGA
66 TTTGTTCTATAAATGTTGCTCCAAATACTTTTTAATTGCAATGTTAGTTTTCACGTAGTATTTGA
320416 AAAAGGAGATAAAAGAATCAATTTAATATGAAATCCTATAAGTGGAGTTTCTTGAAATAATAGAG
131 AAAAGGAGATAAAAGAATCAATTTAATATGAAATCCTATAAGTGGAGTTTCTTGAAATAATAGAG
320481 AATATAATATTTATA
196 AATATAATATTTATA
320496 ATTAAAACAAAAAAACATTATTAATATATACATATATATTACATTAAAATTTATAAATTTAAAAA
1 ATTAAAAC-AAAAAACATTATTAATATATACATATATATTACATTAAAATTTATAAATTTAAAAA
320561 GTTTGTTCTATAAATGTTGCTCCAAATACTTTTTAATTGCAATGTTAGTTTTCACGTAGTATTTG
65 GTTTGTTCTATAAATGTTGCTCCAAATACTTTTTAATTGCAATGTTAGTTTTCACGTAGTATTTG
*
320626 AAAAAGTAGATAAAAGAATCAATTTAATATGAAATCCTATAAGTGGAGTTTCTTGAAATAATAGA
130 AAAAAGGAGATAAAAGAATCAATTTAATATGAAATCCTATAAGTGGAGTTTCTTGAAATAATAGA
320691 GAATATAATATTT
195 GAATATAATATTT
320704 TTAAGATCGA
Statistics
Matches: 206, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
210 8 0.04
211 198 0.96
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (210 bp):
ATTAAAACAAAAAACATTATTAATATATACATATATATTACATTAAAATTTATAAATTTAAAAAG
TTTGTTCTATAAATGTTGCTCCAAATACTTTTTAATTGCAATGTTAGTTTTCACGTAGTATTTGA
AAAAGGAGATAAAAGAATCAATTTAATATGAAATCCTATAAGTGGAGTTTCTTGAAATAATAGAG
AATATAATATTTATA
Found at i:321101 original size:72 final size:72
Alignment explanation
Indices: 321014--321172 Score: 309
Period size: 72 Copynumber: 2.2 Consensus size: 72
321004 CGAATTAGTT
*
321014 CGGTTAATTCGGTTCGGTTATCGAATTAGTTCGGTCGGTTAACGGTTAAGAAAATTTTTAGAATT
1 CGGTTAATTCGGTTCGGTTATCGAATTAGTTCGGTCGGTTAACAGTTAAGAAAATTTTTAGAATT
321079 TGGTTAA
66 TGGTTAA
321086 CGGTTAATTCGGTTCGGTTATCGAATTAGTTCGGTCGGTTAACAGTTAAGAAAATTTTTAGAATT
1 CGGTTAATTCGGTTCGGTTATCGAATTAGTTCGGTCGGTTAACAGTTAAGAAAATTTTTAGAATT
321151 TGGTTAA
66 TGGTTAA
321158 CGGTTAATTCGGTTC
1 CGGTTAATTCGGTTC
321173 AAATTCGGTT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 86 1.00
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.39
Consensus pattern (72 bp):
CGGTTAATTCGGTTCGGTTATCGAATTAGTTCGGTCGGTTAACAGTTAAGAAAATTTTTAGAATT
TGGTTAA
Found at i:323615 original size:64 final size:63
Alignment explanation
Indices: 323522--323677 Score: 165
Period size: 64 Copynumber: 2.4 Consensus size: 63
323512 GTTTTTCAGT
* *
323522 TCAGATCAATATCATATC-AGTTGATTTTTGGACCGGGTCAATATCAAATCAATTAGATTTT-GG
1 TCAGGTCAATATCAGATCGA-TTGA-TTTTGGACCGGGTCAATATCAAATCAATT-GATTTTCGG
*
323585 G
63 A
** * *
323586 TCAGGTCAATATC-GAATCGATTAGATTTTGGGTCGGGTCAATATCGAATCGATTGATTTTCGGA
1 TCAGGTCAATATCAG-ATCGATT-GATTTTGGACCGGGTCAATATCAAATCAATTGATTTTCGGA
**
323650 TTGGGTCAATATCAGATCGATTGATTTT
1 TCAGGTCAATATCAGATCGATTGATTTT
323678 CAGTTTGGGT
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
63 12 0.15
64 62 0.79
65 4 0.05
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (63 bp):
TCAGGTCAATATCAGATCGATTGATTTTGGACCGGGTCAATATCAAATCAATTGATTTTCGGA
Found at i:323654 original size:37 final size:32
Alignment explanation
Indices: 323557--323677 Score: 149
Period size: 32 Copynumber: 3.8 Consensus size: 32
323547 TTTTGGACCG
* *
323557 GGTCAATATCAAATCAATTAGATTTTGGGTCA
1 GGTCAATATCGAATCGATTAGATTTTGGGTCA
*
323589 GGTCAATATCGAATCGATTAGATTTTGGGTCG
1 GGTCAATATCGAATCGATTAGATTTTGGGTCA
* **
323621 GGTCAATATCGAATCGATT-GATTTTCGGATTG
1 GGTCAATATCGAATCGATTAGATTTT-GGGTCA
323653 GGTCAATATC-AGATCGATT-GATTTT
1 GGTCAATATCGA-ATCGATTAGATTTT
323678 CAGTTTGGGT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
31 7 0.09
32 75 0.91
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.36
Consensus pattern (32 bp):
GGTCAATATCGAATCGATTAGATTTTGGGTCA
Done.