Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001359.1 Hibiscus syriacus cultivar Beakdansim tig00002649_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: 183523
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 2
Found at i:8846 original size:2 final size:2
Alignment explanation
Indices: 8839--8878 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8829 ACCTTAAGTA
8839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8879 CTGCAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15559 original size:30 final size:31
Alignment explanation
Indices: 15493--15559 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
15483 TTATGTTTTG
* * *
15493 ATCATTTGTGTTATTCAACTATTAAATTTTA
1 ATCATTTATATTATTCAACTATTAAACTTTA
* * *
15524 GTCATTTATATTATT-AATTATTACACTTTA
1 ATCATTTATATTATTCAACTATTAAACTTTA
15554 ATCATT
1 ATCATT
15560 GAGTTATTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.52
Consensus pattern (31 bp):
ATCATTTATATTATTCAACTATTAAACTTTA
Found at i:15670 original size:29 final size:31
Alignment explanation
Indices: 15637--15706 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
15627 CATGAAATTC
**
15637 AGATAAAATACTATTTT-A-TCTTAATTTTT
1 AGATAAAATACTATTTTGATTCTTAAACTTT
*
15666 AGATAAAATATTATTTTGATTCTTAAACTTT
1 AGATAAAATACTATTTTGATTCTTAAACTTT
*
15697 AAATAAAATA
1 AGATAAAATA
15707 TCAATTTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.46
30 1 0.03
31 18 0.51
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (31 bp):
AGATAAAATACTATTTTGATTCTTAAACTTT
Found at i:15703 original size:31 final size:31
Alignment explanation
Indices: 15639--15716 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
15629 TGAAATTCAG
* ** *
15639 ATAAAATACTATTTT-A-TCTTAATTTTTAG
1 ATAAAATATTATTTTGATTCTTAAACTTTAA
15668 ATAAAATATTATTTTGATTCTTAAACTTTAA
1 ATAAAATATTATTTTGATTCTTAAACTTTAA
* *
15699 ATAAAATATCAATTTGAT
1 ATAAAATATTATTTTGAT
15717 CATTGAATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 14 0.34
30 1 0.02
31 26 0.63
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (31 bp):
ATAAAATATTATTTTGATTCTTAAACTTTAA
Found at i:16442 original size:31 final size:31
Alignment explanation
Indices: 16395--16454 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
16385 TTTTAAAAAT
16395 ATTTTGATCACTTACATTATTAATCTATTAAA
1 ATTTTGATCACTTACATTATTAAT-TATTAAA
* *
16427 ATTTTG-TCATTTACATTATTGATTATTA
1 ATTTTGATCACTTACATTATTAATTATTA
16455 TATTTTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 5 0.19
31 15 0.58
32 6 0.23
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (31 bp):
ATTTTGATCACTTACATTATTAATTATTAAA
Found at i:19439 original size:3 final size:3
Alignment explanation
Indices: 19431--19470 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
19421 GTCGACCTCA
19431 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19471 TCAATTATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:27114 original size:20 final size:20
Alignment explanation
Indices: 27085--27123 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27075 TTTCCACCAC
*
27085 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
27105 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
27124 TATGGGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:44145 original size:13 final size:13
Alignment explanation
Indices: 44127--44155 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
44117 GTAGTATCCG
44127 TTAATAATCTTTC
1 TTAATAATCTTTC
44140 TTAATAATCTTTC
1 TTAATAATCTTTC
44153 TTA
1 TTA
44156 GTCATTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATAATCTTTC
Found at i:51544 original size:17 final size:17
Alignment explanation
Indices: 51522--51571 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
51512 TCTACCCATT
51522 CATTTTCCCTAGTTAGC
1 CATTTTCCCTAGTTAGC
51539 CATTTT---TAG-T---
1 CATTTTCCCTAGTTAGC
51549 CATTTTCCCTAGTTAGC
1 CATTTTCCCTAGTTAGC
51566 CATTTT
1 CATTTT
51572 TTAGTCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 14
0.65 0.00 0.35
Matches are distributed among these distances:
10 6 0.23
13 4 0.15
14 4 0.15
17 12 0.46
ACGTcount: A:0.18, C:0.24, G:0.10, T:0.48
Consensus pattern (17 bp):
CATTTTCCCTAGTTAGC
Found at i:51551 original size:27 final size:28
Alignment explanation
Indices: 51521--51586 Score: 125
Period size: 27 Copynumber: 2.4 Consensus size: 28
51511 GTCTACCCAT
51521 TCATTTTCCCTAGTTAGCCA-TTTTTAG
1 TCATTTTCCCTAGTTAGCCATTTTTTAG
51548 TCATTTTCCCTAGTTAGCCATTTTTTAG
1 TCATTTTCCCTAGTTAGCCATTTTTTAG
51576 TCATTTTCCCT
1 TCATTTTCCCT
51587 TCTTTGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 20 0.53
28 18 0.47
ACGTcount: A:0.17, C:0.24, G:0.09, T:0.50
Consensus pattern (28 bp):
TCATTTTCCCTAGTTAGCCATTTTTTAG
Found at i:52913 original size:34 final size:34
Alignment explanation
Indices: 52870--52944 Score: 150
Period size: 34 Copynumber: 2.2 Consensus size: 34
52860 CTGTCTTGTC
52870 TCATTTACAGCCCTAATCATGCTTAGCTAAATTT
1 TCATTTACAGCCCTAATCATGCTTAGCTAAATTT
52904 TCATTTACAGCCCTAATCATGCTTAGCTAAATTT
1 TCATTTACAGCCCTAATCATGCTTAGCTAAATTT
52938 TCATTTA
1 TCATTTA
52945 GCCAAAGGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (34 bp):
TCATTTACAGCCCTAATCATGCTTAGCTAAATTT
Found at i:52956 original size:28 final size:32
Alignment explanation
Indices: 52870--52958 Score: 96
Period size: 34 Copynumber: 2.8 Consensus size: 32
52860 CTGTCTTGTC
*
52870 TCATTTACAGCCCTAATCATGCTTAGCTAAATTT
1 TCATTTA-AGCCCTAA-CAGGCTTAGCTAAATTT
*
52904 TCATTTACAGCCCTAATCATGCTTAGCTAAATTT
1 TCATTTA-AGCCCTAA-CAGGCTTAGCTAAATTT
52938 TCATTT-AG-CC-AA-AGGCTTAGC
1 TCATTTAAGCCCTAACAGGCTTAGC
52959 GATGACTCAA
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
28 8 0.15
30 2 0.04
31 2 0.04
32 2 0.04
34 40 0.74
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (32 bp):
TCATTTAAGCCCTAACAGGCTTAGCTAAATTT
Found at i:53878 original size:13 final size:13
Alignment explanation
Indices: 53860--53891 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
53850 GTCATAACCC
*
53860 GACCCGACCCGTT
1 GACCCGACCCATT
53873 GACCCGACCCATT
1 GACCCGACCCATT
53886 GACCCG
1 GACCCG
53892 TTGACTCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.47, G:0.22, T:0.12
Consensus pattern (13 bp):
GACCCGACCCATT
Found at i:56503 original size:24 final size:24
Alignment explanation
Indices: 56381--56499 Score: 145
Period size: 24 Copynumber: 5.0 Consensus size: 24
56371 TTTGATTTGA
56381 ATTCTGATCTGATACTT-ACCATGG
1 ATTCTGATCTGATACTTGACC-TGG
* *
56405 ATTCTGATATGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACCTGG
*
56429 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACCTGG
*
56453 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACCTGG
*
56476 ATTTCTGATATGATACTTGACCTG
1 A-TTCTGATCTGATACTTGACCTG
56500 ATTTATGTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
23 3 0.04
24 76 0.93
25 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:58598 original size:8 final size:8
Alignment explanation
Indices: 58585--58618 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
58575 TCATAACCCT
58585 ACCCGTTG
1 ACCCGTTG
58593 ACCCGTTG
1 ACCCGTTG
*
58601 ACTCGTTG
1 ACCCGTTG
58609 A-CCGTTG
1 ACCCGTTG
58616 ACC
1 ACC
58619 ATTGTTGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (8 bp):
ACCCGTTG
Found at i:58615 original size:15 final size:16
Alignment explanation
Indices: 58588--58617 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58578 TAACCCTACC
58588 CGTTGACCCGTTGACT
1 CGTTGACCCGTTGACT
58604 CGTTGA-CCGTTGAC
1 CGTTGACCCGTTGAC
58618 CATTGTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.30, G:0.27, T:0.30
Consensus pattern (16 bp):
CGTTGACCCGTTGACT
Found at i:61167 original size:24 final size:24
Alignment explanation
Indices: 61078--61169 Score: 125
Period size: 24 Copynumber: 3.8 Consensus size: 24
61068 TTTGATTTGA
61078 ATTCTGATCTGATACTT-ACCATGG
1 ATTCTGATCTGATACTTGA-CATGG
*
61102 ATTCTGATATGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
61126 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
61150 ATTCTGATCTGTTACTTGAC
1 ATTCTGATCTGATACTTGAC
61170 CTGATTTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
23 1 0.02
24 58 0.95
25 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:61181 original size:24 final size:24
Alignment explanation
Indices: 61079--61200 Score: 101
Period size: 24 Copynumber: 5.1 Consensus size: 24
61069 TTGATTTGAA
61079 TTCTGATCTGATACTT-ACCATGGA-
1 TTCTGATCTGATACTTGACC-T-GAT
* *
61103 TTCTGATATGATA-TCTGACATGGA-
1 TTCTGATCTGATACT-TGACCT-GAT
*
61127 TTCTGATCTGATACTTGACTTGGA-
1 TTCTGATCTGATACTTGACCT-GAT
*
61151 TTCTGATCTGTTACTTGACCTGAT
1 TTCTGATCTGATACTTGACCTGAT
* * *
61175 TTTTGATATGATGCTTGACCTGAT
1 TTCTGATCTGATACTTGACCTGAT
61199 TT
1 TT
61201 ATGTTTTGAT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
23 3 0.04
24 78 0.93
25 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACCTGAT
Found at i:63294 original size:8 final size:8
Alignment explanation
Indices: 63281--63314 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
63271 TCATAACCCT
63281 ACCCGTTG
1 ACCCGTTG
63289 ACCCGTTG
1 ACCCGTTG
*
63297 ACTCGTTG
1 ACCCGTTG
63305 A-CCGTTG
1 ACCCGTTG
63312 ACC
1 ACC
63315 ATTGTTGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (8 bp):
ACCCGTTG
Found at i:63311 original size:15 final size:16
Alignment explanation
Indices: 63284--63313 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
63274 TAACCCTACC
63284 CGTTGACCCGTTGACT
1 CGTTGACCCGTTGACT
63300 CGTTGA-CCGTTGAC
1 CGTTGACCCGTTGAC
63314 CATTGTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.30, G:0.27, T:0.30
Consensus pattern (16 bp):
CGTTGACCCGTTGACT
Found at i:65896 original size:24 final size:24
Alignment explanation
Indices: 65774--65892 Score: 145
Period size: 24 Copynumber: 5.0 Consensus size: 24
65764 TTTTATTTGA
65774 ATTCTGATCTGATACTT-ACCATGG
1 ATTCTGATCTGATACTTGACC-TGG
*
65798 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACCTGG
*
65822 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACCTGG
* *
65846 ATTCTGATATGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACCTGG
*
65869 ATTTCTGATATGATACTTGACCTG
1 A-TTCTGATCTGATACTTGACCTG
65893 ATTTAAGTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.04
24 78 0.93
25 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:65906 original size:24 final size:24
Alignment explanation
Indices: 65851--65899 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
65841 CTTGGATTCT
* **
65851 GATATGTTACTTGACCTGATTTCT
1 GATATGATACTTGACCTGATTTAA
65875 GATATGATACTTGACCTGATTTAA
1 GATATGATACTTGACCTGATTTAA
65899 G
1 G
65900 TTTTGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (24 bp):
GATATGATACTTGACCTGATTTAA
Found at i:67990 original size:8 final size:8
Alignment explanation
Indices: 67977--68010 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
67967 TCATAACCCT
67977 ACCCGTTG
1 ACCCGTTG
67985 ACCCGTTG
1 ACCCGTTG
*
67993 ACTCGTTG
1 ACCCGTTG
68001 A-CCGTTG
1 ACCCGTTG
68008 ACC
1 ACC
68011 ATTGTGGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (8 bp):
ACCCGTTG
Found at i:68007 original size:15 final size:16
Alignment explanation
Indices: 67980--68009 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
67970 TAACCCTACC
67980 CGTTGACCCGTTGACT
1 CGTTGACCCGTTGACT
67996 CGTTGA-CCGTTGAC
1 CGTTGACCCGTTGAC
68010 CATTGTGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.30, G:0.27, T:0.30
Consensus pattern (16 bp):
CGTTGACCCGTTGACT
Found at i:70591 original size:24 final size:24
Alignment explanation
Indices: 70469--70587 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
70459 TTTTATTTGA
70469 ATTCTGATCTGATACTT-ACCATGG
1 ATTCTGATCTGATACTTGACC-TGG
*
70493 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACCTGG
*
70517 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACCTGG
*
70541 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACCTGG
*
70564 ATTTCTGATATGATACTTGACCTG
1 A-TTCTGATCTGATACTTGACCTG
70588 ATTTAAGTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.04
24 78 0.93
25 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:72686 original size:8 final size:8
Alignment explanation
Indices: 72673--72706 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
72663 TCATAACCCT
72673 ACCCGTTG
1 ACCCGTTG
72681 ACCCGTTG
1 ACCCGTTG
*
72689 ACTCGTTG
1 ACCCGTTG
72697 A-CCGTTG
1 ACCCGTTG
72704 ACC
1 ACC
72707 ATTGTGGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (8 bp):
ACCCGTTG
Found at i:72703 original size:15 final size:16
Alignment explanation
Indices: 72676--72705 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
72666 TAACCCTACC
72676 CGTTGACCCGTTGACT
1 CGTTGACCCGTTGACT
72692 CGTTGA-CCGTTGAC
1 CGTTGACCCGTTGAC
72706 CATTGTGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.30, G:0.27, T:0.30
Consensus pattern (16 bp):
CGTTGACCCGTTGACT
Found at i:75288 original size:24 final size:24
Alignment explanation
Indices: 75166--75284 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
75156 TTTTATTTGA
75166 ATTCTGATCTGATACTT-ACCATGG
1 ATTCTGATCTGATACTTGACC-TGG
*
75190 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACCTGG
*
75214 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACCTGG
*
75238 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACCTGG
*
75261 ATTTCTGATATGATACTTGACCTG
1 A-TTCTGATCTGATACTTGACCTG
75285 ATTTAAGTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.04
24 78 0.93
25 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:77380 original size:8 final size:8
Alignment explanation
Indices: 77367--77400 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
77357 TCATAACCCT
77367 ACCCGTTG
1 ACCCGTTG
77375 ACCCGTTG
1 ACCCGTTG
*
77383 ACTCGTTG
1 ACCCGTTG
77391 A-CCGTTG
1 ACCCGTTG
77398 ACC
1 ACC
77401 ATTGTGGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (8 bp):
ACCCGTTG
Found at i:77397 original size:15 final size:16
Alignment explanation
Indices: 77370--77399 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77360 TAACCCTACC
77370 CGTTGACCCGTTGACT
1 CGTTGACCCGTTGACT
77386 CGTTGA-CCGTTGAC
1 CGTTGACCCGTTGAC
77400 CATTGTGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.30, G:0.27, T:0.30
Consensus pattern (16 bp):
CGTTGACCCGTTGACT
Found at i:79982 original size:24 final size:24
Alignment explanation
Indices: 79860--79978 Score: 136
Period size: 24 Copynumber: 5.0 Consensus size: 24
79850 TTTGATTTGA
79860 ATTCTGATCTGATACTT-ACCATGG
1 ATTCTGATCTGATACTTGACC-TGG
* **
79884 ATTCTGATATGATA-TCTGATATGG
1 ATTCTGATCTGATACT-TGACCTGG
*
79908 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACCTGG
*
79932 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACCTGG
*
79955 ATTTCTGATATGATACTTGACCTG
1 A-TTCTGATCTGATACTTGACCTG
79979 ATTTATGTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
23 3 0.04
24 75 0.94
25 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:82078 original size:8 final size:8
Alignment explanation
Indices: 82065--82098 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
82055 TCATAACCCT
82065 ACCCGTTG
1 ACCCGTTG
82073 ACCCGTTG
1 ACCCGTTG
*
82081 ACTCGTTG
1 ACCCGTTG
82089 A-CCGTTG
1 ACCCGTTG
82096 ACC
1 ACC
82099 ATTGTTGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (8 bp):
ACCCGTTG
Found at i:82095 original size:15 final size:16
Alignment explanation
Indices: 82068--82097 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
82058 TAACCCTACC
82068 CGTTGACCCGTTGACT
1 CGTTGACCCGTTGACT
82084 CGTTGA-CCGTTGAC
1 CGTTGACCCGTTGAC
82098 CATTGTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.30, G:0.27, T:0.30
Consensus pattern (16 bp):
CGTTGACCCGTTGACT
Found at i:84682 original size:24 final size:24
Alignment explanation
Indices: 84564--84675 Score: 138
Period size: 24 Copynumber: 4.7 Consensus size: 24
84554 ATTTGAATTT
84564 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACATGGATTC
*
84588 TGATTTGATA-TCTGACATGGATTC
1 TGATCTGATACT-TGACATGGATTC
* *
84612 TGATCTGATACTTGACTTGGATTA
1 TGATCTGATACTTGACATGGATTC
* *
84636 TGATCTGTTACTTGACCT-GATTTC
1 TGATCTGATACTTGACATGGA-TTC
*
84660 TGATATGATACTTGAC
1 TGATCTGATACTTGAC
84676 CTGATTTATG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
23 3 0.04
24 72 0.95
25 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTC
Found at i:84698 original size:24 final size:24
Alignment explanation
Indices: 84612--84685 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
84602 ACATGGATTC
* *
84612 TGATCTGATACTTGACTTGGA-TTA
1 TGATATGATACTTGACCT-GATTTA
* * *
84636 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
84660 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
84684 TG
1 TG
84686 TTTTGATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.05
24 41 0.95
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:87088 original size:21 final size:21
Alignment explanation
Indices: 87064--87103 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
87054 TTAAAAAGTA
87064 AAAAATAAAAATATTTTTATT
1 AAAAATAAAAATATTTTTATT
*
87085 AAAAATAAATATATTTTTA
1 AAAAATAAAAATATTTTTA
87104 AAAACCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAATAAAAATATTTTTATT
Found at i:87096 original size:19 final size:18
Alignment explanation
Indices: 87072--87107 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
87062 TAAAAAATAA
*
87072 AAATATTTTTATTAAAAAT
1 AAATATATTT-TTAAAAAT
87091 AAATATATTTTTAAAAA
1 AAATATATTTTTAAAAA
87108 CCTTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATATTTTTAAAAAT
Found at i:87499 original size:16 final size:18
Alignment explanation
Indices: 87473--87505 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
87463 CAGGGTTTAT
87473 TTTGTGATTTTT-TAAAC
1 TTTGTGATTTTTATAAAC
87490 TTTG-GATTTTTATAAA
1 TTTGTGATTTTTATAAA
87506 TAAATTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (18 bp):
TTTGTGATTTTTATAAAC
Found at i:88266 original size:37 final size:36
Alignment explanation
Indices: 88221--88647 Score: 530
Period size: 37 Copynumber: 11.6 Consensus size: 36
88211 AAAAATCGGC
88221 TTTT-AAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAACA
* *
88257 TTTTGAAAATATATATAATATATAATTTTTGAAAATA
1 TTTTGAAAATATATATAATATAT-AGTTTTGAAAACA
88294 TTTTG--AATATATATAATATATAGCTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAACA
88329 TTTTGAAAACT-TATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAA-TATATATAATATATAG-TTTTGAAAACA
*
88366 TTTTGAAAACT-TATAAAATATATAGTTTTGAAAACA
1 TTTTGAAAA-TATATATAATATATAGTTTTGAAAACA
88402 TTTTTGAAAACT-TATATAATATATAGTTTTTGAAAACA
1 -TTTTGAAAA-TATATATAATATATAG-TTTTGAAAACA
88440 TTTTGAAAACT-TATATAATATATAGTTTTGAAAACA
1 TTTTGAAAA-TATATATAATATATAGTTTTGAAAACA
*
88476 TTTTTGAAAACATATATAATATATAGTTTTGAAAACA
1 -TTTTGAAAATATATATAATATATAGTTTTGAAAACA
*
88513 TTTTTGAAAACATATATAATATATAGTTTTGAAAACA
1 -TTTTGAAAATATATATAATATATAGTTTTGAAAACA
*
88550 TTTT-AATATATATATATATATATAATAGTTTT-AAAATA
1 TTTTGAA-A-ATATATATA-ATAT-ATAGTTTTGAAAACA
* * * * *
88588 TTTTTGAAAAAATAAATATTATATAGTTTTGGAAATA
1 -TTTTGAAAATATATATAATATATAGTTTTGAAAACA
*
88625 TTTTGAAAATATATGTAATATAT
1 TTTTGAAAATATATATAATATAT
88648 TATTATTATT
Statistics
Matches: 356, Mismatches: 18, Indels: 34
0.87 0.04 0.08
Matches are distributed among these distances:
34 1 0.00
35 33 0.09
36 58 0.16
37 220 0.62
38 29 0.08
39 13 0.04
40 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACA
Found at i:88563 original size:26 final size:25
Alignment explanation
Indices: 88514--88561 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
88504 TTGAAAACAT
88514 TTTTGAAAACATATATAATATATAG
1 TTTTGAAAACATATATAATATATAG
*
88539 TTTTGAAAACAT-TTTAATATATA
1 TTTTGAAAACATATATAATATATA
88562 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (25 bp):
TTTTGAAAACATATATAATATATAG
Found at i:88683 original size:23 final size:23
Alignment explanation
Indices: 88653--88706 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
88643 TATATTATTA
88653 TTATTATTAATATT-TGTTTTTAT
1 TTATTATT-ATATTATGTTTTTAT
*
88676 TTATTATTTTATTAATGTTTTTAT
1 TTATTATTATATT-ATGTTTTTAT
88700 TT-TTATT
1 TTATTATT
88707 TTTTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 4 0.14
23 13 0.46
24 11 0.39
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (23 bp):
TTATTATTATATTATGTTTTTAT
Found at i:88685 original size:12 final size:11
Alignment explanation
Indices: 88669--88724 Score: 53
Period size: 12 Copynumber: 5.0 Consensus size: 11
88659 TTAATATTTG
88669 TTTTTATTTAT
1 TTTTTATTTAT
*
88680 TATTTTATTAAT
1 T-TTTTATTTAT
88692 GTTTTTATTT-T
1 -TTTTTATTTAT
*
88703 TATTTTTTTTAT
1 T-TTTTATTTAT
88715 TTTTT-TTTAT
1 TTTTTATTTAT
88725 GTCCAATAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.16
11 13 0.34
12 18 0.47
13 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:88713 original size:15 final size:14
Alignment explanation
Indices: 88693--88722 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
88683 TTTATTAATG
88693 TTTTTATTTTTATTT
1 TTTTTATTTTT-TTT
88708 TTTTTATTTTTTTT
1 TTTTTATTTTTTTT
88722 T
1 T
88723 ATGTCCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTATTTTTTTT
Found at i:88719 original size:23 final size:24
Alignment explanation
Indices: 88667--88724 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
88657 TATTAATATT
88667 TGTTTTTATTTATTATTTTATTAA
1 TGTTTTTATTTATTATTTTATTAA
* *
88691 TGTTTTTATTT-TTATTTTTTTTA
1 TGTTTTTATTTATTATTTTATTAA
88714 T-TTTTT-TTTAT
1 TGTTTTTATTTAT
88725 GTCCAATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 3 0.10
22 6 0.19
23 11 0.35
24 11 0.35
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.79
Consensus pattern (24 bp):
TGTTTTTATTTATTATTTTATTAA
Found at i:89980 original size:18 final size:17
Alignment explanation
Indices: 89937--90004 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 17
89927 TTTCATTTTG
*
89937 TTTTATT-TTTTTTTCT
1 TTTTATTATTTTTTTCA
*
89953 TTTTA-CATTTTTTTACA
1 TTTTATTATTTTTTT-CA
*
89970 TTTTATTATTTTTATT-G
1 TTTTATTATTTTT-TTCA
89987 TTTTATTTTATTTTTTTC
1 TTTTA--TTATTTTTTTC
90005 CTGAAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
16 12 0.29
17 11 0.27
18 8 0.20
19 10 0.24
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (17 bp):
TTTTATTATTTTTTTCA
Found at i:97564 original size:13 final size:13
Alignment explanation
Indices: 97546--97570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97536 AAATGAATTA
97546 TCTGCAAAGGACC
1 TCTGCAAAGGACC
97559 TCTGCAAAGGAC
1 TCTGCAAAGGAC
97571 AAAAAGTAGA
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:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (13 bp):
TCTGCAAAGGACC
Found at i:102470 original size:18 final size:18
Alignment explanation
Indices: 102430--102496 Score: 127
Period size: 18 Copynumber: 3.8 Consensus size: 18
102420 TGAATATGAA
102430 TATCAGACTTGTCAGGA-
1 TATCAGACTTGTCAGGAG
102447 TATCAGACTTGTCAGGAG
1 TATCAGACTTGTCAGGAG
102465 TATCAGACTTGTCAGGAG
1 TATCAGACTTGTCAGGAG
102483 TATCAGACTTGTCA
1 TATCAGACTTGTCA
102497 AGACCACCAG
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 17 0.35
18 32 0.65
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (18 bp):
TATCAGACTTGTCAGGAG
Found at i:102508 original size:36 final size:35
Alignment explanation
Indices: 102433--102510 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 35
102423 ATATGAATAT
* ** *
102433 CAGACTTGTCAGGATATCAGACTTGTCAGGAGTAT
1 CAGACTTGTCAGGATATCAGACTTGTCAAGACCAC
102468 CAGACTTGTCAGGAGTATCAGACTTGTCAAGACCAC
1 CAGACTTGTCAGGA-TATCAGACTTGTCAAGACCAC
102504 CAGACTT
1 CAGACTT
102511 AGCCCATCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
35 14 0.37
36 24 0.63
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (35 bp):
CAGACTTGTCAGGATATCAGACTTGTCAAGACCAC
Found at i:102763 original size:29 final size:29
Alignment explanation
Indices: 102694--102756 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
102684 GCCCCTAATT
* * *
102694 TTTTTTGTATTTATAATTAGGGCCTTCAA
1 TTTTTTATATTTATAATTAAGGCCCTCAA
102723 TTTTTTATATTTATAATTAAGGCTCCT-AA
1 TTTTTTATATTTATAATTAAGGC-CCTCAA
102752 TTTTT
1 TTTTT
102757 ATAATTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.56
Consensus pattern (29 bp):
TTTTTTATATTTATAATTAAGGCCCTCAA
Found at i:102911 original size:116 final size:117
Alignment explanation
Indices: 102722--102962 Score: 346
Period size: 116 Copynumber: 2.1 Consensus size: 117
102712 AGGGCCTTCA
*
102722 ATTTTTTATATTTATAATTAAGGCTCCTAATTTTTATAATTTCATAAAAATTTTAGTTTTTAACC
1 ATTTTTTATATTTATAATTAAGGCTCCTAATTTTTATAAGTTCATAAAAATTTTAGTTTTTAACC
* *
102787 CTCTTTTTCCATTTCTCTTA-TAATTCATCCAATTTTTAATTAAATTTAACC
66 CTCTTTTTCCATTTATCTTATTAATTCATCCAATTTTGAATTAAATTTAACC
* *
102838 ATTTTTTATATTTATAATT-AGGAC-CTCTAATTTTTATAAGTTCAT-AACATGTTTAGTTTTTT
1 ATTTTTTATATTTATAATTAAGG-CTC-CTAATTTTTATAAGTTCATAAAAAT-TTTAGTTTTTA
* * *
102900 ACCCTCTTTTTCCATTTATCTTATTTATTCATTCAATTTTGAATTAAATTTAATC
63 ACCCTCTTTTTCCATTTATCTTATTAATTCATCCAATTTTGAATTAAATTTAACC
102955 ATATTTTT
1 AT-TTTTT
102963 CTCTTTTTTT
Statistics
Matches: 112, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
115 8 0.07
116 70 0.62
117 29 0.26
118 5 0.04
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.54
Consensus pattern (117 bp):
ATTTTTTATATTTATAATTAAGGCTCCTAATTTTTATAAGTTCATAAAAATTTTAGTTTTTAACC
CTCTTTTTCCATTTATCTTATTAATTCATCCAATTTTGAATTAAATTTAACC
Found at i:105747 original size:19 final size:19
Alignment explanation
Indices: 105706--105753 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
105696 ATTATCTATT
* *
105706 ATTTTATATTAATTTATAC
1 ATTTAATATTAATTAATAC
105725 ATTTAATATTAATATAATA-
1 ATTTAATATTAAT-TAATAC
*
105744 ATTTAGTATT
1 ATTTAATATT
105754 GTGTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTTAATATTAATTAATAC
Found at i:106052 original size:14 final size:14
Alignment explanation
Indices: 106006--106054 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
105996 AAATGTAATT
*
106006 CATTTTACCTAAAA
1 CATTTTACGTAAAA
* **
106020 CAGTTTTAGGTAATT
1 CA-TTTTACGTAAAA
106035 CATTTTACGTAAAA
1 CATTTTACGTAAAA
106049 CATTTT
1 CATTTT
106055 TCATGTAATT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (14 bp):
CATTTTACGTAAAA
Found at i:106070 original size:30 final size:30
Alignment explanation
Indices: 105998--106107 Score: 132
Period size: 30 Copynumber: 3.7 Consensus size: 30
105988 TTCCTAGAAA
* *
105998 ATGTAATTCATTTTACCTAAAACAGTTTT-
1 ATGTAATTCATTTTACATAAAACAATTTTC
* * *
106027 AGGTAATTCATTTTACGTAAAACATTTTTC
1 ATGTAATTCATTTTACATAAAACAATTTTC
*
106057 ATGTAATTTATTTTACATAAAACAATTTTC
1 ATGTAATTCATTTTACATAAAACAATTTTC
** *
106087 AAATAATTCATTTTATATAAA
1 ATGTAATTCATTTTACATAAA
106108 TTATTTTCCA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 26 0.38
30 43 0.62
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (30 bp):
ATGTAATTCATTTTACATAAAACAATTTTC
Found at i:107183 original size:30 final size:30
Alignment explanation
Indices: 107115--107184 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
107105 TTAAGGACTA
107115 AAATGTAAAAAAAAATAAAGTCTAGGGACCT
1 AAATGT-AAAAAAAATAAAGTCTAGGGACCT
* * *
107146 AAGTGTAAAAAATATAAATTCTAGGGACC-
1 AAATGTAAAAAAAATAAAGTCTAGGGACCT
107175 AATATGTAAA
1 AA-ATGTAAA
107185 TAATTTAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.06
30 27 0.79
31 5 0.15
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.23
Consensus pattern (30 bp):
AAATGTAAAAAAAATAAAGTCTAGGGACCT
Found at i:109006 original size:44 final size:42
Alignment explanation
Indices: 108958--109039 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 42
108948 AAGACGATGA
*
108958 TGATCCAACTTCTTATATGATGGAATCGAGCAAAGTGTTGGTGT
1 TGATCCAACTTCTTACATGAT-GAATCGAGCAAAG-GTTGGTGT
* *
109002 TGATCTAACTTCTTACATGATGAATCGAGCTAAGGTTG
1 TGATCCAACTTCTTACATGATGAATCGAGCAAAGGTTG
109040 AACAAATTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 4 0.11
43 12 0.34
44 19 0.54
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (42 bp):
TGATCCAACTTCTTACATGATGAATCGAGCAAAGGTTGGTGT
Found at i:109215 original size:163 final size:166
Alignment explanation
Indices: 108879--109227 Score: 408
Period size: 165 Copynumber: 2.1 Consensus size: 166
108869 TCCTCGAATG
*
108879 AGTTCTTCTCATTATGAAC-TCTCCACTGGAAATGTTGATCCACCTTCTTCTGTGATGAAATCAA
1 AGTTCTTCTCATTATGAACTTCTCCACTGAAAATGTTGATCCACCTTCTTCTGTGATGAAATCAA
* * ** *
108943 GCGAAAAGACGATGATGATCCAACTTCTTATATGATGGAATCGAGCAAAGTGTTGGTGTTGATCT
66 GCGAAAAGACGATGATGATCCAACTCCTTATACGATGGAATCGAGCAAAGTGTCAGTGTTGATCC
*
109008 AACTTCTTACATGATGAATCGAGCTAAGGTTGAACA
131 AACTCCTTACATGATGAATCGAGCTAAGGTTGAACA
* * * * * * * *
109044 AATTCTTCTCATTATGAACTTCTTCATTGAAAATGTTGATCCACC-TCTTTTTTTATGGATTCGA
1 AGTTCTTCTCATTATGAACTTCTCCACTGAAAATGTTGATCCACCTTCTTCTGTGATGAAATC-A
* * * * *
109108 A-C-AAAGTGATGATGTTGATCCAACTCCTTATGCGATGG-AT-GAGCCAAG-GTCAGTGTT-AT
65 AGCGAAA-AGACGATGATGATCCAACTCCTTATACGATGGAATCGAGCAAAGTGTCAGTGTTGA-
**
109167 TCCAACTCCTTATGTGATGGAATCGAGCTAAGGTTGAACA
128 TCCAACTCCTTACATGAT-GAATCGAGCTAAGGTTGAACA
109207 AGTTCTTCTCATTATGAACTT
1 AGTTCTTCTCATTATGAACTT
109228 TTTCTCCCTC
Statistics
Matches: 156, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
161 1 0.01
162 21 0.13
163 48 0.31
164 5 0.03
165 57 0.37
166 24 0.15
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (166 bp):
AGTTCTTCTCATTATGAACTTCTCCACTGAAAATGTTGATCCACCTTCTTCTGTGATGAAATCAA
GCGAAAAGACGATGATGATCCAACTCCTTATACGATGGAATCGAGCAAAGTGTCAGTGTTGATCC
AACTCCTTACATGATGAATCGAGCTAAGGTTGAACA
Found at i:109552 original size:283 final size:283
Alignment explanation
Indices: 109036--109962 Score: 1378
Period size: 283 Copynumber: 3.3 Consensus size: 283
109026 TCGAGCTAAG
* * * * *
109036 GTTGAACAAATTCTTCTCATTATGAACTTCTTCATTGAAAATGTTGATCCACCT-CTTTTTTTAT
1 GTTGAACAAATTCTTCTCATTAGGAACTTCTTCATTGGAAATGTTGATCCACCTCCTTCTGTGAT
* * * *
109100 GGATTCGAACAAAGTGATGATGTTGATCCAACTCCTTATGCGATGGATGAGCCAAGGTCAGTGTT
66 GGATTCGAACAAAGTGATGATGTTGATCCAGCTTCTTATGCGATGGATGAGCCAAGGTCGGTGAT
* * *
109165 ATTCCAACTCCTTATGTGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTTT
131 GTTCCAACTTCTTATGTGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCT
* * * * *
109230 TCTCCCTCATCGGATGAGTTCTTCTCATTATGAACCCTTCTATTGAAAATGTTGATCCACCTTAT
196 TCTCCCTCATCGGATGAGTTCTTCTCATTATAAACCCTTCTATTGGAAATATTGATCTACCTCAT
**
109295 TCTTTGATGGAATCGAGTGAAA-
261 TCAGTGATGGAATCGAGTGAAAT
* *
109317 GATGGAACAAGTTCTTCTCATTAGGAACTTCTTCATTGGAAATGTTGATCCACCTCCTTCTGTGA
1 G-TTGAACAAATTCTTCTCATTAGGAACTTCTTCATTGGAAATGTTGATCCACCTCCTTCTGTGA
* *
109382 TGGATTTGAACAAAGTGATGATGTTGATCCAGCTTTTTATGCGATGGATGAGCCAAGGTCGGTGA
65 TGGATTCGAACAAAGTGATGATGTTGATCCAGCTTCTTATGCGATGGATGAGCCAAGGTCGGTGA
* * *
109447 TGCTT-CAACTTCTTATGTGATGGAATCGAGCTAAGATTGAACAAGTTCTTCTTATTATAAACTT
130 TG-TTCCAACTTCTTATGTGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTT
*
109511 CTTCTCCCTCATCGGATGAGTTCTTCTCATTATAAACCCTTCCATTGGAAATATTGATCTACCTC
194 CTTCTCCCTCATCGGATGAGTTCTTCTCATTATAAACCCTTCTATTGGAAATATTGATCTACCTC
* *
109576 ATTCAGTGATGAAATCGGGTGAAAT
259 ATTCAGTGATGGAATCGAGTGAAAT
* * * * *
109601 GTTGAACCAGTTCTTCTCATTAGGAACTTTTTCATTGGAAATGTTAATCCACCTCCTTCTATGAT
1 GTTGAACAAATTCTTCTCATTAGGAACTTCTTCATTGGAAATGTTGATCCACCTCCTTCTGTGAT
* *
109666 GGATTCGAACAAAGTGATGATGTTGATCCAGCTTCTTATGCGATGGATGAACCAAGGTCGATGAT
66 GGATTCGAACAAAGTGATGATGTTGATCCAGCTTCTTATGCGATGGATGAGCCAAGGTCGGTGAT
*
109731 GTTCCAATTTCTTATGTGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCT
131 GTTCCAACTTCTTATGTGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCT
* *
109796 TCTCCCTCATCGAATGAGTTCTTCTCATTACAAACCCTT-TCATTGGAAATATTGATCTACCTCA
196 TCTCCCTCATCGGATGAGTTCTTCTCATTATAAACCCTTCT-ATTGGAAATATTGATCTACCTCA
109860 TTCAGTGATGGAATCGAGTGAAAT
260 TTCAGTGATGGAATCGAGTGAAAT
* * * *
109884 GTTGAAAAAATTCTTTTCATTATGAATTTAC-TCATTGGAAATGTTGATCCACCTCCTTCTGTGA
1 GTTGAACAAATTCTTCTCATTAGGAACTT-CTTCATTGGAAATGTTGATCCACCTCCTTCTGTGA
* *
109948 TGGAATCGAATAAAG
65 TGGATTCGAACAAAG
109963 GTTGAACAAG
Statistics
Matches: 581, Mismatches: 58, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
281 1 0.00
282 51 0.09
283 526 0.91
284 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (283 bp):
GTTGAACAAATTCTTCTCATTAGGAACTTCTTCATTGGAAATGTTGATCCACCTCCTTCTGTGAT
GGATTCGAACAAAGTGATGATGTTGATCCAGCTTCTTATGCGATGGATGAGCCAAGGTCGGTGAT
GTTCCAACTTCTTATGTGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCT
TCTCCCTCATCGGATGAGTTCTTCTCATTATAAACCCTTCTATTGGAAATATTGATCTACCTCAT
TCAGTGATGGAATCGAGTGAAAT
Found at i:110587 original size:37 final size:37
Alignment explanation
Indices: 110537--110610 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
110527 TTCTAGGGAG
110537 ACAATCCTAAGAATAACTCAAACAACATTCCAGAAAA
1 ACAATCCTAAGAATAACTCAAACAACATTCCAGAAAA
* * **
110574 ACAATCTTAAGAATGACTCAAACAATTTTCCAGAAAA
1 ACAATCCTAAGAATAACTCAAACAACATTCCAGAAAA
110611 GTGATCATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.51, C:0.22, G:0.07, T:0.20
Consensus pattern (37 bp):
ACAATCCTAAGAATAACTCAAACAACATTCCAGAAAA
Found at i:111579 original size:55 final size:55
Alignment explanation
Indices: 111496--111935 Score: 350
Period size: 54 Copynumber: 8.1 Consensus size: 55
111486 TTACAGTTAT
* * * *
111496 CATCAAGAAACCCCT-AAAAATTAGGCTTAGTTTCTTT-AAAGATTCTTTTGAAAA
1 CATCAAAAAAACCCTGAAAAATTAGGCTTAGCTTCTTTCAAA-ATTCATTTGAAAA
* * * * *
111550 TATCAAAAAAACCCTGAAAAATCAAGCTTAGCTTTTTTCAAAATTAATTTGAAAA
1 CATCAAAAAAACCCTGAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* * * *
111605 CAT-AAAGAACCCCTTAAAAATTAGGCTTAGCTTCTTTCAAAATTTATTTGAAAA
1 CATCAAAAAAACCCTGAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* *
111659 CAT-AAAGAAACTCCTG-AAAATTAGGGTTAGCTTCTTTCAAAATTCATTTGAAAA
1 CATCAAAAAAAC-CCTGAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* * * * * * *
111713 CTTC-AAGAAACACATGAAAAATCAAGCTTAGGTCCTTTCAAAATTCATTTGAAAA
1 CATCAAAAAAAC-CCTGAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* * * *
111768 CATC-AAAATACCCT-ATATATTAGGCTTAACTTCTTTCAAAATTCATTTGAAAA
1 CATCAAAAAAACCCTGAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* * * * *
111821 CATC-AAGAAACCCTTG-AAAATCAGTCTTAGC-TCATTTGAAAAATCA-TTGAAAA
1 CATCAAAAAAACCC-TGAAAAATTAGGCTTAGCTTC-TTTCAAAATTCATTTGAAAA
* * * ** * *
111874 AATCATCAAGAAACTTCC--AAAAATCAAACTTAGCTCCTTTAAAAATTCATTTGAAAA
1 CATCA--AAAAAAC--CCTGAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
*
111931 TATCA
1 CATCA
111936 TATTGGGTAA
Statistics
Matches: 314, Mismatches: 56, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
53 55 0.18
54 137 0.44
55 75 0.24
56 33 0.11
57 12 0.04
58 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (55 bp):
CATCAAAAAAACCCTGAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
Found at i:111721 original size:108 final size:108
Alignment explanation
Indices: 111496--111852 Score: 395
Period size: 108 Copynumber: 3.3 Consensus size: 108
111486 TTACAGTTAT
* * *
111496 CATCAAGAAACCCC-TAAAAATTAGGCTTAGTTTCTTT-AAAGATTCT-TTTGAAAATATCAAAA
1 CATCAAGAAACCCCTTAAAAATCAGGCTTAGCTTCTTTCAAA-ATT-TATTTGAAAACATC-AAA
* * * *
111558 AAACCCTGAAAAATCAAGCTTAGCTTTTTTCAAAATTAATTTGAAAA
63 AAACCCTG-AAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* *
111605 CATAAAG-AACCCCTTAAAAATTAGGCTTAGCTTCTTTCAAAATTTATTTGAAAACAT-AAAGAA
1 CATCAAGAAACCCCTTAAAAATCAGGCTTAGCTTCTTTCAAAATTTATTTGAAAACATCAAA-AA
*
111668 ACTCCTGAAAATTAGGGTTAGCTTCTTTCAAAATTCATTTGAAAA
65 AC-CCTGAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* * * * * * * * *
111713 CTTCAAGAAACACATGAAAAATCAAGCTTAGGTCCTTTCAAAATTCATTTGAAAACATCAAAATA
1 CATCAAGAAACCCCTTAAAAATCAGGCTTAGCTTCTTTCAAAATTTATTTGAAAACATCAAAAAA
* *
111778 CCCT-ATATATTAGGCTTAACTTCTTTCAAAATTCATTTGAAAA
66 CCCTGA-AAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* *
111821 CATCAAGAAA-CCCTTGAAAATCAGTCTTAGCT
1 CATCAAGAAACCCCTTAAAAATCAGGCTTAGCT
111853 CATTTGAAAA
Statistics
Matches: 210, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
107 19 0.09
108 95 0.45
109 90 0.43
110 6 0.03
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (108 bp):
CATCAAGAAACCCCTTAAAAATCAGGCTTAGCTTCTTTCAAAATTTATTTGAAAACATCAAAAAA
CCCTGAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
Found at i:111770 original size:163 final size:159
Alignment explanation
Indices: 111500--111935 Score: 461
Period size: 163 Copynumber: 2.7 Consensus size: 159
111490 AGTTATCATC
* * * * *
111500 AAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTAAAGATTCTTTTGAAAA-TATCAAAAAAACCC
1 AAGAAA-CCCTGAAAATTAGGCTTAGCTTCTTTAAA-ATTCATTTGAAAACT-TCAAGAAAA-CA
** *
111564 TGAAAAATCAAGCTTAGCTTTTTTCAAAATTAATTTGAAAACAT-AAAGA-ACCCCTTAAAAATT
62 TGAAAAATCAAGCTTAGCTCCTTTCAAAATTCATTTGAAAACATCAAA-ATA-CCC-TAAAAATT
* *
111627 AGGCTTAGCTTCTTTCAAAATTTATTTGAAAACATA
124 AGGCTTAACTTCTTTCAAAATTCATTTGAAAACATA
*
111663 AAGAAACTCCTGAAAATTAGGGTTAGCTTCTTTCAAAATTCATTTGAAAACTTCAAGAAACACAT
1 AAGAAAC-CCTGAAAATTAGGCTTAGCTTCTTT-AAAATTCATTTGAAAACTTCAAGAAA-ACAT
* * *
111728 GAAAAATCAAGCTTAGGTCCTTTCAAAATTCATTTGAAAACATCAAAATACCCTATATATTAGGC
63 GAAAAATCAAGCTTAGCTCCTTTCAAAATTCATTTGAAAACATCAAAATACCCTAAAAATTAGGC
*
111793 TTAACTTCTTTCAAAATTCATTTGAAAACATC
128 TTAACTTCTTTCAAAATTCATTTGAAAACATA
* * * *
111825 AAGAAACCCTTGAAAATCAGTCTTAGC-TCATTTGAAAAATCA-TTGAAAAAATCATCAAG-AAA
1 AAGAAACCC-TGAAAATTAGGCTTAGCTTC-TTT-AAAATTCATTTG--AAAA-CTTCAAGAAAA
* * * * *
111887 CTTCCAAAAATCAAACTTAGCTCCTTTAAAAATTCATTTGAAAATATCA
60 CAT-GAAAAATCAAGCTTAGCTCCTTTCAAAATTCATTTGAAAACATCA
111936 TATTGGGTAA
Statistics
Matches: 234, Mismatches: 27, Indels: 24
0.82 0.09 0.08
Matches are distributed among these distances:
161 7 0.03
162 74 0.32
163 138 0.59
164 15 0.06
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (159 bp):
AAGAAACCCTGAAAATTAGGCTTAGCTTCTTTAAAATTCATTTGAAAACTTCAAGAAAACATGAA
AAATCAAGCTTAGCTCCTTTCAAAATTCATTTGAAAACATCAAAATACCCTAAAAATTAGGCTTA
ACTTCTTTCAAAATTCATTTGAAAACATA
Found at i:114042 original size:20 final size:21
Alignment explanation
Indices: 114016--114070 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
114006 ATCGATTTTT
114016 TTTTCTTTTTCTATTTCTTTC
1 TTTTCTTTTTCTATTTCTTTC
*
114037 -TTTCTTTTTCCT-TTTTTTTC
1 TTTTCTTTTT-CTATTTCTTTC
114057 TTTTCTTTGTTCTA
1 TTTTCTTT-TTCTA
114071 GCCTTGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 16 0.55
21 11 0.38
22 2 0.07
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTCTTTTTCTATTTCTTTC
Found at i:114291 original size:2 final size:2
Alignment explanation
Indices: 114284--114337 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
114274 ACAACAAGGG
114284 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114326 AT AT AT AT AT AT
1 AT AT AT AT AT AT
114338 GAAACAAAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117602 original size:29 final size:28
Alignment explanation
Indices: 117567--117662 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 28
117557 TAAGGACTAA
* *
117567 AATGTAAAAAACTAAAGTTTAGGGTCCT
1 AATGTAAAAAACTAAAGTCTAGGGACCT
*
117595 AAGTGTAAAAATA-TAAAATCTAGGGACCT
1 AA-TGTAAAAA-ACTAAAGTCTAGGGACCT
*
117624 AAATATAAAAAATCTAAAGTCTAGGGACCT
1 -AATGTAAAAAA-CTAAAGTCTAGGGACCT
117654 ATATGTAAA
1 A-ATGTAAA
117663 GAATCTAATC
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
28 3 0.05
29 29 0.52
30 24 0.43
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (28 bp):
AATGTAAAAAACTAAAGTCTAGGGACCT
Found at i:117647 original size:30 final size:30
Alignment explanation
Indices: 117566--117670 Score: 124
Period size: 30 Copynumber: 3.6 Consensus size: 30
117556 TTAAGGACTA
* *
117566 AAATGTAAAAAA-CTAAAGTTTAGGGTCCT
1 AAATGTAAAAAATCTAAAGTCTAGGGACCT
* * *
117595 AAGTGT-AAAAATATAAAATCTAGGGACCT
1 AAATGTAAAAAATCTAAAGTCTAGGGACCT
*
117624 AAATATAAAAAATCTAAAGTCTAGGGACCT
1 AAATGTAAAAAATCTAAAGTCTAGGGACCT
* *
117654 ATATGTAAAGAATCTAA
1 AAATGTAAAAAATCTAA
117671 TCTTATAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
28 5 0.08
29 22 0.35
30 35 0.56
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (30 bp):
AAATGTAAAAAATCTAAAGTCTAGGGACCT
Found at i:118169 original size:15 final size:14
Alignment explanation
Indices: 118145--118174 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
118135 CCCGTTTTCC
118145 TTTTTTTTCTTCAT
1 TTTTTTTTCTTCAT
118159 TTTTTTCTTCTTCAT
1 TTTTTT-TTCTTCAT
118174 T
1 T
118175 CTCTCTCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTTTCTTCAT
Found at i:119363 original size:3 final size:3
Alignment explanation
Indices: 119357--119398 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
119347 GAATAATAAC
119357 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TCT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
119399 CGTATGTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 1 0.03
3 35 0.95
4 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:120398 original size:43 final size:43
Alignment explanation
Indices: 120345--120524 Score: 234
Period size: 43 Copynumber: 4.2 Consensus size: 43
120335 TTGATCATTT
* ** * *
120345 TCCTAATTCTACATGCAATCCTCTGCGGAGGGCATCATCCCCA
1 TCCTGATTCTACATGGGATCCTCTACGGAGGGCATCATCCCCG
*
120388 TCCTGATTCTACATGGGATCCTCTACGGAGGGCATCATCCACG
1 TCCTGATTCTACATGGGATCCTCTACGGAGGGCATCATCCCCG
* * *
120431 TCCTAATTCTACATGGGATCCTCTACGGATGGCATCATCCTCG
1 TCCTGATTCTACATGGGATCCTCTACGGAGGGCATCATCCCCG
* * * *
120474 TCTTGATTCTGCATGGGATACTCTACGGAGGACATCATCCCCG
1 TCCTGATTCTACATGGGATCCTCTACGGAGGGCATCATCCCCG
*
120517 TTCTGATT
1 TCCTGATT
120525 ATGTTGGGAT
Statistics
Matches: 119, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 119 1.00
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (43 bp):
TCCTGATTCTACATGGGATCCTCTACGGAGGGCATCATCCCCG
Found at i:123589 original size:24 final size:23
Alignment explanation
Indices: 123533--123591 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
123523 CAGTCGAAAC
*
123533 TGCCACATAGAATTGCACCGAAG
1 TGCCACGTAGAATTGCACCGAAG
**
123556 TGCCGTGTAGAATATGCACCGAAG
1 TGCCACGTAGAAT-TGCACCGAAG
123580 TGCCACGTAGAA
1 TGCCACGTAGAA
123592 ATTGTCTCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 10 0.33
24 20 0.67
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (23 bp):
TGCCACGTAGAATTGCACCGAAG
Found at i:123627 original size:23 final size:23
Alignment explanation
Indices: 123574--123671 Score: 117
Period size: 23 Copynumber: 4.2 Consensus size: 23
123564 AGAATATGCA
123574 CCGAAGTG-CCACGTAGAAATTGTC
1 CCGAAG-GACCACGTAGAAA-TGTC
* *
123598 TCGAAGGACCACATAGAAATGTC
1 CCGAAGGACCACGTAGAAATGTC
* * *
123621 CCAAAGGACCGCGTAGATATGTC
1 CCGAAGGACCACGTAGAAATGTC
*
123644 CCGAAGGACCACGTAGAATTGTC
1 CCGAAGGACCACGTAGAAATGTC
123667 CCGAA
1 CCGAA
123672 TGACAGCATA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
23 47 0.76
24 15 0.24
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (23 bp):
CCGAAGGACCACGTAGAAATGTC
Found at i:123683 original size:23 final size:23
Alignment explanation
Indices: 123574--123684 Score: 93
Period size: 23 Copynumber: 4.8 Consensus size: 23
123564 AGAATATGCA
*
123574 CCGAAGTG-CCACGTAGAAATTGTC
1 CCGAAG-GACCACATAG-AATTGTC
* *
123598 TCGAAGGACCACATAGAAATGTC
1 CCGAAGGACCACATAGAATTGTC
* * *
123621 CCAAAGGACCGCGTAG-ATATGTC
1 CCGAAGGACCACATAGAAT-TGTC
*
123644 CCGAAGGACCACGTAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
*
123667 CCGAATGA-CAGCATAGAA
1 CCGAAGGACCA-CATAGAA
123685 CCATTGACTC
Statistics
Matches: 71, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
22 3 0.04
23 54 0.76
24 14 0.20
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (23 bp):
CCGAAGGACCACATAGAATTGTC
Found at i:129189 original size:60 final size:60
Alignment explanation
Indices: 129077--129286 Score: 255
Period size: 60 Copynumber: 3.5 Consensus size: 60
129067 ATTTAATGAT
* * * * * * *
129077 TTTAAAGGACCAAAATA-AAACTAATAGAAACTTGAGAGG-TTAACATAACAAAAATAGAAA
1 TTTAAAGGACTAAAATAGAAA-AAATAGAAAATT-AAAGGACTAAAATAGCAAAAATAGAAA
* * *
129137 TTTAAAGGAATAAAATAGTAAAAATAGAAAATTAAAGGACTAAACTAGCAAAAATAGAAA
1 TTTAAAGGACTAAAATAGAAAAAATAGAAAATTAAAGGACTAAAATAGCAAAAATAGAAA
* *
129197 TTTAAAGGACTAAAATAGAAAAAATAGAAATTTAAAGGACTAAAATAGAAAAAATA-AAA
1 TTTAAAGGACTAAAATAGAAAAAATAGAAAATTAAAGGACTAAAATAGCAAAAATAGAAA
*
129256 TTTTAAAGGACTAAAATAGCAAAAATAGAAA
1 -TTTAAAGGACTAAAATAGAAAAAATAGAAA
129287 TTGAAAAGGC
Statistics
Matches: 131, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
59 7 0.05
60 122 0.93
61 2 0.02
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.20
Consensus pattern (60 bp):
TTTAAAGGACTAAAATAGAAAAAATAGAAAATTAAAGGACTAAAATAGCAAAAATAGAAA
Found at i:129300 original size:30 final size:30
Alignment explanation
Indices: 129125--129288 Score: 258
Period size: 30 Copynumber: 5.5 Consensus size: 30
129115 GTTAACATAA
*
129125 CAAAAATAGAAATTTAAAGGAATAAAATAG
1 CAAAAATAGAAATTTAAAGGACTAAAATAG
* * *
129155 TAAAAATAGAAAATTAAAGGACTAAACTAG
1 CAAAAATAGAAATTTAAAGGACTAAAATAG
129185 CAAAAATAGAAATTTAAAGGACTAAAATAG
1 CAAAAATAGAAATTTAAAGGACTAAAATAG
*
129215 AAAAAATAGAAATTTAAAGGACTAAAATAG
1 CAAAAATAGAAATTTAAAGGACTAAAATAG
*
129245 AAAAAATA-AAATTTTAAAGGACTAAAATAG
1 CAAAAATAGAAA-TTTAAAGGACTAAAATAG
129275 CAAAAATAGAAATT
1 CAAAAATAGAAATT
129289 GAAAAGGCTA
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
29 3 0.02
30 117 0.95
31 3 0.02
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.21
Consensus pattern (30 bp):
CAAAAATAGAAATTTAAAGGACTAAAATAG
Found at i:129300 original size:90 final size:90
Alignment explanation
Indices: 129075--129300 Score: 282
Period size: 90 Copynumber: 2.5 Consensus size: 90
129065 ACATTTAATG
* * * *
129075 ATTTTAAAGGACCAAAATA--AAACTAATAGAAACTTGAGAGGTTAACATAACAAAAATAGAAAT
1 ATTTTAAAGGACTAAAATAGCAAA--AATAGAAA-TTGAAAGGCTAAAATAACAAAAATAGAAAT
*
129138 TTAAAGGAATAAAATAGTAAAAATAGAA
63 TTAAAGGAATAAAATAGAAAAAATAGAA
* * *
129166 A-ATTAAAGGACTAAACTAGCAAAAATAGAAATTTAAAGGACTAAAATAGA-AAAAATAGAAATT
1 ATTTTAAAGGACTAAAATAGCAAAAATAGAAATTGAAAGG-CTAAAATA-ACAAAAATAGAAATT
*
129229 TAAAGGACTAAAATAGAAAAAATA-AA
64 TAAAGGAATAAAATAGAAAAAATAGAA
129255 ATTTTAAAGGACTAAAATAGCAAAAATAGAAATTGAAAAGGCTAAA
1 ATTTTAAAGGACTAAAATAGCAAAAATAGAAATTG-AAAGGCTAAA
129301 CAGTAATTAC
Statistics
Matches: 117, Mismatches: 12, Indels: 13
0.82 0.08 0.09
Matches are distributed among these distances:
89 9 0.08
90 98 0.84
91 7 0.06
92 3 0.03
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (90 bp):
ATTTTAAAGGACTAAAATAGCAAAAATAGAAATTGAAAGGCTAAAATAACAAAAATAGAAATTTA
AAGGAATAAAATAGAAAAAATAGAA
Found at i:131427 original size:36 final size:37
Alignment explanation
Indices: 131373--131457 Score: 111
Period size: 36 Copynumber: 2.3 Consensus size: 37
131363 AATAACTTTG
**
131373 AAAA-TTGTATTTCGAGAGAAACTGTCTCAAATTAGAC
1 AAAATTTGT-TTTCGAGAGAAACTGTCTCAAACGAGAC
* *
131410 AAAATTTGTTTT-GAGAGAAATTGTCTCAAGCGAGAC
1 AAAATTTGTTTTCGAGAGAAACTGTCTCAAACGAGAC
131446 AAAATTTGTTTT
1 AAAATTTGTTTT
131458 TAAGAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 32 0.74
37 7 0.16
38 4 0.09
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (37 bp):
AAAATTTGTTTTCGAGAGAAACTGTCTCAAACGAGAC
Found at i:131473 original size:36 final size:36
Alignment explanation
Indices: 131406--131475 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
131396 GTCTCAAATT
* **
131406 AGACAAAATTTGTTTTGAGAGAAATTGTCTCAAGCG
1 AGACAAAATTTGTTTTAAGAGAAATAATCTCAAGCG
131442 AGACAAAATTTGTTTTTAAGA-AAATAATCTCAAG
1 AGACAAAATTTG-TTTTAAGAGAAATAATCTCAAG
131476 GTCGATAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 23 0.77
37 7 0.23
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (36 bp):
AGACAAAATTTGTTTTAAGAGAAATAATCTCAAGCG
Found at i:137414 original size:57 final size:56
Alignment explanation
Indices: 137329--137476 Score: 197
Period size: 56 Copynumber: 2.6 Consensus size: 56
137319 ACTTGAGAGG
* * * *
137329 CTAAAATAAAAAAAACAAAAATTTAAAGGACTAAAATAACAAAAATAGATTTAAAGGA
1 CTAAAAT-AGAAAAATAGAAATTTAAAGGACTAAAATAACAAAAA-ACATTTAAAGGA
* *
137387 CTAAAATAGAAAAATTGAAATTTAAAGGACTAAAATAGCAAAAAACATTTAAAGGA
1 CTAAAATAGAAAAATAGAAATTTAAAGGACTAAAATAACAAAAAACATTTAAAGGA
* * *
137443 CTAAAATAGCAAAATAGAAAATTAAAGGGCTAAA
1 CTAAAATAGAAAAATAGAAATTTAAAGGACTAAA
137477 CAGTAATTAC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
56 41 0.51
57 32 0.40
58 7 0.09
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.20
Consensus pattern (56 bp):
CTAAAATAGAAAAATAGAAATTTAAAGGACTAAAATAACAAAAAACATTTAAAGGA
Found at i:137419 original size:29 final size:28
Alignment explanation
Indices: 137347--137476 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 28
137337 AAAAAAACAA
*
137347 AAATTTAAAGGACTAAAATA-ACAAAAAT
1 AAATTTAAAGGACTAAAATAGA-AAAATT
*
137375 AGATTTAAAGGACTAAAATAGAAAAATT
1 AAATTTAAAGGACTAAAATAGAAAAATT
137403 GAAATTTAAAGGACTAAAATAGCAAAAA--
1 -AAATTTAAAGGACTAAAATAG-AAAAATT
* * *
137431 ACATTTAAAGGACTAAAATAGCAAAATAG
1 AAATTTAAAGGACTAAAATAGAAAAAT-T
* *
137460 AAAATTAAAGGGCTAAA
1 AAATTTAAAGGACTAAA
137477 CAGTAATTAC
Statistics
Matches: 88, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
26 4 0.05
27 20 0.23
28 24 0.27
29 35 0.40
30 5 0.06
ACGTcount: A:0.59, C:0.07, G:0.13, T:0.21
Consensus pattern (28 bp):
AAATTTAAAGGACTAAAATAGAAAAATT
Found at i:137444 original size:27 final size:27
Alignment explanation
Indices: 137348--137456 Score: 150
Period size: 27 Copynumber: 3.9 Consensus size: 27
137338 AAAAAACAAA
*
137348 AATTTAAAGGACTAAAATAACAAAAAT
1 AATTTAAAGGACTAAAATAGCAAAAAT
137375 AGATTTAAAGGACTAAAATAG-AAAAATT
1 A-ATTTAAAGGACTAAAATAGCAAAAA-T
137403 GAAATTTAAAGGACTAAAATAGCAAAAA-
1 --AATTTAAAGGACTAAAATAGCAAAAAT
137431 ACATTTAAAGGACTAAAATAGCAAAA
1 A-ATTTAAAGGACTAAAATAGCAAAA
137457 TAGAAAATTA
Statistics
Matches: 75, Mismatches: 1, Indels: 12
0.85 0.01 0.14
Matches are distributed among these distances:
26 1 0.01
27 30 0.40
28 19 0.25
29 19 0.25
30 6 0.08
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (27 bp):
AATTTAAAGGACTAAAATAGCAAAAAT
Found at i:139810 original size:18 final size:19
Alignment explanation
Indices: 139787--139824 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
139777 CTAAAACAAT
*
139787 AACAAAATAA-AAATCTTA
1 AACAAAATAAGAAATATTA
*
139805 AACAAAGTAAGAAATATTA
1 AACAAAATAAGAAATATTA
139824 A
1 A
139825 GTTGCAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (19 bp):
AACAAAATAAGAAATATTA
Found at i:144324 original size:21 final size:20
Alignment explanation
Indices: 144238--144395 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
144228 AAATGACCAA
**
144238 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
144257 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
144277 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
144297 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
144318 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
144339 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
144359 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
144380 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
144396 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:144549 original size:101 final size:98
Alignment explanation
Indices: 144363--144671 Score: 343
Period size: 101 Copynumber: 3.1 Consensus size: 98
144353 GATTTTCAAT
* ** * * * * *
144363 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTAAATC
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAACGCATAT-CATAAATC
**
144427 GCAACGTGTATCCGTAAATCGCAACGCGTATGGGTA
64 GCAACG-GTATCCGTAAATCGCAACGCGTATCCGTA
* *
144463 AATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAACG-ATAATACATAAAAT
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCAT-AT-CAT-AAAT
*
144527 CGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
63 CGCAACG-GTATCCGTAAATCGCAACGCGTATCCGTA
* * *
144564 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCGTAAATCGC
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCATATCATAAATCGC
* * * *
144629 AACGATAATCCGTAAATCGCAACGAGAATCTGTA
66 AACGGT-ATCCGTAAATCGCAACGCGTATCCGTA
*
144663 AATCACAAC
1 AATCGCAAC
144672 ACTGAAATTT
Statistics
Matches: 179, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
98 1 0.01
99 44 0.25
100 45 0.25
101 88 0.49
102 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (98 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCATATCATAAATCGC
AACGGTATCCGTAAATCGCAACGCGTATCCGTA
Found at i:144616 original size:20 final size:20
Alignment explanation
Indices: 144363--144671 Score: 365
Period size: 20 Copynumber: 15.4 Consensus size: 20
144353 GATTTTCAAT
* ** *
144363 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
144383 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
144403 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
144423 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
144443 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
144463 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
144483 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
144503 AATCGCAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
144524 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
144544 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
144564 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
144584 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
144604 AATCGCAACGCGTAT-CGTA
1 AATCGCAACGCGTATCCGTA
*
144623 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
144643 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
144663 AATCACAAC
1 AATCGCAAC
144672 ACTGAAATTT
Statistics
Matches: 249, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
18 1 0.00
19 18 0.07
20 212 0.85
21 17 0.07
22 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:145382 original size:24 final size:24
Alignment explanation
Indices: 145343--145389 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
145333 AAATTTGGTC
145343 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
145367 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
145390 GATGTTCAGA
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:147873 original size:19 final size:19
Alignment explanation
Indices: 147851--148104 Score: 307
Period size: 19 Copynumber: 14.4 Consensus size: 19
147841 CGGAAAATAC
*
147851 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
147870 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
147884 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
147904 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
147918 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
147937 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
147956 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
147970 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
147989 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
148007 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
148026 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
148045 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
148064 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
148078 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
148097 AATCGCAA
1 AATCGCAA
148105 CGAGATAATC
Statistics
Matches: 206, Mismatches: 7, Indels: 44
0.80 0.03 0.17
Matches are distributed among these distances:
14 40 0.19
15 2 0.01
16 11 0.05
17 10 0.05
18 21 0.10
19 109 0.53
20 13 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:147903 original size:34 final size:33
Alignment explanation
Indices: 147851--147940 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 33
147841 CGGAAAATAC
*
147851 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAA
* *
147884 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCCCAACGAGAA
147918 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
147941 GCAATGCGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
33 22 0.42
34 29 0.56
35 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAA
Found at i:147938 original size:33 final size:33
Alignment explanation
Indices: 147851--148052 Score: 157
Period size: 33 Copynumber: 5.8 Consensus size: 33
147841 CGGAAAATAC
* *
147851 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
147884 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
147918 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
147956 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
147989 AATCGCAATGCGAAATG-AAATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
148026 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
148053 TGCGAAATGA
Statistics
Matches: 149, Mismatches: 7, Indels: 21
0.84 0.04 0.12
Matches are distributed among these distances:
33 55 0.37
34 30 0.20
35 5 0.03
36 2 0.01
37 37 0.25
38 20 0.13
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:147966 original size:52 final size:52
Alignment explanation
Indices: 147879--148104 Score: 373
Period size: 52 Copynumber: 4.2 Consensus size: 52
147869 AAATCCCAAC
*
147879 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
*
147932 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
147984 ATGAAAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGGAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA--G-AATCGCAATGCGAA
148040 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
148092 ATGAAAATCGCAA
1 ATGAAAATCGCAA
148105 CGAGATAATC
Statistics
Matches: 166, Mismatches: 1, Indels: 13
0.92 0.01 0.07
Matches are distributed among these distances:
51 9 0.05
52 85 0.51
53 21 0.13
55 6 0.04
56 36 0.22
57 9 0.05
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
Found at i:148082 original size:33 final size:33
Alignment explanation
Indices: 147937--148126 Score: 263
Period size: 33 Copynumber: 5.5 Consensus size: 33
147927 GCGAAATGAA
*
147937 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
147970 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G
*
148006 AAATCGCAATGCGAAATGGAAATCGCAATGCGAAATG
1 -AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G
148043 AAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 --AATCGCAATGCGAAATGAAAATCGCAACGAAAG
* *
148078 AATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
148111 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
148127 TATAAACGCA
Statistics
Matches: 147, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
33 74 0.50
35 5 0.03
36 6 0.04
37 35 0.24
38 27 0.18
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:148223 original size:19 final size:19
Alignment explanation
Indices: 148133--148215 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
148123 AAATTATAAA
148133 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
148152 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
148172 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
148188 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
148205 CGCATTGCGAT
1 CGCATTGCGAT
148216 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:148340 original size:14 final size:14
Alignment explanation
Indices: 148321--148357 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
148311 CATCAATTAC
148321 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
148335 ACAAATCATCTTTT
1 ACAAATCAACTTTT
148349 ACAAATCAA
1 ACAAATCAA
148358 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:150325 original size:32 final size:32
Alignment explanation
Indices: 150280--150370 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 32
150270 GCGAAACCAA
150280 AATCGCAACGCGAAATG-AAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGA-AG
*
150312 AATCGCAATGCGAAATGAAAATCGCAACGAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAG
150344 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
150371 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 44 0.79
33 12 0.21
ACGTcount: A:0.46, C:0.22, G:0.21, T:0.11
Consensus pattern (32 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAG
Found at i:150336 original size:19 final size:19
Alignment explanation
Indices: 150243--150375 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
150233 TAGTTTACTT
* *
150243 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
150263 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
150282 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
150300 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
150314 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
150333 TCGCAA--CG-AA-G--AA
1 TCGCAACGCGAAATGAAAA
150346 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
150365 TCGCAATGCGA
1 TCGCAACGCGA
150376 TTTTGGTTTC
Statistics
Matches: 94, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
13 8 0.09
14 8 0.09
15 4 0.04
16 12 0.13
17 4 0.04
18 9 0.10
19 37 0.39
20 12 0.13
ACGTcount: A:0.45, C:0.24, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:150393 original size:19 final size:19
Alignment explanation
Indices: 150371--150499 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
150361 AAAATCGCAA
150371 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
150390 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
150404 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
150423 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
150437 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
150456 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
150475 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
150495 TGCGA
1 TGCGA
150500 AAGTAACTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:150413 original size:33 final size:33
Alignment explanation
Indices: 150371--150462 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
150361 AAAATCGCAA
150371 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
150404 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
150437 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
150463 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:150712 original size:92 final size:93
Alignment explanation
Indices: 150542--150919 Score: 726
Period size: 92 Copynumber: 4.1 Consensus size: 93
150532 TTGAATGGAT
150542 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
150607 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
150635 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
150699 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
150727 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
150791 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
150819 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
150883 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
150911 AAATTTACT
1 AAATTTACT
150920 AAGCAATCTA
Statistics
Matches: 283, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
91 4 0.01
92 240 0.85
93 39 0.14
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:152658 original size:33 final size:33
Alignment explanation
Indices: 152613--152726 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
152603 TCTTTTGGTT
152613 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
152646 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
152679 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
152711 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
152727 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 31 0.41
33 45 0.59
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:152659 original size:19 final size:18
Alignment explanation
Indices: 152620--152731 Score: 95
Period size: 14 Copynumber: 6.8 Consensus size: 18
152610 GTTGAAATGA
152620 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
152635 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
152652 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
152668 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
152685 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
*
152700 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
152717 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
152732 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 24
0.74 0.04 0.22
Matches are distributed among these distances:
14 24 0.30
15 1 0.01
16 18 0.23
17 8 0.10
18 8 0.10
19 20 0.25
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:152762 original size:14 final size:14
Alignment explanation
Indices: 152743--152796 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
152733 TTTGGTTTCG
152743 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
152757 CGTTGCGATTTTCATTCG
1 CGTTGCGA--TTC--TCT
152775 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
152789 CGTTGCGA
1 CGTTGCGA
152797 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 18 0.53
16 6 0.18
18 10 0.29
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:152804 original size:32 final size:32
Alignment explanation
Indices: 152739--152805 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
152729 CGATTTTGGT
***
152739 TTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
152771 TTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
152803 TTC
1 TTC
152806 TCTCGTTGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.10, C:0.27, G:0.22, T:0.40
Consensus pattern (32 bp):
TTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:152959 original size:33 final size:33
Alignment explanation
Indices: 152917--152987 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
152907 AATACTAACT
*
152917 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
152950 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
152983 TGAAA
1 TGAAA
152988 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:153218 original size:22 final size:22
Alignment explanation
Indices: 153166--153220 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
153156 TGGTTGTGAG
**
153166 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
153188 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
153210 GGATTTCTTCG
1 GGATTTCTTCG
153221 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:153391 original size:20 final size:20
Alignment explanation
Indices: 153366--153558 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
153356 CTTTAAATAT
153366 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
153386 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
153408 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
153427 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
153447 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
153467 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
153487 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
153507 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
153527 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
153547 CGCGTTGCGATT
1 CGCGTTGCGATT
153559 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:153553 original size:60 final size:60
Alignment explanation
Indices: 153366--153558 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
153356 CTTTAAATAT
**
153366 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
153427 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
153487 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
153547 CGCGTTGCGATT
1 CGCGTTGCGATT
153559 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:156060 original size:2 final size:2
Alignment explanation
Indices: 156053--156088 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
156043 AAGTCAATTA
156053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
156089 GTGTGTATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:157161 original size:21 final size:21
Alignment explanation
Indices: 157135--157185 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
157125 TGTTGTATTA
157135 TTTTTTTAAAAAAATTAACCG
1 TTTTTTTAAAAAAATTAACCG
*
157156 TTTTTTAAAAAAAATTAACCG
1 TTTTTTTAAAAAAATTAACCG
157177 TTTTTTTAA
1 TTTTTTTAA
157186 TGATTATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (21 bp):
TTTTTTTAAAAAAATTAACCG
Found at i:160743 original size:2 final size:2
Alignment explanation
Indices: 160685--160723 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
160675 TTTATTTATT
160685 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
160724 GTTTTTGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 30 0.88
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:160763 original size:28 final size:33
Alignment explanation
Indices: 160704--160763 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
160694 ATATATATAT
160704 ATATATATTAATATAGTATAGTTTTTGAAAAAAA
1 ATATATATTAATATAGTATAGTTTTT-AAAAAAA
160738 ATATATA-TAATATA-TA-A-TTTTTAAAA
1 ATATATATTAATATAGTATAGTTTTTAAAA
160764 CATATTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 4 0.15
30 5 0.19
31 1 0.04
32 2 0.08
33 7 0.27
34 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (33 bp):
ATATATATTAATATAGTATAGTTTTTAAAAAAA
Found at i:160775 original size:38 final size:37
Alignment explanation
Indices: 160733--161074 Score: 327
Period size: 38 Copynumber: 9.0 Consensus size: 37
160723 AGTTTTTGAA
* *
160733 AAAAAATATATATAATATATAATTTTTAAAACATATT
1 AAAAAATATATATAATATATAGTTTTGAAAACATATT
160770 GAAAAAATATATATAATATATAG-TTTGAAAAACAT-TT
1 -AAAAAATATATATAATATATAGTTTTG-AAAACATATT
* *
160807 TAAAAATATATATATATAATATAGATTTTAAAAACAT-TT
1 AAAAAATATATATA-AT-ATATAG-TTTTGAAAACATATT
* * *
160846 TAAAAATATATATATATAATATAGATTTTAAAAATATATT
1 AAAAAATATATATA-AT-ATATAG-TTTTGAAAACATATT
*
160886 GAAAACATATATATAATATATAGTTTTGAAAACAT-TT
1 -AAAAAATATATATAATATATAGTTTTGAAAACATATT
** *
160923 TTAAAATATATAT-ATATATAGTTTTGAAAATATATT
1 AAAAAATATATATAATATATAGTTTTGAAAACATATT
* **** *
160959 GAAAACATATATATAATATATAGTTTTGAATTTTTTTTTT
1 -AAAAAATATATATAATATATAGTTTTGAA--AACATATT
* *
160999 AAAATATATATATAATATATAGTTTTTAAAAAACAT-TT
1 AAAAAATATATATAATATATAG-TTTT-GAAAACATATT
* *
161037 TAAAAATATATATAATATATAGTTTTGAAAATATATT
1 AAAAAATATATATAATATATAGTTTTGAAAACATATT
161074 A
1 A
161075 TATAGTTTTT
Statistics
Matches: 258, Mismatches: 31, Indels: 31
0.81 0.10 0.10
Matches are distributed among these distances:
35 19 0.07
36 31 0.12
37 25 0.10
38 81 0.31
39 73 0.28
40 15 0.06
41 14 0.05
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (37 bp):
AAAAAATATATATAATATATAGTTTTGAAAACATATT
Found at i:160850 original size:39 final size:37
Alignment explanation
Indices: 160734--161067 Score: 331
Period size: 39 Copynumber: 8.8 Consensus size: 37
160724 GTTTTTGAAA
* * *
160734 AAAAATATATATA-ATATATAATTTTTAAAACATATTG
1 AAAAATATATATATATATATAGTTTTAAAAACAT-TTT
*
160771 AAAAA-ATATATATAATATATAGTTTGAAAAACATTTT
1 AAAAATATATATAT-ATATATAGTTTTAAAAACATTTT
160808 AAAAATATATATATATAATATAGATTTTAAAAACATTTT
1 AAAAATATATATATAT-ATATAG-TTTTAAAAACATTTT
* *
160847 AAAAATATATATATATAATATAGATTTTAAAAATATATTG
1 AAAAATATATATATAT-ATATAG-TTTTAAAAACAT-TTT
*
160887 AAAACATATATATA-ATATATAGTTTTGAAAACATTTT
1 AAAA-ATATATATATATATATAGTTTTAAAAACATTTT
* * * *
160924 -TAAA-ATATATATATATATAGTTTTGAAAATATATTG
1 AAAAATATATATATATATATAGTTTTAAAAACAT-TTT
*****
160960 AAAACATATATATA-ATATATAGTTTTGAATTTTTTTTT
1 AAAA-ATATATATATATATATAGTTTT-AAAAACATTTT
*
160998 TAAAATATATATATAATATATAGTTTTTAAAAAACATTTT
1 AAAAATATATATAT-ATATATAG-TTTT-AAAAACATTTT
*
161038 AAAAATATATATA-ATATATAGTTTTGAAAA
1 AAAAATATATATATATATATAGTTTTAAAAA
161068 TATATTATAT
Statistics
Matches: 252, Mismatches: 29, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
34 7 0.03
35 20 0.08
36 15 0.06
37 31 0.12
38 67 0.27
39 73 0.29
40 30 0.12
41 9 0.04
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (37 bp):
AAAAATATATATATATATATAGTTTTAAAAACATTTT
Found at i:160856 original size:28 final size:28
Alignment explanation
Indices: 160825--160884 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
160815 TATATATATA
*
160825 ATATAGATTTTAA-AAACATTTTAAAAAT
1 ATATAGA-TATAATAAACATTTTAAAAAT
* * *
160853 ATATATATATAATATAGATTTTAAAAAT
1 ATATAGATATAATAAACATTTTAAAAAT
160881 ATAT
1 ATAT
160885 TGAAAACATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (28 bp):
ATATAGATATAATAAACATTTTAAAAAT
Found at i:161076 original size:21 final size:21
Alignment explanation
Indices: 161046--161088 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
161036 TTAAAAATAT
161046 ATATAATATATAGTTTTGAAA
1 ATATAATATATAGTTTTGAAA
* *
161067 ATATATTATATAGTTTTTAAA
1 ATATAATATATAGTTTTGAAA
161088 A
1 A
161089 AAAATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (21 bp):
ATATAATATATAGTTTTGAAA
Found at i:161079 original size:59 final size:54
Alignment explanation
Indices: 161008--161121 Score: 165
Period size: 59 Copynumber: 2.0 Consensus size: 54
160998 TAAAATATAT
*
161008 ATATAATATATAGTTTTTAAAAAACATTTTAAAAATATATATAATATATAGTTTTGAAA
1 ATATAATATATAGTTTTTAAAAAA-A-ATTAAAAATATATAT--TATAT-GTTTTGAAA
*
161067 ATATATTATATAGTTTTTAAAAAAAATTAAAAATATATATTATATGTTTTGAAA
1 ATATAATATATAGTTTTTAAAAAAAATTAAAAATATATATTATATGTTTTGAAA
161121 A
1 A
161122 ACAACTTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
54 10 0.19
55 5 0.09
57 14 0.26
58 1 0.02
59 23 0.43
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.43
Consensus pattern (54 bp):
ATATAATATATAGTTTTTAAAAAAAATTAAAAATATATATTATATGTTTTGAAA
Found at i:161090 original size:23 final size:23
Alignment explanation
Indices: 161034--161090 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
161024 TTAAAAAACA
161034 TTTTAAAAATATATATAATATATAG
1 TTTTAAAAA-ATATAT-ATATATAG
*
161059 TTTT-GAAAATATAT-TATATAG
1 TTTTAAAAAATATATATATATAG
161080 TTTTTAAAAAA
1 -TTTTAAAAAA
161091 AATTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 7 0.25
22 4 0.14
23 10 0.36
24 3 0.11
25 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (23 bp):
TTTTAAAAAATATATATATATAG
Found at i:161095 original size:21 final size:21
Alignment explanation
Indices: 161052--161095 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
161042 ATATATATAA
* *
161052 TATATAGTTTTGAAAATATAT
1 TATATAGTTTTGAAAAAAAAT
*
161073 TATATAGTTTTTAAAAAAAAT
1 TATATAGTTTTGAAAAAAAAT
161094 TA
1 TA
161096 AAAATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (21 bp):
TATATAGTTTTGAAAAAAAAT
Found at i:161110 original size:34 final size:36
Alignment explanation
Indices: 161067--161159 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 36
161057 AGTTTTGAAA
161067 ATATATTATATAGTTTTTAAAAA-AA-ATTAAA-AAT
1 ATATATTATAT-GTTTTTAAAAACAACATTAAAGAAT
* * *
161101 ATATATTATATGTTTTGAAAAACAACTTTTAAAGCAT
1 ATATATTATATGTTTTTAAAAACAAC-ATTAAAGAAT
*
161138 ATATATTATATGGTTTTAAAAA
1 ATATATTATATGTTTTTAAAAA
161160 TGGTTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
33 10 0.20
34 13 0.26
36 5 0.10
37 22 0.44
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (36 bp):
ATATATTATATGTTTTTAAAAACAACATTAAAGAAT
Found at i:161185 original size:15 final size:14
Alignment explanation
Indices: 161163--161216 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
161153 TTAAAAATGG
161163 TTTTATTTATTTTA
1 TTTTATTTATTTTA
161177 TTATTATTTA--TTA
1 TT-TTATTTATTTTA
*
161190 TTTTATTTGTTTTTA
1 TTTTATTT-ATTTTA
161205 TTTTTATTTATT
1 -TTTTATTTATT
161217 ATTTTTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
12 6 0.18
13 5 0.15
14 2 0.06
15 12 0.36
16 8 0.24
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:161204 original size:18 final size:18
Alignment explanation
Indices: 161163--161222 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
161153 TTAAAAATGG
161163 TTTTATTTATTTTATTATT
1 TTTTA-TTATTTTATTATT
*
161182 ATTTATTATTTTATT-TGT
1 TTTTATTATTTTATTAT-T
*
161200 TTTTATTTTTATTTATTATT
1 TTTTA-TTAT-TTTATTATT
161220 TTT
1 TTT
161223 CTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 1 0.03
18 15 0.44
19 7 0.21
20 10 0.29
21 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTATTATTTTATTATT
Found at i:161212 original size:28 final size:27
Alignment explanation
Indices: 161163--161221 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
161153 TTAAAAATGG
161163 TTTTATTTATTTTATTATTATTTATTA
1 TTTTATTTATTTTATTATTATTTATTA
* *
161190 TTTTATTTGTTTTTATTTTTATTTATTA
1 TTTTATTT-ATTTTATTATTATTTATTA
161218 TTTT
1 TTTT
161222 TCTTTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (27 bp):
TTTTATTTATTTTATTATTATTTATTA
Found at i:161348 original size:52 final size:52
Alignment explanation
Indices: 161270--161385 Score: 162
Period size: 52 Copynumber: 2.2 Consensus size: 52
161260 AAGTCAGGGC
* *
161270 CTGCCTAACCCAGCAAGCCAAGGACGGGTAAAATCCAACAA-TCCGAGCCCAA
1 CTGCCTGACCCAGCAAGCAAAGGACGGGTAAAATCCAACAACT-CGAGCCCAA
* *
161322 CTGCCTGACCCAGTAAGCAAAGGACGGGTAAAGTCCAACAACTCGAGCCCAA
1 CTGCCTGACCCAGCAAGCAAAGGACGGGTAAAATCCAACAACTCGAGCCCAA
* *
161374 TTGTCTGACCCA
1 CTGCCTGACCCA
161386 ACAGTGGCTA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 56 0.98
53 1 0.02
ACGTcount: A:0.34, C:0.33, G:0.21, T:0.13
Consensus pattern (52 bp):
CTGCCTGACCCAGCAAGCAAAGGACGGGTAAAATCCAACAACTCGAGCCCAA
Done.