Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008193.1 Hibiscus syriacus cultivar Beakdansim tig00110812_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: 1025831
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 5
Found at i:6318 original size:17 final size:17
Alignment explanation
Indices: 6293--6355 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
6283 ATGAAAACAT
*
6293 TTAAAGAACTAGTTTAA
1 TTAATGAACTAGTTTAA
*
6310 TTAATGAACCAGTTTAAA
1 TTAATGAACTAGTTT-AA
*
6328 TGAATGAACTAGTTTAA
1 TTAATGAACTAGTTTAA
*
6345 TTAGTGAACTA
1 TTAATGAACTA
6356 TCTTTATTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 24 0.62
18 15 0.38
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (17 bp):
TTAATGAACTAGTTTAA
Found at i:6335 original size:18 final size:18
Alignment explanation
Indices: 6298--6344 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
6288 AACATTTAAA
*
6298 GAACTAGTTT-AATTAAT
1 GAACTAGTTTAAATGAAT
*
6315 GAACCAGTTTAAATGAAT
1 GAACTAGTTTAAATGAAT
6333 GAACTAGTTTAA
1 GAACTAGTTTAA
6345 TTAGTGAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.34
Consensus pattern (18 bp):
GAACTAGTTTAAATGAAT
Found at i:11117 original size:15 final size:15
Alignment explanation
Indices: 11097--11127 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11087 TATACAGAGA
11097 TTTTTTCGCAGGGAT
1 TTTTTTCGCAGGGAT
*
11112 TTTTTTTGCAGGGAT
1 TTTTTTCGCAGGGAT
11127 T
1 T
11128 ACTGCCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.26, T:0.52
Consensus pattern (15 bp):
TTTTTTCGCAGGGAT
Found at i:16233 original size:2 final size:2
Alignment explanation
Indices: 16226--16253 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16216 CAAATCTTTC
16226 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
16254 TAATATGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16336 original size:20 final size:20
Alignment explanation
Indices: 16311--16348 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16301 TACTAAAATA
*
16311 ACAATATTAAAAAATAAAGG
1 ACAATAATAAAAAATAAAGG
*
16331 ACAATAATAAAAATTAAA
1 ACAATAATAAAAAATAAA
16349 ATAAAATTAT
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:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (20 bp):
ACAATAATAAAAAATAAAGG
Found at i:17554 original size:31 final size:31
Alignment explanation
Indices: 17516--17574 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
17506 GTATTATTTG
17516 TAATAATAAATAT-ATATAATAATAATAATAA
1 TAATAAT-AATATCATATAATAATAATAATAA
* *
17547 TAATAATAATTTCTTATAATAATAATAA
1 TAATAATAATATCATATAATAATAATAA
17575 GAGAAAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
TAATAATAATATCATATAATAATAATAATAA
Found at i:17574 original size:3 final size:3
Alignment explanation
Indices: 17516--17556 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
17506 GTATTATTTG
17516 TAA TAA TAA -ATA TATA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA T
17557 TTCTTATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 1 0.03
3 30 0.83
4 5 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:17793 original size:21 final size:21
Alignment explanation
Indices: 17678--17793 Score: 60
Period size: 21 Copynumber: 5.6 Consensus size: 21
17668 GCGAAATAAA
**
17678 AATCGCAACGCGA-TCCCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
17698 AATCGCAAATC-AGTTTCCAA
1 AATCGCAACGCGATTTTCCAG
* *
17718 AATCGCAACGCGATTCTT-GAC
1 AATCGCAACGCGATT-TTCCAG
* ** *
17739 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
17759 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
17781 AATCGCAACGCGA
1 AATCGCAACGCGA
17794 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 40 0.57
22 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:17806 original size:20 final size:20
Alignment explanation
Indices: 17781--17973 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
17771 GATTTTCCAG
* ** *
17781 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
17801 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
17821 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
17841 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
17861 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
17881 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
17901 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
17921 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
17942 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
17962 AATCGCAACGCG
1 AATCGCAACGCG
17974 ATTTTTAAAG
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
19 1 0.01
20 131 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:18392 original size:33 final size:33
Alignment explanation
Indices: 18353--18423 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
18343 TTCACTTAGA
18353 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
18386 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
18419 TTTCA
1 TTTCA
18424 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:18529 original size:21 final size:20
Alignment explanation
Indices: 18503--18576 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 20
18493 TGCAGAAGAG
18503 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
18524 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
18544 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
18566 TCGCAACGAGA
1 TCGCAACGAGA
18577 GAATTGCAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.22
21 25 0.56
22 10 0.22
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:18587 original size:14 final size:14
Alignment explanation
Indices: 18564--18601 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
18554 GAAAAATGAA
18564 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
18578 AATTGCAACGAGAG
1 AATCGCAACGAGAG
18592 AATCGCAACG
1 AATCGCAACG
18602 CGAAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.21, G:0.26, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:18654 original size:14 final size:14
Alignment explanation
Indices: 18635--18691 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
18625 TTTCATTTCG
18635 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
18649 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
18668 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
18682 CGTTGCGATT
1 CGTTGCGATT
18692 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:18660 original size:33 final size:33
Alignment explanation
Indices: 18618--18740 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
18608 CAAAATCGCA
18618 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
18651 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
18684 TTGCGATTTTCATTTCTCTAGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCATTTCGC--GTT--G-C-G--ATTCTCTCG
18725 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
18741 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 3 0.04
37 1 0.01
38 1 0.01
39 1 0.01
41 25 0.31
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:18702 original size:21 final size:21
Alignment explanation
Indices: 18676--18740 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
18666 CGCGTTGCGA
18676 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
* ***
18697 TTCTCTAGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
18717 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
18738 TTC
1 TTC
18741 AACCAAAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.12, C:0.25, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:20578 original size:93 final size:93
Alignment explanation
Indices: 20419--20734 Score: 623
Period size: 93 Copynumber: 3.4 Consensus size: 93
20409 TAGATTGCTT
*
20419 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
20484 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
20512 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
20577 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
20605 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
20670 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
20698 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
20735 AATACCCTGA
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 222 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:20958 original size:19 final size:19
Alignment explanation
Indices: 20936--21092 Score: 100
Period size: 19 Copynumber: 8.8 Consensus size: 19
20926 GAAACCAAAA
*
20936 TCGCATTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
20955 TCGCGTTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
20971 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
20988 TCGCATTGCGA--TTC-TG
1 TCGCATTGCGATTTTCATT
21004 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* * **
21021 TCACGTTGCGATTTTGGTT
1 TCGCATTGCGATTTTCATT
* **
21040 TCACATTGCGATTTTGGTT
1 TCGCATTGCGATTTTCATT
* * *
21059 TCTCGTTGCGATTCTCATT
1 TCGCATTGCGATTTTCATT
* *
21078 TCACGTTGCGATTTT
1 TCGCATTGCGATTTT
21093 AAGTTTCGTG
Statistics
Matches: 111, Mismatches: 17, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
14 12 0.11
16 14 0.13
17 13 0.12
19 72 0.65
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:20977 original size:14 final size:14
Alignment explanation
Indices: 20958--21014 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
20948 TTTCATTTCG
20958 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
20972 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
20989 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
21005 CGTTGCGATT
1 CGTTGCGATT
21015 TTCATTTCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:20987 original size:33 final size:33
Alignment explanation
Indices: 20945--21033 Score: 151
Period size: 33 Copynumber: 2.7 Consensus size: 33
20935 ATCGCATTGT
20945 GATTTTCATTTCGCGTTGCGATTCTCTCGTTGC
1 GATTTTCATTTCGCGTTGCGATTCTCTCGTTGC
* *
20978 GATTTTCATTTCGCATTGCGATTCTGTCGTTGC
1 GATTTTCATTTCGCGTTGCGATTCTCTCGTTGC
*
21011 GATTTTCATTTCACGTTGCGATT
1 GATTTTCATTTCGCGTTGCGATT
21034 TTGGTTTCAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.46
Consensus pattern (33 bp):
GATTTTCATTTCGCGTTGCGATTCTCTCGTTGC
Found at i:21049 original size:38 final size:38
Alignment explanation
Indices: 20939--21092 Score: 112
Period size: 33 Copynumber: 4.3 Consensus size: 38
20929 ACCAAAATCG
* *
20939 CATTGTGATTTTCATTTCGCGTTGCGATTCTC---T--
1 CATTGCGATTTTCATTTCACGTTGCGATTCTCATTTCA
* * * *
20972 CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TGT--
1 CATTGCGATTTTCATTTCACGTTGCGATTCTCATTTCA
* * **
21005 CGTTGCGATTTTCATTTCACGTTGCGATTTTGGTTTCA
1 CATTGCGATTTTCATTTCACGTTGCGATTCTCATTTCA
** *
21043 CATTGCGATTTTGGTTTCTCGTTGCGATTCTCATTTCA
1 CATTGCGATTTTCATTTCACGTTGCGATTCTCATTTCA
*
21081 CGTTGCGATTTT
1 CATTGCGATTTT
21093 AAGTTTCGTG
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 50 0.51
34 1 0.01
35 1 0.01
36 2 0.02
38 42 0.42
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (38 bp):
CATTGCGATTTTCATTTCACGTTGCGATTCTCATTTCA
Found at i:23050 original size:14 final size:14
Alignment explanation
Indices: 23031--23066 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
23021 ATTGTTTAAT
23031 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
23045 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
23059 TGATTTGT
1 TGATTTGT
23067 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:23181 original size:19 final size:19
Alignment explanation
Indices: 23157--23244 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
23147 GCATTATATT
23157 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
23176 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
23193 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
*
23209 GAAATGAAAATAGCAATGC
1 GAAATGAAAATCGCAATGC
23228 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
23245 CGAGAGAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 28 0.47
20 15 0.25
ACGTcount: A:0.49, C:0.15, G:0.23, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:23247 original size:53 final size:52
Alignment explanation
Indices: 23157--23263 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 52
23147 GCATTATATT
*
23157 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATAGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
23209 GAAATGAAAATAGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATAGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
23262 GA
1 GA
23264 TTTTCATTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 18 0.34
53 35 0.66
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.13
Consensus pattern (52 bp):
GAAATGAAAATAGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:23281 original size:19 final size:19
Alignment explanation
Indices: 23253--23509 Score: 277
Period size: 19 Copynumber: 14.5 Consensus size: 19
23243 AACGAGAGAA
*
23253 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
23272 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
23291 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
23308 T-G--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
23324 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
23343 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
23359 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
23376 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
23395 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
23412 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
23429 TCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
23448 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
23467 TCCGCATTGCGATTTTC--T
1 T-CGCATTGCGATTTTCATT
*
23485 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
23501 TCGCATTGC
1 TCGCATTGC
23510 AATTCTCTCG
Statistics
Matches: 202, Mismatches: 12, Indels: 48
0.77 0.05 0.18
Matches are distributed among these distances:
13 6 0.03
14 22 0.11
15 4 0.02
16 17 0.08
17 16 0.08
18 8 0.04
19 94 0.47
20 35 0.17
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:23337 original size:52 final size:52
Alignment explanation
Indices: 23259--23527 Score: 379
Period size: 52 Copynumber: 5.1 Consensus size: 52
23249 AGAATCGCAA
23259 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCT-GT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
23311 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
23363 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
* * *
23416 TGCGATTTTCATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
* *
23474 TGCGATTTTC--TT-G--TTGGGATTTTCATTTCGCATTGCAATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
23521 TGCGATT
1 TGCGATT
23528 GTAATTTCCG
Statistics
Matches: 202, Mismatches: 7, Indels: 21
0.88 0.03 0.09
Matches are distributed among these distances:
47 8 0.04
49 2 0.01
50 2 0.01
51 19 0.09
52 78 0.39
53 73 0.36
54 3 0.01
55 2 0.01
56 4 0.02
58 11 0.05
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:23433 original size:72 final size:71
Alignment explanation
Indices: 23310--23502 Score: 275
Period size: 72 Copynumber: 2.7 Consensus size: 71
23300 CGATTCTCTG
* * *
23310 TTGCGATTTTCATTT-CGCATTGCGATTT-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTT
1 TTGCGATTTTCATTTCCGCATTGCGATTTCTCGTTGCG-ATTTTC-ATT-TCTCGTTGCGATTTT
23372 CATTTCGCA
63 CATTTCGCA
23381 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCTCGTTGCGATTTTCA
1 TTGCGATTTTCATTTCCGCATTGCGATT-TCTCGTTGCGATTTTCATTTCTCGTTGCGATTTTCA
23446 TTTCGCA
65 TTTCGCA
* *
23453 TTGCGATTTTCATTTCCGCATTGCGATTTTCTTGTTGGGATTTTCATTTC
1 TTGCGATTTTCATTTCCGCATTGCGA-TTTCTCGTTGCGATTTTCATTTC
23503 GCATTGCAAT
Statistics
Matches: 112, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
71 15 0.13
72 81 0.72
73 7 0.06
74 9 0.08
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.48
Consensus pattern (71 bp):
TTGCGATTTTCATTTCCGCATTGCGATTTCTCGTTGCGATTTTCATTTCTCGTTGCGATTTTCAT
TTCGCA
Found at i:23542 original size:53 final size:52
Alignment explanation
Indices: 23259--23546 Score: 343
Period size: 53 Copynumber: 5.5 Consensus size: 52
23249 AGAATCGCAA
**
23259 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCT-GT
1 TGCGATTTTCATTTCGTGTTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
**
23311 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGTGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
**
23363 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGTGTTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
23416 TGCGATTTTCATTTC-TCGTTGCGATTTTCATTTCGCATTGCGATT-T-TCATT
1 TGCGATTTTCATTTCGT-GTTGCGATTTTCATTTCGCATTGCGATTCTCTC-GT
* * * * *
23467 TCCGCA-TTGCGATTTTCTTGTTGGGATTTTCATTTCGCATTGCAATTCTCTCGT
1 TGCG-ATTTTC-A-TTTCGTGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
* *
23521 TGCGATTGTAATTTCCGTGTTGCGAT
1 TGCGATTTTCATTT-CGTGTTGCGAT
23547 AGTCAAATGC
Statistics
Matches: 210, Mismatches: 14, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
50 2 0.01
51 24 0.11
52 85 0.40
53 90 0.43
54 7 0.03
55 2 0.01
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (52 bp):
TGCGATTTTCATTTCGTGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:25826 original size:12 final size:12
Alignment explanation
Indices: 25809--25833 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25799 TCTTCGGTGA
25809 CTTTTTCTTCTT
1 CTTTTTCTTCTT
25821 CTTTTTCTTCTT
1 CTTTTTCTTCTT
25833 C
1 C
25834 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:26042 original size:24 final size:24
Alignment explanation
Indices: 26008--26054 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
25998 CTGAAACATC
26008 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
26032 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
26055 GACCAAATTT
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:26774 original size:20 final size:20
Alignment explanation
Indices: 26746--26975 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
26736 AAATTTCAGT
* * *
26746 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
26766 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
26786 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
26806 GTTGCGATTTACGGATTCTC
1 GTTGCGATTTACGGATTCGC
*
26826 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
26846 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
26866 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * **
26886 GTTGCTATTTACGGATACAT
1 GTTGCGATTTACGGATTCGC
* *
26906 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
26926 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
26946 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
26966 GTTGCGATTT
1 GTTGCGATTT
26976 TGCGAAACTG
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:27005 original size:34 final size:35
Alignment explanation
Indices: 26948--27018 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 35
26938 GTGTTCGCGT
26948 TGCGATTTTCATATTCGCGTTGCGATTTTGCGAAAC
1 TGCGATTTTCATATTCGCGTTGCGATTTTG-GAAAC
26984 TGCGATTTTCA-A-TCGCGTTGCGATTTTGGAAAC
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAC
27017 TG
1 TG
27019 ATTTGCGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 7 0.20
34 16 0.46
35 1 0.03
36 11 0.31
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (35 bp):
TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAC
Found at i:30790 original size:22 final size:22
Alignment explanation
Indices: 30764--30809 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30754 TTTTATTAAA
*
30764 AAAATAAGAACTAAAATAA-AAT
1 AAAATAAGAA-AAAAATAATAAT
*
30786 AAAATAATAAAAAAATAATAAT
1 AAAATAAGAAAAAAATAATAAT
30808 AA
1 AA
30810 TAATTTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAATAAGAAAAAAATAATAAT
Found at i:30802 original size:11 final size:11
Alignment explanation
Indices: 30760--30806 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
30750 ATAATTTTAT
30760 TAAAAAAATAA
1 TAAAAAAATAA
* *
30771 GAACTAAAATAA
1 TAA-AAAAATAA
*
30783 -AATAAAATAA
1 TAAAAAAATAA
30793 TAAAAAAATAA
1 TAAAAAAATAA
30804 TAA
1 TAA
30807 TAATAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
10 8 0.26
11 16 0.52
12 7 0.23
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (11 bp):
TAAAAAAATAA
Found at i:30810 original size:17 final size:16
Alignment explanation
Indices: 30760--30812 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
30750 ATAATTTTAT
30760 TAAAAAAATAAGAACTAA
1 TAAAAAAATAA-AA-TAA
*
30778 -AATAAAATAAAATAA
1 TAAAAAAATAAAATAA
30793 TAAAAAAATAATAATAA
1 TAAAAAAATAA-AATAA
30810 TAA
1 TAA
30813 TTTAATGAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 3 0.10
16 11 0.35
17 17 0.55
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
TAAAAAAATAAAATAA
Found at i:30833 original size:15 final size:14
Alignment explanation
Indices: 30778--30833 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 14
30768 TAAGAACTAA
30778 AATAAAATAA-AAT
1 AATAAAATAATAAT
*
30791 AATAAAAAAATAAT
1 AATAAAATAATAAT
*
30805 AATAATAATTTAATGAGT
1 AATAA-AA--TAAT-AAT
30823 AATAAAATAAT
1 AATAAAATAAT
30834 TTAATCTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 9 0.26
14 8 0.23
15 6 0.17
17 5 0.14
18 7 0.20
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:41922 original size:13 final size:13
Alignment explanation
Indices: 41885--41924 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
41875 TCGATATTGA
41885 AAAATAAATA-TT
1 AAAATAAATATTT
*
41897 AAAATAATTTATTT
1 AAAATAA-ATATTT
41911 AAAATAAATATTT
1 AAAATAAATATTT
41924 A
1 A
41925 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:41938 original size:17 final size:17
Alignment explanation
Indices: 41898--41946 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
41888 ATAAATATTA
*
41898 AAATAATTTATTTAAAAT
1 AAAT-ATTTATTTATAAT
*
41916 AAATATTTATTTATTAT
1 AAATATTTATTTATAAT
* *
41933 ATATATATATTTAT
1 AAATATTTATTTAT
41947 GACTATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATTTATTTATAAT
Found at i:43377 original size:14 final size:15
Alignment explanation
Indices: 43358--43391 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
43348 GTCTGTAATT
43358 ATTTATTT-ATATAG
1 ATTTATTTAATATAG
*
43372 ATTTATTTAATATAT
1 ATTTATTTAATATAG
43387 ATTTA
1 ATTTA
43392 ATAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
ATTTATTTAATATAG
Found at i:43398 original size:3 final size:3
Alignment explanation
Indices: 43390--43441 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
43380 AATATATATT
*
43390 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43438 TAA T
1 TAA T
43442 GTGGGTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:44294 original size:113 final size:113
Alignment explanation
Indices: 43578--44334 Score: 1022
Period size: 114 Copynumber: 6.6 Consensus size: 113
43568 ATTGAATAAA
* * * **
43578 TTCTTC-TCTTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT-CTGGAAATGATGATCCATC
*
43642 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 AAATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
* * *
43691 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTCTCTGGAAATGATGATCC
*
43755 ATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 ATCAAATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
* * *
43807 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTCTCTGGAAATGATGATCC
* *
43871 ATTAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 ATCAAATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
* *
43923 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAATGATGATCCATCA
* * *
43988 ATTTGATGAATTC-AGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 A-ATGATGAATTCAAG-CAAAAGATTGAACAAATTCTTCTCATTATGAAC
* *
44037 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAATGATGATCCATCA
* * * *
44102 ATTTGATGAATTCAGGAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 A-ATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
* * *
44151 TTCTTCTTCCTTCTTCAGATGAGTTTTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAATGATGATCCATCA
* * * * *
44216 AGTGATAGAATT-AGGCAGAAGGTTGAACAAATTCTTCTCATTATGAAT
66 AATGAT-GAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
* *
44264 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTTGAAATG-TCAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAATGAT-GATCCATC
44328 AAATGAT
65 AAATGAT
44335 AGATTTGAAT
Statistics
Matches: 602, Mismatches: 31, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
112 4 0.01
113 145 0.24
114 230 0.38
115 1 0.00
116 200 0.33
117 20 0.03
118 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAATGATGATCCATCA
AATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
Found at i:45121 original size:83 final size:83
Alignment explanation
Indices: 44982--45373 Score: 655
Period size: 83 Copynumber: 4.7 Consensus size: 83
44972 GTAGTTCTTA
*
44982 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
45047 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
45065 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
45130 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * *
45148 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
45213 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
45231 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
45296 ATTCAATGATT-GTTCTG
66 ATTCAATGATTGGTTCTG
*
45313 TCC-AACCAGATCAGATCACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTT
45374 TCAGTTAATG
Statistics
Matches: 295, Mismatches: 12, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
82 60 0.20
83 235 0.80
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:46516 original size:15 final size:14
Alignment explanation
Indices: 46476--46512 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
46466 CTTTTTTCTC
46476 TTTTTTTTTCTTTA
1 TTTTTTTTTCTTTA
46490 TTTTTTTTTCTTTA
1 TTTTTTTTTCTTTA
46504 TTTTTTTTT
1 TTTTTTTTT
46513 TCTTCAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.05, C:0.05, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTA
Found at i:57841 original size:13 final size:13
Alignment explanation
Indices: 57804--57843 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
57794 TCGATATTGA
57804 AAAATAAATA-TT
1 AAAATAAATATTT
*
57816 AAAATAATTTATTT
1 AAAATAA-ATATTT
57830 AAAATAAATATTT
1 AAAATAAATATTT
57843 A
1 A
57844 TTATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:59321 original size:3 final size:3
Alignment explanation
Indices: 59302--59373 Score: 117
Period size: 3 Copynumber: 23.3 Consensus size: 3
59292 TAGATTTATT
59302 TAA TATA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
59349 TAA TAA TAA TAA TAA TAA TAG TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
59374 GTGGGTAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
3 59 0.91
4 6 0.09
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:62221 original size:16 final size:16
Alignment explanation
Indices: 62200--62231 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
62190 CACCTAAAGG
62200 AGATTCAGAAAGAAGC
1 AGATTCAGAAAGAAGC
62216 AGATTCAGAAAGAAGC
1 AGATTCAGAAAGAAGC
62232 GACTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.25, T:0.12
Consensus pattern (16 bp):
AGATTCAGAAAGAAGC
Found at i:66339 original size:24 final size:25
Alignment explanation
Indices: 66289--66336 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
66279 TAACTGTTAG
*
66289 TTTTGATCTGTTTTAACATATAAAC
1 TTTTGATCTGTTTTAAAATATAAAC
*
66314 TTTTGAT-TTTTTTAAAACTATAA
1 TTTTGATCTGTTTTAAAA-TATAA
66337 CTTAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTTGATCTGTTTTAAAATATAAAC
Found at i:73078 original size:117 final size:117
Alignment explanation
Indices: 72855--73088 Score: 436
Period size: 116 Copynumber: 2.0 Consensus size: 117
72845 CGGAGTTAAT
72855 TTCTGAGAAGGTTTAAGGAAATAAATCGAAAGAGATATGAAAACGAAAGAAATAGAGAGGGTATT
1 TTCTGAGAAGGTTTAAGGAAATAAATCGAAAGAGATATGAAAACGAAAGAAATAGAGAGGGTATT
72920 TCCCAGAGTCAATTGGGCTTTTTTGTTCTTCGACCATACGAGCCTCGAAAGG
66 TCCCAGAGTCAATTGGGCTTTTTTGTTCTTCGACCATACGAGCCTCGAAAGG
72972 TTCTGAGAAGG-TTAAGGACAA-AAATCGAAAGAGATATGAAAACGAAAGAAATAGAGAGGGTAT
1 TTCTGAGAAGGTTTAAGGA-AATAAATCGAAAGAGATATGAAAACGAAAGAAATAGAGAGGGTAT
73035 TTCCCAGAGTTCAATTGGGCTTTTTTGTTCTTCGACCATACGAGCCTCGAAAGG
65 TTCCCAGAG-TCAATTGGGCTTTTTTGTTCTTCGACCATACGAGCCTCGAAAGG
73089 GCCAAGGCCG
Statistics
Matches: 115, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
116 58 0.50
117 57 0.50
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (117 bp):
TTCTGAGAAGGTTTAAGGAAATAAATCGAAAGAGATATGAAAACGAAAGAAATAGAGAGGGTATT
TCCCAGAGTCAATTGGGCTTTTTTGTTCTTCGACCATACGAGCCTCGAAAGG
Found at i:73276 original size:21 final size:21
Alignment explanation
Indices: 73252--73318 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
73242 TCATTCCTCG
73252 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
73273 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
73294 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
73315 AGAG
1 AGAG
73319 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:74672 original size:14 final size:14
Alignment explanation
Indices: 74653--74688 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
74643 ATTGTTTAAT
74653 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
74667 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
74681 TGATTTGT
1 TGATTTGT
74689 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:74817 original size:19 final size:19
Alignment explanation
Indices: 74793--74839 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
74783 GGCAAAATAT
*
74793 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
74812 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
74831 ATCGCAACG
1 ATCGCAACG
74840 AGAGAAACGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:74910 original size:33 final size:31
Alignment explanation
Indices: 74863--74991 Score: 179
Period size: 33 Copynumber: 4.1 Consensus size: 31
74853 GCGAAATTAA
*
74863 ATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 ATTCTCGTTGCGATTTTCATTTCGCATTGCG
*
74894 ATTCCCTCGTTGCGATTTTCATTTCGTATTGCG
1 ATT--CTCGTTGCGATTTTCATTTCGCATTGCG
**
74927 AAATTAGCGTTGCGATTTTCA-TTCGCATTGCG
1 --ATTCTCGTTGCGATTTTCATTTCGCATTGCG
74959 ATTCTCGTTGCGATTTTCATTTCGCATTGCG
1 ATTCTCGTTGCGATTTTCATTTCGCATTGCG
74990 AT
1 AT
74992 AGTAATTTCT
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
30 17 0.20
31 16 0.19
32 10 0.12
33 40 0.47
35 3 0.03
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.43
Consensus pattern (31 bp):
ATTCTCGTTGCGATTTTCATTTCGCATTGCG
Found at i:74927 original size:19 final size:18
Alignment explanation
Indices: 74870--74991 Score: 58
Period size: 19 Copynumber: 7.4 Consensus size: 18
74860 TAAATTCGCG
74870 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCG-A
**
74889 TTGCGA--TTC-CCTCG-
1 TTGCGATTTTCATTTCGA
74903 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCG-A
** *
74922 TTGCGAAATT-A--GCG-
1 TTGCGATTTTCATTTCGA
74936 TTGCGATTTTCA-TTCGCA
1 TTGCGATTTTCATTTCG-A
74954 TTGCGA--TTC---TCG-
1 TTGCGATTTTCATTTCGA
74966 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCG-A
74985 TTGCGAT
1 TTGCGAT
74992 AGTAATTTCT
Statistics
Matches: 77, Mismatches: 10, Indels: 32
0.65 0.08 0.27
Matches are distributed among these distances:
12 6 0.08
14 20 0.26
15 1 0.01
16 13 0.17
17 9 0.12
18 7 0.09
19 21 0.27
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGA
Found at i:74988 original size:63 final size:65
Alignment explanation
Indices: 74861--74990 Score: 219
Period size: 63 Copynumber: 2.0 Consensus size: 65
74851 ACGCGAAATT
* *
74861 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGTATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATT-CCTCGTTGCGATTTTCATTTCGCATTGC
74926 G
65 G
74927 AAATTAGCGTTGCGATTTTCA-TTCGCATTGCGATT-CTCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCTCGTTGCGATTTTCATTTCGCATTGCG
74990 A
1 A
74991 TAGTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
63 28 0.45
65 14 0.23
66 20 0.32
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (65 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCTCGTTGCGATTTTCATTTCGCATTGCG
Found at i:77276 original size:12 final size:12
Alignment explanation
Indices: 77259--77283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77249 TCTTCGGGGA
77259 CTTTTTCTTCTT
1 CTTTTTCTTCTT
77271 CTTTTTCTTCTT
1 CTTTTTCTTCTT
77283 C
1 C
77284 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:77491 original size:24 final size:24
Alignment explanation
Indices: 77457--77510 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
77447 CTGAAACATC
* *
77457 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
77481 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
77505 ATCAAA
1 ATCAAA
77511 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:78509 original size:20 final size:20
Alignment explanation
Indices: 78484--78561 Score: 138
Period size: 20 Copynumber: 3.9 Consensus size: 20
78474 ATTCATTTGA
*
78484 CTATCGCAGCGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
78504 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
78524 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
78544 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
78562 CGCAATGCGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:78572 original size:34 final size:36
Alignment explanation
Indices: 78486--78573 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 36
78476 TCATTTGACT
* *
78486 ATCGCAGCGCGAAAATGGCTATCGCAACGCGAAAATGG
1 ATCGCAACGCGAAAATGGCTATCGCAACGAGAAAA--G
78524 CTATCGCAACGCGAAAATGGCTATCGCAACGAG-AAA-
1 --ATCGCAACGCGAAAATGGCTATCGCAACGAGAAAAG
*
78560 ATCGCAATGCGAAA
1 ATCGCAACGCGAAA
78574 TGAAAATCGC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
34 13 0.29
39 3 0.07
40 29 0.64
ACGTcount: A:0.38, C:0.24, G:0.25, T:0.14
Consensus pattern (36 bp):
ATCGCAACGCGAAAATGGCTATCGCAACGAGAAAAG
Found at i:78604 original size:14 final size:14
Alignment explanation
Indices: 78585--78638 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
78575 GAAAATCGCA
78585 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
78599 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
78616 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
78632 TTGCGAT
1 TTGCGAT
78639 AGCCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:78604 original size:33 final size:33
Alignment explanation
Indices: 78567--78637 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
78557 AAAATCGCAA
78567 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
78600 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
78633 TGCGA
1 TGCGA
78638 TAGCCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:78638 original size:33 final size:33
Alignment explanation
Indices: 78580--78657 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
78570 GAAATGAAAA
***
78580 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
78613 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
78646 TCGCATTGCGAT
1 TCGCATTGCGAT
78658 AGTCTGTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:78763 original size:14 final size:14
Alignment explanation
Indices: 78744--78780 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
78734 CATCAATTAA
78744 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
78758 ACAAATCATCTTTT
1 ACAAATCAACATTT
78772 ACAAATCAA
1 ACAAATCAA
78781 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:81217 original size:18 final size:18
Alignment explanation
Indices: 81191--81253 Score: 99
Period size: 18 Copynumber: 3.5 Consensus size: 18
81181 GTCGATCAGA
* *
81191 TGATGGCTCTGGGTGAGG
1 TGATAGCTCTGGGCGAGG
81209 TGATAGCTCTGGGCGAGG
1 TGATAGCTCTGGGCGAGG
81227 TGATAGCTCTGGGCGAGG
1 TGATAGCTCTGGGCGAGG
*
81245 TGATGGCTC
1 TGATAGCTC
81254 CTGAAGTGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.14, C:0.16, G:0.44, T:0.25
Consensus pattern (18 bp):
TGATAGCTCTGGGCGAGG
Found at i:82594 original size:20 final size:20
Alignment explanation
Indices: 82569--82609 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
82559 ATAGTTTCCG
82569 AAATGAAAATCGCAACACGA
1 AAATGAAAATCGCAACACGA
** *
82589 AAATGACTATCGCAACGCGA
1 AAATGAAAATCGCAACACGA
82609 A
1 A
82610 TTTGACTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (20 bp):
AAATGAAAATCGCAACACGA
Found at i:82615 original size:20 final size:20
Alignment explanation
Indices: 82577--82625 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
82567 CGAAATGAAA
*
82577 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
82597 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
82617 ATCGCAACG
1 ATCGCAACG
82626 AGAGAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:82917 original size:22 final size:22
Alignment explanation
Indices: 82887--82930 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
82877 GATGGAGATA
*
82887 GACGGATTTCGCCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
*
82909 GACGAATTTCGTCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
82931 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGAATTTCGCCGGAGATGGG
Found at i:83219 original size:20 final size:20
Alignment explanation
Indices: 83113--83227 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
83103 GATTATGTAT
* *
83113 TATCGCGTTACGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
83133 AATCGTGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
83153 TATTGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGATAGTCAG
* * *
83173 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
83194 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
83214 TATCGCGTTGCGAT
1 TATCGCGTTGCGAT
83228 TTTCCCAATT
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
19 3 0.04
20 58 0.77
21 12 0.16
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:83246 original size:41 final size:41
Alignment explanation
Indices: 83157--83248 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
83147 AGTCAGTATT
* * ** *
83157 GCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTATTATC
1 GCGTTGCGATAGTAAGTATCGCGTTGCGATTTTCCAATATC
* *
83198 GCATTGCGATAGTCAGTATCGCGTTGCGATTTTCCCAAT-TC
1 GCGTTGCGATAGTAAGTATCGCGTTGCGATTTT-CCAATATC
83239 GCGTTGCGAT
1 GCGTTGCGAT
83249 TTACTTATTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 40 0.95
42 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (41 bp):
GCGTTGCGATAGTAAGTATCGCGTTGCGATTTTCCAATATC
Found at i:83260 original size:20 final size:20
Alignment explanation
Indices: 83216--83270 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
83206 ATAGTCAGTA
*
83216 TCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGA-TTTACCAAT
**
83237 TCGCGTTGCGATTTACTTAT
1 TCGCGTTGCGATTTACCAAT
*
83257 TCGCATTGCGATTT
1 TCGCGTTGCGATTT
83271 GGGAAAATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTACCAAT
Found at i:92932 original size:8 final size:8
Alignment explanation
Indices: 92878--92967 Score: 60
Period size: 8 Copynumber: 11.2 Consensus size: 8
92868 GTTTTTATAA
*
92878 TTTAGTAT
1 TTTATTAT
92886 TTTATTCA-
1 TTTATT-AT
* *
92894 TTAATTTT
1 TTTATTAT
92902 TTTATTAT
1 TTTATTAT
* * *
92910 TTAAGTAA
1 TTTATTAT
*
92918 TTAATTAT
1 TTTATTAT
92926 TTTATTAT
1 TTTATTAT
92934 TATT-TTAT
1 T-TTATTAT
*
92942 TTTATTAAA
1 TTTATT-AT
92951 TTT-TTAT
1 TTTATTAT
92958 TTTATTAT
1 TTTATTAT
92966 TT
1 TT
92968 AATTGTAAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
7 6 0.10
8 50 0.79
9 7 0.11
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.68
Consensus pattern (8 bp):
TTTATTAT
Found at i:92941 original size:16 final size:17
Alignment explanation
Indices: 92922--92966 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
92912 AAGTAATTAA
92922 TTATTTTATTATTA-TT
1 TTATTTTATTATTATTT
*
92938 TTATTTTATTA-AATTT
1 TTATTTTATTATTATTT
92954 TTATTTTATTATT
1 TTATTTTATTATT
92967 TAATTGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTTTATTATTATTT
Found at i:102760 original size:3 final size:3
Alignment explanation
Indices: 102752--102777 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
102742 TCACCTTAGT
102752 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
102778 GATATCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:117345 original size:27 final size:27
Alignment explanation
Indices: 117307--117362 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
117297 TTCCTTTCCC
117307 TTAGTTTATTTGGCTAAGGAATGGTTA
1 TTAGTTTATTTGGCTAAGGAATGGTTA
117334 TTAGTTTATTTGGCTAAGGAATGGTTA
1 TTAGTTTATTTGGCTAAGGAATGGTTA
117361 TT
1 TT
117363 TTATTTACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (27 bp):
TTAGTTTATTTGGCTAAGGAATGGTTA
Found at i:119273 original size:18 final size:18
Alignment explanation
Indices: 119252--119385 Score: 103
Period size: 18 Copynumber: 7.4 Consensus size: 18
119242 CGTCAATAAT
* *
119252 ATTATCATAATCTCTATC
1 ATTATCATCATCTATATC
*
119270 ATTATCCA-CATCAATATC
1 ATTAT-CATCATCTATATC
*
119288 ATTATCATGATCTATATC
1 ATTATCATCATCTATATC
*
119306 -TCTATCAGCAT-TAATATC
1 AT-TATCATCATCT-ATATC
* *
119324 ATTATCATGATCTCTATC
1 ATTATCATCATCTATATC
* * *
119342 ACTATTATCATCAATATC
1 ATTATCATCATCTATATC
* *
119360 ATTATCATGATCTCTATC
1 ATTATCATCATCTATATC
*
119378 ACTATCAT
1 ATTATCAT
119386 TCTTGTATAT
Statistics
Matches: 89, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
17 4 0.04
18 81 0.91
19 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTATCATCATCTATATC
Found at i:119284 original size:36 final size:36
Alignment explanation
Indices: 119244--119384 Score: 187
Period size: 36 Copynumber: 3.9 Consensus size: 36
119234 ATTAACACCG
* *
119244 TCAATAAT-ATTATCATAATCTCTATCATTATCCA-CA
1 TCAAT-ATCATTATCATGATCTCTATCACTAT-CAGCA
* *
119280 TCAATATCATTATCATGATCTATATCTCTATCAGCA
1 TCAATATCATTATCATGATCTCTATCACTATCAGCA
* * *
119316 TTAATATCATTATCATGATCTCTATCACTATTATCA
1 TCAATATCATTATCATGATCTCTATCACTATCAGCA
119352 TCAATATCATTATCATGATCTCTATCACTATCA
1 TCAATATCATTATCATGATCTCTATCACTATCA
119385 TTCTTGTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
35 4 0.04
36 88 0.96
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (36 bp):
TCAATATCATTATCATGATCTCTATCACTATCAGCA
Found at i:119360 original size:30 final size:30
Alignment explanation
Indices: 119303--119361 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
119293 CATGATCTAT
*
119303 ATCTCTATCAGCATTAATATCATTATCATG
1 ATCTCTATCAGCATTAATATCAATATCATG
119333 ATCTCTATCA-CTATT-ATCATCAATATCAT
1 ATCTCTATCAGC-ATTAAT-ATCAATATCAT
119362 TATCATGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (30 bp):
ATCTCTATCAGCATTAATATCAATATCATG
Found at i:119704 original size:31 final size:31
Alignment explanation
Indices: 119655--119734 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
119645 ATCCATAGGC
* * * *
119655 CCCGAAGAACCTAGGTAAATTTTCCACATGT
1 CCCGAAGAACATAGGTAAACTATCCACATAT
** *
119686 CCCGTTGAACATAGGTAAACTATCCATATAT
1 CCCGAAGAACATAGGTAAACTATCCACATAT
119717 CCCGAAGAACATAGGTAA
1 CCCGAAGAACATAGGTAA
119735 CCCTCGACTC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (31 bp):
CCCGAAGAACATAGGTAAACTATCCACATAT
Found at i:120324 original size:21 final size:22
Alignment explanation
Indices: 120300--120345 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
120290 CTCCCGTAAC
120300 ATTTTT-CC-TATAACTTCATAT
1 ATTTTTACCATATAAC-TCATAT
*
120321 ATTTTTACCATATGACTCATAT
1 ATTTTTACCATATAACTCATAT
120343 ATT
1 ATT
120346 ATATATTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.30, C:0.17, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTTTTACCATATAACTCATAT
Found at i:123421 original size:21 final size:22
Alignment explanation
Indices: 123395--123437 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
123385 AATTTTTTTG
*
123395 GTCAAAGTTAAATG-TCAACGA
1 GTCAAAGTCAAATGATCAACGA
*
123416 GTCAAAGTCAATTGATCAACGA
1 GTCAAAGTCAAATGATCAACGA
123438 CTTGGTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (22 bp):
GTCAAAGTCAAATGATCAACGA
Found at i:124969 original size:18 final size:19
Alignment explanation
Indices: 124943--124980 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
124933 AAAATCGAAA
124943 AAAGAAAAAAATTAAAAAG
1 AAAGAAAAAAATTAAAAAG
124962 AAAG-AAAAAATTAAAAAG
1 AAAGAAAAAAATTAAAAAG
124980 A
1 A
124981 GCAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (19 bp):
AAAGAAAAAAATTAAAAAG
Found at i:124987 original size:18 final size:17
Alignment explanation
Indices: 124947--125006 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
124937 TCGAAAAAAG
124947 AAAAAAATTAAAAAGAA
1 AAAAAAATTAAAAAGAA
*
124964 AGAAAAAATTAAAAAGAG
1 A-AAAAAATTAAAAAGAA
*
124982 CAAAAAATTCAAAAA-AA
1 AAAAAAATT-AAAAAGAA
124999 AAATAAAA
1 AAA-AAAA
125007 AAACGATTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAAAAATTAAAAAGAA
Found at i:125944 original size:13 final size:13
Alignment explanation
Indices: 125926--125950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125916 AGTTTTTCTT
125926 CTTTTTACTTTAG
1 CTTTTTACTTTAG
125939 CTTTTTACTTTA
1 CTTTTTACTTTA
125951 TTTTCCTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.04, T:0.64
Consensus pattern (13 bp):
CTTTTTACTTTAG
Found at i:131061 original size:32 final size:32
Alignment explanation
Indices: 131025--131087 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
131015 ATCAAATATG
131025 ACACTATAATTCTAACATGACAAAATACGTTT
1 ACACTATAATTCTAACATGACAAAATACGTTT
131057 ACACTATAATTCTAACATGACAAAATACGTT
1 ACACTATAATTCTAACATGACAAAATACGTT
131088 CTCTGCCCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.30
Consensus pattern (32 bp):
ACACTATAATTCTAACATGACAAAATACGTTT
Found at i:132073 original size:34 final size:33
Alignment explanation
Indices: 132035--132104 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 33
132025 GATTAAAAAA
*
132035 ATAGAGAAAATAACTTCAATCACCAAAAATTCTT
1 ATAGAGAAAATAACCTCAATCACCAAAAA-TCTT
* *
132069 ATAGAGAAAATAACCTCATTGACCAAAAATCTT
1 ATAGAGAAAATAACCTCAATCACCAAAAATCTT
132102 ATA
1 ATA
132105 TAATATACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (33 bp):
ATAGAGAAAATAACCTCAATCACCAAAAATCTT
Found at i:132202 original size:20 final size:20
Alignment explanation
Indices: 132157--132202 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
132147 GACCAACAAA
*
132157 ATCGCAATGCGATCGCTAAT
1 ATCGCAACGCGATCGCTAAT
* *
132177 -TCGCAACGCGATCTCTATT
1 ATCGCAACGCGATCGCTAAT
132196 ATCGCAA
1 ATCGCAA
132203 ATCAGTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATCGCTAAT
Found at i:132321 original size:20 final size:20
Alignment explanation
Indices: 132298--132392 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
132288 GAATAAGTAA
*
132298 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
132318 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
132339 ATCGCAAAGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
132359 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
132379 ATCGTAACGAGATA
1 ATCGCAACGCGATA
132393 ATACAGAATC
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
19 2 0.03
20 41 0.69
21 14 0.24
22 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:132923 original size:20 final size:20
Alignment explanation
Indices: 132898--132976 Score: 140
Period size: 20 Copynumber: 4.0 Consensus size: 20
132888 CAACGGGGAA
*
132898 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGGCT
132918 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
132938 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
132958 ATCGCAACGAGAAAATGGC
1 ATCGCAACGCGAAAATGGC
132977 AATGCGAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:132925 original size:34 final size:34
Alignment explanation
Indices: 132879--132985 Score: 88
Period size: 40 Copynumber: 3.0 Consensus size: 34
132869 GACATTCATT
*
132879 TGACTATTGCAACGGGGAAATCGCAACGCGAAAA
1 TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
**
132913 TGACTATCGCAACGCGAAAATGGCTATCGCAACGCGAAAA
1 TGACTATCGCAACG-G-----GGAAATCGCAACGCGAAAA
* * * * *
132953 TGGCTATCGCAACGAGAAAATGGCAATGCGAAA
1 TGACTATCGCAACGGGGAAATCGCAACGCGAAA
132986 TGAAAATCGC
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
34 26 0.46
35 1 0.02
40 30 0.53
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.15
Consensus pattern (34 bp):
TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
Found at i:133033 original size:19 final size:19
Alignment explanation
Indices: 132992--133056 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
132982 GAAATGAAAA
132992 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
133008 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
133025 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
133044 TCGCATTGCGATT
1 TCGCATTGCGATT
133057 CTCTCATTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.25
16 3 0.07
17 3 0.07
19 27 0.61
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:134678 original size:40 final size:40
Alignment explanation
Indices: 134613--134729 Score: 101
Period size: 42 Copynumber: 2.8 Consensus size: 40
134603 GTGAATCGGG
* * * *
134613 CTCTGGAATGGTGGGAGGGACCTCTTCAATGATGA-CAGTGGC
1 CTCTTGAACGGTGGG-GGGA-CTCTTCAAGGATGATAAG-GGC
* *
134655 CTCTTGAACGGTGGGGGGACTCTTGAGGGATGATAAGGGC
1 CTCTTGAACGGTGGGGGGACTCTTCAAGGATGATAAGGGC
* * *
134695 CTCTTGAACGATTGGAGGGGACTCTTGAGGGATGA
1 CTCTTGAACG-GTGG-GGGGACTCTTCAAGGATGA
134730 CAGGTGAGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
40 24 0.37
41 9 0.14
42 32 0.49
ACGTcount: A:0.21, C:0.16, G:0.38, T:0.24
Consensus pattern (40 bp):
CTCTTGAACGGTGGGGGGACTCTTCAAGGATGATAAGGGC
Found at i:134727 original size:42 final size:40
Alignment explanation
Indices: 134652--134729 Score: 129
Period size: 42 Copynumber: 1.9 Consensus size: 40
134642 TGATGACAGT
134652 GGCCTCTTGAACGGTGGGGGGACTCTTGAGGGATGATAAG
1 GGCCTCTTGAACGGTGGGGGGACTCTTGAGGGATGATAAG
*
134692 GGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGATGA
1 GGCCTCTTGAACG-GTGG-GGGGACTCTTGAGGGATGA
134730 CAGGTGAGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 13 0.37
41 3 0.09
42 19 0.54
ACGTcount: A:0.21, C:0.15, G:0.41, T:0.23
Consensus pattern (40 bp):
GGCCTCTTGAACGGTGGGGGGACTCTTGAGGGATGATAAG
Found at i:135096 original size:20 final size:20
Alignment explanation
Indices: 135071--135123 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
135061 GAAGAATAGT
*
135071 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
135091 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
135111 TGACTATCGCAAC
1 TTACTTTCGCAAC
135124 GCGGAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:135124 original size:20 final size:20
Alignment explanation
Indices: 135077--135183 Score: 108
Period size: 20 Copynumber: 5.4 Consensus size: 20
135067 TAGTTTACTT
* * * *
135077 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
135097 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
135117 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* *
135137 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
135157 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
135176 TCGCAACG
1 TCGCAACG
135184 ACAAAATCGC
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
19 13 0.17
20 63 0.83
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:135191 original size:14 final size:14
Alignment explanation
Indices: 135172--135267 Score: 86
Period size: 14 Copynumber: 6.3 Consensus size: 14
135162 ATGCGAAATG
135172 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
135186 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
135205 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
135219 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
135235 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
135251 AAAATCGCAACG-C
1 AAAATCGCAACGAC
135264 AAAA
1 AAAA
135268 CACAAATCGC
Statistics
Matches: 69, Mismatches: 4, Indels: 19
0.75 0.04 0.21
Matches are distributed among these distances:
13 5 0.07
14 31 0.45
15 1 0.01
16 10 0.14
17 2 0.03
18 10 0.14
19 10 0.14
ACGTcount: A:0.50, C:0.23, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:135247 original size:32 final size:33
Alignment explanation
Indices: 135156--135260 Score: 203
Period size: 33 Copynumber: 3.2 Consensus size: 33
135146 GGAAATGGCT
135156 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
135189 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
135222 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
135254 ATCGCAA
1 ATCGCAA
135261 CGCAAAACAC
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
32 23 0.32
33 49 0.68
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:135275 original size:65 final size:66
Alignment explanation
Indices: 135156--135278 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 66
135146 GGAAATGGCT
* **
135156 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACGACAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAAACAAAATCGCAACGACAA
135221 A
66 A
135222 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATCGCAACGC-AAAACACAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAAACA-AAATCGCA
135279 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 4 0.08
65 33 0.62
66 16 0.30
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAAACAAAATCGCAACGACAA
A
Found at i:135296 original size:14 final size:14
Alignment explanation
Indices: 135279--135335 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
135269 ACAAATCGCA
135279 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
135293 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TGTCG
135310 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
135326 TTGCGATTTT
1 TTGCGATTTT
135336 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.17
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:135316 original size:33 final size:33
Alignment explanation
Indices: 135274--135351 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
135264 AAAACACAAA
135274 TCGCATTGCGATTTTGTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTGTCGTTGCGATTTTCATT
135307 TCGCATTGCGATTTTGTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTGTCGTTGCGATTTTCATT
135340 TCGCATTGCGAT
1 TCGCATTGCGAT
135352 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (33 bp):
TCGCATTGCGATTTTGTCGTTGCGATTTTCATT
Found at i:135317 original size:19 final size:19
Alignment explanation
Indices: 135293--135351 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
135283 GATTTTGTCG
135293 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
135312 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
135326 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
135345 TTGCGAT
1 TTGCGAT
135352 AGCCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 6 0.18
15 3 0.09
16 4 0.12
17 4 0.12
18 3 0.09
19 13 0.39
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:135370 original size:20 final size:19
Alignment explanation
Indices: 135336--135390 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
135326 TTGCGATTTT
*
135336 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
135355 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
135375 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
135391 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:135494 original size:6 final size:6
Alignment explanation
Indices: 135447--135477 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
135437 TTACTTCAAC
135447 CAAAAGA CAAAAA CAAAAA CAAAAA CAAAAA
1 CAAAA-A CAAAAA CAAAAA CAAAAA CAAAAA
135478 AAATACTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.81, C:0.16, G:0.03, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:135953 original size:18 final size:18
Alignment explanation
Indices: 135930--135977 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
135920 CGGGTCGATC
135930 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
135948 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
135966 AGGTGCTGGCTC
1 AGGTGATGGCTC
135978 CCGAAGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.12, C:0.15, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:136998 original size:64 final size:64
Alignment explanation
Indices: 136855--137080 Score: 233
Period size: 64 Copynumber: 3.5 Consensus size: 64
136845 TTATATGAAT
** * **
136855 GTGCATCGATGCATTGGTAGTGCATCGATGCA--CTATTTTTGAAATAAAGACATCGAATGCAAT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAAT--AATAAA-ACATCGAATGCAA-
136918 TC-
62 TCG
*
136920 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTAAAACATCGAATGCAATCG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* ** ** * ** *
136984 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATACTACATCGAATACCTTTG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* * *
137048 ATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCAT
137081 ACCTTCATTA
Statistics
Matches: 138, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
63 2 0.01
64 96 0.70
65 35 0.25
67 5 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
Found at i:137406 original size:12 final size:12
Alignment explanation
Indices: 137389--137435 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
137379 ATATATGTTC
*
137389 ATGTGATATGCT
1 ATGTGATATGAT
137401 ATGTGATATGAT
1 ATGTGATATGAT
*
137413 ATGTGATATGAC
1 ATGTGATATGAT
*
137425 CTGTGATATGA
1 ATGTGATATGA
137436 GAACATGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:137598 original size:15 final size:15
Alignment explanation
Indices: 137580--137687 Score: 162
Period size: 15 Copynumber: 7.2 Consensus size: 15
137570 GAAGGTATAA
* *
137580 TAGTCCTTTGGGATG
1 TAGTCCTTCGGGACG
*
137595 TAGTCCTTCGGAACG
1 TAGTCCTTCGGGACG
* *
137610 TAGTCCTTTGGGATG
1 TAGTCCTTCGGGACG
137625 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
137640 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
137655 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
137670 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
137685 TAG
1 TAG
137688 GAGTCCTACG
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 84 1.00
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.31
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:137616 original size:30 final size:30
Alignment explanation
Indices: 137580--137687 Score: 180
Period size: 30 Copynumber: 3.6 Consensus size: 30
137570 GAAGGTATAA
* *
137580 TAGTCCTTTGGGATGTAGTCCTTCGGAACG
1 TAGTCCTTCGGGATGTAGTCCTTCGGGACG
*
137610 TAGTCCTTTGGGATGTAGTCCTTCGGGACG
1 TAGTCCTTCGGGATGTAGTCCTTCGGGACG
*
137640 TAGTCCTTCGGGACGTAGTCCTTCGGGACG
1 TAGTCCTTCGGGATGTAGTCCTTCGGGACG
137670 TAGTCCTTCGGGATGTAG
1 TAGTCCTTCGGGATGTAG
137688 GAGTCCTACG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 74 1.00
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.31
Consensus pattern (30 bp):
TAGTCCTTCGGGATGTAGTCCTTCGGGACG
Found at i:144011 original size:64 final size:64
Alignment explanation
Indices: 143868--144093 Score: 233
Period size: 64 Copynumber: 3.5 Consensus size: 64
143858 TTATATGAAT
** * **
143868 GTGCATCGATGCATTGGTAGTGCATCGATGCA--CTATTTTTGAAATAAAGACATCGAATGCAAT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAAT--AATAAA-ACATCGAATGCAA-
143931 TC-
62 TCG
*
143933 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTAAAACATCGAATGCAATCG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* ** ** * ** *
143997 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATACTACATCGAATACCTTTG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* * *
144061 ATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCAT
144094 ACCTTCATTA
Statistics
Matches: 138, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
63 2 0.01
64 96 0.70
65 35 0.25
67 5 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
Found at i:144419 original size:12 final size:12
Alignment explanation
Indices: 144402--144448 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
144392 ATATATGTTC
*
144402 ATGTGATATGCT
1 ATGTGATATGAT
144414 ATGTGATATGAT
1 ATGTGATATGAT
*
144426 ATGTGATATGAC
1 ATGTGATATGAT
*
144438 CTGTGATATGA
1 ATGTGATATGA
144449 GAACATGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:144493 original size:29 final size:29
Alignment explanation
Indices: 144460--144537 Score: 149
Period size: 29 Copynumber: 2.7 Consensus size: 29
144450 AACATGATAT
144460 GAAATGACATGAGCTACATGATCACAAGA
1 GAAATGACATGAGCTACATGATCACAAGA
144489 GAAATGACATGAGCTACATGATCACAAGA
1 GAAATGACATGAGCTACATGATCACAAGA
144518 GAAATGACATGAG-TACATGA
1 GAAATGACATGAGCTACATGA
144538 ACATATGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.14
29 42 0.86
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (29 bp):
GAAATGACATGAGCTACATGATCACAAGA
Found at i:144640 original size:15 final size:15
Alignment explanation
Indices: 144622--144774 Score: 288
Period size: 15 Copynumber: 10.2 Consensus size: 15
144612 GAGGGTATAA
*
144622 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
144637 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
144652 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
144667 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
144682 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
144697 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
144712 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
144727 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
144742 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
144757 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
144772 TAG
1 TAG
144775 GAGTCCTACG
Statistics
Matches: 136, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
15 136 1.00
ACGTcount: A:0.14, C:0.25, G:0.33, T:0.28
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:146701 original size:20 final size:20
Alignment explanation
Indices: 146653--146710 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
146643 AATAGTTTCT
* *
146653 GAAAATGAAAATCGTAACAC
1 GAAAATGACAATCGCAACAC
146673 GAAAATGACAATCGCAACAC
1 GAAAATGACAATCGCAACAC
** *
146693 GAATTTGACTATCGCAAC
1 GAAAATGACAATCGCAAC
146711 GAGAGAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.17
Consensus pattern (20 bp):
GAAAATGACAATCGCAACAC
Found at i:147232 original size:20 final size:20
Alignment explanation
Indices: 147204--147317 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
147194 GATTATGTAT
*
147204 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
147224 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
147244 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
147264 TATCGCATTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
147285 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
147305 TATCGCATTGCGA
1 TATCGCGTTGCGA
147318 TTTTCCAAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 62 0.77
21 13 0.16
22 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:147321 original size:41 final size:41
Alignment explanation
Indices: 147184--147319 Score: 195
Period size: 41 Copynumber: 3.3 Consensus size: 41
147174 CGCTTTGAAA
*
147184 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * *
147225 ATCGCGTTGCGA--AAGTAAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* *
147265 ATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
147306 ATCGCATTGCGATT
1 ATCGCATTGCGATT
147320 TTCCAAATTT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.04
40 32 0.39
41 46 0.55
42 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:147337 original size:41 final size:41
Alignment explanation
Indices: 147184--147339 Score: 129
Period size: 41 Copynumber: 3.8 Consensus size: 41
147174 CGCTTTGAAA
* ** * * *
147184 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTAAATTATCGCATTGCGATAGTCAGT
* *** * * *
147225 ATCGCGTTGCGAAAGT-AAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTAAATTATCGCATTGCGATAGTCAGT
** *
147265 ATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTAAATTATCGCATTGCGATAGTCAGT
147306 ATCGCATTGCGATTTTCCAAATT-T-GCATTGCGAT
1 ATCGCATTGCGATTTT--AAATTATCGCATTGCGAT
147340 TTACTTATTC
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 33 0.35
41 58 0.61
42 1 0.01
43 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTTTAAATTATCGCATTGCGATAGTCAGT
Found at i:147355 original size:20 final size:21
Alignment explanation
Indices: 147307--147358 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
147297 ATAGTCAGTA
*
147307 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
* **
147328 TTGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
147348 TCGCATTGCGA
1 TCGCATTGCGA
147359 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:147400 original size:21 final size:22
Alignment explanation
Indices: 147348--147400 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
147338 ATTTACTTAT
147348 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
147369 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
147390 TCGCATTGCGA
1 TCGCATTGCGA
147401 TAGTAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:147775 original size:21 final size:20
Alignment explanation
Indices: 147749--147795 Score: 85
Period size: 21 Copynumber: 2.3 Consensus size: 20
147739 AGTCCAAAAT
147749 CATTGCGATAGCACTGTTCA
1 CATTGCGATAGCACTGTTCA
147769 CCATTGCGATAGCACTGTTCA
1 -CATTGCGATAGCACTGTTCA
147790 CATTGC
1 CATTGC
147796 AAATTTACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (20 bp):
CATTGCGATAGCACTGTTCA
Found at i:147972 original size:16 final size:17
Alignment explanation
Indices: 147945--147996 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
147935 TTTATTTATG
147945 ATAAACTATAAATTTTAA
1 ATAAA-TATAAATTTTAA
* *
147963 AT-AATATAAA-ATAAA
1 ATAAATATAAATTTTAA
*
147978 ATAAATATAATTTTTAA
1 ATAAATATAAATTTTAA
147995 AT
1 AT
147997 TATTTTATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
15 5 0.19
16 13 0.48
17 7 0.26
18 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAATATAAATTTTAA
Found at i:148315 original size:22 final size:22
Alignment explanation
Indices: 148259--148304 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
148249 CTTACAAAAA
* *
148259 TTGTTCAAGTTTTTATCTTATT
1 TTGTACAAATTTTTATCTTATT
*
148281 TTGTACAAATTTTTATCTTGTT
1 TTGTACAAATTTTTATCTTATT
148303 TT
1 TT
148305 TGTAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.63
Consensus pattern (22 bp):
TTGTACAAATTTTTATCTTATT
Found at i:148597 original size:21 final size:21
Alignment explanation
Indices: 148551--148632 Score: 141
Period size: 20 Copynumber: 4.0 Consensus size: 21
148541 AATTCGCAAT
*
148551 GTGAACAGTGCTATCGCAA-T
1 GTGAACAGTGCTATCGCAACG
148571 GTGAACAGTGCTATCGCAACG
1 GTGAACAGTGCTATCGCAACG
148592 GTGAACAGTGCTATCGCAACG
1 GTGAACAGTGCTATCGCAACG
148613 GTGAACAGT-CTATCGCAACG
1 GTGAACAGTGCTATCGCAACG
148633 CCAATTCGGA
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
20 30 0.50
21 30 0.50
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (21 bp):
GTGAACAGTGCTATCGCAACG
Found at i:148600 original size:41 final size:41
Alignment explanation
Indices: 148551--148632 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
148541 AATTCGCAAT
*
148551 GTGAACAGTGCTATCGCAA-TGTGAACAGTGCTATCGCAACG
1 GTGAACAGTGCTATCGCAACGGTGAACAGT-CTATCGCAACG
148592 GTGAACAGTGCTATCGCAACGGTGAACAGTCTATCGCAACG
1 GTGAACAGTGCTATCGCAACGGTGAACAGTCTATCGCAACG
148633 CCAATTCGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 30 0.77
42 9 0.23
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (41 bp):
GTGAACAGTGCTATCGCAACGGTGAACAGTCTATCGCAACG
Done.