Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007979.1 Hibiscus syriacus cultivar Beakdansim tig00110418_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2767453
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 13
Found at i:4791 original size:6 final size:6
Alignment explanation
Indices: 4780--4880 Score: 161
Period size: 6 Copynumber: 17.2 Consensus size: 6
4770 ACGGCTCGGC
*
4780 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGAGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
* *
4828 TCGAGG TCG-AG TCGTGG TCGTGG T-GTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
4874 TCGTGG T
1 TCGTGG T
4881 AATACGTGTC
Statistics
Matches: 90, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
5 9 0.10
6 81 0.90
ACGTcount: A:0.03, C:0.16, G:0.50, T:0.32
Consensus pattern (6 bp):
TCGTGG
Found at i:6053 original size:14 final size:14
Alignment explanation
Indices: 6034--6064 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6024 AGTCAAATAC
*
6034 ATTGGACAAAAGGA
1 ATTGGACAAAAGAA
6048 ATTGGACAAAAGAA
1 ATTGGACAAAAGAA
6062 ATT
1 ATT
6065 TCTTGAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (14 bp):
ATTGGACAAAAGAA
Found at i:8163 original size:23 final size:22
Alignment explanation
Indices: 8124--8170 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
8114 TTCATTCTAT
8124 TCTGCTTTCTTCTTATTCCTCC
1 TCTGCTTTCTTCTTATTCCTCC
* *
8146 TCTGCTTTTTTTCTTATTCTTCC
1 TCTGC-TTTCTTCTTATTCCTCC
8169 TC
1 TC
8171 CTTCTTCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.04, C:0.32, G:0.04, T:0.60
Consensus pattern (22 bp):
TCTGCTTTCTTCTTATTCCTCC
Found at i:26960 original size:27 final size:27
Alignment explanation
Indices: 26919--26977 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
26909 GTATTAAACG
26919 TTTTTCAATGCAAAGTTTAGGTAATTA
1 TTTTTCAATGCAAAGTTTAGGTAATTA
* *
26946 TTTTTCGATGTAAAGTTTAGGTAATTA
1 TTTTTCAATGCAAAGTTTAGGTAATTA
26973 TTTTT
1 TTTTT
26978 GTATTAAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (27 bp):
TTTTTCAATGCAAAGTTTAGGTAATTA
Found at i:28557 original size:222 final size:222
Alignment explanation
Indices: 28161--28604 Score: 622
Period size: 222 Copynumber: 2.0 Consensus size: 222
28151 ATCTAACCAA
* * * *
28161 ATAAACTCGAATAAAAGATAGATACGATCAGATCTAATCGCATCGGGAAACGAACCACGAAAGGG
1 ATAAACTCGAATAAAAGATAGATACAAACAGATCTAATCGCATCGGCAAACGAACCACAAAAGGG
* * *
28226 AATGAAACTATTGAAAGGCGATTAAAAAATTGCAAACCAAAATTAAGCAACGTGAAAATACTATC
66 AATGAAACTATTGAAAGACGATTAAAAAATTGCAAACAAAAATTAAGCAACGTAAAAATACTATC
* * * *
28291 AACGATCACAAAATCGCGTATTCAAATCCAATATAATAGTCCAAAGCAAAGAAGAACAACATGAT
131 AACAATCACAAAATCACGTATTCAAATCCAATACAATAGTCCAAAACAAAGAAGAACAACATGAT
**
28356 AACAAATAATGTGTCATCTTGATCAGT
196 AACAAATAAAATGTCATCTTGATCAGT
* * *
28383 ATAAACTC-ATATAAAAGATAGATACAAACAGATCTAATCGCATTGGCAAACGAGCCATAAAAGA
1 ATAAACTCGA-ATAAAAGATAGATACAAACAGATCTAATCGCATCGGCAAACGAACCACAAAAG-
*
28447 GG-ATGAAACTATTGAAAGACGATTGAAAAATTGCAAACAAAAATTAAGCAACGTAAAAATACTA
64 GGAATGAAACTATTGAAAGACGATTAAAAAATTGCAAACAAAAATTAAGCAACGTAAAAATACTA
* * * * * * * *
28511 TCAACAATCGCAAAATTATGTATTTAAATCCAATCCAATGGTCCAAAACAAAGAAGATCATCATG
129 TCAACAATCACAAAATCACGTATTCAAATCCAATACAATAGTCCAAAACAAAGAAGAACAACATG
*
28576 ATAACAAATAAAATGTCATTTTGATCAGT
194 ATAACAAATAAAATGTCATCTTGATCAGT
28605 CATGACAATG
Statistics
Matches: 194, Mismatches: 26, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
221 1 0.01
222 191 0.98
223 2 0.01
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (222 bp):
ATAAACTCGAATAAAAGATAGATACAAACAGATCTAATCGCATCGGCAAACGAACCACAAAAGGG
AATGAAACTATTGAAAGACGATTAAAAAATTGCAAACAAAAATTAAGCAACGTAAAAATACTATC
AACAATCACAAAATCACGTATTCAAATCCAATACAATAGTCCAAAACAAAGAAGAACAACATGAT
AACAAATAAAATGTCATCTTGATCAGT
Found at i:30144 original size:2 final size:2
Alignment explanation
Indices: 30137--30168 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
30127 ATTTTAGATA
*
30137 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30169 TATTTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:30860 original size:32 final size:31
Alignment explanation
Indices: 30792--30862 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
30782 GATATTCAGG
* *
30792 TCGGGTCGGTTTTTTTTTAAAAAAAATGGGA
1 TCGGGTCGATTTTTTTTTAAAAAAAATGAGA
* *
30823 CCGGGTCGATTTTTTTTTAAAAAAAATCGAGT
1 TCGGGTCGATTTTTTTTTAAAAAAAAT-GAGA
30855 TCGGGTCG
1 TCGGGTCG
30863 GGTCATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 25 0.74
32 9 0.26
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (31 bp):
TCGGGTCGATTTTTTTTTAAAAAAAATGAGA
Found at i:33422 original size:18 final size:18
Alignment explanation
Indices: 33396--33460 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
33386 ACCGGTCACA
33396 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* *
33414 ACACGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
33432 ACCCCGACCCGACCCGTTG
1 A-CCCGACCCGACCCGTTG
33451 ACCCGACCCG
1 ACCCGACCCG
33461 TTGACCGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
18 26 0.62
19 16 0.38
ACGTcount: A:0.18, C:0.51, G:0.20, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:33453 original size:8 final size:8
Alignment explanation
Indices: 33442--33481 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
33432 ACCCCGACCC
33442 GACCCGTT
1 GACCCGTT
33450 GACCC---
1 GACCCGTT
33455 GACCCGTT
1 GACCCGTT
33463 GA-CCGTT
1 GACCCGTT
33470 GACCCGTT
1 GACCCGTT
33478 GACC
1 GACC
33482 GGAGTTGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.18
7 7 0.25
8 16 0.57
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:33453 original size:13 final size:13
Alignment explanation
Indices: 33437--33481 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
33427 CGTTTACCCC
33437 GACCCGACCCGTT
1 GACCCGACCCGTT
33450 GACCCGACCCGTT
1 GACCCGACCCGTT
*
33463 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
33478 GACC
1 GACC
33482 GGAGTTGACC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.16, C:0.42, G:0.24, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:34819 original size:18 final size:18
Alignment explanation
Indices: 34793--34828 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34783 TCGAAAGGAC
*
34793 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
34811 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
34829 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:36008 original size:24 final size:24
Alignment explanation
Indices: 35912--36020 Score: 103
Period size: 24 Copynumber: 4.5 Consensus size: 24
35902 GAATATTTTA
* *
35912 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
35936 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
35960 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTCTGT
*
35984 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
* *
36008 TTTGATTTCTGAT
1 TCTGATATCTGAT
36021 ATCTCCGTTT
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
23 1 0.02
24 64 0.97
25 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:38168 original size:8 final size:8
Alignment explanation
Indices: 38155--38194 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
38145 AACCCGACCC
38155 GACCCGTT
1 GACCCGTT
38163 GACCC---
1 GACCCGTT
38168 GACCCGTT
1 GACCCGTT
38176 GA-CCGTT
1 GACCCGTT
38183 GACCCGTT
1 GACCCGTT
38191 GACC
1 GACC
38195 GGAGTTGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.18
7 7 0.25
8 16 0.57
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:38168 original size:13 final size:13
Alignment explanation
Indices: 38150--38194 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
38140 GTCACAACCC
38150 GACCCGACCCGTT
1 GACCCGACCCGTT
38163 GACCCGACCCGTT
1 GACCCGACCCGTT
*
38176 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
38191 GACC
1 GACC
38195 GGAGTTGACC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.16, C:0.42, G:0.24, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:39532 original size:18 final size:18
Alignment explanation
Indices: 39506--39541 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39496 TCGAAAGGAC
*
39506 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
39524 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
39542 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:40720 original size:24 final size:24
Alignment explanation
Indices: 40624--40732 Score: 96
Period size: 24 Copynumber: 4.5 Consensus size: 24
40614 GAATATTTTA
* *
40624 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
40648 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTCTGT
* *
40672 TCTGAT-TCCTAACCT-AGATTCTGT
1 TCTGATAT-CTGATCTGA-ATTCTGT
*
40696 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
* *
40720 TTTGATTTCTGAT
1 TCTGATATCTGAT
40733 ATCTCCGTTT
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
23 2 0.03
24 62 0.94
25 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:42068 original size:87 final size:87
Alignment explanation
Indices: 41922--42097 Score: 343
Period size: 87 Copynumber: 2.0 Consensus size: 87
41912 GATACTTTGT
*
41922 TGGTATAGTCAAGTAGCAGAATCTTTAGAAGTTATTACGAAAGATGTAAAGTCTAATGAGGCTAT
1 TGGTATAGTCAAGTAGCAGAATCATTAGAAGTTATTACGAAAGATGTAAAGTCTAATGAGGCTAT
41987 TACGAAATACTATATAATCATG
66 TACGAAATACTATATAATCATG
42009 TGGTATAGTCAAGTAGCAGAATCATTAGAAGTTATTACGAAAGATGTAAAGTCTAATGAGGCTAT
1 TGGTATAGTCAAGTAGCAGAATCATTAGAAGTTATTACGAAAGATGTAAAGTCTAATGAGGCTAT
42074 TACGAAATACTATATAATCATG
66 TACGAAATACTATATAATCATG
42096 TG
1 TG
42098 TTTCCCAATT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (87 bp):
TGGTATAGTCAAGTAGCAGAATCATTAGAAGTTATTACGAAAGATGTAAAGTCTAATGAGGCTAT
TACGAAATACTATATAATCATG
Found at i:52526 original size:12 final size:13
Alignment explanation
Indices: 52511--52543 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
52501 AAAAGAATAA
52511 GAAGAAA-TCCCC
1 GAAGAAAGTCCCC
52523 GAAGAAAAGTCCCC
1 GAAG-AAAGTCCCC
52537 GAAGAAA
1 GAAGAAA
52544 ATGCCACGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 6 0.32
14 9 0.47
ACGTcount: A:0.48, C:0.24, G:0.21, T:0.06
Consensus pattern (13 bp):
GAAGAAAGTCCCC
Found at i:52537 original size:14 final size:14
Alignment explanation
Indices: 52518--52544 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52508 TAAGAAGAAA
52518 TCCCCGAAGAAAAG
1 TCCCCGAAGAAAAG
52532 TCCCCGAAGAAAA
1 TCCCCGAAGAAAA
52545 TGCCACGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.19, T:0.07
Consensus pattern (14 bp):
TCCCCGAAGAAAAG
Found at i:54540 original size:19 final size:19
Alignment explanation
Indices: 54516--54558 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
54506 AATCATCTTT
54516 TCCTCTACCAAAATATGGA
1 TCCTCTACCAAAATATGGA
54535 TCCTCTACCAAAATATGGA
1 TCCTCTACCAAAATATGGA
*
54554 CCCTC
1 TCCTC
54559 ATCAAAATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.33, G:0.09, T:0.26
Consensus pattern (19 bp):
TCCTCTACCAAAATATGGA
Found at i:54630 original size:18 final size:18
Alignment explanation
Indices: 54598--54632 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54588 AGAAAAAGGC
**
54598 AATCAAAATTGCAATCAA
1 AATCAAAATCCCAATCAA
54616 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
54633 CGACCGGCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:54828 original size:20 final size:20
Alignment explanation
Indices: 54803--54913 Score: 99
Period size: 20 Copynumber: 5.8 Consensus size: 20
54793 TTACACATTC
*
54803 ATTTGAATATCGCAACACGA
1 ATTTGAATATCGCAACGCGA
* *
54823 ATTTGATTATCGCAACTC-A
1 ATTTGAATATCGCAACGCGA
54842 A----AA-ATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
* *
54857 ATTTGACTATCTCAACGCGA
1 ATTTGAATATCGCAACGCGA
* * *
54877 ATTTGATTATCGCAACGGGT
1 ATTTGAATATCGCAACGCGA
*
54897 ATTTGACTATCGCAACG
1 ATTTGAATATCGCAACG
54914 AGAAAATCGC
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
14 9 0.12
15 3 0.04
19 3 0.04
20 59 0.80
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (20 bp):
ATTTGAATATCGCAACGCGA
Found at i:54924 original size:74 final size:74
Alignment explanation
Indices: 54803--54941 Score: 181
Period size: 74 Copynumber: 1.9 Consensus size: 74
54793 TTACACATTC
* * *
54803 ATTTGAATATCGCAACACGAATTTGATTATCGCAACTCAAAAATCGCAACGCGAATTTGACTATC
1 ATTTGAATATCGCAACACGAATTTGACTATCGCAACTCAAAAATCGCAAAGCGAATTAGACTATC
54868 TCAACGCGA
66 TCAACGCGA
* ** * * *
54877 ATTTGATTATCGCAACGGGTATTTGACTATCGCAAC-GAGAAAATCGCAAAGCGTATTAGACTAT
1 ATTTGAATATCGCAACACGAATTTGACTATCGCAACTCA-AAAATCGCAAAGCGAATTAGACTAT
54941 C
65 C
54942 GCAATGCAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
73 1 0.02
74 54 0.98
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (74 bp):
ATTTGAATATCGCAACACGAATTTGACTATCGCAACTCAAAAATCGCAAAGCGAATTAGACTATC
TCAACGCGA
Found at i:54933 original size:34 final size:34
Alignment explanation
Indices: 54811--54945 Score: 110
Period size: 34 Copynumber: 3.8 Consensus size: 34
54801 TCATTTGAAT
* * * *
54811 ATCGCAACACGAATTTGATTATCGCAACTCA-AAA
1 ATCGCAACGCGTATTTGACTATCGCAAC-GAGAAA
* * *
54845 ATCGCAACGCGAATTTGACTATCTCAACGCGAATTTGA
1 ATCGCAACGCGTATTTGACTATCGCAACGAGAA----A
*
54883 TTATCGCAACGGGTATTTGACTATCGCAACGAGAAA
1 --ATCGCAACGCGTATTTGACTATCGCAACGAGAAA
* *
54919 ATCGCAAAGCGTATTAGACTATCGCAA
1 ATCGCAACGCGTATTTGACTATCGCAA
54946 TGCAAATTGA
Statistics
Matches: 82, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
34 51 0.62
36 1 0.01
38 1 0.01
40 29 0.35
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (34 bp):
ATCGCAACGCGTATTTGACTATCGCAACGAGAAA
Found at i:54981 original size:20 final size:21
Alignment explanation
Indices: 54952--55009 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
54942 GCAATGCAAA
54952 TTGA-CTTTCGCGTTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
**
54972 TTG-GCTTTCGTATTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
54992 TTGAG-TTTAGCGTTGCGA
1 TTGAGCTTTCGCGTTGCGA
55010 AAGTGTACCT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.12, C:0.16, G:0.28, T:0.45
Consensus pattern (21 bp):
TTGAGCTTTCGCGTTGCGATT
Found at i:55125 original size:36 final size:36
Alignment explanation
Indices: 55084--55188 Score: 111
Period size: 36 Copynumber: 3.2 Consensus size: 36
55074 TTACATTTCA
55084 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
* * *
55120 ATCAA-T---TAA--ACAAAT--CAACT-TTTACAA
1 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
*
55147 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
55183 ATCAAT
1 ATCAAT
55189 ATTAAACAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
27 11 0.21
28 4 0.08
30 6 0.11
31 2 0.04
32 3 0.06
33 6 0.11
35 4 0.08
36 17 0.32
ACGTcount: A:0.52, C:0.16, G:0.04, T:0.28
Consensus pattern (36 bp):
ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
Found at i:55219 original size:65 final size:63
Alignment explanation
Indices: 55061--55296 Score: 276
Period size: 63 Copynumber: 3.5 Consensus size: 63
55051 TATTGAAATC
*
55061 AACAAATCAACTTTTACATTTCAATCAATTAAATAAGCACAAATAAGAATTATTTACACATCAAT
1 AACAAATCAACTTTTACA----AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAAT
55126 TA
62 TA
55128 AACAAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATC-A-ATTA
* * * *
55193 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATGCTAATAATTCTTATTTTCCTCAT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGC-ACAAA---TAAGAA---TTA-TTTACACAT
55258 CAATTA
58 CAATTA
55264 AACAAATCAGACTTTTA-AGAATCAATTAAACAA
1 AACAAATCA-ACTTTTACA-AATCAATTAAACAA
55297 ATCAGACTTT
Statistics
Matches: 152, Mismatches: 5, Indels: 19
0.86 0.03 0.11
Matches are distributed among these distances:
63 39 0.26
64 1 0.01
65 38 0.25
66 4 0.03
67 18 0.12
69 5 0.03
71 14 0.09
72 25 0.16
73 8 0.05
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTA
Found at i:55288 original size:28 final size:28
Alignment explanation
Indices: 55256--55324 Score: 138
Period size: 28 Copynumber: 2.5 Consensus size: 28
55246 TATTTTCCTC
55256 ATCAATTAAACAAATCAGACTTTTAAGA
1 ATCAATTAAACAAATCAGACTTTTAAGA
55284 ATCAATTAAACAAATCAGACTTTTAAGA
1 ATCAATTAAACAAATCAGACTTTTAAGA
55312 ATCAATTAAACAA
1 ATCAATTAAACAA
55325 TCAAAAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (28 bp):
ATCAATTAAACAAATCAGACTTTTAAGA
Found at i:57201 original size:19 final size:20
Alignment explanation
Indices: 57169--57211 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
57159 AATAGTTTCT
57169 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
57189 GAAACTT-AAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
57208 GAAA
1 GAAA
57212 ATGACTATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.49, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:57384 original size:20 final size:20
Alignment explanation
Indices: 57355--57423 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
57345 GCGATTATCC
*
57355 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
*
57375 CGTTGTGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
* *
57395 CGTTACGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
57415 CGTTGCGAT
1 CGTTGCGAT
57424 TTAAGTTTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 3 0.07
20 35 0.85
21 3 0.07
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:59346 original size:20 final size:20
Alignment explanation
Indices: 59323--59405 Score: 96
Period size: 20 Copynumber: 4.2 Consensus size: 20
59313 GAAACTTAAA
59323 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
59343 ATCGCAACGCG-AAATGAAA
1 ATCGCAACACGAAAATGACT
59362 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* * **
59382 ATCGTAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
59402 ATCG
1 ATCG
59406 TTACGATTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.31
20 36 0.69
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:59374 original size:39 final size:39
Alignment explanation
Indices: 59320--59394 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
59310 TCTGAAACTT
59320 AAAATCGCAACACGAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAACACGAAAATGACTATCGCAACGCGAAATG
*
59359 AAAATCGCAACACGAAAATGACTATCGTAACGCGAA
1 AAAATCGCAACACGAAAATGACTATCGCAACGCGAA
59395 TTTGACTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.13
Consensus pattern (39 bp):
AAAATCGCAACACGAAAATGACTATCGCAACGCGAAATG
Found at i:59799 original size:20 final size:21
Alignment explanation
Indices: 59774--59816 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
59764 TCTGAGAGAT
*
59774 GGAGATA-GACGGATTTCGCC
1 GGAGATAGGACGGATGTCGCC
59794 GGAGATAGGGACGGATGTCGCC
1 GGAGATA-GGACGGATGTCGCC
59816 G
1 G
59817 TAAAAAGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.23, C:0.19, G:0.42, T:0.16
Consensus pattern (21 bp):
GGAGATAGGACGGATGTCGCC
Found at i:59980 original size:21 final size:21
Alignment explanation
Indices: 59956--60033 Score: 122
Period size: 21 Copynumber: 3.7 Consensus size: 21
59946 CGCTTTGAAA
59956 ATCGCATTGCGATTTTGTATT
1 ATCGCATTGCGATTTTGTATT
59977 ATCGCATTGCGATTTTGTATT
1 ATCGCATTGCGATTTTGTATT
* *
59998 ATCGCGTTGCGATTATGTATT
1 ATCGCATTGCGATTTTGTATT
60019 ATCG-AGTTGCGATTT
1 ATCGCA-TTGCGATTT
60034 ACATATTCGC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.45
Consensus pattern (21 bp):
ATCGCATTGCGATTTTGTATT
Found at i:60120 original size:19 final size:19
Alignment explanation
Indices: 60096--60132 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
60086 TGATTTACTG
* *
60096 GAGATCGCGTTGTGATTTA
1 GAGATCGCATTGCGATTTA
60115 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
60133 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:61649 original size:2 final size:2
Alignment explanation
Indices: 61642--61668 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
61632 AAATATTTGG
61642 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
61669 ATAAAGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68201 original size:12 final size:12
Alignment explanation
Indices: 68172--68207 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
68162 ATCAGTATCG
*
68172 TTTTATATTATGA
1 TTTTATATT-TAA
68185 TTTTATATTTAA
1 TTTTATATTTAA
68197 TTTTATATTTA
1 TTTTATATTTA
68208 TAATATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:73486 original size:16 final size:16
Alignment explanation
Indices: 73465--73505 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
73455 CGCATATCTA
73465 AATGATTCAAATGCTG
1 AATGATTCAAATGCTG
* *
73481 AATGATTAAAATGTTG
1 AATGATTCAAATGCTG
73497 AATGATTCA
1 AATGATTCA
73506 GAGGCTCTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (16 bp):
AATGATTCAAATGCTG
Found at i:98694 original size:20 final size:19
Alignment explanation
Indices: 98669--98763 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 19
98659 GTGGGCTGGA
*
98669 AACCGGTTTAACCGGTTTTC
1 AACCGGTTTGACCGG-TTTC
98689 AACCGGTTCTGACCGGTTT-
1 AACCGGTT-TGACCGGTTTC
* *
98708 GACCGGTTTCAACCGG-TTC
1 AACCGGTTT-GACCGGTTTC
* *
98727 GAACCGGTTCTGACCGGTCTG
1 -AACCGGTT-TGACCGGTTTC
98748 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
98764 CTGACCCGAC
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
18 3 0.05
19 20 0.32
20 31 0.50
21 8 0.13
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.28
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTTC
Found at i:98705 original size:10 final size:10
Alignment explanation
Indices: 98690--98769 Score: 82
Period size: 10 Copynumber: 8.3 Consensus size: 10
98680 CCGGTTTTCA
98690 ACCGGTTCTG
1 ACCGGTTCTG
98700 ACCGGTT-TG
1 ACCGGTTCTG
*
98709 ACCGGTT-TCA
1 ACCGGTTCT-G
98719 ACCGGTTC-G
1 ACCGGTTCTG
98728 AACCGGTTCTG
1 -ACCGGTTCTG
98739 ACCGG-TCTG
1 ACCGGTTCTG
98748 AACCGGTT-TG
1 -ACCGGTTCTG
98758 ACCGG-TCTG
1 ACCGGTTCTG
98767 ACC
1 ACC
98770 CGACCGACCG
Statistics
Matches: 61, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
8 1 0.02
9 24 0.39
10 34 0.56
11 2 0.03
ACGTcount: A:0.15, C:0.30, G:0.29, T:0.26
Consensus pattern (10 bp):
ACCGGTTCTG
Found at i:98706 original size:30 final size:29
Alignment explanation
Indices: 98670--98769 Score: 123
Period size: 30 Copynumber: 3.4 Consensus size: 29
98660 TGGGCTGGAA
*
98670 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTCTG
98700 ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 ACCGGTTTGACCGGTTTCAACCGGTTCTG
* *
98728 AACCGGTTCTGACCGGTCTGAACCGGTT-TG
1 -ACCGGTT-TGACCGGTTTCAACCGGTTCTG
*
98758 ACCGGTCTGACC
1 ACCGGTTTGACC
98770 CGACCGACCG
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
28 6 0.10
29 26 0.41
30 31 0.49
ACGTcount: A:0.16, C:0.29, G:0.27, T:0.28
Consensus pattern (29 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:98714 original size:19 final size:19
Alignment explanation
Indices: 98689--98767 Score: 90
Period size: 19 Copynumber: 4.1 Consensus size: 19
98679 ACCGGTTTTC
*
98689 AACCGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
*
98709 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
98728 AACCGGTTCTGACCGGTCTG
1 AACCGGTT-TGACCGGTCTG
98748 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
98767 A
1 A
98768 CCCGACCGAC
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 26 0.50
20 22 0.42
21 2 0.04
ACGTcount: A:0.16, C:0.28, G:0.29, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:98762 original size:39 final size:38
Alignment explanation
Indices: 98669--98763 Score: 129
Period size: 39 Copynumber: 2.4 Consensus size: 38
98659 GTGGGCTGGA
*
98669 AACCGGTTTAACCGGTTTTCAACCGGTTCTGACCGGTTTG
1 AACCGGTTTAACCGG--TTCAACCGGTTCTGACCGGTCTG
98709 -ACCGGTTTCAACCGGTTCGAACCGGTTCTGACCGGTCTG
1 AACCGGTTT-AACCGGTTC-AACCGGTTCTGACCGGTCTG
*
98748 AACCGGTTTGACCGGT
1 AACCGGTTTAACCGGT
98764 CTGACCCGAC
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
38 3 0.06
39 33 0.66
40 14 0.28
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.28
Consensus pattern (38 bp):
AACCGGTTTAACCGGTTCAACCGGTTCTGACCGGTCTG
Found at i:105990 original size:17 final size:18
Alignment explanation
Indices: 105967--106032 Score: 84
Period size: 17 Copynumber: 3.8 Consensus size: 18
105957 TGACCGGTCT
105967 GACCCGA-CCGACCGACC
1 GACCCGACCCGACCGACC
* **
105984 AACCCGACCCGACCG-TT
1 GACCCGACCCGACCGACC
106001 GACCCGA-CCGACCGACC
1 GACCCGACCCGACCGACC
106018 GACCCGACCCGACCG
1 GACCCGACCCGACCG
106033 TTGACCGTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 7 0.17
17 19 0.47
18 14 0.35
ACGTcount: A:0.23, C:0.52, G:0.23, T:0.03
Consensus pattern (18 bp):
GACCCGACCCGACCGACC
Found at i:106004 original size:34 final size:34
Alignment explanation
Indices: 105966--106038 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
105956 TTGACCGGTC
105966 TGACCCGACCGACCGACCAACCCGACCCGACCGT
1 TGACCCGACCGACCGACCAACCCGACCCGACCGT
*
106000 TGACCCGACCGACCGACCGACCCGACCCGACCGT
1 TGACCCGACCGACCGACCAACCCGACCCGACCGT
106034 TGACC
1 TGACC
106039 GTTGACTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.22, C:0.49, G:0.22, T:0.07
Consensus pattern (34 bp):
TGACCCGACCGACCGACCAACCCGACCCGACCGT
Found at i:106038 original size:17 final size:17
Alignment explanation
Indices: 105985--106038 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
105975 CGACCGACCA
105985 ACCCGACCCGACCGTTG
1 ACCCGACCCGACCGTTG
**
106002 ACCCGA-CCGACCGACCG
1 ACCCGACCCGACCG-TTG
106019 ACCCGACCCGACCGTTG
1 ACCCGACCCGACCGTTG
106036 ACC
1 ACC
106039 GTTGACTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 7 0.23
17 17 0.55
18 7 0.23
ACGTcount: A:0.20, C:0.50, G:0.22, T:0.07
Consensus pattern (17 bp):
ACCCGACCCGACCGTTG
Found at i:109201 original size:64 final size:64
Alignment explanation
Indices: 109127--109269 Score: 184
Period size: 64 Copynumber: 2.2 Consensus size: 64
109117 ATTGTTTAAG
* *
109127 GTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATATGATTTATGCATCGATGCATAAG-G
1 GTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATTTATGCATCGATGCAT-AGTG
109190 -A
63 TA
* * *
109191 GTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTATGCATCGATGCATGGTGTA
1 GTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTTATGCATCGATGCATAGTGTA
109256 GTGCATCGATGCAT
1 GTGCATCGATGCAT
109270 ACCTTCATTA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 46 0.66
65 22 0.31
66 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATCCAATTAAATAAAAACATCGAATAGGATTTATGCATCGATGCATAGTGTA
Found at i:109269 original size:65 final size:65
Alignment explanation
Indices: 109145--109269 Score: 191
Period size: 64 Copynumber: 1.9 Consensus size: 65
109135 ATGCATGAAT
*
109145 TTAAATAGAAAACATCGAATATGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
1 TTAAATAGAAAACATCGAATAGGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
* *
109210 TTAAATA-CAAACATCGAATAGGATTTATGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TTAAATAGAAAACATCGAATAGGATTTATGCATCGATGCATAAG-G-AGTGCATCGATGCAT
109270 ACCTTCATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
63 1 0.02
64 32 0.58
65 22 0.40
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (65 bp):
TTAAATAGAAAACATCGAATAGGATTTATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA
Found at i:110649 original size:21 final size:21
Alignment explanation
Indices: 110623--110685 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
110613 GTCGAGGGTT
110623 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
*
110644 TCATAGGTCCTTCGGGACAAAT
1 TCATAGGTCCTTCGGGAC-AAC
*
110666 TCACAGGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
110686 ATTTCATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Found at i:110676 original size:22 final size:22
Alignment explanation
Indices: 110622--110693 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
110612 AGTCGAGGGT
110622 TTCATAGGTCCTTCGGGAC-AA
1 TTCATAGGTCCTTCGGGACAAA
*
110643 CTCATAGGTCCTTCGGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
*
110665 TTCACAGGTCCTTCGGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
110687 TTTCATA
1 -TTCATA
110694 TGCCACTCAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.40
22 22 0.49
23 5 0.11
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (22 bp):
TTCATAGGTCCTTCGGGACAAA
Found at i:113116 original size:2 final size:2
Alignment explanation
Indices: 113104--113159 Score: 103
Period size: 2 Copynumber: 27.5 Consensus size: 2
113094 AAGTGACCTG
113104 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113147 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
113160 AAGGAAAAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 51 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114259 original size:65 final size:65
Alignment explanation
Indices: 114099--114259 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 65
114089 TTGTTTAAGG
* * * ** *
114099 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATATGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
114162 A
65 A
*
114163 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
114227 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
114260 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 61 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:115663 original size:21 final size:21
Alignment explanation
Indices: 115633--115695 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
115623 GTCGAGGGTT
*
115633 TCATAAGTCCTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
*
115654 TCATAGGTCCTTCGGGACAAAT
1 TCATAGGTCCTTCGGGAC-AAC
*
115676 TCACAGGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
115696 ATTTCATATG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Found at i:115686 original size:22 final size:22
Alignment explanation
Indices: 115639--115698 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
115629 GGTTTCATAA
* *
115639 GTCCTTCGGGAC-AACTCATAG
1 GTCCTTCGGGACAAATTCACAG
115660 GTCCTTCGGGACAAATTCACAG
1 GTCCTTCGGGACAAATTCACAG
115682 GTCCTTCGGGACAAATT
1 GTCCTTCGGGACAAATT
115699 TCATATGCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 12 0.33
22 24 0.67
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (22 bp):
GTCCTTCGGGACAAATTCACAG
Found at i:117521 original size:21 final size:21
Alignment explanation
Indices: 117495--117534 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
117485 TTTGATTAAG
*
117495 TATCAAAGGAGTATCGATACT
1 TATCAAAGAAGTATCGATACT
117516 TATCAAAGAAGTATCGATA
1 TATCAAAGAAGTATCGATA
117535 ATCGGGGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (21 bp):
TATCAAAGAAGTATCGATACT
Found at i:118295 original size:23 final size:23
Alignment explanation
Indices: 118269--118337 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
118259 TCACACAGCT
* * *
118269 CGTATAAATGCATCAAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
118292 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
118315 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
118338 TATAAGATTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:120969 original size:45 final size:46
Alignment explanation
Indices: 120920--121010 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
120910 GAACATCGAA
* * * *
120920 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCAATACACTCAG
120965 TGCATTTGATGCATCGATGCACAAGACCATGCATCAATACACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCAATACACTCAG
121011 GCTTTTTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCAATACACTCAG
Found at i:129040 original size:45 final size:46
Alignment explanation
Indices: 128991--129081 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 46
128981 GAACATCGAA
* * * * *
128991 TGCATTTTATGCATCGATGTAC-ATACCTTGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATACACTCAG
129036 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATACACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATACACTCAG
129082 GCTTTTTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 20 0.50
46 20 0.50
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATACACTCAG
Found at i:131641 original size:100 final size:100
Alignment explanation
Indices: 131463--131653 Score: 283
Period size: 100 Copynumber: 1.9 Consensus size: 100
131453 TAGATAATGC
* * * *
131463 ATGTACTTACTGCTTAGTACCTCGTCATTAGCACGCTTTTCTTTATGTAACTCTTAATGTTGCTC
1 ATGTACTTACTGCTTAGTACCTCGTCATTAGCACACTTATCTTTATGTAACCCTTAATATTGCTC
*
131528 GAGATTAGCGATTATATTGCTGAGCTATATCATGT
66 GAGATTAACGATTATATTGCTGAGCTATATCATGT
* * *
131563 ATGTACTTACTTCTTAGTACCTCGTCATTAGCACACTTATGTTTATGTAACCCTTAATATTGTTC
1 ATGTACTTACTGCTTAGTACCTCGTCATTAGCACACTTATCTTTATGTAACCCTTAATATTGCTC
* * *
131628 TAGATTAATGATTATATTGTTGAGCT
66 GAGATTAACGATTATATTGCTGAGCT
131654 TTGTAAGCTC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (100 bp):
ATGTACTTACTGCTTAGTACCTCGTCATTAGCACACTTATCTTTATGTAACCCTTAATATTGCTC
GAGATTAACGATTATATTGCTGAGCTATATCATGT
Found at i:132210 original size:20 final size:20
Alignment explanation
Indices: 132185--132222 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
132175 TAATAGAGTG
*
132185 AAGTATCGATACTTAAGGCA
1 AAGTATCGATACTAAAGGCA
*
132205 AAGTATTGATACTAAAGG
1 AAGTATCGATACTAAAGG
132223 GTCAGTACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
AAGTATCGATACTAAAGGCA
Found at i:134585 original size:21 final size:21
Alignment explanation
Indices: 134561--134601 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
134551 AATTCAAATG
134561 GGTACAAATTCTCCAATGAAA
1 GGTACAAATTCTCCAATGAAA
134582 GGTACAAATTCTCCAATGAA
1 GGTACAAATTCTCCAATGAA
134602 GGTGGAGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (21 bp):
GGTACAAATTCTCCAATGAAA
Found at i:135761 original size:40 final size:40
Alignment explanation
Indices: 135696--135788 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
135686 AAACCGCTTC
* *
135696 ATTGGAACGTTGCTATTACCAAACAAACCAAA-GAAAACG
1 ATTGGAACGTTACTATGACCAAACAAACCAAAGGAAAACG
* * * *
135735 AGTTGGACCGTTACTATGACCCAACAAATCAAAGGAAAAGG
1 A-TTGGAACGTTACTATGACCAAACAAACCAAAGGAAAACG
*
135776 ATTGGAGCGTTAC
1 ATTGGAACGTTAC
135789 GTTTAGGGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.02
40 37 0.82
41 7 0.16
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.19
Consensus pattern (40 bp):
ATTGGAACGTTACTATGACCAAACAAACCAAAGGAAAACG
Found at i:136500 original size:29 final size:29
Alignment explanation
Indices: 136465--136546 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
136455 AAACTAAATT
*
136465 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
136494 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
136523 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
136547 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:139240 original size:29 final size:29
Alignment explanation
Indices: 139205--139286 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
139195 AAACTAAATT
*
139205 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
139234 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
139263 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
139287 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:141403 original size:7 final size:7
Alignment explanation
Indices: 141366--141399 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
141356 GGTGGGGTAA
141366 TTTTTAT
1 TTTTTAT
141373 TTTTTAT
1 TTTTTAT
141380 TTTTTAT
1 TTTTTAT
*
141387 TTTTTAC
1 TTTTTAT
141394 TTTTTA
1 TTTTTA
141400 CTTTGAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:142361 original size:70 final size:70
Alignment explanation
Indices: 142248--142426 Score: 331
Period size: 70 Copynumber: 2.6 Consensus size: 70
142238 AGTCAGTTGG
*
142248 GATGCTCTTCTATGTTTCTTAACCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTAGACT
1 GATGCTCTTCTATATTTCTTAACCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTAGACT
142313 TTTAT
66 TTTAT
142318 GATGCTCTTCTATATTTCTTAACCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTAGACT
1 GATGCTCTTCTATATTTCTTAACCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTAGACT
142383 TTTAT
66 TTTAT
* *
142388 GACGCTCTTCTATATTTCTTAACCATGTGAGATTTTTTT
1 GATGCTCTTCTATATTTCTTAACCATGTGAGATTGTTTT
142427 TCTAAAATTA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 106 1.00
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (70 bp):
GATGCTCTTCTATATTTCTTAACCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTAGACT
TTTAT
Found at i:142368 original size:34 final size:34
Alignment explanation
Indices: 142262--142368 Score: 98
Period size: 34 Copynumber: 3.1 Consensus size: 34
142252 CTCTTCTATG
142262 TTTCTTAACCATGTGAGATTGTTTTGTTTTCATA
1 TTTCTTAACCATGTGAGATTGTTTTGTTTTCATA
* *
142296 TTT-TT-ACTC-T-TTAGACTT-TTATGATGCTCTTCTATA
1 TTTCTTAAC-CATGTGAGA-TTGTT-T--TG-TTTTC-ATA
142332 TTTCTTAACCATGTGAGATTGTTTTGTTTTCATA
1 TTTCTTAACCATGTGAGATTGTTTTGTTTTCATA
142366 TTT
1 TTT
142369 TTACTCTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 24
0.67 0.05 0.28
Matches are distributed among these distances:
31 6 0.11
32 6 0.11
33 3 0.05
34 11 0.19
35 8 0.14
36 8 0.14
37 3 0.05
38 6 0.11
39 6 0.11
ACGTcount: A:0.20, C:0.13, G:0.12, T:0.55
Consensus pattern (34 bp):
TTTCTTAACCATGTGAGATTGTTTTGTTTTCATA
Found at i:143546 original size:23 final size:23
Alignment explanation
Indices: 143509--143553 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
143499 AACGTGGGTG
*
143509 AAAATAAAAGTAAAATTAATTAAA
1 AAAAGAAAAGTAAAATT-ATTAAA
143533 AAAAGAAAAG-AAAATTATTAA
1 AAAAGAAAAGTAAAATTATTAA
143554 GCACTTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 6 0.30
24 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (23 bp):
AAAAGAAAAGTAAAATTATTAAA
Found at i:152262 original size:24 final size:24
Alignment explanation
Indices: 152221--152294 Score: 96
Period size: 24 Copynumber: 3.0 Consensus size: 24
152211 TCCCTGATCA
*
152221 TATGAATATTT-TATCTGATTTTTGC
1 TATGAAT-TTTGT-TCTGATTTCTGC
* *
152246 TCTGAATTTTGTTCTGATTTCTAC
1 TATGAATTTTGTTCTGATTTCTGC
152270 TATGAATTTTGTTCTGATTTCTGC
1 TATGAATTTTGTTCTGATTTCTGC
152294 T
1 T
152295 TTGATTTCTG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 36 0.84
25 7 0.16
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.55
Consensus pattern (24 bp):
TATGAATTTTGTTCTGATTTCTGC
Found at i:152485 original size:31 final size:31
Alignment explanation
Indices: 152447--152522 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
152437 TAAGGCGACC
* *
152447 CTTGGGTAGGCTCTGTGACCCT-GAGATTTTT
1 CTTGGGTAGGCTCTGTG-CCCTCGAGAATATT
* *
152478 CTTGGGTAGGCCTTTGTGGCCTCGAGAATATT
1 CTTGGGTAGG-CTCTGTGCCCTCGAGAATATT
152510 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
152523 GCAGGCCCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
31 15 0.39
32 23 0.61
ACGTcount: A:0.13, C:0.20, G:0.32, T:0.36
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGTGCCCTCGAGAATATT
Found at i:153241 original size:21 final size:21
Alignment explanation
Indices: 153212--153258 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
153202 ATTATGACTA
*
153212 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCAATTTCCCAAAT
* * *
153233 TCGCGTTGCAATTTTCCTAAT
1 TCGCATTGCAATTTCCCAAAT
153254 TCGCA
1 TCGCA
153259 ATGCGAATAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (21 bp):
TCGCATTGCAATTTCCCAAAT
Found at i:153279 original size:20 final size:20
Alignment explanation
Indices: 153254--153312 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
153244 TTTTCCTAAT
153254 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
153274 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
153294 TCGCAACGCGATTACGTAA
1 TCGCAATGCGAATACGTAA
153313 TCACATTGCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:153328 original size:20 final size:20
Alignment explanation
Indices: 153301--153345 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
153291 AAATCGCAAC
153301 GCGA-TTACGTAATCACATT
1 GCGATTTACGTAATCACATT
* *
153320 GCGATTTACGTAATCGCGTT
1 GCGATTTACGTAATCACATT
153340 GCGATT
1 GCGATT
153346 CAGTAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (20 bp):
GCGATTTACGTAATCACATT
Found at i:153335 original size:39 final size:40
Alignment explanation
Indices: 153254--153336 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
153244 TTTTCCTAAT
* *
153254 TCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAATCACAATGCGAATACGTAAA
* * *
153294 TCGCAACGCGATTACGT-AATCACATTGCGATTTACGT-AA
1 TCGCAACGCGAATACGTAAATCACAATGCGA-ATACGTAAA
153333 TCGC
1 TCGC
153337 GTTGCGATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 17 0.46
40 20 0.54
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (40 bp):
TCGCAACGCGAATACGTAAATCACAATGCGAATACGTAAA
Found at i:154271 original size:24 final size:24
Alignment explanation
Indices: 154220--154273 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
154210 GTATTCGAAA
*
154220 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
154244 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
154268 TTTGAT
1 TTTGAT
154274 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:156829 original size:19 final size:19
Alignment explanation
Indices: 156801--156959 Score: 115
Period size: 19 Copynumber: 8.8 Consensus size: 19
156791 TCTCAACGCG
*
156801 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
* *
156820 GAAATGAAAATCGTAACGC
1 GAAATGAAAATCGCAATGC
*
156839 GAAACT-AAAATCGCAACGC
1 GAAA-TGAAAATCGCAATGC
** *
156858 AGAAATGACTATCGTAATGC
1 -GAAATGAAAATCGCAATGC
*
156878 GAAATGAAGATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
156895 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
156911 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
** *
156928 G--A-GGGAATCGCAAAGC
1 GAAATGAAAATCGCAATGC
156944 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
156960 CACGAATTTA
Statistics
Matches: 109, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
14 18 0.17
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 65 0.60
20 14 0.13
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:156848 original size:39 final size:38
Alignment explanation
Indices: 156795--156895 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 38
156785 TGTCTATCTC
*
156795 AACGCGGAAATAAAAATCGCAATGC-GAAATGAAAATCGT
1 AACGC-GAAAT-AAAATCGCAACGCAGAAATGAAAATCGT
**
156834 AACGCGAAACTAAAATCGCAACGCAGAAATGACTATCGT
1 AACGCGAAA-TAAAATCGCAACGCAGAAATGAAAATCGT
* *
156873 AATGCGAAATGAAGATCGCAACG
1 AACGCGAAAT-AAAATCGCAACG
156896 AGAGAATCGC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
38 17 0.31
39 37 0.69
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.15
Consensus pattern (38 bp):
AACGCGAAATAAAATCGCAACGCAGAAATGAAAATCGT
Found at i:156915 original size:33 final size:33
Alignment explanation
Indices: 156868--156960 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
156858 AGAAATGACT
* *
156868 ATCGTAATGCGAAATGAAGATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
156901 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
156934 ATCGCAAAGCGAAATGAAAATCGCAAC
1 ATCGCAATGCGAAATGAAAATCGCAAC
156961 ACGAATTTAG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:156988 original size:19 final size:19
Alignment explanation
Indices: 156966--157004 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
156956 GCAACACGAA
*
156966 TTTAGTTTCGCGTTGCGAT
1 TTTAGTTTCGCATTGCGAT
156985 TTTAGTTTCGCATTGCGAT
1 TTTAGTTTCGCATTGCGAT
157004 T
1 T
157005 CTCTCGTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.13, C:0.15, G:0.23, T:0.49
Consensus pattern (19 bp):
TTTAGTTTCGCATTGCGAT
Found at i:157016 original size:14 final size:14
Alignment explanation
Indices: 156997--157051 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
156987 TAGTTTCGCA
156997 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
157011 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
157028 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
157044 TTGCGATT
1 TTGCGATT
157052 TTCATTTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:157018 original size:33 final size:33
Alignment explanation
Indices: 156976--157069 Score: 163
Period size: 33 Copynumber: 2.8 Consensus size: 33
156966 TTTAGTTTCG
156976 CGTTGCGATTTT-AGTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
157009 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
157042 CGTTGCGATTTTCATTTCACATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
157070 AGTCATTTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
33 58 0.98
34 1 0.02
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:157035 original size:19 final size:19
Alignment explanation
Indices: 156971--157069 Score: 76
Period size: 19 Copynumber: 5.7 Consensus size: 19
156961 ACGAATTTAG
*
156971 TTTCGCGTTGCGATTTT-A
1 TTTCGCATTGCGATTTTCA
156989 GTTTCGCATTGCGA--TTC-
1 -TTTCGCATTGCGATTTTCA
*
157006 TCTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
157023 TTTCGCATTGCGA--TTC-
1 TTTCGCATTGCGATTTTCA
*
157039 TCTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
*
157056 TTTCACATTGCGAT
1 TTTCGCATTGCGAT
157070 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
14 12 0.19
16 14 0.22
17 12 0.19
19 25 0.40
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.45
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:158629 original size:21 final size:21
Alignment explanation
Indices: 158563--158629 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
158553 GTGAATCGGG
* *
158563 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGAGAGGGGA
* * * * *
158583 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGAGAGGGGA
158605 CTCTTGAACGGTGAGAGGGGA
1 CTCTTGAACGGTGAGAGGGGA
158626 CTCT
1 CTCT
158630 CGAGGAATGA
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGAGAGGGGA
Found at i:159200 original size:42 final size:42
Alignment explanation
Indices: 159153--159249 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 42
159143 GTGACGGGAT
159153 AGGTGATGGCTCTCGTTGTAGAAGTGTATAGTCGAGTCGATC
1 AGGTGATGGCTCTCGTTGTAGAAGTGTATAGTCGAGTCGATC
* *
159195 AGGTGATGGCTCTCGTTGTAGAGGTGTATAGTCGGGTCGATC
1 AGGTGATGGCTCTCGTTGTAGAAGTGTATAGTCGAGTCGATC
159237 AGGTGATGGCTCT
1 AGGTGATGGCTCT
159250 GGGTGAGGTG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.19, C:0.14, G:0.36, T:0.31
Consensus pattern (42 bp):
AGGTGATGGCTCTCGTTGTAGAAGTGTATAGTCGAGTCGATC
Found at i:160562 original size:20 final size:20
Alignment explanation
Indices: 160537--160592 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
160527 TGAAATAAAA
160537 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
*
160557 ATCGCAACGCGTA-AATGACT
1 ATCGCAACGAG-AGAATGACT
*
160577 ATCGCAATGAGAGAAT
1 ATCGCAACGAGAGAAT
160593 CGCAATGAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:160614 original size:33 final size:33
Alignment explanation
Indices: 160577--160650 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
160567 GTAAATGACT
* * * *
160577 ATCGCAATGAGAGAATCGCAATGAGGAATGAAA
1 ATCGCAACGAGAGAATCACAACGAGAAATGAAA
* *
160610 ATCGCAACGAGATAATCACAACGCGAAATGAAA
1 ATCGCAACGAGAGAATCACAACGAGAAATGAAA
160643 ATCGCAAC
1 ATCGCAAC
160651 TTTTCATTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCACAACGAGAAATGAAA
Found at i:160713 original size:21 final size:21
Alignment explanation
Indices: 160670--160725 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
160660 CGCGTTGCGA
* **
160670 TTCTCTCGTTGCAATTTTAAT
1 TTCTCTCGTTGCGATAGTAAT
*
160691 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATAGTAAT
160712 TT-TCGT-GTTGCGAT
1 TTCTC-TCGTTGCGAT
160726 TTTCATTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATAGTAAT
Found at i:160746 original size:20 final size:20
Alignment explanation
Indices: 160698--160748 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
160688 AATTTCTCTC
** *
160698 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCAT
160718 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
160738 GTTGCGATTTT
1 GTTGCGATTTT
160749 AAGTTTAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:161331 original size:20 final size:20
Alignment explanation
Indices: 161306--161498 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
161296 CTTTAAAAAT
161306 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
161326 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
161346 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * *
161367 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
161387 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* *
161407 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
161427 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
161447 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
161467 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
161488 CTCGTTGCGAT
1 CGCGTTGCGAT
161499 AGTCAGAATC
Statistics
Matches: 142, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
20 109 0.77
21 33 0.23
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:161392 original size:40 final size:40
Alignment explanation
Indices: 161308--161498 Score: 319
Period size: 40 Copynumber: 4.7 Consensus size: 40
161298 TTAAAAATCG
*
161308 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
*
161349 CGTTGCGATTTACGGATACGCATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
*
161389 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
*
161429 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
*
161470 CGTTGCGATTTACGGATACTCGTTGCGAT
1 CGTTGCGATTTACGGATACGCGTTGCGAT
161499 AGTCAGAATC
Statistics
Matches: 142, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 77 0.54
41 65 0.46
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
Found at i:161530 original size:20 final size:20
Alignment explanation
Indices: 161507--161559 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
161497 ATAGTCAGAA
*
161507 TCGCGTTACGATTTAT-ATGT
1 TCGCGTTACGATTT-TCATAT
161527 TCGCGTTACGATTTTCATAT
1 TCGCGTTACGATTTTCATAT
*
161547 TCGCGTTGCGATT
1 TCGCGTTACGATT
161560 ATGGAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (20 bp):
TCGCGTTACGATTTTCATAT
Found at i:161532 original size:121 final size:121
Alignment explanation
Indices: 161305--161559 Score: 354
Period size: 121 Copynumber: 2.1 Consensus size: 121
161295 GCTTTAAAAA
161305 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
* * * * * *
161370 ATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGTAT
66 ATTGCGATTCACGTAATCGCGTTACGATTTACAGATACGCGTTACGATTTACATAT
* *
161426 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACTC
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
* * * *
161491 GTTGCGATAGTCA-G-AATCGCGTTACGATTTATATG-TTCGCGTTACGATTTTCATAT
66 ATTGCGAT--TCACGTAATCGCGTTACGATTTACA-GATACGCGTTACGATTTACATAT
161547 TCGCGTTGCGATT
1 TCGCGTTGCGATT
161560 ATGGAAAATC
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
121 114 0.97
122 2 0.02
123 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (121 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
ATTGCGATTCACGTAATCGCGTTACGATTTACAGATACGCGTTACGATTTACATAT
Found at i:161539 original size:101 final size:101
Alignment explanation
Indices: 161371--161559 Score: 229
Period size: 101 Copynumber: 1.9 Consensus size: 101
161361 CGGATACGCA
* * * * * * *
161371 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCG
1 TTGCGATTTACGGATACTCGTTGCGATGTACAGATACGCGTTACGATTTACATATTCGCGTTACG
*
161436 ATTTACGGATACGCGTTGCGATTTTACGTATTGTCG
66 ATTTACAGATACGCGTTGCGATTTTACGTATTGTCG
* *
161472 TTGCGATTTACGGATACTCGTTGCGATAGT-CAGA-ATCGCGTTACGATTTATATGTTCGCGTTA
1 TTGCGATTTACGGATACTCGTTGCGAT-GTACAGATA-CGCGTTACGATTTACATATTCGCGTTA
* * *
161535 CGATTTTCATATTCGCGTTGCGATT
64 CGATTTACAGATACGCGTTGCGATT
161560 ATGGAAAATC
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
100 1 0.01
101 71 0.97
102 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (101 bp):
TTGCGATTTACGGATACTCGTTGCGATGTACAGATACGCGTTACGATTTACATATTCGCGTTACG
ATTTACAGATACGCGTTGCGATTTTACGTATTGTCG
Found at i:162228 original size:16 final size:16
Alignment explanation
Indices: 162207--162237 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
162197 ATAAATAAAT
*
162207 GAACATAAACGAACAC
1 GAACATAAACAAACAC
162223 GAACATAAACAAACA
1 GAACATAAACAAACA
162238 AAATTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.23, G:0.10, T:0.06
Consensus pattern (16 bp):
GAACATAAACAAACAC
Found at i:162324 original size:14 final size:14
Alignment explanation
Indices: 162305--162335 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
162295 TTAAATGATA
162305 AACGAACACAAACG
1 AACGAACACAAACG
*
162319 AACGAACATAAACG
1 AACGAACACAAACG
162333 AAC
1 AAC
162336 ACAATAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.26, G:0.13, T:0.03
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:162639 original size:10 final size:10
Alignment explanation
Indices: 162624--162684 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 10
162614 CCCTCTATTC
162624 GAACATAAAT
1 GAACATAAAT
162634 GAACATAAAT
1 GAACATAAAT
*
162644 GAACGA-ACAT
1 GAAC-ATAAAT
* *
162654 -AA-ATGAAC
1 GAACATAAAT
*
162662 GGACATAAAT
1 GAACATAAAT
162672 GAACATAAAT
1 GAACATAAAT
162682 GAA
1 GAA
162685 TGAACATAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 33 0.85
11 1 0.03
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.16
Consensus pattern (10 bp):
GAACATAAAT
Found at i:162652 original size:24 final size:24
Alignment explanation
Indices: 162623--162702 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
162613 GCCCTCTATT
* *
162623 CGAACATAAATGAACATAAATGAA
1 CGAACATAAATGAACAGAAATAAA
* *
162647 CGAACATAAATGAACGGACATAAA
1 CGAACATAAATGAACAGAAATAAA
* *
162671 TGAACATAAATGAA-TGAACATAAA
1 CGAACATAAATGAACAGAA-ATAAA
162695 CGAACATA
1 CGAACATA
162703 TAATCGAATG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 2 0.04
24 45 0.96
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.16
Consensus pattern (24 bp):
CGAACATAAATGAACAGAAATAAA
Found at i:162653 original size:14 final size:14
Alignment explanation
Indices: 162634--162699 Score: 77
Period size: 14 Copynumber: 5.0 Consensus size: 14
162624 GAACATAAAT
162634 GAACATAAATGAAC
1 GAACATAAATGAAC
162648 GAACATAAATGAAC
1 GAACATAAATGAAC
*
162662 GGACATAAAT----
1 GAACATAAATGAAC
*
162672 GAACATAAATGAAT
1 GAACATAAATGAAC
*
162686 GAACATAAACGAAC
1 GAACATAAATGAAC
162700 ATATAATCGA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.20
14 35 0.80
ACGTcount: A:0.56, C:0.14, G:0.15, T:0.15
Consensus pattern (14 bp):
GAACATAAATGAAC
Found at i:162669 original size:38 final size:38
Alignment explanation
Indices: 162626--162699 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
162616 CTCTATTCGA
*
162626 ACATAAATGAACATAAATGAACGAACATAAATGAACGG
1 ACATAAATGAACATAAATGAACGAACATAAACGAACGG
*
162664 ACATAAATGAACATAAATGAATGAACATAAACGAAC
1 ACATAAATGAACATAAATGAACGAACATAAACGAAC
162700 ATATAATCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (38 bp):
ACATAAATGAACATAAATGAACGAACATAAACGAACGG
Found at i:165623 original size:34 final size:37
Alignment explanation
Indices: 165579--165680 Score: 158
Period size: 34 Copynumber: 2.8 Consensus size: 37
165569 TTTCGTCCTA
*
165579 CTAGGATTCAAACTCCTAAAAATATGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
165614 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
165649 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
165681 GTTCTACTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
33 1 0.02
34 28 0.46
35 3 0.05
37 28 0.46
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:166113 original size:18 final size:17
Alignment explanation
Indices: 166074--166116 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
166064 ATTATATGGA
166074 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
166090 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
166108 TATTATTAT
1 TATTATTAT
166117 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:168691 original size:18 final size:18
Alignment explanation
Indices: 168668--168707 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
168658 TTCCTTCAAG
168668 TCTGGATTCACATCCACT
1 TCTGGATTCACATCCACT
168686 TCTGGATTCACATCCACT
1 TCTGGATTCACATCCACT
168704 TCTG
1 TCTG
168708 AAAGACTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (18 bp):
TCTGGATTCACATCCACT
Found at i:169240 original size:8 final size:8
Alignment explanation
Indices: 169227--169265 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
169217 GAACATTTCG
*
169227 TGCATTCT
1 TGCATTTT
169235 TGCA-TTT
1 TGCATTTT
169242 TGCATTTT
1 TGCATTTT
*
169250 TGCCTTTT
1 TGCATTTT
169258 TGCATTTT
1 TGCATTTT
169266 CATCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:170444 original size:16 final size:16
Alignment explanation
Indices: 170418--170451 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
170408 AGATCCAATC
170418 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
170433 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
170450 AA
1 AA
170452 AAAAAAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 8 0.47
17 4 0.24
ACGTcount: A:0.76, C:0.09, G:0.15, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:170457 original size:12 final size:13
Alignment explanation
Indices: 170440--170468 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
170430 GAAAAGAAGC
170440 AAAAAAGCAAA-A
1 AAAAAAGCAAAGA
170452 AAAAAAGCAAAGA
1 AAAAAAGCAAAGA
170465 AAAA
1 AAAA
170469 GAGAAACAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAGCAAAGA
Found at i:170521 original size:23 final size:21
Alignment explanation
Indices: 170481--170523 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
170471 GAAACAAGAA
170481 CAAAAAAAAAAGAGCAAAAAT
1 CAAAAAAAAAAGAGCAAAAAT
*
170502 CAAAAAGAAAAAGGGACAAAAA
1 CAAAAA-AAAAAGAG-CAAAAA
170524 GCACATGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 7 0.37
23 6 0.32
ACGTcount: A:0.74, C:0.09, G:0.14, T:0.02
Consensus pattern (21 bp):
CAAAAAAAAAAGAGCAAAAAT
Found at i:171174 original size:22 final size:22
Alignment explanation
Indices: 171149--171219 Score: 124
Period size: 22 Copynumber: 3.2 Consensus size: 22
171139 CCATCAATCT
*
171149 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGTCAAACC
171171 TTTGAGCATCAAATGTCAAACC
1 TTTGAGCATCAAATGTCAAACC
*
171193 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGTCAAACC
171215 TTTGA
1 TTTGA
171220 CCAAACACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (22 bp):
TTTGAGCATCAAATGTCAAACC
Found at i:172167 original size:36 final size:36
Alignment explanation
Indices: 172124--172405 Score: 312
Period size: 36 Copynumber: 8.0 Consensus size: 36
172114 ACTAGAAGAG
172124 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
172160 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
172196 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
172232 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
172268 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
** * ** * *
172297 TTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
*
172334 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
172369 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
172406 ACCTTTGAAT
Statistics
Matches: 205, Mismatches: 29, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.09
30 2 0.01
35 6 0.03
36 142 0.69
37 34 0.17
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:172167 original size:71 final size:73
Alignment explanation
Indices: 172082--172405 Score: 239
Period size: 72 Copynumber: 4.6 Consensus size: 73
172072 GTTTTTCTTA
* * * * * *
172082 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
172144 TTTCCCTTG
65 TTTCCCTTG
* *
172153 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
172217 TTCCCTTG
66 TTCCCTTG
* * * * *
172225 AAATAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACA-G
* *
172281 TTTTCTTTG
65 TTTCCCTTG
** * ** * * * * *
172290 AAACAAATTCCGTCTCCCTTGAGACAG-TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAAC-AAATTTCGTCTATCTTGAGACAG
*
172354 TTTCTCTTG
65 TTTCCCTTG
* * *
172363 AAAC-AATTTTCGTCTATCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTT-GTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
172406 ACCTTTGAAT
Statistics
Matches: 203, Mismatches: 36, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
64 2 0.01
65 45 0.22
66 5 0.02
70 8 0.04
71 25 0.12
72 77 0.38
73 39 0.19
74 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:172365 original size:102 final size:102
Alignment explanation
Indices: 172180--172368 Score: 290
Period size: 102 Copynumber: 1.9 Consensus size: 102
172170 CTTGAGACAG
* *
172180 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
172245 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
66 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
* ** * *
172282 TTTCT-TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCT
*
172346 TGAGACAGTTTCTCTTGAAACAA
65 TGAGACAGTTTCCCTTGAAACAA
172369 TTTTCGTCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 33 0.42
102 45 0.58
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (102 bp):
TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
Found at i:172397 original size:138 final size:137
Alignment explanation
Indices: 172144--172468 Score: 436
Period size: 138 Copynumber: 2.4 Consensus size: 137
172134 CTTGAGACAG
*
172144 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
* *
172209 GAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTT
66 GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTT
*
172274 GAATATG
131 GAATATA
* * ** * * * * *
172281 TTTTCTTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCT
* * *
172346 TGAGACAGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCT
65 TGAGACAGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAACAT
*
172410 TTGAATTTA
129 TTGAATATA
* * * *
172419 TTTCCCCTAAAACAAATTTTGTCTCCTTTGAGACAGTTACTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
172469 CAAAATCTTC
Statistics
Matches: 159, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
137 49 0.31
138 110 0.69
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (137 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTT
GAATATA
Found at i:172498 original size:67 final size:68
Alignment explanation
Indices: 172380--172536 Score: 203
Period size: 68 Copynumber: 2.4 Consensus size: 68
172370 TTTCGTCTAT
* **
172380 CTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCCTAAAACA-AATTTTGTC
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTC
172442 TCC
66 TCC
* * * * *
172445 TTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTC
172510 TCC
66 TCC
* *
172513 CTTGAGACCGTTTCTCATGAAACA
1 CTTGAGACAGTTTCTCTTGAAACA
172537 ACAGATATCT
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
65 16 0.21
66 2 0.03
67 28 0.36
68 31 0.40
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (68 bp):
CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTC
TCC
Found at i:172721 original size:29 final size:28
Alignment explanation
Indices: 172688--172754 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 28
172678 GAATGTGCAC
*
172688 ATCAGATTTGAACATTTGAAGAATTCAAG-
1 ATCAGATTT-AAAATTTGAAG-ATTCAAGA
172717 ATCAGGGA-TTAAAATTTGAAGATTCAAGA
1 ATCA--GATTTAAAATTTGAAGATTCAAGA
172746 ATCAAGATT
1 ATC-AGATT
172755 CCAGACAGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
28 9 0.28
29 18 0.56
30 3 0.09
31 2 0.06
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (28 bp):
ATCAGATTTAAAATTTGAAGATTCAAGA
Found at i:173365 original size:105 final size:105
Alignment explanation
Indices: 173180--174221 Score: 1707
Period size: 105 Copynumber: 10.0 Consensus size: 105
173170 GCACTCGAGG
* * * * *
173180 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
173245 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
173286 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
173351 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
173391 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
173456 GCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
173496 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * *
173561 GCCAATTTCAACTTTACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
173601 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
173666 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
173706 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
173771 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * *
173811 CAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAATAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
173876 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
173916 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
173981 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
174021 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * *
174081 TTCAATTTCAACTTCATAACGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * * ** *
174121 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
* *
174186 AGCCAATTTCAACTTCACGACGGAGGATATTGGACT
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACT
174222 TGGAACAATG
Statistics
Matches: 889, Mismatches: 41, Indels: 12
0.94 0.04 0.01
Matches are distributed among these distances:
100 82 0.09
101 3 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 719 0.81
106 75 0.08
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:174804 original size:34 final size:37
Alignment explanation
Indices: 174760--174861 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 37
174750 TTTCGTCCTA
174760 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
174795 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
174830 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
174862 GTTCTACTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.47
35 3 0.05
37 28 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:174845 original size:37 final size:35
Alignment explanation
Indices: 174760--174895 Score: 168
Period size: 37 Copynumber: 3.8 Consensus size: 35
174750 TTTCGTCCTA
174760 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
174795 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
174830 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
174867 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
174896 CCACAAGCTC
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.33
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:175282 original size:17 final size:18
Alignment explanation
Indices: 175256--175295 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
175246 ATTATATGGA
175256 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
175272 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
175290 TATTAT
1 TATTAT
175296 ATGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:175797 original size:2 final size:2
Alignment explanation
Indices: 175790--175823 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
175780 TAATACTTTG
*
175790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
175824 TTTTTTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:178145 original size:13 final size:13
Alignment explanation
Indices: 178101--178147 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
178091 CTTTTCTTTG
*
178101 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
178115 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
178127 TTTATTTAAAATAA
1 -ATATTTAAAATAA
178141 ATATTTA
1 ATATTTA
178148 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:179594 original size:3 final size:3
Alignment explanation
Indices: 179586--179677 Score: 166
Period size: 3 Copynumber: 30.7 Consensus size: 3
179576 AATATATATT
* *
179586 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
179634 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
179678 TGGGTAAAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Done.