Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007220.1 Hibiscus syriacus cultivar Beakdansim tig00019097_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: 114836
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:5797 original size:25 final size:24
Alignment explanation
Indices: 5769--5826 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
5759 TAAGTTAACC
5769 TTTAAATTTTATAT-ATTATATCAAA
1 TTTAAATTTTA-ATGATTATAT-AAA
** *
5794 TTTATTTTTTAATGATTATATATA
1 TTTAAATTTTAATGATTATATAAA
5818 -TTAAATTTT
1 TTTAAATTTT
5827 TAAAACCATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
23 7 0.26
24 4 0.15
25 16 0.59
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTAAATTTTAATGATTATATAAA
Found at i:26624 original size:2 final size:2
Alignment explanation
Indices: 26617--26683 Score: 91
Period size: 2 Copynumber: 33.5 Consensus size: 2
26607 TAAGTCTAAA
* * *
26617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT GT AGT TT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
26659 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
26684 ATAGTCGTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
1 1 0.02
2 56 0.97
3 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30245 original size:2 final size:2
Alignment explanation
Indices: 30238--30274 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
30228 CTTTCGCTTG
*
30238 CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
30275 AGCCACTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:30245 original size:16 final size:16
Alignment explanation
Indices: 30226--30274 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
30216 TTCCTTCTAA
30226 CTCTTTCGCT-TGCTCT
1 CTCTTTCGCTCT-CTCT
*
30242 CTCTTTCTCTCTCTCT
1 CTCTTTCGCTCTCTCT
* *
30258 CTCTCTCTCTCTCTCT
1 CTCTTTCGCTCTCTCT
30274 C
1 C
30275 AGCCACTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 29 0.97
17 1 0.03
ACGTcount: A:0.00, C:0.45, G:0.04, T:0.51
Consensus pattern (16 bp):
CTCTTTCGCTCTCTCT
Found at i:32603 original size:21 final size:20
Alignment explanation
Indices: 32517--32674 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
32507 AAATGACCAA
**
32517 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
32536 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
32556 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
32576 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
32597 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
32618 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
32638 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
32659 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
32675 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:32665 original size:20 final size:20
Alignment explanation
Indices: 32641--32950 Score: 361
Period size: 20 Copynumber: 15.5 Consensus size: 20
32631 CGATTTTCCA
* ** *
32641 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
32661 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
* *
32681 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* *
32701 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
32721 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
32741 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
32761 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
32781 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
32801 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
32821 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGAGAATCCGT
*
32841 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
32861 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
32881 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
32901 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
32921 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
32941 AAATCACAAC
1 AAATCGCAAC
32951 ACTGAAATTT
Statistics
Matches: 258, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
20 257 1.00
21 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:33672 original size:24 final size:24
Alignment explanation
Indices: 33633--33679 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33623 AAATTTGGTC
33633 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
33657 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
33680 GATGTTTCAG
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:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:36175 original size:20 final size:19
Alignment explanation
Indices: 36124--36274 Score: 143
Period size: 19 Copynumber: 8.7 Consensus size: 19
36114 GCAACGAGAG
36124 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
36143 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
36157 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
36177 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
36196 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
36210 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
36229 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
36243 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
36262 AATCGCATTGCGA
1 AATCGCAATGCGA
36275 TTCTCCCGTT
Statistics
Matches: 108, Mismatches: 8, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
14 32 0.30
15 2 0.02
16 5 0.05
17 5 0.05
18 2 0.02
19 46 0.43
20 16 0.15
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:36187 original size:53 final size:52
Alignment explanation
Indices: 36124--36236 Score: 183
Period size: 53 Copynumber: 2.2 Consensus size: 52
36114 GCAACGAGAG
36124 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAAAATCGCAATGC-GAAATGAA
* *
36177 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGAAATGAA
36229 AATCGCAA
1 AATCGCAA
36237 CGAGAGAATC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
52 16 0.28
53 40 0.70
54 1 0.02
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:36215 original size:14 final size:14
Alignment explanation
Indices: 36196--36250 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
36186 GCGAAATGAA
36196 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
36210 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
36229 AATCGCAACGAGAG
1 AATCGCAACGAGAG
36243 AATCGCAA
1 AATCGCAA
36251 TGCGAAATTA
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:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:36219 original size:33 final size:33
Alignment explanation
Indices: 36177--36268 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
36167 CGGAAATGAA
36177 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
36210 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
36243 AATCGCAATGCGAAATTAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
36269 TTGCGATTCT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:36247 original size:86 final size:85
Alignment explanation
Indices: 36110--36274 Score: 269
Period size: 86 Copynumber: 1.9 Consensus size: 85
36100 CGGAAATTAC
36110 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGC-GAAATG
36175 AAAATCGCAATGCGAAATGAA
65 AAAATCGCAATGCGAAATGAA
* * *
36196 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGAAATT
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGAAATG
*
36260 AAAATCGCATTGCGA
65 AAAATCGCAATGCGA
36275 TTCTCCCGTT
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
85 19 0.26
86 54 0.73
87 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.15
Consensus pattern (85 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGAAATGA
AAATCGCAATGCGAAATGAA
Found at i:36303 original size:34 final size:33
Alignment explanation
Indices: 36264--36343 Score: 142
Period size: 34 Copynumber: 2.4 Consensus size: 33
36254 GAAATTAAAA
36264 TCGCATTGCGATTCTCCCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATT
*
36297 TCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGATTCTCCCGTTGCGATTTTCATT
36331 TCGCATTGCGATT
1 TCGCATTGCGATT
36344 TTCATTTCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
33 13 0.29
34 32 0.71
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATT
Found at i:36341 original size:19 final size:19
Alignment explanation
Indices: 36283--36362 Score: 107
Period size: 19 Copynumber: 4.4 Consensus size: 19
36273 GATTCTCCCG
36283 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
36303 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
36317 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
36336 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
36355 TTGCGATT
1 TTGCGATT
36363 GTCAATTTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.11
16 5 0.09
17 6 0.11
18 3 0.06
19 27 0.51
20 6 0.11
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:36487 original size:14 final size:14
Alignment explanation
Indices: 36468--36504 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
36458 CATCAATTAC
36468 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
36482 ACAAATCATCTTTT
1 ACAAATCAACTTTT
36496 ACAAATCAA
1 ACAAATCAA
36505 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:38504 original size:14 final size:14
Alignment explanation
Indices: 38485--38541 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
38475 GCGAAATGAA
38485 AATCGCAACGACAG
1 AATCGCAACGACAG
*
38499 AATCGCAATGCGAACTGAA
1 AATCGCAA--CG-AC--AG
*
38518 AATCGCAACGAAAG
1 AATCGCAACGACAG
38532 AATCGCAACG
1 AATCGCAACG
38542 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 4 0.11
19 9 0.26
ACGTcount: A:0.44, C:0.25, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:38512 original size:33 final size:33
Alignment explanation
Indices: 38466--38558 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
38456 GCGAAACCAA
*
38466 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
* *
38499 AATCGCAATGCGAACTGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
38532 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
38559 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:38523 original size:19 final size:19
Alignment explanation
Indices: 38429--38563 Score: 94
Period size: 19 Copynumber: 7.6 Consensus size: 19
38419 TAGTTTACTT
* *
38429 TCGCAACACGAAACTTAAAA
1 TCGCAACGCG-AACTGAAAA
*
38449 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCG-AACTGAAAA
*
38468 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAACTGAAAA
*
38487 TCGCAA--CG-AC--AGAA
1 TCGCAACGCGAACTGAAAA
*
38501 TCGCAATGCGAACTGAAAA
1 TCGCAACGCGAACTGAAAA
*
38520 TCGCAA--CGAA---AGAA
1 TCGCAACGCGAACTGAAAA
*
38534 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAACTGAAAA
*
38553 TCGCAATGCGA
1 TCGCAACGCGA
38564 TTTTGGTTTC
Statistics
Matches: 94, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
14 18 0.19
16 7 0.07
17 8 0.09
18 2 0.02
19 46 0.49
20 13 0.14
ACGTcount: A:0.45, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAACTGAAAA
Found at i:38581 original size:19 final size:19
Alignment explanation
Indices: 38559--38687 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
38549 AAAATCGCAA
38559 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
38578 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
38592 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
38611 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
** *
38625 TGCGATTTTCATTTTGCGT
1 TGCGATTTTGGTTTCGCGT
38644 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
38663 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
38683 TGCGA
1 TGCGA
38688 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 47 0.53
20 13 0.15
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:38601 original size:33 final size:33
Alignment explanation
Indices: 38559--38650 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
38549 AAAATCGCAA
38559 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
38592 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
38625 TGCGATTTTCATTTTGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
38651 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:38851 original size:93 final size:93
Alignment explanation
Indices: 38735--39203 Score: 922
Period size: 93 Copynumber: 5.1 Consensus size: 93
38725 ATGGATTGCA
38735 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
38799 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
38827 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
38892 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
38920 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
38985 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
39013 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
39078 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
39106 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
39171 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
39199 TTACT
1 TTACT
39204 AAGCAATCTA
Statistics
Matches: 375, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 4 0.01
93 371 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:40928 original size:14 final size:14
Alignment explanation
Indices: 40909--40998 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
40899 TTGAAATGAA
40909 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
40923 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
40942 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
40956 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
40975 AATCGCAACGAGAG
1 AATCGCAACGAGAG
40989 AATCGCAACG
1 AATCGCAACG
40999 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.33
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:40941 original size:33 final size:33
Alignment explanation
Indices: 40901--41015 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
40891 TCTTTTGGTT
40901 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
40934 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
40967 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
41000 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
41016 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:40947 original size:19 final size:19
Alignment explanation
Indices: 40923--41020 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
40913 GCAACGAGAG
40923 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
40942 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
40956 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
40975 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
40989 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
41008 AATCGCAATGCGA
1 AATCGCAACGCGA
41021 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 32 0.52
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:41051 original size:14 final size:14
Alignment explanation
Indices: 41032--41088 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
41022 TTTGGTTTCG
41032 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
41046 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
41065 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
41079 AGTTGCGATT
1 CGTTGCGATT
41089 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:41064 original size:33 final size:33
Alignment explanation
Indices: 41016--41096 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
41006 AAAATCGCAA
** *
41016 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
41049 TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
41082 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
41097 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
Found at i:41099 original size:21 final size:21
Alignment explanation
Indices: 41073--41148 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
41063 CGCGTTGCGA
*
41073 TTCTCTAGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
41094 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
41114 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
41135 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
41149 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:41129 original size:41 final size:41
Alignment explanation
Indices: 41072--41149 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
41062 TCGCGTTGCG
*
41072 ATTCTCTAGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTAGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
*
41113 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTAGTTGCGATTTTCATTTATCTCGTTGCGAC
41150 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTAGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:41270 original size:33 final size:33
Alignment explanation
Indices: 41228--41298 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
41218 AATACTAACT
*
41228 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
41261 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
41294 TGAAA
1 TGAAA
41299 TCTAAGTGAA
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:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:41532 original size:22 final size:22
Alignment explanation
Indices: 41480--41534 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
41470 TGGTTGTGAG
**
41480 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
41502 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
41524 GGATTTCTTCG
1 GGATTTCTTCG
41535 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:41706 original size:20 final size:20
Alignment explanation
Indices: 41681--41834 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
41671 CTTTAAATAT
41681 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
41701 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
41723 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
41742 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
41762 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
41782 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
41802 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
41822 CGCGTTGCGATTT
1 CGCGTTGCGATTT
41835 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:41808 original size:40 final size:40
Alignment explanation
Indices: 41680--41834 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
41670 GCTTTAAATA
*
41680 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
41721 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
41761 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
41801 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
41835 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:41851 original size:21 final size:21
Alignment explanation
Indices: 41821--41903 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
41811 ATTTTCATAT
*
41821 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
41842 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
* *
41863 TCGCATTGAGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
41884 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
41904 CTGATTTGCG
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
20 1 0.02
21 42 0.93
22 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:42420 original size:39 final size:40
Alignment explanation
Indices: 42359--42439 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 40
42349 ACCATTATAT
* * *
42359 TTTATTACAATGAATATTTTTTA-TAAATTATATTAATTA
1 TTTATTACAATAAAAATGTTTTATTAAATTATATTAATTA
* *
42398 TTTATTATAATAAAAATGTTTTATTGTTAATTATATTAATTA
1 TTTATTACAATAAAAATGTTTTA-T-TAAATTATATTAATTA
42440 CCTGTTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
39 19 0.56
42 15 0.44
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (40 bp):
TTTATTACAATAAAAATGTTTTATTAAATTATATTAATTA
Found at i:42541 original size:30 final size:30
Alignment explanation
Indices: 42505--42562 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
42495 TTGAAAACTG
42505 TTAATAA-A-TATATTGTAAATATTTAATATT
1 TTAATAATATTATATTGTAAA-A-TTAATATT
*
42535 TTAATAATATTATTTTGTAAAATTAATA
1 TTAATAATATTATATTGTAAAATTAATA
42563 AATAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 13 0.52
31 2 0.08
32 10 0.40
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (30 bp):
TTAATAATATTATATTGTAAAATTAATATT
Found at i:42630 original size:18 final size:18
Alignment explanation
Indices: 42607--42667 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 18
42597 TTATTAAAAA
42607 TATAATATAGTATATTATTAT
1 TATAATATA--ATA-TATTAT
*
42628 AATATAATTTAATATATTAT
1 --TATAATATAATATATTAT
*
42648 TATAATATATTATATTAT
1 TATAATATAATATATTAT
42666 TA
1 TA
42668 AAATTATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 18 0.51
20 6 0.17
21 3 0.09
23 8 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TATAATATAATATATTAT
Found at i:42635 original size:23 final size:23
Alignment explanation
Indices: 42595--42661 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
42585 ATTTATTATC
* *
42595 TATTATTAAAAATATAATATAGTA
1 TATTATT-ATAATATAATATAATA
*
42619 TATTATTATAATATAATTTAATA
1 TATTATTATAATATAATATAATA
*
42642 TATTATTATAATATATTATA
1 TATTATTATAATATAATATA
42662 TTATTAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
23 31 0.82
24 7 0.18
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (23 bp):
TATTATTATAATATAATATAATA
Found at i:42743 original size:42 final size:45
Alignment explanation
Indices: 42640--42759 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 45
42630 TATAATTTAA
*
42640 TATATTATTATAATATATTATATTATTAAAATTATTAATAAATATG
1 TATATTAATATAA-ATATTATATTATTAAAATTATTAATAAATATG
*
42686 T-T-TTAATAATTAATATT-T-TTATTAAAA-TA-TAATAAA-ATAG
1 TATATTAAT-ATAAATATTATATTATTAAAATTATTAATAAATAT-G
* *
42726 TATATTAATACTAAATA-TATA-AAATAAAATTATT
1 TATATTAATA-TAAATATTATATTATTAAAATTATT
42760 TTAACTATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
39 2 0.03
40 9 0.15
41 5 0.08
42 26 0.43
43 3 0.05
44 10 0.17
45 4 0.07
46 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.47
Consensus pattern (45 bp):
TATATTAATATAAATATTATATTATTAAAATTATTAATAAATATG
Found at i:43285 original size:23 final size:23
Alignment explanation
Indices: 43259--43317 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
43249 TCAAAAACTT
43259 AAATATAATTATACCAAAAA-TAA
1 AAATATAATTAT-CCAAAAATTAA
* *
43282 AAAT-TAAATTATTCAAAAATTTA
1 AAATAT-AATTATCCAAAAATTAA
43305 AAATATATATTAT
1 AAATATA-ATTAT
43318 TACTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 7 0.23
23 17 0.57
24 6 0.20
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATATAATTATCCAAAAATTAA
Found at i:44126 original size:21 final size:21
Alignment explanation
Indices: 44085--44142 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
44075 CGTCACCAGT
* **
44085 CACTGTGAATTGTCATGTCAG
1 CACTGTGGATTGTCACATCAG
*
44106 CATTGTGGATTGTCACATCAG
1 CACTGTGGATTGTCACATCAG
*
44127 CACTGTGGAGTGTCAC
1 CACTGTGGATTGTCAC
44143 GTCAATATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (21 bp):
CACTGTGGATTGTCACATCAG
Found at i:44662 original size:25 final size:25
Alignment explanation
Indices: 44633--44681 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
44623 TTAATATAAC
44633 TTTTAAAAAGTG-ACTTTTAAAAGTA
1 TTTTAAAAA-TGAACTTTTAAAAGTA
* *
44658 TTTTAGAAATGAATTTTTAAAAGT
1 TTTTAAAAATGAACTTTTAAAAGT
44682 GTTATACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (25 bp):
TTTTAAAAATGAACTTTTAAAAGTA
Found at i:44782 original size:75 final size:74
Alignment explanation
Indices: 44701--44850 Score: 255
Period size: 75 Copynumber: 2.0 Consensus size: 74
44691 CAGTACAATT
*
44701 TAAAATTTAATTGTTTAGATTGTTATTAAAAAGTAAATTTAAAAAGATAAAATGTCCATTATAAA
1 TAAAATTTAATTGTTTAAATTGTTATTAAAAAGTAAATTTAAAAAGAT-AAATGTCCATTATAAA
44766 CATTATATTG
65 CATTATATTG
* * *
44776 TAAAATTTAATTGTTTAAATTGTTGTTAAAAAGTAAATTTGAAAAGATAAATGTTCATTATAAAC
1 TAAAATTTAATTGTTTAAATTGTTATTAAAAAGTAAATTTAAAAAGATAAATGTCCATTATAAAC
44841 ATTATATTG
66 ATTATATTG
44850 T
1 T
44851 CATTTGCTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
74 26 0.37
75 45 0.63
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.41
Consensus pattern (74 bp):
TAAAATTTAATTGTTTAAATTGTTATTAAAAAGTAAATTTAAAAAGATAAATGTCCATTATAAAC
ATTATATTG
Found at i:47164 original size:18 final size:19
Alignment explanation
Indices: 47141--47177 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
47131 CTTTTTTTAT
47141 AAGTCTAAA-TCATTACAC
1 AAGTCTAAAGTCATTACAC
47159 AAGTCTAAAGTCATTACAC
1 AAGTCTAAAGTCATTACAC
47178 GATAGTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (19 bp):
AAGTCTAAAGTCATTACAC
Found at i:66265 original size:12 final size:12
Alignment explanation
Indices: 66248--66278 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
66238 TACTAATCAT
66248 ACAATAAAATAG
1 ACAATAAAATAG
66260 ACAATAAAATAG
1 ACAATAAAATAG
66272 ACAATAA
1 ACAATAA
66279 GATTTTTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.10, G:0.06, T:0.16
Consensus pattern (12 bp):
ACAATAAAATAG
Found at i:67452 original size:23 final size:23
Alignment explanation
Indices: 67422--67468 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
67412 TTGCTTCACT
67422 TGTTAAAAGTTTTGTTTATAGTC
1 TGTTAAAAGTTTTGTTTATAGTC
67445 TGTTAAAAGTTTTGTTTATAGTC
1 TGTTAAAAGTTTTGTTTATAGTC
67468 T
1 T
67469 ATCTCTAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.53
Consensus pattern (23 bp):
TGTTAAAAGTTTTGTTTATAGTC
Found at i:67714 original size:21 final size:21
Alignment explanation
Indices: 67669--67720 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
67659 ACCAACAACT
**
67669 ATAACAAACTAATAACAATTA
1 ATAACAAACTAATAACAAACA
* *
67690 ATAACAAGCTAATAACAAACC
1 ATAACAAACTAATAACAAACA
67711 ATAACAAACT
1 ATAACAAACT
67721 CTAACATTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (21 bp):
ATAACAAACTAATAACAAACA
Found at i:69445 original size:11 final size:10
Alignment explanation
Indices: 69406--69451 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
69396 CCAAGTAACC
69406 AACAACT-AT
1 AACAACTAAT
*
69415 AATAAACTAAT
1 AA-CAACTAAT
69426 AACAACTAAT
1 AACAACTAAT
69436 AACAAGCTAAT
1 AACAA-CTAAT
69447 AACAA
1 AACAA
69452 ACCATAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 16 0.50
11 14 0.44
ACGTcount: A:0.61, C:0.17, G:0.02, T:0.20
Consensus pattern (10 bp):
AACAACTAAT
Found at i:69445 original size:21 final size:20
Alignment explanation
Indices: 69406--69464 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
69396 CCAAGTAACC
*
69406 AACAACTATAATAAACTAAT
1 AACAACTATAACAAACTAAT
*
69426 AACAACTAATAACAAGCTAAT
1 AACAACT-ATAACAAACTAAT
*
69447 AACAAACCATAACAAACT
1 AAC-AACTATAACAAACT
69465 CTAACAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.21
21 23 0.70
22 3 0.09
ACGTcount: A:0.59, C:0.20, G:0.02, T:0.19
Consensus pattern (20 bp):
AACAACTATAACAAACTAAT
Found at i:69792 original size:2 final size:2
Alignment explanation
Indices: 69785--69815 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
69775 CTAAAAAGTT
69785 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
69816 TACGGACATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75305 original size:20 final size:20
Alignment explanation
Indices: 75276--75313 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
75266 CACTCATCTA
* *
75276 TTAGTTAATTTATTTTTTGG
1 TTAGTCAATTAATTTTTTGG
75296 TTAGTCAATTAATTTTTT
1 TTAGTCAATTAATTTTTT
75314 TAAATCATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.63
Consensus pattern (20 bp):
TTAGTCAATTAATTTTTTGG
Found at i:75379 original size:2 final size:2
Alignment explanation
Indices: 75374--75404 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
75364 TTTATTTTTT
*
75374 TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75405 TATTTACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75530 original size:38 final size:36
Alignment explanation
Indices: 75437--75795 Score: 228
Period size: 37 Copynumber: 9.7 Consensus size: 36
75427 TGAAAATACT
* * *
75437 TATAATATACATAATTTTTGAAAACA-TTTTGAAAATGTA
1 TATAATAT--ATAGTTTTT-AAAATATTTTTGAAAA-CTA
*
75476 TATAATATATAGTTTTAAAAATATTTTTTGAAAACTA
1 TATAATATATAGTTTTTAAAATA-TTTTTGAAAACTA
* * *
75513 TATAGA-ATATAGTTTTTAAAACATTTTAGAAAATATA
1 TATA-ATATATAGTTTTTAAAATATTTTTGAAAA-CTA
75550 TATAATATATAGTTTTTAAAATCATTTTTGAAAACTTA
1 TATAATATATAGTTTTTAAAAT-ATTTTTGAAAAC-TA
* * *
75588 TATAATATATAG-TTTT-GAATGTTTTTTAAAACATTTA
1 TATAATATATAGTTTTTAAAATATTTTTGAAAAC---TA
* * * * *
75625 AATATTATATAATTTTTGAAAA-ATATTTTAAAAATATA
1 TATAATATATAGTTTTT-AAAATAT-TTTTGAAAA-CTA
* ** *
75663 TATAATATATAATTTTTAAAACGTTTCTGAAAA-TA
1 TATAATATATAGTTTTTAAAATATTTTTGAAAACTA
* * ** * *
75698 TATATTATAAAGTTTTTAAAACGTTTTTAAAAACATG
1 TATAATATATAGTTTTTAAAATATTTTTGAAAAC-TA
* * **
75735 TATAATATATAGTTTTTAAAAGCATTTTGGAAATTTA
1 TATAATATATAGTTTTTAAAA-TATTTTTGAAAACTA
* *
75772 TATATTACATA-TTTTTGAAAATAT
1 TATAATATATAGTTTTT-AAAATAT
75796 ATATATATAT
Statistics
Matches: 258, Mismatches: 43, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
35 40 0.16
36 25 0.10
37 110 0.43
38 64 0.25
39 9 0.03
40 10 0.04
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
TATAATATATAGTTTTTAAAATATTTTTGAAAACTA
Found at i:75545 original size:74 final size:75
Alignment explanation
Indices: 75437--75793 Score: 281
Period size: 74 Copynumber: 4.8 Consensus size: 75
75427 TGAAAATACT
* *
75437 TATAATATACATAATTTTTGAAAACATTTTGAAAATGTATATAATATATAGTTTTAAAAAT-ATT
1 TATAATAT--ATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTAAAAATCA-T
75501 TTTTGAAAAC-TA
63 TTTTGAAAACTTA
*
75513 TATAGA-ATATAGTTTTT-AAAACATTTTAGAAAATATATATAATATATAGTTTTTAAAATCATT
1 TATA-ATATATAGTTTTTGAAAACATTTT-GAAAATATATATAATATATAGTTTTAAAAATCATT
75576 TTTGAAAACTTA
64 TTTGAAAACTTA
**** * * * * *
75588 TATAATATATAG-TTTTGAATGTTTTTTAAAACATTTAAATATTATATAATTTTTGAAAAAT-A-
1 TATAATATATAGTTTTTGAAAACATTTTGAAA-ATATATATAATATAT-AGTTTT-AAAAATCAT
*
75650 TTTT-AAAAATATA
63 TTTTGAAAACT-TA
* * * * *
75663 TATAATATATAATTTTT-AAAACGTTTCTGAAAATATATAT--TATAAAGTTTTTAAAA-CGTTT
1 TATAATATATAGTTTTTGAAAACATTT-TGAAAATATATATAATATATAGTTTTAAAAATCATTT
* * *
75724 TTAAAAACATG
65 TTGAAAACTTA
* * * * * *
75735 TATAATATATAGTTTTT-AAAAGCATTTTGGAAATTTATATATTACATATTTTTGAAAAT
1 TATAATATATAGTTTTTGAAAA-CATTTTGAAAATATATATAATATATAGTTTTAAAAAT
75794 ATATATATAT
Statistics
Matches: 225, Mismatches: 37, Indels: 39
0.75 0.12 0.13
Matches are distributed among these distances:
71 4 0.02
72 41 0.18
73 22 0.10
74 73 0.32
75 59 0.26
76 20 0.09
77 6 0.03
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (75 bp):
TATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTAAAAATCATTTT
TGAAAACTTA
Found at i:75799 original size:2 final size:2
Alignment explanation
Indices: 75792--75821 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
75782 ATTTTTGAAA
75792 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75822 TATTATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75827 original size:3 final size:3
Alignment explanation
Indices: 75819--75868 Score: 66
Period size: 3 Copynumber: 16.3 Consensus size: 3
75809 TATATATATA
*
75819 TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT T-T TATT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA-T TAT TAT TAT
75865 TAT T
1 TAT T
75869 TATGCTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 35 0.83
4 5 0.12
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:75839 original size:15 final size:16
Alignment explanation
Indices: 75819--75868 Score: 77
Period size: 15 Copynumber: 3.2 Consensus size: 16
75809 TATATATATA
75819 TATTA-TTATTATTAT
1 TATTATTTATTATTAT
75834 TATTATTTATTATTAT
1 TATTATTTATTATTAT
*
75850 T-TTATTTCTTATTAT
1 TATTATTTATTATTAT
75865 TATT
1 TATT
75869 TATGCTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTATTTATTATTAT
Found at i:75869 original size:18 final size:18
Alignment explanation
Indices: 75821--75869 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
75811 TATATATATA
75821 TTATTATTATTATTATTAT
1 TTATTATTATT-TTATTAT
75840 TTATTATTATTTTATT-T
1 TTATTATTATTTTATTAT
75857 CTTATTATTATTT
1 -TTATTATTATTT
75870 ATGCTTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.03
18 17 0.59
19 11 0.38
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTATTATTTTATTAT
Found at i:80818 original size:94 final size:95
Alignment explanation
Indices: 80695--80940 Score: 311
Period size: 94 Copynumber: 2.7 Consensus size: 95
80685 AGATTATGCT
80695 ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAACTTTATG
1 ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAACTTTATG
*
80760 GATAATA-ATCAGCTAACCTGAT-AAGGTG
66 GATAAGATATCAGCTAACCTGATAAAGGTG
* **
80788 ATTATACTATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCCGGCTTTAT
1 ATTATA-TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAACTTTAT
*
80853 GGATAAGATTTCAGCTAACCTGATAAAGGTG
65 GGATAAGATATCAGCTAACCTGATAAAGGTG
* * **
80884 ----T-T-TAC-AT--A--TTGGGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATG
1 ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAACTTTATG
80938 GAT
66 GAT
80941 TTAGCTAGCC
Statistics
Matches: 142, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
84 46 0.32
86 1 0.01
88 2 0.01
89 3 0.02
90 1 0.01
92 1 0.01
93 6 0.04
94 62 0.44
95 14 0.10
96 6 0.04
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (95 bp):
ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAACTTTATG
GATAAGATATCAGCTAACCTGATAAAGGTG
Found at i:82320 original size:165 final size:165
Alignment explanation
Indices: 82085--83123 Score: 1539
Period size: 165 Copynumber: 6.3 Consensus size: 165
82075 TATCTGCCAA
** * * * * * * *
82085 CCAAAGACCTTCGAGTTTGACTACGCTCAGC-TCTAAGGCATATCATTTGCAGCATAGCTTAAGT
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
*
82149 CGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
66 CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
* *
82214 TTTGCAGTATAGCTTAAGTCGAGAAGGGATATCTG
131 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* * *
82249 CCAAAGACCCCCGAGTTCGATTATACTCAGCTTCGAGGGTATATCATTTGCAGCATAACTTAAGT
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
* * *
82314 CGAGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGACTACACTTAGCTCCAAGGCACATCA
66 CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
*
82379 TTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG
131 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
82414 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
* * *
82479 CGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTATGCTCAGCT-CAACGTCACATC
66 CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* *
82543 ATTTGCAGTATAGCTTAAGTCGAAAAGGGCTATCTG
130 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* * * *
82579 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACACCATTTACAGCATAACTCAAGG
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
* ** * *
82644 CTAGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCTAAGGCACATC
66 CGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
82708 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
130 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* * *
82744 CCAAAGACCCCCGTGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGTATAACTTAAGT
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
*
82809 CGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
66 CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* * *
82873 ATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATTTG
130 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* * *
82909 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGG
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
* ** *
82974 CTAGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATC
66 CGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
83038 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAATCTG
130 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCT-ATCTG
* * * *
83075 CCAAAGACCCCCGGGTTCGATTACACTCAACTTCGAGGTCATATCATTT
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
83124 ACAACATAGC
Statistics
Matches: 789, Mismatches: 77, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
164 36 0.05
165 697 0.88
166 56 0.07
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (165 bp):
CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
Found at i:83719 original size:2 final size:2
Alignment explanation
Indices: 83714--83738 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
83704 TTATTTTTTT
83714 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
83739 TATTTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:83856 original size:37 final size:36
Alignment explanation
Indices: 83797--84130 Score: 180
Period size: 37 Copynumber: 9.1 Consensus size: 36
83787 TTTGAAAACA
*
83797 TTTTGAAAATGTATATAATATATAGTTTTAAAAATATT
1 TTTTGAAAATCTATATAATATATAGTTTT-AAAATA-T
* *
83835 TTTTGAAAA-CTATATAGTATATAGTTTTTAAAACAT
1 TTTTGAAAATCTATATAATATATAG-TTTTAAAATAT
* * *
83871 TTTAGAAAATATATATAATATATAGTTTTTAAATCAT
1 TTTTGAAAATCTATATAATATATAGTTTTAAAAT-AT
* *
83908 TTTTGAAAA-CTTATATAATATATAGTTTT-GAATGTT
1 TTTTGAAAATC-TATATAATATATAGTTTTAAAAT-AT
* * * * * *
83944 TTTTAAAACATTTAAATATTATATAATTTTTGAAAA-ACA
1 TTTTGAAA-ATCTATATAATATAT-AGTTTT-AAAATA-T
* * * **
83983 TTTTAAAAATATATATAATATATAATTTTTAAAACGT
1 TTTTGAAAATCTATATAATATAT-AGTTTTAAAATAT
* * * **
84020 TTCTGAAAA--TATATATTATAAAGTTTTTAAAACGT
1 TTTTGAAAATCTATATAATATATAG-TTTTAAAATAT
* * *
84055 TTTT-AAAAACATGTATAATATATAGTTTTTAAAAGCA-
1 TTTTGAAAATC-TATATAATATATAG-TTTTAAAA-TAT
* * * * *
84092 TTTTGGAAATTTATATATTACATATTTTTGAAAATAT
1 TTTTGAAAATCTATATAATATATAGTTTT-AAAATAT
84129 TT
1 TT
84131 ATATATATAT
Statistics
Matches: 233, Mismatches: 44, Indels: 39
0.74 0.14 0.12
Matches are distributed among these distances:
34 5 0.02
35 24 0.10
36 32 0.14
37 121 0.52
38 41 0.18
39 8 0.03
40 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTGAAAATCTATATAATATATAGTTTTAAAATAT
Found at i:83879 original size:74 final size:73
Alignment explanation
Indices: 83771--84130 Score: 307
Period size: 74 Copynumber: 4.8 Consensus size: 73
83761 TGAAAATACT
* * *
83771 TATAATATACATAATTTTTGAAAACATTTTGAAAATGTATATAATATATAGTTTTAAAAATATTT
1 TATAATAT--ATAGTTTTT-AAAACATTTTGAAAATTTATATATTATATAGTTTTAAAAATA-TT
*
83836 TTTGAAAAC-TA
62 TTTAAAAACATA
* * * *
83847 TATAGTATATAGTTTTTAAAACATTTTAGAAAATATATATAATATATAGTTTT-TAAATCATTTT
1 TATAATATATAGTTTTTAAAACATTTT-GAAAATTTATATATTATATAGTTTTAAAAAT-ATTTT
* *
83911 TGAAAACTTA
64 TAAAAACATA
* **** * * * *
83921 TATAATATATAGTTTTGAATGTTTTTTAAAACATTTAAATATTATATAATTTTTGAAAAACA-TT
1 TATAATATATAGTTTTTAAAACATTTTGAAA-ATTTATATATTATAT-AGTTTT-AAAAATATTT
*
83985 TTAAAAATATA
63 TTAAAAACATA
* * * * **
83996 TATAATATATAATTTTTAAAACGTTTCTGAAAA--TATATATTATAAAGTTTTTAAAACGTTTTT
1 TATAATATATAGTTTTTAAAACATTT-TGAAAATTTATATATTATATAGTTTTAAAAATATTTTT
*
84059 AAAAACATG
65 AAAAACATA
* * * *
84068 TATAATATATAGTTTTTAAAAGCATTTTGGAAATTTATATATTACATATTTTTGAAAATATTT
1 TATAATATATAGTTTTTAAAA-CATTTTGAAAATTTATATATTATATAGTTTTAAAAATATTT
84131 ATATATATAT
Statistics
Matches: 229, Mismatches: 43, Indels: 26
0.77 0.14 0.09
Matches are distributed among these distances:
71 5 0.02
72 41 0.18
73 42 0.18
74 90 0.39
75 36 0.16
76 12 0.05
77 3 0.01
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (73 bp):
TATAATATATAGTTTTTAAAACATTTTGAAAATTTATATATTATATAGTTTTAAAAATATTTTTA
AAAACATA
Found at i:84104 original size:147 final size:147
Alignment explanation
Indices: 83845--84125 Score: 352
Period size: 147 Copynumber: 1.9 Consensus size: 147
83835 TTTTGAAAAC
* * * *
83845 TATATAGTATATAGTTTTTAAAACATTTTAGAAAATATATATAATATATAGTTTTTAAATCATTT
1 TATATAATATATAATTTTTAAAACATTTTAGAAAATATATAT-ATATAAAGTTTTTAAAACATTT
* * * * ** *
83910 TTGAAAACTTATATAATATATAGTTTTGAATGTTTTTTAAAACATTTAAATATTATATAATTTTT
65 TTAAAAACATATATAATATATAGTTTTAAAAGCATTTTAAAACATTTAAATATTACAT-ATTTTT
83975 GAAAAACATTTTAAAAATA
129 GAAAAACATTTTAAAAATA
* *
83994 TATATAATATATAATTTTTAAAACGTTTCT-GAAAATATATAT-TATAAAGTTTTTAAAACGTTT
1 TATATAATATATAATTTTTAAAACATTT-TAGAAAATATATATATATAAAGTTTTTAAAACATTT
* ** *
84057 TTAAAAACATGTATAATATATAGTTTTTAAAAGCATTTTGGAA-ATTTATATATTACATATTTTT
65 TTAAAAACATATATAATATATAG-TTTTAAAAGCATTTTAAAACATTTAAATATTACATATTTTT
84121 GAAAA
129 GAAAA
84126 TATTTATATA
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
146 11 0.10
147 51 0.45
148 13 0.12
149 37 0.33
150 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (147 bp):
TATATAATATATAATTTTTAAAACATTTTAGAAAATATATATATATAAAGTTTTTAAAACATTTT
TAAAAACATATATAATATATAGTTTTAAAAGCATTTTAAAACATTTAAATATTACATATTTTTGA
AAAACATTTTAAAAATA
Found at i:84108 original size:184 final size:185
Alignment explanation
Indices: 83781--84123 Score: 469
Period size: 184 Copynumber: 1.9 Consensus size: 185
83771 TATAATATAC
* * * * *
83781 ATAATTTTTGAAAACATTTTGAAAATGTATATAATATATAGTTTTAAAAATATTTTTTGAAAACT
1 ATAATTTTTGAAAACATTTTAAAAATATATATAATATATAATTTTAAAAATAGTTTCTGAAAACT
* * *
83846 ATATAGTATATAGTTTTTAAAACATTTTAGAAAATATATATAATATATAGTTTTTAAATCATTTT
66 ATATAGTATAAAGTTTTTAAAACATTTTAGAAAACATATATAATATATAGTTTTTAAAGCATTTT
*
83911 TGAAAACTTATATAATATATAGTTTTGAATGTTTTTTAAAACATTTAAATATTAT
131 TGAAAACTTATATAATACATAGTTTTGAATGTTTTTTAAAACATTTAAATATTAT
* *
83966 ATAATTTTTGAAAAACATTTTAAAAATATATATAATATATAATTTTTAAAA-CGTTTCTGAAAA-
1 ATAATTTTTG-AAAACATTTTAAAAATATATATAATATATAATTTTAAAAATAGTTTCTGAAAAC
* * *
84029 TATATATTATAAAGTTTTTAAAACGTTTTTA-AAAACATGTATAATATATAGTTTTTAAAAGCA-
65 TATATAGTATAAAGTTTTTAAAAC-ATTTTAGAAAACATATATAATATATAGTTTTT-AAAGCAT
* * * *
84092 TTTTGGAAATTTATATATTACATATTTTTGAA
128 TTTTGAAAACTTATATAATACATAGTTTTGAA
84124 AATATTTATA
Statistics
Matches: 137, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
184 72 0.53
185 29 0.21
186 36 0.26
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (185 bp):
ATAATTTTTGAAAACATTTTAAAAATATATATAATATATAATTTTAAAAATAGTTTCTGAAAACT
ATATAGTATAAAGTTTTTAAAACATTTTAGAAAACATATATAATATATAGTTTTTAAAGCATTTT
TGAAAACTTATATAATACATAGTTTTGAATGTTTTTTAAAACATTTAAATATTAT
Found at i:84157 original size:25 final size:25
Alignment explanation
Indices: 84129--84186 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
84119 TTGAAAATAT
84129 TTATATA-TATATAGTATTATTT-TTA
1 TTATATATTAT-TA-TATTATTTCTTA
* *
84154 TTATTTATTATTATTTTATTTCTTA
1 TTATATATTATTATATTATTTCTTA
84179 TTAT-TATT
1 TTATATATT
84187 TATGCTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 11 0.38
25 15 0.52
26 3 0.10
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
TTATATATTATTATATTATTTCTTA
Found at i:84172 original size:18 final size:18
Alignment explanation
Indices: 84143--84187 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
84133 ATATATATAG
84143 TATTATTTTTATTAT-TTAT
1 TATTA-TTTTATT-TCTTAT
84162 TATTATTTTATTTCTTAT
1 TATTATTTTATTTCTTAT
84180 TATTATTT
1 TATTATTT
84188 ATGCTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.76
19 5 0.20
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TATTATTTTATTTCTTAT
Found at i:84174 original size:15 final size:16
Alignment explanation
Indices: 84143--84186 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
84133 ATATATATAG
*
84143 TATTATTTTTATTATT
1 TATTATTATTATTATT
84159 TATTATTATT-TTATT
1 TATTATTATTATTATT
*
84174 TCTTATTATTATT
1 TATTATTATTATT
84187 TATGCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTATTATTATTATT
Found at i:93117 original size:48 final size:49
Alignment explanation
Indices: 93048--93153 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 49
93038 AAATATTTTA
* *
93048 TCTGATTT-TTGACTTGAATTCTGTTCTGATA-CATGACCTGAATTTTGT
1 TCTGATTTCTTGACTTGAATTCTGTTCTGATATC-TGACCTAAATTCTGT
* * *
93096 TCTGATTTCTT-ATTTGGATTCTGTTCTGATATCTGATCTAAATTCTGT
1 TCTGATTTCTTGACTTGAATTCTGTTCTGATATCTGACCTAAATTCTGT
*
93144 TTTGATTTCT
1 TCTGATTTCT
93154 GATATATCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 47 0.94
49 3 0.06
ACGTcount: A:0.19, C:0.14, G:0.15, T:0.52
Consensus pattern (49 bp):
TCTGATTTCTTGACTTGAATTCTGTTCTGATATCTGACCTAAATTCTGT
Found at i:93120 original size:24 final size:24
Alignment explanation
Indices: 93064--93156 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
93054 TTTTGACTTG
* * *
93064 AATTCTGTTCTGA-TACATGACCTG
1 AATTCTGTTCTGATTTC-TGATCTA
* * * *
93088 AATTTTGTTCTGATTTCTTATTTG
1 AATTCTGTTCTGATTTCTGATCTA
* *
93112 GATTCTGTTCTGATATCTGATCTA
1 AATTCTGTTCTGATTTCTGATCTA
*
93136 AATTCTGTTTTGATTTCTGAT
1 AATTCTGTTCTGATTTCTGAT
93157 ATATCTGTTT
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 52 0.96
25 2 0.04
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (24 bp):
AATTCTGTTCTGATTTCTGATCTA
Found at i:94272 original size:95 final size:95
Alignment explanation
Indices: 94107--94290 Score: 278
Period size: 95 Copynumber: 1.9 Consensus size: 95
94097 CATTACTCAG
* * *
94107 AGTATCGGTACTACTAATCTAAGTAGTATCAATATCATATATGGTATTGGTACCATTATAGCATT
1 AGTATCGGTACTACTAATCTAAGTAGTATCAATAGCATATATGATATCGGTACCATTATAGCATT
*
94172 TTGTTTTGACAGTATCAGTACTGCCTCAAC
66 CTGTTTTGACAGTATCAGTACTGCCTCAAC
* * * * *
94202 AGTATTGGTACTACTACTCTAAGTAGTGTCGATAGCATATATGATATCGGTACCATTTTAGCATT
1 AGTATCGGTACTACTAATCTAAGTAGTATCAATAGCATATATGATATCGGTACCATTATAGCATT
*
94267 CTGTTTTGACAGTATCTGTACTGC
66 CTGTTTTGACAGTATCAGTACTGC
94291 ATCAGTAGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 79 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (95 bp):
AGTATCGGTACTACTAATCTAAGTAGTATCAATAGCATATATGATATCGGTACCATTATAGCATT
CTGTTTTGACAGTATCAGTACTGCCTCAAC
Found at i:94301 original size:95 final size:94
Alignment explanation
Indices: 94103--94311 Score: 274
Period size: 95 Copynumber: 2.2 Consensus size: 94
94093 GTACCATTAC
* * *
94103 TCAGAGTATCGGTACTACTAATCTAAGTAGTATCAATATCATATATGGTATTGGTACCATTATAG
1 TCAGAGTATCGGTACTACTAATCTAAGTAGTATCAATAGCATATATGATATCGGTACCATTATAG
* *
94168 CATTTTGTTTTGACAGTATCAGTACTGCC
66 CATTCTGTTTTGACAGTATCAGTACTGCA
* * * * * *
94197 TCAACAGTATTGGTACTACTACTCTAAGTAGTGTCGATAGCATATATGATATCGGTACCATTTTA
1 TC-AGAGTATCGGTACTACTAATCTAAGTAGTATCAATAGCATATATGATATCGGTACCATTATA
*
94262 GCATTCTGTTTTGACAGTATCTGTACTGCA
65 GCATTCTGTTTTGACAGTATCAGTACTGCA
* *
94292 TCAGTAGTATCAGTATTACT
1 TCAG-AGTATCGGTACTACT
94312 TCATTATTTT
Statistics
Matches: 97, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
94 3 0.03
95 94 0.97
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (94 bp):
TCAGAGTATCGGTACTACTAATCTAAGTAGTATCAATAGCATATATGATATCGGTACCATTATAG
CATTCTGTTTTGACAGTATCAGTACTGCA
Found at i:94821 original size:3 final size:3
Alignment explanation
Indices: 94813--94841 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
94803 CTATAACTAA
94813 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
94842 GGGCTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:94905 original size:2 final size:2
Alignment explanation
Indices: 94898--94930 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
94888 AAAACAAAAG
94898 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94931 GAAAATGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96950 original size:87 final size:87
Alignment explanation
Indices: 96832--97004 Score: 292
Period size: 87 Copynumber: 2.0 Consensus size: 87
96822 CTCGTGACAC
* *
96832 CGGCATGACGAGTTCCATTGAAATTTTAAAAAAAATCGACCGTTGAACAACGTTCAATCCAACGG
1 CGGCATGACGAGTTCCATTGAAATTTAAAAAAAAATCGACCGTTGAACAACATTCAATCCAACGG
*
96897 TCAAAAAAGTCAATATTATAGT
66 TCAAAAAAGTCAAAATTATAGT
* * *
96919 CGGCGTGACGAGTTCCATTGAAATTTAAAAAAAATTCGACCGTTTAACAACATTCAATCCAACGG
1 CGGCATGACGAGTTCCATTGAAATTTAAAAAAAAATCGACCGTTGAACAACATTCAATCCAACGG
96984 TCAAAAAAGTCAAAATTATAG
66 TCAAAAAAGTCAAAATTATAG
97005 CCGTTGGAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (87 bp):
CGGCATGACGAGTTCCATTGAAATTTAAAAAAAAATCGACCGTTGAACAACATTCAATCCAACGG
TCAAAAAAGTCAAAATTATAGT
Found at i:99801 original size:21 final size:21
Alignment explanation
Indices: 99771--99865 Score: 115
Period size: 21 Copynumber: 4.6 Consensus size: 21
99761 GATTTACATA
*
99771 TTCGCATTGCGATAGTTCAAG
1 TTCGCGTTGCGATAGTTCAAG
*
99792 TTCGCGTTGCGATAGTTGAAG
1 TTCGCGTTGCGATAGTTCAAG
** *
99813 TTCGCGTTGCGATTTTTCAAA
1 TTCGCGTTGCGATAGTTCAAG
99834 TT--CGTTGCGATAG-TCGAAG
1 TTCGCGTTGCGATAGTTC-AAG
99853 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
99866 TTATTCCAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
18 2 0.03
19 13 0.21
21 47 0.76
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTTCAAG
Found at i:99853 original size:40 final size:42
Alignment explanation
Indices: 99796--99893 Score: 173
Period size: 40 Copynumber: 2.4 Consensus size: 42
99786 TTCAAGTTCG
*
99796 CGTTGCGATAGTTGAAGTTCGCGTTGCGATTT-TT-CAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
99836 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
99878 CGTTGCGATAGTCGAA
1 CGTTGCGATAGTCGAA
99894 ATTTTTGTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
40 31 0.56
41 2 0.04
42 22 0.40
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:99881 original size:21 final size:21
Alignment explanation
Indices: 99817--99886 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
99807 TTGAAGTTCG
99817 CGTTGCGATTT-TT-CAAATT
1 CGTTGCGATTTATTCCAAATT
* * *
99836 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
99855 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
99878 CGTTGCGAT
1 CGTTGCGAT
99887 AGTCGAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 12 0.31
21 17 0.44
23 8 0.21
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.39
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:104667 original size:17 final size:17
Alignment explanation
Indices: 104645--104682 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
104635 AACGGTCAAC
104645 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
104662 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
104679 GGTC
1 GGTC
104683 CGGTCAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:104672 original size:7 final size:7
Alignment explanation
Indices: 104604--104655 Score: 104
Period size: 7 Copynumber: 7.4 Consensus size: 7
104594 GTCAAAGAAA
104604 GTCAACG
1 GTCAACG
104611 GTCAACG
1 GTCAACG
104618 GTCAACG
1 GTCAACG
104625 GTCAACG
1 GTCAACG
104632 GTCAACG
1 GTCAACG
104639 GTCAACG
1 GTCAACG
104646 GTCAACG
1 GTCAACG
104653 GTC
1 GTC
104656 GGGTCGGGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:104680 original size:22 final size:22
Alignment explanation
Indices: 104652--104704 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
104642 AACGGTCAAC
*
104652 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCCGGTCAACGGTCG
*
104674 GGTCGGGTCCGGTCAACAGTCG
1 GGTCGGGTCCGGTCAACGGTCG
*
104696 GGTTGGGTC
1 GGTCGGGTC
104705 AGACCGGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.09, C:0.23, G:0.47, T:0.21
Consensus pattern (22 bp):
GGTCGGGTCCGGTCAACGGTCG
Found at i:104719 original size:9 final size:9
Alignment explanation
Indices: 104701--104759 Score: 64
Period size: 9 Copynumber: 6.3 Consensus size: 9
104691 AGTCGGGTTG
*
104701 GGTCAGACC
1 GGTCAAACC
104710 GGTCAAACC
1 GGTCAAACC
*
104719 GGTCCAGACC
1 GGT-CAAACC
104729 GGTCAAACC
1 GGTCAAACC
* *
104738 GTTCAAAACT
1 GGTC-AAACC
104748 GGTCAAACC
1 GGTCAAACC
104757 GGT
1 GGT
104760 TTTCCAGCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 26 0.63
10 15 0.37
ACGTcount: A:0.29, C:0.31, G:0.25, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:104728 original size:19 final size:19
Alignment explanation
Indices: 104704--104759 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
104694 CGGGTTGGGT
104704 CAGACCGGTCAAACCGGTC
1 CAGACCGGTCAAACCGGTC
*
104723 CAGACCGGTCAAACCGTTC
1 CAGACCGGTCAAACCGGTC
* * *
104742 AAAACTGGTCAAACCGGT
1 CAGACCGGTCAAACCGGT
104760 TTTCCAGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.14
Consensus pattern (19 bp):
CAGACCGGTCAAACCGGTC
Found at i:111896 original size:17 final size:17
Alignment explanation
Indices: 111876--111913 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
111866 GAAAGTCAAC
111876 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
111893 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
111910 GGTC
1 GGTC
111914 GGGTCAGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:111911 original size:22 final size:24
Alignment explanation
Indices: 111883--111932 Score: 86
Period size: 22 Copynumber: 2.2 Consensus size: 24
111873 AACGGTCAAC
111883 GGTCGGGTCGGGTCA-AC-GGTCG
1 GGTCGGGTCGGGTCAGACGGGTCG
111905 GGTCGGGTCGGGTCAGACGGGTCG
1 GGTCGGGTCGGGTCAGACGGGTCG
111929 GGTC
1 GGTC
111933 AGACCGGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 15 0.58
23 2 0.08
24 9 0.35
ACGTcount: A:0.08, C:0.22, G:0.52, T:0.18
Consensus pattern (24 bp):
GGTCGGGTCGGGTCAGACGGGTCG
Found at i:111941 original size:9 final size:9
Alignment explanation
Indices: 111929--111988 Score: 66
Period size: 9 Copynumber: 6.3 Consensus size: 9
111919 AGACGGGTCG
*
111929 GGTCAGACC
1 GGTCAAACC
111938 GGTCAAACC
1 GGTCAAACC
*
111947 GGTCCAGACC
1 GGT-CAAACC
111957 GGTCAAACC
1 GGTCAAACC
*
111966 GGTTCAAAACT
1 GG-TC-AAACC
111977 GGTCAAACC
1 GGTCAAACC
111986 GGT
1 GGT
111989 TTTCCAGCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 25 0.58
10 12 0.28
11 6 0.14
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:111941 original size:14 final size:13
Alignment explanation
Indices: 111888--111941 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 13
111878 TCAACGGTCG
111888 GGTCGGGTCA-AC
1 GGTCGGGTCAGAC
111900 GGTCGGGTC-G--
1 GGTCGGGTCAGAC
111910 GGTCGGGTCAGAC
1 GGTCGGGTCAGAC
111923 GGGTCGGGTCAGACC
1 -GGTCGGGTCAGA-C
111938 GGTC
1 GGTC
111942 AAACCGGTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
10 9 0.25
11 1 0.03
12 9 0.25
14 16 0.44
15 1 0.03
ACGTcount: A:0.11, C:0.24, G:0.48, T:0.17
Consensus pattern (13 bp):
GGTCGGGTCAGAC
Found at i:111956 original size:19 final size:19
Alignment explanation
Indices: 111932--111988 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
111922 CGGGTCGGGT
111932 CAGACCGGTCAAACCGGTC
1 CAGACCGGTCAAACCGGTC
111951 CAGACCGGTCAAACCGGTTC
1 CAGACCGGTCAAACCGG-TC
* * *
111971 AAAACTGGTCAAACCGGT
1 CAGACCGGTCAAACCGGT
111989 TTTCCAGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.14
Consensus pattern (19 bp):
CAGACCGGTCAAACCGGTC
Found at i:111982 original size:20 final size:20
Alignment explanation
Indices: 111935--111989 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
111925 GTCGGGTCAG
* *
111935 ACCGGTCAAACCGG-TCCAG
1 ACCGGTCAAACCGGTTCAAA
111954 ACCGGTCAAACCGGTTCAAA
1 ACCGGTCAAACCGGTTCAAA
*
111974 ACTGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
111990 TTCCAGCAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.16
Consensus pattern (20 bp):
ACCGGTCAAACCGGTTCAAA
Found at i:113458 original size:29 final size:25
Alignment explanation
Indices: 113399--113458 Score: 59
Period size: 29 Copynumber: 2.2 Consensus size: 25
113389 TTAAAATTTT
*
113399 TAATATTTTTATTATAGTTTAAGTG
1 TAATATTTTTATCATAGTTTAAGTG
113424 -ATATATTTTATATCATAGTATTATAAGTG
1 TA-ATATTTT-TATCATAG--TT-TAAGTG
113453 TAATAT
1 TAATAT
113459 AATTTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
24 1 0.04
25 7 0.25
26 7 0.25
28 2 0.07
29 10 0.36
30 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (25 bp):
TAATATTTTTATCATAGTTTAAGTG
Done.