Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001175.1 Hibiscus syriacus cultivar Beakdansim tig00002341_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: 212349
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:2013 original size:13 final size:13
Alignment explanation
Indices: 1995--2021 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1985 TGAATTTGGG
1995 AAATGATACTGAC
1 AAATGATACTGAC
2008 AAATGATACTGAC
1 AAATGATACTGAC
2021 A
1 A
2022 TGAATGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AAATGATACTGAC
Found at i:4677 original size:24 final size:24
Alignment explanation
Indices: 4650--4698 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
4640 TGGAAGGCTT
*
4650 GGAGACCTTCAAGCCTCAGGCACA
1 GGAGACATTCAAGCCTCAGGCACA
4674 GGAGACATTCAAGCCTCAGGCACA
1 GGAGACATTCAAGCCTCAGGCACA
4698 G
1 G
4699 AAGAGCGTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.12
Consensus pattern (24 bp):
GGAGACATTCAAGCCTCAGGCACA
Found at i:13894 original size:32 final size:32
Alignment explanation
Indices: 13825--13900 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
13815 GATTATGACT
* **
13825 ATCGCAATGCGATTTCCAATGCGTTGCGATAA
1 ATCGCAATGCGATTTCCAATGCGATAAGATAA
* *
13857 TTCGCATTGCGATTTCCAATGCGAATAAG-TAA
1 ATCGCAATGCGATTTCCAATGCG-ATAAGATAA
13889 ATCGCAATGCGA
1 ATCGCAATGCGA
13901 ATTTGGAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 34 0.94
33 2 0.06
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (32 bp):
ATCGCAATGCGATTTCCAATGCGATAAGATAA
Found at i:13898 original size:20 final size:20
Alignment explanation
Indices: 13873--13920 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
13863 TTGCGATTTC
*
13873 CAATGCGAATAAGTAAATCG
1 CAATGCGAATAAGGAAATCG
**
13893 CAATGCGAATTTGGAAATCG
1 CAATGCGAATAAGGAAATCG
13913 CAATGCGA
1 CAATGCGA
13921 TACTGACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.21
Consensus pattern (20 bp):
CAATGCGAATAAGGAAATCG
Found at i:13991 original size:21 final size:21
Alignment explanation
Indices: 13943--13998 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
13933 CAATGCAATT
*
13943 TAATTCGCATTGCGATTTACG
1 TAATTCGCATTGCGATTTACA
* *
13964 T-ATTCGCGTTGCGATTTTCA
1 TAATTCGCATTGCGATTTACA
*
13984 TAATTCGCAATGCGA
1 TAATTCGCATTGCGA
13999 ATTAGGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (21 bp):
TAATTCGCATTGCGATTTACA
Found at i:14012 original size:21 final size:21
Alignment explanation
Indices: 13988--14041 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
13978 TTTTCATAAT
*
13988 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
14009 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
14029 TCGCAATGTGAAT
1 TCGCAATGCGAAT
14042 CTTACTATCG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:14553 original size:31 final size:31
Alignment explanation
Indices: 14517--14578 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
14507 GAAGTTAGTG
14517 TTTGTCTTTGTTTTGTCTTTTGGTTGAAGTA
1 TTTGTCTTTGTTTTGTCTTTTGGTTGAAGTA
14548 TTTGTCTTTGTTTTGTCTTTTGGTTGAAGTA
1 TTTGTCTTTGTTTTGTCTTTTGGTTGAAGTA
14579 ATGCAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.10, C:0.06, G:0.23, T:0.61
Consensus pattern (31 bp):
TTTGTCTTTGTTTTGTCTTTTGGTTGAAGTA
Found at i:14741 original size:33 final size:33
Alignment explanation
Indices: 14668--14763 Score: 140
Period size: 32 Copynumber: 2.9 Consensus size: 33
14658 CAAAATCGCA
**
14668 TTGCGATTTTCATTTCGCGTTGCGATT-TCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
*
14700 TTGCGATAGTCATTTCGCGCTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
*
14733 TTGTGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTT-CGCGTTGCGATTCTC
14764 ATTATCTCGT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 24 0.42
33 19 0.33
34 14 0.25
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.42
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:14765 original size:20 final size:20
Alignment explanation
Indices: 14742--14788 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14732 GTTGTGATAG
14742 TCATTTCCGCGTTGCGATTC
1 TCATTTCCGCGTTGCGATTC
* *
14762 TCATTAT-CTCGTTGCGATTT
1 TCATT-TCCGCGTTGCGATTC
14782 TCATTTC
1 TCATTTC
14789 AACCAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.47
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATTC
Found at i:16948 original size:42 final size:42
Alignment explanation
Indices: 16911--16990 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
16901 GAAGAGGCCC
16911 CTATCATTCCTTG-AGAGTCCCCTCCCACCGTTCAAGAGGAAA
1 CTATCA-TCCTTGAAGAGTCCCCTCCCACCGTTCAAGAGGAAA
* *
16953 CTATCATCGTTGAAGAAGT-CCCTCCCACCATTCAAGAG
1 CTATCATCCTTGAAG-AGTCCCCTCCCACCGTTCAAGAG
16991 CCCGATTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 5 0.15
42 26 0.76
43 3 0.09
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.24
Consensus pattern (42 bp):
CTATCATCCTTGAAGAGTCCCCTCCCACCGTTCAAGAGGAAA
Found at i:18332 original size:14 final size:14
Alignment explanation
Indices: 18313--18348 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
18303 ATTGTTTAAT
18313 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
18327 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
18341 TGATTTGT
1 TGATTTGT
18349 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:18493 original size:27 final size:28
Alignment explanation
Indices: 18455--18509 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
18445 AAAAAGTACT
*
18455 ATCGCAATGCGAAATG-AAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
18482 ATCGCAACGCGAAATGAAAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
18510 CGAAACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.42, C:0.24, G:0.22, T:0.13
Consensus pattern (28 bp):
ATCGCAACGCGAAATGAAAATCGCAACG
Found at i:18542 original size:19 final size:19
Alignment explanation
Indices: 18520--18648 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
18510 CGAAACTAAA
*
18520 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
18539 TTCGCATTGTGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
18555 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
18572 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
18586 TTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
18603 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
18619 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
18636 TTCGCATTGCGAT
1 TTCGCATTGCGAT
18649 AGTAATTTCT
Statistics
Matches: 82, Mismatches: 11, Indels: 34
0.65 0.09 0.27
Matches are distributed among these distances:
12 6 0.07
14 16 0.20
16 13 0.16
17 18 0.22
19 29 0.35
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:18566 original size:33 final size:32
Alignment explanation
Indices: 18524--18648 Score: 191
Period size: 33 Copynumber: 3.9 Consensus size: 32
18514 ACTAAATTCG
*
18524 CGTTGCGATTTTCATTTCGCATTGTGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
*
18557 CGTTGCGATTTTCATTTCGCATTGCGAAAT--T
1 CGTTGCGATTTTCATTTCGCATTGCG-ATTCCT
18588 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
18621 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
18649 AGTAATTTCT
Statistics
Matches: 85, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
30 2 0.02
31 27 0.32
33 54 0.64
34 2 0.02
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:18599 original size:64 final size:64
Alignment explanation
Indices: 18524--18647 Score: 230
Period size: 64 Copynumber: 1.9 Consensus size: 64
18514 ACTAAATTCG
*
18524 CGTTGCGATTTTCATTTCGCATTGTGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATT
*
18588 CGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGA
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGA
18648 TAGTAATTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (64 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATT
Found at i:21159 original size:24 final size:24
Alignment explanation
Indices: 21132--21185 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
21122 CTGAAACATC
* * *
21132 ATCAAAATCTGAGTATTGATCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
21156 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
21180 ATCAAA
1 ATCAAA
21186 TTTCGAATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:21989 original size:20 final size:21
Alignment explanation
Indices: 21966--22017 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
21956 ATTTCCTAAT
*
21966 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
21986 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
22007 TCGCAATGCGA
1 TCGCAATGCGA
22018 TACTGGCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:22091 original size:20 final size:20
Alignment explanation
Indices: 22044--22093 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
22034 GAGATAATAC
*
22044 AAAATCGTAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
22064 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
22084 AAAATCGCAA
1 AAAATCGCAA
22094 TCATCTTCAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:22402 original size:20 final size:20
Alignment explanation
Indices: 22307--22394 Score: 97
Period size: 20 Copynumber: 4.4 Consensus size: 20
22297 CAACGGGGAA
*
22307 ATCGCAACGCGAAAATGGTT
1 ATCGCAACGCGAAAATGGCT
*
22327 ATCACAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
22347 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
22367 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
22387 ATCGCAAC
1 ATCGCAAC
22395 TAGAAAATCG
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
19 5 0.09
20 43 0.81
21 5 0.09
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:22445 original size:14 final size:14
Alignment explanation
Indices: 22426--22479 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
22416 GAAAATCGCA
22426 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
*
22440 TTGCGATTTTCATTTCTCA
1 TTGCGA---T--TTTCTCG
22459 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
22473 TTGCGAT
1 TTGCGAT
22480 AGTCAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 19 0.58
16 1 0.03
17 1 0.03
19 12 0.36
ACGTcount: A:0.11, C:0.20, G:0.19, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:22445 original size:33 final size:33
Alignment explanation
Indices: 22408--22478 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
22398 AAAATCGCAA
22408 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** ** *
22441 TGCGATTTTCATTTCTCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
22474 TGCGA
1 TGCGA
22479 TAGTCAGTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:22457 original size:19 final size:19
Alignment explanation
Indices: 22433--22469 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22423 GCATTGCGAT
*
22433 TTTCTCGTTGCGATTTTCA
1 TTTCTCATTGCGATTTTCA
22452 TTTCTCATTGCGATTTTC
1 TTTCTCATTGCGATTTTC
22470 TCGTTGCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.14, T:0.54
Consensus pattern (19 bp):
TTTCTCATTGCGATTTTCA
Found at i:24085 original size:38 final size:40
Alignment explanation
Indices: 24043--24131 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 40
24033 CCTCTTCAAC
*
24043 GATGACAGTGGCCTCTTGAACG-GG-GGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGTGGAGGGGACTCTTGAGG
*
24081 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACG--TGGAGGGGACTCTTGAGG
*
24123 AATGACAGG
1 GATGACAGG
24132 TGAGTCGGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 20 0.47
41 2 0.05
42 21 0.49
ACGTcount: A:0.22, C:0.16, G:0.40, T:0.21
Consensus pattern (40 bp):
GATGACAGGGGCCTCTTGAACGTGGAGGGGACTCTTGAGG
Found at i:24493 original size:20 final size:20
Alignment explanation
Indices: 24468--24520 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
24458 GAAGAATAGT
*
24468 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
24488 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
24508 TGACTATCGCAAC
1 TTACTTTCGCAAC
24521 GCGGAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:24521 original size:20 final size:20
Alignment explanation
Indices: 24474--24560 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
24464 TAGTTTACTT
* * * *
24474 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
24494 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
24514 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
24534 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
24553 TCGCAACG
1 TCGCAACG
24561 ACAAAATCAC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
19 13 0.23
20 43 0.77
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:24555 original size:19 final size:19
Alignment explanation
Indices: 24533--24598 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
24523 GGAAATGGCT
24533 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
24552 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
24566 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
24585 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
24599 CACAAATCGC
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
14 9 0.24
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:24559 original size:39 final size:33
Alignment explanation
Indices: 24533--24598 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
24523 GGAAATGGCT
24533 ATCGCAATGCGAAATGAAAATCGCAACGAC-AAA
1 ATCGCAATGCGAAATGAAAATCGCAACG-CGAAA
*
24566 ATCACAATGCGAAATGAAAATCGCAACGCGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAAA
24599 CACAAATCGC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGAAA
Found at i:24627 original size:19 final size:19
Alignment explanation
Indices: 24605--24701 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
24595 GAAACACAAA
24605 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
24624 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
24640 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
*
24657 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
24673 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
24690 TCGCATTGCGAT
1 TCGCATTGCGAT
24702 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 11 0.18
15 6 0.10
16 8 0.13
17 8 0.13
18 6 0.10
19 22 0.36
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:24646 original size:14 final size:14
Alignment explanation
Indices: 24627--24685 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
24617 TTTCATTTCG
24627 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
24641 CGTTGCAATTTTCATTT
1 CGTTGCGA-TTT--TGT
24658 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
24674 CGTTGCGATTTT
1 CGTTGCGATTTT
24686 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 17 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 5 0.14
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:24657 original size:33 final size:33
Alignment explanation
Indices: 24610--24701 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
24600 ACAAATCGCA
*
24610 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
24643 TTGCAATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
24676 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
24702 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:24708 original size:19 final size:19
Alignment explanation
Indices: 24686--24729 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
24676 TTGCGATTTT
24686 CATTTCGCA-TTGCGATAGC
1 CATTTC-CACTTGCGATAGC
*
24705 CATTTCCACGTTGCGATAGT
1 CATTTCCAC-TTGCGATAGC
24725 CATTT
1 CATTT
24730 TCGTGTTGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 2 0.09
19 6 0.27
20 14 0.64
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (19 bp):
CATTTCCACTTGCGATAGC
Found at i:25295 original size:18 final size:18
Alignment explanation
Indices: 25272--25319 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
25262 CGGGTCGATT
25272 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
**
25290 AGGTGATAACTCTGGGTG
1 AGGTGATGGCTCTGGGTG
25308 AGGTGATGGCTC
1 AGGTGATGGCTC
25320 CCGAAGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.12, G:0.44, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:26681 original size:20 final size:20
Alignment explanation
Indices: 26625--26682 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
26615 AATAGTTTCT
*
26625 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACAC
* *
26645 GAAAATGACAATTGCAACTC
1 GAAAATGACAATCGCAACAC
** *
26665 GAATTTGACTATCGCAAC
1 GAAAATGACAATCGCAAC
26683 GAGAGCATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.45, C:0.21, G:0.16, T:0.19
Consensus pattern (20 bp):
GAAAATGACAATCGCAACAC
Found at i:26963 original size:20 final size:19
Alignment explanation
Indices: 26938--26986 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
26928 TCTGAGAGAT
26938 GGAGATAGACGGATTTCGCC
1 GGAGATAGAC-GATTTCGCC
* *
26958 GGAGATGGGGACGATTTCGTC
1 GGAGAT--AGACGATTTCGCC
26979 GGAGATAG
1 GGAGATAG
26987 GTGAGAGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 1 0.04
20 6 0.25
21 14 0.58
22 3 0.12
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.20
Consensus pattern (19 bp):
GGAGATAGACGATTTCGCC
Found at i:27204 original size:20 final size:20
Alignment explanation
Indices: 27174--27287 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
27164 GATTATGTAT
*
27174 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* * *
27194 TATTGCGTTGCGAAATTAAG
1 TATCGCGTTGCGAAAGTCAG
27214 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
27234 TATCGAGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
27255 TATCGCGTTGCGATAGTCAA
1 TATCGCGTTGCGAAAGTCAG
27275 TATCGCGTTGCGA
1 TATCGCGTTGCGA
27288 TTTTCCAAAT
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
19 3 0.04
20 59 0.77
21 13 0.17
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:27273 original size:41 final size:41
Alignment explanation
Indices: 27154--27291 Score: 170
Period size: 41 Copynumber: 3.4 Consensus size: 41
27144 CGCTTTGAAA
* * *
27154 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* ** * *
27195 ATTGCGTTGCGAAATT-AAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* * *
27235 ATCGAGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAAT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
27276 ATCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
27292 CCAAATTCGC
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 33 0.42
41 46 0.58
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:27307 original size:41 final size:41
Alignment explanation
Indices: 27174--27309 Score: 114
Period size: 41 Copynumber: 3.3 Consensus size: 41
27164 GATTATGTAT
* * * * * ** *
27174 TATCTCGTTGCGAAAGTCAGTATTGCGTTGCGAAATT-AAG
1 TATCGCGTTGCGATAGTCAATATCGAGTTGCGATTTTCAAA
* * ** *
27214 TATCGCGTTGCGAAAGTCAGTATCGAGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAATATCGAGTTGCGATTTTCAAA
*
27255 TATCGCGTTGCGATAGTCAATATCGCGTTGCGATTTTCCAAA
1 TATCGCGTTGCGATAGTCAATATCGAGTTGCGATTTT-CAAA
*
27297 T-TCGCATTGCGAT
1 TATCGCGTTGCGAT
27310 TTACTTATTC
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
40 32 0.40
41 46 0.57
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAATATCGAGTTGCGATTTTCAAA
Found at i:27370 original size:21 final size:22
Alignment explanation
Indices: 27322--27370 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
27312 ACTTATTCGT
27322 ATTGCG-AATTGGGAAAATCGC
1 ATTGCGAAATTGGGAAAATCGC
**
27343 AACGCGAAATT-GGAAAATCGC
1 ATTGCGAAATTGGGAAAATCGC
27364 ATTGCGA
1 ATTGCGA
27371 TAGTCATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (22 bp):
ATTGCGAAATTGGGAAAATCGC
Found at i:28441 original size:14 final size:13
Alignment explanation
Indices: 28428--28485 Score: 52
Period size: 14 Copynumber: 4.6 Consensus size: 13
28418 TGAACATTCG
28428 TTTATGTTCGTTC
1 TTTATGTTCGTTC
*
28441 GGTTATGTTCG-T-
1 -TTTATGTTCGTTC
28453 TTT-TGTTCGTTC
1 TTTATGTTCGTTC
*
28465 ATT-TGTTCGTTC
1 TTTATGTTCGTTC
28477 ATTTATGTT
1 -TTTATGTT
28486 TAACCCAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
10 6 0.17
11 3 0.08
12 11 0.31
13 3 0.08
14 13 0.36
ACGTcount: A:0.09, C:0.12, G:0.19, T:0.60
Consensus pattern (13 bp):
TTTATGTTCGTTC
Found at i:28471 original size:12 final size:12
Alignment explanation
Indices: 28432--28480 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
28422 CATTCGTTTA
*
28432 TGTTCGTTCGGTT
1 TGTTCGTTC-ATT
28445 ATGTTCGTT--TT
1 -TGTTCGTTCATT
28456 TGTTCGTTCATT
1 TGTTCGTTCATT
28468 TGTTCGTTCATT
1 TGTTCGTTCATT
28480 T
1 T
28481 ATGTTTAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.24
11 2 0.06
12 15 0.45
14 8 0.24
ACGTcount: A:0.06, C:0.14, G:0.20, T:0.59
Consensus pattern (12 bp):
TGTTCGTTCATT
Found at i:29254 original size:10 final size:10
Alignment explanation
Indices: 29239--29296 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
29229 GGGTCTCCAA
29239 CGTTTATGTT
1 CGTTTATGTT
29249 CGTTTATGTT
1 CGTTTATGTT
29259 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
29270 ATGTTCGTGTT
1 -CGTTTATGTT
29281 CGTTTATGTT
1 CGTTTATGTT
29291 CGTTTA
1 CGTTTA
29297 ATTATTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
10 27 0.71
11 7 0.18
12 4 0.11
ACGTcount: A:0.10, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:29270 original size:16 final size:16
Alignment explanation
Indices: 29245--29293 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
29235 CCAACGTTTA
29245 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
29261 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
29277 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
29293 T
1 T
29294 TTAATTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.08, C:0.12, G:0.22, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:31592 original size:5 final size:5
Alignment explanation
Indices: 31579--31778 Score: 373
Period size: 5 Copynumber: 39.6 Consensus size: 5
31569 ATTGGGCTAG
*
31579 TTATG TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
31629 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
31679 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA -T-TATA TTATA
31731 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
31779 GTTACGTGGA
Statistics
Matches: 192, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
5 186 0.97
6 2 0.01
7 4 0.02
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:32042 original size:17 final size:18
Alignment explanation
Indices: 32017--32050 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32007 ACATATGTGT
*
32017 GTGTTTATAT-TATATAC
1 GTGTATATATATATATAC
32034 GTGTATATATATATATA
1 GTGTATATATATATATA
32051 TTATAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (18 bp):
GTGTATATATATATATAC
Found at i:34200 original size:25 final size:24
Alignment explanation
Indices: 34143--34200 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
34133 AATATTCCTT
34143 TTTTATTT-ATTTTGAATTTGGCA
1 TTTTATTTCATTTTGAATTTGGCA
* *
34166 TTTTCTTTTCATTTT-ATTTTGGTCA
1 TTTT-ATTTCATTTTGAATTTGG-CA
34191 CTTTTATTTC
1 -TTTTATTTC
34201 TGTTACTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 4 0.14
24 9 0.32
25 11 0.39
26 4 0.14
ACGTcount: A:0.16, C:0.10, G:0.09, T:0.66
Consensus pattern (24 bp):
TTTTATTTCATTTTGAATTTGGCA
Found at i:42020 original size:20 final size:20
Alignment explanation
Indices: 41997--42073 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
41987 ATTCTCGTTG
41997 CATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
* *
42017 CATTTCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGAT-TTTC
* **
42038 AAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
42058 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
42074 AGTTGAAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
20 31 0.67
21 15 0.33
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (20 bp):
CATTTCGCGTTGCGATTTTC
Found at i:42047 original size:21 final size:21
Alignment explanation
Indices: 42021--42227 Score: 160
Period size: 21 Copynumber: 10.1 Consensus size: 21
42011 ATTTTCCATT
42021 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
42042 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
42062 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * * **
42083 TCGCAATT-CG--CGTTGCATT
1 TCGC-GTTGCGATAGTTGAAAA
42102 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * * **
42123 TCGCAATT-CG--CGTTGCATT
1 TCGC-GTTGCGATAGTTGAAAA
42142 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
42163 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
42184 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
42204 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
42225 TCG
1 TCG
42228 AACGCGATTT
Statistics
Matches: 136, Mismatches: 40, Indels: 20
0.69 0.20 0.10
Matches are distributed among these distances:
18 4 0.03
19 22 0.16
20 30 0.22
21 76 0.56
22 4 0.03
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:42048 original size:41 final size:40
Alignment explanation
Indices: 42001--42174 Score: 230
Period size: 40 Copynumber: 4.3 Consensus size: 40
41991 TCGTTGCATT
42001 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGA-TTTCCATTTCGCGTTGCGATAGTTGAAAA
42042 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGA-TTTCCATTTCGCGTTGCGATAGTTGAAAA
* *
42083 TCGCAATTCGCG--TTGCATTTCGCGTTGCGATAGTTGAAAA
1 TCGC-GTT-GCGATTTCCATTTCGCGTTGCGATAGTTGAAAA
* *
42123 TCGCAATTCGCG--TTGCATTTCGCGTTGCGATAGTTGAAAA
1 TCGC-GTT-GCGATTTCCATTTCGCGTTGCGATAGTTGAAAA
42163 TCGCGTTGCGAT
1 TCGCGTTGCGAT
42175 AGTTGAAAAT
Statistics
Matches: 126, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
38 3 0.02
39 2 0.02
40 71 0.56
41 45 0.36
42 2 0.02
43 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (40 bp):
TCGCGTTGCGATTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:42113 original size:40 final size:40
Alignment explanation
Indices: 42017--42166 Score: 241
Period size: 40 Copynumber: 3.7 Consensus size: 40
42007 TGCGATTTTC
* *
42017 CATTTCGCGTTGCGATAGTTGAAAATCGC-GTT-GCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCAATTCGCG---TTG
42058 CATTTCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTG
1 CATTTCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTG
42098 CATTTCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTG
1 CATTTCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTG
42138 CATTTCGCGTTGCGATAGTTGAAAATCGC
1 CATTTCGCGTTGCGATAGTTGAAAATCGC
42167 GTTGCGATAG
Statistics
Matches: 105, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
40 71 0.68
41 29 0.28
42 2 0.02
43 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (40 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTG
Found at i:42209 original size:20 final size:20
Alignment explanation
Indices: 42184--42266 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 20
42174 TAGTTGAAAA
42184 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
42204 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
***
42225 TCG-AACGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
42244 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
42264 TCG
1 TCG
42267 TGGTCGTGGT
Statistics
Matches: 45, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
19 6 0.13
20 33 0.73
21 6 0.13
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:42244 original size:102 final size:100
Alignment explanation
Indices: 42062--42255 Score: 270
Period size: 102 Copynumber: 1.9 Consensus size: 100
42052 ATTTTCCATT
*
42062 TCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGC
1 TCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTCCATTTCGCGTTGCGATAGTTGAAAATCGC
*
42127 AATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAA
66 AA-TCGCGTTCCATTTCGCGTTGCGATAGTTGAAAA
*
42163 TCGCGTTGCGATAGTTGAAAATCGC-GTT-GCGATTTTCCATTTCGCGTTGCGATAGTTGAAAAT
1 TCGCGTTGCGATAGTTGAAAATCGCAATTCGCG---TTCCATTTCGCGTTGCGATAGTTGAAAAT
42226 CG-AA-CGCGATTTTCCATTTCGCGTTGCGAT
63 CGCAATCGCG---TTCCATTTCGCGTTGCGAT
42256 TTTCCATTTC
Statistics
Matches: 84, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
99 7 0.08
100 2 0.02
101 27 0.32
102 48 0.57
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (100 bp):
TCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTCCATTTCGCGTTGCGATAGTTGAAAATCGC
AATCGCGTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:42244 original size:142 final size:141
Alignment explanation
Indices: 41980--42255 Score: 423
Period size: 142 Copynumber: 1.9 Consensus size: 141
41970 GATCTCCACT
* * * **
41980 ATCGCAAATTCTCGTTGCATTTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCG
1 ATCGCAAATTCGCGTTGCATTTCGCGTTGCGATGTTCAAAATCGCGTTGCGATAGTTGAAAATCG
*
42045 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTGCATTTCGCGTTG
66 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCAA-TCGCGTTCCATTTCGCGTTG
42110 CGATAGTTGAAA
130 CGATAGTTGAAA
*
42122 ATCGC-AATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTGAAAATC
1 ATCGCAAATTCGCGTTGCATTTCGCGTTGCGAT-GTTCAAAATCGCGTTGCGATAGTTGAAAATC
42186 GCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCG-AA-CGCGATTTTCCATTTCGCG
65 GCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCAATCGCG---TTCCATTTCGCG
42249 TTGCGAT
127 TTGCGAT
42256 TTTCCATTTC
Statistics
Matches: 123, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
139 4 0.03
141 28 0.23
142 91 0.74
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (141 bp):
ATCGCAAATTCGCGTTGCATTTCGCGTTGCGATGTTCAAAATCGCGTTGCGATAGTTGAAAATCG
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCAATCGCGTTCCATTTCGCGTTGC
GATAGTTGAAA
Found at i:42246 original size:40 final size:41
Alignment explanation
Indices: 42163--42255 Score: 152
Period size: 40 Copynumber: 2.3 Consensus size: 41
42153 TAGTTGAAAA
***
42163 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTCCATT
42204 TCGCGTTGCGATAGTTGAAAATCG-AACGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTCCATT
42244 TCGCGTTGCGAT
1 TCGCGTTGCGAT
42256 TTTCCATTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 25 0.51
41 24 0.49
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (41 bp):
TCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTCCATT
Found at i:42273 original size:6 final size:6
Alignment explanation
Indices: 42264--42310 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
42254 ATTTTCCATT
42264 TCGTGG TCGTGG TCGTGG TCGTGG T--TGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
42310 T
1 T
42311 AATACGTGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.10
6 35 0.90
ACGTcount: A:0.00, C:0.15, G:0.49, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:42294 original size:16 final size:16
Alignment explanation
Indices: 42273--42304 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
42263 TTCGTGGTCG
42273 TGGTCGTGGTCGTGGT
1 TGGTCGTGGTCGTGGT
42289 TGGTCGTGGTCGTGGT
1 TGGTCGTGGTCGTGGT
42305 CGTGGTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.50, T:0.38
Consensus pattern (16 bp):
TGGTCGTGGTCGTGGT
Found at i:42295 original size:22 final size:22
Alignment explanation
Indices: 42267--42310 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
42257 TTCCATTTCG
42267 TGGTCGTGGTCGTGGTCGTGGT
1 TGGTCGTGGTCGTGGTCGTGGT
42289 TGGTCGTGGTCGTGGTCGTGGT
1 TGGTCGTGGTCGTGGTCGTGGT
42311 AATACGTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.50, T:0.36
Consensus pattern (22 bp):
TGGTCGTGGTCGTGGTCGTGGT
Found at i:42318 original size:22 final size:22
Alignment explanation
Indices: 42270--42318 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
42260 CATTTCGTGG
**
42270 TCGTGGTCGTGGTCGTGGTTGG
1 TCGTGGTCGTGGTCGTGGTTAA
42292 TCGTGGTCGTGGTCGTGG-TAA
1 TCGTGGTCGTGGTCGTGGTTAA
42313 TACGTG
1 T-CGTG
42319 TCTTCGACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.06, C:0.14, G:0.45, T:0.35
Consensus pattern (22 bp):
TCGTGGTCGTGGTCGTGGTTAA
Found at i:42443 original size:42 final size:41
Alignment explanation
Indices: 42394--42478 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 41
42384 TCAACGAATT
42394 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAA
* * *
42436 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAA
42477 TG
1 TG
42479 CAACGCGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 23 0.59
42 16 0.41
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.18
Consensus pattern (41 bp):
TGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAA
Found at i:42482 original size:21 final size:21
Alignment explanation
Indices: 42419--42482 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
42409 ACAACTGTAG
*
42419 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
42440 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
42460 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
42481 AC
1 AC
42483 GCGAATTTGC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:42534 original size:20 final size:20
Alignment explanation
Indices: 42511--42616 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
42501 AGATCGCGTT
*
42511 GCGATTTCAACTATCGCAAC
1 GCGATTGCAACTATCGCAAC
* * *
42531 GCGAAATGGAA-AATCGCAAC
1 GCG-ATTGCAACTATCGCAAC
*
42551 GCGATCTCCAACTATCGCAAC
1 GCGAT-TGCAACTATCGCAAC
* * * *
42572 GCGAAATGGAA-AAACGCAAC
1 GCG-ATTGCAACTATCGCAAC
* *
42592 GCGATTTTCAACTATCGCAAT
1 GCGA-TTGCAACTATCGCAAC
42613 GCGA
1 GCGA
42617 AATGCAACGT
Statistics
Matches: 61, Mismatches: 19, Indels: 11
0.67 0.21 0.12
Matches are distributed among these distances:
19 2 0.03
20 30 0.49
21 28 0.46
22 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (20 bp):
GCGATTGCAACTATCGCAAC
Found at i:42568 original size:41 final size:41
Alignment explanation
Indices: 42518--42620 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
42508 GTTGCGATTT
*
42518 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
* *
42559 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
*
42600 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
42621 CAACGTGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (41 bp):
CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
Found at i:42624 original size:21 final size:21
Alignment explanation
Indices: 42518--42624 Score: 92
Period size: 21 Copynumber: 5.2 Consensus size: 21
42508 GTTGCGATTT
42518 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
* * ** *
42539 GAA-AATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATG
42559 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
* * * ** *
42580 GAA-AAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATG
*
42600 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
42621 CAAC
1 CAAC
42625 GTGAATTTGC
Statistics
Matches: 61, Mismatches: 23, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
20 29 0.48
21 32 0.52
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (21 bp):
CAACTATCGCAACGCGAAATG
Found at i:43436 original size:15 final size:15
Alignment explanation
Indices: 43416--43451 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
43406 TGTATTTATG
43416 TTTATA-TATATCTTT
1 TTTATATTATAT-TTT
43431 TTTATATTATATTTT
1 TTTATATTATATTTT
43446 TTTATA
1 TTTATA
43452 ATAATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATATTATATTTT
Found at i:49094 original size:26 final size:27
Alignment explanation
Indices: 49049--49106 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
49039 AATATATTAT
*
49049 AAAAA-AGAAGAAGAAGAAGAAGAAAA
1 AAAAATAGAAAAAGAAGAAGAAGAAAA
*
49075 CAAAATAGAAAAAGAA-AAGAAGAAAA
1 AAAAATAGAAAAAGAAGAAGAAGAAAA
49101 AAAAAT
1 AAAAAT
49107 GAGAGATGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (27 bp):
AAAAATAGAAAAAGAAGAAGAAGAAAA
Found at i:49104 original size:12 final size:12
Alignment explanation
Indices: 49049--49104 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
49039 AATATATTAT
49049 AAAAAAGAAGAA
1 AAAAAAGAAGAA
* *
49061 GAAGAAGAAGAAA
1 AAAAAAGAAG-AA
49074 ACAAAATAGAA-AA
1 A-AAAA-AGAAGAA
*
49087 AGAAAAGAAGAA
1 AAAAAAGAAGAA
49099 AAAAAA
1 AAAAAA
49105 ATGAGAGATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
11 4 0.12
12 18 0.53
13 5 0.15
14 3 0.09
15 4 0.12
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (12 bp):
AAAAAAGAAGAA
Found at i:52917 original size:103 final size:103
Alignment explanation
Indices: 52785--52999 Score: 331
Period size: 103 Copynumber: 2.1 Consensus size: 103
52775 GTCGAGGGTC
* * *
52785 TATGTGGTCCTTCGAGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGGGGTCCTTCGAGACATATATATATTCTTTGGAACATGTGTAAAGTCCGGTGAGACACATAC
* * *
52850 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATAATTCTTAAGGAATGA
* * *
52888 TATGGGGTTCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCCGGTGAGACACATAC
1 TATGGGGTCCTTCGAGACATATATATATTCTTTGGAACATGTGTAAAGTCCGGTGAGACACATAC
*
52953 TTGATCCCTAGTATATGTATATAATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATAATTCTTAAGGAATGA
*
52991 TATGTGGTC
1 TATGGGGTC
53000 TTTATGGACA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (103 bp):
TATGGGGTCCTTCGAGACATATATATATTCTTTGGAACATGTGTAAAGTCCGGTGAGACACATAC
TTGATCCCTAGCATATGTATATAATTCTTAAGGAATGA
Found at i:53085 original size:23 final size:23
Alignment explanation
Indices: 53009--53086 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
52999 CTTTATGGAC
* *
53009 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTTCGGTGCA
* * * * *
53033 ATTCTACGCGACACTTTGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
53056 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
53079 ATTATATG
1 ATTATATG
53087 AGCTGTAGTG
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 39 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTTCGGTGCA
Found at i:57752 original size:21 final size:21
Alignment explanation
Indices: 57726--57781 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
57716 TTATGGGCAG
57726 AGTGCATCGATGCACATTCAT
1 AGTGCATCGATGCACATTCAT
57747 AGTGCATCGATGCACATTCAT
1 AGTGCATCGATGCACATTCAT
57768 AGTGCATCGATGCA
1 AGTGCATCGATGCA
57782 TCAAGGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (21 bp):
AGTGCATCGATGCACATTCAT
Found at i:58933 original size:103 final size:103
Alignment explanation
Indices: 58708--58922 Score: 394
Period size: 103 Copynumber: 2.1 Consensus size: 103
58698 GTCGAGGGTC
58708 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
58773 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
58811 TATGGGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
58876 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
58914 TATGTGGTC
1 TATGTGGTC
58923 TTTATGGACA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:59008 original size:23 final size:23
Alignment explanation
Indices: 58932--59009 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
58922 CTTTATGGAC
* *
58932 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTTCGGTGCA
* * * *
58956 ATTCTACGCGGCACTTTGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
58979 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
59002 ATTATATG
1 ATTATATG
59010 AGTTGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTTCGGTGCA
Found at i:60195 original size:46 final size:45
Alignment explanation
Indices: 60124--60248 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 45
60114 TATAAAATTT
60124 CTTACCATTT-ATCCTATAAGCTCGTAAGCTTATTTTACCAATAAA
1 CTTACCATTTAATCC-ATAAGCTCGTAAGCTTATTTTACCAATAAA
* *
60169 CTTACCATTTAATCACATAAGCTCGTAAGCTTATTTTACCCATATA
1 CTTACCATTTAATC-CATAAGCTCGTAAGCTTATTTTACCAATAAA
* * * *
60215 CTTTCTA-TTATTCCATAAGCTCGTAATCTTATTT
1 CTTACCATTTAATCCATAAGCTCGTAAGCTTATTT
60249 GCATGGTTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 20 0.28
45 15 0.21
46 36 0.50
47 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.41
Consensus pattern (45 bp):
CTTACCATTTAATCCATAAGCTCGTAAGCTTATTTTACCAATAAA
Found at i:60212 original size:25 final size:25
Alignment explanation
Indices: 60139--60212 Score: 59
Period size: 25 Copynumber: 3.1 Consensus size: 25
60129 CATTTATCCT
*
60139 ATAAGCTCGTAAGCTTATTTTACCA
1 ATAAGCTCGTAAGCTTATTTTACCC
* * * *
60164 ATAAACT--T-A-C-CATTTAATCAC
1 ATAAGCTCGTAAGCTTATTTTA-CCC
60185 ATAAGCTCGTAAGCTTATTTTACCC
1 ATAAGCTCGTAAGCTTATTTTACCC
60210 ATA
1 ATA
60213 TACTTTCTAT
Statistics
Matches: 34, Mismatches: 9, Indels: 12
0.62 0.16 0.22
Matches are distributed among these distances:
20 5 0.15
21 8 0.24
22 1 0.03
23 2 0.06
24 1 0.03
25 12 0.35
26 5 0.15
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (25 bp):
ATAAGCTCGTAAGCTTATTTTACCC
Found at i:60402 original size:40 final size:40
Alignment explanation
Indices: 60323--60402 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
60313 ATAGGAGTCA
* * * * * *
60323 AATATTGCACCGTAGTGTTGAGGTCGAGCTTTGCTCACCT
1 AATAATGCAACGTAATGCTGAGGTCGAGCTTTACCCACCT
60363 AATAATGCAACGTAATGCTGAGGTCGAGCTTTACCCACCT
1 AATAATGCAACGTAATGCTGAGGTCGAGCTTTACCCACCT
60403 GGTACACCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (40 bp):
AATAATGCAACGTAATGCTGAGGTCGAGCTTTACCCACCT
Found at i:62508 original size:30 final size:30
Alignment explanation
Indices: 62472--62530 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
62462 TTTGTTCCTT
*
62472 AAACTTT-CCAAAGTTTATACTTTGGTCACC
1 AAACTTTACCAAA-TTTATAATTTGGTCACC
62502 AAACTTTACCAAATTTATAATTTGGTCAC
1 AAACTTTACCAAATTTATAATTTGGTCAC
62531 TAAATAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTACCAAATTTATAATTTGGTCACC
Found at i:65071 original size:228 final size:228
Alignment explanation
Indices: 63962--65037 Score: 1341
Period size: 228 Copynumber: 4.7 Consensus size: 228
63952 CCTTACTGGC
* * *
63962 AAGACCATCACCCTT-GAGGTGGAAAGCTCCGACACCATTGATAATGTCAAGGCCAAGATCCAGG
1 AAGACCATCA-CCTTGGAGGTTGAGAGCTCCGACACCATTGATAATGTCAAGGCTAAGATCCAGG
* * * * * *
64026 ACAAGGAAGGAATCCCACCAGACCAACAGAGGCTT-ATCTTTGCTGGAAAACAGCTGGAGGATGG
65 ATAAGGAAGGGATCCCCCCAGACCAGCAGAGG-TTGATCTTTGCTGGGAAACAGCTCGAGGATGG
* * * * * * * * * ** *
64090 CCGTACTCTTGCGGACTACAACATTCAGAAGGAGTCCACGCTCCACTTGGTCCTTCGTTTGAGGG
129 CCGCACTCTTGCTGACTACAACATCCAGAAGGAATCCACCCTTCACTTGGTGCTCCGTCTCCGTG
* * * * * * *
64155 GTGGTATGCAAATCTTTGTTAAGACCCTTACCGGC
194 GTGGTATGCAGATTTTTGTGAAGACACTCACAGGG
* * * * * * * * *
64190 AAAACCATCACCCTAGAGGTGGAAAGCTCCGACACCATTGATAACGTCAAGGCCAAGATTCAAGA
1 AAGACCATCACCTTGGAGGTTGAGAGCTCCGACACCATTGATAATGTCAAGGCTAAGATCCAGGA
* * * * * *
64255 CAAGGAAGGGATTCCCCCGGACCAGCAGAGGTTGATATTTGCTGGTAAACAACTCGAGGATGGCC
66 TAAGGAAGGGATCCCCCCAGACCAGCAGAGGTTGATCTTTGCTGGGAAACAGCTCGAGGATGGCC
*
64320 GCAC-CTTGGCTGACTATAACATCCAGAAGGAATCCACCCTTCACTTGGTGCTCCGTCTCCGTGG
131 GCACTCTT-GCTGACTACAACATCCAGAAGGAATCCACCCTTCACTTGGTGCTCCGTCTCCGTGG
64384 TGGTATGCAGATTTTTGTGAAGACACTCACAGGG
195 TGGTATGCAGATTTTTGTGAAGACACTCACAGGG
* * * * *
64418 AAGACCATCACCTTGGAGGTTGAGAGCTCGGACACCATTGACAATGTCAAGGCTAAAATTCAAGA
1 AAGACCATCACCTTGGAGGTTGAGAGCTCCGACACCATTGATAATGTCAAGGCTAAGATCCAGGA
* * * * * * *
64483 TAAGGAAGGTATCCCGCCAGACCAGCAGAGGTTGATTTTTGCCGGTAAACAACTCGAAGATGGCC
66 TAAGGAAGGGATCCCCCCAGACCAGCAGAGGTTGATCTTTGCTGGGAAACAGCTCGAGGATGGCC
*
64548 GCAC-CTTGGCTGACTACAACATCCAAAAGGAATCCACCCTTCACTTGGTGCTCCGTCTCCGTGG
131 GCACTCTT-GCTGACTACAACATCCAGAAGGAATCCACCCTTCACTTGGTGCTCCGTCTCCGTGG
64612 TGGTATGCAGATTTTTGTGAAGACACTCACAGGG
195 TGGTATGCAGATTTTTGTGAAGACACTCACAGGG
* *
64646 AAGACCATCACCTTGGAGGTTGAGAGCTCGGACACCATTGACAATGTCAAGGCTAAGATCCAGGA
1 AAGACCATCACCTTGGAGGTTGAGAGCTCCGACACCATTGATAATGTCAAGGCTAAGATCCAGGA
* * * *
64711 TAAGGAAGGTATCCCCCCAGACCAGCAGAGGTTGATCTTTGCTGGGAAGCAGCTTGAGGATGGCA
66 TAAGGAAGGGATCCCCCCAGACCAGCAGAGGTTGATCTTTGCTGGGAAACAGCTCGAGGATGGCC
* * * * * * *
64776 GGACTCTTGCTGACTACAACATTCAGAAAGAGTCGACCCTTCACTTAGTGCTTCGTCTCCGTGGT
131 GCACTCTTGCTGACTACAACATCCAGAAGGAATCCACCCTTCACTTGGTGCTCCGTCTCCGTGGT
* *
64841 GGTATGCAGATTTTTGTGAAGACGCTCACCGGG
196 GGTATGCAGATTTTTGTGAAGACACTCACAGGG
* *
64874 AAGACCATCACCTTGGAGGTTGAGAGCTCAGACACCATTGATAATGTGAAGGCTAAGATCCAGGA
1 AAGACCATCACCTTGGAGGTTGAGAGCTCCGACACCATTGATAATGTCAAGGCTAAGATCCAGGA
* * * * * * *
64939 TAAGGAAGGGATCCCCCCGGACCAGCAGAGGCTAATCTTTGCAGGGAAGCAGCTTGAGGATGGCA
66 TAAGGAAGGGATCCCCCCAGACCAGCAGAGGTTGATCTTTGCTGGGAAACAGCTCGAGGATGGCC
* *
65004 GGACTCTTGCGGACTACAACATCCAGAAGGAATC
131 GCACTCTTGCTGACTACAACATCCAGAAGGAATC
65038 GACTCTCCAC
Statistics
Matches: 756, Mismatches: 88, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
227 8 0.01
228 745 0.99
229 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (228 bp):
AAGACCATCACCTTGGAGGTTGAGAGCTCCGACACCATTGATAATGTCAAGGCTAAGATCCAGGA
TAAGGAAGGGATCCCCCCAGACCAGCAGAGGTTGATCTTTGCTGGGAAACAGCTCGAGGATGGCC
GCACTCTTGCTGACTACAACATCCAGAAGGAATCCACCCTTCACTTGGTGCTCCGTCTCCGTGGT
GGTATGCAGATTTTTGTGAAGACACTCACAGGG
Found at i:67002 original size:20 final size:21
Alignment explanation
Indices: 66963--67003 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
66953 GCCATGAACT
66963 TTAAACAAAGTTAAAGATTGA
1 TTAAACAAAGTTAAAGATTGA
66984 TTAAA-AAAGTATAAA-ATTGA
1 TTAAACAAAGT-TAAAGATTGA
67004 GCTCGACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.29
Consensus pattern (21 bp):
TTAAACAAAGTTAAAGATTGA
Found at i:67129 original size:25 final size:26
Alignment explanation
Indices: 67083--67132 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
67073 TCACATGCTT
*
67083 AAATTTTTTAAATACGATTCAAAATC
1 AAATTTTTAAAATACGATTCAAAATC
67109 AAATTTTTAAAACT-CGA-TCAAAAT
1 AAATTTTTAAAA-TACGATTCAAAAT
67133 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 14 0.64
27 1 0.05
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36
Consensus pattern (26 bp):
AAATTTTTAAAATACGATTCAAAATC
Found at i:68204 original size:65 final size:64
Alignment explanation
Indices: 68135--68261 Score: 184
Period size: 64 Copynumber: 2.0 Consensus size: 64
68125 CGAATGCATT
* * *
68135 CCATGCATCGATGCACTCTGAATA-TTTTCAAAACATCGAATGCATTTGATGCATCGATGCACAA
1 CCATGCATAGATGCAC-CAGAATATTTTTC-AAACATCGAATGCATTTCATGCATCGATGCACAA
68199 G
64 G
**
68200 CCATGCATAGATGCACCAGGCTATTTTTCAAACATCGAATGCATTTCATGCATCGATGCACA
1 CCATGCATAGATGCACCAGAATATTTTTCAAACATCGAATGCATTTCATGCATCGATGCACA
68262 CTTGGTGCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
64 36 0.64
65 20 0.36
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (64 bp):
CCATGCATAGATGCACCAGAATATTTTTCAAACATCGAATGCATTTCATGCATCGATGCACAAG
Found at i:70380 original size:20 final size:21
Alignment explanation
Indices: 70347--70386 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
70337 TTTTAACATA
70347 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
70367 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
70387 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:70394 original size:22 final size:20
Alignment explanation
Indices: 70336--70390 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
70326 CTTGGTCAAA
*
70336 ATTTTAACATAATTGATATTC
1 ATTTTAA-ACAATTGATATTC
*
70357 ATTTTAAACCATTGATA-TC
1 ATTTTAAACAATTGATATTC
70376 AATTTTCAAACAATT
1 -ATTTT-AAACAATT
70391 TGATTTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 13 0.45
21 14 0.48
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.44
Consensus pattern (20 bp):
ATTTTAAACAATTGATATTC
Found at i:76210 original size:19 final size:19
Alignment explanation
Indices: 76186--76224 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
76176 TCGAATGCAT
76186 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
76205 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
76224 T
1 T
76225 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:76241 original size:65 final size:64
Alignment explanation
Indices: 76123--76331 Score: 212
Period size: 65 Copynumber: 3.2 Consensus size: 64
76113 TATTCAAAGG
* *
76123 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGC
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGC
*
76184 ATTC
61 ATTT
76188 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * **
76253 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
*
76317 CATGCATCGATGCAC
1 CATGCACCGATGCAC
76332 ACTTGGTGCA
Statistics
Matches: 126, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
63 7 0.06
64 52 0.41
65 65 0.52
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:76349 original size:64 final size:65
Alignment explanation
Indices: 76172--76334 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
76162 GAATTAATTG
* * * *
76172 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
76237 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
76300 A
65 A
76301 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
76335 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:79129 original size:228 final size:227
Alignment explanation
Indices: 78515--80088 Score: 1644
Period size: 228 Copynumber: 6.9 Consensus size: 227
78505 GACATTACAG
* * * * *
78515 ATGCAGATCTTTGTGAAAACTCTTACTGGTAAGACAATCACCCTCGAGGTTGAAAGCTCGGACAC
1 ATGCAGATCTTTGT-AAAACTCTTACTGGCAAGACCATCACCCTCGAGGTGGAGAGCTCTGACAC
* * * * *
78580 AATTGATAATGTCAAGGCCAAGATCCAGGATAAGGAAGGG-ATCCCTCCTGACCAACAGAGGCTT
65 TATTGACAATGTCAAGGCCAAGATCCAGGACAAGG-AGGGCATCCCACCTGACCAGCAGAGGCTT
* * * *
78644 ATCTTTGCTGGCAAACAACTCGAGGATGGCCGTACACTTGCTGATTACAACATCCA-AAAGGAGT
129 ATCTTTGCTGGCAAGCAACTTGAGGATGGCCGAACTCTTGCTGATTACAACATCCAGAAA-GAGT
* * * *
78708 CTACCCTCCATCTTGTCCTTCGGCTCAGGGGTGGC
193 CAACCCTGCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * *
78743 ATGCAGATTTTTGTAAAAACCCTTACTGGCAAGACAATCACCCT-GAGGTGGAAAGCTCCGATAC
1 ATGCAGATCTTTGT-AAAACTCTTACTGGCAAGACCATCACCCTCGAGGTGGAGAGCTCTGACAC
* * * *
78807 TATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGCATACCACCTGACCAGCAGAGGCTTA
65 TATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAGGGCATCCCACCTGACCAGCAGAGGCTTA
* * * * *
78872 TCTTTGCCGGCAAACAACTCGAGGATGGCCGCACTCTTGCTGACTACAACATCCAGAAAGAGTCA
130 TCTTTGCTGGCAAGCAACTTGAGGATGGCCGAACTCTTGCTGATTACAACATCCAGAAAGAGTCA
*
78937 ACCCTGCACCTTGTTCTTCGTCTCAGGGGTGGC
195 ACCCTGCACCTTGTCCTTCGTCTCAGGGGTGGC
78970 ATGCAGATCTTTGTAAAGACTCTTACTGGCAAGACCATCACCCTCGAGGTGGAGAGCTCTGACAC
1 ATGCAGATCTTTGTAAA-ACTCTTACTGGCAAGACCATCACCCTCGAGGTGGAGAGCTCTGACAC
* *
79035 TATTGACAATGTCAAGGCCAAGATCCAAGACAAGGAGGGCATCCCACCAGACCAGCAGAGGCTTA
65 TATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAGGGCATCCCACCTGACCAGCAGAGGCTTA
* * * *
79100 TCTTTGCCGGCAAGCAACTTGAGGATGGCCGCACTCTTGCTGACTACAATATCCAGAAAGAGTCA
130 TCTTTGCTGGCAAGCAACTTGAGGATGGCCGAACTCTTGCTGATTACAACATCCAGAAAGAGTCA
79165 ACCCTGCACCTTGTCCTTCGTCTCAGGGGTGGC
195 ACCCTGCACCTTGTCCTTCGTCTCAGGGGTGGC
*
79198 ATGCAGATCTTTGTGAAGACTCTTACTGGCAAGACCATCACCCTCGAGGTGGAGAGCTCTGACAC
1 ATGCAGATCTTTGT-AAAACTCTTACTGGCAAGACCATCACCCTCGAGGTGGAGAGCTCTGACAC
* * * * *
79263 TATTGACAATGTCAAGGCCAAGATCCAGGATAAGGAGGGCATTCCACCAGATCAGCAGAGGCTAA
65 TATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAGGGCATCCCACCTGACCAGCAGAGGCTTA
* * * * * * *
79328 TCTTTGCGGGTAAACAACTTGAGGATGGCAGAACCCTTGCTGACTACAACATCCAGAAAGAATCA
130 TCTTTGCTGGCAAGCAACTTGAGGATGGCCGAACTCTTGCTGATTACAACATCCAGAAAGAGTCA
* *
79393 ACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGC
195 ACCCTGCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * * ** * * *
79426 ATGCAGATCTTTGTAAAACCCTCACTGGAAAAACCATCACTTTGGAGGT-G-GAGTTCTGATACT
1 ATGCAGATCTTTGTAAAACTCTTACTGGCAAGACCATCACCCTCGAGGTGGAGAGCTCTGACACT
* * * *
79489 ACTGACAATGTCAAGGCCAAGATCCAAGACAAGGAGGGCATCCCACCTGATCAACAGA-GCTTAT
66 ATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAGGGCATCCCACCTGACCAGCAGAGGCTTAT
* * * ** * * * * *
79553 TTTTGCTGGAAAGC-AGTTGGAGGATGGGAGGACACTTGCTGATTATAATATTCAG-AAGAGTCA
131 CTTTGCTGGCAAGCAACTT-GAGGATGGCCGAACTCTTGCTGATTACAACATCCAGAAAGAGTCA
* * *
79616 ACCCTCCA-CTTGGTCCTTCGTCTGC-GTGGTGGA
195 ACCCTGCACCTT-GTCCTTCGTCT-CAGGGGTGGC
* * * * ** *
79649 ATGCAGATTTTTGTGAAAACT-TTGACCGGTAAGACCATTACATTGGAGGTGGAGAGCTCTGACA
1 ATGCAGATCTTTGT-AAAACTCTT-ACTGGCAAGACCATCACCCTCGAGGTGGAGAGCTCTGACA
* * *
79713 CAATTGACAATGTCAAGGCCAAGATCCAGGATAAGGAGGGCATACCACCTGACCAGCAGAGG-TT
64 CTATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAGGGCATCCCACCTGACCAGCAGAGGCTT
* * * ** * * * *
79777 GATTTTTGCTGGAAAGCAGCTTGAGGATGGGAGGACTCTTGCCGATTATAACATTCA-AAAGGAG
129 -ATCTTTGCTGGCAAGCAACTTGAGGATGGCCGAACTCTTGCTGATTACAACATCCAGAAA-GAG
* * * * * * *
79841 TCAACTCTGCA-CTTGGT-TTTGCGCCTTAGAGGAGGG
192 TCAACCCTGCACCTT-GTCCTT-CGTCTCAGGGGTGGC
* * * * * * * * *
79877 ATGCAGA--TTTGTCAAGACCCTGACTGGTAA-ACAATCACCCTTGAGGTTGAAAGCTCAGACAC
1 ATGCAGATCTTTGT-AAAACTCTTACTGGCAAGACCATCACCCTCGAGGTGGAGAGCTCTGACAC
* * * * * * * *
79939 GATTGACAATGTGAAAGCAAAGATTCAGGACAAGGAGGGAATTCCC-CCGGATCAGCAGAGG-TT
65 TATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAGGGCA-TCCCACCTGACCAGCAGAGGCTT
* * * *
80002 GATCTTTGCTGGGAAGC-AGTTGGAGGATGGTCGAACT-TTAGCTGATTACAACATCCAGAAGGA
129 -ATCTTTGCTGGCAAGCAACTT-GAGGATGGCCGAACTCTT-GCTGATTACAACATCCAGAAAGA
* *
80065 GTCCACCCTGCATCTTGTCCTTCG
191 GTCAACCCTGCACCTTGTCCTTCG
80089 CCTCCGTGGT
Statistics
Matches: 1167, Mismatches: 153, Indels: 55
0.85 0.11 0.04
Matches are distributed among these distances:
222 3 0.00
223 49 0.04
224 74 0.06
225 194 0.17
226 98 0.08
227 273 0.23
228 474 0.41
229 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (227 bp):
ATGCAGATCTTTGTAAAACTCTTACTGGCAAGACCATCACCCTCGAGGTGGAGAGCTCTGACACT
ATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAGGGCATCCCACCTGACCAGCAGAGGCTTAT
CTTTGCTGGCAAGCAACTTGAGGATGGCCGAACTCTTGCTGATTACAACATCCAGAAAGAGTCAA
CCCTGCACCTTGTCCTTCGTCTCAGGGGTGGC
Found at i:85790 original size:39 final size:39
Alignment explanation
Indices: 85756--85833 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
85746 CATGCAATCT
85756 AATCCATGTATTTAAAAGGCATGAATTAACATGCAACAA
1 AATCCATGTATTTAAAAGGCATGAATTAACATGCAACAA
85795 AATCCATGTATTTAAAAGGCATGAATTAACATGCAACAA
1 AATCCATGTATTTAAAAGGCATGAATTAACATGCAACAA
85834 GTATAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (39 bp):
AATCCATGTATTTAAAAGGCATGAATTAACATGCAACAA
Found at i:87932 original size:24 final size:24
Alignment explanation
Indices: 87900--87952 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
87890 TTGTGAAATA
87900 CTGAAAGAAAGCTTACTATTTAGG
1 CTGAAAGAAAGCTTACTATTTAGG
87924 CTGAAAGAAAGCTTACTATTTAGG
1 CTGAAAGAAAGCTTACTATTTAGG
87948 CTGAA
1 CTGAA
87953 CAACACTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (24 bp):
CTGAAAGAAAGCTTACTATTTAGG
Found at i:88546 original size:787 final size:790
Alignment explanation
Indices: 87123--88556 Score: 2329
Period size: 787 Copynumber: 1.8 Consensus size: 790
87113 TTGTGAAATA
87123 CTGAAAGAAAGCTTACTATTTAGGCTGAACAACACCGACTCTTCAAGAACTCTATTGATAACCCA
1 CTGAAAGAAAGCTTACTATTTAGGCTGAACAACACCGACTCTTCAAGAACTCTATTGATAACCCA
* * * * *
87188 TATTTTGAGTCCAACATGAGCAAATAATAGACAAAACTATAATCGAAAAGCAGCAGAAAGATTTC
66 GATTTTGAGTCCAACACGAGCAAATAATAGACAAAACCATAATCGAAAAGCAACAGAAAGAATTC
*
87253 GTTTCTAAATTGTTGGTAAAATAGACTGCTGCAAAACGAGGCATTAGCATTGATTGAAAAATATA
131 GTTTCTAAATTGTTGGTAAAATAGACTGCTGCAAAACGAGGCATTA-CA-TCATTG--------A
* *
87318 TACTGAAATATATAACTAAAGAACCGATTAACAGTGTCGTGGTATTAACCACTGCCTTATAAACG
186 -ACTGAAATATATAACTAAAGAACCGATTAACAGTGTCGTGGTATTAACCACTGCCTTAGAAACA
* * * *
87383 AATTCGCCCCGATGTGTGTAATCACTCCAATAGGCGGATCATCCCCTGAGGTTAACATGGTCGCT
250 AATTCACCCCGATATGTGTAATCACTCCAATAGGCGGATCATCCCCCGAGGTTAACACGGTCGCT
* * *
87448 TCAAATTTAGTACACCTAAAACTAGAGTGGACTGCTGGTGGTATTTGTACTTCTGATCGGAAAGC
315 TCAAATTTAGTACACCCAAAACTAGAGTGAACTACTGGTGGTATTTGTACTTCTGATCGGAAAGC
*
87513 ACGAAGAGAACAACTTTAGAAAACACTTAGAGAGTGAATTCTAATTATAGAGAGTGTGAGTTTAG
380 ACGAAGAGAACAACTTTAGAAAACACTTAGAGAGTGAATTCTAATTATAGAGAGTGTGAGTTGAG
*
87578 AAGCTGAACTCAGCTCTCTATTTATAGGCTATAAGTAAGGGTAAATCCGTCCAATAAGAAAATCA
445 AAGCTGAACTCAGCTCTCTATTTATAAGCTATAAGTAAGGGTAAATCCGTCCAATAAGAAAATCA
* * * *
87643 AATTAAATTTGATTTTAATTCTGAATTTAAACCCTTTTTGTAACTCCTCTTGATGAATCTGGCTC
510 AATTAAATTTGATTTTAATTATGAATTTAAACCCTTTTTGTAACTCATCTTGATGAATCTGACTA
* *
87708 AAAAAGAGTCCAGATTCATTGCATAAAAACAATTATAACTCCTGAAATTAAATCATATAACTCAT
575 AAAAAGAGTACAGATTCATTGCATAAAAACAATTATAACTCCTGAAATTAAATCAGATAACTCAT
87773 GTTGTTAACAACTTGTCTCCCATTAACAAAGCTGGAAATCAGTCCAGGTTCAGTCTTTCGTTTCT
640 GTTGTTAACAACTTGTCTCCCATTAACAAAGCTGGAAATCAGTCCAGGTTCAGTCTTTCGTTTCT
87838 AGGGCATTTCAACTTCTACCATTTTACTTCTACTTTGGCAGAATGCATGTAATTGTGAAATACTG
705 AGGGCATTTCAACTTCTACCATTTTACTTCTACTTTGGCAGAATGCATGTAATTGTGAAATACTG
87903 AAAGAAAGCTTACTATTTAGG
770 AAAGAAAGCTTACTATTTAGG
* * *
87924 CTGAAAGAAAGCTTACTATTTAGGCTGAACAACACTGACTCTTCAAGACCTCTGTTGATAACCCA
1 CTGAAAGAAAGCTTACTATTTAGGCTGAACAACACCGACTCTTCAAGAACTCTATTGATAACCCA
87989 GATTTTGAGTCCAACACGAGCAAATAATAGA-AAAAGCCATAATCGAAAAGCAACAGAAAGAATT
66 GATTTTGAGTCCAACACGAGCAAATAATAGACAAAA-CCATAATCGAAAAGCAACAGAAAGAATT
88053 CGTTTCTAAATTGTTGGTAAAATAGACTGCTGCAAAACGAGGCATTA-A-CATTG-ACTGAAATA
130 CGTTTCTAAATTGTTGGTAAAATAGACTGCTGCAAAACGAGGCATTACATCATTGAACTGAAATA
88115 TATAACTAAAGAACCGATTAACAGTGTCGTGGTATTAACCACTGCCTTAGAAACAAATTCACCCC
195 TATAACTAAAGAACCGATTAACAGTGTCGTGGTATTAACCACTGCCTTAGAAACAAATTCACCCC
* *
88180 GATATGTGTAATCACTCCAATAGGCGGATCGTCCCCCGAGGTTAACACGGTCGC-TCTAAATTTC
260 GATATGTGTAATCACTCCAATAGGCGGATCATCCCCCGAGGTTAACACGGTCGCTTC-AAATTTA
* * * *
88244 GTACACCCGAAACTGGAGTGAACTACTGGTGGTATTTGTACTTTTGATCGGAAAGCATGAAGAGA
324 GTACACCCAAAACTAGAGTGAACTACTGGTGGTATTTGTACTTCTGATCGGAAAGCACGAAGAGA
* * * *
88309 ACAACTTTAGAAAACACTTAGAGAGTGAATTCTAATTGTATAGAGTGTGAGTTGAGAAGTTGAAT
389 ACAACTTTAGAAAACACTTAGAGAGTGAATTCTAATTATAGAGAGTGTGAGTTGAGAAGCTGAAC
* * *
88374 TCTGGTCTCTATTTATAAGTTATAAGTAAGGGTAAATCCGTCCAATAAGAAAATCAAATTAAATT
454 TCAGCTCTCTATTTATAAGCTATAAGTAAGGGTAAATCCGTCCAATAAGAAAATCAAATTAAATT
*
88439 TGGTTTTAATTATGAATTTAAACCCTTTTTGTAACTCATCTTGATGAATCTGACTAAAAAAGAGT
519 TGATTTTAATTATGAATTTAAACCCTTTTTGTAACTCATCTTGATGAATCTGACTAAAAAAGAGT
* * *
88504 ACAGGTTCATTGCGTAAAAACAATTATAACTCCTTAAATTAAATCAGATAACT
584 ACAGATTCATTGCATAAAAACAATTATAACTCCTGAAATTAAATCAGATAACT
88557 GTAACTCCCA
Statistics
Matches: 588, Mismatches: 43, Indels: 18
0.91 0.07 0.03
Matches are distributed among these distances:
786 2 0.00
787 414 0.70
797 4 0.01
799 1 0.00
800 4 0.01
801 163 0.28
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (790 bp):
CTGAAAGAAAGCTTACTATTTAGGCTGAACAACACCGACTCTTCAAGAACTCTATTGATAACCCA
GATTTTGAGTCCAACACGAGCAAATAATAGACAAAACCATAATCGAAAAGCAACAGAAAGAATTC
GTTTCTAAATTGTTGGTAAAATAGACTGCTGCAAAACGAGGCATTACATCATTGAACTGAAATAT
ATAACTAAAGAACCGATTAACAGTGTCGTGGTATTAACCACTGCCTTAGAAACAAATTCACCCCG
ATATGTGTAATCACTCCAATAGGCGGATCATCCCCCGAGGTTAACACGGTCGCTTCAAATTTAGT
ACACCCAAAACTAGAGTGAACTACTGGTGGTATTTGTACTTCTGATCGGAAAGCACGAAGAGAAC
AACTTTAGAAAACACTTAGAGAGTGAATTCTAATTATAGAGAGTGTGAGTTGAGAAGCTGAACTC
AGCTCTCTATTTATAAGCTATAAGTAAGGGTAAATCCGTCCAATAAGAAAATCAAATTAAATTTG
ATTTTAATTATGAATTTAAACCCTTTTTGTAACTCATCTTGATGAATCTGACTAAAAAAGAGTAC
AGATTCATTGCATAAAAACAATTATAACTCCTGAAATTAAATCAGATAACTCATGTTGTTAACAA
CTTGTCTCCCATTAACAAAGCTGGAAATCAGTCCAGGTTCAGTCTTTCGTTTCTAGGGCATTTCA
ACTTCTACCATTTTACTTCTACTTTGGCAGAATGCATGTAATTGTGAAATACTGAAAGAAAGCTT
ACTATTTAGG
Found at i:89737 original size:62 final size:62
Alignment explanation
Indices: 89640--89774 Score: 225
Period size: 62 Copynumber: 2.2 Consensus size: 62
89630 AAAAAATGCA
* *
89640 TGGTTTAATTATACTTTAGAACCCTCTCAGTTTTAAAATGAACTTTTGATTTTTATTTTTTT
1 TGGTTTAATTATACTTTAGAACCCTCTCAGTTTTAAAATGAACTTTTAATTTTTAATTTTTT
* *
89702 TGGTTTAATTGTACTTTAGAACCCTCTCATTTTTAAAATGAACTTTTAATTTTTAATTTTTT
1 TGGTTTAATTATACTTTAGAACCCTCTCAGTTTTAAAATGAACTTTTAATTTTTAATTTTTT
*
89764 TAGTTTAATTA
1 TGGTTTAATTA
89775 CTTTTTAAGA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 67 1.00
ACGTcount: A:0.27, C:0.10, G:0.09, T:0.53
Consensus pattern (62 bp):
TGGTTTAATTATACTTTAGAACCCTCTCAGTTTTAAAATGAACTTTTAATTTTTAATTTTTT
Found at i:90190 original size:23 final size:23
Alignment explanation
Indices: 90164--90211 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
90154 ATAAAGTACA
*
90164 ATAATATACTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
90187 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
90210 AT
1 AT
90212 TTACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:90664 original size:23 final size:23
Alignment explanation
Indices: 90638--90700 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
90628 ATATAACCAC
90638 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
90661 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
90684 TACCTATTACATCATAT
1 TACCTATTACATTATAT
90701 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:92545 original size:183 final size:183
Alignment explanation
Indices: 92231--92902 Score: 1206
Period size: 183 Copynumber: 3.7 Consensus size: 183
92221 CTTAAATTAC
92231 CGACACTTTTT-A-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* ** *
92294 TATTGTAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
* *
92359 TATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* * *
92413 CGATACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
92477 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
*
92542 TATATTACAAAATTATCTATTACATCATAATTATGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
92596 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
92661 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
92726 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
92779 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
92844 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATA
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATA
92903 ATATGTTGAA
Statistics
Matches: 474, Mismatches: 14, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
182 10 0.02
183 461 0.97
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:94097 original size:198 final size:199
Alignment explanation
Indices: 93363--94317 Score: 1803
Period size: 199 Copynumber: 4.8 Consensus size: 199
93353 ATGTACACAA
93363 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
1 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
93428 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
66 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
93493 ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACAC
131 ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACAC
93558 AAAC
196 AAAC
93562 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
1 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
93627 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
66 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
93692 ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACAC
131 ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACAC
93756 -AAC
196 AAAC
* *
93759 --TATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTATACCGGTTA
1 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
93822 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
66 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
93887 ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACAC
131 ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACAC
93951 AAAC
196 AAAC
93955 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
1 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
94020 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
66 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
94085 ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACAC
131 ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACAC
94150 AAAC
196 AAAC
* *
94154 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGACTTGTACCGGTTA
1 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
* * *
94219 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATTGACACTTTTTA
66 GATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGATCGACACTTTTTA
94284 TATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TATATGGATCGACACTTTATGGGTGCACCCTGTT
94318 GGCCATATTC
Statistics
Matches: 742, Mismatches: 9, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
195 190 0.26
196 3 0.00
197 3 0.00
198 190 0.26
199 295 0.40
200 61 0.08
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (199 bp):
TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACAC
AAAC
Found at i:94459 original size:18 final size:19
Alignment explanation
Indices: 94436--94479 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
94426 TTATATTCAC
94436 ATACAAAA-TATAAATCGT
1 ATACAAAATTATAAATCGT
*
94454 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
94473 ATACAAA
1 ATACAAA
94480 TTAACCCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:96306 original size:33 final size:33
Alignment explanation
Indices: 96269--96334 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
96259 CATCTTAATA
*
96269 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* * *
96302 TCACCCCTCAATACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
96335 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:96393 original size:21 final size:21
Alignment explanation
Indices: 96368--96432 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
96358 CCCCTTATGC
* *
96368 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
96389 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
96410 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
96431 CT
1 CT
96433 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:98673 original size:17 final size:18
Alignment explanation
Indices: 98651--98693 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
98641 ATATATCCGG
98651 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
98668 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
98688 TATCAT
1 TATCAT
98694 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:98711 original size:20 final size:19
Alignment explanation
Indices: 98656--98702 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
98646 TCCGGTATCA
98656 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
98675 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
98696 TTTTACC
1 TTTTACC
98703 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:98866 original size:20 final size:20
Alignment explanation
Indices: 98836--98882 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
98826 TCCGGTAACG
*
98836 TTTTACTGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
98855 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
98876 TTTTACC
1 TTTTACC
98883 TGGTATATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:99109 original size:182 final size:180
Alignment explanation
Indices: 98623--99094 Score: 703
Period size: 180 Copynumber: 2.6 Consensus size: 180
98613 CGTACTTACG
* * *
98623 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
98688 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTAAAGTATCGACACATTATA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
* *
98753 GGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* * *
98803 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACTGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
98868 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACACATTAT
** *
98933 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * *
98985 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
99049 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
99095 AATTTGGATC
Statistics
Matches: 263, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
180 103 0.39
181 62 0.24
182 97 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (180 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:100042 original size:2 final size:2
Alignment explanation
Indices: 100035--100064 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
100025 CCCAAAACTC
*
100035 AG AG AG AG AG AG AG AG AT AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
100065 CTCAGGCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
AG
Found at i:103410 original size:31 final size:31
Alignment explanation
Indices: 103374--103452 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 31
103364 ATTCAAGTTT
*
103374 TTTTGAGTTCAAGTCAAGCTGT-AATTTTTTA
1 TTTTGAGTACAAGTCAAGCT-TCAATTTTTTA
*
103405 TTTTGAGTACAAATCAAGCTTCAATTTTTTA
1 TTTTGAGTACAAGTCAAGCTTCAATTTTTTA
103436 TTTTGAGTACAAGTCAA
1 TTTTGAGTACAAGTCAA
103453 AGTTGATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 1 0.02
31 43 0.98
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.44
Consensus pattern (31 bp):
TTTTGAGTACAAGTCAAGCTTCAATTTTTTA
Found at i:103466 original size:31 final size:30
Alignment explanation
Indices: 103374--103466 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 30
103364 ATTCAAGTTT
* *
103374 TTTTGAGTTCAAGTCAAGCTG-TAATTTTTTA
1 TTTTGAGTACAAGTCAAGTTGATAA--TTTTA
* * *
103405 TTTTGAGTACAAATCAAGCTTCA-ATTTTTTA
1 TTTTGAGTACAAGTCAAG-TTGATA-ATTTTA
103436 TTTTGAGTACAAGTCAAAGTTGATAATTTTA
1 TTTTGAGTACAAGTC-AAGTTGATAATTTTA
103467 AGCTCGTGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
31 43 0.88
32 6 0.12
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (30 bp):
TTTTGAGTACAAGTCAAGTTGATAATTTTA
Found at i:104390 original size:25 final size:23
Alignment explanation
Indices: 104346--104391 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
104336 TGTTATTGTC
*
104346 ATATATTATATATAATAATTAGT
1 ATATATTATATATAAAAATTAGT
104369 ATATATATATATATACAAAATTA
1 ATATAT-TATATATA-AAAATTA
104392 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 8 0.40
25 6 0.30
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATATTATATATAAAAATTAGT
Found at i:114124 original size:28 final size:28
Alignment explanation
Indices: 114084--114177 Score: 88
Period size: 28 Copynumber: 3.5 Consensus size: 28
114074 TCCCGGGGGT
*
114084 AGGTCGCCATGCACGCCCAGCTCGCCAA
1 AGGTCACCATGCACGCCCAGCTCGCCAA
* *
114112 AGGTCACCATGCAATG--CA-CGC-CCAA
1 AGGTCACCATGC-ACGCCCAGCTCGCCAA
* ** *
114137 CGACCTCCATGCACGCCCAGCTCGCCAA
1 AGGTCACCATGCACGCCCAGCTCGCCAA
114165 AGGTCACCATGCA
1 AGGTCACCATGCA
114178 GTCCATGCTT
Statistics
Matches: 48, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
24 2 0.04
25 12 0.25
26 4 0.08
27 4 0.08
28 24 0.50
29 2 0.04
ACGTcount: A:0.26, C:0.41, G:0.21, T:0.12
Consensus pattern (28 bp):
AGGTCACCATGCACGCCCAGCTCGCCAA
Found at i:114759 original size:29 final size:29
Alignment explanation
Indices: 114725--114808 Score: 105
Period size: 29 Copynumber: 2.9 Consensus size: 29
114715 CTATCATCTT
* *
114725 GGTCGCCGGGATTGCTTGGCGACCTACAA
1 GGTCGCTGGGAGTGCTTGGCGACCTACAA
* ***
114754 GGTCGCTGGGAGTGCATGGCGACCTTGTA
1 GGTCGCTGGGAGTGCTTGGCGACCTACAA
*
114783 GGTCGCTTGGAGTGCTTGGCGACCTA
1 GGTCGCTGGGAGTGCTTGGCGACCTA
114809 TGGTTGGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.14, C:0.24, G:0.38, T:0.24
Consensus pattern (29 bp):
GGTCGCTGGGAGTGCTTGGCGACCTACAA
Found at i:119460 original size:11 final size:11
Alignment explanation
Indices: 119441--119515 Score: 51
Period size: 11 Copynumber: 6.4 Consensus size: 11
119431 CTATCTTATT
*
119441 TATTTTATTAG
1 TATTATATTAG
119452 TATTATATTAG
1 TATTATATTAG
* *
119463 TATTTTTTATTATT
1 TA--TTATATTA-G
* *
119477 TATCTATCTTAT
1 TAT-TATATTAG
*
119489 TCATTTTATTAG
1 T-ATTATATTAG
119501 TATTATATTAG
1 TATTATATTAG
119512 TATT
1 TATT
119516 TTTTAATTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
11 25 0.50
12 9 0.18
13 14 0.28
14 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (11 bp):
TATTATATTAG
Found at i:119481 original size:49 final size:50
Alignment explanation
Indices: 119423--119527 Score: 194
Period size: 49 Copynumber: 2.1 Consensus size: 50
119413 GTATCCTTAT
*
119423 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTT-A
1 TTATTTATCTATCTTATTCATTTTATTAGTATTATATTAGTATTTTTTAA
119472 TTATTTATCTATCTTATTCATTTTATTAGTATTATATTAGTATTTTTTAA
1 TTATTTATCTATCTTATTCATTTTATTAGTATTATATTAGTATTTTTTAA
119522 TTATTT
1 TTATTT
119528 TTTTCATATA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 47 0.87
50 7 0.13
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.65
Consensus pattern (50 bp):
TTATTTATCTATCTTATTCATTTTATTAGTATTATATTAGTATTTTTTAA
Found at i:122614 original size:9 final size:8
Alignment explanation
Indices: 122594--122627 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
122584 GCAAAAAATT
*
122594 AAAGCAAA
1 AAAGAAAA
122602 AAAGAACAA
1 AAAGAA-AA
122611 AAAGAAAA
1 AAAGAAAA
122619 AAAGAAAA
1 AAAGAAAA
122627 A
1 A
122628 GGGACAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:122626 original size:24 final size:23
Alignment explanation
Indices: 122568--122638 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
122558 TAAAAAGGGC
*
122568 AAAAAGGAAAAAAGAAGC-AAAAA
1 AAAAAAGAAAAAAGAA-CAAAAAA
**
122591 ATTAAAGCAAAAAAGAACAAAAAGA
1 AAAAAAG-AAAAAAGAACAAAAA-A
* *
122616 AAAAAAGAAAAAGGGACAAAAAA
1 AAAAAAGAAAAAAGAACAAAAAA
122639 CATATGCAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
23 6 0.16
24 26 0.68
25 6 0.16
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (23 bp):
AAAAAAGAAAAAAGAACAAAAAA
Found at i:122636 original size:17 final size:18
Alignment explanation
Indices: 122594--122638 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
122584 GCAAAAAATT
122594 AAAG-CAAAAAAGAACAA
1 AAAGACAAAAAAGAACAA
122611 AAAGA-AAAAAAGAA-AA
1 AAAGACAAAAAAGAACAA
**
122627 AGGGACAAAAAA
1 AAAGACAAAAAA
122639 CATATGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.78, C:0.07, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAGACAAAAAAGAACAA
Found at i:123250 original size:22 final size:22
Alignment explanation
Indices: 123222--123272 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
123212 CCCCATCAAT
123222 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
123244 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
123266 CCTTTGA
1 CCTTTGA
123273 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:123702 original size:17 final size:19
Alignment explanation
Indices: 123680--123715 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
123670 TCAACATCAA
123680 ATATT-GGGCATT-TTTGG
1 ATATTGGGGCATTATTTGG
123697 ATATTGGGGCATTATTTGG
1 ATATTGGGGCATTATTTGG
123716 GGATTCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.19, C:0.06, G:0.31, T:0.44
Consensus pattern (19 bp):
ATATTGGGGCATTATTTGG
Found at i:124172 original size:106 final size:106
Alignment explanation
Indices: 123987--125289 Score: 2156
Period size: 106 Copynumber: 12.3 Consensus size: 106
123977 AATTTGCTCG
123987 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
124052 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
124093 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
124158 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * *
124199 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
124264 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
124305 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
124370 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
124411 AAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 -AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
124476 ACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCCAATTTC
65 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
** * * *
124518 AGAATCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
124583 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
124624 AGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
124689 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* *
124730 AGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
124795 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * *
124836 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
124901 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * * *
124942 AGAGTCAATTTCAACTTCACAGCGAAGGACATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
125007 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
125048 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
125113 CGAAGGGACCGCTGGTTGTTAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* *
125154 AAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACA
1 -AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-
* * * * * *
125219 AACGAAGGGACGGCTGGTTGTCAACAAACAATTTTCCAGTTCC
64 GACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * * *
125262 ATAACCAATTTCAACTCCACGACGAAGG
1 AGAGCCAATTTCAACTTCACAACGAAGG
125290 GAATCGTACA
Statistics
Matches: 1123, Mismatches: 71, Indels: 5
0.94 0.06 0.00
Matches are distributed among these distances:
106 900 0.80
107 187 0.17
108 36 0.03
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
Found at i:125703 original size:39 final size:36
Alignment explanation
Indices: 125631--125776 Score: 166
Period size: 36 Copynumber: 4.0 Consensus size: 36
125621 GAAATAGAAG
* * * * *
125631 ATTTTGTGTCACTTTAGATGGTTTCCCTCGAAACTAAA
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC--AA
* *
125669 GATTTTGTCTCTCTTGAGATAATTTCTCTTGAAACAA
1 -ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
** *
125706 ATTTTGTCTCTCTTGAGACGGTTTCTCTTGAAACAA
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
*
125742 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
125777 CCAACCAATA
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
36 66 0.69
37 2 0.02
39 27 0.28
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (36 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
Found at i:125715 original size:36 final size:36
Alignment explanation
Indices: 125670--125776 Score: 178
Period size: 36 Copynumber: 3.0 Consensus size: 36
125660 GAAACTAAAG
* *
125670 ATTTTGTCTCTCTTGAGATAATTTCTCTTGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAA
*
125706 ATTTTGTCTCTCTTGAGACGGTTTCTCTTGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAA
*
125742 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1 ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
125777 CCAACCAATA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (36 bp):
ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAA
Found at i:125718 original size:21 final size:21
Alignment explanation
Indices: 125693--125757 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
125683 TGAGATAATT
125693 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* * *
125714 TCTCTTGAGAC------GGTT
1 TCTCTTGAAACAAATTTTGTC
125729 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
125750 TCTCTTGA
1 TCTCTTGA
125758 GACAGTTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 12 0.38
21 20 0.62
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:125912 original size:34 final size:33
Alignment explanation
Indices: 125825--125952 Score: 188
Period size: 33 Copynumber: 3.9 Consensus size: 33
125815 CATGGAGACA
* *
125825 GTTTCTCTTTAAACACAAAAAATCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
125858 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
*
125891 GTTCCTCTTGAAACACAAAAAAACCTTTGAAAAT-
1 GTTTCTCTTGAAACAC-AAAAAACCTTTG-AAATC
*
125925 GTTTCTCTTGAAACAC-AAAGACCTTTGA
1 GTTTCTCTTGAAACACAAAAAACCTTTGA
125953 GTTCGACTAC
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
31 1 0.01
32 10 0.11
33 46 0.52
34 27 0.31
35 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
Found at i:125929 original size:67 final size:65
Alignment explanation
Indices: 125829--125952 Score: 187
Period size: 67 Copynumber: 1.9 Consensus size: 65
125819 GAGACAGTTT
* *
125829 CTCTTTAAACACAAAAAATCTTTGAAATCGTTTCTCTTGAAACACAAAAAACCTTTGAAATCGTT
1 CTCTTGAAACACAAAAAACCTTTGAAATCGTTTCTCTTGAAACAC-AAAAACCTTTGAAATCGTT
125894 C
65 C
*
125895 CTCTTGAAACACAAAAAAACCTTTGAAAAT-GTTTCTCTTGAAACACAAAGACCTTTGA
1 CTCTTGAAACAC-AAAAAACCTTTG-AAATCGTTTCTCTTGAAACACAAAAACCTTTGA
125953 GTTCGACTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
66 22 0.42
67 27 0.51
68 4 0.08
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (65 bp):
CTCTTGAAACACAAAAAACCTTTGAAATCGTTTCTCTTGAAACACAAAAACCTTTGAAATCGTTC
Found at i:126081 original size:84 final size:84
Alignment explanation
Indices: 125940--126127 Score: 243
Period size: 84 Copynumber: 2.2 Consensus size: 84
125930 TCTTGAAACA
* *
125940 CAAAGACCTTTGAGTTCGACTACGCTCAACTCCAATGCACATCATTTGCAACATAGCTCAAGGCA
1 CAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
*
126005 AGAAGGGCTATTTG-CTAAC
66 AGAAGGGCTATCTGTC-AAC
* * * * * * *
126024 CAAAGACCTTCGAGTTCGACTACTCTCAGCTCCGAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
*
126089 ATAAGGGCTATCTGTCAAC
66 AGAAGGGCTATCTGTCAAC
*
126108 CAAAGACCTAACGAGTTCGA
1 CAAAGACCT-TCGAGTTCGA
126128 TTTCATTCAG
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
84 80 0.89
85 10 0.11
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (84 bp):
CAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
AGAAGGGCTATCTGTCAAC
Found at i:127659 original size:11 final size:11
Alignment explanation
Indices: 127640--127714 Score: 51
Period size: 11 Copynumber: 6.4 Consensus size: 11
127630 CTATCTTATT
*
127640 TATTTTATTAG
1 TATTATATTAG
127651 TATTATATTAG
1 TATTATATTAG
* *
127662 TATTTTTTATTATT
1 TA--TTATATTA-G
* *
127676 TATCTATCTTAT
1 TAT-TATATTAG
*
127688 TCATTTTATTAG
1 T-ATTATATTAG
127700 TATTATATTAG
1 TATTATATTAG
127711 TATT
1 TATT
127715 TTTTTAATTA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
11 25 0.50
12 9 0.18
13 14 0.28
14 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (11 bp):
TATTATATTAG
Done.