Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 27 of 30
Found at i:4452447 original size:20 final size:20
Alignment explanation
Indices: 4452422--4452495 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
4452412 GTTAGGCTCA
*
4452422 ATGTATCGATACAATTTACC
1 ATGTATCGATACAATTCACC
4452442 ATGTATCGATACAATTCACC
1 ATGTATCGATACAATTCACC
* *
4452462 ATGTATTGATACAATTCATC
1 ATGTATCGATACAATTCACC
4452482 ATGTATCGATACAA
1 ATGTATCGATACAA
4452496 AGTGAGTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:4452621 original size:19 final size:18
Alignment explanation
Indices: 4452585--4452621 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
4452575 TTAAGCAATA
*
4452585 TGTATCGATACTTCTAGG
1 TGTATCGATACATCTAGG
4452603 TGTATCGATACAATCTAGG
1 TGTATCGATAC-ATCTAGG
4452622 GTTTTGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTATCGATACATCTAGG
Found at i:4452716 original size:20 final size:21
Alignment explanation
Indices: 4452691--4452731 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
4452681 ATATTTTGAA
4452691 TTATTTTTA-CTTGAAAAACG
1 TTATTTTTAGCTTGAAAAACG
4452711 TTATTTTTATGCTTGAAAAAC
1 TTATTTTTA-GCTTGAAAAAC
4452732 ATTTATACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
22 10 0.53
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (21 bp):
TTATTTTTAGCTTGAAAAACG
Found at i:4453378 original size:22 final size:22
Alignment explanation
Indices: 4453333--4453374 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4453323 AGCATCTCCA
4453333 TGAATGTTACTCATGATTTTCT
1 TGAATGTTACTCATGATTTTCT
4453355 TGAATGTT-CATCATG-TTTTC
1 TGAATGTTAC-TCATGATTTTC
4453375 CTTGTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (22 bp):
TGAATGTTACTCATGATTTTCT
Found at i:4463821 original size:19 final size:18
Alignment explanation
Indices: 4463797--4463864 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
4463787 CAGTAGCTAA
4463797 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
4463816 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4463831 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAA-AC
4463848 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
4463865 TCTTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 2 0.05
19 27 0.63
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:4463837 original size:13 final size:13
Alignment explanation
Indices: 4463819--4463843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4463809 ACAATACTTA
4463819 TGTATCGATACAT
1 TGTATCGATACAT
4463832 TGTATCGATACA
1 TGTATCGATACA
4463844 ACACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4463841 original size:32 final size:32
Alignment explanation
Indices: 4463800--4463862 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4463790 TAGCTAATTA
*
4463800 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
4463832 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
4463863 AATCTTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:4464619 original size:92 final size:92
Alignment explanation
Indices: 4464439--4465040 Score: 1062
Period size: 92 Copynumber: 6.6 Consensus size: 92
4464429 GTTTTGCAAT
* * * * * * *
4464439 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGAT-GAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
*
4464503 TCAAAGCCAGCTATATTGGACTTAAAG
66 TCAAGGCCAGCTATATTGGACTTAAAG
* *
4464530 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
*
4464595 TCAAGGCCAACTATATTGGACTTAAAG
66 TCAAGGCCAGCTATATTGGACTTAAAG
*
4464622 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
4464687 TCAAGGCCAGCTATATTGGACTTAAAG
66 TCAAGGCCAGCTATATTGGACTTAAAG
*
4464714 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAATGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
4464779 TCAAGGCCAGCTATATTGGACTTAAAG
66 TCAAGGCCAGCTATATTGGACTTAAAG
*
4464806 GTGCTAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
4464871 TCAAGGCCAGCTATATTGGACTTAAAG
66 TCAAGGCCAGCTATATTGGACTTAAAG
*
4464898 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAATGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
4464963 TCAAGGCCAGCTATATTGGACTTAAAG
66 TCAAGGCCAGCTATATTGGACTTAAAG
4464990 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGT
4465041 CCCCACATGT
Statistics
Matches: 493, Mismatches: 17, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
91 40 0.08
92 453 0.92
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (92 bp):
GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCTATATTGGACTTAAAG
Found at i:4465151 original size:20 final size:21
Alignment explanation
Indices: 4465126--4465178 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
4465116 TCTACAGACA
*
4465126 TGTATCGATACATTCACTT-T
1 TGTATCGATACATCCACTTAT
4465146 TGTATCGATACATCCACTTAT
1 TGTATCGATACATCCACTTAT
4465167 TGTATCGATACA
1 TGTATCGATACA
4465179 AATGGTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCCACTTAT
Found at i:4466059 original size:20 final size:20
Alignment explanation
Indices: 4466034--4466077 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4466024 TTTTTTTTAG
4466034 TTTCTTT-TTTTTCTCTATTT
1 TTTCTTTCTTTTTCT-TATTT
*
4466054 TTTCTTTCTTTTTCTTTTTT
1 TTTCTTTCTTTTTCTTATTT
4466074 TTTC
1 TTTC
4466078 GTAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTCTTTCTTTTTCTTATTT
Found at i:4466065 original size:11 final size:10
Alignment explanation
Indices: 4466034--4466077 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
4466024 TTTTTTTTAG
4466034 TTTC-TTTTT
1 TTTCTTTTTT
*
4466043 TTTCTCTATTT
1 TTTCT-TTTTT
*
4466054 TTTCTTTCTT
1 TTTCTTTTTT
4466064 TTTCTTTTTT
1 TTTCTTTTTT
4466074 TTTC
1 TTTC
4466078 GTAAATTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 4 0.14
10 16 0.55
11 9 0.31
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:4466575 original size:27 final size:26
Alignment explanation
Indices: 4466545--4466611 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 26
4466535 GTATAAAACC
4466545 TTAATTGAAAGTTTATATGTGAAAGGT
1 TTAATTGAAAGTTTATATGTGAAA-GT
4466572 TTAATTGAAAGTTTTATATGTGAAAGT
1 TTAATTGAAAG-TTTATATGTGAAAGT
*
4466599 TTAATTAAAAGTT
1 TTAATTGAAAGTT
4466612 CCATATGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 2 0.05
27 23 0.61
28 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (26 bp):
TTAATTGAAAGTTTATATGTGAAAGT
Found at i:4466597 original size:15 final size:15
Alignment explanation
Indices: 4466550--4466600 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
4466540 AAACCTTAAT
4466550 TGAAAG-TTTATATG
1 TGAAAGTTTTATATG
*
4466564 TGAAAGGTTTA-AT-
1 TGAAAGTTTTATATG
4466577 TGAAAGTTTTATATG
1 TGAAAGTTTTATATG
4466592 TGAAAGTTT
1 TGAAAGTTT
4466601 AATTAAAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
13 10 0.30
14 10 0.30
15 13 0.39
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (15 bp):
TGAAAGTTTTATATG
Found at i:4466617 original size:27 final size:26
Alignment explanation
Indices: 4466545--4466679 Score: 94
Period size: 27 Copynumber: 5.0 Consensus size: 26
4466535 GTATAAAACC
* *
4466545 TTAATTGAAAGTTTATATGTGAAAGGT
1 TTAATTAAAAGTTCATATGTGAAA-GT
* *
4466572 TTAATTGAAAGTTTTATATGTGAAAGT
1 TTAATTAAAAG-TTCATATGTGAAAGT
*
4466599 TTAATTAAAAGTTCCATATGT-AAGGGT
1 TTAATTAAAAGTT-CATATGTGAA-AGT
* * *
4466626 TCAATTAAAAATTTTACATATG-AAAAGT
1 TTAATT-AAAA-GTT-CATATGTGAAAGT
* *
4466654 TTAATTAAAAATATCATATGTAAAAG
1 TTAATTAAAAGT-TCATATGTGAAAG
4466680 GATAACCCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
26 11 0.12
27 46 0.51
28 24 0.26
29 10 0.11
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.39
Consensus pattern (26 bp):
TTAATTAAAAGTTCATATGTGAAAGT
Found at i:4466658 original size:55 final size:53
Alignment explanation
Indices: 4466545--4466677 Score: 149
Period size: 54 Copynumber: 2.4 Consensus size: 53
4466535 GTATAAAACC
* * * * * * *
4466545 TTAATTGAAAGTTTATATGTGAAAGGTTTAATTGAAAGTTTTATATGTGAAAGT
1 TTAATTAAAAGTTCATATGT-AAAGGTTCAATTAAAAATTTTACATATGAAAGT
*
4466599 TTAATTAAAAGTTCCATATGTAAGGGTTCAATTAAAAATTTTACATATGAAAAGT
1 TTAATTAAAAGTT-CATATGTAAAGGTTCAATTAAAAATTTTACATATG-AAAGT
*
4466654 TTAATTAAAAATATCATATGTAAA
1 TTAATTAAAAGT-TCATATGTAAA
4466678 AGGATAACCC
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
54 34 0.52
55 31 0.47
56 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (53 bp):
TTAATTAAAAGTTCATATGTAAAGGTTCAATTAAAAATTTTACATATGAAAGT
Found at i:4467274 original size:18 final size:20
Alignment explanation
Indices: 4467243--4467284 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
4467233 GAACTAGAAC
*
4467243 GAAAAAAGAGAAGACTAAGA
1 GAAAAAAGAGAAGACAAAGA
*
4467263 GAAAAAA-A-AAGAGAAAGA
1 GAAAAAAGAGAAGACAAAGA
4467281 GAAA
1 GAAA
4467285 TAAATTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 1 0.05
20 7 0.35
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (20 bp):
GAAAAAAGAGAAGACAAAGA
Found at i:4468270 original size:2 final size:2
Alignment explanation
Indices: 4468263--4468300 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
4468253 TGAGAGTTTA
* *
4468263 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4468301 TTAGGAACTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4468625 original size:20 final size:21
Alignment explanation
Indices: 4468593--4468631 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4468583 TTTTTATAAA
4468593 ATTTGACCAAAG-TTGATCAT
1 ATTTGACCAAAGTTTGATCAT
4468613 ATTTGA-CATAAGTTTGATC
1 ATTTGACCA-AAGTTTGATC
4468632 GAGTTTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 9 0.53
21 6 0.35
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGACCAAAGTTTGATCAT
Found at i:4470410 original size:14 final size:16
Alignment explanation
Indices: 4470391--4470427 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
4470381 AGAATTTAAT
4470391 AATTTTAA-ATTT-TA
1 AATTTTAATATTTATA
4470405 AATTTTAATATTTATA
1 AATTTTAATATTTATA
*
4470421 ATTTTTA
1 AATTTTA
4470428 TTTATTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 4 0.20
16 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTTAATATTTATA
Found at i:4477273 original size:79 final size:79
Alignment explanation
Indices: 4477175--4477480 Score: 594
Period size: 79 Copynumber: 3.9 Consensus size: 79
4477165 GTAAACACAC
4477175 CAAAGTCTAAATTTAGTTAGCTTCTTCTTAGGTGCTTTACTTATGAAACAATTTGGGGATGACAT
1 CAAAGTCTAAATTTAGTTAGCTTCTTCTTAGGTGCTTTACTTATGAAACAATTTGGGGATGACAT
4477240 GTTTACTTATGAAA
66 GTTTACTTATGAAA
4477254 CAAAGTCTAAATTTAGTTAGCTTCTTCTTAGGTGCTTTACTTATGAAACAATTTGGGGATGACAT
1 CAAAGTCTAAATTTAGTTAGCTTCTTCTTAGGTGCTTTACTTATGAAACAATTTGGGGATGACAT
4477319 GTTTACTTATGAAA
66 GTTTACTTATGAAA
4477333 CAAAGTCTAAATTTAGTTAGCTTCTTCTTAGGTGCTTTACTTATGAAACAATTTGGGGATGACAT
1 CAAAGTCTAAATTTAGTTAGCTTCTTCTTAGGTGCTTTACTTATGAAACAATTTGGGGATGACAT
4477398 GTTTACTTATGAAA
66 GTTTACTTATGAAA
* *
4477412 CAAAGTCTAAATTTAGTTAGCTTCTTCTTCGGTGCTTTACTTATGAAACAATTTGGGGATGACAG
1 CAAAGTCTAAATTTAGTTAGCTTCTTCTTAGGTGCTTTACTTATGAAACAATTTGGGGATGACAT
4477477 GTTT
66 GTTT
4477481 CTATATCTTA
Statistics
Matches: 225, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 225 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (79 bp):
CAAAGTCTAAATTTAGTTAGCTTCTTCTTAGGTGCTTTACTTATGAAACAATTTGGGGATGACAT
GTTTACTTATGAAA
Found at i:4479693 original size:20 final size:20
Alignment explanation
Indices: 4479670--4479714 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4479660 TAAGTAAAAC
4479670 AAATTTATTTCATATAAATA
1 AAATTTATTTCATATAAATA
4479690 AAATTTATTTCATATAAATA
1 AAATTTATTTCATATAAATA
*
4479710 TAATT
1 AAATT
4479715 AAATAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTTATTTCATATAAATA
Found at i:4488012 original size:13 final size:13
Alignment explanation
Indices: 4487994--4488019 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4487984 TACACAAAGT
4487994 ATGTATCGATACA
1 ATGTATCGATACA
4488007 ATGTATCGATACA
1 ATGTATCGATACA
4488020 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4488017 original size:32 final size:33
Alignment explanation
Indices: 4487976--4488039 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
4487966 TAGCCAAACT
**
4487976 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
4488008 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
4488040 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:4492100 original size:15 final size:15
Alignment explanation
Indices: 4492080--4492110 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4492070 TAAAAATGTC
*
4492080 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4492095 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4492110 C
1 C
4492111 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4494202 original size:13 final size:13
Alignment explanation
Indices: 4494180--4494217 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
4494170 CATTTTTCTT
*
4494180 TGTATTGATACAA
1 TGTATCGATACAA
*
4494193 TGTATCGATACAC
1 TGTATCGATACAA
4494206 TGTATCGATACA
1 TGTATCGATACA
4494218 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4496775 original size:13 final size:13
Alignment explanation
Indices: 4496757--4496782 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4496747 TACACAAAGT
4496757 ATGTATCGATACA
1 ATGTATCGATACA
4496770 ATGTATCGATACA
1 ATGTATCGATACA
4496783 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4496782 original size:32 final size:33
Alignment explanation
Indices: 4496741--4496802 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
4496731 GCCAAACTTA
**
4496741 TATCGATACACAAAGTA-TGTATCGATACAATG
1 TATCGATACACAAAAAATTGTATCGATACAATG
4496773 TATCGATACACAAAAAATTGTATCGATACA
1 TATCGATACACAAAAAATTGTATCGATACA
4496803 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (33 bp):
TATCGATACACAAAAAATTGTATCGATACAATG
Found at i:4498698 original size:20 final size:20
Alignment explanation
Indices: 4498673--4498713 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4498663 ATATTTTATA
*
4498673 ATCATATTATATTTAAAATT
1 ATCATATAATATTTAAAATT
* *
4498693 ATCATATAATTTTTTAAATT
1 ATCATATAATATTTAAAATT
4498713 A
1 A
4498714 ATATTACATC
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:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
ATCATATAATATTTAAAATT
Found at i:4504640 original size:52 final size:52
Alignment explanation
Indices: 4504562--4504690 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
4504552 CGAAATATGA
*
4504562 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
4504614 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
4504666 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4504691 AAGATTAGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:4504704 original size:52 final size:52
Alignment explanation
Indices: 4504562--4504709 Score: 192
Period size: 52 Copynumber: 2.8 Consensus size: 52
4504552 CGAAATATGA
* *
4504562 AAATTTACCTGCATGTATCGATACATTTCA-TAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-ATCATTAGTGTATCGATACATCTGGGC
* **
4504614 AAATTTGCCTGTATGTATCGATAC-ATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATCAT-TAGTGTATCGATACATCTGGGC
** *
4504666 AAATTTGCCTGCATGTATCGATACAAAGATTAGCGTATCGATAC
1 AAATTTGCCTGCATGTATCGATACAATCATTAGTGTATCGATAC
4504710 GATGTATCGA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
50 1 0.01
52 80 0.96
53 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACAATCATTAGTGTATCGATACATCTGGGC
Found at i:4504737 original size:21 final size:21
Alignment explanation
Indices: 4504711--4504768 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
4504701 TATCGATACG
4504711 ATGTATCGATACATTTGAGTA
1 ATGTATCGATACATTTGAGTA
4504732 ATGTATCGATACATTTGAGTA
1 ATGTATCGATACATTTGAGTA
4504753 ATGTATCGATACATTT
1 ATGTATCGATACATTT
4504769 TCTTGGCAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATTTGAGTA
Found at i:4504831 original size:32 final size:32
Alignment explanation
Indices: 4504790--4504891 Score: 168
Period size: 32 Copynumber: 3.2 Consensus size: 32
4504780 GCTTCGTAGT
* * *
4504790 GATACATTGTATCGATATAAAACTTATGTAAC
1 GATACATTGTATCGATACAACACTTATGTATC
*
4504822 GATACATTGTATGGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
4504854 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
4504886 GATACA
1 GATACA
4504892 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATGTATC
Found at i:4504857 original size:19 final size:19
Alignment explanation
Indices: 4504829--4504892 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
4504819 AACGATACAT
*
4504829 TGTATGGATACAACACTTA
1 TGTATCGATACAACACTTA
4504848 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
4504861 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
4504880 TGTATCGATACAA
1 TGTATCGATACAA
4504893 ATCGTTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:4504866 original size:13 final size:13
Alignment explanation
Indices: 4504848--4504872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4504838 ACAACACTTA
4504848 TGTATCGATACAT
1 TGTATCGATACAT
4504861 TGTATCGATACA
1 TGTATCGATACA
4504873 ACACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4506436 original size:19 final size:18
Alignment explanation
Indices: 4506400--4506445 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
4506390 AATTAATTAA
4506400 AAAATTTATTTTATTATT
1 AAAATTTATTTTATTATT
4506418 AAAATATTATTTT-TATATT
1 AAAAT-TTATTTTAT-TATT
*
4506437 AATATTTAT
1 AAAATTTAT
4506446 ATAATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AAAATTTATTTTATTATT
Found at i:4507354 original size:21 final size:22
Alignment explanation
Indices: 4507313--4507354 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4507303 GAAAGTATGA
*
4507313 GAAAATATTGCTAAATTTCAAC
1 GAAAATATTGCTAAATCTCAAC
*
4507335 GAAAATA-TGTTAAATCTCAA
1 GAAAATATTGCTAAATCTCAA
4507355 TACGAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.31
Consensus pattern (22 bp):
GAAAATATTGCTAAATCTCAAC
Found at i:4509556 original size:46 final size:46
Alignment explanation
Indices: 4509497--4509587 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
4509487 ATATAAGGTC
*
4509497 CCAACGATTAAAAATTCAAAATTTTCACAATTTGTATCGATACATA
1 CCAACGATCAAAAATTCAAAATTTTCACAATTTGTATCGATACATA
*
4509543 CCAACGGTCAAAAATTCAAAATTTTCACAATTTGTATCGATACAT
1 CCAACGATCAAAAATTCAAAATTTTCACAATTTGTATCGATACAT
4509588 TCTTCACTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.32
Consensus pattern (46 bp):
CCAACGATCAAAAATTCAAAATTTTCACAATTTGTATCGATACATA
Found at i:4509664 original size:50 final size:50
Alignment explanation
Indices: 4509575--4509709 Score: 182
Period size: 50 Copynumber: 2.7 Consensus size: 50
4509565 TTTCACAATT
* * * *
4509575 TGTATCGATACATTCTTCACTGTATTGATATATTCTGGGTTTTACCTAGA
1 TGTATCGATACATTCTTTAATGTATCGATACATTCTGGGTTTTACCTAGA
* * *
4509625 TGTGTCGATACATTCTTTATTGTATCGATACATTTTGGGTTTTACCTAGA
1 TGTATCGATACATTCTTTAATGTATCGATACATTCTGGGTTTTACCTAGA
*
4509675 TGTATCGATACATT-TCTTAATGGATCGATACATTC
1 TGTATCGATACATTCT-TTAATGTATCGATACATTC
4509710 AGGCATTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 1 0.01
50 73 0.99
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (50 bp):
TGTATCGATACATTCTTTAATGTATCGATACATTCTGGGTTTTACCTAGA
Found at i:4514808 original size:87 final size:87
Alignment explanation
Indices: 4514662--4514836 Score: 341
Period size: 87 Copynumber: 2.0 Consensus size: 87
4514652 CCAATTTACA
4514662 AGACAAAGTGCTGACATTATGATGTTGTTCAGCTGATAATGGGATAGGTTGGTGGCCAATTCAAT
1 AGACAAAGTGCTGACATTATGATGTTGTTCAGCTGATAATGGGATAGGTTGGTGGCCAATTCAAT
4514727 GGTCTTCCAACTCTAAAGTGTG
66 GGTCTTCCAACTCTAAAGTGTG
4514749 AGACAAAGTGCTGACATTATGATGTTGTTCAGCTGATAATGGGATAGGTTGGTGGCCAATTCAAT
1 AGACAAAGTGCTGACATTATGATGTTGTTCAGCTGATAATGGGATAGGTTGGTGGCCAATTCAAT
*
4514814 GGTCTTCCAATTCTAAAGTGTG
66 GGTCTTCCAACTCTAAAGTGTG
4514836 A
1 A
4514837 TGGTGAGGAG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (87 bp):
AGACAAAGTGCTGACATTATGATGTTGTTCAGCTGATAATGGGATAGGTTGGTGGCCAATTCAAT
GGTCTTCCAACTCTAAAGTGTG
Found at i:4515120 original size:20 final size:20
Alignment explanation
Indices: 4515095--4515187 Score: 159
Period size: 20 Copynumber: 4.7 Consensus size: 20
4515085 AACAGAATGT
4515095 AAATGTATCGATACATTGAA
1 AAATGTATCGATACATTGAA
4515115 AAATGTATCGATACATTGAA
1 AAATGTATCGATACATTGAA
* *
4515135 AAATGTATCGATACATTCAT
1 AAATGTATCGATACATTGAA
*
4515155 ACATGTATCGATACATTGAA
1 AAATGTATCGATACATTGAA
4515175 AAATGTATCGATA
1 AAATGTATCGATA
4515188 TATTTGGGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (20 bp):
AAATGTATCGATACATTGAA
Found at i:4516362 original size:78 final size:78
Alignment explanation
Indices: 4516127--4516523 Score: 455
Period size: 78 Copynumber: 5.1 Consensus size: 78
4516117 TCATTGATGT
* * * * *
4516127 TTTTATTTCTAAAATACCGATTTTTCACCATTGGGGATACTTCAATCC-CGTTATTTTCGAAGGA
1 TTTTATTTCTAAAACACCGATTTTTCA-CAATCGGGATACTCCAA-CCTCGTTATTTTCGAAGGG
*
4516191 ATACTCCAACCCTGA
64 ATACTCCAACCCCGA
* * * *
4516206 TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGACTACTCCAACC-CAGTTATTTTCAAAAG
1 TTTTATTTCTAAAACACCGATTTTTCACAATC-GGGA-TACTCCAACCTC-GTTATTTTCGAAGG
4516270 GATACTCCAACCCCGA
63 GATACTCCAACCCCGA
* *
4516286 TTTTATTTCTAAAACACCGATTTTCCACAATCGGGATACTCCAACCTCATTA-TTTCTGAAGGGA
1 TTTTATTTCTAAAACACCGATTTTTCACAATCGGGATACTCCAACCTCGTTATTTTC-GAAGGGA
* *
4516350 TACTCTAACCCCGG
65 TACTCCAACCCCGA
* * *
4516364 TTTTATTTCTAAAACATCGATTTTTCATAATCGGGGATACTTCAACCTCGTTATTTTCGATA-GG
1 TTTTATTTCTAAAACACCGATTTTTCACAATC-GGGATACTCCAACCTCGTTATTTTCGA-AGGG
*
4516428 ATACTCCAACCCTGA
64 ATACTCCAACCCCGA
* * * *
4516443 TTTTATTTCTAAAATACCGA-TTTTCACCATCGGAGATACTCCAACCTCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTTCACAATCGG-GATACTCCAACCTCGTTATTTTCGAAGGGA
* *
4516507 TACGCTAACCCC-A
65 TACTCCAACCCCGA
4516520 TTTT
1 TTTT
4516524 TATCTCCAAA
Statistics
Matches: 272, Mismatches: 36, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
77 11 0.04
78 105 0.39
79 89 0.33
80 67 0.25
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (78 bp):
TTTTATTTCTAAAACACCGATTTTTCACAATCGGGATACTCCAACCTCGTTATTTTCGAAGGGAT
ACTCCAACCCCGA
Found at i:4516439 original size:79 final size:78
Alignment explanation
Indices: 4516127--4516498 Score: 466
Period size: 79 Copynumber: 4.7 Consensus size: 78
4516117 TCATTGATGT
* * * *
4516127 TTTTATTTCTAAAATACCGATTTTTCACCATTGGGGATACTTCAATCC-CGTTATTTTCGAAGGA
1 TTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAA-CCTCGTTATTTTCGAAGG-
*
4516191 ATACTCCAACCCTGA
64 ATACTCCAACCCCGA
* * *
4516206 TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGACTACTCCAACC-CAGTTATTTTCAAAAG
1 TTTTATTTCTAAAACACCGATTTTTCACAATCGGGGA-TACTCCAACCTC-GTTATTTTC-GAAG
4516270 GATACTCCAACCCCGA
63 GATACTCCAACCCCGA
* *
4516286 TTTTATTTCTAAAACACCGATTTTCCACAATC-GGGATACTCCAACCTCATTA-TTTCTGAAGGG
1 TTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCTCGTTATTTTC-GAA-GG
* *
4516349 ATACTCTAACCCCGG
64 ATACTCCAACCCCGA
* * *
4516364 TTTTATTTCTAAAACATCGATTTTTCATAATCGGGGATACTTCAACCTCGTTATTTTCGATAGGA
1 TTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCTCGTTATTTTCGA-AGGA
*
4516429 TACTCCAACCCTGA
65 TACTCCAACCCCGA
* * *
4516443 TTTTATTTCTAAAATACCGA-TTTTCACCATCGGAGATACTCCAACCTCGTTATTTT
1 TTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCTCGTTATTTT
4516499 TGAGGGGATA
Statistics
Matches: 256, Mismatches: 29, Indels: 17
0.85 0.10 0.06
Matches are distributed among these distances:
77 6 0.02
78 89 0.35
79 93 0.36
80 64 0.25
81 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (78 bp):
TTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCTCGTTATTTTCGAAGGAT
ACTCCAACCCCGA
Found at i:4516483 original size:157 final size:156
Alignment explanation
Indices: 4516127--4516523 Score: 534
Period size: 157 Copynumber: 2.5 Consensus size: 156
4516117 TCATTGATGT
* * *
4516127 TTTTATTTCTAAAATACCGATTTTTCACCATTGGGGATACTTCAATCC-CGTTATTTTCGAAGGA
1 TTTTATTTCTAAAATACCGA-TTTTCACCA-TCGGGATACTCCAA-CCTCGTTATTTT-GAAGGG
* *
4516191 ATACTCCAACCCTGATTTTATTTCTAAAACATCGATTTTTCACTATCGGGGACTACTCCAACCCA
62 ATACTCTAACCCCGATTTTATTTCTAAAACATCGATTTTTCACTATCGGGGACTACTCCAACCCA
4516256 GTTATTTTCAAAAGGATACTCCAACCCCGA
127 GTTATTTTCAAAAGGATACTCCAACCCCGA
* * *
4516286 TTTTATTTCTAAAACACCGATTTTCCACAATCGGGATACTCCAACCTCATTATTTCTGAAGGGAT
1 TTTTATTTCTAAAATACCGATTTT-CACCATCGGGATACTCCAACCTCGTTATTT-TGAAGGGAT
* *
4516351 ACTCTAACCCCGGTTTTATTTCTAAAACATCGATTTTTCA-TAATCGGGGA-TACTTCAACCTC-
64 ACTCTAACCCCGATTTTATTTCTAAAACATCGATTTTTCACT-ATCGGGGACTACTCCAACC-CA
* * *
4516413 GTTATTTTCGATAGGATACTCCAACCCTGA
127 GTTATTTTCAAAAGGATACTCCAACCCCGA
*
4516443 TTTTATTTCTAAAATACCGATTTTCACCATCGGAGATACTCCAACCTCGTTATTTTTGAGGGGAT
1 TTTTATTTCTAAAATACCGATTTTCACCATCGG-GATACTCCAACCTCGTTA-TTTTGAAGGGAT
*
4516508 ACGCTAACCCC-ATTTT
64 ACTCTAACCCCGATTTT
4516524 TATCTCCAAA
Statistics
Matches: 212, Mismatches: 19, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
156 12 0.06
157 97 0.46
158 79 0.37
159 24 0.11
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (156 bp):
TTTTATTTCTAAAATACCGATTTTCACCATCGGGATACTCCAACCTCGTTATTTTGAAGGGATAC
TCTAACCCCGATTTTATTTCTAAAACATCGATTTTTCACTATCGGGGACTACTCCAACCCAGTTA
TTTTCAAAAGGATACTCCAACCCCGA
Found at i:4518583 original size:78 final size:79
Alignment explanation
Indices: 4518410--4518603 Score: 225
Period size: 78 Copynumber: 2.5 Consensus size: 79
4518400 TGGAGATGAA
* * * **
4518410 AAAAATTCGGTATTTTGGAAGTAAAAATGAGGTTGGAGTATCCCTTTGGAGATGGTGGGGTTGTA
1 AAAAATTCAGTATTTTGGAAGTAAAAAAG-GGTTGGAATATCCCTTTAAAGATGGTGGGGTTGTA
**
4518475 GTATCTCCAGCGATG
65 GTATCTCCAAAGATG
* * *
4518490 AAAAATTGA-TATTTTGAAAGTAAAAACAGGGTTGGAATAT-CTTTTAAAGATGGTGGGGTTAG-
1 AAAAATTCAGTATTTTGGAAGTAAAAA-AGGGTTGGAATATCCCTTTAAAGATGGTGGGGTT-GT
4518552 AGTATC-CCAAAGATG
64 AGTATCTCCAAAGATG
*
4518567 AAAAATTCAGTGTTTTGGAAGTAAAAATAGGGTTGGA
1 AAAAATTCAGTATTTTGGAAGTAAAAA-AGGGTTGGA
4518604 GTGCCCCTTT
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
77 15 0.15
78 47 0.48
79 27 0.28
80 8 0.08
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (79 bp):
AAAAATTCAGTATTTTGGAAGTAAAAAAGGGTTGGAATATCCCTTTAAAGATGGTGGGGTTGTAG
TATCTCCAAAGATG
Found at i:4521422 original size:155 final size:155
Alignment explanation
Indices: 4521142--4522113 Score: 1059
Period size: 155 Copynumber: 6.3 Consensus size: 155
4521132 TATAGGTACT
* * * * *
4521142 TTCGACGTAAAAGTATCTGATACCCTTAAAAGACTTAAAAAGG-T-TTGAAATGGGATGAACCTA
1 TTCGACGTAAAAGTATCCGATACCCTTAAAGGACTTAAAAAGGATAAT-AGATGAGATGAACCTA
* ** * * *
4521205 TCCTAACTGCCTACCTTTAGCATAAAAGCGGA-TCTGGTGACAACCTAAGACTCGGTTCTAAAAA
65 TCCTAAATATCTACCTTCAGCATAAAAGCAGACTC-GGTGACAACCTAAGACTCGATTCTAAAAA
* * *
4521269 AATACGAAAATACCCCTAAAGAATACT
129 ATTACGAAAATACCCCTAAAGGATACC
* * * * *
4521296 TTCGATGTAAAAGTATCCGATACTCATAAAGGACTTAAAGAGGATAATAGATGAGATAAACCTAT
1 TTCGACGTAAAAGTATCCGATACCCTTAAAGGACTTAAAAAGGATAATAGATGAGATGAACCTAT
* *
4521361 CCTAAATATCTACCTTCATCATAAAAGCAGACTCGGTGACAACCTAAGACTC-AGTTTTAAAAAA
66 CCTAAATATCTACCTTCAGCATAAAAGCAGACTCGGTGACAACCTAAGACTCGA-TTCTAAAAAA
*
4521425 TTACGAAAATA-CCCTTAAGGATACC
130 TTACGAAAATACCCCTAAAGGATACC
* * *
4521450 TTCGACGTAAAAGTATCCGACACCCCTAAAAGACTTAAAAAGGATAATAGATGAGATGAACCTAT
1 TTCGACGTAAAAGTATCCGATACCCTTAAAGGACTTAAAAAGGATAATAGATGAGATGAACCTAT
* * * *
4521515 CCTAAATATCTACCTTCAGGCATAAAAGCGGATTCGGTGACAACTTAGGACTCGATTCTAAAAAA
66 CCTAAATATCTACCTTCA-GCATAAAAGCAGACTCGGTGACAACCTAAGACTCGATTCTAAAAAA
**
4521580 TTACGAAAATACCCC-AGGGGATACC
130 TTACGAAAATACCCCTAAAGGATACC
* * *
4521605 TTCGACGTGAAAGTACCCTGATACCCTTAAATGACTTAAAAAGGATAATAGATGAGATGAACCTA
1 TTCGACGTAAAAGTATCC-GATACCCTTAAAGGACTTAAAAAGGATAATAGATGAGATGAACCTA
* * * * *
4521670 TCCTAAATATCTAACTTCAGCATAAAAACGGACCCGGTGACAACCTAAGACTCGGTTCT-AAAAA
65 TCCTAAATATCTACCTTCAGCATAAAAGCAGACTCGGTGACAACCTAAGACTCGATTCTAAAAAA
** * *
4521734 TTACGAAAATA-CTTTTAGGGATACC
130 TTACGAAAATACCCCTAAAGGATACC
* *
4521759 TTCGACGTAAAAGTA-CTCGATACCTTTAAAGAACTTAAAAAGGATAATAGATGAGATGAACCTT
1 TTCGACGTAAAAGTATC-CGATACCCTTAAAGGACTTAAAAAGGATAATAGATGAGATGAACC-T
* * * * * * * *
4521823 ATCCTAAATATTTACCTTCGGCATAAAAGCATACCCGGTGATAACCTAGGACTCGATTTTGAAAA
64 ATCCTAAATATCTACCTTCAGCATAAAAGCAGACTCGGTGACAACCTAAGACTCGATTCTAAAAA
** * *
4521888 ATTATAAAAAT-GCCCTATGAAGGATACT
129 ATTACGAAAATACCCCTA--AAGGATACC
* * *
4521916 TTCGATGTAAAAGTACCCGATACTCC-TAAAGAACTTAAAAAGGATAATAGATGAGATGAACCTA
1 TTCGACGTAAAAGTATCCGATAC-CCTTAAAGGACTTAAAAAGGATAATAGATGAGATGAACCTA
* * * * * * * *
4521980 TCCTAAATATTTACCTTCGGAATAAAAGTAGAC-CTGGTGCCAATCTAAGACTTGATTTTAAAAA
65 TCCTAAATATCTACCTTCAGCATAAAAGCAGACTC-GGTGACAACCTAAGACTCGATTCTAAAAA
* * * *
4522044 ATTACGAAAATGCCTCTAGAGGAGACC
129 ATTACGAAAATACCCCTAAAGGATACC
* * ** * *
4522071 TTCAATGTAAAAGTATTAGATGCCCTTAGAGGACTTAAAAAGG
1 TTCGACGTAAAAGTATCCGATACCCTTAAAGGACTTAAAAAGG
4522114 TTTGAAATGA
Statistics
Matches: 698, Mismatches: 100, Indels: 39
0.83 0.12 0.05
Matches are distributed among these distances:
153 43 0.06
154 216 0.31
155 238 0.34
156 132 0.19
157 67 0.10
158 2 0.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (155 bp):
TTCGACGTAAAAGTATCCGATACCCTTAAAGGACTTAAAAAGGATAATAGATGAGATGAACCTAT
CCTAAATATCTACCTTCAGCATAAAAGCAGACTCGGTGACAACCTAAGACTCGATTCTAAAAAAT
TACGAAAATACCCCTAAAGGATACC
Found at i:4523436 original size:11 final size:11
Alignment explanation
Indices: 4523420--4523454 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
4523410 TCCAAAAATC
4523420 TTTTCTTTTCT
1 TTTTCTTTTCT
*
4523431 TTTTCTTCTCT
1 TTTTCTTTTCT
4523442 TTTTCATTTTCT
1 TTTTC-TTTTCT
4523454 T
1 T
4523455 CTCGTCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:4523451 original size:17 final size:17
Alignment explanation
Indices: 4523425--4523457 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4523415 AAATCTTTTC
*
4523425 TTTTCTTTTTCTTCTCT
1 TTTTCATTTTCTTCTCT
4523442 TTTTCATTTTCTTCTC
1 TTTTCATTTTCTTCTC
4523458 GTCAATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCATTTTCTTCTCT
Found at i:4523769 original size:14 final size:13
Alignment explanation
Indices: 4523750--4523783 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
4523740 CAATAAAAAT
4523750 AATTAAATTATAAA
1 AATTAAATT-TAAA
4523764 AATTAAAATTTAAA
1 AATT-AAATTTAAA
4523778 AATTAA
1 AATTAA
4523784 GATAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 12 0.63
15 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATTAAATTTAAA
Found at i:4524278 original size:163 final size:165
Alignment explanation
Indices: 4523996--4524397 Score: 451
Period size: 163 Copynumber: 2.4 Consensus size: 165
4523986 TATTAAATGA
* ** *
4523996 ATTTTAAAAATTTTA-A-ATAAAAAAAATCACCCT-AAAAATATTTACGGAATAGAAAACTCAGT
1 ATTTTAAAAATTTTAGACCT-AAAAAAATC-CCCTCGGAAATATTTATGGAATAGAAAACTCA-T
** ** *
4524058 TTTTTGTGAAAGTAGGCATTTCAAGGAAAAAAATAAAAAATTCATGAAAATGAATTAAATTTTC-
63 TTTTTGAAAAAAAAGGCATTTCAA-GAAAAAAATAAAAAACTCATGAAAATGAATTAAATTTTCA
* * * *
4524122 AAAACGAATTTAATGGAAATTCTATGACATTGTTAGATAC
127 AAAACG-ATTTAATGGAAATTCCATGAAATTATTACATAC
* *
4524162 ATTTTAAAAATTTTAGACC-AAGGAAAATCCCCTCGGAAATATTTATGGAATAGGAAACTCGATT
1 ATTTTAAAAATTTTAGACCTAA-AAAAATCCCCTCGGAAATATTTATGGAATAGAAAACTC-ATT
** *
4524226 TTTTGAAAAAAAAGG-ATTTC-A-AAAAAAATCCAAAACTCATGAATATGAATTAAATTTTCAAA
64 TTTTGAAAAAAAAGGCATTTCAAGAAAAAAATAAAAAACTCATGAAAATGAATTAAATTTTCAAA
* *
4524288 AATGATTTAATGGGAATTCCATGAAATTATTACATAC
129 AACGATTTAATGGAAATTCCATGAAATTATTACATAC
* * * *
4524325 ATTTTAAAAATTTTAGACCTAAAAAAATCCCTTTGGACATATTTATGGAATAGAAAAATCAATTT
1 ATTTTAAAAATTTTAGACCTAAAAAAATCCCCTCGGAAATATTTATGGAATAGAAAACTC-ATTT
*
4524390 TTCGAAAA
65 TTTGAAAA
4524398 TAGAAAAATT
Statistics
Matches: 201, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
163 124 0.62
164 7 0.03
165 1 0.00
166 26 0.13
167 42 0.21
168 1 0.00
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (165 bp):
ATTTTAAAAATTTTAGACCTAAAAAAATCCCCTCGGAAATATTTATGGAATAGAAAACTCATTTT
TTGAAAAAAAAGGCATTTCAAGAAAAAAATAAAAAACTCATGAAAATGAATTAAATTTTCAAAAA
CGATTTAATGGAAATTCCATGAAATTATTACATAC
Found at i:4526991 original size:78 final size:77
Alignment explanation
Indices: 4526759--4527014 Score: 247
Period size: 78 Copynumber: 3.3 Consensus size: 77
4526749 GAGATAAGAG
* * * * *
4526759 CGGGGTTGGAGTAT-CTCCAATGGTGGAAAATCGATGTTTTGGAAACAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCT-CGATTGT-GAAAATCGATGTTTTGAAAAAAAACTGGGGTTGGAGTAT
4526823 -CCTCTCAGAAATAA
64 CCCT-TCAGAAATAA
* * * ** * *
4526837 CGGGGTTGGAGTATCCTCGATTGTGAAAAATTGATATTTT-AGAAATAAGGTCGGGATTAGAGTA
1 CGGGGTTGGAGTATCCTCGATTGTG-AAAATCGATGTTTTGA-AAAAAAACT-GGGGTTGGAGTA
* *
4526901 -CTCGTC-GAAAATAA
63 TCCCTTCAG-AAATAA
4526915 CGGGGTTGGAGTATTCC-CGATTGTGAAAAGTC-AGTGTTTTGAAAAAAAACTGGGGTTGGAGTA
1 CGGGGTTGGAGTA-TCCTCGATTGTGAAAA-TCGA-TGTTTTGAAAAAAAACTGGGGTTGGAGTA
4526978 TCCCTTCAGAAATAA
63 TCCCTTCAGAAATAA
4526993 CGGGGTTGGAGTATCCTCGATT
1 CGGGGTTGGAGTATCCTCGATT
4527015 ATAAAATTTT
Statistics
Matches: 143, Mismatches: 22, Indels: 26
0.75 0.12 0.14
Matches are distributed among these distances:
77 20 0.14
78 105 0.73
79 18 0.13
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (77 bp):
CGGGGTTGGAGTATCCTCGATTGTGAAAATCGATGTTTTGAAAAAAAACTGGGGTTGGAGTATCC
CTTCAGAAATAA
Found at i:4528504 original size:16 final size:16
Alignment explanation
Indices: 4528477--4528525 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
4528467 TTTTTTAATT
4528477 ATTTTTTGATTTTTTTG
1 ATTTTTT-ATTTTTTTG
*
4528494 ATTTTTTATTTCTTTG
1 ATTTTTTATTTTTTTG
*
4528510 ATTTTTAATTTTTTTG
1 ATTTTTTATTTTTTTG
4528526 TGTCGAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 22 0.76
17 7 0.24
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (16 bp):
ATTTTTTATTTTTTTG
Found at i:4528524 original size:9 final size:9
Alignment explanation
Indices: 4528478--4528515 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
4528468 TTTTTAATTA
4528478 TTTTTTGAT
1 TTTTTTGAT
4528487 TTTTTTGA-
1 TTTTTTGAT
4528495 TTTTTT-AT
1 TTTTTTGAT
*
4528503 TTCTTTGAT
1 TTTTTTGAT
4528512 TTTT
1 TTTT
4528516 AATTTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
7 1 0.04
8 11 0.44
9 13 0.52
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.79
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:4529217 original size:43 final size:43
Alignment explanation
Indices: 4529153--4529246 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
4529143 AGAAGAGTGA
* * *
4529153 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTT
1 TAAAGATGCCAATATGATGATTCAAAGCCAGCGACATTGGGTT
* * * **
4529196 TAAAGGTGCCAATGTGATGATTCAAAGCCAGTGACATTGGACT
1 TAAAGATGCCAATATGATGATTCAAAGCCAGCGACATTGGGTT
4529239 TAAAGATG
1 TAAAGATG
4529247 ACAGAGGTGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (43 bp):
TAAAGATGCCAATATGATGATTCAAAGCCAGCGACATTGGGTT
Found at i:4529351 original size:61 final size:63
Alignment explanation
Indices: 4529258--4529593 Score: 333
Period size: 61 Copynumber: 5.5 Consensus size: 63
4529248 CAGAGGTGTT
* * *
4529258 AATATGCTAATTCAAGGCCAACGATATCGGGCTTG-AAGTTGAGAA-AATTGATAAAGGTGCC
1 AATATACTGATTCAAGGCCAACGATATCGGGCTTGAAAGATGAGAAGAATTGATAAAGGTGCC
* * * *
4529319 AATATGCTGATTCAAAGCCAGCGATATTGGGCTTGAAAGATGAGAAGAA-TGATAAAGGTGCC
1 AATATACTGATTCAAGGCCAACGATATCGGGCTTGAAAGATGAGAAGAATTGATAAAGGTGCC
* * * *
4529381 AATATACTGATTCAAGGCCAGCGATATTGGGCTTGAAAGA-AAGAAGATTTGA-AAA-GTGCC
1 AATATACTGATTCAAGGCCAACGATATCGGGCTTGAAAGATGAGAAGAATTGATAAAGGTGCC
* * * * * *
4529441 AATGTATTGATTCAAGGCCAACGACATCGAGATTGAAA-ATGAGAA-AACTGATAAAGGTGCC
1 AATATACTGATTCAAGGCCAACGATATCGGGCTTGAAAGATGAGAAGAATTGATAAAGGTGCC
* *
4529502 AATATACTGATTCAAGGCCAACGATA-CTGGACTT-AAAGAT--GAAG-ATT--TAACGAGTGCC
1 AATATACTGATTCAAGGCCAACGATATC-GGGCTTGAAAGATGAGAAGAATTGATAAAG-GTGCC
* ** * *
4529560 AATGTGTTGATTCAAGGCCAACGACATTGGGCTT
1 AATATACTGATTCAAGGCCAACGATATCGGGCTT
4529594 AGAAGGGTTA
Statistics
Matches: 231, Mismatches: 33, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
57 4 0.02
58 32 0.14
59 10 0.04
60 47 0.20
61 73 0.32
62 63 0.27
63 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (63 bp):
AATATACTGATTCAAGGCCAACGATATCGGGCTTGAAAGATGAGAAGAATTGATAAAGGTGCC
Found at i:4529477 original size:60 final size:59
Alignment explanation
Indices: 4529305--4529586 Score: 182
Period size: 62 Copynumber: 4.7 Consensus size: 59
4529295 GTTGAGAAAA
* * * * * * *
4529305 TTGATAAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATTGGGCTTGAAAGATGAGAAGA-
1 TTGA-AAA-GTGCCAATATACTGATTCAAGGCCAACGACA-TCGGATTGAAAGA-AAGAAGAT
* * * * *
4529367 ATGATAAAGGTGCCAATATACTGATTCAAGGCCAGCGATATTGGGCTTGAAAGAAAGAAGAT
1 TTGA-AAA-GTGCCAATATACTGATTCAAGGCCAACGACA-TCGGATTGAAAGAAAGAAGAT
* * * *
4529429 TTGAAAAGTGCCAATGTATTGATTCAAGGCCAACGACATCGAGATTGAAA-ATGAGAA-AA
1 TTGAAAAGTGCCAATATACTGATTCAAGGCCAACGACATCG-GATTGAAAGA-AAGAAGAT
* * *
4529488 CTGATAAAGGTGCCAATATACTGATTCAAGGCCAACGATA-CTGGACTT-AAAG-ATGAAGAT
1 TTGA-AAA-GTGCCAATATACTGATTCAAGGCCAACGACATC-GGA-TTGAAAGAAAGAAGAT
* * **
4529548 TT-AACGAGTGCCAATGTGTTGATTCAAGGCCAACGACAT
1 TTGAA-AAGTGCCAATATACTGATTCAAGGCCAACGACAT
4529587 TGGGCTTAGA
Statistics
Matches: 183, Mismatches: 26, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
58 28 0.15
59 12 0.07
60 49 0.27
61 40 0.22
62 54 0.30
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (59 bp):
TTGAAAAGTGCCAATATACTGATTCAAGGCCAACGACATCGGATTGAAAGAAAGAAGAT
Found at i:4529496 original size:183 final size:179
Alignment explanation
Indices: 4529267--4529593 Score: 440
Period size: 183 Copynumber: 1.8 Consensus size: 179
4529257 TAATATGCTA
* * * ** * *
4529267 ATTCAAGGCCAACGATATCGGGCTTGAAGTTGAGAAAATTGATAAAGGTGCCAATATGCTGATTC
1 ATTCAAGGCCAACGACATCGAGATTGAAAATGAGAAAACTGATAAAGGTGCCAATATACTGATTC
* * *
4529332 AAAGCCAGCGATATTGGGCTTGAAAGATGAGAAGAATGATAAAG-GTGCCAATATACTGATTCAA
66 AAAGCCAACGATACTGGACTT-AAAGAT--GAAG-AT-ATAAAGAGTGCCAATATACTGATTCAA
* *
4529396 GGCCAGCGATATTGGGCTTGAAAGAAAGAAGATTTGAAAAGTGCCAATGTATTG
126 GGCCAACGACATTGGGCTTGAAAGAAAGAAGATTTGAAAAGTGCCAATGTATTG
4529450 ATTCAAGGCCAACGACATCGAGATTGAAAATGAGAAAACTGATAAAGGTGCCAATATACTGATTC
1 ATTCAAGGCCAACGACATCGAGATTGAAAATGAGAAAACTGATAAAGGTGCCAATATACTGATTC
* * * * **
4529515 AAGGCCAACGATACTGGACTTAAAGATGAAGATTTAACGAGTGCCAATGTGTTGATTCAAGGCCA
66 AAAGCCAACGATACTGGACTTAAAGATGAAGATATAAAGAGTGCCAATATACTGATTCAAGGCCA
4529580 ACGACATTGGGCTT
131 ACGACATTGGGCTT
4529594 AGAAGGGTTA
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
178 4 0.03
179 36 0.29
180 4 0.03
182 6 0.05
183 75 0.60
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (179 bp):
ATTCAAGGCCAACGACATCGAGATTGAAAATGAGAAAACTGATAAAGGTGCCAATATACTGATTC
AAAGCCAACGATACTGGACTTAAAGATGAAGATATAAAGAGTGCCAATATACTGATTCAAGGCCA
ACGACATTGGGCTTGAAAGAAAGAAGATTTGAAAAGTGCCAATGTATTG
Found at i:4529667 original size:32 final size:31
Alignment explanation
Indices: 4529608--4529680 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 31
4529598 GGGTTATGTA
*
4529608 GGCTTTAGAAGGGTTGCCACCGACTTGTGTG
1 GGCTTTAGAAAGGTTGCCACCGACTTGTGTG
*
4529639 GGCTTTGAGAAAGGTTGTCACC-AGCTTGTGTG
1 GGCTTT-AGAAAGGTTGCCACCGA-CTTGTGTG
4529671 GGCTTTAGAA
1 GGCTTTAGAA
4529681 GGGTCCCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 11 0.29
32 27 0.71
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.30
Consensus pattern (31 bp):
GGCTTTAGAAAGGTTGCCACCGACTTGTGTG
Found at i:4529744 original size:28 final size:28
Alignment explanation
Indices: 4529667--4530265 Score: 455
Period size: 28 Copynumber: 21.1 Consensus size: 28
4529657 CACCAGCTTG
* * *
4529667 TGTGGGCTTT-AGAAGGGTCCCACTAACT
1 TGTGGGCTTTGA-AAAGGTGCCACTGACT
* * *
4529695 TGTAGGCTTTTGAAATGATGCCACTGACT
1 TGTGGGC-TTTGAAAAGGTGCCACTGACT
* * *
4529724 CGTGGGCTTTGAAAAGGTGCCATTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
4529752 CGTGGGATTT-AAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
**
4529780 TGTGGGCTTT-AAGCGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
4529808 TGTGGGCTTTG-AACGAGTGTCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
** *
4529836 TGTGGGCTTT-AAGCGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* **
4529864 TGTGGTCTTTGAATGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
4529892 TATGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
4529920 CGTGGGCTTT-AAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
* * * *
4529948 CGTGGGCTTTAAAAAGATGCTACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
4529976 TGTGGGCTTT-AAAAGGGTACCACTAACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
* * *
4530004 TATGGGCTTTGAAAAGGAGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
** * * *
4530032 CATGGGCATTG-GAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
4530060 TGTGGGCTTAGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
4530088 GGTGGGTTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
***
4530116 CAAGGGCTTT-AAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
*
4530144 TGTGGGCTTT-AAAAGGTTGCCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
4530172 TGTGGGCTTTGAAAAGGTCCCA-TCGACT
1 TGTGGGCTTTGAAAAGGTGCCACT-GACT
** * **
4530200 CATGGGCTTTGGAGAAGGTTGCCACCAACT
1 TGTGGGCTTT-GAAAAGG-TGCCACTGACT
* **
4530230 TGTATGGGCTTTAGAGAAGGTTGCCACCAACT
1 TG--TGGGCTTT-GAAAAGG-TGCCACTGACT
4530262 TGTG
1 TGTG
4530266 TGGGCTTTAA
Statistics
Matches: 469, Mismatches: 79, Indels: 44
0.79 0.13 0.07
Matches are distributed among these distances:
27 25 0.05
28 357 0.76
29 48 0.10
30 10 0.02
32 29 0.06
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:4529817 original size:84 final size:84
Alignment explanation
Indices: 4529608--4530188 Score: 496
Period size: 84 Copynumber: 6.8 Consensus size: 84
4529598 GGGTTATGTA
* * * * *
4529608 GGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAAGGTTGTCACCAGCTTGTGTGGG
1 GGCTTTA-AA-GGATGCCACTGAC-T-TGTGGGCTTTGA-AAAGG-TGCCACTAAC-T-TGTGGG
* * * * *
4529673 CTTT-AGAAGGGTCCCACTAACTTGTA
58 CTTTGAAAAGGATGCCACTAACTCGTG
* * * * *
4529699 GGCTTTTGAAATGATGCCACTGACTCGTGGGCTTTGAAAAGGTGCCATTAACTCGTGGGATTT-A
1 GGC-TTT-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGA
* *
4529763 AAAGGATGCCACTGACTTGTG
64 AAAGGATGCCACTAACTCGTG
* * * *
4529784 GGCTTTAAGCGGATGCCACTGACTTGTGGGCTTTG-AACGAGTGTCACTGACTTGTGGGCTTT-A
1 GGCTTTAA-AGGATGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTAACTTGTGGGCTTTGA
** *
4529847 AGCGGATGCCACTAACTTGTG
64 AAAGGATGCCACTAACTCGTG
* * * * * * *
4529868 GTCTTTGAATGGGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTT-AA
1 GGCTTT-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAA
*
4529932 AAGGGTGCCACTAACTCGTG
65 AAGGATGCCACTAACTCGTG
* * * *
4529952 GGCTTTAAAAAGATGCTACTGACTTGTGGGCTTT-AAAAGGGTACCACTAACTTATGGGCTTTGA
1 GGCTTT-AAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTAACTTGTGGGCTTTGA
*
4530016 AAAGGA-GCCACTAACTCATG
64 AAAGGATGCCACTAACTCGTG
** * * * * * *
4530036 GGCATTGGAAGGATGCCACTAACTTGTGGGCTTAGAAAGGGTGCCACTGACTGGTGGGTTTTGAA
1 GGC-TTTAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAA
* **
4530101 AAGG-TGCCACTGACTCAAG
65 AAGGATGCCACTAACTCGTG
*
4530120 GGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGGTTGCCACTAACTTGTGGGCTTTGA
1 GGCTTT-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGA
4530184 AAAGG
64 AAAGG
4530189 TCCCATCGAC
Statistics
Matches: 402, Mismatches: 75, Indels: 33
0.79 0.15 0.06
Matches are distributed among these distances:
83 15 0.04
84 300 0.75
85 44 0.11
86 1 0.00
87 6 0.01
88 5 0.01
89 11 0.03
90 1 0.00
91 13 0.03
92 5 0.01
93 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (84 bp):
GGCTTTAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAA
AGGATGCCACTAACTCGTG
Found at i:4530189 original size:84 final size:83
Alignment explanation
Indices: 4529667--4530276 Score: 506
Period size: 84 Copynumber: 7.2 Consensus size: 83
4529657 CACCAGCTTG
* * ** * * * *
4529667 TGTGGGCTTTAGAAGGGTCCCACTAACTTGTAGGCTTTTGAAATGATGCCACTGACTCGTGGGCT
1 TGTGGGCTTTA-AAAGGTGCCACTAACTCATGGGC-TTTAAAAGGATGCCACTGACTTGTGGGCT
*
4529732 TTGAAAA-GGTGCCATTAACT
64 TT-AAAAGGGTGCCACTAACT
* * * ** **
4529752 CGTGGGATTTAAAAGGATGCCACTGACTTGTGGGCTTTAAGCGGATGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTAAAAGG-TGCCACTAACTCATGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTT
* * * * *
4529817 TGAACGAGTGTCACTGACT
65 TAAAAGGGTGCCACTAACT
** ** * * * * *
4529836 TGTGGGCTTTAAGCGGATGCCACTAACTTGTGGTCTTTGAATGGGTGCCACTGACTTATGGGCTT
1 TGTGGGCTTTAAAAGG-TGCCACTAACTCATGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTT
* *
4529901 TGAAAGGGTGCCACTGACT
65 TAAAAGGGTGCCACTAACT
* * * *
4529920 CGTGGGCTTTAAAAGGGTGCCACTAACTCGTGGGCTTTAAAAAGATGCTACTGACTTGTGGGCTT
1 TGTGGGCTTTAAAA-GGTGCCACTAACTCATGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTT
*
4529985 TAAAAGGGTACCACTAACT
65 TAAAAGGGTGCCACTAACT
* * * ** *
4530004 TATGGGCTTTGAAAAGGAGCCACTAACTCATGGGCATTGGAAGGATGCCACTAACTTGTGGGC-T
1 TGTGGGCTTT-AAAAGGTGCCACTAACTCATGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTT
*
4530068 TAGAAAGGGTGCCACTGACT
65 TA-AAAGGGTGCCACTAACT
* * * * *
4530088 GGTGGGTTTTGAAAAGGTGCCACTGACTCAAGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTT-AAAAGGTGCCACTAACTCATGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTT
*
4530153 TAAAAGGTTGCCACTAACT
65 TAAAAGGGTGCCACTAACT
* * * * **
4530172 TGTGGGCTTTGAAAAGGTCCCA-TCGACTCATGGGCTTTGGAGAAGGTTGCCACCAACTTGTATG
1 TGTGGGCTTT-AAAAGGTGCCACT-AACTCATGGGCTTT--AAAAGGATGCCACTGACTTG--TG
* *
4530236 GGCTTTAGAGAAGGTTGCCACCAACTT
60 GGCTTTA-A-AAGGGTGCCACTAAC-T
4530263 GTGTGGGCTTTAAA
1 -TGTGGGCTTTAAA
4530277 GAAGGTTTCT
Statistics
Matches: 431, Mismatches: 79, Indels: 24
0.81 0.15 0.04
Matches are distributed among these distances:
83 6 0.01
84 338 0.78
85 33 0.08
86 16 0.04
88 9 0.02
89 1 0.00
90 14 0.03
91 4 0.01
92 10 0.02
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (83 bp):
TGTGGGCTTTAAAAGGTGCCACTAACTCATGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTT
AAAAGGGTGCCACTAACT
Found at i:4530238 original size:32 final size:32
Alignment explanation
Indices: 4530146--4530283 Score: 139
Period size: 32 Copynumber: 4.6 Consensus size: 32
4530136 CACTGACTTG
*
4530146 TGGGCTTTA-A-AAGGTTGCCACTAACTTG--
1 TGGGCTTTAGAGAAGGTTGCCACCAACTTGTA
* * * * *
4530174 TGGGCTTT-GAAAAGG-TCCCATCGAC-T-CA
1 TGGGCTTTAGAGAAGGTTGCCACCAACTTGTA
*
4530202 TGGGCTTTGGAGAAGGTTGCCACCAACTTGTA
1 TGGGCTTTAGAGAAGGTTGCCACCAACTTGTA
*
4530234 TGGGCTTTAGAGAAGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCAACTTGTA
*
4530266 TGGGCTTTAAAGAAGGTT
1 TGGGCTTTAGAGAAGGTT
4530284 TCTCCACTGG
Statistics
Matches: 90, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
27 1 0.01
28 23 0.26
29 10 0.11
30 7 0.08
31 1 0.01
32 48 0.53
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (32 bp):
TGGGCTTTAGAGAAGGTTGCCACCAACTTGTA
Found at i:4530531 original size:28 final size:28
Alignment explanation
Indices: 4530455--4530538 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
4530445 TATATAGCAA
*
4530455 GTGCCACTGA-TTGTGGACTTCGAAAAG
1 GTGCCACTGACTTGTGGACTTTGAAAAG
* * *
4530482 ATGCCACTGACTTGTAGACTTTGAAGAG
1 GTGCCACTGACTTGTGGACTTTGAAAAG
* *
4530510 GTGCCACTGACTAGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGACTTTGAAAAG
4530538 G
1 G
4530539 GATTCGTGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 9 0.19
28 38 0.81
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGACTTTGAAAAG
Found at i:4545589 original size:21 final size:20
Alignment explanation
Indices: 4545538--4545596 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
4545528 ATAATCACAC
4545538 TAGGTATCGATACCACACCT
1 TAGGTATCGATACCACACCT
*
4545558 TAGGCATCGATACCA-AGCCT
1 TAGGTATCGATACCACA-CCT
* *
4545578 TCATGTATCGATACTACAC
1 T-AGGTATCGATACCACAC
4545597 ATGGATATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.03
20 18 0.56
21 12 0.38
22 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (20 bp):
TAGGTATCGATACCACACCT
Found at i:4546667 original size:9 final size:9
Alignment explanation
Indices: 4546647--4546703 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
4546637 TCTTATTCTC
4546647 TTTT-CTTT
1 TTTTGCTTT
*
4546655 TTTTGTGTTT
1 TTTTG-CTTT
4546665 TTTTGCTTT
1 TTTTGCTTT
4546674 TTTT--TTCT
1 TTTTGCTT-T
*
4546682 TTTTCCTTT
1 TTTTGCTTT
4546691 TTTTGCTTT
1 TTTTGCTTT
4546700 TTTT
1 TTTT
4546704 TTCTATTAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
7 2 0.05
8 9 0.22
9 20 0.49
10 10 0.24
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (9 bp):
TTTTGCTTT
Found at i:4560201 original size:19 final size:18
Alignment explanation
Indices: 4560155--4560272 Score: 94
Period size: 19 Copynumber: 6.8 Consensus size: 18
4560145 ATTTCAACAA
*
4560155 TTTGTATCGATACAAACAG
1 TTTGTATCGATACATA-AG
4560174 TAATTGTATCGATACATAAG
1 T--TTGTATCGATACATAAG
4560194 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4560210 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
4560226 TGGTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4560242 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
4560258 TATTGTATCGATACA
1 T-TTGTATCGATACA
4560273 ATGTATCGTT
Statistics
Matches: 83, Mismatches: 2, Indels: 28
0.73 0.02 0.25
Matches are distributed among these distances:
13 22 0.27
15 4 0.05
17 4 0.05
19 36 0.43
20 3 0.04
21 14 0.17
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.34
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:4560215 original size:13 final size:13
Alignment explanation
Indices: 4560197--4560253 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
4560187 ACATAAGTGT
4560197 TGTATCGATACAA
1 TGTATCGATACAA
4560210 TGTATCGATACATAA
1 TGTATCGATAC--AA
4560225 GTGGTGTATCGATACAA
1 ----TGTATCGATACAA
4560242 TGTATCGATACA
1 TGTATCGATACA
4560254 TAAGTATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4560219 original size:32 final size:32
Alignment explanation
Indices: 4560178--4560280 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
4560168 AAACAGTAAT
4560178 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
4560210 TGTATCGATACATAAGTGGTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
4560242 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4560274 TGTATCG
1 TGTATCG
4560281 TTACGAAGCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4560342 original size:13 final size:13
Alignment explanation
Indices: 4560324--4560351 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4560314 CATTACTCAA
4560324 TGTATCGATACAT
1 TGTATCGATACAT
4560337 TGTATCGATACAT
1 TGTATCGATACAT
4560350 TG
1 TG
4560352 AGTAATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4561853 original size:13 final size:13
Alignment explanation
Indices: 4561835--4561860 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4561825 TACACAAAGT
4561835 ATGTATCGATACA
1 ATGTATCGATACA
4561848 ATGTATCGATACA
1 ATGTATCGATACA
4561861 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4561858 original size:32 final size:33
Alignment explanation
Indices: 4561817--4561880 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
4561807 TAGCCAAACT
**
4561817 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
4561849 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
4561881 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:4568044 original size:13 final size:13
Alignment explanation
Indices: 4568026--4568062 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4568016 ACATTTTTCT
4568026 TTGTATCGATACA
1 TTGTATCGATACA
*
4568039 TTGTATAGATACA
1 TTGTATCGATACA
*
4568052 CTGTATCGATA
1 TTGTATCGATA
4568063 TAGGGGGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4569726 original size:23 final size:21
Alignment explanation
Indices: 4569684--4569726 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
4569674 GTTTAATGTT
**
4569684 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
4569705 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
4569727 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:4575771 original size:80 final size:80
Alignment explanation
Indices: 4575660--4575836 Score: 212
Period size: 80 Copynumber: 2.2 Consensus size: 80
4575650 GGTGTTTTGG
* ** *
4575660 AAGTAAAAACGGGGTTGGAGCTTCCCCTCAGAGATTTTGGGGTTGGAATATCCTCAGAGATGTAA
1 AAGTAAAAACGGGGTTGAAGCTTCCCCTCAGAGATGATGGGGTTGGAATATCCTCAGAGATGAAA
*
4575725 AATTCAATATTATGA
66 AAATCAATATTATGA
* * * * *
4575740 AAGTAAAAACGGGGTTGAAG-TATCTCTTCAGAGATGATGGGGTTGGAGTATCTTCGGAGATGAA
1 AAGTAAAAACGGGGTTGAAGCT-TCCCCTCAGAGATGATGGGGTTGGAATATCCTCAGAGATGAA
* * *
4575804 AAAATCGATGTTTTGA
65 AAAATCAATATTATGA
*
4575820 AAGTAAAAATGGGGTTG
1 AAGTAAAAACGGGGTTG
4575837 GAGTGCCCCT
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 1 0.01
80 81 0.99
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (80 bp):
AAGTAAAAACGGGGTTGAAGCTTCCCCTCAGAGATGATGGGGTTGGAATATCCTCAGAGATGAAA
AAATCAATATTATGA
Found at i:4575800 original size:26 final size:27
Alignment explanation
Indices: 4575750--4575802 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
4575740 AAGTAAAAAC
4575750 GGGGTTGAAGTATCTCTTCAGAGATGAT
1 GGGGTTGAAGTA-CTCTTCAGAGATGAT
* *
4575778 GGGGTTGGAGTA-TCTTCGGAGATGA
1 GGGGTTGAAGTACTCTTCAGAGATGA
4575803 AAAAATCGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
28 11 0.48
ACGTcount: A:0.23, C:0.09, G:0.38, T:0.30
Consensus pattern (27 bp):
GGGGTTGAAGTACTCTTCAGAGATGAT
Found at i:4578259 original size:19 final size:19
Alignment explanation
Indices: 4578216--4578288 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
4578206 CATATCCAGA
*
4578216 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
4578236 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
4578255 TGTATCGATACATGCACAAT
1 TGTATCGATACATGTTC-AT
*
4578275 TTTATCGATACATG
1 TGTATCGATACATG
4578289 AAACTGACAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.36
20 29 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:4578342 original size:20 final size:20
Alignment explanation
Indices: 4578317--4578410 Score: 145
Period size: 20 Copynumber: 4.7 Consensus size: 20
4578307 CTACCACTGT
*
4578317 TTGTATCGATACATGGAA-TA
1 TTGTATCGATACAT-GAAGAA
*
4578337 TTGTATCAATACATGAAGAA
1 TTGTATCGATACATGAAGAA
4578357 TTGTATCGATACATGAAGAA
1 TTGTATCGATACATGAAGAA
*
4578377 TTGTATTGATACATGAAGAA
1 TTGTATCGATACATGAAGAA
4578397 TTGTATCGATACAT
1 TTGTATCGATACAT
4578411 TATCTCAAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
19 3 0.04
20 65 0.96
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATGAAGAA
Found at i:4580875 original size:13 final size:13
Alignment explanation
Indices: 4580857--4580881 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4580847 CATAAAGTGT
4580857 TGTATCGATACAA
1 TGTATCGATACAA
4580870 TGTATCGATACA
1 TGTATCGATACA
4580882 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4580897 original size:32 final size:33
Alignment explanation
Indices: 4580837--4580902 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
4580827 TTCAACGATT
4580837 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
4580870 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
4580902 T
1 T
4580903 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:4580961 original size:13 final size:13
Alignment explanation
Indices: 4580943--4580967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4580933 ATTACTCAAA
4580943 TGTATCGATACAT
1 TGTATCGATACAT
4580956 TGTATCGATACA
1 TGTATCGATACA
4580968 CTAATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4588055 original size:20 final size:20
Alignment explanation
Indices: 4588030--4588127 Score: 80
Period size: 20 Copynumber: 5.6 Consensus size: 20
4588020 AAAACCAAGA
4588030 TGTATCGATACAATGTTCCT
1 TGTATCGATACAATGTTCCT
4588050 TGTATCGATAC-A------T
1 TGTATCGATACAATGTTCCT
*
4588063 TATATCGATACAATGTTCCT
1 TGTATCGATACAATGTTCCT
4588083 TGTATCGATAC-A------T
1 TGTATCGATACAATGTTCCT
*
4588096 TATATCGATACAATGTTCCT
1 TGTATCGATACAATGTTCCT
4588116 TGTATCGATACA
1 TGTATCGATACA
4588128 TTATATCGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 28
0.65 0.04 0.30
Matches are distributed among these distances:
13 22 0.37
14 2 0.03
19 2 0.03
20 34 0.57
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (20 bp):
TGTATCGATACAATGTTCCT
Found at i:4588074 original size:33 final size:33
Alignment explanation
Indices: 4588032--4588144 Score: 226
Period size: 33 Copynumber: 3.4 Consensus size: 33
4588022 AACCAAGATG
4588032 TATCGATACAATGTTCCTTGTATCGATACATTA
1 TATCGATACAATGTTCCTTGTATCGATACATTA
4588065 TATCGATACAATGTTCCTTGTATCGATACATTA
1 TATCGATACAATGTTCCTTGTATCGATACATTA
4588098 TATCGATACAATGTTCCTTGTATCGATACATTA
1 TATCGATACAATGTTCCTTGTATCGATACATTA
4588131 TATCGATACAATGT
1 TATCGATACAATGT
4588145 ATCAATACAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (33 bp):
TATCGATACAATGTTCCTTGTATCGATACATTA
Found at i:4590659 original size:13 final size:13
Alignment explanation
Indices: 4590641--4590667 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4590631 ATATTATGCT
4590641 TTGTATCGATACA
1 TTGTATCGATACA
4590654 TTGTATCGATACA
1 TTGTATCGATACA
4590667 T
1 T
4590668 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4590701 original size:20 final size:19
Alignment explanation
Indices: 4590651--4590707 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
4590641 TTGTATCGAT
*
4590651 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
*
4590670 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
*
4590689 ACAATTTTATCGATACATG
1 AC-ATTGTATCGATACATG
4590708 AAACTAGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:4591152 original size:13 final size:13
Alignment explanation
Indices: 4591134--4591158 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4591124 ATAATGCACA
4591134 GTATCGATACATT
1 GTATCGATACATT
4591147 GTATCGATACAT
1 GTATCGATACAT
4591159 GACCAAATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:4591171 original size:20 final size:22
Alignment explanation
Indices: 4591146--4591198 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
4591136 ATCGATACAT
*
4591146 TGTATCGATACATGAC-CA-AA
1 TGTATCGATACATGACAAAGAA
*
4591166 TGTATCGATAC-TTACAAAGAA
1 TGTATCGATACATGACAAAGAA
4591187 TGTATCGATACA
1 TGTATCGATACA
4591199 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (22 bp):
TGTATCGATACATGACAAAGAA
Found at i:4591276 original size:13 final size:13
Alignment explanation
Indices: 4591258--4591283 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4591248 TACACACAAG
4591258 ATGTATCGATACA
1 ATGTATCGATACA
4591271 ATGTATCGATACA
1 ATGTATCGATACA
4591284 TCTCAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4591301 original size:33 final size:32
Alignment explanation
Indices: 4591240--4591303 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
4591230 CTTAACCGTT
4591240 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAGATGTATCGATACAA
*
4591272 TGTATCGATACATCTCAA-ATTGTATCGATACA
1 TGTATCGATACA-CACAAGA-TGTATCGATACA
4591304 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACACAAGATGTATCGATACAA
Found at i:4597224 original size:8 final size:8
Alignment explanation
Indices: 4597211--4597236 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
4597201 ATTTGATTAA
4597211 ATTTTGTG
1 ATTTTGTG
4597219 ATTTTGTG
1 ATTTTGTG
4597227 ATTTTGTG
1 ATTTTGTG
4597235 AT
1 AT
4597237 GCTTGTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:4597461 original size:13 final size:13
Alignment explanation
Indices: 4597439--4597476 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
4597429 CAGCATTCTC
* *
4597439 TGTATTGATACAT
1 TGTATCGATACAG
4597452 TGTATCGATACAG
1 TGTATCGATACAG
4597465 TGTATCGATACA
1 TGTATCGATACA
4597477 AAGGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4599336 original size:16 final size:16
Alignment explanation
Indices: 4599317--4599348 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4599307 GTGATTAAAA
*
4599317 GAAATTGTTAATTTGC
1 GAAATTGTTAAATTGC
4599333 GAAATTGTTAAATTGC
1 GAAATTGTTAAATTGC
4599349 TTTATTATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (16 bp):
GAAATTGTTAAATTGC
Found at i:4599927 original size:20 final size:19
Alignment explanation
Indices: 4599898--4599936 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
4599888 AGGTCAAAAC
4599898 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
4599917 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
4599937 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:4599964 original size:13 final size:13
Alignment explanation
Indices: 4599946--4599970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4599936 ATAATGCACA
4599946 GTATCGATACATT
1 GTATCGATACATT
4599959 GTATCGATACAT
1 GTATCGATACAT
4599971 GACCAATGTA
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:4601786 original size:21 final size:19
Alignment explanation
Indices: 4601760--4601810 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 19
4601750 GCCAAGGCCT
4601760 GTATCGATACAATCACACTAG
1 GTATCGATAC-A-CACACTAG
*
4601781 GTATCGATATCACACCCTAG
1 GTATCGATA-CACACACTAG
4601801 GTATCGATAC
1 GTATCGATAC
4601811 CAAGCCTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 16 0.57
21 10 0.36
22 1 0.04
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (19 bp):
GTATCGATACACACACTAG
Found at i:4605422 original size:26 final size:26
Alignment explanation
Indices: 4605386--4605438 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
4605376 AAGGTATCGA
4605386 TAACTTGTCATAGGGTGTTAATACTT
1 TAACTTGTCATAGGGTGTTAATACTT
*
4605412 TAACTTGTCATGGGGTGTTAATACTT
1 TAACTTGTCATAGGGTGTTAATACTT
4605438 T
1 T
4605439 GACTCTTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (26 bp):
TAACTTGTCATAGGGTGTTAATACTT
Found at i:4606208 original size:26 final size:26
Alignment explanation
Indices: 4606159--4606210 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
4606149 AAAAGAAAAA
*
4606159 ATATAGAGCTAAGGGAAAATAAACTT
1 ATATAAAGCTAAGGGAAAATAAACTT
4606185 ATATAAAGCTAAGGGAAAATAAACTT
1 ATATAAAGCTAAGGGAAAATAAACTT
4606211 GGCTAAGGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.52, C:0.08, G:0.17, T:0.23
Consensus pattern (26 bp):
ATATAAAGCTAAGGGAAAATAAACTT
Found at i:4606224 original size:26 final size:26
Alignment explanation
Indices: 4606169--4606224 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
4606159 ATATAGAGCT
* *
4606169 AAGGGAAAATAAACTTATATAAAGCT
1 AAGGGAAAATAAACTTAGATAAAGCA
* * *
4606195 AAGGGAAAATAAACTTGGCTAAGGCA
1 AAGGGAAAATAAACTTAGATAAAGCA
4606221 AAGG
1 AAGG
4606225 ACAAAGGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.09, G:0.23, T:0.18
Consensus pattern (26 bp):
AAGGGAAAATAAACTTAGATAAAGCA
Found at i:4608922 original size:20 final size:21
Alignment explanation
Indices: 4608897--4608954 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
4608887 TTTTGCCTAC
4608897 ATGTATCGATACATTTCA-TA
1 ATGTATCGATACATTTCAGTA
*
4608917 ATGTATCGATACATTTGAGTA
1 ATGTATCGATACATTTCAGTA
4608938 ATGTATCGATACATTTC
1 ATGTATCGATACATTTC
4608955 CTTGGCAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATTTCAGTA
Found at i:4608992 original size:13 final size:13
Alignment explanation
Indices: 4608974--4609025 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
4608964 AGCTTCGTAG
4608974 CGATACATTGTAT
1 CGATACATTGTAT
4608987 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
4609006 CGATACATTGTAT
1 CGATACATTGTAT
4609019 CGATACA
1 CGATACA
4609026 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:4609006 original size:19 final size:18
Alignment explanation
Indices: 4608982--4609044 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
4608972 AGCGATACAT
4608982 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
4609001 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
4609014 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
4609033 TGTATCGATACA
1 TGTATCGATACA
4609045 GTTACGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:4609015 original size:32 final size:32
Alignment explanation
Indices: 4608974--4609044 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
4608964 AGCTTCGTAG
4608974 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
4609006 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
4609038 CGATACA
1 CGATACA
4609045 GTTACGATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:4614541 original size:12 final size:12
Alignment explanation
Indices: 4614524--4614548 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4614514 TTCATCCTGA
4614524 AATTTCATAAAT
1 AATTTCATAAAT
4614536 AATTTCATAAAT
1 AATTTCATAAAT
4614548 A
1 A
4614549 CATGAACAAG
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTTCATAAAT
Found at i:4616700 original size:106 final size:107
Alignment explanation
Indices: 4616512--4616801 Score: 277
Period size: 106 Copynumber: 2.7 Consensus size: 107
4616502 AATTGATCGG
* * * * * *
4616512 AACGAAACCATATA-AATA-ACAAGTTAAAAGGGTTGACCATGA-CAAAACCATATTAATCT-AC
1 AACGAAACCATA-AGAACAGACAAGTTAGAAGGGTTGACTA-GACCAAAACCATATGAGT-TAAT
* * *
4616573 GAAAAGTGACTAGGG-CAAAACCTAAGTCGAAAAAAAGTTGGCCAG
63 GAAAGGTGACCAGGGTC-AAACCTAAGTCGAAAAAAAGTTGGCCAA
* * ** * ** *
4616618 GACGAAATCATAAGAACCTATAAGTTAGAAGGGTTGACTAGA-TGAAACCATATGAGTTAATGAT
1 AACGAAACCATAAGAACAGACAAGTTAGAAGGGTTGACTAGACCAAAACCATATGAGTTAATGAA
* * **
4616682 AGGTGATCAGGGTCAAACCTTAGTCGAAAAGGAGTTGGCCAA
66 AGGTGACCAGGGTCAAACCTAAGTCGAAAAAAAGTTGGCCAA
* * * *
4616724 AATGAAACCATATGAATAGACAAGTTAGATGGGTTGACTAGACCAAAACCATATGAGTTAATGAA
1 AACGAAACCATAAGAACAGACAAGTTAGAAGGGTTGACTAGACCAAAACCATATGAGTTAATGAA
4616789 AGGTGACCAGGGT
66 AGGTGACCAGGGT
4616802 GGAACCTTCA
Statistics
Matches: 146, Mismatches: 33, Indels: 9
0.78 0.18 0.05
Matches are distributed among these distances:
105 2 0.01
106 94 0.64
107 50 0.34
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.21
Consensus pattern (107 bp):
AACGAAACCATAAGAACAGACAAGTTAGAAGGGTTGACTAGACCAAAACCATATGAGTTAATGAA
AGGTGACCAGGGTCAAACCTAAGTCGAAAAAAAGTTGGCCAA
Found at i:4617030 original size:41 final size:41
Alignment explanation
Indices: 4616980--4617066 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
4616970 ACATATGAAC
* ** *
4616980 CAACGAGTTAGA-AAGGTTAACCAAGATGAAATCAAACGAGT
1 CAACAAGTTAGAGAA-GTTAACCAAGACAAAACCAAACGAGT
* *
4617021 CAACAAGTTAGAGAAGTTGACCAAGACAAAACCATACGAGT
1 CAACAAGTTAGAGAAGTTAACCAAGACAAAACCAAACGAGT
4617062 CAACA
1 CAACA
4617067 TGGTGACTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 37 0.95
42 2 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (41 bp):
CAACAAGTTAGAGAAGTTAACCAAGACAAAACCAAACGAGT
Found at i:4617145 original size:147 final size:145
Alignment explanation
Indices: 4616874--4617208 Score: 397
Period size: 147 Copynumber: 2.3 Consensus size: 145
4616864 AGTTTATAAT
* *
4616874 TCAAAAAGTTAGACAAGTTGACCAAGACAAAACCATACAAGTTAACAGATGACCAAGGTAAAACA
1 TCAAAAAGTTAGACAAGTTGACCAAGACAAAACCATACGAGTCAACAGATGACCAAGGTAAAACA
* * * *
4616939 TTTAGTCGCAAAAGGGTTGGTTGGGACAATAACATATGAACCAACGAGTTAGAAAGGTTAACCAA
66 CTTAATCGCAAAAGGGTTGGATGGGACAAT-ACATATAAACCAACGAGTTAGAAAGGTTAACCAA
* * *
4617004 GATGAAATCAAACGAG
130 GACGAAACCAAACAAG
* * * *
4617020 TCAACAAGTTAGAGAAGTTGACCAAGACAAAACCATACGAGTCAACATGGTGACTAAGGTAAAAC
1 TCAAAAAGTTAGACAAGTTGACCAAGACAAAACCATACGAGTCAACA-GATGACCAAGGTAAAAC
* * *
4617085 CCTTAATCG-AAAAGAGGTTGGCCATGATGA-AAT-CATATAAACCAACGAGTTAGAAGGGTTAA
65 ACTTAATCGCAAAAG-GGTTGG--ATG-GGACAATACATATAAACCAACGAGTTAGAAAGGTTAA
*
4617147 CCAAGACGAAACCATACAAG
126 CCAAGACGAAACCAAACAAG
* * * * *
4617167 TCAAAAAGTTAGATAGGTTGACCAAAACGAAACCATATGAGT
1 TCAAAAAGTTAGACAAGTTGACCAAGACAAAACCATACGAGT
4617209 TAATAAGGTG
Statistics
Matches: 161, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
146 48 0.30
147 106 0.66
149 5 0.03
150 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (145 bp):
TCAAAAAGTTAGACAAGTTGACCAAGACAAAACCATACGAGTCAACAGATGACCAAGGTAAAACA
CTTAATCGCAAAAGGGTTGGATGGGACAATACATATAAACCAACGAGTTAGAAAGGTTAACCAAG
ACGAAACCAAACAAG
Found at i:4617530 original size:107 final size:105
Alignment explanation
Indices: 4617370--4617714 Score: 343
Period size: 106 Copynumber: 3.3 Consensus size: 105
4617360 GAGTTAGAAG
* * * * * * ** *
4617370 GGTTGATCAGGATAAAACCATACGAGTAAACG-AGTTATGACCAAAGCAGAACCTAAGTCAAAAA
1 GGTTGACCAAGATAAAACCATATGAGTCAACGAAG-GATAACCAGGGCAAAACCTAAGTCAAAAA
***
4617434 GGAGTTGGTTGGGATAAAACCATACGAAACCAACAAGTTTAAA
65 -GAGTTGGCCAGGATAAAACCATACG-AACCAACAAGTTTAAA
* * * * *
4617477 GGTTGACCAAGATGAAACCATATGAGTCAACGAAGGATGACCGGGGTAAAACCTAAGTCGAAATA
1 GGTTGACCAAGATAAAACCATATGAGTCAACGAAGGATAACCAGGGCAAAACCTAAGTC-AAAAA
* *
4617542 GAGTTGGCCAGGATAAAACCATACGAACTAGCAAGTTTAAA
65 GAGTTGGCCAGGATAAAACCATACGAACCAACAAGTTTAAA
* * * * * * * *
4617583 GGTTAACTATGACAAAACCATACGAGTCAATGAAGGGTAACCAGGGCAAAACCTAAGTAAAAAAA
1 GGTTGACCAAGATAAAACCATATGAGTCAACGAAGGATAACCAGGGCAAAACCTAAGT-CAAAAA
* *
4617648 GAATTGGCCAGGACAAAACCATAC-AACCAACAAGTTTAAA
65 GAGTTGGCCAGGATAAAACCATACGAACCAACAAGTTTAAA
** *
4617688 ATTTGACCAGGATAAAACCATATGAGT
1 GGTTGACCAAGATAAAACCATATGAGT
4617715 TAACAAGTCA
Statistics
Matches: 194, Mismatches: 41, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
105 34 0.18
106 87 0.45
107 67 0.35
108 6 0.03
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (105 bp):
GGTTGACCAAGATAAAACCATATGAGTCAACGAAGGATAACCAGGGCAAAACCTAAGTCAAAAAG
AGTTGGCCAGGATAAAACCATACGAACCAACAAGTTTAAA
Found at i:4617971 original size:65 final size:65
Alignment explanation
Indices: 4617869--4618334 Score: 409
Period size: 65 Copynumber: 7.2 Consensus size: 65
4617859 GGTAAAACCT
* ** * * *
4617869 TACAAGTCAACAAAAGGTGACTAGGACAAAACCTAAGTCAAAAAAGTTTGACCAGGGTTAAACCA
1 TACAA-TCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCA
4617934 A
65 A
* * * * *
4617935 TACAATCAATTAAAGATGACTAGGATGAAACTTAAGTCAAAAAAGGTTGA-CAAGGGTAAACCAG
1 TACAATCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCAA
** * * * * * *
4617999 TACGGTCAACTAAAGGTGACTAGGACGAAATCTAAGTCAAAAAGGGTTTACCAAGGCTAAACTAG
1 TACAATCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCAA
* * * * *
4618064 TATAATAAACTAAAGGTTACTAGGATGAAACCTAAGTCAAAAAAGGTTAACTAAGGCTAAA-CAA
1 TACAATCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCAA
* * * *
4618128 GTA-AAGTCAACTAAAGGTAACTAAGATGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAATCT
1 -TACAA-TCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACC
*
4618192 AG
64 AA
* * * ** * * ** * *
4618194 TA-AAGTCAACTAAAGGTGGCTAAGATGAAAACTAAGTTGAAAAGGGTTTATTATGGCTAAACTA
1 TACAA-TCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCA
*
4618258 G
65 A
* * * * * * * * *
4618259 TATAGTCAATTAAAAGTGACTAGGATGAAACCTAAGTCGAAAAAGGTTAACTAGGGCTAAACCAG
1 TACAATCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCAA
*
4618324 TACAGTCAACT
1 TACAATCAACT
4618335 GAATTATCAA
Statistics
Matches: 329, Mismatches: 66, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
64 55 0.17
65 267 0.81
66 7 0.02
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (65 bp):
TACAATCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCAA
Found at i:4618149 original size:34 final size:33
Alignment explanation
Indices: 4618097--4618202 Score: 94
Period size: 34 Copynumber: 3.2 Consensus size: 33
4618087 GATGAAACCT
4618097 AAGTCAAAAAAGGTTAACTAAGGCTAAACAAGTA
1 AAGTCAAAAAAGGTTAACTAAGGCTAAAC-AGTA
* * *
4618131 AAGTCAACTAAAGG-TAACTAA-GATGAAAC-CT-
1 AAGTCAA-AAAAGGTTAACTAAGGCT-AAACAGTA
* * *
4618162 AAGTCAAAAAAGGTTGACCAAGGCTAATCTAGTA
1 AAGTCAAAAAAGGTTAACTAAGGCTAAAC-AGTA
4618196 AAGTCAA
1 AAGTCAA
4618203 CTAAAGGTGG
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
30 5 0.09
31 15 0.27
32 3 0.05
33 3 0.05
34 25 0.45
35 5 0.09
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (33 bp):
AAGTCAAAAAAGGTTAACTAAGGCTAAACAGTA
Found at i:4618182 original size:130 final size:129
Alignment explanation
Indices: 4617872--4618334 Score: 487
Period size: 130 Copynumber: 3.6 Consensus size: 129
4617862 AAAACCTTAC
* * * * * *
4617872 AAGTCAACAAAAGGTGACTAGGACAAAACCTAAGTCAAAAAAGTTTGACCAGGGTTAAACCAATA
1 AAGTCAACTAAAGGTGACTAGGACGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCAGTA
* * * * * *
4617937 CAATCAATTAAAGATGACTAGGATGAAACTTAAGTCAAAAAAGGTTGAC-AAGGGTAAACCAGTA
66 -AATCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTAACTAAGGCTAAACAAGTA
** * * * *
4618001 CGGTCAACTAAAGGTGACTAGGACGAAATCTAAGTCAAAAAGGGTTTACCAAGGCTAAACTAGTA
1 AAGTCAACTAAAGGTGACTAGGACGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCAGTA
* *
4618066 TAATAAACTAAAGGTTACTAGGATGAAACCTAAGTCAAAAAAGGTTAACTAAGGCTAAACAAGTA
66 -AATCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTAACTAAGGCTAAACAAGTA
* * * * *
4618131 AAGTCAACTAAAGGTAACTAAGATGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAATCTAGTA
1 AAGTCAACTAAAGGTGACTAGGACGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCAGTA
* * * ** * * * * *
4618196 AAGTCAACTAAAGGTGGCTAAGATGAAAACTAAGTTGAAAAGGGTTTATTATGGCTAAACTAGTA
66 AA-TCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTAACTAAGGCTAAACAAGTA
* * * * * * * *
4618261 TAGTCAATTAAAAGTGACTAGGATGAAACCTAAGTCGAAAAAGGTTAACTAGGGCTAAACCAGTA
1 AAGTCAACTAAAGGTGACTAGGACGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCAGTA
*
4618326 CAGTCAACT
66 -AATCAACT
4618335 GAATTATCAA
Statistics
Matches: 277, Mismatches: 54, Indels: 5
0.82 0.16 0.01
Matches are distributed among these distances:
129 97 0.35
130 179 0.65
131 1 0.00
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (129 bp):
AAGTCAACTAAAGGTGACTAGGACGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAAACCAGTA
AATCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTAACTAAGGCTAAACAAGTA
Found at i:4618283 original size:195 final size:194
Alignment explanation
Indices: 4617880--4618334 Score: 554
Period size: 195 Copynumber: 2.3 Consensus size: 194
4617870 ACAAGTCAAC
** * * * *
4617880 AAAAGGTGACTAGGACAAAACCTAAGTCAAAAAAGTTTGACCAGGGTTAAACCAA-TACAA-TCA
1 AAAA-GTGACTAGGATGAAACCTAAGTCAAAAAAGGTTAACTAGGGCTAAA-CAAGTA-AAGTCA
* * * * * **
4617943 ATTAAAGATGACTAGGATGAAACTTAAGTCAAAAAAGGTTGACAAGGGTAAACCAGTACGGTCAA
63 ACTAAAGATAACTAAGATGAAACCTAAGTCAAAAAAGGTTGACAAGGCTAAACCAGTAAAGTCAA
* *
4618008 CTAAAGGTGACTAGGACGAAATCTAAGTCAAAAAGGGTTTACCAAGGCTAAACTAGTATAATAAA
128 CTAAAGGTGACTAAGACGAAAACTAAGTCAAAAAGGGTTTACCAAGGCTAAACTAGTATAATAAA
4618073 CT
193 CT
* * *
4618075 AAAGGTTACTAGGATGAAACCTAAGTCAAAAAAGGTTAACTAAGGCTAAACAAGTAAAGTCAACT
1 AAAAGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTAACTAGGGCTAAACAAGTAAAGTCAACT
* * *
4618140 AAAGGTAACTAAGATGAAACCTAAGTCAAAAAAGGTTGACCAAGGCTAATCTAGTAAAGTCAACT
66 AAAGATAACTAAGATGAAACCTAAGTCAAAAAAGGTTGA-CAAGGCTAAACCAGTAAAGTCAACT
* * ** ** * * * *
4618205 AAAGGTGGCTAAGATGAAAACTAAGTTGAAAAGGGTTTATTATGGCTAAACTAGTATAGTCAATT
130 AAAGGTGACTAAGACGAAAACTAAGTCAAAAAGGGTTTACCAAGGCTAAACTAGTATAATAAACT
* * *
4618270 AAAAGTGACTAGGATGAAACCTAAGTCGAAAAAGGTTAACTAGGGCTAAACCAGTACAGTCAACT
1 AAAAGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTAACTAGGGCTAAACAAGTAAAGTCAACT
4618335 GAATTATCAA
Statistics
Matches: 220, Mismatches: 37, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
193 5 0.02
194 80 0.36
195 135 0.61
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (194 bp):
AAAAGTGACTAGGATGAAACCTAAGTCAAAAAAGGTTAACTAGGGCTAAACAAGTAAAGTCAACT
AAAGATAACTAAGATGAAACCTAAGTCAAAAAAGGTTGACAAGGCTAAACCAGTAAAGTCAACTA
AAGGTGACTAAGACGAAAACTAAGTCAAAAAGGGTTTACCAAGGCTAAACTAGTATAATAAACT
Found at i:4619685 original size:165 final size:165
Alignment explanation
Indices: 4619485--4619798 Score: 425
Period size: 165 Copynumber: 1.9 Consensus size: 165
4619475 TATGTGAAAC
* * *
4619485 AATGTAAATGCAAGAATCAATAAAGTGGCAAATACACT-CGAAACAAGGCAAATACCAATGTCAT
1 AATGCAAATGCAAGAATCAATAAAGTGGCAAATACA-TACGAAACAAGGCAAATACCAATATAAT
* * *
4619549 -TGAAAGTGCAAATGTACGTAAAATGATGCAAATGCAAGCATCGATAAAGTGGCAAATGCATATG
65 CT-AAAGTGCAAATGTACGTAAAATGATACAAATACAAGCATCAATAAAGTGGCAAATGCATATG
*
4619613 AAATGATACAAATACCAATGTCATCAGATGTACGTGA
129 AAACGATACAAATACCAATGTCATCAGATGTACGTGA
* * * * ** *
4619650 AATGCAAATGCAAGCATCGATAAAGTGGTAAATACATATGAAATGATGCAAATACCAATATAATC
1 AATGCAAATGCAAGAATCAATAAAGTGGCAAATACATACGAAACAAGGCAAATACCAATATAATC
* * *
4619715 TAAAGTGTAAATGTACGTGAAATGATACAAATACAAGCATCAATAAAGTGGCAAATGTATATGAA
66 TAAAGTGCAAATGTACGTAAAATGATACAAATACAAGCATCAATAAAGTGGCAAATGCATATGAA
* *
4619780 ACGATGCAAATGCCAATGT
131 ACGATACAAATACCAATGT
4619799 GGTCTAATTC
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
164 1 0.01
165 126 0.98
166 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (165 bp):
AATGCAAATGCAAGAATCAATAAAGTGGCAAATACATACGAAACAAGGCAAATACCAATATAATC
TAAAGTGCAAATGTACGTAAAATGATACAAATACAAGCATCAATAAAGTGGCAAATGCATATGAA
ACGATACAAATACCAATGTCATCAGATGTACGTGA
Found at i:4619701 original size:44 final size:44
Alignment explanation
Indices: 4619651--4619792 Score: 137
Period size: 44 Copynumber: 3.2 Consensus size: 44
4619641 TGTACGTGAA
* **
4619651 ATGCAAATGCAAGCATCGATAAAGTGGTAAATACATATGAAATG
1 ATGCAAATGCAAGCATCAATAAAGTGGTAAATGTATATGAAATG
* * **
4619695 ATGCAAATACCAA-TAT-AATCTAAAGT-GTAAATGTACGTGAAATG
1 ATGCAAAT-GCAAGCATCAA--TAAAGTGGTAAATGTATATGAAATG
* * * *
4619739 ATACAAATACAAGCATCAATAAAGTGGCAAATGTATATGAAACG
1 ATGCAAATGCAAGCATCAATAAAGTGGTAAATGTATATGAAATG
4619783 ATGCAAATGC
1 ATGCAAATGC
4619793 CAATGTGGTC
Statistics
Matches: 76, Mismatches: 16, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
43 10 0.13
44 55 0.72
45 11 0.14
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (44 bp):
ATGCAAATGCAAGCATCAATAAAGTGGTAAATGTATATGAAATG
Found at i:4620434 original size:11 final size:10
Alignment explanation
Indices: 4620410--4620451 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
4620400 CATTCTTGCA
4620410 TTTTTTCTTT
1 TTTTTTCTTT
4620420 TTTTTTCTTT
1 TTTTTTCTTT
*
4620430 CTTTTCTCTTT
1 -TTTTTTCTTT
4620441 TTCTTTTCTTT
1 TT-TTTTCTTT
4620452 GATTGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 12 0.43
11 16 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:4620443 original size:13 final size:13
Alignment explanation
Indices: 4620411--4620449 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4620401 ATTCTTGCAT
* *
4620411 TTTTTCTTTTTTT
1 TTTTTCTTTTCTC
4620424 TTCTTTCTTTTCTC
1 TT-TTTCTTTTCTC
4620438 TTTTTCTTTTCT
1 TTTTTCTTTTCT
4620450 TTGATTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTTCTC
Found at i:4620715 original size:15 final size:17
Alignment explanation
Indices: 4620695--4620730 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
4620685 GAATACTACA
4620695 TTTTTTT-A-TTTCT-T
1 TTTTTTTCATTTTCTCT
4620709 TTTTTTTCATTTTCTCT
1 TTTTTTTCATTTTCTCT
4620726 TTTTT
1 TTTTT
4620731 CTTGCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.37
15 1 0.05
16 5 0.26
17 6 0.32
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTCATTTTCTCT
Found at i:4620728 original size:18 final size:18
Alignment explanation
Indices: 4620705--4620759 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
4620695 TTTTTTTATT
*
4620705 TCTTTTTTTTTCATTTTC
1 TCTTTTTTTTTCATTTGC
*
4620723 TCTTTTTTCTTGCTATTTGC
1 TCTTTTTT-TTTC-ATTTGC
*
4620743 ACTTTTCTTTTTCATTT
1 TCTTTT-TTTTTCATTT
4620760 CACGCTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.27
19 7 0.23
20 13 0.43
21 2 0.07
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (18 bp):
TCTTTTTTTTTCATTTGC
Found at i:4623343 original size:25 final size:25
Alignment explanation
Indices: 4623293--4623372 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
4623283 ATAATTATAT
**
4623293 AAATATAATATAAATA-AAAGAATTA
1 AAATATAATATAAATATAAA-TTTTA
*
4623318 AAATATAATATAAATATATATTTTA
1 AAATATAATATAAATATAAATTTTA
*
4623343 AAAT-TTATAT-AATATAAATTATTA
1 AAATATAATATAAATATAAATT-TTA
*
4623367 ATATAT
1 AAATAT
4623373 TAAATTTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
23 9 0.20
24 11 0.24
25 24 0.52
26 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (25 bp):
AAATATAATATAAATATAAATTTTA
Found at i:4623353 original size:16 final size:16
Alignment explanation
Indices: 4623332--4623385 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
4623322 ATAATATAAA
*
4623332 TATATATTTTAAAATT
1 TATATATTTTAAATTT
* *
4623348 TATATAATATAAATTAT
1 TATATATTTTAAATT-T
*
4623365 TA-ATATATTAAATTT
1 TATATATTTTAAATTT
4623380 TATATA
1 TATATA
4623386 ATTATATAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 3 0.10
16 24 0.80
17 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATATTTTAAATTT
Found at i:4623382 original size:32 final size:29
Alignment explanation
Indices: 4623320--4623397 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 29
4623310 AAGAATTAAA
*
4623320 ATATAATATAAATATATATTTTAAAATTT
1 ATATAATATAAATATATATATTAAAATTT
*
4623349 ATATAATATAAATTATTAATATATTAAATTTT
1 ATATAATATAAA-TA-T-ATATATTAAAATTT
4623381 ATATAATTATATAATAT
1 ATATAA-TATA-AATAT
4623398 TTTAAATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 12 0.29
30 2 0.05
31 1 0.02
32 19 0.45
33 6 0.14
34 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
ATATAATATAAATATATATATTAAAATTT
Found at i:4623391 original size:20 final size:21
Alignment explanation
Indices: 4623368--4623412 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
4623358 AAATTATTAA
4623368 TATATTAA-ATTTT-ATATAAT
1 TATA-TAATATTTTAATATAAT
4623388 TATATAATATTTTAAATATAAT
1 TATATAATATTTT-AATATAAT
4623410 TAT
1 TAT
4623413 GATATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
22 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATAATATTTTAATATAAT
Found at i:4623600 original size:23 final size:23
Alignment explanation
Indices: 4623567--4623616 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
4623557 AGAGTACTGA
* *
4623567 ATATTCCTAAGAATATAATCTGT
1 ATATTCCTAAGAATATAAACTAT
*
4623590 ATATTCTTAAGAATATAAACTAT
1 ATATTCCTAAGAATATAAACTAT
4623613 ATAT
1 ATAT
4623617 GTACAGATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (23 bp):
ATATTCCTAAGAATATAAACTAT
Done.