Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008429.1 Hibiscus syriacus cultivar Beakdansim tig00111215_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: 508731
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:2415 original size:36 final size:36
Alignment explanation
Indices: 2374--2449 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
2364 ATTTTCGGGA
*
2374 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
2410 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
2446 TTTT
1 TTTT
2450 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:4779 original size:36 final size:36
Alignment explanation
Indices: 4738--4815 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
4728 GTCGGGTTTA
* * *
4738 GGTCGGTGAAGGGTATATATTTTTCGGGTAAGGTCG
1 GGTCGGTGAAGGATATAGAATTTTCGGGTAAGGTCG
* **
4774 GGTCGGTGAAGGATGTAGAATTTTCGGGTCGGGTCG
1 GGTCGGTGAAGGATATAGAATTTTCGGGTAAGGTCG
4810 GGTCGG
1 GGTCGG
4816 GTTGGCCCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.17, C:0.10, G:0.44, T:0.29
Consensus pattern (36 bp):
GGTCGGTGAAGGATATAGAATTTTCGGGTAAGGTCG
Found at i:11600 original size:134 final size:134
Alignment explanation
Indices: 11360--11629 Score: 522
Period size: 134 Copynumber: 2.0 Consensus size: 134
11350 AAAGTGGAGC
11360 AATTTAGTTCATATAAGTTATTTGCAACTATTAATTATTGAAAATTTTATTAAAATAATTGATGT
1 AATTTAGTTCATATAAGTTATTTGCAACTATTAATTATTGAAAATTTTATTAAAATAATTGATGT
11425 TACAGTTAATACTCTAGTCTTGTTTATGATTATTATTCTATGAACAGATATTACCTTATACTCAT
66 TACAGTTAATACTCTAGTCTTGTTTATGATTATTATTCTATGAACAGATATTACCTTATACTCAT
11490 TGTA
131 TGTA
11494 AATTTAGTTCATATAAGTTATTTGCAACTATTAATTATTGAAAATTTTATTAAAATAATTGATGT
1 AATTTAGTTCATATAAGTTATTTGCAACTATTAATTATTGAAAATTTTATTAAAATAATTGATGT
* *
11559 TACAGTTAGTACTCTAGTCTTGTTTATGATTATTATTCTATGAACATATATTACCTTATACTCAT
66 TACAGTTAATACTCTAGTCTTGTTTATGATTATTATTCTATGAACAGATATTACCTTATACTCAT
11624 TGTA
131 TGTA
11628 AA
1 AA
11630 CTTCAAATTT
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 134 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (134 bp):
AATTTAGTTCATATAAGTTATTTGCAACTATTAATTATTGAAAATTTTATTAAAATAATTGATGT
TACAGTTAATACTCTAGTCTTGTTTATGATTATTATTCTATGAACAGATATTACCTTATACTCAT
TGTA
Found at i:32519 original size:18 final size:18
Alignment explanation
Indices: 32496--32544 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
32486 AATCGTTTTA
32496 GTGAAAACTTTAGAAAAG
1 GTGAAAACTTTAGAAAAG
32514 GTGAAAACTTTAGAAAAG
1 GTGAAAACTTTAGAAAAG
*
32532 GCGAAAACTTTAG
1 GTGAAAACTTTAG
32545 TGAAAACTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.22
Consensus pattern (18 bp):
GTGAAAACTTTAGAAAAG
Found at i:33249 original size:20 final size:21
Alignment explanation
Indices: 33224--33275 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
33214 TTTTCCCAAT
*
33224 TCGCAATGCGAATACG-TAAA
1 TCGCAATGCGAATACGAAAAA
* **
33244 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATACGAAAAA
33265 TCGCAATGCGA
1 TCGCAATGCGA
33276 CACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATACGAAAAA
Found at i:33308 original size:61 final size:61
Alignment explanation
Indices: 33261--33377 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
33251 GCGAATTGGA
* * *
33261 AAAATCGCAATGCGACACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGACACTGACTATCGCAATGCGATACTTACTATCGCAACGCGATAATAC
* * ** * * *
33322 AAAATCGCAACGAGATACTGACTTTCGCAACACGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGACACTGACTATCGCAATGCGATACTTACTATCGCAACGCGAT
33378 TTACATAGCG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (61 bp):
AAAATCGCAACGAGACACTGACTATCGCAATGCGATACTTACTATCGCAACGCGATAATAC
Found at i:33316 original size:20 final size:20
Alignment explanation
Indices: 33264--33377 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
33254 AATTGGAAAA
*
33264 ATCGCAATGCGACACTGACT
1 ATCGCAATGCGATACTGACT
*
33284 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
33304 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
33325 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* ** *
33345 TTCGCAACACGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
33365 TTCGCAACGCGAT
1 ATCGCAATGCGAT
33378 TTACATAGCG
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 61 0.78
21 13 0.17
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:33960 original size:19 final size:19
Alignment explanation
Indices: 33936--33977 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33926 ACGAGAGAAT
* *
33936 CGCAACGTGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
33955 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
33974 CGCA
1 CGCA
33978 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.24, G:0.17, T:0.07
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:33995 original size:19 final size:19
Alignment explanation
Indices: 33973--34137 Score: 134
Period size: 19 Copynumber: 9.1 Consensus size: 19
33963 GAAACAAAAA
*
33973 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
33992 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
34011 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
34030 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * * **
34044 TCTCATCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
34063 TCGCATTGCGA--TTCACT
1 TCGCGTTGCGATTTTCATT
**
34080 T---GTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
34096 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
34116 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
34136 TC
1 TC
34138 AACCAAAAGA
Statistics
Matches: 118, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
14 14 0.12
16 7 0.06
17 8 0.07
19 59 0.50
20 29 0.25
21 1 0.01
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:34029 original size:38 final size:36
Alignment explanation
Indices: 33973--34137 Score: 135
Period size: 33 Copynumber: 4.6 Consensus size: 36
33963 GAAACAAAAA
*
33973 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGA--TTCATT
34011 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCATT
* * * ** * *
34044 TCTCATCGCGATAGTCATTTCGCATTGCGATTCACT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCATT
**
34080 T---GTTGCGATAGTCATTTCCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTT-CGCGTTGCGA-T-TCATT
*
34116 ATCTCGTTGCGATTTTCATTTC
1 -TCGCGTTGCGATTTTCATTTC
34138 AACCAAAAGA
Statistics
Matches: 104, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
33 41 0.39
34 9 0.09
35 1 0.01
36 8 0.08
37 1 0.01
38 29 0.28
39 1 0.01
40 14 0.13
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (36 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCATT
Found at i:34114 original size:20 final size:20
Alignment explanation
Indices: 34081--34137 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
34071 CGATTCACTT
**
34081 GTTGCGATAGTCATTTCCGC
1 GTTGCGATTCTCATTTCCGC
*
34101 GTTGCGATTCTCATTAT-CTC
1 GTTGCGATTCTCATT-TCCGC
*
34121 GTTGCGATTTTCATTTC
1 GTTGCGATTCTCATTTC
34138 AACCAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (20 bp):
GTTGCGATTCTCATTTCCGC
Found at i:37635 original size:14 final size:14
Alignment explanation
Indices: 37616--37651 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
37606 ATTGTTTAAT
37616 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
37630 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
37644 TGATTTGT
1 TGATTTGT
37652 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:37802 original size:19 final size:19
Alignment explanation
Indices: 37778--37836 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
37768 GAAATTAGCG
37778 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
37797 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
37811 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
37830 TTGCGAT
1 TTGCGAT
37837 AGTAATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 7 0.21
19 13 0.39
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:37802 original size:33 final size:34
Alignment explanation
Indices: 37759--37835 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 34
37749 AAAAGTACTA
*
37759 TCGCAATGCGAAAT-TAGCGTTGCGATTTTCATT
1 TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
* **
37792 TCGCATTGCG-ATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
37825 TCGCATTGCGA
1 TCGCATTGCGA
37836 TAGTAATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 2 0.05
33 36 0.95
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (34 bp):
TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
Found at i:41213 original size:33 final size:33
Alignment explanation
Indices: 41167--41229 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
41157 TCATTTGACC
* *
41167 ATCGCAATACGAAATGCAAATCGCAACGATAGA
1 ATCGCAATACGAAATGAAAAACGCAACGATAGA
* *
41200 ATCGCAATGCGAAATGAAAAAGGCAACGAT
1 ATCGCAATACGAAATGAAAAACGCAACGAT
41230 GATTAACATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (33 bp):
ATCGCAATACGAAATGAAAAACGCAACGATAGA
Found at i:41468 original size:20 final size:20
Alignment explanation
Indices: 41443--41500 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
41433 ATTCATTTGA
41443 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
41463 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
41483 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
41501 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:41543 original size:14 final size:16
Alignment explanation
Indices: 41523--41596 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
41513 TGAAAATCGC
41523 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
41538 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
41555 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
41574 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
41590 -TTGCGAT
1 ATTGCGAT
41597 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:41560 original size:19 final size:19
Alignment explanation
Indices: 41519--41586 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
41509 GAAATGAAAA
41519 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
41535 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
41552 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
41571 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
41587 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:41722 original size:14 final size:14
Alignment explanation
Indices: 41703--41739 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
41693 CATCAATTAA
41703 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
41717 ACAAATCATCTTTT
1 ACAAATCAACATTT
41731 ACAAATCAA
1 ACAAATCAA
41740 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:43658 original size:19 final size:19
Alignment explanation
Indices: 43600--43699 Score: 119
Period size: 19 Copynumber: 5.2 Consensus size: 19
43590 CACGAAACTT
*
43600 AAAATCGCAACGCGAAAATG
1 AAAATCGCAATGCG-AAATG
** *
43620 ACTATCGCAACGCGGAAATG
1 AAAATCGCAATGC-GAAATG
***
43640 GCTATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
43659 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
43678 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
43697 AAA
1 AAA
43700 TCACAACGAC
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
19 44 0.61
20 27 0.38
21 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:43755 original size:19 final size:19
Alignment explanation
Indices: 43733--43814 Score: 95
Period size: 18 Copynumber: 4.6 Consensus size: 19
43723 GAAACACAAA
43733 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
43752 TCGCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
43770 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
43786 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
43803 TCGCATTGCGAT
1 TCGCATTGCGAT
43815 AGCCATTTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 5 0.10
15 3 0.06
16 4 0.08
17 4 0.08
18 20 0.38
19 16 0.31
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:43850 original size:20 final size:20
Alignment explanation
Indices: 43799--43842 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
43789 TTGCAATTTT
* *
43799 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGAGATAGC
*
43818 CATTTCCGCGTTGAGATAGT
1 CATTTCCGCGTTGAGATAGC
43838 CATTT
1 CATTT
43843 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGAGATAGC
Found at i:45724 original size:20 final size:20
Alignment explanation
Indices: 45699--45741 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
45689 AATAGTTTCT
45699 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
45719 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
45739 GAA
1 GAA
45742 TTTGACTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.12
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:45747 original size:20 final size:20
Alignment explanation
Indices: 45709--45781 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
45699 GAAAATGAAA
* **
45709 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAATTTGACT
45729 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
45749 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
45769 ATCGCAACGCGAA
1 ATCGCAACGCGAA
45782 ACTAAAATCG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:46261 original size:20 final size:20
Alignment explanation
Indices: 46235--46307 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
46225 GATTATGTAT
46235 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
46255 AATCGCGTTGCGAAATTCAG
1 TATCGCGTTGCGAAAGTCAG
*
46275 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
*
46295 TATCTCGTTGCGA
1 TATCGCGTTGCGA
46308 TTTTGTATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:46341 original size:20 final size:19
Alignment explanation
Indices: 46215--46349 Score: 74
Period size: 20 Copynumber: 6.7 Consensus size: 19
46205 CGCTTTGAAA
* *
46215 ATCGCATTGCGATTATGTATT
1 ATCGCGTTGCGA-TA-GTAAT
*
46236 ATCGCGTTGCGAAAGTCAGA-
1 ATCGCGTTGCGATAGT-A-AT
* * *
46256 ATCGCGTTGCGAAATTCAGT
1 ATCGCGTTGCGATAGT-AAT
*
46276 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAA-T
* * *
46296 ATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGA--TAGTAAT
*
46317 ATCGCATTGCGATAGTCAAT
1 ATCGCGTTGCGATAGT-AAT
*
46337 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
46350 TTTCACAATT
Statistics
Matches: 92, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
19 6 0.07
20 61 0.66
21 22 0.24
22 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATAGTAAT
Found at i:46347 original size:41 final size:41
Alignment explanation
Indices: 46215--46352 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
46205 CGCTTTGAAA
*
46215 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA-
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCA-AT
* ** * *
46256 ATCGCGTTGCGAAATT-CAGTATCGCGTTGCGAAAGT-AAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAA-T
* * * *
46296 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAAT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAAT
46337 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
46353 CACAATTCGC
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 31 0.40
41 43 0.55
42 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAAT
Found at i:46368 original size:41 final size:41
Alignment explanation
Indices: 46338--46430 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
46328 ATAGTCAATA
* *
46338 TCGCATTGCGATTTTCACAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCACAATTCGCGTTGCGATTCACATAT
* * *
46379 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCACAATTCGCGTTGCGATTCACATAT
46420 TCGCATTGCGA
1 TCGCATTGCGA
46431 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCACAATTCGCGTTGCGATTCACATAT
Found at i:46382 original size:20 final size:20
Alignment explanation
Indices: 46338--46430 Score: 98
Period size: 20 Copynumber: 4.5 Consensus size: 20
46328 ATAGTCAATA
*
46338 TCGCATTGCGATTTTCAC-AAT
1 TCGCATTGCGA-TTT-ACTTAT
*
46359 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
46379 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
46400 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
46420 TCGCATTGCGA
1 TCGCATTGCGA
46431 ATTGGGAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
19 2 0.03
20 31 0.53
21 26 0.44
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:46960 original size:28 final size:28
Alignment explanation
Indices: 46929--46994 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
46919 AATAAATTAT
*
46929 ATATTTTTTAAATGAAAATAAAAATAAA
1 ATATTTTTAAAATGAAAATAAAAATAAA
* ** *
46957 ATATTTTTAAAATTAAGTTAATAATAAA
1 ATATTTTTAAAATGAAAATAAAAATAAA
*
46985 ATATATTTAA
1 ATATTTTTAA
46995 TAAGTTGATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (28 bp):
ATATTTTTAAAATGAAAATAAAAATAAA
Found at i:46998 original size:25 final size:27
Alignment explanation
Indices: 46951--47009 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
46941 TGAAAATAAA
*
46951 AATAAAATATTTTTAAAATTAAGTTAAT
1 AATAAAATATATTT-AAATTAAGTTAAT
*
46979 AATAAAATATATTT-AA-TAAGTTGAT
1 AATAAAATATATTTAAATTAAGTTAAT
47004 -ATAAAA
1 AATAAAA
47010 ACATTTTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 6 0.21
25 8 0.28
26 2 0.07
28 13 0.45
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (27 bp):
AATAAAATATATTTAAATTAAGTTAAT
Found at i:47383 original size:38 final size:39
Alignment explanation
Indices: 47295--47383 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 39
47285 GACCGTTAAT
*
47295 GTGAAATAATTTAAGAAATTAAGAATTTAGAACATTATG
1 GTGAAATAATTTAAGAAATTAAGAATTTAGAACATTATA
* * * **
47334 GTGTCAA-AATTTAAGAAATT-AGGATTTATAATGTTATA
1 GTG-AAATAATTTAAGAAATTAAGAATTTAGAACATTATA
47372 GTGAAATAATTT
1 GTGAAATAATTT
47384 GAGGATTATG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
37 2 0.05
38 21 0.51
39 16 0.39
40 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.37
Consensus pattern (39 bp):
GTGAAATAATTTAAGAAATTAAGAATTTAGAACATTATA
Found at i:49037 original size:22 final size:22
Alignment explanation
Indices: 49019--49065 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
49009 AAGTAACTCG
49019 AACCGAAATTAACCCTAACCAA
1 AACCGAAATTAACCCTAACCAA
*
49041 AACCGAAATTAACCCGAACCAA
1 AACCGAAATTAACCCTAACCAA
49063 AAC
1 AAC
49066 TGACCCTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.32, G:0.06, T:0.11
Consensus pattern (22 bp):
AACCGAAATTAACCCTAACCAA
Found at i:50573 original size:34 final size:32
Alignment explanation
Indices: 50520--50589 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
50510 ACCTTACAAC
*
50520 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
* *
50552 TCCCTAGCTTTTACACGGGCTAAGCTATAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
50586 TCCC
1 TCCC
50590 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:50898 original size:21 final size:21
Alignment explanation
Indices: 50872--50914 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
50862 CCCAGAATGG
*
50872 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
50893 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
50914 A
1 A
50915 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:50978 original size:22 final size:22
Alignment explanation
Indices: 50950--50994 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
50940 CTGTTGAACA
50950 GGGGGGGAATCGGTACCCCCTG
1 GGGGGGGAATCGGTACCCCCTG
50972 GGGGGGGAATCGGTACCCCCTG
1 GGGGGGGAATCGGTACCCCCTG
50994 G
1 G
50995 ACATTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (22 bp):
GGGGGGGAATCGGTACCCCCTG
Found at i:51070 original size:14 final size:14
Alignment explanation
Indices: 51051--51078 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51041 CCCCTGGGAG
51051 GGGTATCTGTACCC
1 GGGTATCTGTACCC
51065 GGGTATCTGTACCC
1 GGGTATCTGTACCC
51079 CCTGGGGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (14 bp):
GGGTATCTGTACCC
Found at i:51227 original size:29 final size:31
Alignment explanation
Indices: 51195--51254 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
51185 AAACTTTGAA
51195 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
51224 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
51255 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:51444 original size:22 final size:23
Alignment explanation
Indices: 51414--51457 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
51404 AGCTCCCCCT
51414 TTTTCATTAAGAAATTGAATTTG
1 TTTTCATTAAGAAATTGAATTTG
51437 TTTT-ATTAAGAAATTGAATTT
1 TTTTCATTAAGAAATTGAATTT
51458 TTCAAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.50
Consensus pattern (23 bp):
TTTTCATTAAGAAATTGAATTTG
Found at i:52577 original size:19 final size:20
Alignment explanation
Indices: 52534--52581 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
52524 TCTAAATCCT
*
52534 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
52554 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
52573 TTTTCAAAA
1 TTTTCAAAA
52582 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:53819 original size:21 final size:21
Alignment explanation
Indices: 53793--53835 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
53783 CCCAGAATGG
*
53793 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
53814 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
53835 A
1 A
53836 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:53909 original size:20 final size:21
Alignment explanation
Indices: 53870--53911 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
53860 GCTGTTGAAC
53870 AGGGGGGAATCGGTACCCCCT
1 AGGGGGGAATCGGTACCCCCT
53891 AGGGGGGAATCGGTACCCCCT
1 AGGGGGGAATCGGTACCCCCT
53912 GGACATTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.38, T:0.14
Consensus pattern (21 bp):
AGGGGGGAATCGGTACCCCCT
Found at i:53989 original size:15 final size:15
Alignment explanation
Indices: 53969--53997 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
53959 ACCCCCTGGG
53969 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
53984 GGGGTATCTGTACC
1 GGGGTATCTGTACC
53998 TCCTGGGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.24, G:0.34, T:0.28
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:54019 original size:21 final size:21
Alignment explanation
Indices: 53946--54025 Score: 64
Period size: 21 Copynumber: 4.1 Consensus size: 21
53936 AAAACCTGCA
*
53946 GGGGGGAATCTATACCCCCTG
1 GGGGGGAATCTATACCTCCTG
* *
53967 GGGGGGTATCTGTA-C-CC--
1 GGGGGGAATCTATACCTCCTG
* *
53984 --GGGGTATCTGTACCTCCTG
1 GGGGGGAATCTATACCTCCTG
*
54003 GGGGGGAATCTATACCTTCTG
1 GGGGGGAATCTATACCTCCTG
54024 GG
1 GG
54026 CAATCTTGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 12 0.25
16 1 0.02
17 2 0.04
19 2 0.04
20 1 0.02
21 30 0.62
ACGTcount: A:0.15, C:0.24, G:0.36, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCTATACCTCCTG
Found at i:54147 original size:29 final size:31
Alignment explanation
Indices: 54115--54174 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
54105 AAACTTTGAA
54115 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
54144 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
54175 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:56310 original size:18 final size:19
Alignment explanation
Indices: 56273--56322 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
56263 GGAAATTTAC
*
56273 TTTAATTTAAATGATAAAA
1 TTTAATTTAAATAATAAAA
*
56292 TTTATTTTAAATAAT-AAA
1 TTTAATTTAAATAATAAAA
56310 -TTAATTTAAATAA
1 TTTAATTTAAATAA
56323 AATTGGTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 12 0.43
18 3 0.11
19 13 0.46
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TTTAATTTAAATAATAAAA
Found at i:56469 original size:20 final size:20
Alignment explanation
Indices: 56444--56482 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56434 CCTATCTTAC
*
56444 TTATAATAAAAATATTAGAT
1 TTATAATAAAAATAATAGAT
56464 TTATAATAAAAATAATAGA
1 TTATAATAAAAATAATAGA
56483 AAACAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TTATAATAAAAATAATAGAT
Found at i:57059 original size:32 final size:32
Alignment explanation
Indices: 56977--57119 Score: 133
Period size: 32 Copynumber: 4.5 Consensus size: 32
56967 TGTTGACTTA
* *
56977 AACCGAAAATCAACCGATCCAATATTAATCCG
1 AACCAAAAATCAACCGATCCAATATTGATCCG
* ** * *
57009 ACCCAAAAATCATTCGATCCAATATTGACCCA
1 AACCAAAAATCAACCGATCCAATATTGATCCG
* ** *
57041 AACAAAAAATCAACCGATCTGATATTGATTCG
1 AACCAAAAATCAACCGATCCAATATTGATCCG
* * * *
57073 AACCAAAAATCAACCGATTCGATAATCATCCG
1 AACCAAAAATCAACCGATCCAATATTGATCCG
* *
57105 ACCCAAAAATTAACC
1 AACCAAAAATCAACC
57120 TGACACGATA
Statistics
Matches: 87, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 87 1.00
ACGTcount: A:0.44, C:0.27, G:0.08, T:0.20
Consensus pattern (32 bp):
AACCAAAAATCAACCGATCCAATATTGATCCG
Found at i:62896 original size:15 final size:15
Alignment explanation
Indices: 62884--62913 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
62874 ATTCTCAATT
62884 CAATTCATCTCAAAG
1 CAATTCATCTCAAAG
62899 CAATTCATCTCAAAG
1 CAATTCATCTCAAAG
62914 TTTGAGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (15 bp):
CAATTCATCTCAAAG
Found at i:64108 original size:17 final size:17
Alignment explanation
Indices: 64086--64123 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
64076 GGTCTGACCC
64086 GACCCGACCCG-TCCGTT
1 GACCCGACCCGAT-CGTT
64103 GACCCGACCCGATCGTT
1 GACCCGACCCGATCGTT
64120 GACC
1 GACC
64124 GTTGACTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.16, C:0.45, G:0.24, T:0.16
Consensus pattern (17 bp):
GACCCGACCCGATCGTT
Found at i:71332 original size:4 final size:5
Alignment explanation
Indices: 71310--71369 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
71300 TGACCGGTCT
* * * *
71310 GACCT GACCC GACCC GA-CC GACCC GACCT GTCCGTT GACCC GACCC GACCC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACC--C GACCC GACCC GACCC
*
71361 GACTC GACC
1 GACCC GACC
71370 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
4 4 0.09
5 37 0.82
7 4 0.09
ACGTcount: A:0.18, C:0.50, G:0.22, T:0.10
Consensus pattern (5 bp):
GACCC
Found at i:71362 original size:27 final size:26
Alignment explanation
Indices: 71320--71376 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
71310 GACCTGACCC
*
71320 GACCCGACCGACCCGAC-CTGTCCGTT
1 GACCCGACCGACCCGACTC-GACCGTT
71346 GACCCGACCCGACCCGACTCGACCGTT
1 GACCCGA-CCGACCCGACTCGACCGTT
71373 GACC
1 GACC
71377 GTTGACCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 7 0.25
27 20 0.71
28 1 0.04
ACGTcount: A:0.18, C:0.47, G:0.23, T:0.12
Consensus pattern (26 bp):
GACCCGACCGACCCGACTCGACCGTT
Found at i:76921 original size:63 final size:63
Alignment explanation
Indices: 76837--76996 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 63
76827 TGTTTTAAGG
* * * * *
76837 TGCATCGATGCACATGCAGTGCATTGATGCAT-TAATTAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAA-AAAACATCGAATAGGATTTA
* * *
76900 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTTA
76964 TGCATCGATGCAT-AGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
76997 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 30 0.35
64 33 0.39
65 22 0.26
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTTA
Found at i:78539 original size:22 final size:18
Alignment explanation
Indices: 78506--78566 Score: 77
Period size: 18 Copynumber: 3.2 Consensus size: 18
78496 AGTCCTTCGA
78506 GACATAGTGGTCCTACGG
1 GACATAGTGGTCCTACGG
*
78524 GACATATACAGTGGTCCTTCGG
1 GAC--AT--AGTGGTCCTACGG
78546 GACATAGTGGTCCTACGG
1 GACATAGTGGTCCTACGG
78564 GAC
1 GAC
78567 GAATACTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 18 0.49
20 4 0.11
22 15 0.41
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (18 bp):
GACATAGTGGTCCTACGG
Found at i:84007 original size:15 final size:15
Alignment explanation
Indices: 83987--84028 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
83977 TTCATCGGGG
* *
83987 TTCAGGGTTCACGTT
1 TTCAGGGTTCAAGGT
*
84002 TTCAGGGCTCAAGGT
1 TTCAGGGTTCAAGGT
84017 TTCAGGGTTCAA
1 TTCAGGGTTCAA
84029 CTTATTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (15 bp):
TTCAGGGTTCAAGGT
Found at i:84670 original size:106 final size:106
Alignment explanation
Indices: 84499--84856 Score: 545
Period size: 106 Copynumber: 3.4 Consensus size: 106
84489 GATCATAATC
* *
84499 ATGTCGAATCCGCCCGAGTCTGTGTAAGGTAGTGTTTGAACATATACATATAGGTGTGGTATGAT
1 ATGTCGAATCCGCCCGAGTCTGTGTAAGGTAG-GGTTGAACATATACATATAGGTGTGGTGTGAT
** *
84564 TCTTGACATATATGGAAAACTTATAAAGGTTTGAAGATGGTT
65 TCTCCACATATATGGAAAACTTATAAAGGTTTGAAGATAGTT
* * *
84606 ATGTTGAATTCGCCCGAGTCTGTGTAAGGTAGGGCTGAACATATACATATAGGTGTGGTGTGATT
1 ATGTCGAATCCGCCCGAGTCTGTGTAAGGTAGGGTTGAACATATACATATAGGTGTGGTGTGATT
84671 CTCCACATATATGGAAAACTTATAAAGGTTTGAAGATAGTT
66 CTCCACATATATGGAAAACTTATAAAGGTTTGAAGATAGTT
* * *
84712 ATGTTGAATCCGCCCGAGTCTGTGTAAAGTAGGGTTGAACATAGACATATAGGTGTGGTGTGATT
1 ATGTCGAATCCGCCCGAGTCTGTGTAAGGTAGGGTTGAACATATACATATAGGTGTGGTGTGATT
* ** *
84777 CTCCACATATATGGAAAGCTTATAAAAATTTGAACATAGTT
66 CTCCACATATATGGAAAACTTATAAAGGTTTGAAGATAGTT
* * *
84818 ATGTCAAATTCGCCCGAGTCTGTGTGAGGTAGGGTTGAA
1 ATGTCGAATCCGCCCGAGTCTGTGTAAGGTAGGGTTGAA
84857 TTGAACAACA
Statistics
Matches: 230, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
106 200 0.87
107 30 0.13
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.32
Consensus pattern (106 bp):
ATGTCGAATCCGCCCGAGTCTGTGTAAGGTAGGGTTGAACATATACATATAGGTGTGGTGTGATT
CTCCACATATATGGAAAACTTATAAAGGTTTGAAGATAGTT
Found at i:91507 original size:88 final size:88
Alignment explanation
Indices: 91404--91591 Score: 358
Period size: 88 Copynumber: 2.1 Consensus size: 88
91394 TAATTAAAAC
91404 TTTAAGGACTAATGTACAAGGAAACTAAAGTCTAGAGACCTAAATGTAAGACTTTAAAATTTAAA
1 TTTAAGGACTAATGTACAAGGAAACTAAAGTCTAGAGACCTAAATGTAAGACTTTAAAATTTAAA
*
91469 GTCAAAATCTATAATGCCTAAAG
66 GTCAAAATATATAATGCCTAAAG
*
91492 TTTAAGGACTAATGTACAAGGAAACTAAAGTCTAGAGACCTAAATGTAAGACTTTAAAATTTAAG
1 TTTAAGGACTAATGTACAAGGAAACTAAAGTCTAGAGACCTAAATGTAAGACTTTAAAATTTAAA
91557 GTCAAAATATATAATGCCTAAAG
66 GTCAAAATATATAATGCCTAAAG
91580 TTTAAGGACTAA
1 TTTAAGGACTAA
91592 CCAATAACTC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 98 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (88 bp):
TTTAAGGACTAATGTACAAGGAAACTAAAGTCTAGAGACCTAAATGTAAGACTTTAAAATTTAAA
GTCAAAATATATAATGCCTAAAG
Found at i:98890 original size:30 final size:30
Alignment explanation
Indices: 98856--98918 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
98846 ATTACGCTAT
98856 AATTAGATATTTATCTTTTAAAATTTATGA
1 AATTAGATATTTATCTTTTAAAATTTATGA
*
98886 AATTAGATATTTTTCTTTTAAAATTTATGA
1 AATTAGATATTTATCTTTTAAAATTTATGA
98916 AAT
1 AAT
98919 GGTCTCGGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (30 bp):
AATTAGATATTTATCTTTTAAAATTTATGA
Found at i:99994 original size:60 final size:59
Alignment explanation
Indices: 99826--100005 Score: 189
Period size: 60 Copynumber: 3.0 Consensus size: 59
99816 CATATGTTCT
* * ** * * * *
99826 CAAACTATAACTTTCATTTTAAATTGATCCTTAAACTTTTGAATATTCCAATGTCATTTC
1 CAAACTATGACTCTCATTCAAAATTGGTCCTTAAACTTTTGAATATTCTAATTTCA-TCC
* * *
99886 CAAACTATGACTCTCATTCAAAACTAGTCATTAAACTTTTGAATATTCTAATTTCATCC
1 CAAACTATGACTCTCATTCAAAATTGGTCCTTAAACTTTTGAATATTCTAATTTCATCC
* * * * * *
99945 CTAAACTATGGCTCTCTTTCTACATTGGTCCCTAAACTTTTGAATATTCTAATTTTATCC
1 C-AAACTATGACTCTCATTCAAAATTGGTCCTTAAACTTTTGAATATTCTAATTTCATCC
100005 C
1 C
100006 CAAATTCATG
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
59 3 0.03
60 96 0.97
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (59 bp):
CAAACTATGACTCTCATTCAAAATTGGTCCTTAAACTTTTGAATATTCTAATTTCATCC
Found at i:101145 original size:21 final size:21
Alignment explanation
Indices: 101120--101192 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
101110 GTAATAATAA
101120 AAAATAATTAAATAAGAAATT
1 AAAATAATTAAATAAGAAATT
* * *
101141 AAAATATTTGTAGAAGTAA-TAATAA
1 AAAATA-AT-TA-AA-TAAGAAAT-T
101166 AAAATAATTAAATAAGAAA-T
1 AAAATAATTAAATAAGAAATT
101186 AAAATAA
1 AAAATAA
101193 CAGAAATTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 7 0.17
21 9 0.22
22 5 0.12
23 4 0.10
24 6 0.15
25 9 0.22
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (21 bp):
AAAATAATTAAATAAGAAATT
Found at i:101149 original size:46 final size:46
Alignment explanation
Indices: 101089--101191 Score: 199
Period size: 46 Copynumber: 2.3 Consensus size: 46
101079 TGAAATAAAT
101089 GAAATTAAAATATTTGTAGAAGTAATAATAAAAAATAATTAAATAA
1 GAAATTAAAATATTTGTAGAAGTAATAATAAAAAATAATTAAATAA
101135 GAAATTAAAATATTTGTAGAAGTAATAATAAAAAATAATTAAATAA
1 GAAATTAAAATATTTGTAGAAGTAATAATAAAAAATAATTAAATAA
101181 GAAA-TAAAATA
1 GAAATTAAAATA
101192 ACAGAAATTA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 7 0.12
46 50 0.88
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (46 bp):
GAAATTAAAATATTTGTAGAAGTAATAATAAAAAATAATTAAATAA
Found at i:101186 original size:25 final size:25
Alignment explanation
Indices: 101112--101187 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
101102 TTGTAGAAGT
101112 AATAATAAAAAATAATTAAATAAGA
1 AATAATAAAAAATAATTAAATAAGA
* ** * *
101137 AAT--T--AAAATATTTGTAGAAGT
1 AATAATAAAAAATAATTAAATAAGA
101158 AATAATAAAAAATAATTAAATAAGA
1 AATAATAAAAAATAATTAAATAAGA
101183 AATAA
1 AATAA
101188 AATAACAGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
21 15 0.41
23 2 0.05
25 20 0.54
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (25 bp):
AATAATAAAAAATAATTAAATAAGA
Found at i:113818 original size:22 final size:22
Alignment explanation
Indices: 113769--113824 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
113759 AACTATCAAT
*
113769 TTTAGTATATTTTAGTACCTAAAC
1 TTTAGT-T-TTTTAATACCTAAAC
* * *
113793 TTTATTTTTTTAATACCTAGAG
1 TTTAGTTTTTTAATACCTAAAC
113815 TTTAGTTTTT
1 TTTAGTTTTT
113825 GTTTCATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 21 0.78
23 1 0.04
24 5 0.19
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (22 bp):
TTTAGTTTTTTAATACCTAAAC
Found at i:116160 original size:65 final size:66
Alignment explanation
Indices: 116060--116182 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 66
116050 CCATTCAACA
*
116060 GGTACCGATACCCTCTCAAACGAGAAGAATTACAGAATGCCATAAGGGTACTGATACCCCCAGTT
1 GGTACCGATACCCTCTCAAACGAGAAGAATTACAGAATGCCATAAGGGTACCGATACCCCCAGTT
116125 G
66 G
** * *
116126 GGTACCGATACCTCTCTTGAACGA-AA-AATTACAGAATGTCATGAGGGTACCGATACC
1 GGTACCGATACC-CTCTCAAACGAGAAGAATTACAGAATGCCATAAGGGTACCGATACC
116183 TTAAGTAGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
65 28 0.55
66 14 0.27
67 9 0.18
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (66 bp):
GGTACCGATACCCTCTCAAACGAGAAGAATTACAGAATGCCATAAGGGTACCGATACCCCCAGTT
G
Found at i:116194 original size:65 final size:66
Alignment explanation
Indices: 116060--116203 Score: 175
Period size: 65 Copynumber: 2.2 Consensus size: 66
116050 CCATTCAACA
* * *
116060 GGTACCGATACCCTCTCAAACGAGAAGAATTACAGAATGCCATAAGGGTACTGATACCCCCAGTT
1 GGTACCGATACCCTCTCAAACGAGAAGAATTACAGAATGCCATAAGGGTACCGATACCCCAAGTA
116125 G
66 G
** * * **
116126 GGTACCGATACCTCTCTTGAACGA-AA-AATTACAGAATGTCATGAGGGTACCGATACCTTAAGT
1 GGTACCGATACC-CTCTCAAACGAGAAGAATTACAGAATGCCATAAGGGTACCGATACCCCAAGT
116189 AG
65 AG
*
116191 GGTATCGATACCC
1 GGTACCGATACCC
116204 CCTAAAGGAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
64 1 0.01
65 43 0.64
66 14 0.21
67 9 0.13
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (66 bp):
GGTACCGATACCCTCTCAAACGAGAAGAATTACAGAATGCCATAAGGGTACCGATACCCCAAGTA
G
Found at i:116876 original size:23 final size:23
Alignment explanation
Indices: 116808--116868 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
116798 ACATCTTATA
* *
116808 TGGCACTACGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTACG
* *
116831 CGGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
116854 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
116869 TTTATACGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:120366 original size:6 final size:6
Alignment explanation
Indices: 120357--120386 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
120347 CCAACCCCAA
120357 TGGCAT TGGCAT TGGCAT TGGCAT TGGCAT
1 TGGCAT TGGCAT TGGCAT TGGCAT TGGCAT
120387 GTGCAAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (6 bp):
TGGCAT
Found at i:132316 original size:21 final size:23
Alignment explanation
Indices: 132281--132328 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
132271 ACATTTTGAA
*
132281 AAAATATATATATATAG-TTTTT
1 AAAACATATATATATAGTTTTTT
132303 AAAACATA-ATATATAGTTTTTT
1 AAAACATATATATATAGTTTTTT
132325 AAAA
1 AAAA
132329 ACAAAACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (23 bp):
AAAACATATATATATAGTTTTTT
Found at i:132340 original size:23 final size:21
Alignment explanation
Indices: 132290--132334 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
132280 AAAAATATAT
*
132290 ATATATAGTTTTTAAAACATA
1 ATATATAGTTTTTAAAACAAA
132311 ATATATAGTTTTTTAAAAACAAA
1 ATATATAG-TTTTT-AAAACAAA
132334 A
1 A
132335 CTTATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
ATATATAGTTTTTAAAACAAA
Found at i:132374 original size:34 final size:35
Alignment explanation
Indices: 132331--132708 Score: 431
Period size: 34 Copynumber: 10.8 Consensus size: 35
132321 TTTTAAAAAC
*
132331 AAAACT-TATAATATATAGTTTTAAAAACATTTTG
1 AAAACTATATAATATATAGTTTTTAAAACATTTTG
*
132365 AAAACTTATATAATATATAGTTTTTAACACATTTTG
1 AAAAC-TATATAATATATAGTTTTTAAAACATTTTG
*
132401 -AAACTATATAATATATAGTTTTTAAAAAATTTTG
1 AAAACTATATAATATATAGTTTTTAAAACATTTTG
132435 AAAACT-TATATATATATAGTTTTTAAAACATTTTG
1 AAAACTATATA-ATATATAGTTTTTAAAACATTTTG
* * *
132470 AAAACTTATACAATATATAATTTTAAAAAACATTTTG
1 AAAAC-TATATAATATATAGTTTT-TAAAACATTTTG
132507 AAAACT-TATAATATATAGTTTTTAAAACATTTT-
1 AAAACTATATAATATATAGTTTTTAAAACATTTTG
* *
132540 AAAAATATAT-ATAATATAGTTTTTAAAATATTTTG
1 AAAACTATATAAT-ATATAGTTTTTAAAACATTTTG
* *
132575 AAAA-TATATGTATAATATATTGTTTTAAAACATTTTG
1 AAAACTATAT-AAT-ATATAGT-TTTTAAAACATTTTG
132612 AAAA-TATATATATAATATAGTTTTTAAAACATTTTG
1 AAAACTATATA-AT-ATATAGTTTTTAAAACATTTTG
*
132648 AAAATATATATAATA-ATAG-TTTTAAAA-ATTTTTG
1 AAAA-CTATATAATATATAGTTTTTAAAACA-TTTTG
* *
132682 AAAA-TATAT-ATATTATGGTTTTGAAAA
1 AAAACTATATAATA-TATAGTTTTTAAAA
132709 TATTATTTTA
Statistics
Matches: 305, Mismatches: 19, Indels: 40
0.84 0.05 0.11
Matches are distributed among these distances:
31 3 0.01
32 5 0.02
33 11 0.04
34 99 0.32
35 60 0.20
36 68 0.22
37 53 0.17
38 6 0.02
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (35 bp):
AAAACTATATAATATATAGTTTTTAAAACATTTTG
Found at i:132522 original size:71 final size:70
Alignment explanation
Indices: 132331--132685 Score: 394
Period size: 71 Copynumber: 5.1 Consensus size: 70
132321 TTTTAAAAAC
*
132331 AAAACTTAT-AATATATAGTTTTAAAAACATTTTGAAAACTTATATAATATATAGTTTTTAACAC
1 AAAACTTATAAATATATAGTTTTAAAAACATTTTGAAAAC-TATATAATATATAGTTTTTAAAAC
132395 ATTTTG
65 ATTTTG
132401 -AAAC-TATATAATATATAGTTTTTAAAAA-ATTTTGAAAACT-TATATATATATAGTTTTTAAA
1 AAAACTTATA-AATATATAG-TTTTAAAAACATTTTGAAAACTATATA-ATATATAGTTTTTAAA
132462 ACATTTTG
63 ACATTTTG
*
132470 AAAACTTATACAATATATAATTTTAAAAAACATTTTGAAAACT-TATAATATATAGTTTTTAAAA
1 AAAACTTATA-AATATATAGTTTT-AAAAACATTTTGAAAACTATATAATATATAGTTTTTAAAA
132534 CATTTT-
64 CATTTTG
* * * * * *
132540 AAAA-ATATATATAATATAGTTTTTAAAATATTTTGAAAA-TATATGTATAATATATTGTTTTAA
1 AAAACTTATAAAT-ATATAGTTTTAAAAACATTTTGAAAACTATAT-AAT-ATATAGT-TTTTAA
132603 AACATTTTG
62 AACATTTTG
* * *
132612 AAAA-TATATATATAATATAGTTTTTAAAACATTTTGAAAATATATATAATA-ATAG-TTTTAAA
1 AAAACT-TATAAAT-ATATAGTTTTAAAAACATTTTGAAAA-CTATATAATATATAGTTTTTAAA
132674 A-ATTTTTG
63 ACA-TTTTG
132682 AAAA
1 AAAA
132686 TATATATATT
Statistics
Matches: 253, Mismatches: 14, Indels: 36
0.83 0.05 0.12
Matches are distributed among these distances:
67 1 0.00
68 26 0.10
69 44 0.17
70 55 0.22
71 63 0.25
72 23 0.09
73 34 0.13
74 2 0.01
75 5 0.02
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.43
Consensus pattern (70 bp):
AAAACTTATAAATATATAGTTTTAAAAACATTTTGAAAACTATATAATATATAGTTTTTAAAACA
TTTTG
Found at i:132717 original size:107 final size:103
Alignment explanation
Indices: 132337--132708 Score: 411
Period size: 105 Copynumber: 3.5 Consensus size: 103
132327 AAACAAAACT
* * *
132337 TATAATATATAGTTTTAAAAACATTTTGAAAACT-TATATAATATATAGTTTTTAACACATTTTG
1 TATAATA-ATAGTTTTAAAAA-TTTTTGAAAA-TATATAT-ATATATAGTTTTAAAAACATTTTG
* *
132401 AAACTATATAATATATAGTTTTTAAAAAATTTTGAAAACT-TA
62 AAAATATATAATATATAGTTTTTAAAACATTTTGAAAA-TATA
* *
132443 TAT-ATATATAGTTTTTAAAACA-TTTTGAAAACT-TATACAATATATAATTTTAAAAAACATTT
1 TATAATA-ATAG-TTTTAAAA-ATTTTTGAAAA-TATATA-TATATATAGTTTT-AAAAACATTT
*
132505 TGAAAACT-TATAATATATAGTTTTTAAAACATTTTAAAAATATA
60 TGAAAA-TATATAATATATAGTTTTTAAAACATTTTGAAAATATA
* *
132549 TATAAT-ATAGTTTTTAAAATATTTTGAAAATATATGTATAATATATTGTTTT-AAAACATTTTG
1 TATAATAATAGTTTTAAAAAT-TTTTGAAAATATA--TAT-ATATATAGTTTTAAAAACATTTTG
132612 AAAATATATATATAATATAGTTTTTAAAACATTTTGAAAATATA
62 AAAATATATA-AT-ATATAGTTTTTAAAACATTTTGAAAATATA
* *
132656 TATAATAATAGTTTTAAAAATTTTTGAAAATATATATAT-TATGGTTTTGAAAA
1 TATAATAATAGTTTTAAAAATTTTTGAAAATATATATATATATAGTTTTAAAAA
132709 TATTATTTTA
Statistics
Matches: 234, Mismatches: 14, Indels: 38
0.82 0.05 0.13
Matches are distributed among these distances:
103 9 0.04
104 15 0.06
105 72 0.31
106 61 0.26
107 64 0.27
108 13 0.06
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (103 bp):
TATAATAATAGTTTTAAAAATTTTTGAAAATATATATATATATAGTTTTAAAAACATTTTGAAAA
TATATAATATATAGTTTTTAAAACATTTTGAAAATATA
Found at i:132790 original size:16 final size:16
Alignment explanation
Indices: 132748--132804 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
132738 ATAATTTAAA
*
132748 ATTTATCTTTTATTATT
1 ATTTAT-TTTTAATATT
132765 ATATTA-TTTTAATATT
1 AT-TTATTTTTAATATT
**
132781 ATTTATTTTTTGTATT
1 ATTTATTTTTAATATT
132797 ATTT-TTTT
1 ATTTATTTT
132805 ACTTATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
15 7 0.20
16 23 0.66
17 2 0.06
18 3 0.09
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (16 bp):
ATTTATTTTTAATATT
Found at i:132799 original size:19 final size:19
Alignment explanation
Indices: 132757--132813 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
132747 AATTTATCTT
132757 TTATTATTATATTATTTTA
1 TTATTATTATATTATTTTA
* *
132776 ATATTATT-TATTTTTTGTA
1 TTATTATTATATTATTT-TA
* *
132795 TTATTTTTTTACTTATTTT
1 TTATTATTATA-TTATTTT
132814 TCTTTGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 7 0.23
19 15 0.50
20 3 0.10
21 5 0.17
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTATTATTATATTATTTTA
Found at i:132819 original size:27 final size:27
Alignment explanation
Indices: 132766--132827 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
132756 TTTATTATTA
*
132766 TATTATTTTAATATTATTTATTTTTTG
1 TATTATTTTAATATTATTTATTCTTTG
**
132793 TATTATTTTTTTACTTATTT-TTCTTTG
1 TATTATTTTAATA-TTATTTATTCTTTG
132820 T-TT-TTTTA
1 TATTATTTTA
132828 CTTGTCCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 4 0.13
26 2 0.07
27 18 0.60
28 6 0.20
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (27 bp):
TATTATTTTAATATTATTTATTCTTTG
Found at i:134436 original size:20 final size:20
Alignment explanation
Indices: 134407--134446 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
134397 AGAGGTAATT
*
134407 AATTTAAATTGAATTTTTAA
1 AATTTAAATTGAAATTTTAA
* *
134427 AATTTCAATTTAAATTTTAA
1 AATTTAAATTGAAATTTTAA
134447 TTTTCACAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
AATTTAAATTGAAATTTTAA
Found at i:135864 original size:20 final size:20
Alignment explanation
Indices: 135841--135891 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
135831 ACGCGATCCT
135841 CAGAATCGCAAATCAGTTTC
1 CAGAATCGCAAATCAGTTTC
135861 CAGAATCGCAAATCAGTTTC
1 CAGAATCGCAAATCAGTTTC
*
135881 CAAAATCGCAA
1 CAGAATCGCAA
135892 CGCGATTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (20 bp):
CAGAATCGCAAATCAGTTTC
Found at i:135972 original size:20 final size:20
Alignment explanation
Indices: 135947--136140 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
135937 GATTTTCCAT
* *
135947 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
135967 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
135987 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
136007 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
136027 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
136047 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
136067 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
136087 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
136108 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
136128 AATCGCAACGCGA
1 AATCGCAACGCGA
136141 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:135992 original size:40 final size:39
Alignment explanation
Indices: 135943--136140 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
135933 TTGCGATTTT
* ** *
135943 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
135981 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
136022 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
136062 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
136101 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
136141 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:136030 original size:60 final size:60
Alignment explanation
Indices: 135947--136139 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
135937 GATTTTCCAT
* ** * *
135947 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
136007 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
136067 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
136128 AATCGCAACGCG
1 AATCGCAACGCG
136140 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:136550 original size:33 final size:33
Alignment explanation
Indices: 136510--136580 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
136500 TTCACTTAGA
*
136510 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
136543 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
136576 TTTCA
1 TTTCA
136581 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:136719 original size:14 final size:14
Alignment explanation
Indices: 136700--136754 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
136690 GAGATGACTG
136700 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
136714 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
136733 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
136747 TCGCAACG
1 TCGCAACG
136755 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:136721 original size:33 final size:33
Alignment explanation
Indices: 136679--136770 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
136669 GATAAATGAA
* ***
136679 AATCGCAACGAGAGATGACTGTCGCAACGAGAG
1 AATCGCAACGAGAAATGAAAATCGCAACGAGAG
*
136712 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGAGAAATGAAAATCGCAACGAGAG
* **
136745 AATCGCAACGCGAAACCAAAATCGCA
1 AATCGCAACGAGAAATGAAAATCGCA
136771 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.42, C:0.24, G:0.24, T:0.10
Consensus pattern (33 bp):
AATCGCAACGAGAAATGAAAATCGCAACGAGAG
Found at i:136788 original size:19 final size:18
Alignment explanation
Indices: 136766--136862 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
136756 GAAACCAAAA
*
136766 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
136785 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
136799 TCTCGTTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
136817 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
* *
136831 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATT-TCATT
136850 TCGCGTTGCGATT
1 TCGCGTTGCGATT
136863 CTCTCGTTGC
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
14 20 0.31
15 4 0.06
16 2 0.03
17 6 0.09
18 10 0.16
19 22 0.34
ACGTcount: A:0.10, C:0.25, G:0.23, T:0.42
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:136807 original size:14 final size:14
Alignment explanation
Indices: 136788--136876 Score: 88
Period size: 14 Copynumber: 5.7 Consensus size: 14
136778 TTTCATTTCG
136788 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
136802 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
136820 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
136834 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
136851 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
136867 CGTTGCGATT
1 CGTTGCGATT
136877 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 28 0.44
15 4 0.06
16 5 0.08
17 8 0.12
18 11 0.17
19 8 0.12
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:136859 original size:33 final size:33
Alignment explanation
Indices: 136771--136884 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
136761 CAAAATCGCA
136771 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
136804 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
136836 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
136869 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
136885 AACAAAGACA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 32 0.42
33 44 0.58
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:139222 original size:91 final size:93
Alignment explanation
Indices: 138557--139203 Score: 1167
Period size: 92 Copynumber: 7.1 Consensus size: 93
138547 TTAGATTGCT
*
138557 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
138622 -TTGTCTTTGTTTTGTCTTTTGG-TGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
138648 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
138712 TTTGTC-TTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
138739 AGTAAATTTGTTCGGTTGCTGCC-ATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
138803 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
138831 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
138896 TTTGTC-TTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
138923 AGTAAATTTGTTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
138988 TTTGTCTTTGTTTTGTTTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
139015 AGTAAATTTGTTCGGTTGCTGCCAA-T-TGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
139078 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
139105 AGTAAATTTGTTCGGTTGCTGCCAATTATGCTAAACTG-GTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
139169 TTTGTC-TTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
139195 AGTAAATTT
1 AGTAAATTT
139204 ATCCATTCAA
Statistics
Matches: 542, Mismatches: 4, Indels: 21
0.96 0.01 0.04
Matches are distributed among these distances:
89 24 0.04
90 129 0.24
91 148 0.27
92 176 0.32
93 65 0.12
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:139347 original size:19 final size:19
Alignment explanation
Indices: 139246--139341 Score: 103
Period size: 19 Copynumber: 5.3 Consensus size: 19
139236 ATAGTTTACT
* *
139246 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
139266 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
139285 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
139304 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
139318 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
139337 TCGCA
1 TCGCA
139342 TTGCGATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
14 9 0.14
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 36 0.56
20 13 0.20
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:139359 original size:19 final size:19
Alignment explanation
Indices: 139337--139454 Score: 114
Period size: 19 Copynumber: 6.8 Consensus size: 19
139327 GAAACCAAAA
*
139337 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
139356 TCGCGTTGCGA--TTC--T
1 TCGCGTTGCGATTTTCATT
139371 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
139388 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
139404 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
139421 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
139440 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
139455 AAGTTTCGTG
Statistics
Matches: 81, Mismatches: 7, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
13 8 0.10
14 7 0.09
15 5 0.06
16 5 0.06
17 10 0.12
19 46 0.57
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:139383 original size:32 final size:33
Alignment explanation
Indices: 139342--139433 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
139332 CAAAATCGCA
139342 TTGCGATTTTCATTTCGCGTTGCGATTCT-TCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
139374 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
139407 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
139434 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 28 0.49
33 29 0.51
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:139469 original size:19 final size:19
Alignment explanation
Indices: 139405--139462 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
139395 GCGATTCTGT
139405 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTT-AGTTTCG
*
139424 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
139443 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
139463 TGTGCGAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 29 0.83
20 6 0.17
ACGTcount: A:0.10, C:0.17, G:0.26, T:0.47
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:139779 original size:160 final size:157
Alignment explanation
Indices: 139465--139779 Score: 587
Period size: 158 Copynumber: 2.0 Consensus size: 157
139455 AAGTTTCGTG
139465 TGCGAAAGTAAAACTATTCTTCTTTGCAAATTGAAACTTGAATGGATTGCATTACTTCAACCAAT
1 TGCGAAAGTAAAACTATTCTTCTTTGCAAATTGAAACTTGAATGGATTGCATTACTTCAACCAAT
139530 AGACAAAACAAAGACAAATACTAACTTCAGGGTATTAGTTTGAAACATATTTTCTTGTTATCTGA
66 AGACAAAACAAAGACAAATACTAACTTCAGGGTATTAGTTTGAAACATATTTTCTTGTTATCTGA
139595 TGCATTTTGTGAACTATGATAGAATGT
131 TGCATTTTGTGAACTATGATAGAATGT
139622 TGCGAAAGT-AAACTATTTCTTCTTCTGCAAATTGAAACTTGAATGGATTGCATTACTTCAACCA
1 TGCGAAAGTAAAACTA-TTCTTCTT-TGCAAATTGAAACTTGAATGGATTGCATTACTTCAACCA
139686 ATAGACAAAACAAAGACAAATACTAACTTCAGGGTATTAGTTTGAAACATATTTTTCTTTGTTAT
64 ATAGACAAAACAAAGACAAATACTAACTTCAGGGTATTAGTTTGAAACATA-TTTTC-TTGTTAT
139751 CTGATGCATTTTGTGAACTATGATAGAAT
127 CTGATGCATTTTGTGAACTATGATAGAAT
139780 AATGACTTGG
Statistics
Matches: 154, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
156 6 0.04
157 17 0.11
158 90 0.58
159 5 0.03
160 36 0.23
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (157 bp):
TGCGAAAGTAAAACTATTCTTCTTTGCAAATTGAAACTTGAATGGATTGCATTACTTCAACCAAT
AGACAAAACAAAGACAAATACTAACTTCAGGGTATTAGTTTGAAACATATTTTCTTGTTATCTGA
TGCATTTTGTGAACTATGATAGAATGT
Found at i:141454 original size:14 final size:14
Alignment explanation
Indices: 141435--141470 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
141425 ATTGTTTAAT
141435 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
141449 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
141463 TGATTTGT
1 TGATTTGT
141471 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:141591 original size:19 final size:19
Alignment explanation
Indices: 141575--141676 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
141565 AAAAATGACT
141575 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
141594 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
141613 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
141627 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
141646 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
141666 ATCGCAATGCG
1 ATCGCAATGCG
141677 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:141695 original size:19 final size:18
Alignment explanation
Indices: 141667--141978 Score: 254
Period size: 19 Copynumber: 17.9 Consensus size: 18
141657 GAAATGAAAA
* *
141667 TCGCAATGCGTTTATAATT
1 TCGCATTGCGTTT-TCATT
* *
141686 TCGCATTGCG-ATT-ATC
1 TCGCATTGCGTTTTCATT
*
141702 TCG--TTGCGATTTCATT
1 TCGCATTGCGTTTTCATT
141718 TCGCATTGCGATTTTCATT
1 TCGCATTGCG-TTTTCATT
*
141737 TCGCATTGCG-ATTC-TT
1 TCGCATTGCGTTTTCATT
*
141753 TCG--TTGCGATTTCATT
1 TCGCATTGCGTTTTCATT
141769 TCGCATTGCGATTTTCATT
1 TCGCATTGCG-TTTTCATT
*
141788 TCGCATTGCGATTTCATT
1 TCGCATTGCGTTTTCATT
141806 TCGCATTGCGATTTTCATT
1 TCGCATTGCG-TTTTCATT
* *
141825 TCGCATTGCG-ATTC-TG
1 TCGCATTGCGTTTTCATT
141841 TCG--TTGCGATTTTCATT
1 TCGCATTGCG-TTTTCATT
141858 TCGCATTGCGATTTTCATT
1 TCGCATTGCG-TTTTCATT
*
141877 TCGCATTGCG-ATTC---
1 TCGCATTGCGTTTTCATT
141891 TCG--TTGCGATTTTCATT
1 TCGCATTGCG-TTTTCATT
141908 TCGCATTGCGATTTTCATT
1 TCGCATTGCG-TTTTCATT
* *
141927 TCGCATTGCG-ATTC-TC
1 TCGCATTGCGTTTTCATT
141943 TCG--TTGCGATTTTCATT
1 TCGCATTGCG-TTTTCATT
141960 TCCGCATTGCGATTTTCAT
1 T-CGCATTGCG-TTTTCAT
141979 GTTGGGATTT
Statistics
Matches: 243, Mismatches: 21, Indels: 57
0.76 0.07 0.18
Matches are distributed among these distances:
12 5 0.02
14 26 0.11
15 5 0.02
16 34 0.14
17 22 0.09
18 30 0.12
19 108 0.44
20 13 0.05
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (18 bp):
TCGCATTGCGTTTTCATT
Found at i:141743 original size:51 final size:51
Alignment explanation
Indices: 141683--141939 Score: 265
Period size: 51 Copynumber: 4.9 Consensus size: 51
141673 TGCGTTTATA
141683 ATTTCGCATTGCGATTATCTCGTTGCGA-TTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
141734 ATTTCGCATTGCGATTCTTTCGTTGCGA-TTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
141785 ATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTC
1 ATTTCGCATTGCGATTTC---TCG--TTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * * *
141843 GTTGCG-ATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTC
1 ATTTCGCA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* * * * *
141893 GTTGCG-ATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
1 ATTTCGCA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATT
141940 CTCTCGTTGC
Statistics
Matches: 188, Mismatches: 9, Indels: 19
0.87 0.04 0.09
Matches are distributed among these distances:
50 50 0.27
51 65 0.35
52 27 0.14
53 3 0.02
54 1 0.01
55 6 0.03
56 20 0.11
57 7 0.04
58 9 0.05
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (51 bp):
ATTTCGCATTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:141848 original size:102 final size:103
Alignment explanation
Indices: 141683--141978 Score: 339
Period size: 102 Copynumber: 2.9 Consensus size: 103
141673 TGCGTTTATA
* *
141683 ATTTCGCATTGCGA-TT-ATCTCG--TTGCGA-TTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 ATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
141743 TGCGATTC-TTTCG-TTGCGA-TTTCATTTCGCATTGCGATTTTC
61 TGCGATTCATTTCGATTGCGATTTTCATTTCGCATTGCGA--TTC
*
141785 ATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCGTTGCGA
1 ATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
141850 TTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTC
66 --TTCATTTCG-ATTGCGATTTTCATTTCGCATTGCGATTC
141891 ---TCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG
1 ATTTCGCATTGCGA-TTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG
141951 ATTTTCATTTCCGCATTGCGATTTTCAT
65 A--TTCATTT-CG-ATTGCGATTTTCAT
141979 GTTGGGATTT
Statistics
Matches: 178, Mismatches: 3, Indels: 25
0.86 0.01 0.12
Matches are distributed among these distances:
101 6 0.03
102 79 0.44
103 22 0.12
104 12 0.07
105 8 0.04
106 9 0.05
107 24 0.13
108 18 0.10
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (103 bp):
ATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
TTCATTTCGATTGCGATTTTCATTTCGCATTGCGATTC
Found at i:144200 original size:12 final size:12
Alignment explanation
Indices: 144183--144207 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
144173 TCTTCGGGGA
144183 CTTTTTCTTCTT
1 CTTTTTCTTCTT
144195 CTTTTTCTTCTT
1 CTTTTTCTTCTT
144207 C
1 C
144208 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:144416 original size:24 final size:24
Alignment explanation
Indices: 144382--144428 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
144372 CTGAAACATC
144382 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
144406 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
144429 GAACAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:145137 original size:20 final size:20
Alignment explanation
Indices: 145109--145457 Score: 427
Period size: 20 Copynumber: 17.4 Consensus size: 20
145099 AAATTTCAGT
* * * *
145109 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
145129 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
145149 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
145169 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
145189 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
145209 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
145229 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
145249 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
145269 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
145289 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
145309 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
145329 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
145349 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
145369 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
145389 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
145409 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
145429 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
145449 GTTGCGATT
1 GTTGCGATT
145458 ATGGAAAATC
Statistics
Matches: 291, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.02
20 281 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:148831 original size:21 final size:21
Alignment explanation
Indices: 148807--148851 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
148797 TTTGATCCTC
148807 TTTTCA-TTGAATTTTATTTGA
1 TTTTCAGTTGAA-TTTATTTGA
* *
148828 TTTTCAGTTGGATTTGTTTGA
1 TTTTCAGTTGAATTTATTTGA
148849 TTT
1 TTT
148852 CTCCGATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.18, C:0.04, G:0.16, T:0.62
Consensus pattern (21 bp):
TTTTCAGTTGAATTTATTTGA
Found at i:153257 original size:40 final size:40
Alignment explanation
Indices: 153213--153294 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
153203 ATCGAGTCCT
*
153213 ACGGTGGGCAATTCATAATTCTGGCTGCCAGAGGTCTTTC
1 ACGGTGGGCAATTCATAATTCTGACTGCCAGAGGTCTTTC
153253 ACGGTGGGCAATTCATAATTCTGACTGCCAGAGGTCTTTC
1 ACGGTGGGCAATTCATAATTCTGACTGCCAGAGGTCTTTC
153293 AC
1 AC
153295 AGAAGCTGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
ACGGTGGGCAATTCATAATTCTGACTGCCAGAGGTCTTTC
Found at i:155970 original size:24 final size:23
Alignment explanation
Indices: 155931--155975 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
155921 ACATAAATTT
155931 TTTATTTTTAAATTATATTTAAAG
1 TTTATTTTTAAATTAT-TTTAAAG
**
155955 TTTATTTTTATTTTATTTTAA
1 TTTATTTTTAAATTATTTTAA
155976 TATTTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTATTTTTAAATTATTTTAAAG
Found at i:167704 original size:24 final size:23
Alignment explanation
Indices: 167658--167723 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
167648 TTTGGATATG
* *
167658 TGACATGTATCACA-CTATTATTT
1 TGACATGTGTCACATC-ATCATTT
167681 TAGACATGTGTCACATCATCATTT
1 T-GACATGTGTCACATCATCATTT
* *
167705 T-ATATATGTCACATCATCA
1 TGACATGTGTCACATCATCA
167724 CTTATGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.43
23 1 0.03
24 19 0.51
25 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (23 bp):
TGACATGTGTCACATCATCATTT
Found at i:168133 original size:161 final size:163
Alignment explanation
Indices: 167805--168130 Score: 538
Period size: 158 Copynumber: 2.0 Consensus size: 163
167795 ATACACAAAT
167805 TTAAATGTTTGAAACTTCGAATTATTATTATATATATATATATATGTATGTATGTATGTATAAAA
1 TTAAATGTTTGAAACTTCGAA-TATTATTATATATATATATATATGTATGTATGTATGTAT-AAA
167870 AAAACAACCGGGTACCCGAAAAACTTCAATTTTGTGACTCGGTCTCGACCGGAAAATGTGGGTTG
64 AAAACAACCGGGTACCCGAAAAACTTCAATTTTGTGACTCGGTCTCGACCGGAAAATGTGGGTTG
*
167935 AGTACCGACACCCGGGGTAAATTTTTTTAGAAAAA
129 AGTACCGACACCCCGGGTAAATTTTTTTAGAAAAA
167970 TTAAATGTTTGAAACTTCG-A-ATTATTAT-TATATATATATATGTATGTATGTATGTAT-AAAA
1 TTAAATGTTTGAAACTTCGAATATTATTATATATATATATATATGTATGTATGTATGTATAAAAA
168031 AA-AACCGGGTACCCGAAAAACTTCAATTTTGTGACTCGGTCTCGACCCGGAAAATGTCGGGTTG
66 AACAACCGGGTACCCGAAAAACTTCAATTTTGTGACTCGGTCTCGA-CCGGAAAATGT-GGGTTG
168095 AGTACCCGAC-CCGGCCGGGTAAATTTTTTTAGAAAA
129 AGTA-CCGACACC--CCGGGTAAATTTTTTTAGAAAA
168131 TTACCCGGTT
Statistics
Matches: 155, Mismatches: 1, Indels: 13
0.92 0.01 0.08
Matches are distributed among these distances:
158 43 0.28
159 17 0.11
160 12 0.08
161 34 0.22
162 29 0.19
164 1 0.01
165 19 0.12
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (163 bp):
TTAAATGTTTGAAACTTCGAATATTATTATATATATATATATATGTATGTATGTATGTATAAAAA
AACAACCGGGTACCCGAAAAACTTCAATTTTGTGACTCGGTCTCGACCGGAAAATGTGGGTTGAG
TACCGACACCCCGGGTAAATTTTTTTAGAAAAA
Found at i:168761 original size:4 final size:4
Alignment explanation
Indices: 168754--168789 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
168744 TTAAAATATA
168754 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
168790 CATGCATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:169355 original size:25 final size:25
Alignment explanation
Indices: 169321--169377 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
169311 TAAATCAGAC
169321 AATCAATTACAAAGTAATTCAAGAT
1 AATCAATTACAAAGTAATTCAAGAT
*
169346 AATCAATTACAACGTAATTCAAGAT
1 AATCAATTACAAAGTAATTCAAGAT
169371 AATCAAT
1 AATCAAT
169378 CACATCGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (25 bp):
AATCAATTACAAAGTAATTCAAGAT
Found at i:169386 original size:25 final size:25
Alignment explanation
Indices: 169321--169389 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
169311 TAAATCAGAC
* *
169321 AATCAATTACAAAGTAATTCAAGAT
1 AATCAATCACAACGTAATTCAAGAT
*
169346 AATCAATTACAACGTAATTCAAGAT
1 AATCAATCACAACGTAATTCAAGAT
*
169371 AATCAATCACATCGTAATT
1 AATCAATCACAACGTAATT
169390 AATGATTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (25 bp):
AATCAATCACAACGTAATTCAAGAT
Found at i:171744 original size:54 final size:54
Alignment explanation
Indices: 171681--172466 Score: 598
Period size: 54 Copynumber: 14.5 Consensus size: 54
171671 TTGCCCATTT
* * * *
171681 TTGGACCGACACCTGAAAGCGGCCGCTTCTTCGATGGCGAGGGTGACGGATTAC
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCGAGTGTGACGGATTAC
*
171735 TTGGACCGACACCTGAAAGCGGCTGCTCCATTGATGGCGAGTGTGACGGATTAC
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCGAGTGTGACGGATTAC
* * * *
171789 TTGGACCGACATCTGAAAGCGGTTGCTCC-T-GCATCGGCAGTGAGTGTGATGGAATAC
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCG-AT-GGC---GAGTGTGACGGATTAC
* * * *
171846 TTGGATCGACACCTGAAAGCGGTTGCTCC-T-GCATCGGCAGTGAGTGTGATGGAATAC
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCG-AT-GGC---GAGTGTGACGGATTAC
* * * * * ** * *
171903 TTGGATCAACACCAGAAAGCGGCTGCTGCATCAATGGTAAGTGTGAC-CAATAC
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCGAGTGTGACGGATTAC
** * *
171956 TTGGACCGGA-ACCTGAAAGCGGCTGCTCCATTAATGGCGAGTGCGTCGGATTAC
1 TTGGACC-GACACCTGAAAGCGGCTGCTCCATCGATGGCGAGTGTGACGGATTAC
** * * * **
172010 TTGGATTGACACTTGAAAGCGGCTGCTCCATCGATGGCAAGCGTGACCAATTAC
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCGAGTGTGACGGATTAC
* *** **
172064 TTGGACCGACAGCTGAAAGCGGC-GCT-CATCGATGTTAAGTGTGACCAATTAC
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCGAGTGTGACGGATTAC
** * *
172116 TTGGACCGACGTCTGAAAGCGGCTGCTTCATCGATGG-GTAGTGTAACGGA-TAC
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCG-AGTGTGACGGATTAC
* **
172169 TTGGACCGACACCTGAAAGTGGCTGCTCCATCGATGG-GTAGTGTGATAGATTA-
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCG-AGTGTGACGGATTAC
* * * *
172222 TTTGATCGACACCTGAAAGCGGCTGCTCCATCAAT-GCATAGTGTGACGGATTAC
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGC-GAGTGTGACGGATTAC
* ** * * * * * *
172276 TTGGATCGACAGTTGAAAGCTGCTGCTGCTGCATC-ATGCCAAGTATGAC-CAATAC
1 TTGGACCGACACCTGAAAGC-G--GCTGCTCCATCGATGGCGAGTGTGACGGATTAC
* * * **
172331 TTGGACCGACATCTGAAAGAGGCTGCTCCATCGATAGCGAGTTGTGACCAATTAC
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCGAG-TGTGACGGATTAC
** * * * * * *
172386 TTAAACC-AGCATCTGAAAGCGGCTGCTGCATCGATGACAAATGTGAC-CAGTTAC
1 TTGGACCGA-CACCTGAAAGCGGCTGCTCCATCGATGGCGAGTGTGACGGA-TTAC
* * *
172440 TTAGACCGTCACCTGAGAGCGGCTGCT
1 TTGGACCGACACCTGAAAGCGGCTGCT
172467 GCAACGAAAC
Statistics
Matches: 602, Mismatches: 103, Indels: 54
0.79 0.14 0.07
Matches are distributed among these distances:
52 56 0.09
53 147 0.24
54 224 0.37
55 56 0.09
56 9 0.01
57 107 0.18
58 3 0.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (54 bp):
TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCGAGTGTGACGGATTAC
Found at i:172140 original size:106 final size:108
Alignment explanation
Indices: 171681--172466 Score: 589
Period size: 107 Copynumber: 7.2 Consensus size: 108
171671 TTGCCCATTT
* * * * * **
171681 TTGGACCGACACCTGAAAGCGGCCGCTTCTTCGATGGCGAGGGTGACGGATTACTTGGACCGACA
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCAAGTGTGACCAATTACTTGGACCGACA
* * **
171746 CCTGAAAGCGGCTGCTCCATTGATGGCGAGTGTGACGGATTAC
66 CCTGAAAGCGGCTGCTCCATCGATGGCAAGTGTGACCAATTAC
* * **
171789 TTGGACCGACATCTGAAAGCGGTTGCTCC-T-GCATCGGCAGTGAGTGTGATGGAA-TACTTGGA
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCG-AT-GGCA---AGTGTGA-CCAATTACTTGGA
* * **
171851 TCGACACCTGAAAGCGGTTGCTCC-T-GCATCGGCAGTGAGTGTGATGGAA-TAC
60 CCGACACCTGAAAGCGGCTGCTCCATCG-AT-GGCA---AGTGTGA-CCAATTAC
* * * * * *
171903 TTGGATCAACACCAGAAAGCGGCTGCTGCATCAATGGTAAGTGTGACCAA-TACTTGGACCGGA-
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCAAGTGTGACCAATTACTTGGACC-GAC
** * * * **
171966 ACCTGAAAGCGGCTGCTCCATTAATGGCGAGTGCGTCGGATTAC
65 ACCTGAAAGCGGCTGCTCCATCGATGGCAAGTGTGACCAATTAC
** * *
172010 TTGGATTGACACTTGAAAGCGGCTGCTCCATCGATGGCAAGCGTGACCAATTACTTGGACCGACA
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCAAGTGTGACCAATTACTTGGACCGACA
* **
172075 GCTGAAAGCGGC-GCT-CATCGATGTTAAGTGTGACCAATTAC
66 CCTGAAAGCGGCTGCTCCATCGATGGCAAGTGTGACCAATTAC
** * ** * **
172116 TTGGACCGACGTCTGAAAGCGGCTGCTTCATCGATGGGTAGTGTAACGGA-TACTTGGACCGACA
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCAAGTGTGACCAATTACTTGGACCGACA
* ** *
172180 CCTGAAAGTGGCTGCTCCATCGATGGGTAGTGTGA-TAGATTA-
66 CCTGAAAGCGGCTGCTCCATCGATGGCAAGTGTGACCA-ATTAC
* * * ** *
172222 TTTGATCGACACCTGAAAGCGGCTGCTCCATCAAT-GCATAGTGTGACGGATTACTTGGATCGAC
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCA-AGTGTGACCAATTACTTGGACCGAC
** * * *
172286 AGTTGAAAGCTGCTGCTGCTGCATC-ATGCCAAGTATGACCAA-TAC
65 ACCTGAAAGC-G--GCTGCTCCATCGATGGCAAGTGTGACCAATTAC
* * * * **
172331 TTGGACCGACATCTGAAAGAGGCTGCTCCATCGATAGCGAGTTGTGACCAATTACTTAAACC-AG
1 TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCAAG-TGTGACCAATTACTTGGACCGA-
* * * * *
172395 CATCTGAAAGCGGCTGCTGCATCGATGACAAATGTGACCAGTTAC
64 CACCTGAAAGCGGCTGCTCCATCGATGGCAAGTGTGACCAATTAC
* * *
172440 TTAGACCGTCACCTGAGAGCGGCTGCT
1 TTGGACCGACACCTGAAAGCGGCTGCT
172467 GCAACGAAAC
Statistics
Matches: 535, Mismatches: 108, Indels: 69
0.75 0.15 0.10
Matches are distributed among these distances:
105 25 0.05
106 101 0.19
107 107 0.20
108 66 0.12
109 70 0.13
110 72 0.13
111 51 0.10
112 2 0.00
114 36 0.07
115 5 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (108 bp):
TTGGACCGACACCTGAAAGCGGCTGCTCCATCGATGGCAAGTGTGACCAATTACTTGGACCGACA
CCTGAAAGCGGCTGCTCCATCGATGGCAAGTGTGACCAATTAC
Found at i:177844 original size:15 final size:15
Alignment explanation
Indices: 177824--177862 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
177814 GAATATCGAA
177824 GTTGTCATCATCATC
1 GTTGTCATCATCATC
177839 GTTGTCATCATCATC
1 GTTGTCATCATCATC
177854 GTTGTCATC
1 GTTGTCATC
177863 CTGCCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (15 bp):
GTTGTCATCATCATC
Found at i:180687 original size:58 final size:58
Alignment explanation
Indices: 180597--180714 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
180587 CAAATACTAC
180597 TGCCTGAACTTCGACAAGAGATAAACGAAACCGGAAAGAACATAAAGAAGAAATTCGA
1 TGCCTGAACTTCGACAAGAGATAAACGAAACCGGAAAGAACATAAAGAAGAAATTCGA
* *
180655 TGCCTGAACTTCGACAAGAGATAATCTAAACCGGAAAGAACATAAAGAAGAAATTCGA
1 TGCCTGAACTTCGACAAGAGATAAACGAAACCGGAAAGAACATAAAGAAGAAATTCGA
180713 TG
1 TG
180715 GGATTGTACC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (58 bp):
TGCCTGAACTTCGACAAGAGATAAACGAAACCGGAAAGAACATAAAGAAGAAATTCGA
Found at i:185251 original size:3 final size:3
Alignment explanation
Indices: 185243--185292 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
185233 AGGAGTTTGT
185243 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
185291 TT
1 TT
185293 ATTGATCTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:185633 original size:3 final size:3
Alignment explanation
Indices: 185627--185669 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
185617 TTATTATTAT
185627 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
185670 CTCTTCTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:186007 original size:394 final size:394
Alignment explanation
Indices: 185277--186018 Score: 1448
Period size: 394 Copynumber: 1.9 Consensus size: 394
185267 TTCTTCTTCT
*
185277 TCTTCTTCTTCTTCTTATTGATCTTGATCAATACAATCGATGAAAACCCTCTAATTCAAATTTAA
1 TCTTCTTCTTCTTCATATTGATCTTGATCAATACAATCGATGAAAACCCTCTAATTCAAATTTAA
185342 AGAAAAACTCTCAAAATTGAAAACTCGAGATTATATAAGTTGGGTGTTATGACTAGGGATGGACA
66 AGAAAAACTCTCAAAATTGAAAACTCGAGATTATATAAGTTGGGTGTTATGACTAGGGATGGACA
185407 CGAGAACCGATCTCGACGAGTTCCGACCCAATCCGATTGGATCGAGTTTTTAAAAAAAAATCTGG
131 CGAGAACCGATCTCGACGAGTTCCGACCCAATCCGATTGGATCGAGTTTTTAAAAAAAAATCTGG
185472 TTTAGGTCGAGTTGGATCGGGTTTTTTAGAGGTTATGTTCGGATCGAGTTGGGTTCGGGTTTAGG
196 TTTAGGTCGAGTTGGATCGGGTTTTTTAGAGGTTATGTTCGGATCGAGTTGGGTTCGGGTTTAGG
185537 GTGAAAAATATTCGACCCAATCCGACAAAAAAAATTACCTTATATATTTAGGGATAATGACAATA
261 GTGAAAAATATTCGACCCAATCCGACAAAAAAAATTACCTTATATATTTAGGGATAATGACAATA
185602 ATACATCTCTATATATTATTATTATAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGA
326 ATACATCTCTATATATTATTATTATAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGA
185667 AGAC
391 AGAC
*
185671 TCTTCTTCTTCTTCATATTGATCTTGATCAATACAATCGATGAAAACCCTCTAGTTCAAATTTAA
1 TCTTCTTCTTCTTCATATTGATCTTGATCAATACAATCGATGAAAACCCTCTAATTCAAATTTAA
185736 AGAAAAACTCTCAAAATTGAAAACTCGAGATTATATAAGTTGGGTGTTATGACTAGGGATGGACA
66 AGAAAAACTCTCAAAATTGAAAACTCGAGATTATATAAGTTGGGTGTTATGACTAGGGATGGACA
*
185801 CGAGAACCGATCTCGACGAGTTCCGACCCAATCCGATTGGATCGAGTTTTTAAAAAAAATTCTGG
131 CGAGAACCGATCTCGACGAGTTCCGACCCAATCCGATTGGATCGAGTTTTTAAAAAAAAATCTGG
185866 TTTAGGTCGAGTTGGATCGGGTTTTTTAGAGGTTATGTTCGGATCGAGTTGGGTTCGGGTTTAGG
196 TTTAGGTCGAGTTGGATCGGGTTTTTTAGAGGTTATGTTCGGATCGAGTTGGGTTCGGGTTTAGG
185931 GTGAAAAATATTCGACCCAATCCGACAAAAAAAATTACCTTATATATTTAGGGATAATGACAATA
261 GTGAAAAATATTCGACCCAATCCGACAAAAAAAATTACCTTATATATTTAGGGATAATGACAATA
*
185996 ATACCTCTCTATATATTATTATT
326 ATACATCTCTATATATTATTATT
186019 TTTAATTAAG
Statistics
Matches: 344, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
394 344 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (394 bp):
TCTTCTTCTTCTTCATATTGATCTTGATCAATACAATCGATGAAAACCCTCTAATTCAAATTTAA
AGAAAAACTCTCAAAATTGAAAACTCGAGATTATATAAGTTGGGTGTTATGACTAGGGATGGACA
CGAGAACCGATCTCGACGAGTTCCGACCCAATCCGATTGGATCGAGTTTTTAAAAAAAAATCTGG
TTTAGGTCGAGTTGGATCGGGTTTTTTAGAGGTTATGTTCGGATCGAGTTGGGTTCGGGTTTAGG
GTGAAAAATATTCGACCCAATCCGACAAAAAAAATTACCTTATATATTTAGGGATAATGACAATA
ATACATCTCTATATATTATTATTATAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGA
AGAC
Found at i:189013 original size:12 final size:12
Alignment explanation
Indices: 188996--189022 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
188986 CTCCTTTTCC
188996 AAACATCAATAT
1 AAACATCAATAT
189008 AAACATCAATAT
1 AAACATCAATAT
189020 AAA
1 AAA
189023 GAATTTTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (12 bp):
AAACATCAATAT
Found at i:191520 original size:173 final size:173
Alignment explanation
Indices: 191231--191575 Score: 627
Period size: 173 Copynumber: 2.0 Consensus size: 173
191221 CTGGAAGCTG
*
191231 TAGAAAAATATATTTGAAGCAATTGAAATGATATAGTCTGCATATGGCATCTGCAAATTTAATTG
1 TAGAAAAATATATGTGAAGCAATTGAAATGATATAGTCTGCATATGGCATCTGCAAATTTAATTG
*
191296 TAAACTTGAATGAATTGAGGCGTGCACCTAGGCTCGACTGTGCCTTAGCAATATAAAACAAAAGC
66 TAAACTTGAATGAACTGAGGCGTGCACCTAGGCTCGACTGTGCCTTAGCAATATAAAACAAAAGC
* *
191361 GCGCTTTCAGGCGAGCCCTGTTTCATAAGACGCCTGCTTTTTA
131 GCCCTTTCAGGCGAGCCCTATTTCATAAGACGCCTGCTTTTTA
* *
191404 TAGAAAAATATGTGTGAAGCAATTGAAATGATATAGTCTGCGTATGGCATCTGCAAATTTAATTG
1 TAGAAAAATATATGTGAAGCAATTGAAATGATATAGTCTGCATATGGCATCTGCAAATTTAATTG
*
191469 TAAACTTGAATGGACTGAGGCGTGCACCTAGGCTCGACTGTGCCTTAGCAATATAAAACAAAAGC
66 TAAACTTGAATGAACTGAGGCGTGCACCTAGGCTCGACTGTGCCTTAGCAATATAAAACAAAAGC
191534 GCCCTTTCAGGCGAGCCCTATTTCATAAGACGCCTGCTTTTT
131 GCCCTTTCAGGCGAGCCCTATTTCATAAGACGCCTGCTTTTT
191576 TGTGAGGTCA
Statistics
Matches: 165, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
173 165 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (173 bp):
TAGAAAAATATATGTGAAGCAATTGAAATGATATAGTCTGCATATGGCATCTGCAAATTTAATTG
TAAACTTGAATGAACTGAGGCGTGCACCTAGGCTCGACTGTGCCTTAGCAATATAAAACAAAAGC
GCCCTTTCAGGCGAGCCCTATTTCATAAGACGCCTGCTTTTTA
Found at i:191830 original size:14 final size:14
Alignment explanation
Indices: 191811--191840 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
191801 TAGAGTTTAT
191811 CATATATCTACACA
1 CATATATCTACACA
*
191825 CATATATGTACACA
1 CATATATCTACACA
191839 CA
1 CA
191841 GAGACTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (14 bp):
CATATATCTACACA
Found at i:194380 original size:22 final size:22
Alignment explanation
Indices: 194354--194395 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
194344 TTATGACACG
194354 TTTTGATAAGTTTTCATCTATT
1 TTTTGATAAGTTTTCATCTATT
* *
194376 TTTTGATACGTTTTTATCTA
1 TTTTGATAAGTTTTCATCTA
194396 GGGATAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.60
Consensus pattern (22 bp):
TTTTGATAAGTTTTCATCTATT
Found at i:203117 original size:37 final size:39
Alignment explanation
Indices: 203022--203183 Score: 129
Period size: 37 Copynumber: 4.3 Consensus size: 39
203012 AAAAAATAAT
** *
203022 ATTTTCGGTTTTAACAAAAAATGTTATATTTTTTTGTAAT
1 ATTTTCGGTTTTAACCTAAAATGTTATA-TTTTTTGTAAC
* * *
203062 ATTTTCGATTTCAA-CTAAACTGTTATA-TTTTTGT-AC
1 ATTTTCGGTTTTAACCTAAAATGTTATATTTTTTGTAAC
* *
203098 ATTTTCGGTTTTAACCTAAAATATTAT-TTTTTT-TAAT
1 ATTTTCGGTTTTAACCTAAAATGTTATATTTTTTGTAAC
* * * * * *
203135 ATTTTGGGTTGCTAA-CAAAAATGTTATCTTTTTCGTTAC
1 ATTTTCGGTT-TTAACCTAAAATGTTATATTTTTTGTAAC
*
203174 ATTTTAGGTT
1 ATTTTCGGTT
203184 ACAATTACTA
Statistics
Matches: 97, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
36 14 0.14
37 42 0.43
38 8 0.08
39 21 0.22
40 12 0.12
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.52
Consensus pattern (39 bp):
ATTTTCGGTTTTAACCTAAAATGTTATATTTTTTGTAAC
Done.