Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002923.1 Hibiscus syriacus cultivar Beakdansim tig00006041_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: 190927
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:600 original size:25 final size:25
Alignment explanation
Indices: 566--618 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
556 GCCGCATCTA
566 GTTTTTGTATCGTATTTATATTTTG
1 GTTTTTGTATCGTATTTATATTTTG
591 GTTTTTGTATCGTATTTATATTTTG
1 GTTTTTGTATCGTATTTATATTTTG
616 GTT
1 GTT
619 CGTGTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.15, C:0.04, G:0.17, T:0.64
Consensus pattern (25 bp):
GTTTTTGTATCGTATTTATATTTTG
Found at i:9254 original size:21 final size:21
Alignment explanation
Indices: 9203--9255 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
9193 ATTATTACTA
* *
9203 TCGCAATACGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATG
**
9224 TCGCGTTGCGATTTTCCCAA-G
1 TCGCAATGCGATTTT-CCAATG
9245 TCGCAATGCGA
1 TCGCAATGCGA
9256 ATTTGGAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATG
Found at i:9290 original size:20 final size:20
Alignment explanation
Indices: 9265--9387 Score: 113
Period size: 20 Copynumber: 6.0 Consensus size: 20
9255 AATTTGGAAA
*
9265 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
9285 ATCGCAACGCGATAAT-ATAT
1 ATCGCAACGCGATACTGA-CT
*
9305 AAAATCGCAATGCGATACTGACT
1 ---ATCGCAACGCGATACTGACT
* *
9328 TTCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
9348 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
9368 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
9388 TATGTGATTT
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
19 1 0.01
20 70 0.80
23 15 0.17
24 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:9388 original size:20 final size:20
Alignment explanation
Indices: 9309--9388 Score: 124
Period size: 20 Copynumber: 4.0 Consensus size: 20
9299 ATATATAAAA
*
9309 TCGCAATGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
9329 TCGCAACGCGATACTTACTT
1 TCGCAACGCGATACTGACTT
*
9349 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
*
9369 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
9389 ATGTGATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:9554 original size:14 final size:14
Alignment explanation
Indices: 9535--9564 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9525 TCATTTGACT
*
9535 ATCGCAACGGGAAA
1 ATCGCAACGCGAAA
9549 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
9563 AT
1 AT
9565 GACTATCGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.10
Consensus pattern (14 bp):
ATCGCAACGCGAAA
Found at i:9574 original size:20 final size:20
Alignment explanation
Indices: 9549--9604 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
9539 CAACGGGAAA
9549 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
9569 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACT
*
9589 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
9605 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:9657 original size:19 final size:19
Alignment explanation
Indices: 9642--9687 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
9632 GATTTTCTCG
9642 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
9661 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
9680 TTGCGATT
1 TTGCGATT
9688 CTCTCGTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:11328 original size:21 final size:21
Alignment explanation
Indices: 11302--11362 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
11292 GAACGGTGGG
*
11302 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
**
11323 GGGGACTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
*
11344 GGAGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
11363 CAGGTGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.25, C:0.11, G:0.41, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:11729 original size:20 final size:20
Alignment explanation
Indices: 11704--11742 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11694 GAAGAATAGT
11704 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAC
*
11724 TTACTTTCGCAACGCGAAA
1 TTACTTTCGCAACACGAAA
11743 ATGACTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAC
Found at i:11753 original size:20 final size:20
Alignment explanation
Indices: 11710--11802 Score: 87
Period size: 20 Copynumber: 4.7 Consensus size: 20
11700 TAGTTTACTT
* * * *
11710 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
11730 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* * **
11750 TCGCAATGCGGAAATGGTTA
1 TCGCAACGCGAAAATGACTA
* *
11770 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
*
11790 TCGCAATGCGAAA
1 TCGCAACGCGAAA
11803 TGAAAATCGC
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:11864 original size:19 final size:19
Alignment explanation
Indices: 11842--11905 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
11832 GAAACACAAA
11842 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
11861 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
11877 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
11894 TCGCATTGCGAT
1 TCGCATTGCGAT
11906 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:11912 original size:19 final size:20
Alignment explanation
Indices: 11890--11933 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11880 TTGCGATTTT
*
11890 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTACGATAGC
* *
11909 CATTTCCGCGTTACGATAGT
1 CATTTCCGCATTACGATAGC
11929 CATTT
1 CATTT
11934 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTACGATAGC
Found at i:12508 original size:18 final size:18
Alignment explanation
Indices: 12485--12532 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
12475 CGGGTCGATC
*
12485 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGCTG
*
12503 AGGTGATAGCTCTGGCTG
1 AGGTGATGGCTCTGGCTG
12521 AGGTGATGGCTC
1 AGGTGATGGCTC
12533 CCGAAGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.44, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGCTG
Found at i:13900 original size:20 final size:20
Alignment explanation
Indices: 13852--13908 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
13842 AATAGTTTCT
*
13852 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACAC
*
13872 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACAC
** *
13892 GAATTTGACTATCGCAA
1 GAAAATGACAATCGCAA
13909 TGAGAGAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.16
Consensus pattern (20 bp):
GAAAATGACAATCGCAACAC
Found at i:14195 original size:25 final size:23
Alignment explanation
Indices: 14163--14228 Score: 98
Period size: 22 Copynumber: 2.8 Consensus size: 23
14153 GGAGATAGAT
*
14163 GGATTTCGACGGAGATGAGGAGGAC
1 GGATTTCGTCGGAGATG-GG-GGAC
14188 GGATTTCGTCGGAGAT-GGGGAC
1 GGATTTCGTCGGAGATGGGGGAC
14210 GGATTTCGTCGGAGATGGG
1 GGATTTCGTCGGAGATGGG
14229 TGAGAGAGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
22 20 0.51
23 4 0.10
25 15 0.38
ACGTcount: A:0.21, C:0.12, G:0.45, T:0.21
Consensus pattern (23 bp):
GGATTTCGTCGGAGATGGGGGAC
Found at i:14476 original size:20 final size:20
Alignment explanation
Indices: 14415--14528 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
14405 GATTATGTAT
*
14415 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
14435 AATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
14455 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* * * *
14475 TATCACATTGC-AATTTTGT-AT
1 TATCGCGTTGCGAA---AGTCAG
*
14496 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
14516 TATCGCATTGCGA
1 TATCGCGTTGCGA
14529 TTTTCCAAAT
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
19 4 0.05
20 57 0.77
21 10 0.14
22 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:14514 original size:41 final size:41
Alignment explanation
Indices: 14399--14532 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
14389 TTGAAAATCG
* * * * *
14399 CATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGAATCG
1 CATTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGTATCA
* * *
14440 CGTTGCGAA---AGTAAGTATCGCGTTGCGAAAGTCAGTATCA
1 CATTGC-AATTTTGT-ATTATCGCGTTGCGAAAGTCAGTATCA
* *
14480 CATTGCAATTTTGTATTATCGCGTTGCGATAGTCAGTATCG
1 CATTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGTATCA
*
14521 CATTGCGATTTT
1 CATTGCAATTTT
14533 CCAAATTCGT
Statistics
Matches: 75, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
39 4 0.05
40 28 0.37
41 40 0.53
42 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (41 bp):
CATTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGTATCA
Found at i:14566 original size:20 final size:21
Alignment explanation
Indices: 14518--14569 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
14508 ATAGTCAGTA
*
14518 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
* **
14539 TCGTATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
14559 TCGCATTGCGA
1 TCGCATTGCGA
14570 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:14611 original size:21 final size:22
Alignment explanation
Indices: 14559--14611 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
14549 ATTTACTTAT
*
14559 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGAAAAA
* **
14580 TCGTAACGCGAAATT-GAAAAA
1 TCGCATTGCGAAATTGGAAAAA
14601 TCGCATTGCGA
1 TCGCATTGCGA
14612 TAGTAATAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGAAAAA
Found at i:31036 original size:64 final size:64
Alignment explanation
Indices: 30967--31123 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 64
30957 TTGAAGGTGT
**
30967 ATCGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCA-ATTAGT
1 ATCGATGCACAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-T
31029 GC
63 GC
* * *
31031 ATCGATGCATAAGGCA-TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
* *
31095 ACCGATGCACAAGTAGTGCATCGATGCAT
1 ATCGATGCACAGGTAGTGCATCGATGCAT
31124 ACCTTCAGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.04
64 65 0.82
65 11 0.14
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:31539 original size:29 final size:29
Alignment explanation
Indices: 31506--31609 Score: 183
Period size: 29 Copynumber: 3.6 Consensus size: 29
31496 ATATGAAAAC
31506 ATGACATGAGCTACATGATCACAAGAGAA
1 ATGACATGAGCTACATGATCACAAGAGAA
*
31535 ATGACATGAGCTATATGATCACAAGAGAA
1 ATGACATGAGCTACATGATCACAAGAGAA
*
31564 ATGACATGAACTACATGATCACAAGAGAA
1 ATGACATGAGCTACATGATCACAAGAGAA
31593 ATGACATGAG-TACATGA
1 ATGACATGAGCTACATGA
31610 ACATATGAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
28 7 0.10
29 64 0.90
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.19
Consensus pattern (29 bp):
ATGACATGAGCTACATGATCACAAGAGAA
Found at i:34673 original size:47 final size:48
Alignment explanation
Indices: 34619--34709 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
34609 ATTACATTTA
* * *
34619 AAAAATATTATTATTC-AAAAA-ACTTATTTATTTTATTTTAAAATATT
1 AAAAATATTATT-TTCTAAAAATAATTATTTATTTCATTCTAAAATATT
*
34666 AAAAATATTATTTTCTAAAAATAATTATTTGTTTCATTCTAAAA
1 AAAAATATTATTTTCTAAAAATAATTATTTATTTCATTCTAAAA
34710 AGTTTTCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 3 0.08
47 17 0.45
48 18 0.47
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.47
Consensus pattern (48 bp):
AAAAATATTATTTTCTAAAAATAATTATTTATTTCATTCTAAAATATT
Found at i:34739 original size:24 final size:25
Alignment explanation
Indices: 34713--34800 Score: 83
Period size: 24 Copynumber: 3.6 Consensus size: 25
34703 TCTAAAAAGT
34713 TTTCATTTTTAAAAATGATTATTT-
1 TTTCATTTTTAAAAATGATTATTTA
* *
34737 TTTTA-TTTTAAAAATTATTATTTA
1 TTTCATTTTTAAAAATGATTATTTA
* ** * *
34761 TTTC-CTTCCACAAATGGTTATTTA
1 TTTCATTTTTAAAAATGATTATTTA
*
34785 TTTTATTTTTAAAAAT
1 TTTCATTTTTAAAAAT
34801 AAAATACTAA
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
23 17 0.35
24 24 0.50
25 7 0.15
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (25 bp):
TTTCATTTTTAAAAATGATTATTTA
Found at i:34840 original size:18 final size:18
Alignment explanation
Indices: 34800--34842 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
34790 TTTTTAAAAA
*
34800 TAAAATACTAATTTAATC
1 TAAAATATTAATTTAATC
* *
34818 T-AAATATTAATTTGATT
1 TAAAATATTAATTTAATC
34835 TAAAATAT
1 TAAAATAT
34843 AACAGTCTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (18 bp):
TAAAATATTAATTTAATC
Found at i:35109 original size:60 final size:61
Alignment explanation
Indices: 35045--35226 Score: 194
Period size: 61 Copynumber: 3.0 Consensus size: 61
35035 CAACTAGTCC
* ** *
35045 TTCGACTATAGGATAATGCTTTGTTAAGT-TCATTG-ACTATTAAAAGTTACAAGATGATCA
1 TTCGACTATAGAATAATGCTTTGTTAAGTCTC-CCGAACTATTAAAAGTTACAAAATGATCA
** *
35105 TTCGACTATAGAATGTTGCTTTGTTGAGTCTCCCGAACTATTAAAAGTTACAAAATGATCA
1 TTCGACTATAGAATAATGCTTTGTTAAGTCTCCCGAACTATTAAAAGTTACAAAATGATCA
** * * *
35166 TTCGACTATA-AAGTGTTGTTTTGTTGAGTC-CTCCG-ACTATTAAAAGTTACAAAATGGTCA
1 TTCGACTATAGAA-TAATGCTTTGTTAAGTCTC-CCGAACTATTAAAAGTTACAAAATGATCA
35226 T
1 T
35227 CCGTCTATTA
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
60 54 0.50
61 55 0.50
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (61 bp):
TTCGACTATAGAATAATGCTTTGTTAAGTCTCCCGAACTATTAAAAGTTACAAAATGATCA
Found at i:35113 original size:29 final size:29
Alignment explanation
Indices: 35074--35174 Score: 73
Period size: 29 Copynumber: 3.4 Consensus size: 29
35064 TTTGTTAAGT
35074 TCATT-GACTATTAAAAGTTACAAGATGA
1 TCATTCGACTATTAAAAGTTACAAGATGA
* * ** *
35102 TCATTCGACTA-TAGAATGTTGCTTTGTTGA
1 TCATTCGACTATTA-AAAGTTAC-AAGATGA
* *
35132 GTC-TCCCGAACTATTAAAAGTTACAAAATGA
1 -TCAT-TCG-ACTATTAAAAGTTACAAGATGA
35163 TCATTCGACTAT
1 TCATTCGACTAT
35175 AAAGTGTTGT
Statistics
Matches: 52, Mismatches: 13, Indels: 15
0.65 0.16 0.19
Matches are distributed among these distances:
28 7 0.13
29 16 0.31
30 9 0.17
31 8 0.15
32 10 0.19
33 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (29 bp):
TCATTCGACTATTAAAAGTTACAAGATGA
Found at i:35163 original size:61 final size:60
Alignment explanation
Indices: 35079--35226 Score: 228
Period size: 61 Copynumber: 2.5 Consensus size: 60
35069 TAAGTTCATT
*
35079 GACTATTAAAAGTTACAAGATGATCATTCGACTATAGAA-TGTTGCTTTGTTGAGT-CTCCC
1 GACTATTAAAAGTTACAAAATGATCATTCGACTATA-AAGTGTTGCTTTGTTGAGTCCT-CC
*
35139 GAACTATTAAAAGTTACAAAATGATCATTCGACTATAAAGTGTTGTTTTGTTGAGTCCTCC
1 G-ACTATTAAAAGTTACAAAATGATCATTCGACTATAAAGTGTTGCTTTGTTGAGTCCTCC
*
35200 GACTATTAAAAGTTACAAAATGGTCAT
1 GACTATTAAAAGTTACAAAATGATCAT
35227 CCGTCTATTA
Statistics
Matches: 82, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
60 28 0.34
61 52 0.63
62 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (60 bp):
GACTATTAAAAGTTACAAAATGATCATTCGACTATAAAGTGTTGCTTTGTTGAGTCCTCC
Found at i:42401 original size:31 final size:31
Alignment explanation
Indices: 42363--42422 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
42353 TTTACTGATT
*
42363 TACCTCAAAAGATTACTGGTAGCTCTACTTG
1 TACCTCAAAAGATTACCGGTAGCTCTACTTG
*
42394 TACCTCAAAAGGTTACCGGTAGCTCTACT
1 TACCTCAAAAGATTACCGGTAGCTCTACT
42423 ATGTTTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
TACCTCAAAAGATTACCGGTAGCTCTACTTG
Found at i:42881 original size:60 final size:60
Alignment explanation
Indices: 42775--42890 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
42765 CAGAGGAAGT
***
42775 AGAACCAGAAACTGCACCACAAGATGTTAAACATGAAGATTGTAGCTCACAGAAATTGAC
1 AGAACCAGAAACTGCACCACAAGATGTTAAACATGAAGACAATAGCTCACAGAAATTGAC
* *
42835 AGAACCTGAAACTGCACCACAAGCTGTTAAACATG-AGAACAATAGCTCACAGAAAT
1 AGAACCAGAAACTGCACCACAAGATGTTAAACATGAAG-ACAATAGCTCACAGAAAT
42891 CGGCTGCCAG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 2 0.04
60 48 0.96
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (60 bp):
AGAACCAGAAACTGCACCACAAGATGTTAAACATGAAGACAATAGCTCACAGAAATTGAC
Found at i:48458 original size:20 final size:20
Alignment explanation
Indices: 48435--48472 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48425 TTTCATAACC
48435 ATTTGATAAA-TTTAATAATA
1 ATTTGA-AAATTTTAATAATA
*
48455 ATTTTAAAATTTTAATAA
1 ATTTGAAAATTTTAATAA
48473 CTGAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTTGAAAATTTTAATAATA
Found at i:50055 original size:39 final size:39
Alignment explanation
Indices: 49980--50056 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
49970 AGCCAGTGGC
* * *
49980 AGTAGTAGTAGATGACGATGTTGAGGCGGATACTGAGCA
1 AGTAGCAGTAGATGACGATGTCGAGGCAGATACTGAGCA
* * *
50019 AGTAGCAGTAGATGATGATGTCGAGGCAGTTCCTGAGC
1 AGTAGCAGTAGATGACGATGTCGAGGCAGATACTGAGC
50057 GGGAGGATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.29, C:0.13, G:0.35, T:0.23
Consensus pattern (39 bp):
AGTAGCAGTAGATGACGATGTCGAGGCAGATACTGAGCA
Found at i:53208 original size:25 final size:23
Alignment explanation
Indices: 53158--53209 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
53148 AGAGCTTTGC
* *
53158 AGAGAGTTTTACCTTGAGATTGG
1 AGAGAGTTTTACCGTGAGACTGG
*
53181 AGAGAGTTTTACCGTGAGACTGA
1 AGAGAGTTTTACCGTGAGACTGG
53204 AGAGAG
1 AGAGAG
53210 CTTTGTCGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.27
Consensus pattern (23 bp):
AGAGAGTTTTACCGTGAGACTGG
Found at i:53735 original size:21 final size:21
Alignment explanation
Indices: 53710--53854 Score: 107
Period size: 21 Copynumber: 7.0 Consensus size: 21
53700 CAACTCAGTT
53710 TCCAATTTCGCGTTGCGATAG
1 TCCAATTTCGCGTTGCGATAG
** * **
53731 TCCAAAATCGCATTGCGATTT
1 TCCAATTTCGCGTTGCGATAG
*
53752 TCC-ATTTCGTGTTGCGATAG
1 TCCAATTTCGCGTTGCGATAG
** * **
53772 TCCAAAATCGCATTGCGATTT
1 TCCAATTTCGCGTTGCGATAG
*
53793 TCC-ATTTCGCGTTACGATAG
1 TCCAATTTCGCGTTGCGATAG
** * **
53813 TCCAAAATCGCATTGCGATTT
1 TCCAATTTCGCGTTGCGATAG
*
53834 TTC-ATTTCGCGTTGCGATAG
1 TCCAATTTCGCGTTGCGATAG
53854 T
1 T
53855 GCAAAATCGC
Statistics
Matches: 87, Mismatches: 35, Indels: 5
0.69 0.28 0.04
Matches are distributed among these distances:
20 41 0.47
21 46 0.53
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (21 bp):
TCCAATTTCGCGTTGCGATAG
Found at i:53742 original size:41 final size:41
Alignment explanation
Indices: 53708--53865 Score: 271
Period size: 41 Copynumber: 3.8 Consensus size: 41
53698 CGCAACTCAG
53708 TTTCCAATTTCGCGTTGCGATAGTCCAAAATCGCATTGCGAT
1 TTTCC-ATTTCGCGTTGCGATAGTCCAAAATCGCATTGCGAT
*
53750 TTTCCATTTCGTGTTGCGATAGTCCAAAATCGCATTGCGAT
1 TTTCCATTTCGCGTTGCGATAGTCCAAAATCGCATTGCGAT
*
53791 TTTCCATTTCGCGTTACGATAGTCCAAAATCGCATTGCGAT
1 TTTCCATTTCGCGTTGCGATAGTCCAAAATCGCATTGCGAT
* *
53832 TTTTCATTTCGCGTTGCGATAGTGCAAAATCGCA
1 TTTCCATTTCGCGTTGCGATAGTCCAAAATCGCA
53866 ACGCGACTGG
Statistics
Matches: 110, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 105 0.95
42 5 0.05
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (41 bp):
TTTCCATTTCGCGTTGCGATAGTCCAAAATCGCATTGCGAT
Found at i:54810 original size:29 final size:29
Alignment explanation
Indices: 54749--54845 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
54739 CCCGTTGATC
* *****
54749 GGTGCTATTTTGAGAATTAATTCGGTTTT
1 GGTGCTATTTTGGGAATTAATTCGAAAAA
54778 GGTGCTATTTTGGGAATTAATTCGAAAAA
1 GGTGCTATTTTGGGAATTAATTCGAAAAA
* * **
54807 GGTGCTATATTGGTAATT-ATTTTAAAAA
1 GGTGCTATTTTGGGAATTAATTCGAAAAA
54835 GGGTGCTATTT
1 -GGTGCTATTT
54846 GTGTAAAATG
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 8 0.14
29 48 0.86
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTAATTCGAAAAA
Found at i:57325 original size:21 final size:21
Alignment explanation
Indices: 57253--57394 Score: 137
Period size: 21 Copynumber: 6.9 Consensus size: 21
57243 GCAATGGAAA
* *
57253 ATCGCAATGCAATTTTGGACT
1 ATCGCAACGCGATTTTGGACT
* ** **
57274 ATCACAACGCGA-AATGGAAA
1 ATCGCAACGCGATTTTGGACT
57294 ATCGC-ACGCGATTTTGGACT
1 ATCGCAACGCGATTTTGGACT
** **
57314 ATCGCAACGCGA-AATGGAAA
1 ATCGCAACGCGATTTTGGACT
57334 ATCGCAACGCGATTTTGGACT
1 ATCGCAACGCGATTTTGGACT
* *
57355 ATCGCAACGCGAATTTCGACT
1 ATCGCAACGCGATTTTGGACT
*
57376 ATCGCAACGCGAATTTGGA
1 ATCGCAACGCGATTTTGGA
57395 AATTGAGTTG
Statistics
Matches: 95, Mismatches: 23, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
19 6 0.06
20 33 0.35
21 56 0.59
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (21 bp):
ATCGCAACGCGATTTTGGACT
Found at i:57356 original size:41 final size:41
Alignment explanation
Indices: 57245--57394 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
57235 AAACAAATGC
* * *
57245 AATGGAAAATCGCAATGCAATTTTGGACTATCACAACGCGA
1 AATGGAAAATCGCAACGCGATTTTGGACTATCGCAACGCGA
57286 AATGGAAAATCGC-ACGCGATTTTGGACTATCGCAACGCGA
1 AATGGAAAATCGCAACGCGATTTTGGACTATCGCAACGCGA
57326 AATGGAAAATCGCAACGCGATTTTGGACTATCGCAACGCGA
1 AATGGAAAATCGCAACGCGATTTTGGACTATCGCAACGCGA
* * ** *
57367 ATTTCGACTATCGCAACGCGAATTTGGA
1 A-ATGGAAAATCGCAACGCGATTTTGGA
57395 AATTGAGTTG
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
40 37 0.37
41 41 0.41
42 21 0.21
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (41 bp):
AATGGAAAATCGCAACGCGATTTTGGACTATCGCAACGCGA
Found at i:57453 original size:21 final size:21
Alignment explanation
Indices: 57427--57488 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
57417 CGCGTTGCGA
* *
57427 TATCGCAATGCGAATTTGGAT
1 TATCGCAACGCGAATTTGGAC
57448 TATCGCAACGCGAATTTGGAC
1 TATCGCAACGCGAATTTGGAC
*
57469 TATCGCAACGCAAATTTGGA
1 TATCGCAACGCGAATTTGGA
57489 AACTGAGTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (21 bp):
TATCGCAACGCGAATTTGGAC
Found at i:57539 original size:94 final size:93
Alignment explanation
Indices: 57342--57522 Score: 263
Period size: 94 Copynumber: 1.9 Consensus size: 93
57332 AAATCGCAAC
* *
57342 GCGATTTTGGACTATCGCAACGCGAATTTCGACTATCGCAACGCGAATTTGGAAATTGAGTTGCG
1 GCGATTTTGGACTATCGCAACGCGAATTTCGACTATCGCAACGCAAATTTGGAAACTGAGTTGCG
* *
57407 AATTTAAGATCGCGTTGCGATATCGCAAT
66 AATTGAAGATCGCGTTGCAATATCG-AAT
* * *
57436 GCGAATTTGGATTATCGCAACGCGAATTTGGACTATCGCAACGCAAATTTGGAAACTGAGTTGCG
1 GCGATTTTGGACTATCGCAACGCGAATTTCGACTATCGCAACGCAAATTTGGAAACTGAGTTGCG
* *
57501 AAGTTGGAGTTCGCGTTGCAAT
66 AA-TTGAAGATCGCGTTGCAAT
57523 TTTGTTGGTC
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 62 0.81
95 15 0.19
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (93 bp):
GCGATTTTGGACTATCGCAACGCGAATTTCGACTATCGCAACGCAAATTTGGAAACTGAGTTGCG
AATTGAAGATCGCGTTGCAATATCGAAT
Found at i:64812 original size:15 final size:16
Alignment explanation
Indices: 64780--64821 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
64770 GTTTTAAATG
* *
64780 TTATTTTTAAAAATAA
1 TTATATTTATAAATAA
64796 TTATATTTATAAA-AA
1 TTATATTTATAAATAA
*
64811 TTATAATTATA
1 TTATATTTATA
64822 GTTAATACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATATTTATAAATAA
Found at i:66760 original size:20 final size:20
Alignment explanation
Indices: 66735--66774 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
66725 TTACTCGCAC
66735 ATAGTAAATGGTAACAGACT
1 ATAGTAAATGGTAACAGACT
66755 ATAGTAAATGGTAACAGACT
1 ATAGTAAATGGTAACAGACT
66775 TGAGAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (20 bp):
ATAGTAAATGGTAACAGACT
Found at i:66916 original size:13 final size:14
Alignment explanation
Indices: 66890--66919 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
66880 ATTTTAATTT
66890 TATTTTATTTAAAA
1 TATTTTATTTAAAA
*
66904 TATTTTATTAAAAA
1 TATTTTATTTAAAA
66918 TA
1 TA
66920 AAAAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTTTATTTAAAA
Found at i:73147 original size:139 final size:139
Alignment explanation
Indices: 72949--73219 Score: 434
Period size: 139 Copynumber: 1.9 Consensus size: 139
72939 GAAAAGTTGG
* * *
72949 AAATAAAGGTCATTGATTAGTATCCGAACAAAAACGGAAATAATCAATTAATTTTCAATGTGAAC
1 AAATAAAGGCCATTGATTAGTATCCGAACAAAAACGGAAACAATCAATTAATTTCCAATGTGAAC
* *
73014 TGATTAATAATATCCAAATAAAATCGAAAATAATCTAATACCAACGTGAACTGAAATCATACCAT
66 TAATTAATAATATCCAAATAAAATCGAAAATAATCAAATACCAACGTGAACTGAAATCATACCAT
73079 ATCCGAATA
131 ATCCGAATA
73088 AAATAAAGGCCATTGATTAGTATCCGAACAAAAACGGAAACAATCAATTAATTTCCAATGTGAAC
1 AAATAAAGGCCATTGATTAGTATCCGAACAAAAACGGAAACAATCAATTAATTTCCAATGTGAAC
*** * * * *
73153 TAATTAATAATATTTGAATAAAATCGAAAATAATCAAATAGCAATGTGAATTGAAATCATACTAT
66 TAATTAATAATATCCAAATAAAATCGAAAATAATCAAATACCAACGTGAACTGAAATCATACCAT
73218 AT
131 AT
73220 TAATATTTGA
Statistics
Matches: 120, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
139 120 1.00
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (139 bp):
AAATAAAGGCCATTGATTAGTATCCGAACAAAAACGGAAACAATCAATTAATTTCCAATGTGAAC
TAATTAATAATATCCAAATAAAATCGAAAATAATCAAATACCAACGTGAACTGAAATCATACCAT
ATCCGAATA
Found at i:76378 original size:30 final size:30
Alignment explanation
Indices: 76319--76419 Score: 134
Period size: 29 Copynumber: 3.4 Consensus size: 30
76309 CCCGAAGGAC
* * *
76319 CTATCCAGAGGTAACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
76348 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
76378 CTGTCCAGAGGTCATAAAG-TCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
76407 CTGTCCATAGGTC
1 CTATCCAGAGGTC
76420 CCGAAGAACC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 40 0.61
30 26 0.39
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:76436 original size:59 final size:59
Alignment explanation
Indices: 76322--76436 Score: 131
Period size: 59 Copynumber: 1.9 Consensus size: 59
76312 GAAGGACCTA
* * *
76322 TCCAGAGGTAACAAAGACCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTAACAAAGACCCCGGTAACTATCCAGAGGTCACAAAGAACCTAGGTAACTG
* * * * * * * *
76381 TCCAGAGGTCATAAAGTCCTCGGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAA
1 TCCAGAGGTAACAAAGACCCCGGTAACTATCCAGAGGTCACAAAGAACCTAGGTAA
76437 AATGTCCATA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
59 45 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (59 bp):
TCCAGAGGTAACAAAGACCCCGGTAACTATCCAGAGGTCACAAAGAACCTAGGTAACTG
Found at i:76443 original size:31 final size:31
Alignment explanation
Indices: 76408--76468 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
76398 CCTCGGTAAC
*
76408 TGTCCATAGGTCCCG-AAGAACCTAGGTAAAA
1 TGTCCATAGGTCCCGAAAG-ACATAGGTAAAA
* *
76439 TGTCCATATGTCTCGAAAGACATAGGTAAA
1 TGTCCATAGGTCCCGAAAGACATAGGTAAA
76469 CCCTCGACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (31 bp):
TGTCCATAGGTCCCGAAAGACATAGGTAAAA
Found at i:78958 original size:33 final size:33
Alignment explanation
Indices: 78898--78963 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
78888 CATTTACAAC
*
78898 TCCCTAGTTTTTCAATGGCTAAACTAGAACCAA
1 TCCCTAGCTTTTCAATGGCTAAACTAGAACCAA
* *
78931 TCCCTAGCTTTT-AATAGGCTCAGCTAGAACCAA
1 TCCCTAGCTTTTCAAT-GGCTAAACTAGAACCAA
78964 AACCCATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (33 bp):
TCCCTAGCTTTTCAATGGCTAAACTAGAACCAA
Found at i:79354 original size:20 final size:20
Alignment explanation
Indices: 79326--79365 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
79316 GGCTTGAAAT
*
79326 TACTTTAGAGGTATCGATAC
1 TACTGTAGAGGTATCGATAC
79346 TACTGTAGAGGTATCGATAC
1 TACTGTAGAGGTATCGATAC
79366 CCATTTTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (20 bp):
TACTGTAGAGGTATCGATAC
Found at i:79469 original size:19 final size:20
Alignment explanation
Indices: 79408--79477 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
79398 TACTGTTTAT
* *
79408 TACTGTTCACACAATATCAA
1 TACTATTCATACAATATCAA
79428 TACTATTCATACAATATCAA
1 TACTATTCATACAATATCAA
* *
79448 TACTATTCATGCAGTA-CAA
1 TACTATTCATACAATATCAA
79467 TACTATTCATA
1 TACTATTCATA
79478 AAAACATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 13 0.29
20 32 0.71
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.34
Consensus pattern (20 bp):
TACTATTCATACAATATCAA
Found at i:79910 original size:39 final size:39
Alignment explanation
Indices: 79856--80298 Score: 344
Period size: 39 Copynumber: 11.4 Consensus size: 39
79846 ACATGATTCC
* *
79856 CAAGAAAAT--ATCCAACAATTTATTTTCTTTTACAAAA
1 CAAGAAAATAAATCCAACGATTTATTTCCTTTTACAAAA
* * * *
79893 CAAGAAATTAAATCCAACGATTTATCTCCTCTTATAAAA
1 CAAGAAAATAAATCCAACGATTTATTTCCTTTTACAAAA
* * * ** * *
79932 -TAGAAAAATAAAACCAATG-GGTATTTACTTTTGCAAAAA
1 CAAG-AAAATAAATCCAACGATTTATTTCCTTTTAC-AAAA
* * * * * * *
79971 TAATAAGATAAATTCAATGATTTATTTCATTCTACAAAA
1 CAAGAAAATAAATCCAACGATTTATTTCCTTTTACAAAA
* * *
80010 -AAGGAAAATAAATCTAACGAATAATTTCCTTTTACAAAA
1 CAA-GAAAATAAATCCAACGATTTATTTCCTTTTACAAAA
* *
80049 CAAGAAAATAAATCCAACGATTTATTTTCTTTTACATAA
1 CAAGAAAATAAATCCAACGATTTATTTCCTTTTACAAAA
* * * *
80088 CAGGAAAATAAATCTAACAATTTATTTACTTTTACAAAA
1 CAAGAAAATAAATCCAACGATTTATTTCCTTTTACAAAA
* *
80127 CAAGAAAAATAAATCCAACGATTTCTTT-CTTTCT-CCAAA
1 CAAG-AAAATAAATCCAACGATTTATTTCCTTT-TACAAAA
* * * * *
80166 CAGGAAAACAAATCTAACTATTTATTTCCCTTTTAGAAAA
1 CAAGAAAATAAATCCAACGATTTATTT-CCTTTTACAAAA
** * *
80206 CCGGAAAATAAAATCTACCGATTTATTTCCTTTTAC-AAA
1 CAAGAAAAT-AAATCCAACGATTTATTTCCTTTTACAAAA
* * **
80245 TAGGAAAATAAATCCAAATATTTATTTCCTTTTTACAAAA
1 CAAGAAAATAAATCCAACGATTTATTTCC-TTTTACAAAA
* *
80285 CAGGTAAATAAATC
1 CAAGAAAATAAATC
80299 TGATGATTGA
Statistics
Matches: 318, Mismatches: 72, Indels: 29
0.76 0.17 0.07
Matches are distributed among these distances:
37 8 0.03
38 47 0.15
39 178 0.56
40 69 0.22
41 16 0.05
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.33
Consensus pattern (39 bp):
CAAGAAAATAAATCCAACGATTTATTTCCTTTTACAAAA
Found at i:80206 original size:79 final size:76
Alignment explanation
Indices: 79873--80316 Score: 379
Period size: 78 Copynumber: 5.7 Consensus size: 76
79863 ATATCCAACA
* * * * *
79873 ATTTATTTTCTTTTACAAAACAAGAAATTAAATCCAACGATTTATCTCCTCTTATA-AAATAGAA
1 ATTTATTTCCTTTTACAAAACAAGAAAATAAATCCAACGATTTAT-T--TCTTTTACAAACAGGA
* *
79937 AAATAAAACCAA-T
63 AAATAAATCTAACT
*** * * * * * * * * *
79950 GGGTATTTACTTTTGCAAAAATAATAAGATAAATTCAATGATTTATTTCATTCTACAAAAAAGGA
1 ATTTATTTCCTTTTAC-AAAACAAGAAAATAAATCCAACGATTTATTTC-TTTTAC-AAACAGGA
*
80015 AAATAAATCTAACG
63 AAATAAATCTAACT
* *
80029 AATAATTTCCTTTTACAAAACAAGAAAATAAATCCAACGATTTATTTTCTTTTACATAACAGGAA
1 ATTTATTTCCTTTTACAAAACAAGAAAATAAATCCAACGATTTA-TTTCTTTTACA-AACAGGAA
*
80094 AATAAATCTAACA
64 AATAAATCTAACT
* * *
80107 ATTTATTTACTTTTACAAAACAAGAAAAATAAATCCAACGATTTCTTTCTTTCTCCAAACAGGAA
1 ATTTATTTCCTTTTACAAAACAAG-AAAATAAATCCAACGATTTATTTCTTT-TACAAACAGGAA
*
80172 AACAAATCTAACT
64 AATAAATCTAACT
* ** * * *
80185 ATTTATTTCCCTTTTAGAAAACCGGAAAATAAAATCTACCGATTTATTTCCTTTTACAAATAGGA
1 ATTTATTT-CCTTTTACAAAACAAGAAAAT-AAATCCAACGATTTATTT-CTTTTACAAACAGGA
* *
80250 AAATAAATCCAAAT
63 AAATAAATCTAACT
* * ** * *
80264 ATTTATTTCCTTTTTACAAAACAGGTAAATAAATCTGATGATTGATTTCTTTT
1 ATTTATTTCC-TTTTACAAAACAAGAAAATAAATCCAACGATTTATTTCTTTT
80317 TACATAATAG
Statistics
Matches: 297, Mismatches: 57, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
75 2 0.01
76 4 0.01
77 18 0.06
78 162 0.55
79 107 0.36
80 4 0.01
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (76 bp):
ATTTATTTCCTTTTACAAAACAAGAAAATAAATCCAACGATTTATTTCTTTTACAAACAGGAAAA
TAAATCTAACT
Found at i:80427 original size:58 final size:57
Alignment explanation
Indices: 80308--80584 Score: 183
Period size: 58 Copynumber: 4.9 Consensus size: 57
80298 CTGATGATTG
* * * *
80308 ATTTCTTTTTACATAATAGGATCTTTCAAGATT-TCTAAGAAAATAAATTCAACAATTT
1 ATTT-TTTTTACAAAATAGAATCATTCAAGATTCTC-AAGAAAATAAATTCAACAATAT
* * * *
80366 ATTTATTTTTATAAAATAGAATCATTCAAGATTCTCAAGGAAATAAATTCAGCTATAT
1 ATTT-TTTTTACAAAATAGAATCATTCAAGATTCTCAAGAAAATAAATTCAACAATAT
** * * * *
80424 ATTTTCCTTACAAAGTTAGAATTATTCATGATTCTCAAGAAAATCAATT------TAT
1 ATTTTTTTTACAAA-ATAGAATCATTCAAGATTCTCAAGAAAATAAATTCAACAATAT
** * * ** * * *
80476 -TTTTCCTTACAAAGTTAGAACCATTCAAGATTCTCAATTAAATAAATTTAACCATTT
1 ATTTTTTTTACAAA-ATAGAATCATTCAAGATTCTCAAGAAAATAAATTCAACAATAT
** * * * *
80533 ATTTTCCTTACCAAATTAAAATCATTTAAGATTCTCAAGGAAATAAATTCAA
1 ATTTTTTTTA-CAAAATAGAATCATTCAAGATTCTCAAGAAAATAAATTCAA
80585 AATTTTATTT
Statistics
Matches: 179, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
51 42 0.23
52 3 0.02
57 9 0.05
58 119 0.66
59 6 0.03
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (57 bp):
ATTTTTTTTACAAAATAGAATCATTCAAGATTCTCAAGAAAATAAATTCAACAATAT
Found at i:80519 original size:109 final size:109
Alignment explanation
Indices: 80382--80581 Score: 267
Period size: 109 Copynumber: 1.8 Consensus size: 109
80372 TTTTATAAAA
* * * *
80382 TAGAATCATTCAAGATTCTCAAGGAAATAAATTCAGCTATATATTTTCCTTA-CAAAGTTAGAAT
1 TAGAACCATTCAAGATTCTCAAGGAAATAAATTCAACCATATATTTTCCTTACCAAA-TTAAAAT
* * *
80446 TATTCATGATTCTCAAGAAAATCAATTTATTTTTCCTTACAAAGT
65 CATTCAAGATTCTCAAGAAAATAAATTTATTTTTCCTTACAAAGT
** * *
80491 TAGAACCATTCAAGATTCTCAATTAAATAAATTTAACCATTTATTTTCCTTACCAAATTAAAATC
1 TAGAACCATTCAAGATTCTCAAGGAAATAAATTCAACCATATATTTTCCTTACCAAATTAAAATC
* *
80556 ATTTAAGATTCTCAAGGAAATAAATT
66 ATTCAAGATTCTCAAGAAAATAAATT
80582 CAAAATTTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
109 73 0.95
110 4 0.05
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (109 bp):
TAGAACCATTCAAGATTCTCAAGGAAATAAATTCAACCATATATTTTCCTTACCAAATTAAAATC
ATTCAAGATTCTCAAGAAAATAAATTTATTTTTCCTTACAAAGT
Found at i:80524 original size:51 final size:51
Alignment explanation
Indices: 80425--80525 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
80415 CAGCTATATA
** * *
80425 TTTTCCTTACAAAGTTAGAATTATTCATGATTCTCAAGAAAATCAATTTAT
1 TTTTCCTTACAAAGTTAGAACCATTCAAGATTCTCAAGAAAATAAATTTAT
**
80476 TTTTCCTTACAAAGTTAGAACCATTCAAGATTCTCAATTAAATAAATTTA
1 TTTTCCTTACAAAGTTAGAACCATTCAAGATTCTCAAGAAAATAAATTTA
80526 ACCATTTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.40
Consensus pattern (51 bp):
TTTTCCTTACAAAGTTAGAACCATTCAAGATTCTCAAGAAAATAAATTTAT
Found at i:80592 original size:58 final size:58
Alignment explanation
Indices: 80468--80626 Score: 196
Period size: 58 Copynumber: 2.7 Consensus size: 58
80458 TCAAGAAAAT
* * ** *
80468 CAATTTATTTTTCCTTACAAAGTTAGAACCATTCAAGATTCTCAATTAAATAAATTTAA
1 CAATTTA-TTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAAGGAAATAAATTCAA
* *
80527 CCATTTATTTTCCTTACCAAA-TTAAAATCATTTAAGATTCTCAAGGAAATAAATTCAA
1 CAATTTATTTTCCTTA-CAAAGTTAGAATCATTTAAGATTCTCAAGGAAATAAATTCAA
*
80585 -AATTTTATTTTCCTTACAAAGTTAGAATCACTGTAAGATTCT
1 CAA-TTTATTTTCCTTACAAAGTTAGAATCA-TTTAAGATTCT
80627 AATGATAAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
57 5 0.06
58 61 0.71
59 20 0.23
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (58 bp):
CAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAAGGAAATAAATTCAA
Found at i:80845 original size:45 final size:44
Alignment explanation
Indices: 80777--80952 Score: 194
Period size: 45 Copynumber: 4.0 Consensus size: 44
80767 GAATTAATCC
* * *
80777 TTTAA-TTTAGCAATCTAATAATCAAAAGGAACTGACCCTATGAT
1 TTTAATTTTCGCAACCTAATAATCAAAAGGAACTAACCCT-TGAT
* * * *
80821 TTTAATTTTCGCAACCCAATAATCAAAAGGAACTAATCATTAACT
1 TTTAATTTTCGCAACCTAATAATCAAAAGGAACTAACCCTTGA-T
* *
80866 TTTATTTTTCGCAACTTAATAATCAAAAGGAACTAATCCCTTGAT
1 TTTAATTTTCGCAACCTAATAATCAAAAGGAACTAA-CCCTTGAT
* * *
80911 TTTTATTTAT-GCAACCTAGTAATCAAAAGGAACTAATCCTTG
1 TTTAATTT-TCGCAACCTAATAATCAAAAGGAACTAACCCTTG
80953 TTAAGGTTAT
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
44 12 0.11
45 93 0.85
46 5 0.05
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (44 bp):
TTTAATTTTCGCAACCTAATAATCAAAAGGAACTAACCCTTGAT
Found at i:81195 original size:45 final size:45
Alignment explanation
Indices: 81146--81333 Score: 211
Period size: 45 Copynumber: 4.2 Consensus size: 45
81136 TTTTAGTAAT
*
81146 CCAATAATCAAAAGGAACTAATCCTTTGATTTTAAATTTCGCAAC
1 CCAATAATCAAAAGGAACTAATCATTTGATTTTAAATTTCGCAAC
* * *
81191 CCAATAATCAAAAGGAATTAATCATTT-ACTTTTAATTTTCGTAAC
1 CCAATAATCAAAAGGAACTAATCATTTGA-TTTTAAATTTCGCAAC
* * * * *
81236 TCAATAATCAAAAGGAATTGATCCA-TTGATTTTAATTTTTGCAAC
1 CCAATAATCAAAAGGAACTAAT-CATTTGATTTTAAATTTCGCAAC
* * *
81281 CTAGTAATCGAAAGGAACTAATCATTTGATTTT-AATTTCGGCAAC
1 CCAATAATCAAAAGGAACTAATCATTTGATTTTAAATTTC-GCAAC
*
81326 ACAATAAT
1 CCAATAAT
81334 TGAAAGGATT
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
44 7 0.06
45 109 0.92
46 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (45 bp):
CCAATAATCAAAAGGAACTAATCATTTGATTTTAAATTTCGCAAC
Found at i:81265 original size:90 final size:90
Alignment explanation
Indices: 81131--81318 Score: 254
Period size: 90 Copynumber: 2.1 Consensus size: 90
81121 GAATTAATCC
*
81131 TTTAATTTTAGTAATCCAATAATCAAAAGGAACTAATCCTTTGATTTTAAATTTCGCAACCCAAT
1 TTTAATTTTAGTAATCCAATAATCAAAAGGAACTAATCCATTGATTTTAAATTTCGCAACCCAAT
*
81196 AATCAAAAGGAATTAATCATTT-ACT
66 AATCAAAAGGAACTAATCATTTGA-T
* * * * * * *
81221 TTTAATTTTCGTAA-CTCAATAATCAAAAGGAATTGATCCATTGATTTTAATTTTTGCAACCTAG
1 TTTAATTTTAGTAATC-CAATAATCAAAAGGAACTAATCCATTGATTTTAAATTTCGCAACCCAA
*
81285 TAATCGAAAGGAACTAATCATTTGAT
65 TAATCAAAAGGAACTAATCATTTGAT
81311 TTTAATTT
1 TTTAATTT
81319 CGGCAACACA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
89 1 0.01
90 84 0.98
91 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (90 bp):
TTTAATTTTAGTAATCCAATAATCAAAAGGAACTAATCCATTGATTTTAAATTTCGCAACCCAAT
AATCAAAAGGAACTAATCATTTGAT
Found at i:81281 original size:355 final size:352
Alignment explanation
Indices: 80619--81303 Score: 1048
Period size: 355 Copynumber: 1.9 Consensus size: 352
80609 GAATCACTGT
80619 AAGATTCTAATGATAAAATAAATCCAATGATGTATTCTCCCTTTTTTTAAAGTTATATCATCTGT
1 AAGATTCTAATGATAAAATAAATCCAATGATGTATTCTCCCTTTTTTTAAAGTTATATCATCTGT
* * * ** * *
80684 TAAACGACGAGATTAATAACAATAAAATCCAAAACAAATATATCATGGTAATCCGATTTTGTTTA
66 TAAACAACGAGATTAATAACAATAAAACCCAAAACAAATATATCACGACAATCCAATTATGTTTA
* * *
80749 ACAGCCATAAATCAAAAAGAATTAATCCTTTAATTTAGCAATCTAATAATCAAAAGGAACTGACC
131 ACAGCCAGAAATCAAAAAGAATTAATCCTTTAATTTAGCAATCCAATAATCAAAAGGAACTAACC
* *
80814 CTATGATTTTAATTTTCGCAACCCAATAATCAAAAGGAACTAATCATTAACTTTTATTTTTCGCA
196 CTATGATTTTAAATTTCGCAACCCAATAATCAAAAGGAACTAATCATTAACTTTTAATTTTCGCA
* * *
80879 ACTTAATAATCAAAAGGAACTAATCCCTTGATTTTTATTTATGCAACCTAGTAATCAAAAGGAAC
261 ACTCAATAATCAAAAGGAACTAATCCATTGATTTTAATTTATGCAACCTAGTAATCAAAAGGAAC
80944 TAATCCTTGTTAAGGTTATATCACCGC
326 TAATCCTTGTTAAGGTTATATCACCGC
* * *
80971 AAGATTCTAATGATAAAATAAATTCAATGATTTATTCTCCCCTTCTTTTTAAGGTTATATCATCT
1 AAGATTCTAATGATAAAATAAATCCAATGATGTATTCT-CCCTT-TTTTTAAAGTTATATCATCT
* *
81036 GTTAAACAACGAGATTAATAACACTAAAACCCAAAACAGATATATCACGACAA-CTCAATTATGT
64 GTTAAACAACGAGATTAATAACAATAAAACCCAAAACAAATATATCACGACAATC-CAATTATGT
* *
81100 TTAACAGCCAGAAATCAAAAGGAATTAATCCTTTAATTTTAGTAATCCAATAATCAAAAGGAACT
128 TTAACAGCCAGAAATCAAAAAGAATTAATCCTTTAA-TTTAGCAATCCAATAATCAAAAGGAACT
* * * *
81165 AATCCTTTGATTTTAAATTTCGCAACCCAATAATCAAAAGGAATTAATCATTTACTTTTAATTTT
192 AACCCTATGATTTTAAATTTCGCAACCCAATAATCAAAAGGAACTAATCATTAACTTTTAATTTT
* * * * *
81230 CGTAACTCAATAATCAAAAGGAATTGATCCATTGATTTTAATTTTTGCAACCTAGTAATCGAAAG
257 CGCAACTCAATAATCAAAAGGAACTAATCCATTGATTTTAATTTATGCAACCTAGTAATCAAAAG
81295 GAACTAATC
322 GAACTAATC
81304 ATTTGATTTT
Statistics
Matches: 298, Mismatches: 31, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
352 36 0.12
353 6 0.02
354 106 0.36
355 150 0.50
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (352 bp):
AAGATTCTAATGATAAAATAAATCCAATGATGTATTCTCCCTTTTTTTAAAGTTATATCATCTGT
TAAACAACGAGATTAATAACAATAAAACCCAAAACAAATATATCACGACAATCCAATTATGTTTA
ACAGCCAGAAATCAAAAAGAATTAATCCTTTAATTTAGCAATCCAATAATCAAAAGGAACTAACC
CTATGATTTTAAATTTCGCAACCCAATAATCAAAAGGAACTAATCATTAACTTTTAATTTTCGCA
ACTCAATAATCAAAAGGAACTAATCCATTGATTTTAATTTATGCAACCTAGTAATCAAAAGGAAC
TAATCCTTGTTAAGGTTATATCACCGC
Found at i:82871 original size:27 final size:27
Alignment explanation
Indices: 82841--82916 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 27
82831 TTTATAATAA
82841 ACTTATGATAATTAAATTAATA-TGATT
1 ACTTATGATAATTAAATTAATATTG-TT
* * * *
82868 ACTTTTTAAAATTCAAAATAA-ATTGTT
1 ACTTATGATAATT-AAATTAATATTGTT
* *
82895 AGTTATGATAACTAAATTAATA
1 ACTTATGATAATTAAATTAATA
82917 AATTTAGTTT
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
26 6 0.17
27 22 0.61
28 8 0.22
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (27 bp):
ACTTATGATAATTAAATTAATATTGTT
Found at i:82936 original size:21 final size:21
Alignment explanation
Indices: 82910--82964 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 21
82900 TGATAACTAA
*
82910 ATTAATAAATTTAGTTTTTAT
1 ATTAATAAATTTAATTTTTAT
82931 ATTAAT-AA--TAATTTTTAT
1 ATTAATAAATTTAATTTTTAT
82949 ATT-ATAAATTTTAATT
1 ATTAATAAA-TTTAATT
82965 ATAATCATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 2 0.07
18 14 0.48
20 2 0.07
21 11 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTAATAAATTTAATTTTTAT
Found at i:83683 original size:14 final size:14
Alignment explanation
Indices: 83659--83705 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
83649 CGTTCGTGAA
*
83659 CGTTCGGTTATGTT
1 CGTTTGGTTATGTT
*
83673 TGTTTGGTTATGTT
1 CGTTTGGTTATGTT
* *
83687 CGTTCGATTATGTT
1 CGTTTGGTTATGTT
83701 CGTTT
1 CGTTT
83706 ATGTTCATTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.09, C:0.11, G:0.26, T:0.55
Consensus pattern (14 bp):
CGTTTGGTTATGTT
Found at i:83700 original size:24 final size:24
Alignment explanation
Indices: 83673--83725 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
83663 CGGTTATGTT
*
83673 TGTTTGGTTATGTTCGTTCGA-TTA
1 TGTTTGGTTATGTTCATTC-ATTTA
* *
83697 TGTTCGTTTATGTTCATTCATTTA
1 TGTTTGGTTATGTTCATTCATTTA
83721 TGTTT
1 TGTTT
83726 AACACAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.13, C:0.09, G:0.19, T:0.58
Consensus pattern (24 bp):
TGTTTGGTTATGTTCATTCATTTA
Found at i:84464 original size:10 final size:10
Alignment explanation
Indices: 84449--84491 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
84439 GGGTCTCCAA
84449 CGTTTATGTT
1 CGTTTATGTT
84459 CGTTTATGTT
1 CGTTTATGTT
84469 CG----TGTT
1 CGTTTATGTT
84475 CGTTTATGTT
1 CGTTTATGTT
84485 CGTTTAT
1 CGTTTAT
84492 TTATTAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.21
10 23 0.79
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:84476 original size:16 final size:16
Alignment explanation
Indices: 84455--84487 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
84445 CCAACGTTTA
84455 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
84471 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
84487 T
1 T
84488 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:85583 original size:23 final size:23
Alignment explanation
Indices: 85546--85590 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
85536 AAACAAAATT
**
85546 AATAAATTATGAAAATAGAATAC
1 AATAAATTAAAAAAATAGAATAC
*
85569 AATAAATTAAAAAAATTGAATA
1 AATAAATTAAAAAAATAGAATA
85591 TTAAATTCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (23 bp):
AATAAATTAAAAAAATAGAATAC
Found at i:87806 original size:83 final size:83
Alignment explanation
Indices: 87656--87812 Score: 214
Period size: 83 Copynumber: 1.9 Consensus size: 83
87646 GAACAAAAGA
** *
87656 AAAAGAAGAGGAAAGAGAAGAGTCTTGGTTAGAGAAGGGGAATAGAGGATGAATGGTGTTTTAGA
1 AAAAGAAGAGGAAAGAGAAGAGTCTTGGTTAGAGAAGGGGAATAGAGGATGAATAATATTTTAGA
87721 TTTGGGATTATGAGAAAC
66 TTTGGGATTATGAGAAAC
*
87739 AAAAGAAG-GGGAAGATGAAGAGTCTTGGTT-GAAGAAGGGGAA-AGAGGGATGAATAATATTTG
1 AAAAGAAGAGGAAAGA-GAAGAGTCTTGGTTAG-AGAAGGGGAATAGA-GGATGAATAATATTT-
87801 T-GATTTGGGATT
62 TAGATTTGGGATT
87813 TAAGGTTATA
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
82 10 0.15
83 55 0.83
84 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.36, T:0.24
Consensus pattern (83 bp):
AAAAGAAGAGGAAAGAGAAGAGTCTTGGTTAGAGAAGGGGAATAGAGGATGAATAATATTTTAGA
TTTGGGATTATGAGAAAC
Found at i:88241 original size:18 final size:19
Alignment explanation
Indices: 88218--88261 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
88208 AAGGTTGGGT
88218 TTTGACCC-AAAAAAAAGG
1 TTTGACCCAAAAAAAAAGG
88236 TTTGACCCAAAAAAAAAGG
1 TTTGACCCAAAAAAAAAGG
88255 TTTGACC
1 TTTGACC
88262 AAGGTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.20
Consensus pattern (19 bp):
TTTGACCCAAAAAAAAAGG
Found at i:88605 original size:41 final size:40
Alignment explanation
Indices: 88529--88616 Score: 97
Period size: 41 Copynumber: 2.2 Consensus size: 40
88519 GCGATCGATA
* * *
88529 ATTCGCAACGCGATCTCCGGTATCGCAAATCAGTTTCCAG
1 ATTCGCAACGCGAACTCCGCTATCGCAAATCAGTTTACAG
* * *
88569 ATTCGCAACGCGAACTTCGACTATCGC-ATTGCAGTTTACAT
1 ATTCGCAACGCGAACTCCG-CTATCGCAAAT-CAGTTTACAG
88610 ATTCGCA
1 ATTCGCA
88617 TTGCGATAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 19 0.47
41 21 0.52
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (40 bp):
ATTCGCAACGCGAACTCCGCTATCGCAAATCAGTTTACAG
Found at i:88641 original size:21 final size:20
Alignment explanation
Indices: 88617--88879 Score: 153
Period size: 21 Copynumber: 12.7 Consensus size: 20
88607 CATATTCGCA
88617 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTT-GCG
** ** **
88638 TTGCGAATA-TGGAAACTGAT
1 TTGCG-ATAGTCCAAGTTGCG
*
88658 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTT-GCG
* *
88679 TTGCGATTTATTCCAAATT-CG
1 TTGCGA--TAGTCCAAGTTGCG
*
88700 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTT-GCG
* *
88721 TTGCGATTTATTCCAAATT-CG
1 TTGCGA--TAGTCCAAGTTGCG
* *
88742 TTACGATTTATTCCAAGTT-CG
1 TTGCGA--TAGTCCAAGTTGCG
**
88763 TTGCGATAGTTGAAGTTCGCG
1 TTGCGATAGTCCAAGTT-GCG
* *
88784 TTGCGATTTATTCCAAATT-CG
1 TTGCGA--TAGTCCAAGTTGCG
88805 TTGCGATAGTCCAAGTT-CG
1 TTGCGATAGTCCAAGTTGCG
*
88824 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTT-GCG
*
88845 TTGCGATTTATTCCAAGTT-CG
1 TTGCGA--TAGTCCAAGTTGCG
88866 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
88880 AATCGCAATG
Statistics
Matches: 189, Mismatches: 36, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
19 53 0.28
20 11 0.06
21 90 0.48
22 3 0.02
23 32 0.17
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCCAAGTTGCG
Found at i:88714 original size:42 final size:42
Alignment explanation
Indices: 88658--88876 Score: 222
Period size: 42 Copynumber: 5.3 Consensus size: 42
88648 GGAAACTGAT
*
88658 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
88700 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* * * *
88742 TTACGATTTATTCCAAGTT--CGTTGCGA--TAGTT-GAAGTTCGCG
1 TTGCGA--TAGTCGAAGTTCGCGTTGCGATTTA-TTCCAAGTT--CG
* * * *
88784 TTGCGATTTATTCCAAATT--CGTTGCGA--TAGTCCAAGTTCG
1 TTGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
88824 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
88866 TTGCGATAGTC
1 TTGCGATAGTC
88877 CAAAATCGCA
Statistics
Matches: 154, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
38 8 0.05
40 22 0.14
41 3 0.02
42 112 0.73
44 9 0.06
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:88749 original size:63 final size:63
Alignment explanation
Indices: 88677--88872 Score: 333
Period size: 63 Copynumber: 3.1 Consensus size: 63
88667 TCGAAGTTCG
*
88677 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* *
88740 CGTTACGATTTATTCCAAGTTCGTTGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* *
88803 CGTTGCGA--TAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
88864 CGTTGCGAT
1 CGTTGCGAT
88873 AGTCCAAAAT
Statistics
Matches: 125, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
61 58 0.46
63 67 0.54
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (63 bp):
CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:88847 original size:61 final size:61
Alignment explanation
Indices: 88690--88879 Score: 317
Period size: 61 Copynumber: 3.1 Consensus size: 61
88680 TGCGATTTAT
* * *
88690 TCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTACGATTTAT
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGA--TAG
*
88753 TCCAAGTTCGTTGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
*
88814 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
88875 TCCAA
1 TCCAA
88880 AATCGCAATG
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
61 66 0.55
63 55 0.45
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (61 bp):
TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
Found at i:88987 original size:21 final size:21
Alignment explanation
Indices: 88914--88988 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
88904 GGATTACATA
* *
88914 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCGAAG
* *
88935 TTCGCGTTGCGAATA-TGGAAA
1 TTCGCGTTGCG-ATAGTCGAAG
* **
88956 CT-GATTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
88976 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
88989 TTATTACAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
19 3 0.08
20 11 0.28
21 22 0.56
22 3 0.08
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:89784 original size:6 final size:6
Alignment explanation
Indices: 89763--89799 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
89753 TCTCGTCTCG
*
89763 GGTCG- GGTCG- GGTCGT GGTCGT GGTAGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
89800 AATACGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.03, C:0.14, G:0.54, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:89921 original size:21 final size:20
Alignment explanation
Indices: 89889--90018 Score: 104
Period size: 19 Copynumber: 6.3 Consensus size: 20
89879 CGTTGCGATT
*
89889 TTGGACTATCGCAA-CGAAC
1 TTGGAATATCGCAAGCGAAC
89908 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA-GCGAAC
* *
89931 TTCGACTATCGCAA-CGAAC
1 TTGGAATATCGCAAGCGAAC
* * *
89950 TTGGACTACCGCAACGCGAAT
1 TTGGAATATCGCAA-GCGAAC
89971 TTGGAATAAATCGCAATGCGAAC
1 TTGGAAT--ATCGCAA-GCGAAC
* *
89994 TTGGACTATCGCAA-CGAAT
1 TTGGAATATCGCAAGCGAAC
90013 TTGGAA
1 TTGGAA
90019 AATCTCATTG
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
19 32 0.36
21 31 0.34
23 27 0.30
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (20 bp):
TTGGAATATCGCAAGCGAAC
Found at i:89984 original size:42 final size:40
Alignment explanation
Indices: 89883--90018 Score: 141
Period size: 42 Copynumber: 3.3 Consensus size: 40
89873 ATCAGTCGTT
* * *
89883 GCGATTTTGGACTATCGCAACGAACTTGGAATAAATCGCAAC
1 GCGAATTTGGAATATCGCAACGAACTTGGACT--ATCGCAAC
* * * *
89925 GCGAACTTCGACTATCGCAACGAACTTGGACTACCGCAAC
1 GCGAATTTGGAATATCGCAACGAACTTGGACTATCGCAAC
89965 GCGAATTTGGAATAAATCGCAATGCGAACTTGGACTATCGCAA-
1 GCGAATTTGGAAT--ATCGCAA--CGAACTTGGACTATCGCAAC
90008 -CGAATTTGGAA
1 GCGAATTTGGAA
90019 AATCTCATTG
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
40 17 0.21
42 46 0.57
44 18 0.22
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (40 bp):
GCGAATTTGGAATATCGCAACGAACTTGGACTATCGCAAC
Found at i:89986 original size:63 final size:61
Alignment explanation
Indices: 89889--90017 Score: 195
Period size: 63 Copynumber: 2.1 Consensus size: 61
89879 CGTTGCGATT
*
89889 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
1 TTGGACTACCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
* * * *
89950 TTGGACTACCGCAACGCGAATTTGGAATAAATCGCAATGCGAACTTGGACTATCGCAACGAAT
1 TTGGACTACCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
90013 TTGGA
1 TTGGA
90018 AAATCTCATT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 13 0.21
63 48 0.79
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (61 bp):
TTGGACTACCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
Found at i:90406 original size:29 final size:30
Alignment explanation
Indices: 90365--90426 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
90355 GATCCTACGA
*
90365 ATTTTATAATTTACTACTTA-ATAC-TTAT
1 ATTTTATAATTTAATACTTATATACTTTAT
*
90393 ATTTATATACTTTAATACTTATATACTTTAT
1 ATTT-TATAATTTAATACTTATATACTTTAT
90424 ATT
1 ATT
90427 ATACTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 14 0.48
30 4 0.14
31 7 0.24
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (30 bp):
ATTTTATAATTTAATACTTATATACTTTAT
Found at i:90423 original size:9 final size:9
Alignment explanation
Indices: 90390--90425 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
90380 ACTTAATACT
90390 TATA-TTTA
1 TATACTTTA
90398 TATACTTTA
1 TATACTTTA
90407 -ATAC-TTA
1 TATACTTTA
90414 TATACTTTA
1 TATACTTTA
90423 TAT
1 TAT
90426 TATACTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
7 3 0.12
8 12 0.48
9 10 0.40
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (9 bp):
TATACTTTA
Found at i:90428 original size:14 final size:15
Alignment explanation
Indices: 90369--90429 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 15
90359 CTACGAATTT
*
90369 TATAATTTACTACTTA
1 TATACTTTA-TACTTA
*
90385 -ATAC-TTATATTTA
1 TATACTTTATACTTA
90398 TATACTTTAATACTTA
1 TATACTTT-ATACTTA
90414 TATACTTTATA-TTA
1 TATACTTTATACTTA
90428 TA
1 TA
90430 CTATAAACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 5 0.13
14 12 0.31
15 8 0.21
16 14 0.36
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (15 bp):
TATACTTTATACTTA
Found at i:92025 original size:23 final size:23
Alignment explanation
Indices: 91999--92043 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
91989 ATTCCCATGA
**
91999 GAATGGAATCGTCATTCCCCCGG
1 GAATGGAATCCACATTCCCCCGG
*
92022 GAATGTAATCCACATTCCCCCG
1 GAATGGAATCCACATTCCCCCG
92044 TTTGGTTGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.22
Consensus pattern (23 bp):
GAATGGAATCCACATTCCCCCGG
Found at i:92403 original size:23 final size:22
Alignment explanation
Indices: 92377--92419 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
92367 TCAATTTTGT
92377 AAAAAGATTATATAAAT-TTTTA
1 AAAAAGA-TATATAAATATTTTA
*
92399 AAAAATATATATAAATATTTT
1 AAAAAGATATATAAATATTTT
92420 TCAAATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAAAGATATATAAATATTTTA
Found at i:92420 original size:23 final size:21
Alignment explanation
Indices: 92369--92419 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 21
92359 TTATATTTTC
92369 AATTTTGTAAAAAGATTATATA
1 AATTTT-TAAAAAGATTATATA
92391 AATTTTTAAAAA-ATATATATA
1 AATTTTTAAAAAGAT-TATATA
92412 AATATTTT
1 AAT-TTTT
92420 TCAAATTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.07
21 15 0.56
22 10 0.37
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (21 bp):
AATTTTTAAAAAGATTATATA
Found at i:93758 original size:2 final size:2
Alignment explanation
Indices: 93751--93790 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
93741 GATGTAAACG
93751 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
93791 GTTGAAACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99950 original size:23 final size:21
Alignment explanation
Indices: 99897--99958 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
99887 TTTTGGTGCA
*
99897 GAGGGAATCGATTCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
* *
99918 GAGGGAACCGATTCCTCCTTT
1 GAGGGAACCGATTCCCCCCTT
99939 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
99959 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 19 0.54
22 1 0.03
23 15 0.43
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:99984 original size:19 final size:20
Alignment explanation
Indices: 99941--99978 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99931 CCTCCTTTGA
*
99941 AGGGGAACCGATTCCCCCAC
1 AGGGGAACCGATACCCCCAC
*
99961 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
99979 CTGGGGTTCT
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:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (20 bp):
AGGGGAACCGATACCCCCAC
Found at i:103419 original size:2 final size:2
Alignment explanation
Indices: 103372--103403 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
103362 TAACTCAACA
103372 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
103404 GAGAATGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108656 original size:2 final size:2
Alignment explanation
Indices: 108649--108687 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
108639 GGATGTAAAC
108649 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108688 TTATGTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:109497 original size:24 final size:24
Alignment explanation
Indices: 109465--109514 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
109455 TACAAAAAAA
* *
109465 TTATATTA-TATTATTATTATTATT
1 TTATATTATTAAT-TTATAATTATT
*
109489 TTATTTTATTAATTTATAATTATT
1 TTATATTATTAATTTATAATTATT
109513 TT
1 TT
109515 TGCATATTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTATATTATTAATTTATAATTATT
Found at i:115511 original size:29 final size:29
Alignment explanation
Indices: 115478--115562 Score: 85
Period size: 29 Copynumber: 3.2 Consensus size: 29
115468 GTTCTTCCTT
115478 ATTATCGAGTCTGTATTTATGTTGCCCTC
1 ATTATCGAGTCTGTATTTATGTTGCCCTC
* * * *
115507 ATTATC-TGT-T-T-TGT-TCTT--CCTT
1 ATTATCGAGTCTGTATTTATGTTGCCCTC
115529 ATTATCGAGTCTGTATTTATGTTGCCCTC
1 ATTATCGAGTCTGTATTTATGTTGCCCTC
115558 ATTAT
1 ATTAT
115563 GGAACACTGC
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
22 9 0.22
23 2 0.05
24 4 0.10
25 3 0.07
26 3 0.07
27 4 0.10
28 2 0.05
29 14 0.34
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (29 bp):
ATTATCGAGTCTGTATTTATGTTGCCCTC
Found at i:115520 original size:51 final size:51
Alignment explanation
Indices: 115460--115562 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
115450 TTAACAAGTT
115460 TCTGTTTTGTTCTTCCTTATTATCGAGTCTGTATTTATGTTGCCCTCATTA
1 TCTGTTTTGTTCTTCCTTATTATCGAGTCTGTATTTATGTTGCCCTCATTA
115511 TCTGTTTTGTTCTTCCTTATTATCGAGTCTGTATTTATGTTGCCCTCATTA
1 TCTGTTTTGTTCTTCCTTATTATCGAGTCTGTATTTATGTTGCCCTCATTA
115562 T
1 T
115563 GGAACACTGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.53
Consensus pattern (51 bp):
TCTGTTTTGTTCTTCCTTATTATCGAGTCTGTATTTATGTTGCCCTCATTA
Found at i:116909 original size:273 final size:275
Alignment explanation
Indices: 116419--116941 Score: 797
Period size: 273 Copynumber: 1.9 Consensus size: 275
116409 CAAAGCATGC
* * * *
116419 TTCCAAAGTTCTTCAATCGAGAGATGAAAGGTAATCTTCACTCCTAAAATTTCTTTGTTGACACG
1 TTCCAAAGTTCTTCAATCGAGAGATGAAAGGTAATCTTCACTCC-AAAATGTATTTGCTCACACG
**
116484 TTGTTTAATGGGGGTGCAATGGCTTCTGTATGTTCCCTTTTCCCGATTTTACTTTATAGATTGAG
65 TTGTTTAATGGGGGTGCAATGGCTTCTGTATGTTCCCTTTTCCCGATTTTACTTTATAGACCGAG
* *
116549 TCTCAGATACCATTGACATAATTCCGAAGCCCGTCTTATATGAACCTTATTACTATTCTGTATTG
130 TCTCAGATACCACTGACATAATTCCGAAGCCCGTCTTATATGAACCTCATTACTATTCTGTATTG
* *
116614 AATGTGTGGCAGCAACTCGAGATCTTCGATTGCAAGTAGAACCAGTGCAAGATCTTCTATTAATT
195 AATGTGTGGCAGCAACTCGAGATCTTCGAATGCAAGTAGAACCAGTACAAGATCTTCTATTAATT
116679 TGTGTCCATTTAATGG
260 TGTGTCCATTTAATGG
*
116695 TTCCAAAAG-TCTTCAATC-ACTAGATGAAAGGTAATCTTCACT-C-AAATGTATTTGCTCACAC
1 TTCC-AAAGTTCTTCAATCGA-GAGATGAAAGGTAATCTTCACTCCAAAATGTATTTGCTCACAC
* * *
116756 TTTGTTTAAT-GGGGTGCAATGGCTTCTGTATGTTCCTTTTTCCCGATTTTACTTTATAGACCGG
64 GTTGTTTAATGGGGGTGCAATGGCTTCTGTATGTTCCCTTTTCCCGATTTTACTTTATAGACCGA
* *
116820 GTCTCAGATACCACTGACCTAATTACCGAAGCCTGTCTTATATGAACCTCATTACTATTCTGTAT
129 GTCTCAGATACCACTGACATAATT-CCGAAGCCCGTCTTATATGAACCTCATTACTATTCTGTAT
* *
116885 TGAATGTGTGGCAG-ATGCTCGAGATCTTCGAATGCAAGTGGAACCAGTACAAGATCT
193 TGAATGTGTGGCAGCA-ACTCGAGATCTTCGAATGCAAGTAGAACCAGTACAAGATCT
116942 CCTACTAGTT
Statistics
Matches: 225, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
272 73 0.32
273 112 0.50
275 2 0.01
276 34 0.15
277 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (275 bp):
TTCCAAAGTTCTTCAATCGAGAGATGAAAGGTAATCTTCACTCCAAAATGTATTTGCTCACACGT
TGTTTAATGGGGGTGCAATGGCTTCTGTATGTTCCCTTTTCCCGATTTTACTTTATAGACCGAGT
CTCAGATACCACTGACATAATTCCGAAGCCCGTCTTATATGAACCTCATTACTATTCTGTATTGA
ATGTGTGGCAGCAACTCGAGATCTTCGAATGCAAGTAGAACCAGTACAAGATCTTCTATTAATTT
GTGTCCATTTAATGG
Found at i:137497 original size:959 final size:961
Alignment explanation
Indices: 135638--137547 Score: 3635
Period size: 959 Copynumber: 2.0 Consensus size: 961
135628 GGATTGAACA
135638 AATTGAATTAGAATAATCGTCTCTCATAATAAATATATACAATATATAATCTAAATTAATTGACT
1 AATTGAATTAGAATAATCGTCTCTCATAATAAATATATACAATATATAATCTAAATTAATTGACT
* *
135703 AATGGGTTAATTGTTGATAATTATACCAAAAATAATAATTAAACTTAAAACATAATATTAAAGTC
66 AATGGGTTAATTGTTGAAAATTATACCAAAAATAATAATTAAACTTAAAACATAATATTAAAATC
135768 AATATTATATTTAGGGTAAACTACAATTTTAAACCCTCAACTATTCACATAGTTTCTTTTTGGTC
131 AATATTATATTTAGGGTAAACTACAATTTTAAACCCTCAACTATTCACATAGTTTCTTTTTGGTC
135833 ACCCAACTATTTTTTTTCTTTCAAAATCATACCTAAGGTTACGTTTTAGTTTTATTTTGGTCACT
196 ACCCAACTATTTTTTTTCTTTCAAAATCATACCTAAGGTTACGTTTTAGTTTTATTTTGGTCACT
135898 TGTTATTAAAAAATTAACGGTGATACTGACATATCAACATAAGGTAATGCCACATCATCACTGCA
261 TGTTATTAAAAAATTAACGGTGATACTGACATATCAACATAAGGTAATGCCACATCATCACTGCA
*
135963 AAAAAGAAAAAAAATGTCATGTCAATAGTTATATTAATTTTTTAACGGTGGGTGACCAAAATAAA
326 AAAAAGAAAAAAAATGCCATGTCAATAGTTATATTAATTTTTTAACGGTGGGTGACCAAAATAAA
136028 ACCAAAATATAACATTATGTATGAATTTTAAAAAATAGTTGAGTGATTAAAATGGAAATCGTACG
391 ACCAAAATATAACATTATGTATGAATTTTAAAAAATAGTTGAGTGATTAAAATGGAAATCGTACG
*
136093 AATAGTTAAGTGACTAAATACATAGTGTACCCTTATTTTAGGGGTGTTCATTTTTCGGTTTTAAC
456 AATAGTTAAGTGACTAAATACATAGTGTACCCTTATTTTAGGGGTGTTCATTTTTCAGTTTTAAC
136158 CGAATTAACCGACCGAACCGAATTAGTTCGGTCGGGGAACGGTTAATAATTTTTTTAGAATTCGG
521 CGAATTAACCGACCGAACCGAATTAGTTCGGTCGGGGAACGGTTAATAATTTTTTTAGAATTCGG
136223 TTAACGGTTAATTCGGTTCGAAATCGATTAATTAACCGAAATTAAATTTTAAATATTAAATATAT
586 TTAACGGTTAATTCGGTTCGAAATCGATTAATTAACCGAAATTAAATTTTAAATATTAAATATAT
* *
136288 TATATATAACATATGGGCTCAGCCCAAACCATTTAAAACTCAATTAATAATTTAAGATATGTTAA
651 TATATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAATTTAAGATATGTTAA
* *
136353 GTTAATCAATCGACGAAATAGCCAAGAGGGGGTGATTTGACAATAAAAATTTTGATGGAAGCTTT
716 GTTAATCAATCGACGAAATAGCCAAGAGGGGGTGAATTGACAATAAAAATTTTGATGAAAGCTTT
136418 TGCAGAAAATTGAAAATAATTGCACAACGTTTTAGAGTGGTTCGACTTTCTCAACCAAAGTCTAC
781 TGCAGAAAATTGAAAATAATTGCACAACGTTTTAGAGTGGTTCGACTTTCTCAACCAAAGTCTAC
136483 GTACACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATATGTTCTTTCTTTT
846 GTACACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATATGTTCTTTCTTTT
136548 GAGGAC-AAGAGTAACCTTACAACTCCCTCAAAAATTATATCCGTGGATTG
911 GAGGACAAAGAGTAACCTTACAACTCCCTCAAAAATTATATCCGTGGATTG
*
136598 AATTGAATTAGAATAATCGTCTCTCATAATAAATATATACAATATATAATCTAAATTATTTGACT
1 AATTGAATTAGAATAATCGTCTCTCATAATAAATATATACAATATATAATCTAAATTAATTGACT
136663 AATGGGTTAATTGTTGAAAATTATACCAAAAATAATAATTAAACTTAAAACATAATATTAAAATC
66 AATGGGTTAATTGTTGAAAATTATACCAAAAATAATAATTAAACTTAAAACATAATATTAAAATC
**
136728 AATATTATATTTAGGGTAAACTACAATTTTAGTCCCTCAACTATTCACATAGTTTCTTTTTGGTC
131 AATATTATATTTAGGGTAAACTACAATTTTAAACCCTCAACTATTCACATAGTTTCTTTTTGGTC
*
136793 ACCCAACTA-TTTTTTTCTTTCAAAATCATACCTAAGGTTACGTTTTGGTTTTATTTTGGTCACT
196 ACCCAACTATTTTTTTTCTTTCAAAATCATACCTAAGGTTACGTTTTAGTTTTATTTTGGTCACT
136857 TGTTATTAAAAAATTAACGGTGATACTGACATATCAACATAAGGTAATGCCACATCATCACTGCA
261 TGTTATTAAAAAATTAACGGTGATACTGACATATCAACATAAGGTAATGCCACATCATCACTGCA
136922 AAAAAGAAAAAAAATGCCATGTCAATAGTTATATTAATTTTTTAACGGTGGGTGACCAAAATAAA
326 AAAAAGAAAAAAAATGCCATGTCAATAGTTATATTAATTTTTTAACGGTGGGTGACCAAAATAAA
136987 ACCAAAATATAACATTATGTATGAATTTTAAAAAATAGTTGAGTGATTAAAATGGAAATCGTACG
391 ACCAAAATATAACATTATGTATGAATTTTAAAAAATAGTTGAGTGATTAAAATGGAAATCGTACG
137052 AATAGTTAAGTGACTAAATACATAGTGTACCCTTATTTTAGGGGTGTTCATTTTTCAGTTTTAAC
456 AATAGTTAAGTGACTAAATACATAGTGTACCCTTATTTTAGGGGTGTTCATTTTTCAGTTTTAAC
137117 CGAATTAACCGACCGAACCGAATTAGTTCGGTCGGGGAACGGTTAATAATTTTTTTAGAATTCGG
521 CGAATTAACCGACCGAACCGAATTAGTTCGGTCGGGGAACGGTTAATAATTTTTTTAGAATTCGG
*
137182 TTAACGGTTAATTCGGTTCGAAATCGGTTAATTAACCGAAATTAAATTTTAAATATTAAATATAT
586 TTAACGGTTAATTCGGTTCGAAATCGATTAATTAACCGAAATTAAATTTTAAATATTAAATATAT
*
137247 TATATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAATTTAAGATATGTTGA
651 TATATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAATTTAAGATATGTTAA
*
137312 GTTAATCAATCGACGAAATAGCCAAGAGGGGGTGAATTGACAATAAAAATTTTGGTGAAAGCTTT
716 GTTAATCAATCGACGAAATAGCCAAGAGGGGGTGAATTGACAATAAAAATTTTGATGAAAGCTTT
* *
137377 TGCAGAAAATTGAAAATAATTGCACAGCGTTTTAGAGTGGTTCGACTTTCTTAACCAAAGTCTAC
781 TGCAGAAAATTGAAAATAATTGCACAACGTTTTAGAGTGGTTCGACTTTCTCAACCAAAGTCTAC
*
137442 GTACACTACCTTAGCTATCCACACTAAGGATTTTCCAACAATTTCACTAATATGTTCTTTCTTTT
846 GTACACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATATGTTCTTTCTTTT
*
137507 GAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATAT
911 GAGGACAAAGAGTAACCTTACAACTCCCTCAAAAATTATAT
137548 ACCAAACTCT
Statistics
Matches: 930, Mismatches: 19, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
959 698 0.75
960 232 0.25
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (961 bp):
AATTGAATTAGAATAATCGTCTCTCATAATAAATATATACAATATATAATCTAAATTAATTGACT
AATGGGTTAATTGTTGAAAATTATACCAAAAATAATAATTAAACTTAAAACATAATATTAAAATC
AATATTATATTTAGGGTAAACTACAATTTTAAACCCTCAACTATTCACATAGTTTCTTTTTGGTC
ACCCAACTATTTTTTTTCTTTCAAAATCATACCTAAGGTTACGTTTTAGTTTTATTTTGGTCACT
TGTTATTAAAAAATTAACGGTGATACTGACATATCAACATAAGGTAATGCCACATCATCACTGCA
AAAAAGAAAAAAAATGCCATGTCAATAGTTATATTAATTTTTTAACGGTGGGTGACCAAAATAAA
ACCAAAATATAACATTATGTATGAATTTTAAAAAATAGTTGAGTGATTAAAATGGAAATCGTACG
AATAGTTAAGTGACTAAATACATAGTGTACCCTTATTTTAGGGGTGTTCATTTTTCAGTTTTAAC
CGAATTAACCGACCGAACCGAATTAGTTCGGTCGGGGAACGGTTAATAATTTTTTTAGAATTCGG
TTAACGGTTAATTCGGTTCGAAATCGATTAATTAACCGAAATTAAATTTTAAATATTAAATATAT
TATATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAATTTAAGATATGTTAA
GTTAATCAATCGACGAAATAGCCAAGAGGGGGTGAATTGACAATAAAAATTTTGATGAAAGCTTT
TGCAGAAAATTGAAAATAATTGCACAACGTTTTAGAGTGGTTCGACTTTCTCAACCAAAGTCTAC
GTACACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATATGTTCTTTCTTTT
GAGGACAAAGAGTAACCTTACAACTCCCTCAAAAATTATATCCGTGGATTG
Found at i:138121 original size:66 final size:65
Alignment explanation
Indices: 137985--138140 Score: 179
Period size: 66 Copynumber: 2.4 Consensus size: 65
137975 ATATGGCTTA
* * * * * **
137985 GTGCATCGGTACACTAATTACATTCAATGTTTCAAAAAAGCTAGGAGTGCATCGATGCATGGTAT
1 GTGCATCAGTACACAAAATGCATTCAATGTTTCAAAAAAGCTAAGAGTGCATCGATGCATACTAT
* * **
138050 GTGCATCAGTACATAAAATGCATTCAATGTTTCAAAATATTTCAAGAGTGCATCGATGCATAACT
1 GTGCATCAGTACACAAAATGCATTCAATGTTTCAAAAAAGCT-AAGAGTGCATCGATGCAT-ACT
138115 -T
64 AT
*
138116 GTGCATCGGTACACAAAATGCATTC
1 GTGCATCAGTACACAAAATGCATTC
138141 GAAATGGGTG
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
65 34 0.45
66 41 0.54
67 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (65 bp):
GTGCATCAGTACACAAAATGCATTCAATGTTTCAAAAAAGCTAAGAGTGCATCGATGCATACTAT
Found at i:140302 original size:5 final size:5
Alignment explanation
Indices: 140292--140316 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
140282 TTTAAAAATC
140292 ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT
140317 TCAATCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:149585 original size:2 final size:2
Alignment explanation
Indices: 149578--149615 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
149568 GTCATTTGAG
149578 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
149616 TAACGTATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:150792 original size:24 final size:24
Alignment explanation
Indices: 150759--150816 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
150749 ACGATAAACA
*
150759 AACATATAAATGAACACGTTCACG
1 AACATTTAAATGAACACGTTCACG
*
150783 GACATTTAAATGAACACGTTCACG
1 AACATTTAAATGAACACGTTCACG
150807 AACA-TTAAAT
1 AACATTTAAAT
150817 AAACGAATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 6 0.19
24 25 0.81
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (24 bp):
AACATTTAAATGAACACGTTCACG
Found at i:151841 original size:30 final size:30
Alignment explanation
Indices: 151668--151931 Score: 168
Period size: 30 Copynumber: 8.9 Consensus size: 30
151658 AAAAAATTAA
151668 AATAAAATATATATTT-TCAAGTTAAGATAAG
1 AATAAAATATAT-TTTAT-AAGTTAAGATAAG
* * *
151699 AAT-AAATAATATTTAATCATTTAA-AGTAAG
1 AATAAAAT-ATATTTTATAAGTTAAGA-TAAG
* * *
151729 AATATAATATA-TTTATTAATTTAAGTTAAG
1 AATAAAATATATTTTA-TAAGTTAAGATAAG
* * * * *
151759 AATATAATATATGTAACAAGTTAAGATAAA
1 AATAAAATATATTTTATAAGTTAAGATAAG
* * *
151789 AATAAAATATATTTT-GAAGTTAAGGTAGG
1 AATAAAATATATTTTATAAGTTAAGATAAG
* *
151818 AATAAAATATATTTTATAAGTTAATATAAT
1 AATAAAATATATTTTATAAGTTAAGATAAG
* * * * *
151848 ATTAACATAT-TTTT-TTAGCTAAGATAAT
1 AATAAAATATATTTTATAAGTTAAGATAAG
* * ** *
151876 AATAAAATAAACTCGATAAGTTAA-A-AAA
1 AATAAAATATATTTTATAAGTTAAGATAAG
*
151904 AATAAAATATATTTTTTAATGTTAAGAT
1 AATAAAATATATTTTATAA-GTTAAGAT
151932 TTTATTTTAA
Statistics
Matches: 176, Mismatches: 44, Indels: 26
0.72 0.18 0.11
Matches are distributed among these distances:
28 34 0.19
29 40 0.23
30 89 0.51
31 13 0.07
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.38
Consensus pattern (30 bp):
AATAAAATATATTTTATAAGTTAAGATAAG
Found at i:151956 original size:21 final size:22
Alignment explanation
Indices: 151910--151956 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 22
151900 AAAAAATAAA
151910 ATATA-TT-TTTTAATGTTAAG
1 ATATATTTATTTTAATGTTAAG
151930 --AT-TTTATTTTAA-GTTAAG
1 ATATATTTATTTTAATGTTAAG
151948 ATATATTTA
1 ATATATTTA
151957 ACATTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 9
0.71 0.00 0.29
Matches are distributed among these distances:
18 10 0.45
19 6 0.27
20 2 0.09
21 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (22 bp):
ATATATTTATTTTAATGTTAAG
Found at i:159381 original size:18 final size:18
Alignment explanation
Indices: 159358--159405 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
159348 AAATTGTCTT
* *
159358 TATTATATATTTGTATAA
1 TATTATATATTTGAAAAA
*
159376 TATTATA-AGTTGAAAAA
1 TATTATATATTTGAAAAA
159393 TATTTATATATTT
1 TA-TTATATATTT
159406 TCTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (18 bp):
TATTATATATTTGAAAAA
Found at i:162632 original size:22 final size:22
Alignment explanation
Indices: 162604--162647 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
162594 AATATTTTTC
162604 TTATTTATTTAATATTTA-TTTA
1 TTATTTATTTAAT-TTTAGTTTA
162626 TTATTTATTTAATTTTAGTTTA
1 TTATTTATTTAATTTTAGTTTA
162648 ATTTCTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTATTTATTTAATTTTAGTTTA
Found at i:162651 original size:11 final size:11
Alignment explanation
Indices: 162605--162649 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
162595 ATATTTTTCT
162605 TATTTATTTAA
1 TATTTATTTAA
*
162616 TATTTATTTAT
1 TATTTATTTAA
162627 TATTTATTTAA
1 TATTTATTTAA
162638 T-TTTAGTTTAA
1 TATTTA-TTTAA
162649 T
1 T
162650 TTCTTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 4 0.13
11 27 0.87
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:164445 original size:18 final size:19
Alignment explanation
Indices: 164424--164468 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
164414 ATTTAGACAT
164424 TTTGCATTTT-TTATTTTC
1 TTTGCATTTTGTTATTTTC
164442 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTGTTATTTTC
*
164461 TCTGCATT
1 TTTGCATT
164469 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTGTTATTTTC
Found at i:168272 original size:165 final size:165
Alignment explanation
Indices: 167869--168818 Score: 1605
Period size: 165 Copynumber: 5.8 Consensus size: 165
167859 ACCTGCCACT
* * * *
167869 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * * * *
167934 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
* * * * * ** *
167999 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGC-A
131 TACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
* * *
168033 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
*
168098 AAGGGCTATCTACCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
168163 TACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
131 TACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
*
168198 AAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
168263 AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
168328 TACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
131 TACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
*
168363 AAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
168428 AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
168493 TACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
131 TACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
* *
168528 AAGACCTTTGAGTTCGATTACACTCAGCTCCAAAGCACATCATTTACAGCATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
168593 AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
168658 TACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
131 TACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
* *
168693 AAGACCTTTGAGTTCGATTACACTCAGCTCCAAAGCACATCATTTACAGCATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * * * *
168758 AAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGTCATATCATTT
66 AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
168819 ACAACATAGC
Statistics
Matches: 755, Mismatches: 30, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
164 148 0.20
165 607 0.80
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (165 bp):
AAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAG
TACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
Found at i:169543 original size:37 final size:36
Alignment explanation
Indices: 169454--169779 Score: 286
Period size: 39 Copynumber: 8.6 Consensus size: 36
169444 TGAAAATACG
* * *
169454 TATATAATATATATGGTTTTTAAAACAC-TTTTAAAAGC
1 TATATAATATATA--ATTTTTAAAAAACATTTTAAAA-A
*
169492 TATAT-ATATTATATATATTTT-CAAAACATTTTTAAAAAA
1 TATATAATA-TATA-AT-TTTTAAAAAACA-TTTT-AAAAA
169531 TATATAATATATAATTTTTGAAAAAAACATTTTAAAAAA
1 TATATAATATATAATTTTT--AAAAAACATTTT-AAAAA
169570 TATATAATATATAATTTTTGAAAAAAACATTTTAAAAA
1 TATATAATATATAATTTTT--AAAAAACATTTTAAAAA
169608 TATATAATATATAATTTTTGAAAAAACATTTTAAAAA
1 TATATAATATATAATTTTT-AAAAAACATTTTAAAAA
* *
169645 TATATAATATATAATTTTTGAAAAACATTTTGAAAA
1 TATATAATATATAATTTTTAAAAAACATTTTAAAAA
* *
169681 CATATAATATATAATTTTT--AGAACATTTTTGAAAATTTA
1 TATATAATATATAATTTTTAAAAAACA-TTTT-AAAA---A
* *
169720 TATATAGTATATAGTTTTTAAAAAATAAACAGTTTT-AAAA
1 TATATAATATATAATTTTT---AAA-AAACA-TTTTAAAAA
* *
169760 TATATATTATATAGTTTTTA
1 TATATAATATATAATTTTTA
169780 TTTATTGTTT
Statistics
Matches: 250, Mismatches: 18, Indels: 41
0.81 0.06 0.13
Matches are distributed among these distances:
34 5 0.02
35 4 0.02
36 36 0.14
37 49 0.20
38 39 0.16
39 73 0.29
40 32 0.13
43 3 0.01
44 1 0.00
45 8 0.03
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (36 bp):
TATATAATATATAATTTTTAAAAAACATTTTAAAAA
Found at i:169594 original size:38 final size:38
Alignment explanation
Indices: 169514--169699 Score: 306
Period size: 39 Copynumber: 4.9 Consensus size: 38
169504 ATATATTTTC
169514 AAAACATTTTTAAAAAATATATAATATATAATTTTTGAAA
1 AAAACA-TTTT-AAAAATATATAATATATAATTTTTGAAA
169554 AAAACATTTTAAAAAATATATAATATATAATTTTTGAAA
1 AAAACATTTT-AAAAATATATAATATATAATTTTTGAAA
169593 AAAACATTTTAAAAATATATAATATATAATTTTTG-AA
1 AAAACATTTTAAAAATATATAATATATAATTTTTGAAA
169630 AAAACATTTTAAAAATATATAATATATAATTTTTG--A
1 AAAACATTTTAAAAATATATAATATATAATTTTTGAAA
* *
169666 AAAACATTTTGAAAACATATAATATATAATTTTT
1 AAAACATTTTAAAAATATATAATATATAATTTTT
169700 AGAACATTTT
Statistics
Matches: 144, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
36 33 0.23
37 37 0.26
38 25 0.17
39 43 0.30
40 6 0.04
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (38 bp):
AAAACATTTTAAAAATATATAATATATAATTTTTGAAA
Found at i:169738 original size:75 final size:71
Alignment explanation
Indices: 169455--169709 Score: 266
Period size: 77 Copynumber: 3.4 Consensus size: 71
169445 GAAAATACGT
* * *
169455 ATATAATATAT-ATGGTTTTTAAAACACTTTTAAAAGCTATAT-ATATTATATATATTTT-CAAA
1 ATATAATATATAAT--TTTTAAAAACA-TTTTAAAA-ATATATAATA-TATA-AT-TTTTGAAAA
*
169517 ACATTTTTAAAAAAT
59 ACA-TTTT-AAAAAC
169532 ATATAATATATAATTTTTGAAAAAAACATTTTAAAAAATATATAATATATAATTTTTGAAAAAAA
1 ATATAATATATAATTTTT---AAAAACATTTT-AAAAATATATAATATATAATTTTTG--AAAAA
*
169597 CATTTTAAAAAT
60 CATTTTAAAAAC
169609 ATATAATATATAATTTTTGAAAAAACATTTTAAAAATATATAATATATAATTTTTGAAAAACATT
1 ATATAATATATAATTTTT--AAAAACATTTTAAAAATATATAATATATAATTTTTGAAAAACATT
*
169674 TTGAAAAC
64 TTAAAAAC
*
169682 ATATAATATATAATTTTT-AGAACATTTT
1 ATATAATATATAATTTTTAAAAACATTTT
169710 TGAAAATTTA
Statistics
Matches: 162, Mismatches: 7, Indels: 25
0.84 0.04 0.13
Matches are distributed among these distances:
70 9 0.06
73 33 0.20
75 25 0.15
76 20 0.12
77 37 0.23
78 19 0.12
79 19 0.12
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (71 bp):
ATATAATATATAATTTTTAAAAACATTTTAAAAATATATAATATATAATTTTTGAAAAACATTTT
AAAAAC
Found at i:169744 original size:75 final size:71
Alignment explanation
Indices: 169455--169744 Score: 264
Period size: 75 Copynumber: 3.8 Consensus size: 71
169445 GAAAATACGT
* * *
169455 ATATAATATAT-ATGGTTTTTAAAACACTTTTAAAAGCTATAT-ATATTATATATATTTT-CAAA
1 ATATAATATATAAT--TTTTAAAAACA-TTTTAAAA-ATATATAATA-TATA-AT-TTTTAAAAA
*
169517 ACATTTTTAAAAAAT
59 ACA-TTTT-AAAAAC
169532 ATATAATATATAATTTTTGAAAAAAACATTTTAAAAAATATATAATATATAATTTTTGAAAAAAA
1 ATATAATATATAATTTTT---AAAAACATTTT-AAAAATATATAATATATAATTTTT--AAAAAA
*
169597 CATTTTAAAAAT
60 CATTTTAAAAAC
*
169609 ATATAATATATAATTTTTGAAAAAACATTTTAAAAATATATAATATATAATTTTTGAAAAACATT
1 ATATAATATATAATTTTT--AAAAACATTTTAAAAATATATAATATATAATTTTTAAAAAACATT
*
169674 TTGAAAAC
64 TTAAAAAC
* * *
169682 ATATAATATATAATTTTT-AGAACATTTTTGAAAATTTATATATAGTATATAGTTTTTAAAAAA
1 ATATAATATATAATTTTTAAAAACA-TTTT-AAAA---ATATATAATATATAATTTTTAAAAAA
169745 TAAACAGTTT
Statistics
Matches: 188, Mismatches: 11, Indels: 30
0.82 0.05 0.13
Matches are distributed among these distances:
70 5 0.03
71 4 0.02
72 4 0.02
73 33 0.18
75 47 0.25
76 20 0.11
77 37 0.20
78 19 0.10
79 19 0.10
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (71 bp):
ATATAATATATAATTTTTAAAAACATTTTAAAAATATATAATATATAATTTTTAAAAAACATTTT
AAAAAC
Found at i:169791 original size:13 final size:13
Alignment explanation
Indices: 169773--169798 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
169763 ATATTATATA
169773 GTTTTTATTTATT
1 GTTTTTATTTATT
169786 GTTTTTATTTATT
1 GTTTTTATTTATT
169799 ATTATTCACC
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
GTTTTTATTTATT
Found at i:171090 original size:22 final size:22
Alignment explanation
Indices: 171062--171105 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
171052 AATATTTTTC
171062 TTATTTATTTAATATTTA-TTTA
1 TTATTTATTTAAT-TTTAGTTTA
171084 TTATTTATTTAATTTTAGTTTA
1 TTATTTATTTAATTTTAGTTTA
171106 ATTTCTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTATTTATTTAATTTTAGTTTA
Found at i:171109 original size:11 final size:11
Alignment explanation
Indices: 171063--171107 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
171053 ATATTTTTCT
171063 TATTTATTTAA
1 TATTTATTTAA
*
171074 TATTTATTTAT
1 TATTTATTTAA
171085 TATTTATTTAA
1 TATTTATTTAA
171096 T-TTTAGTTTAA
1 TATTTA-TTTAA
171107 T
1 T
171108 TTCTTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 4 0.13
11 27 0.87
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:171529 original size:2 final size:2
Alignment explanation
Indices: 171522--171549 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
171512 GGTTCCGACA
171522 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
171550 TAGTATAAAT
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):
AT
Found at i:171991 original size:3 final size:3
Alignment explanation
Indices: 171977--172022 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
171967 TAGTTTAAGT
* *
171977 TAA TAT TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
172023 TATTATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:172661 original size:22 final size:20
Alignment explanation
Indices: 172629--172669 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
172619 AAATAAAAAA
172629 TTAATAAACTCAACTTAAAG
1 TTAATAAACTCAACTTAAAG
*
172649 TTAATATATACTCAAGTTAAA
1 TTAATA-A-ACTCAACTTAAA
172670 TGTAAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (20 bp):
TTAATAAACTCAACTTAAAG
Found at i:179471 original size:24 final size:24
Alignment explanation
Indices: 179444--179497 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
179434 GTATTCGAAA
179444 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
179468 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
179492 TTTGAT
1 TTTGAT
179498 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:182020 original size:20 final size:20
Alignment explanation
Indices: 181953--182025 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
181943 GGCATTCATT
181953 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACACGGAAA
**
181973 TGACGT-TCGCAATCATC-TTAA
1 TGAC-TATCGCAA-CA-CGGAAA
*
181994 TGTCTATCGCAACACGGAAA
1 TGACTATCGCAACACGGAAA
*
182014 TGACTATAGCAA
1 TGACTATCGCAA
182026 TGCGAAATGA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 1 0.02
20 25 0.61
21 14 0.34
22 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACACGGAAA
Found at i:182044 original size:19 final size:18
Alignment explanation
Indices: 182022--182149 Score: 91
Period size: 19 Copynumber: 7.5 Consensus size: 18
182012 AATGACTATA
*
182022 GCAATGCGAAATGAAAATC
1 GCAA-GCGAAATGAGAATC
182041 GCAA-CG--A-GAGAATC
1 GCAAGCGAAATGAGAATC
182055 GCAATGCGAAATGAGAATC
1 GCAA-GCGAAATGAGAATC
182074 GCAA-CG--A-GAGAATC
1 GCAAGCGAAATGAGAATC
*
182088 GCAATGCGAAATGAAAATC
1 GCAA-GCGAAATGAGAATC
*
182107 GCAA-CG--A-GGGAATC
1 GCAAGCGAAATGAGAATC
*
182121 GCAAAGCGAAATGAAAATC
1 GC-AAGCGAAATGAGAATC
182140 GCAACGCGAA
1 GCAA-GCGAA
182150 TTTAGTTTCG
Statistics
Matches: 87, Mismatches: 6, Indels: 32
0.70 0.05 0.26
Matches are distributed among these distances:
14 28 0.32
15 5 0.06
16 6 0.07
17 6 0.07
18 5 0.06
19 37 0.43
ACGTcount: A:0.45, C:0.19, G:0.26, T:0.11
Consensus pattern (18 bp):
GCAAGCGAAATGAGAATC
Found at i:182056 original size:14 final size:14
Alignment explanation
Indices: 182037--182124 Score: 68
Period size: 14 Copynumber: 5.6 Consensus size: 14
182027 GCGAAATGAA
182037 AATCGCAACGAGAG
1 AATCGCAACGAGAG
182051 AATCGCAATGCGAAATGAG
1 AATCGCAA--CG--A-GAG
182070 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
182084 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
182103 AATCGCAACGAGGG
1 AATCGCAACGAGAG
182117 AATCGCAA
1 AATCGCAA
182125 AGCGAAATGA
Statistics
Matches: 61, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
14 28 0.46
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 21 0.34
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:182064 original size:33 final size:33
Alignment explanation
Indices: 182022--182145 Score: 221
Period size: 33 Copynumber: 3.8 Consensus size: 33
182012 AATGACTATA
182022 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
*
182055 GCAATGCGAAATGAGAATCGCAACGAGAGAATC
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
*
182088 GCAATGCGAAATGAAAATCGCAACGAGGGAATC
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
*
182121 GCAAAGCGAAATGAAAATCGCAACG
1 GCAATGCGAAATGAAAATCGCAACG
182146 CGAATTTAGT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 87 1.00
ACGTcount: A:0.44, C:0.19, G:0.26, T:0.11
Consensus pattern (33 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATC
Done.