Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013010.1 Kokia drynarioides strain JFW-HI SEQ_128028, 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: 507880
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 307 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:2167 original size:19 final size:18
Alignment explanation
Indices: 2127--2168 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
2117 AAGTTTAATT
*
2127 ATAAACTAAAGTTGTTAT
1 ATAAACTAAAGTTGTTAG
2145 ATAAACTAAAAGTTAG-TAG
1 ATAAACT-AAAGTT-GTTAG
2164 ATAAA
1 ATAAA
2169 TGTTATCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 13 0.62
20 1 0.05
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (18 bp):
ATAAACTAAAGTTGTTAG
Found at i:4835 original size:12 final size:11
Alignment explanation
Indices: 4816--4855 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
4806 TATTCACAAA
4816 AACTCATTTAT
1 AACTCATTTAT
4827 AAGCTCATTTATT
1 AA-CTCATTTA-T
4840 AACTCATTTAT
1 AACTCATTTAT
*
4851 TACTC
1 AACTC
4856 GTTTGTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 7 0.27
12 16 0.62
13 3 0.12
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.45
Consensus pattern (11 bp):
AACTCATTTAT
Found at i:4970 original size:12 final size:12
Alignment explanation
Indices: 4955--5021 Score: 57
Period size: 12 Copynumber: 5.6 Consensus size: 12
4945 GTTCGTGAAC
4955 ATGTTCAATTAT
1 ATGTTCAATTAT
* * *
4967 ATGTTC-GTGAAC
1 ATGTTCAAT-TAT
4979 ATGTTCAATTAT
1 ATGTTCAATTAT
* *
4991 ATGTTC-ATGAAC
1 ATGTTCAAT-TAT
5003 ATGTTCAATTAT
1 ATGTTCAATTAT
5015 ATGTTCA
1 ATGTTCA
5022 TAAACATATT
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
11 3 0.07
12 35 0.85
13 3 0.07
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.43
Consensus pattern (12 bp):
ATGTTCAATTAT
Found at i:4971 original size:24 final size:24
Alignment explanation
Indices: 4944--5060 Score: 155
Period size: 24 Copynumber: 4.9 Consensus size: 24
4934 TCATTAACAT
4944 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
4968 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
*
4992 TGTTCATGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* * * **
5016 TGTTCATAAACATATTCGTTTA-A
1 TGTTCGTGAACATGTTCAATTATA
* *
5039 TGTTCGTGAACATATTCGATTA
1 TGTTCGTGAACATGTTCAATTA
5061 AGTTAAATGA
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
23 20 0.24
24 65 0.76
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:6181 original size:71 final size:71
Alignment explanation
Indices: 6097--6239 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
6087 TTATGCTAAG
6097 ACAGAAAGAAACATAAGAAGGATCACAAGGACTAAAAATGCACGATGTTAATCTTTCATTAGAGT
1 ACAGAAAGAAACATAAGAAGGATCACAAGGACTAAAAATGCACGATGTTAATCTTTCATTAGAGT
6162 GCCAAA
66 GCCAAA
6168 ACAGAAAGAAACATAAGAAGGATCACAAGGACTAAAAATGCACGATGTTAATCTTTCATTAGAGT
1 ACAGAAAGAAACATAAGAAGGATCACAAGGACTAAAAATGCACGATGTTAATCTTTCATTAGAGT
6233 GCCAAA
66 GCCAAA
6239 A
1 A
6240 TTATCATGTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (71 bp):
ACAGAAAGAAACATAAGAAGGATCACAAGGACTAAAAATGCACGATGTTAATCTTTCATTAGAGT
GCCAAA
Found at i:11967 original size:16 final size:18
Alignment explanation
Indices: 11943--11986 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
11933 TTTAAATTTA
11943 TAATATTTTATAT-T-ATG
1 TAAT-TTTTATATATAATG
*
11960 TTATTTTTATATATAATG
1 TAATTTTTATATATAATG
11978 TAATTTTTA
1 TAATTTTTA
11987 AGATGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 4 0.17
18 11 0.48
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TAATTTTTATATATAATG
Found at i:15197 original size:19 final size:19
Alignment explanation
Indices: 15162--15200 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15152 ATCATATTAA
*
15162 TAAAAAATTATTCAATATT
1 TAAAAAATTACTCAATATT
15181 TAAAAAATTTACT-AATATT
1 TAAAAAA-TTACTCAATATT
15200 T
1 T
15201 TGGTTCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAAAATTACTCAATATT
Found at i:17268 original size:30 final size:31
Alignment explanation
Indices: 17216--17273 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
17206 TATTTTAATA
*
17216 ATTTATATTTTTATAAATTTTAAAAAATCAT
1 ATTTAAATTTTTATAAATTTTAAAAAATCAT
*
17247 ATTTAAATTTTTAT-CATTTTAAAAAAT
1 ATTTAAATTTTTATAAATTTTAAAAAAT
17274 TAAAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (31 bp):
ATTTAAATTTTTATAAATTTTAAAAAATCAT
Found at i:17285 original size:31 final size:31
Alignment explanation
Indices: 17222--17285 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
17212 AATAATTTAT
* * *
17222 ATTTTTATAAATTTTAAAAAATCATATTTAA
1 ATTTTTATAAATTTTAAAAAATAAAATATAA
*
17253 ATTTTTAT-CATTTTAAAAAATTAAAATATAA
1 ATTTTTATAAATTTTAAAAAA-TAAAATATAA
17284 AT
1 AT
17286 ATATCATTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (31 bp):
ATTTTTATAAATTTTAAAAAATAAAATATAA
Found at i:18141 original size:21 final size:21
Alignment explanation
Indices: 18117--18167 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
18107 ATAATAGCAT
*
18117 AATCCAAATATAAAGTTTAGA
1 AATCCAAATATAAAATTTAGA
* *
18138 AATCCAAACATAAAATTTATA
1 AATCCAAATATAAAATTTAGA
*
18159 AATCTAAAT
1 AATCCAAAT
18168 TACATAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (21 bp):
AATCCAAATATAAAATTTAGA
Found at i:19859 original size:22 final size:22
Alignment explanation
Indices: 19825--19867 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
19815 TATCCAAACA
19825 ATAATAAGAAAAT-AGTAGTAAC
1 ATAATAAGAAAATGA-TAGTAAC
19847 ATAATAATG-AAATGATAGTAA
1 ATAATAA-GAAAATGATAGTAA
19868 AATAGTGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.58, C:0.02, G:0.14, T:0.26
Consensus pattern (22 bp):
ATAATAAGAAAATGATAGTAAC
Found at i:19921 original size:21 final size:21
Alignment explanation
Indices: 19877--19922 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
19867 AAATAGTGAG
*
19877 AAAACAATAAAAAAAAACAGA
1 AAAACAATAAAAAAAAACACA
19898 AAAACAAT-AAAAAAAACAACA
1 AAAACAATAAAAAAAAAC-ACA
19919 AAAA
1 AAAA
19923 AAGTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.83, C:0.11, G:0.02, T:0.04
Consensus pattern (21 bp):
AAAACAATAAAAAAAAACACA
Found at i:20419 original size:23 final size:23
Alignment explanation
Indices: 20393--20440 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20383 GTTCACAAAT
* *
20393 ATGTTCATTTAAC-TTAATCGAAC
1 ATGTTCA-TGAACATTAAACGAAC
20416 ATGTTCATGAACATTAAACGAAC
1 ATGTTCATGAACATTAAACGAAC
20439 AT
1 AT
20441 ATAATTGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (23 bp):
ATGTTCATGAACATTAAACGAAC
Found at i:20451 original size:35 final size:35
Alignment explanation
Indices: 20407--20492 Score: 163
Period size: 35 Copynumber: 2.5 Consensus size: 35
20397 TCATTTAACT
*
20407 TAATCGAACATGTTCATGAACATTAAACGAACATA
1 TAATTGAACATGTTCATGAACATTAAACGAACATA
20442 TAATTGAACATGTTCATGAACATTAAACGAACATA
1 TAATTGAACATGTTCATGAACATTAAACGAACATA
20477 TAATTGAACATGTTCA
1 TAATTGAACATGTTCA
20493 CAAACAATGC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (35 bp):
TAATTGAACATGTTCATGAACATTAAACGAACATA
Found at i:28562 original size:59 final size:62
Alignment explanation
Indices: 28491--28607 Score: 152
Period size: 59 Copynumber: 1.9 Consensus size: 62
28481 ATTACATTAA
* * * *
28491 TATTAAATTAATATAATATTTATC-A-AGATA-AA-TATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTACA-ATATAAGCATTAAATTAAATTTAATATTAAATCT
*
28550 TATTAAAATAATAGAATGTTTATCTACAATATAAGCATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATCTACAATATAAGCATTAAATTAAATTTAATATTAA
28608 GATAATCACT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 21 0.43
60 4 0.08
61 3 0.06
62 21 0.43
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (62 bp):
TATTAAAATAATAGAATATTTATCTACAATATAAGCATTAAATTAAATTTAATATTAAATCT
Found at i:28633 original size:20 final size:18
Alignment explanation
Indices: 28586--28634 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
28576 CAATATAAGC
28586 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
28603 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
28623 ATTAAATTAATA
1 ATTAAATTAATA
28635 AAATAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:31645 original size:52 final size:52
Alignment explanation
Indices: 31562--31660 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
31552 AAATAGGTTT
*
31562 GATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCC
*
31614 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGA
31661 AATCCTTTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (52 bp):
GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCC
Found at i:31666 original size:19 final size:19
Alignment explanation
Indices: 31638--31679 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
31628 ATCGTGAGTA
31638 TATG-AATCCTTTACGGAT
1 TATGAAATCCTTTACGGAT
31656 TATGAAATCCTTTACGGAT
1 TATGAAATCCTTTACGGAT
31675 TATGA
1 TATGA
31680 GGTCCGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (19 bp):
TATGAAATCCTTTACGGAT
Found at i:31706 original size:71 final size:70
Alignment explanation
Indices: 31586--31730 Score: 229
Period size: 71 Copynumber: 2.1 Consensus size: 70
31576 ATCGTGAGTA
31586 TATG-AATCCTTTACAGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTT
1 TATGAAATCCTTTACAGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATAT-AATCCTTT
**
31650 ACGGAT
65 ACAAAT
* * *
31656 TATGAAATCCTTTACGGATTATGAGGTCCGATGATTATGTGTCATTGTGAGTATATAATCCTTTA
1 TATGAAATCCTTTACAGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATAATCCTTTA
31721 CAAAT
66 CAAAT
31726 TATGA
1 TATGA
31731 GGTCCGATGA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
70 21 0.30
71 48 0.70
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (70 bp):
TATGAAATCCTTTACAGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATAATCCTTTA
CAAAT
Found at i:31737 original size:51 final size:51
Alignment explanation
Indices: 31661--31762 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
31651 CGGATTATGA
** *
31661 AATCCTTTACGGATTATGAGGTCCGATGATTATGTGTCATTGTGAGTATAT
1 AATCCTTTACAAATTATGAGGTCCGATGATTATGTGTCATCGTGAGTATAT
*
31712 AATCCTTTACAAATTATGAGGTCCGATGATTATGTGTCGTCGTGAGTATAT
1 AATCCTTTACAAATTATGAGGTCCGATGATTATGTGTCATCGTGAGTATAT
31763 GATTCCCAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (51 bp):
AATCCTTTACAAATTATGAGGTCCGATGATTATGTGTCATCGTGAGTATAT
Found at i:44888 original size:53 final size:52
Alignment explanation
Indices: 44721--44907 Score: 268
Period size: 52 Copynumber: 3.6 Consensus size: 52
44711 AAATGAAAAT
44721 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGA
* *
44773 GGTCCAATGACTAAGTGTTATCGTGAGTATATGAATCCTTTATGGATTATGA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGA
* * * ** **
44825 GGTCCGATGACTATGTGTCATCATGAGTATATGAATTCCTTTACGGAACAACA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAA-TCCTTTATGGATTATGA
44878 GGTCCGATGACTATA-TGTCATCGTGAGTAT
1 GGTCCGATGACTA-AGTGTCATCGTGAGTAT
44908 TAAATGAAAT
Statistics
Matches: 120, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
52 81 0.68
53 39 0.32
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (52 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGA
Found at i:51596 original size:52 final size:51
Alignment explanation
Indices: 51512--51663 Score: 178
Period size: 52 Copynumber: 2.9 Consensus size: 51
51502 GTAAATGAAA
* * ** *
51512 AAGGTCTGATGTCTAAGTGTCATTATGTGTATATGAATCCTTTACGGATTAT
1 AAGGTCAGATGACTAAGTGTCATCGTGAGTATATGAATCC-TTACGGATTAT
* *
51564 GAGGTCAGATGACTAAGTGTCATCGTGAGTATATGAATCCATTATGGATTAT
1 AAGGTCAGATGACTAAGTGTCATCGTGAGTATATGAATCC-TTACGGATTAT
* * * *
51616 AAGGCCCGATGACTATGTTTCATCGTGAGTATATGAATTCCTTACGGA
1 AAGGTCAGATGACTAAGTGTCATCGTGAGTATATGAA-TCCTTACGGA
51664 ACAAGAGGTT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 82 0.96
53 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (51 bp):
AAGGTCAGATGACTAAGTGTCATCGTGAGTATATGAATCCTTACGGATTAT
Found at i:51678 original size:52 final size:51
Alignment explanation
Indices: 51540--51699 Score: 155
Period size: 52 Copynumber: 3.1 Consensus size: 51
51530 GTCATTATGT
* * * *
51540 GTATATGAATCCTTTACGGATTATGAGGTCAGATGACTAAGTGTCATCGTGA
1 GTATATGAATCCATTACGGATTAAGAGGTC-GATGACTATGTTTCATCGTGA
* *
51592 GTATATGAATCCATTATGGATTATA-AGGCCCGATGACTATGTTTCATCGTGA
1 GTATATGAATCCATTACGGATTA-AGAGG-TCGATGACTATGTTTCATCGTGA
** * *
51644 GTATATGAATTCC-TTACGGAACAAGAGGTTCGATGATTATATGTT-ATCGTGA
1 GTATATGAA-TCCATTACGGATTAAGAGG-TCGATGACTATGT-TTCATCGTGA
51696 GTAT
1 GTAT
51700 TAAATGAAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
51 1 0.01
52 83 0.92
53 6 0.07
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (51 bp):
GTATATGAATCCATTACGGATTAAGAGGTCGATGACTATGTTTCATCGTGA
Found at i:57380 original size:52 final size:52
Alignment explanation
Indices: 57310--57500 Score: 265
Period size: 52 Copynumber: 3.7 Consensus size: 52
57300 TGAATCAAAT
* * *
57310 AGGTCCAATGACTTTGTGTCATCGTGAGTATATGAATCCTTTACAAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
*
57362 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
* * * *
57414 AGTTCCGATGATTATGTGTAATTGTGAGTATATGAATCCTTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
* ** * *
57466 AGATCTTATGACTATGTGTCGTTGTGAGTATATGA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGA
57501 TTCCCAATAC
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.38
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
Found at i:57528 original size:104 final size:104
Alignment explanation
Indices: 57324--57549 Score: 285
Period size: 104 Copynumber: 2.2 Consensus size: 104
57314 CCAATGACTT
* *
57324 TGTGTCATCGTGAGTATATGAATCCTTTACAAATTATGAGGTCCGATGACTATGTGTCATCGTGA
1 TGTGTAATCGTGAGTATATGAATCCTTTACAAATTATGAGATCCGATGACTATGTGTCATCGTGA
**
57389 GTATATGAATCCTTTACGGATTATGAGTTCCGATGATTA
66 GTATATGAATCCAATACGGATTATGAGTTCCGATGATTA
* * ** * *
57428 TGTGTAATTGTGAGTATATGAATCCTTTACGAATTATGAGATCTTATGACTATGTGTCGTTGTGA
1 TGTGTAATCGTGAGTATATGAATCCTTTACAAATTATGAGATCCGATGACTATGTGTCATCGTGA
* * *
57493 GTATATGATTCCCAATACGGATTAATG-G-TCTGATGATTT
66 GTATATGAAT-CCAATACGGATT-ATGAGTTCCGATGATTA
* *
57532 TGTGTCATCATGAGTATA
1 TGTGTAATCGTGAGTATA
57550 AAAAATGCAT
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
104 90 0.87
105 11 0.11
106 3 0.03
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.38
Consensus pattern (104 bp):
TGTGTAATCGTGAGTATATGAATCCTTTACAAATTATGAGATCCGATGACTATGTGTCATCGTGA
GTATATGAATCCAATACGGATTATGAGTTCCGATGATTA
Found at i:57536 original size:52 final size:52
Alignment explanation
Indices: 57324--57549 Score: 240
Period size: 52 Copynumber: 4.3 Consensus size: 52
57314 CCAATGACTT
* ** * * *
57324 TGTGTCATCGTGAGTATATGAATCCTTTACAAATTATGAGGTCCGATGACTA
1 TGTGTCATTGTGAGTATATGAATCCTTTACGGATTATGAGATCTGATGATTA
* * *
57376 TGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGTTCCGATGATTA
1 TGTGTCATTGTGAGTATATGAATCCTTTACGGATTATGAGATCTGATGATTA
* * * *
57428 TGTGTAATTGTGAGTATATGAATCCTTTACGAATTATGAGATCTTATGACTA
1 TGTGTCATTGTGAGTATATGAATCCTTTACGGATTATGAGATCTGATGATTA
* * ** *
57480 TGTGTCGTTGTGAGTATATGATTCCCAATACGGATTAATG-G-TCTGATGATTT
1 TGTGTCATTGTGAGTATATGAAT-CCTTTACGGATT-ATGAGATCTGATGATTA
**
57532 TGTGTCATCATGAGTATA
1 TGTGTCATTGTGAGTATA
57550 AAAAATGCAT
Statistics
Matches: 149, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
52 136 0.91
53 10 0.07
54 3 0.02
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.38
Consensus pattern (52 bp):
TGTGTCATTGTGAGTATATGAATCCTTTACGGATTATGAGATCTGATGATTA
Found at i:58254 original size:116 final size:115
Alignment explanation
Indices: 58045--58255 Score: 244
Period size: 116 Copynumber: 1.8 Consensus size: 115
58035 TTTCCAAGGA
* * * * * *
58045 TGTATCGGTAGTAGTACAGGGTAGTAGAGAGGTTGTTCTTTGATTTGGGTTGTATCGATAGTTGA
1 TGTATCGGTAGAAGTACAGGGTAGGAGAGAGGTTG-TCTCTGAGTTAGGTTGTATCGATAGATGA
* * * * * * *
58110 ATAGCGAGTGTTGGTAGTTATGTTTTTAGAGGTATCGGTATCTTGCATGTT
65 ATACCAAGTATCGGTAGTCATATATTTAGAGGTATCGGTATCTTGCATGTT
* *
58161 TGTATCGGTAGAAGTATAGGGTAGGAGAGAGGTTG-CATACTGAGTTAGGTTGTATCGGTAGATG
1 TGTATCGGTAGAAGTACAGGGTAGGAGAGAGGTTGTC-T-CTGAGTTAGGTTGTATCGATAGATG
*
58225 AATACCAAGTATCGGTTGTCATATATTTAGA
64 AATACCAAGTATCGGTAGTCATATATTTAGA
58256 AATACTGGTA
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
114 1 0.01
115 1 0.01
116 75 0.97
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.36
Consensus pattern (115 bp):
TGTATCGGTAGAAGTACAGGGTAGGAGAGAGGTTGTCTCTGAGTTAGGTTGTATCGATAGATGAA
TACCAAGTATCGGTAGTCATATATTTAGAGGTATCGGTATCTTGCATGTT
Found at i:58391 original size:21 final size:21
Alignment explanation
Indices: 58344--58401 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
58334 TACAAGTGAA
*
58344 ACTTGTATCTGTAGAAGAGTC
1 ACTTGTATCGGTAGAAGAGTC
* *
58365 ATTTGTATCGGTAGAACTA-TC
1 ACTTGTATCGGTAGAA-GAGTC
*
58386 ACTTGTATCGATAGAA
1 ACTTGTATCGGTAGAA
58402 ATCTGTACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (21 bp):
ACTTGTATCGGTAGAAGAGTC
Found at i:68346 original size:466 final size:467
Alignment explanation
Indices: 67474--68407 Score: 1852
Period size: 466 Copynumber: 2.0 Consensus size: 467
67464 TACGGTTTTT
67474 ACTTAGGCATGCATGACATTTAAATCATTTAGATTATTAAAATATGGATTTTTATTTAATTAAGT
1 ACTTAGGCATGCATGACATTTAAATCATTTAGATTATTAAAATATGGATTTTTATTTAATTAAGT
67539 ATGAAGCATGTTTTTTTATTAAAGTTACGTTAATATCATTTTTCCGTTGCTAAATTGTAAATGTG
66 ATGAAGCATGTTTTTTTATTAAAGTTACGTTAATATCATTTTTCCGTTGCTAAATTGTAAATGTG
67604 TTTTGTTAAAAAGGTAATTCGGATTTTCAATTAAGTTTTCAATAGTAAATGCCATTGTGAAGAAG
131 TTTTGTTAAAAAGGTAATTCGGATTTTCAATTAAGTTTTCAATAGTAAATGCCATTGTGAAGAAG
67669 ATGTTAAGCTTAATCGGTTTTTTTTAACTCTTTATTTTTTCTGAAAAAAGTCTAAACTTTCTTTT
196 ATGTTAAGCTTAATCGGTTTTTTTTAACTCTTTATTTTTTCTGAAAAAAGTCTAAACTTTCTTTT
67734 AAAATAAACAAATGTTTTTATTAATTACTTTTAGAACTTTGATAGTTTTACTAGGTCATTTCGAT
261 AAAATAAACAAATGTTTTTATTAATTACTTTTAGAACTTTGATAGTTTTACTAGGTCATTTCGAT
67799 GGACGATGTAATTTTTCGAATTCGAATCTAACGTCTAGGTCGAGTTAAGGAGGTTACATAACATT
326 GGACGATGTAATTTTTCGAATTCGAATCTAACGTCTAGGTCGAGTTAAGGAGGTTACATAACATT
*
67864 TAGAACAAATAAATCTAAACCCAAAATGTATAAAGGTTGCCATGAAGCCAACGTGCAACTAGTTA
391 TAAAACAAATAAATCTAAACCCAAAATGTATAAAGGTTGCCATGAAGCCAACGTGCAACTAGTTA
67929 TTTTCTTATCAA
456 TTTTCTTATCAA
67941 ACTTAGGCATGCATGACATTTAAATCATTTAGATTATTAAAATATGGATTTTTATTTAATTAAGT
1 ACTTAGGCATGCATGACATTTAAATCATTTAGATTATTAAAATATGGATTTTTATTTAATTAAGT
68006 ATGAAGCATG-TTTTTTATTAAAGTTACGTTAATATCATTTTTCCGTTGCTAAATTGTAAATGTG
66 ATGAAGCATGTTTTTTTATTAAAGTTACGTTAATATCATTTTTCCGTTGCTAAATTGTAAATGTG
68070 TTTTGTTAAAAAGGTAATTCGGATTTTCAATTAAGTTTTCAATAGTAAATGCCATTGTGAAGAAG
131 TTTTGTTAAAAAGGTAATTCGGATTTTCAATTAAGTTTTCAATAGTAAATGCCATTGTGAAGAAG
68135 ATGTTAAGCTTAATCGGTTTTTTTTAACTCTTTATTTTTTCTGAAAAAAGTCTAAACTTTCTTTT
196 ATGTTAAGCTTAATCGGTTTTTTTTAACTCTTTATTTTTTCTGAAAAAAGTCTAAACTTTCTTTT
68200 AAAATAAACAAATGTTTTTATTAATTACTTTTAGAACTTTGATAGTTTTACTAGGTCATTTCGAT
261 AAAATAAACAAATGTTTTTATTAATTACTTTTAGAACTTTGATAGTTTTACTAGGTCATTTCGAT
68265 GGACGATGTAATTTTTCGAATTCGAATCTAACGTCTAGGTCGAGTTAAGGAGGTTACATAACATT
326 GGACGATGTAATTTTTCGAATTCGAATCTAACGTCTAGGTCGAGTTAAGGAGGTTACATAACATT
68330 TAAAACAAATAAATCTAAACCCAAAATGTATAAAGGTTGCCATGAAGCCAACGTGCAACTAGTTA
391 TAAAACAAATAAATCTAAACCCAAAATGTATAAAGGTTGCCATGAAGCCAACGTGCAACTAGTTA
68395 TTTTCTTATCAA
456 TTTTCTTATCAA
68407 A
1 A
68408 ATTCACTTAA
Statistics
Matches: 466, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
466 391 0.84
467 75 0.16
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (467 bp):
ACTTAGGCATGCATGACATTTAAATCATTTAGATTATTAAAATATGGATTTTTATTTAATTAAGT
ATGAAGCATGTTTTTTTATTAAAGTTACGTTAATATCATTTTTCCGTTGCTAAATTGTAAATGTG
TTTTGTTAAAAAGGTAATTCGGATTTTCAATTAAGTTTTCAATAGTAAATGCCATTGTGAAGAAG
ATGTTAAGCTTAATCGGTTTTTTTTAACTCTTTATTTTTTCTGAAAAAAGTCTAAACTTTCTTTT
AAAATAAACAAATGTTTTTATTAATTACTTTTAGAACTTTGATAGTTTTACTAGGTCATTTCGAT
GGACGATGTAATTTTTCGAATTCGAATCTAACGTCTAGGTCGAGTTAAGGAGGTTACATAACATT
TAAAACAAATAAATCTAAACCCAAAATGTATAAAGGTTGCCATGAAGCCAACGTGCAACTAGTTA
TTTTCTTATCAA
Found at i:69341 original size:15 final size:15
Alignment explanation
Indices: 69318--69354 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
69308 CCATCTAAAT
*
69318 TATATTAAAAATATA
1 TATAATAAAAATATA
69333 TATAATAAAAATATA
1 TATAATAAAAATATA
*
69348 TTTAATA
1 TATAATA
69355 GTTAGAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TATAATAAAAATATA
Found at i:69801 original size:31 final size:32
Alignment explanation
Indices: 69761--69835 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 32
69751 AATTTTAATA
69761 AATAAAAATATATAAA-A-TTATTAAATATTT
1 AATAAAAATATATAAATATTTATTAAATATTT
* *
69791 AATTAAAAATAATATAAATATTTATTTAATTTTT
1 AA-TAAAAAT-ATATAAATATTTATTAAATATTT
*
69825 AAAAAAAATAT
1 AATAAAAATAT
69836 GAATAAATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
30 2 0.05
31 7 0.18
32 9 0.24
33 7 0.18
34 13 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
AATAAAAATATATAAATATTTATTAAATATTT
Found at i:69808 original size:23 final size:22
Alignment explanation
Indices: 69774--69819 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
69764 AAAAATATAT
*
69774 AAAATTATTAAATATTTAATTA
1 AAAATAATTAAATATTTAATTA
*
69796 AAAATAATATAAATATTTATTTA
1 AAAATAAT-TAAATATTTAATTA
69819 A
1 A
69820 TTTTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATAATTAAATATTTAATTA
Found at i:77203 original size:47 final size:47
Alignment explanation
Indices: 77149--77244 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
77139 TACTTTGAAC
*
77149 TATTTGGTGTCTATTTGATGAGATAATTAATGCATGATATTGGTGTT
1 TATTTGGTGTCTATTTGATGAGATAATTAACGCATGATATTGGTGTT
77196 TATTTGGTGTCTATTTGATGAGATAATTAACGCATGATATTGGTGTT
1 TATTTGGTGTCTATTTGATGAGATAATTAACGCATGATATTGGTGTT
77243 TA
1 TA
77245 ACTTTGCATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.46
Consensus pattern (47 bp):
TATTTGGTGTCTATTTGATGAGATAATTAACGCATGATATTGGTGTT
Found at i:77420 original size:21 final size:21
Alignment explanation
Indices: 77394--77445 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
77384 TTATTATGAG
77394 TATCGATACTTAGGGTAAAAT
1 TATCGATACTTAGGGTAAAAT
*
77415 TATCGATACTTGGGGTAAAAT
1 TATCGATACTTAGGGTAAAAT
*
77436 TATCTATACT
1 TATCGATACT
77446 ATTTCAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (21 bp):
TATCGATACTTAGGGTAAAAT
Found at i:78419 original size:11 final size:11
Alignment explanation
Indices: 78403--78429 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
78393 TTTTAGAATA
78403 ATTATTGTAAT
1 ATTATTGTAAT
78414 ATTATTGTAAT
1 ATTATTGTAAT
78425 ATTAT
1 ATTAT
78430 ATTATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (11 bp):
ATTATTGTAAT
Found at i:81958 original size:25 final size:24
Alignment explanation
Indices: 81924--81971 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
81914 TGTTTCTGAA
81924 AATACTAAAATATCATCTATATATAC
1 AATACTAAAATATC-T-TATATATAC
*
81950 AATAC-AAAATTTCTTATATATA
1 AATACTAAAATATCTTATATATA
81972 TTAAAAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 1 0.05
25 7 0.33
26 5 0.24
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (24 bp):
AATACTAAAATATCTTATATATAC
Found at i:83770 original size:25 final size:25
Alignment explanation
Indices: 83739--83796 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
83729 ATATTTCTAG
83739 ATTTTCTTCTTCAAGAGTTTTAATC
1 ATTTTCTTCTTCAAGAGTTTTAATC
83764 ATTTTCTTCTTCAAGAGTTTTAATC
1 ATTTTCTTCTTCAAGAGTTTTAATC
83789 ATTTTCTT
1 ATTTTCTT
83797 AGCACTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.55
Consensus pattern (25 bp):
ATTTTCTTCTTCAAGAGTTTTAATC
Found at i:86290 original size:22 final size:22
Alignment explanation
Indices: 86264--86305 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
86254 CTTTGAAAGT
86264 AGTGCATTGATTTTTCTTCTAC
1 AGTGCATTGATTTTTCTTCTAC
*
86286 AGTGCCTTGATTTTTCTTCT
1 AGTGCATTGATTTTTCTTCT
86306 GGCATTCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.52
Consensus pattern (22 bp):
AGTGCATTGATTTTTCTTCTAC
Found at i:92804 original size:22 final size:22
Alignment explanation
Indices: 92776--92829 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
92766 ACGTGGCGTC
92776 CAGTCAGCAGCTTCTAGAAGGT
1 CAGTCAGCAGCTTCTAGAAGGT
*
92798 CAGTCAGTAGCTTCTAGAAGGT
1 CAGTCAGCAGCTTCTAGAAGGT
92820 CTAGTCAGCA
1 C-AGTCAGCA
92830 AGGATGGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 22 0.76
23 7 0.24
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (22 bp):
CAGTCAGCAGCTTCTAGAAGGT
Found at i:94279 original size:13 final size:13
Alignment explanation
Indices: 94261--94286 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94251 AATTAAATTA
94261 ATTTATAAATAAT
1 ATTTATAAATAAT
94274 ATTTATAAATAAT
1 ATTTATAAATAAT
94287 GTATTGAGTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTATAAATAAT
Found at i:95425 original size:29 final size:31
Alignment explanation
Indices: 95354--95425 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
95344 AGTTGGGACT
* *
95354 AAATTGATAG-ATTTTGTAAATGTTGAGGTC
1 AAATTGATAGAATTTTGTAAATGTTAAGATC
* * *
95384 AAATTTATTGAATTTT-TATAT-TTAAGATC
1 AAATTGATAGAATTTTGTAAATGTTAAGATC
95413 AAATTGATAGAAT
1 AAATTGATAGAAT
95426 GTATAAACAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 17 0.50
30 12 0.35
31 5 0.15
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (31 bp):
AAATTGATAGAATTTTGTAAATGTTAAGATC
Found at i:104596 original size:9 final size:9
Alignment explanation
Indices: 104584--104696 Score: 51
Period size: 9 Copynumber: 13.2 Consensus size: 9
104574 ATGTTGTCAG
104584 TGTTATTGT
1 TGTTATTGT
*
104593 TGTTAATGT
1 TGTTATTGT
104602 TGTTA-T-T
1 TGTTATTGT
* *
104609 T-CTATTGC
1 TGTTATTGT
*
104617 TGTTATTAT
1 TGTTATTGT
104626 TG---TTGT
1 TGTTATTGT
* *
104632 TGCTCTTGT
1 TGTTATTGT
* *
104641 TGCTATTAT
1 TGTTATTGT
***
104650 TGTTGCAGT
1 TGTTATTGT
104659 TGTTATTGT
1 TGTTATTGT
104668 TAG-TATTGT
1 T-GTTATTGT
*
104677 AGTTATTGT
1 TGTTATTGT
*
104686 TGTTGTTGT
1 TGTTATTGT
104695 TG
1 TG
104697 ACATTACTAT
Statistics
Matches: 76, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
6 7 0.09
7 3 0.04
8 3 0.04
9 62 0.82
10 1 0.01
ACGTcount: A:0.13, C:0.05, G:0.22, T:0.59
Consensus pattern (9 bp):
TGTTATTGT
Found at i:104628 original size:24 final size:24
Alignment explanation
Indices: 104587--104653 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
104577 TTGTCAGTGT
* * *
104587 TATTGTTGTTAATGTTGTTATTTC
1 TATTGTTGTTATTATTGTTATTGC
* *
104611 TATTGCTGTTATTATTGTTGTTGC
1 TATTGTTGTTATTATTGTTATTGC
* *
104635 TCTTGTTGCTATTATTGTT
1 TATTGTTGTTATTATTGTT
104654 GCAGTTGTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.13, C:0.07, G:0.18, T:0.61
Consensus pattern (24 bp):
TATTGTTGTTATTATTGTTATTGC
Found at i:104661 original size:21 final size:21
Alignment explanation
Indices: 104623--104662 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
104613 TTGCTGTTAT
* *
104623 TATTGTTGTTGCTCTTGTTGC
1 TATTATTGTTGCACTTGTTGC
*
104644 TATTATTGTTGCAGTTGTT
1 TATTATTGTTGCACTTGTT
104663 ATTGTTAGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.10, G:0.23, T:0.57
Consensus pattern (21 bp):
TATTATTGTTGCACTTGTTGC
Found at i:104863 original size:30 final size:30
Alignment explanation
Indices: 104770--104866 Score: 77
Period size: 30 Copynumber: 3.1 Consensus size: 30
104760 CTCTTGTTTC
* * * * *
104770 TGTTGCTGCTGGTATTATAGTTATTGTTGA
1 TGTTGTTGCTGATATTGTAGTTATTATTGT
* * ** *
104800 TGTTGTTGACGTTGCTATTGTTGTTGCTCTTGT
1 TGTTGTTG-C--TGATATTGTAGTTATTATTGT
104833 TGTTGTTGCTGATATTGTAGTTATTATTGT
1 TGTTGTTGCTGATATTGTAGTTATTATTGT
104863 TGTT
1 TGTT
104867 ACTGCTGCGA
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
30 27 0.53
31 1 0.02
32 1 0.02
33 22 0.43
ACGTcount: A:0.12, C:0.07, G:0.26, T:0.55
Consensus pattern (30 bp):
TGTTGTTGCTGATATTGTAGTTATTATTGT
Found at i:104887 original size:6 final size:6
Alignment explanation
Indices: 104876--105085 Score: 60
Period size: 6 Copynumber: 35.0 Consensus size: 6
104866 TACTGCTGCG
* * * *
104876 ATTGTT ATTGTT GTTGTT -TCTGTT ACTGTT GTTGCT ATT-TT -TT-TT
1 ATTGTT ATTGTT ATTGTT AT-TGTT ATTGTT ATTGTT ATTGTT ATTGTT
* * * * * * * * *
104921 GTTGTT ATTGCT ATTGTT ATTATT GTTATT ACTTTGGTT ACTATT GTTATT
1 ATTGTT ATTGTT ATTGTT ATTGTT ATTGTT A--TT-GTT ATTGTT ATTGTT
* * * * *
104972 CTTGTT -TGTGTT GTTGTT ATTGTT GTT-TAT ATTGTT ATTATT GTTGCTGCT
1 ATTGTT AT-TGTT ATTGTT ATTGTT ATTGT-T ATTGTT ATTGTT ATTG-T--T
* * * * *
105023 ATTGCT ATCGTT ATTGTT A---TT ATTGTT ATTTTT GTTGTT GTTGTT
1 ATTGTT ATTGTT ATTGTT ATTGTT ATTGTT ATTGTT ATTGTT ATTGTT
*
105068 ATTGCT ATTGTT ATTGTT
1 ATTGTT ATTGTT ATTGTT
105086 GCTCTTTTTA
Statistics
Matches: 150, Mismatches: 37, Indels: 34
0.68 0.17 0.15
Matches are distributed among these distances:
3 3 0.02
4 4 0.03
5 6 0.04
6 124 0.83
7 4 0.03
8 2 0.01
9 7 0.05
ACGTcount: A:0.13, C:0.06, G:0.18, T:0.63
Consensus pattern (6 bp):
ATTGTT
Found at i:104893 original size:30 final size:30
Alignment explanation
Indices: 104789--104893 Score: 79
Period size: 30 Copynumber: 3.5 Consensus size: 30
104779 TGGTATTATA
* *
104789 GTTATTGTTGATGTTGTTGAC-GTTGCTATT
1 GTTATTGTTGTTGTTGTT-ACTGCTGCTATT
* * * ** *
104819 GTTGTTGCTCTTGTTGTTGTTGCTGATATT
1 GTTATTGTTGTTGTTGTTACTGCTGCTATT
* * *
104849 G-TAGTTATTATTGTTGTTACTGCTGCGATT
1 GTTA-TTGTTGTTGTTGTTACTGCTGCTATT
104879 GTTATTGTTGTTGTT
1 GTTATTGTTGTTGTT
104894 TCTGTTACTG
Statistics
Matches: 54, Mismatches: 18, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
29 1 0.02
30 51 0.94
31 2 0.04
ACGTcount: A:0.11, C:0.08, G:0.26, T:0.55
Consensus pattern (30 bp):
GTTATTGTTGTTGTTGTTACTGCTGCTATT
Found at i:104907 original size:27 final size:27
Alignment explanation
Indices: 104829--104908 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
104819 GTTGTTGCTC
* * *
104829 TTGTTGTTGTTGCTGATATTGTAGTTA
1 TTGTTGTTGTTACTGATACTGTTGTTA
* * *
104856 TTATTGTTGTTACTGCTGC-GATTGTTA
1 TTGTTGTTGTTACTGATACTG-TTGTTA
* *
104883 TTGTTGTTGTTTCTGTTACTGTTGTT
1 TTGTTGTTGTTACTGATACTGTTGTT
104909 GCTATTTTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.11, C:0.07, G:0.24, T:0.57
Consensus pattern (27 bp):
TTGTTGTTGTTACTGATACTGTTGTTA
Found at i:104946 original size:9 final size:9
Alignment explanation
Indices: 104932--105070 Score: 64
Period size: 9 Copynumber: 14.1 Consensus size: 9
104922 TTGTTATTGC
104932 TATTGTTAT
1 TATTGTTAT
104941 TATTGTTAT
1 TATTGTTAT
*
104950 TACTTTGGTTAC
1 TA--TT-GTTAT
104962 TATTGTTAT
1 TATTGTTAT
*
104971 TCTTGTT-T
1 TATTGTTAT
* *
104979 GTGTTGTTGT
1 -TATTGTTAT
*
104989 TATTGTTGTTT
1 TATTG-T-TAT
105000 ATATTGTTAT
1 -TATTGTTAT
*
105010 TATTGTTGCT
1 TATTGTT-AT
*
105020 GCTATTGCTATCGT
1 --TATTG-T-T-AT
105034 TATTGTTAT
1 TATTGTTAT
105043 TATTGTTAT
1 TATTGTTAT
* *
105052 TTTTGTTGT
1 TATTGTTAT
*
105061 TGTTGTTAT
1 TATTGTTAT
105070 T
1 T
105071 GCTATTGTTA
Statistics
Matches: 102, Mismatches: 15, Indels: 26
0.71 0.10 0.18
Matches are distributed among these distances:
8 1 0.01
9 63 0.62
10 8 0.08
11 6 0.06
12 21 0.21
13 1 0.01
14 2 0.02
ACGTcount: A:0.14, C:0.05, G:0.17, T:0.63
Consensus pattern (9 bp):
TATTGTTAT
Found at i:104946 original size:21 final size:20
Alignment explanation
Indices: 104922--105082 Score: 73
Period size: 21 Copynumber: 8.0 Consensus size: 20
104912 ATTTTTTTTG
104922 TTGTTATTGCTATTGTTATTA
1 TTGTTATTGCT-TTGTTATTA
* *
104943 TTGTTATTACTTTGGTTACTA
1 TTGTTATTGCTTT-GTTATTA
* * *
104964 TTGTTATT-CTTGTTTGTGTTG
1 TTGTTATTGCTT-TGT-TATTA
104985 TTGTTATTG--TTGTT-TATA
1 TTGTTATTGCTTTGTTAT-TA
** * **
105003 TTGTTATTATTGTTGCTGCTA
1 TTGTTATTGCT-TTGTTATTA
* * *
105024 TTGCTATCGTTATTGTTATTA
1 TTGTTATTGCT-TTGTTATTA
* *
105045 TTGTTATT--TTTGTTGTTG
1 TTGTTATTGCTTTGTTATTA
105063 TTGTTATTGCTATTGTTATT
1 TTGTTATTGCT-TTGTTATT
105083 GTTGCTCTTT
Statistics
Matches: 105, Mismatches: 23, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
17 1 0.01
18 25 0.24
19 3 0.03
20 8 0.08
21 68 0.65
ACGTcount: A:0.14, C:0.06, G:0.17, T:0.63
Consensus pattern (20 bp):
TTGTTATTGCTTTGTTATTA
Found at i:104977 original size:39 final size:39
Alignment explanation
Indices: 104932--105016 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 39
104922 TTGTTATTGC
104932 TATTGTTAT-TATTGTTATTACT-TTGGTTACTATTGTTAT
1 TATTGTT-TGTATTGTTATTACTGTTGGTTA-TATTGTTAT
* * * * *
104971 TCTTGTTTGTGTTGTTGTTATTGTTGTTTATATTGTTAT
1 TATTGTTTGTATTGTTATTACTGTTGGTTATATTGTTAT
105010 TATTGTT
1 TATTGTT
105017 GCTGCTATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
38 1 0.03
39 31 0.82
40 6 0.16
ACGTcount: A:0.15, C:0.04, G:0.16, T:0.65
Consensus pattern (39 bp):
TATTGTTTGTATTGTTATTACTGTTGGTTATATTGTTAT
Found at i:105057 original size:18 final size:18
Alignment explanation
Indices: 104934--105124 Score: 69
Period size: 18 Copynumber: 9.8 Consensus size: 18
104924 GTTATTGCTA
104934 TTGTTATTATTGTTATTACT
1 TTGTTATTATTGTTATT--T
*
104954 TTGGTTACTATTGTTATTCT
1 TT-GTTATTATTGTTATT-T
* * * *
104974 TGTTTGTGTTGTTGTTATTG
1 T-TGT-TATTATTGTTATTT
*
104994 TTGTT-TATATTGTTATTA
1 TTGTTAT-TATTGTTATTT
* *
105012 TTGTTGCTGCTATTGCTATCGTT
1 TTGTT-AT--TATTGTTAT--TT
105035 ATTGTTATTATTGTTATTT
1 -TTGTTATTATTGTTATTT
* *
105054 TTGTTGTTGTTGTTATTGCT
1 TTGTTATTATTGTTATT--T
* * *
105074 ATTGTTATTGTTGCTCTTT
1 -TTGTTATTATTGTTATTT
* * * *
105093 TTATTATTGTTGCTCTTT
1 TTGTTATTATTGTTATTT
*
105111 TTGTTATTGTTGTT
1 TTGTTATTATTGTT
105125 GCTCTTGTTT
Statistics
Matches: 136, Mismatches: 22, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
17 1 0.01
18 59 0.43
19 5 0.04
20 9 0.07
21 55 0.40
23 2 0.01
24 5 0.04
ACGTcount: A:0.13, C:0.06, G:0.17, T:0.64
Consensus pattern (18 bp):
TTGTTATTATTGTTATTT
Found at i:105084 original size:21 final size:21
Alignment explanation
Indices: 104961--105086 Score: 74
Period size: 21 Copynumber: 5.7 Consensus size: 21
104951 ACTTTGGTTA
*
104961 CTATTGTTATTCTTGTT-TGTG
1 CTATTGTTATTGTTGTTAT-TG
* *
104982 TTGTTGTTATTGTTGTTTATATTG
1 CTATTGTTATTGTTG--T-TATTG
* * * * *
105006 TTATTATTGTTGCTGCTATTG
1 CTATTGTTATTGTTGTTATTG
* *
105027 CTATCGTTATTGTTATTATTG
1 CTATTGTTATTGTTGTTATTG
* *
105048 TTATTTTTGTTGTTGTTGTTATTG
1 CTA---TTGTTATTGTTGTTATTG
105072 CTATTGTTATTGTTG
1 CTATTGTTATTGTTG
105087 CTCTTTTTAT
Statistics
Matches: 77, Mismatches: 21, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
21 44 0.57
23 1 0.01
24 31 0.40
25 1 0.01
ACGTcount: A:0.13, C:0.06, G:0.19, T:0.63
Consensus pattern (21 bp):
CTATTGTTATTGTTGTTATTG
Found at i:105087 original size:15 final size:15
Alignment explanation
Indices: 105024--105088 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
105014 GTTGCTGCTA
*
105024 TTGCTATCGTTATTG
1 TTGCTATTGTTATTG
** *
105039 TTATTATTGTTATTT
1 TTGCTATTGTTATTG
* * * *
105054 TTGTTGTTGTTGTTA
1 TTGCTATTGTTATTG
105069 TTGCTATTGTTATTG
1 TTGCTATTGTTATTG
105084 TTGCT
1 TTGCT
105089 CTTTTTATTA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.12, C:0.06, G:0.18, T:0.63
Consensus pattern (15 bp):
TTGCTATTGTTATTG
Found at i:105097 original size:45 final size:45
Alignment explanation
Indices: 105006--105104 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 45
104996 GTTTATATTG
* *
105006 TTATTATTGTTGCTGCTATTGCTATCGTTATTGTTATTATTGTTA
1 TTATTGTTGTTGCTGCTATTGCTATCGTTATTGTTACTATTGTTA
* * * * * * *
105051 TTTTTGTTGTTGTTGTTATTGCTATTGTTATTGTTGCTCTTTTTA
1 TTATTGTTGTTGCTGCTATTGCTATCGTTATTGTTACTATTGTTA
105096 TTATTGTTG
1 TTATTGTTG
105105 CTCTTTTTGT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.13, C:0.07, G:0.17, T:0.63
Consensus pattern (45 bp):
TTATTGTTGTTGCTGCTATTGCTATCGTTATTGTTACTATTGTTA
Found at i:105132 original size:18 final size:18
Alignment explanation
Indices: 105078--105133 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
105068 ATTGCTATTG
*
105078 TTATTGTTGCTCTTTTTA
1 TTATTGTTGCTCTTGTTA
105096 TTATTGTTGCTCTTTTTGTTA
1 TTATTGTTGCTC---TTGTTA
*
105117 TTGTTGTTGCTCTTGTT
1 TTATTGTTGCTCTTGTT
105134 TCGATTATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 17 0.52
21 16 0.48
ACGTcount: A:0.07, C:0.11, G:0.16, T:0.66
Consensus pattern (18 bp):
TTATTGTTGCTCTTGTTA
Found at i:105247 original size:30 final size:30
Alignment explanation
Indices: 105213--105286 Score: 148
Period size: 30 Copynumber: 2.5 Consensus size: 30
105203 GCTGCTACTA
105213 TTATTGTTGTTGCTGCTGTCTTTACTATTG
1 TTATTGTTGTTGCTGCTGTCTTTACTATTG
105243 TTATTGTTGTTGCTGCTGTCTTTACTATTG
1 TTATTGTTGTTGCTGCTGTCTTTACTATTG
105273 TTATTGTTGTTGCT
1 TTATTGTTGTTGCT
105287 TTTGTTGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.09, C:0.12, G:0.20, T:0.58
Consensus pattern (30 bp):
TTATTGTTGTTGCTGCTGTCTTTACTATTG
Found at i:105297 original size:24 final size:24
Alignment explanation
Indices: 105270--105395 Score: 79
Period size: 24 Copynumber: 5.4 Consensus size: 24
105260 GTCTTTACTA
105270 TTGTTATTGTTGTTGCTTTTGTTG
1 TTGTTATTGTTGTTGCTTTTGTTG
105294 TTGTTA-T-TT-TTG--TTT-TTG
1 TTGTTATTGTTGTTGCTTTTGTTG
* *
105312 TTGTTATTGTTG-GGTTTGTTGTTG
1 TTGTTATTGTTGTTGCTT-TTGTTG
* * * *
105336 TTGGTAGTGGTGGTT-CTATTGTTG
1 TTGTTA-TTGTTGTTGCTTTTGTTG
* *
105360 TTATTGTTGTTGTTGCTACTATTGTTG
1 TTGTTATTGTTGTTGCT--T-TTGTTG
105387 TTGTTATTG
1 TTGTTATTG
105396 CTACTATTGT
Statistics
Matches: 74, Mismatches: 15, Indels: 23
0.66 0.13 0.21
Matches are distributed among these distances:
18 9 0.12
19 4 0.05
20 3 0.04
21 3 0.04
22 3 0.04
23 9 0.12
24 25 0.34
25 5 0.07
27 13 0.18
ACGTcount: A:0.07, C:0.03, G:0.27, T:0.63
Consensus pattern (24 bp):
TTGTTATTGTTGTTGCTTTTGTTG
Found at i:105374 original size:15 final size:15
Alignment explanation
Indices: 105354--105395 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
105344 GGTGGTTCTA
105354 TTGTTGTTATTGTTG
1 TTGTTGTTATTGTTG
* * *
105369 TTGTTGCTACTATTG
1 TTGTTGTTATTGTTG
105384 TTGTTGTTATTG
1 TTGTTGTTATTG
105396 CTACTATTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.10, C:0.05, G:0.24, T:0.62
Consensus pattern (15 bp):
TTGTTGTTATTGTTG
Found at i:105389 original size:21 final size:21
Alignment explanation
Indices: 105363--105410 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
105353 ATTGTTGTTA
*
105363 TTGTTGTTGTTGCTACTATTG
1 TTGTTGTTATTGCTACTATTG
105384 TTGTTGTTATTGCTACTATTG
1 TTGTTGTTATTGCTACTATTG
105405 TTGTTG
1 TTGTTG
105411 ATGCTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.10, C:0.08, G:0.23, T:0.58
Consensus pattern (21 bp):
TTGTTGTTATTGCTACTATTG
Found at i:105391 original size:3 final size:3
Alignment explanation
Indices: 105270--105374 Score: 54
Period size: 3 Copynumber: 35.0 Consensus size: 3
105260 GTCTTTACTA
* * * *
105270 TTG TTA TTG TTG TTG CTT- TTG TTG TTG TTA TTT TTG TTT TTG TTG
1 TTG TTG TTG TTG TTG -TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * * *
105315 TTA TTG TTG -GG TTTG TTG TTG TTGG TAG TGG TGG TT- CTA TTG TTG
1 TTG TTG TTG TTG -TTG TTG TTG TT-G TTG TTG TTG TTG TTG TTG TTG
*
105360 TTA TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG
105375 CTACTATTGT
Statistics
Matches: 77, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
2 4 0.05
3 68 0.88
4 5 0.06
ACGTcount: A:0.06, C:0.02, G:0.29, T:0.64
Consensus pattern (3 bp):
TTG
Found at i:105395 original size:39 final size:39
Alignment explanation
Indices: 105352--105455 Score: 111
Period size: 39 Copynumber: 2.7 Consensus size: 39
105342 GTGGTGGTTC
* *
105352 TATTGTTGTTATTGTTGTTGTTGCTACTATTGTTGTTGT
1 TATTGCTGTTATTGTTGTTGTTGCTACTATTATTGTTGT
** * ** *
105391 TATTGCTACTATTGTTGTTGATGCTTTTTTTATTGTTGT
1 TATTGCTGTTATTGTTGTTGTTGCTACTATTATTGTTGT
*
105430 TATTGCTGTTATT-TCTATTGTTGCTA
1 TATTGCTGTTATTGT-TGTTGTTGCTA
105456 TTGCTGTCAT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
38 1 0.02
39 50 0.98
ACGTcount: A:0.12, C:0.08, G:0.19, T:0.61
Consensus pattern (39 bp):
TATTGCTGTTATTGTTGTTGTTGCTACTATTATTGTTGT
Found at i:105424 original size:21 final size:24
Alignment explanation
Indices: 105399--105462 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
105389 GTTATTGCTA
105399 CTATTGTTGTTGA-TGCT-TT-TTT
1 CTATTGTTGTT-ATTGCTGTTATTT
105421 -TATTGTTGTTATTGCTGTTATTT
1 CTATTGTTGTTATTGCTGTTATTT
*
105444 CTATTGTTGCTATTGCTGT
1 CTATTGTTGTTATTGCTGT
105463 CATTGTTACC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 1 0.03
21 14 0.38
22 2 0.05
23 3 0.08
24 17 0.46
ACGTcount: A:0.11, C:0.09, G:0.19, T:0.61
Consensus pattern (24 bp):
CTATTGTTGTTATTGCTGTTATTT
Found at i:105429 original size:24 final size:24
Alignment explanation
Indices: 105388--105458 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
105378 CTATTGTTGT
* * * *
105388 TGTTATTGCTACTATTGTTGTTGA
1 TGTTATTTCTATTGTTGTTATTGA
* *
105412 TGCTT-TTTTTATTGTTGTTATTGC
1 TG-TTATTTCTATTGTTGTTATTGA
*
105436 TGTTATTTCTATTGTTGCTATTG
1 TGTTATTTCTATTGTTGTTATTG
105459 CTGTCATTGT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 2 0.05
24 33 0.89
25 2 0.05
ACGTcount: A:0.13, C:0.08, G:0.18, T:0.61
Consensus pattern (24 bp):
TGTTATTTCTATTGTTGTTATTGA
Found at i:105556 original size:49 final size:49
Alignment explanation
Indices: 105503--105631 Score: 131
Period size: 49 Copynumber: 2.7 Consensus size: 49
105493 TGGTTTTTAT
* *
105503 TGTTATTGTTGTTGTTCTTATCGTTGTTATTGCTGC-AATTTGTTGTTGA
1 TGTTATTGTTGTTGTTCTTATCGTTGCTATTGCT-CTAATTTGTTATTGA
* * * * **
105552 TGTTATTGTTGCTGCTGTTGTTTTTGCTATTGCTCTAATTTGTTATTGA
1 TGTTATTGTTGTTGTTCTTATCGTTGCTATTGCTCTAATTTGTTATTGA
* *
105601 TGTTATTATTGTTGTT-GT-T-GTTGCTATTGCT
1 TGTTATTGTTGTTGTTCTTATCGTTGCTATTGCT
105632 ATTGTTATTG
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
46 11 0.17
47 1 0.02
48 2 0.03
49 52 0.79
ACGTcount: A:0.12, C:0.09, G:0.22, T:0.58
Consensus pattern (49 bp):
TGTTATTGTTGTTGTTCTTATCGTTGCTATTGCTCTAATTTGTTATTGA
Found at i:105620 original size:6 final size:6
Alignment explanation
Indices: 105609--105885 Score: 101
Period size: 6 Copynumber: 46.2 Consensus size: 6
105599 GATGTTATTA
* * * * * ** * * *
105609 TTGTTG TTGTTG TTGCTA TTGCTA TTGTTA TTGTAA TTGCTA TTGTTA
1 TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG
* * * * * * **
105657 TTGTTG TTGTTG TTGTTG CTGCTA TTGTTG CTGATG CTACTG TTGTTG
1 TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG
* * * * * *
105705 TTGTTG CTT-TTG TTGTTG TTATTG CTGTTG CTATTG TTATGG TTGTTG
1 TTGTTG -TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG
* * * * * *
105753 TTGTTA TTGTTG TTGCTA TTGTT- TCTGTT- TCTGTTG TTGTTC CTGTTC
1 TTGTTG TTGTTG TTGTTG TTGTTG T-TGTTG T-TGTTG TTGTTG TTGTTG
* * * * * * * * * * *
105801 CTATTA TTGCTA TTGTTG TTATTT TTGTTG CTGTTA TTGTTA TTGTTC
1 TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG
* * **
105849 TTGTTG TTGGTG TTGTTG TAGTAA TTGTTG TTGTTG T
1 TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG T
105886 GGCTGCTATT
Statistics
Matches: 207, Mismatches: 60, Indels: 8
0.75 0.22 0.03
Matches are distributed among these distances:
5 3 0.01
6 201 0.97
7 3 0.01
ACGTcount: A:0.09, C:0.08, G:0.24, T:0.60
Consensus pattern (6 bp):
TTGTTG
Found at i:105855 original size:15 final size:15
Alignment explanation
Indices: 105502--105865 Score: 113
Period size: 15 Copynumber: 23.3 Consensus size: 15
105492 ATGGTTTTTA
105502 TTGTTATTGTTGTTG
1 TTGTTATTGTTGTTG
* * *
105517 TTCTTATCGTTGTTA
1 TTGTTATTGTTGTTG
*
105532 TTGCTGCAATTTGTTGTTG
1 TTG-T--TA-TTGTTGTTG
*
105551 ATGTTATTGTTGCTGCTG
1 TTGTTATTGTTG-T--TG
* * *
105569 TTGTTTTTGCTATTG
1 TTGTTATTGTTGTTG
* * * *
105584 CTCTAATTTGTTATTG
1 TTGTTA-TTGTTGTTG
* *
105600 ATGTTATTATTGTTG
1 TTGTTATTGTTGTTG
* * *
105615 TTGTTGTTGCTATTG
1 TTGTTATTGTTGTTG
* * * * **
105630 CTATTGTTATTGTAA
1 TTGTTATTGTTGTTG
* *
105645 TTGCTATTGTTATTG
1 TTGTTATTGTTGTTG
*
105660 TTGTTGTTGTTGTTG
1 TTGTTATTGTTGTTG
* * *
105675 CTGCTATTGTTGCTG
1 TTGTTATTGTTGTTG
* * *
105690 ATGCTACTGTTGTTG
1 TTGTTATTGTTGTTG
*
105705 TTGTTGCTT-TTGTTG
1 TTGTT-ATTGTTGTTG
*
105720 TTGTTATTGCTGTTG
1 TTGTTATTGTTGTTG
*
105735 CTATTGTTATGGTTGTTG
1 ---TTGTTATTGTTGTTG
105753 TTGTTATTGTTGTTG
1 TTGTTATTGTTGTTG
105768 CTATTGTT-TCTGTT-TCTG
1 ---TTGTTAT-TGTTGT-TG
* ** *
105786 TTGTTGTTCCTGTTC
1 TTGTTATTGTTGTTG
* * * *
105801 CTATTATTGCTATTG
1 TTGTTATTGTTGTTG
*
105816 TTGTTATTTTTGTTG
1 TTGTTATTGTTGTTG
* *
105831 CTGTTATTGTTATTG
1 TTGTTATTGTTGTTG
* * *
105846 TTCTTGTTGTTGGTG
1 TTGTTATTGTTGTTG
105861 TTGTT
1 TTGTT
105866 GTAGTAATTG
Statistics
Matches: 244, Mismatches: 85, Indels: 40
0.66 0.23 0.11
Matches are distributed among these distances:
14 2 0.01
15 177 0.73
16 17 0.07
17 3 0.01
18 36 0.15
19 9 0.04
ACGTcount: A:0.10, C:0.08, G:0.23, T:0.59
Consensus pattern (15 bp):
TTGTTATTGTTGTTG
Found at i:105863 original size:33 final size:33
Alignment explanation
Indices: 105696--105863 Score: 87
Period size: 33 Copynumber: 5.0 Consensus size: 33
105686 GCTGATGCTA
* * *
105696 CTGTTGTTGTTGTTGCTT-TTGTTGTTGTTATTG
1 CTGTTATTGTTATTG-TTCTTGTTGTTGTTGTTG
* * *
105729 CTGTTGCTATTGTTATGGTTGTTGTTGTTATTGTTG
1 CTG-T--TATTGTTATTGTTCTTGTTGTTGTTGTTG
* * *
105765 TTGCTATTGTT-TCTGTT-TCTGTTGTTGTTCCTGTTC
1 CTGTTATTGTTAT-TGTTCT-TGTTGTTG-T--TGTTG
* * * *
105801 CTATTATTGCTATTG---TTGTTATTTTTGTTG
1 CTGTTATTGTTATTGTTCTTGTTGTTGTTGTTG
*
105831 CTGTTATTGTTATTGTTCTTGTTGTTGGTGTTG
1 CTGTTATTGTTATTGTTCTTGTTGTTGTTGTTG
105864 TTGTAGTAAT
Statistics
Matches: 100, Mismatches: 22, Indels: 26
0.68 0.15 0.18
Matches are distributed among these distances:
30 17 0.17
32 3 0.03
33 38 0.38
34 3 0.03
35 2 0.02
36 36 0.36
37 1 0.01
ACGTcount: A:0.07, C:0.08, G:0.24, T:0.61
Consensus pattern (33 bp):
CTGTTATTGTTATTGTTCTTGTTGTTGTTGTTG
Found at i:105967 original size:24 final size:24
Alignment explanation
Indices: 105933--105980 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
105923 TCTACTGCAA
* *
105933 TTTATTTTTGATATTGTTGTTGTT
1 TTTATTATTGATATTATTGTTGTT
105957 TTTATTATTGATATTATTGTTGTT
1 TTTATTATTGATATTATTGTTGTT
105981 GATATTCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.69
Consensus pattern (24 bp):
TTTATTATTGATATTATTGTTGTT
Found at i:105986 original size:24 final size:24
Alignment explanation
Indices: 105935--106001 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
105925 TACTGCAATT
* * **
105935 TATTTTTGATATTGTTGTTGTTTT
1 TATTATTGATATTATTGTTGTTGA
105959 TATTATTGATATTATTGTTGTTGA
1 TATTATTGATATTATTGTTGTTGA
* * *
105983 TATTCTTGCTGTTATTGTT
1 TATTATTGATATTATTGTT
106002 ACTATTATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.16, C:0.03, G:0.16, T:0.64
Consensus pattern (24 bp):
TATTATTGATATTATTGTTGTTGA
Found at i:106165 original size:27 final size:27
Alignment explanation
Indices: 106135--106218 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
106125 GCTATTGATA
* *
106135 TTGCTACTGCTATTGTTGTTGATGTAG
1 TTGCTATTGCTATTGTTATTGATGTAG
* * * *
106162 TTGCTGTTGCTATTGCTATTGTTGTTG
1 TTGCTATTGCTATTGTTATTGATGTAG
* * *
106189 TTGCTATTACTATTGTTATTGTTGTTG
1 TTGCTATTGCTATTGTTATTGATGTAG
106216 TTG
1 TTG
106219 TTGCTATCGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.12, C:0.10, G:0.24, T:0.55
Consensus pattern (27 bp):
TTGCTATTGCTATTGTTATTGATGTAG
Found at i:106185 original size:21 final size:21
Alignment explanation
Indices: 106161--106205 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
106151 TGTTGATGTA
*
106161 GTTGCTGTTGCTATTGCTATT
1 GTTGCTGTTGCTATTACTATT
*
106182 GTTGTTGTTGCTATTACTATT
1 GTTGCTGTTGCTATTACTATT
106203 GTT
1 GTT
106206 ATTGTTGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.11, G:0.22, T:0.56
Consensus pattern (21 bp):
GTTGCTGTTGCTATTACTATT
Found at i:106209 original size:33 final size:33
Alignment explanation
Indices: 106120--106292 Score: 99
Period size: 33 Copynumber: 5.2 Consensus size: 33
106110 ATTGTTATTA
* * *
106120 TTGTAGCTATTGA-TATTGCTACTGCTATTGTTG
1 TTGTTGCTATT-ACTATTGTTATTGCTATTGTTG
* * * *
106153 TTGATG-TAGTTGCTGTTGCTATTGCTATTGTTG
1 TTGTTGCTA-TTACTATTGTTATTGCTATTGTTG
106186 TTGTTGCTATTACTATTGTTATTG---TTGTTG
1 TTGTTGCTATTACTATTGTTATTGCTATTGTTG
* * * *
106216 TTGTTGCTATCGTTATTTTTGTTGTTGTTGA-TGTTG
1 TTGTTGCTA---TTACTATTGTTATTGCT-ATTGTTG
* * * *
106252 TTG-TGTCTATTACTATTGTTGTTGTTTTTGTAG
1 TTGTTG-CTATTACTATTGTTATTGCTATTGTTG
106285 TTGTTGCT
1 TTGTTGCT
106293 GCTCCTACTG
Statistics
Matches: 111, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
30 15 0.14
32 2 0.02
33 77 0.69
34 4 0.04
35 2 0.02
36 11 0.10
ACGTcount: A:0.12, C:0.08, G:0.23, T:0.57
Consensus pattern (33 bp):
TTGTTGCTATTACTATTGTTATTGCTATTGTTG
Found at i:106210 original size:21 final size:21
Alignment explanation
Indices: 106166--106212 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
106156 ATGTAGTTGC
* *
106166 TGTTGCTATTGCTATTGTTGT
1 TGTTGCTATTACTATTGTTAT
106187 TGTTGCTATTACTATTGTTAT
1 TGTTGCTATTACTATTGTTAT
106208 TGTTG
1 TGTTG
106213 TTGTTGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.09, G:0.21, T:0.57
Consensus pattern (21 bp):
TGTTGCTATTACTATTGTTAT
Found at i:106214 original size:30 final size:30
Alignment explanation
Indices: 106180--106287 Score: 108
Period size: 33 Copynumber: 3.4 Consensus size: 30
106170 GCTATTGCTA
*
106180 TTGTTGTTGTTGCTATTACTATTGTTATTG
1 TTGTTGTTGTTGCTATTACTATTGTTGTTG
* *
106210 TTGTTGTTGTTGCTATCGTTATTTTTGTTGTTG
1 TTGTTGTTGTTGCTA---TTACTATTGTTGTTG
*
106243 TTGATGTTGTTGTGTCTATTACTATTGTTGTTG
1 TTGTTGTTG-T-TG-CTATTACTATTGTTGTTG
* *
106276 TTTTTGTAGTTG
1 TTGTTGTTGTTG
106288 TTGCTGCTCC
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
30 15 0.24
31 2 0.03
32 1 0.02
33 39 0.62
34 1 0.02
35 2 0.03
36 3 0.05
ACGTcount: A:0.10, C:0.06, G:0.23, T:0.61
Consensus pattern (30 bp):
TTGTTGTTGTTGCTATTACTATTGTTGTTG
Found at i:106215 original size:3 final size:3
Alignment explanation
Indices: 106201--106363 Score: 58
Period size: 3 Copynumber: 54.3 Consensus size: 3
106191 GCTATTACTA
* * * * * * *
106201 TTG TTA TTG TTG TTG TTG TTG CTA TCG TTA TTT TTG TTG TTG TTG ATG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * * *
106249 TTG TTG -TG TCTA TTA CTA TTG TTG TTG TTT TTG TAG TTG TTG CTG
1 TTG TTG TTG T-TG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * * * * * * * *
106294 CTC CTA CTG TTG TTG TTG TAG CTA TTG ATG TTG ATG CTG TTA TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* *
106342 TTG ATG TTG TTG TTA TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG T
106364 AGCTCTGTTA
Statistics
Matches: 115, Mismatches: 43, Indels: 4
0.71 0.27 0.02
Matches are distributed among these distances:
2 2 0.02
3 111 0.97
4 2 0.02
ACGTcount: A:0.10, C:0.07, G:0.25, T:0.58
Consensus pattern (3 bp):
TTG
Found at i:106549 original size:3 final size:3
Alignment explanation
Indices: 106543--106639 Score: 97
Period size: 3 Copynumber: 32.7 Consensus size: 3
106533 ATTGTTTTCA
* * *
106543 TTG TTG TTG TTG -TG TTG TTG TTG TTG TTG TTA TTG TTA TTT TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * * *
106590 TTG TTG CTA TTG TTG TTG TTA TTG TAG TAG TAG TTG TTG TTG CTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
106638 TT
1 TT
106640 ATTGCTACTG
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
2 2 0.03
3 76 0.97
ACGTcount: A:0.07, C:0.02, G:0.28, T:0.63
Consensus pattern (3 bp):
TTG
Found at i:106767 original size:21 final size:22
Alignment explanation
Indices: 106717--106768 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
106707 ATTATTGTTG
*
106717 TATT-GTTGTTGTGGTGGCTTT
1 TATTAGTTGTTGTAGTGGCTTT
* *
106738 TATTA-TTGTTGTAGTTGTTTT
1 TATTAGTTGTTGTAGTGGCTTT
106759 TA-TAGTTGTT
1 TATTAGTTGTT
106769 TTTTGTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.12, C:0.02, G:0.25, T:0.62
Consensus pattern (22 bp):
TATTAGTTGTTGTAGTGGCTTT
Found at i:106856 original size:12 final size:12
Alignment explanation
Indices: 106839--106879 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
106829 TTATTATTGA
*
106839 TGTTGTAGCTGT
1 TGTTGTTGCTGT
*
106851 TGTTGTTGCTGC
1 TGTTGTTGCTGT
*
106863 TATTGTTGCTGT
1 TGTTGTTGCTGT
106875 TGTTG
1 TGTTG
106880 CTATTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.05, C:0.10, G:0.32, T:0.54
Consensus pattern (12 bp):
TGTTGTTGCTGT
Found at i:106875 original size:18 final size:18
Alignment explanation
Indices: 106848--106974 Score: 108
Period size: 18 Copynumber: 7.4 Consensus size: 18
106838 ATGTTGTAGC
106848 TGTTGTTGTTGCTGCTAT
1 TGTTGTTGTTGCTGCTAT
* *
106866 TGTTGCTGTTGTTGCTAT
1 TGTTGTTGTTGCTGCTAT
* *
106884 TATTTTTGTTGCTGCTAT
1 TGTTGTTGTTGCTGCTAT
* *
106902 TGTTTTTGATT-TTGCTAT
1 TGTTGTTG-TTGCTGCTAT
*
106920 TGTTGCTGTTG-TAGCTA-
1 TGTTGTTGTTGCT-GCTAT
106937 --TTGTTG-T--TGCTAT
1 TGTTGTTGTTGCTGCTAT
*
106950 TGTTGTTGTTGTTGCTAT
1 TGTTGTTGTTGCTGCTAT
106968 TGTTGTT
1 TGTTGTT
106975 ATTTTCGTTG
Statistics
Matches: 89, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
12 4 0.04
13 1 0.01
14 1 0.01
15 11 0.12
16 1 0.01
17 3 0.03
18 66 0.74
19 2 0.02
ACGTcount: A:0.08, C:0.09, G:0.24, T:0.59
Consensus pattern (18 bp):
TGTTGTTGTTGCTGCTAT
Found at i:106885 original size:54 final size:54
Alignment explanation
Indices: 106827--106938 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
106817 ATGCTGCTGT
* *
106827 TATTATTATTGATGTTG-TAGCTGTTGTTG-TTGCTGCTATTGTTGCTGTTGTTGC
1 TATTATTATTGATGCTGCTA-CTGTTGTTGATT-CTGCTATTGTTGCTGTTGTAGC
* * * * *
106881 TATTATTTTTGTTGCTGCTATTGTTTTTGATTTTGCTATTGTTGCTGTTGTAGC
1 TATTATTATTGATGCTGCTACTGTTGTTGATTCTGCTATTGTTGCTGTTGTAGC
106935 TATT
1 TATT
106939 GTTGTTGCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
54 45 0.92
55 4 0.08
ACGTcount: A:0.12, C:0.09, G:0.22, T:0.57
Consensus pattern (54 bp):
TATTATTATTGATGCTGCTACTGTTGTTGATTCTGCTATTGTTGCTGTTGTAGC
Found at i:106930 original size:36 final size:35
Alignment explanation
Indices: 106848--106979 Score: 132
Period size: 36 Copynumber: 3.9 Consensus size: 35
106838 ATGTTGTAGC
*
106848 TGTTGTTGTTGCTGCTATTGTTGCTGTTGTTGCTAT
1 TGTTGTTGTTGCTGCTATTGTTGTTGTT-TTGCTAT
* * *
106884 TATTTTTGTTGCTGCTATTGTTTTTGATTTTGCTAT
1 TGTTGTTGTTGCTGCTATTGTTGTTG-TTTTGCTAT
*
106920 TGTTGCTGTTG-TAGCTA---TTGTTG--TTGCTAT
1 TGTTGTTGTTGCT-GCTATTGTTGTTGTTTTGCTAT
* *
106950 TGTTGTTGTTGTTGCTATTGTTGTTATTTT
1 TGTTGTTGTTGCTGCTATTGTTGTTGTTTT
106980 CGTTGTAGCT
Statistics
Matches: 78, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
30 21 0.27
31 1 0.01
33 10 0.13
35 3 0.04
36 41 0.53
37 2 0.03
ACGTcount: A:0.08, C:0.08, G:0.23, T:0.60
Consensus pattern (35 bp):
TGTTGTTGTTGCTGCTATTGTTGTTGTTTTGCTAT
Found at i:106947 original size:30 final size:30
Alignment explanation
Indices: 106913--107002 Score: 111
Period size: 30 Copynumber: 3.2 Consensus size: 30
106903 GTTTTTGATT
106913 TTGCTATTGTTGCTGTTGTAGCTATTGTTG
1 TTGCTATTGTTGCTGTTGTAGCTATTGTTG
* *
106943 TTGCTATTGTTGTTGTTGTTGCTATTGTTG
1 TTGCTATTGTTGCTGTTGTAGCTATTGTTG
*
106973 -T--TATT-TT-C-GTTGTAGCTATTGTTA
1 TTGCTATTGTTGCTGTTGTAGCTATTGTTG
106997 TTGCTA
1 TTGCTA
107003 CTGCTATTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
24 14 0.27
25 1 0.02
26 2 0.04
27 6 0.12
29 1 0.02
30 28 0.54
ACGTcount: A:0.11, C:0.09, G:0.23, T:0.57
Consensus pattern (30 bp):
TTGCTATTGTTGCTGTTGTAGCTATTGTTG
Found at i:106956 original size:12 final size:12
Alignment explanation
Indices: 106926--107199 Score: 73
Period size: 12 Copynumber: 23.7 Consensus size: 12
106916 CTATTGTTGC
*
106926 TGTTGTAGCTAT
1 TGTTGTTGCTAT
106938 TGTTGTTGCTA-
1 TGTTGTTGCTAT
106949 --TTGTTG---T
1 TGTTGTTGCTAT
106956 TGTTGTTGCTAT
1 TGTTGTTGCTAT
* *
106968 TGTTGTT-ATTT
1 TGTTGTTGCTAT
*
106979 TCGTTGTAGCTAT
1 T-GTTGTTGCTAT
* *
106992 TGTTATTGCTAC
1 TGTTGTTGCTAT
* *
107004 TGCT-AT--TAT
1 TGTTGTTGCTAT
* **
107013 TGTTGATGCTGC
1 TGTTGTTGCTAT
107025 TGTTGTTGCTATT
1 TGTTGTTGCTA-T
*
107038 GATGTTGTTGTTAT
1 --TGTTGTTGCTAT
107052 T-TTGTTG-TAGAT
1 TGTTGTTGCT--AT
107064 T-TTGTTG-T-T
1 TGTTGTTGCTAT
* *
107073 T-CTATTGCTAT
1 TGTTGTTGCTAT
* *
107084 TGTTGTTGATGT
1 TGTTGTTGCTAT
*
107096 TGTTGTTACTAT
1 TGTTGTTGCTAT
* *
107108 TTTTGTTGCCGTTGT
1 TGTTGTTG-C--TAT
*
107123 TGTTGTTGTTAT
1 TGTTGTTGCTAT
* * * *
107135 AGTTATTGATGT
1 TGTTGTTGCTAT
* **
107147 TGCTACTGCTAT
1 TGTTGTTGCTAT
107159 TGTTGTTG--A-
1 TGTTGTTGCTAT
107168 TGTTGTTGCTAT
1 TGTTGTTGCTAT
* *
107180 TGCTATTGCTAT
1 TGTTGTTGCTAT
107192 TGTTGTTG
1 TGTTGTTG
107200 TTCTGCCTGT
Statistics
Matches: 187, Mismatches: 50, Indels: 50
0.65 0.17 0.17
Matches are distributed among these distances:
9 31 0.17
10 5 0.03
11 13 0.07
12 114 0.61
13 4 0.02
14 1 0.01
15 19 0.10
ACGTcount: A:0.12, C:0.08, G:0.24, T:0.57
Consensus pattern (12 bp):
TGTTGTTGCTAT
Found at i:106959 original size:54 final size:56
Alignment explanation
Indices: 106848--107034 Score: 167
Period size: 54 Copynumber: 3.5 Consensus size: 56
106838 ATGTTGTAGC
* * * * * *
106848 TGTTGTTG--TTGCTGCTATTGTTGCTGTTGTTGCTATTATTTTTGTTGCTGCTAT
1 TGTTGTTGCATTGTTGCTATTGTTGCTGTTGTAGCTATTGTTATTGCTACTGCTAT
* * * * *
106902 TGTTTTTG-ATT-TTGCTATTGTTGCTGTTGTAGCTATTGTTGTTGCTATTGTTGT
1 TGTTGTTGCATTGTTGCTATTGTTGCTGTTGTAGCTATTGTTATTGCTACTGCTAT
*
106956 TGTTGTTGCTATTGTTGTTATT-TT-C-GTTGTAGCTATTGTTATTGCTACTGCTAT
1 TGTTGTTGC-ATTGTTGCTATTGTTGCTGTTGTAGCTATTGTTATTGCTACTGCTAT
* * *
107010 TATTGTTG-A-TGCTGCTGTTGTTGCT
1 TGTTGTTGCATTGTTGCTATTGTTGCT
107035 ATTGATGTTG
Statistics
Matches: 106, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
51 7 0.07
52 3 0.03
53 1 0.01
54 80 0.75
55 3 0.03
56 5 0.05
57 7 0.07
ACGTcount: A:0.10, C:0.10, G:0.24, T:0.57
Consensus pattern (56 bp):
TGTTGTTGCATTGTTGCTATTGTTGCTGTTGTAGCTATTGTTATTGCTACTGCTAT
Found at i:107096 original size:27 final size:27
Alignment explanation
Indices: 107066--107201 Score: 90
Period size: 27 Copynumber: 5.3 Consensus size: 27
107056 TTGTAGATTT
107066 TGTTGTTTCTATTGCTATTGTTGTTGA
1 TGTTGTTTCTATTGCTATTGTTGTTGA
* *
107093 TGTTGTTGT-TA---CTATTTTTGTTGC
1 TGTTGTT-TCTATTGCTATTGTTGTTGA
* * * * *
107117 CGTTGTTGT-TGTTGTTATAGTTATTGA
1 TGTTGTT-TCTATTGCTATTGTTGTTGA
*
107144 TGTTG---CTACTGCTATTGTTGTTGA
1 TGTTGTTTCTATTGCTATTGTTGTTGA
* * * *
107168 TGTTGTTGCTATTGCTATTGCTATTGT
1 TGTTGTTTCTATTGCTATTGTTGTTGA
107195 TGTTGTT
1 TGTTGTT
107202 CTGCCTGTTA
Statistics
Matches: 82, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
24 38 0.46
27 43 0.52
28 1 0.01
ACGTcount: A:0.11, C:0.08, G:0.24, T:0.57
Consensus pattern (27 bp):
TGTTGTTTCTATTGCTATTGTTGTTGA
Found at i:107162 original size:33 final size:33
Alignment explanation
Indices: 107125--107199 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
107115 GCCGTTGTTG
*
107125 TTGTTGTT-ATAGTTATTGATGTTGCTACTGCTA
1 TTGTTGTTGAT-GTTATTGATATTGCTACTGCTA
* * *
107158 TTGTTGTTGATGTTGTTGCTATTGCTATTGCTA
1 TTGTTGTTGATGTTATTGATATTGCTACTGCTA
107191 TTGTTGTTG
1 TTGTTGTTG
107200 TTCTGCCTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 35 0.95
34 2 0.05
ACGTcount: A:0.13, C:0.08, G:0.24, T:0.55
Consensus pattern (33 bp):
TTGTTGTTGATGTTATTGATATTGCTACTGCTA
Found at i:107420 original size:24 final size:24
Alignment explanation
Indices: 107393--107446 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
107383 GTTGTTGTTA
*
107393 TTGTTGGTGATGGTAGTGTTATTG
1 TTGTTGGTGATGGTACTGTTATTG
* * *
107417 TTGTTGTTGATGTTACTGTTGTTG
1 TTGTTGGTGATGGTACTGTTATTG
107441 TTGTTG
1 TTGTTG
107447 CTGGGGTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.09, C:0.02, G:0.33, T:0.56
Consensus pattern (24 bp):
TTGTTGGTGATGGTACTGTTATTG
Found at i:107436 original size:18 final size:18
Alignment explanation
Indices: 107409--107443 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
107399 GTGATGGTAG
*
107409 TGTTATTGTTGTTGTTGA
1 TGTTACTGTTGTTGTTGA
107427 TGTTACTGTTGTTGTTG
1 TGTTACTGTTGTTGTTG
107444 TTGCTGGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.03, G:0.29, T:0.60
Consensus pattern (18 bp):
TGTTACTGTTGTTGTTGA
Found at i:108016 original size:14 final size:14
Alignment explanation
Indices: 107993--108022 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
107983 TCTTAATGAG
*
107993 TTTTTGGGTATTTA
1 TTTTTAGGTATTTA
108007 TTTTTAGGTATTTA
1 TTTTTAGGTATTTA
108021 TT
1 TT
108023 CGATGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (14 bp):
TTTTTAGGTATTTA
Found at i:108237 original size:9 final size:9
Alignment explanation
Indices: 108225--108344 Score: 57
Period size: 9 Copynumber: 13.6 Consensus size: 9
108215 CAATAAGAGG
*
108225 AACAGTAAC
1 AACAATAAC
108234 AACAATAAC
1 AACAATAAC
*
108243 AAAAATAAC
1 AACAATAAC
*
108252 AACAACAA-
1 AACAATAAC
*
108260 AATCAATAAA
1 AA-CAATAAC
* * *
108270 AAAAACAAG
1 AACAATAAC
* *
108279 TACAATGAC
1 AACAATAAC
*
108288 AACAACAAC
1 AACAATAAC
* * *
108297 AATAGTAAT
1 AACAATAAC
**
108306 AAC-A-AGG
1 AACAATAAC
*
108313 AACAGTAAC
1 AACAATAAC
108322 AACAATAAC
1 AACAATAAC
*
108331 AAAAATAAC
1 AACAATAAC
108340 AACAA
1 AACAA
108345 CAAAATCAAT
Statistics
Matches: 77, Mismatches: 30, Indels: 8
0.67 0.26 0.07
Matches are distributed among these distances:
7 4 0.05
8 2 0.03
9 69 0.90
10 2 0.03
ACGTcount: A:0.66, C:0.17, G:0.06, T:0.11
Consensus pattern (9 bp):
AACAATAAC
Found at i:108334 original size:88 final size:87
Alignment explanation
Indices: 108222--108397 Score: 325
Period size: 88 Copynumber: 2.0 Consensus size: 87
108212 TAGCAATAAG
*
108222 AGGAACAGTAACAACAATAACAAAAATAACAACAACAAAATCAATAAAAAAAACAAGTACAATGA
1 AGGAACAGTAACAACAATAACAAAAATAACAACAACAAAATCAAT-AAAAAAACAAGTACAACGA
108287 CAACAACAACAATAGTAATAACA
65 CAACAACAACAATAGTAATAACA
108310 AGGAACAGTAACAACAATAACAAAAATAACAACAACAAAATCAATAAAAAAACAAGTACAACGAC
1 AGGAACAGTAACAACAATAACAAAAATAACAACAACAAAATCAATAAAAAAACAAGTACAACGAC
*
108375 AGCAACAACAATAGTAATAACA
66 AACAACAACAATAGTAATAACA
108397 A
1 A
108398 CAACCCCAGC
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 41 0.48
88 45 0.52
ACGTcount: A:0.64, C:0.18, G:0.07, T:0.11
Consensus pattern (87 bp):
AGGAACAGTAACAACAATAACAAAAATAACAACAACAAAATCAATAAAAAAACAAGTACAACGAC
AACAACAACAATAGTAATAACA
Found at i:108398 original size:18 final size:18
Alignment explanation
Indices: 108377--108439 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
108367 ACAACGACAG
108377 CAACAACAATAGTAATAA
1 CAACAACAATAGTAATAA
*** * *
108395 CAACAACCCCAGCAGTAA
1 CAACAACAATAGTAATAA
* *
108413 CAACAACAATAGTAACAT
1 CAACAACAATAGTAATAA
108431 CAACAACAA
1 CAACAACAA
108440 CAACAACAAC
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.56, C:0.27, G:0.06, T:0.11
Consensus pattern (18 bp):
CAACAACAATAGTAATAA
Found at i:108417 original size:3 final size:3
Alignment explanation
Indices: 108411--108873 Score: 83
Period size: 3 Copynumber: 154.7 Consensus size: 3
108401 CCCCAGCAGT
* ** * *
108411 AAC AAC AAC AAT AGT AAC ATC AAC AAC AAC AAC AAC AAC AAC -AC TAGC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC -AAC
* * * * * *
108459 AAC AAC AAC AAC AAC AAT AAC AAC ACC AAT AAC AAC ACC AAT AAC ATC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * ** * * * * * *
108507 TAC -AC GAAG AGC AGT AAC ACC AGC AAT AAC AAC AAC ACC AGC AGC
1 AAC AAC -AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* ** * ** * * * * *
108552 ACC AGT AAT AGT AAG AAC -AC GAAC ACC AAC AAC AAC ACC ACC ATC
1 AAC AAC AAC AAC AAC AAC AAC -AAC AAC AAC AAC AAC AAC AAC AAC
* * * * * * * * *
108597 ACC AGC AAC AGC AAC AAC AAT AAT AAT AGC AAC AAC ATC AAC AAA AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * * ** * * * *
108645 AAT AGC AAT AGC AAC AAC AAC AAC ATT AAC AAT AAC AAT AAT AAT AGAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A-AC
* * * * ** * *
108694 -AG AAC AAC AAC AAT AGC AAT AGT AAG AAC AAC AAC ATC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
** ** * * * * * * **
108741 AAC AGT AGT AAC ATC AAT AAC TAC AAA AAC AAA AAC AAT AGT AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * * *
108789 AAC AAT AAC AAT AGC AAC AAC AA- AATC TAC AAC AA- AAT AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AA-C AAC AAC AAC AAC AAC AAC
* * * * * * *
108833 ATC AAT AGC AAC AGC AGC AAC ATC AAC AAC ATC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
108874 TAGCAGTAAT
Statistics
Matches: 322, Mismatches: 127, Indels: 22
0.68 0.27 0.05
Matches are distributed among these distances:
2 11 0.03
3 305 0.95
4 6 0.02
ACGTcount: A:0.57, C:0.26, G:0.06, T:0.10
Consensus pattern (3 bp):
AAC
Found at i:108648 original size:30 final size:30
Alignment explanation
Indices: 108602--108793 Score: 107
Period size: 30 Copynumber: 6.2 Consensus size: 30
108592 CCATCACCAG
* *
108602 CAACAGCAACAACAATAATAATAGCAACAA
1 CAACAACAAAAACAATAATAATAGCAACAA
* **
108632 CATCAACAAAAACAATAGCAATAGCAACAA
1 CAACAACAAAAACAATAATAATAGCAACAA
*
108662 CAACAACATTAACAATAACAATAATAATAG-ACAGAA
1 CAACAAC----A-AA-AACAATAATAATAGCA-ACAA
* * * * *
108698 CAACAACAATAGCAATAGTAAGAACAACAA
1 CAACAACAAAAACAATAATAATAGCAACAA
* * * * * * *
108728 CATCAACAACAACAACAGTAGTAACATCAA
1 CAACAACAAAAACAATAATAATAGCAACAA
* * * * *
108758 TAACTACAAAAACAAAAACAATAGTAACAA
1 CAACAACAAAAACAATAATAATAGCAACAA
108788 CAACAA
1 CAACAA
108794 TAACAATAGC
Statistics
Matches: 119, Mismatches: 35, Indels: 16
0.70 0.21 0.09
Matches are distributed among these distances:
30 90 0.76
31 2 0.02
32 1 0.01
34 1 0.01
35 3 0.03
36 22 0.18
ACGTcount: A:0.60, C:0.21, G:0.06, T:0.12
Consensus pattern (30 bp):
CAACAACAAAAACAATAATAATAGCAACAA
Found at i:108691 original size:36 final size:36
Alignment explanation
Indices: 108626--108741 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 36
108616 ATAATAATAG
* * *
108626 CAACAACATCAACAAAAACAATAGCAATAG-CAACAA
1 CAACAACATTAACAATAACAATAACAATAGAC-ACAA
* *
108662 CAACAACATTAACAATAACAATAATAATAGACAGAA
1 CAACAACATTAACAATAACAATAACAATAGACACAA
* * ** * *
108698 CAACAACAATAGCAATAGTAAGAACAACA-ACATCAA
1 CAACAACATTAACAATAACAATAACAATAGACA-CAA
108734 CAACAACA
1 CAACAACA
108742 ACAGTAGTAA
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
35 3 0.05
36 61 0.94
37 1 0.02
ACGTcount: A:0.60, C:0.22, G:0.06, T:0.11
Consensus pattern (36 bp):
CAACAACATTAACAATAACAATAACAATAGACACAA
Found at i:108874 original size:80 final size:80
Alignment explanation
Indices: 108783--108986 Score: 210
Period size: 80 Copynumber: 2.5 Consensus size: 80
108773 AAACAATAGT
* *
108783 AACAACAACAATAACAATAGCAACAACAAAATCTACAACAAAATAACAACATCAATAGCAACAGC
1 AACAACAACAATAACAATAGCAACAACAAAATCTACAACAAAATAACAACAACAATAGCAACAAC
* * *
108848 AGCAACATCAACAAC
66 AACAACAGCAAAAAC
* * * ** * * * * *
108863 ATCAACAACAATAGCAGTAATAATAACAATAGCTACAACGAAATAACAACAACAATAGCAATAAC
1 AACAACAACAATAACAATAGCAACAACAAAATCTACAACAAAATAACAACAACAATAGCAACAAC
*
108928 AACAATAGCAAAAAC
66 AACAACAGCAAAAAC
* * *
108943 AACAACATCAATAAGAATAGCAGCAACAACAATAGCTACAACAA
1 AACAACAACAATAACAATAGCAACAACAA-AAT--CTACAACAA
108987 CTACTACAGT
Statistics
Matches: 93, Mismatches: 28, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
80 84 0.90
81 1 0.01
83 8 0.09
ACGTcount: A:0.58, C:0.23, G:0.07, T:0.12
Consensus pattern (80 bp):
AACAACAACAATAACAATAGCAACAACAAAATCTACAACAAAATAACAACAACAATAGCAACAAC
AACAACAGCAAAAAC
Found at i:108978 original size:15 final size:14
Alignment explanation
Indices: 108887--108987 Score: 68
Period size: 15 Copynumber: 7.2 Consensus size: 14
108877 CAGTAATAAT
108887 AACAATAGCTACAAC
1 AACAATAGC-ACAAC
*
108902 GA-AATA--ACAAC
1 AACAATAGCACAAC
*
108913 AACAATAGCAATAAC
1 AACAATAGC-ACAAC
108928 AACAATAGCA-AA-
1 AACAATAGCACAAC
* * *
108940 AACAACAACATCAAT
1 AACAATAGCA-CAAC
*
108955 AAGAATAGCAGCAAC
1 AACAATAGCA-CAAC
108970 AACAATAGCTACAAC
1 AACAATAGC-ACAAC
108985 AAC
1 AAC
108988 TACTACAGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
11 6 0.09
12 12 0.18
13 2 0.03
14 7 0.10
15 39 0.58
16 1 0.01
ACGTcount: A:0.58, C:0.23, G:0.08, T:0.11
Consensus pattern (14 bp):
AACAATAGCACAAC
Found at i:109121 original size:19 final size:19
Alignment explanation
Indices: 109099--109137 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
109089 AAATAGTTAC
* *
109099 AGCAATAACAGCAAAAAAA
1 AGCAAAAACAACAAAAAAA
*
109118 AGCAAAAAGAACAAAAAAA
1 AGCAAAAACAACAAAAAAA
109137 A
1 A
109138 CAACTATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.13, G:0.10, T:0.03
Consensus pattern (19 bp):
AGCAAAAACAACAAAAAAA
Found at i:109179 original size:21 final size:21
Alignment explanation
Indices: 109155--109205 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
109145 AAAAATAACT
109155 ACAACAATAATAAAAGCCA-CA
1 ACAACAATAATAAAAG-CAGCA
* * *
109176 ACAACAACAATAACAGCAGGA
1 ACAACAATAATAAAAGCAGCA
109197 ACAACAATA
1 ACAACAATA
109206 CAACAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.61, C:0.24, G:0.08, T:0.08
Consensus pattern (21 bp):
ACAACAATAATAAAAGCAGCA
Found at i:109285 original size:12 final size:12
Alignment explanation
Indices: 109270--109335 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
109260 ATAATAATAG
*
109270 TAACAGTAGCAA
1 TAACAATAGCAA
109282 TAACAATAGCAA
1 TAACAATAGCAA
* * *
109294 CAACAATAACTAC
1 TAACAATAGC-AA
*
109307 T-ACAATAACAA
1 TAACAATAGCAA
*
109318 CAACAATAGCAA
1 TAACAATAGCAA
109330 TAACAA
1 TAACAA
109336 CAACAACAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
11 1 0.02
12 41 0.95
13 1 0.02
ACGTcount: A:0.58, C:0.21, G:0.06, T:0.15
Consensus pattern (12 bp):
TAACAATAGCAA
Found at i:109288 original size:6 final size:6
Alignment explanation
Indices: 109279--109366 Score: 63
Period size: 6 Copynumber: 14.7 Consensus size: 6
109269 GTAACAGTAG
* * * * *
109279 CAATAA CAATAG CAACAA CAATAA CTACT-A CAATAA CAACAA CAATAG
1 CAATAA CAATAA CAATAA CAATAA C-AATAA CAATAA CAATAA CAATAA
* * * *
109327 CAATAA CAACAA CAACAA AAACAA CACA-AA CAATAA CAAT
1 CAATAA CAATAA CAATAA CAATAA CA-ATAA CAATAA CAAT
109367 GGAAACAATA
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
5 3 0.05
6 59 0.91
7 3 0.05
ACGTcount: A:0.62, C:0.24, G:0.02, T:0.11
Consensus pattern (6 bp):
CAATAA
Found at i:109298 original size:24 final size:24
Alignment explanation
Indices: 109271--109344 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
109261 TAATAATAGT
* *
109271 AACAGTAGCAATAACAATAGCAAC
1 AACAATAGCAATAACAATAACAAC
* *
109295 AACAATAACTACT-ACAATAACAAC
1 AACAATAGC-AATAACAATAACAAC
*
109319 AACAATAGCAATAACAACAACAAC
1 AACAATAGCAATAACAATAACAAC
109343 AA
1 AA
109345 AAACAACACA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
23 2 0.05
24 37 0.90
25 2 0.05
ACGTcount: A:0.59, C:0.23, G:0.05, T:0.12
Consensus pattern (24 bp):
AACAATAGCAATAACAATAACAAC
Found at i:109300 original size:18 final size:18
Alignment explanation
Indices: 109279--109844 Score: 111
Period size: 18 Copynumber: 31.5 Consensus size: 18
109269 GTAACAGTAG
109279 CAATAACAATAGCAACAA
1 CAATAACAATAGCAACAA
* *
109297 CAATAACTACTA-CAATAA
1 CAATAAC-AATAGCAACAA
* *
109315 CAACAACAATAGCAATAA
1 CAATAACAATAGCAACAA
* *
109333 CAACAAC-A-A-CAAAAA
1 CAATAACAATAGCAACAA
* *
109348 CAA-CACAA-A-CAATAA
1 CAATAACAATAGCAACAA
109363 CAATGGAAACAATAGCAACAA
1 CAAT---AACAATAGCAACAA
*
109384 C--T-AC-ATCAGTAACAA
1 CAATAACAAT-AGCAACAA
*
109399 CAACAGA-AATAGCAACAA
1 CAATA-ACAATAGCAACAA
*
109417 C-ATCAACAATAACATCAACAA
1 CAAT-AACAAT---AGCAACAA
* **
109438 TAGTAGTAACAATATTAACAA
1 CA--A-TAACAATAGCAACAA
109459 CAATAACAATAGCAA-ACA
1 CAATAACAATAGCAACA-A
* * *
109477 CAACATC-ATCATCAACAA
1 CAATAACAAT-AGCAACAA
* *
109495 CAAGAACAATAGTAACAA
1 CAATAACAATAGCAACAA
*
109513 C-ATCAACAAAAATAGCAGCAA
1 CAAT-AAC---AATAGCAACAA
*
109534 CAACAACAATAGCTATAACAA
1 CAATAACAATAGC---AACAA
* * * *
109555 TAACAACAACATCAACAA
1 CAATAACAATAGCAACAA
* * *
109573 CAATAACAACATCAACAT
1 CAATAACAATAGCAACAA
* * * *
109591 CAACATCAATAGCTATAA
1 CAATAACAATAGCAACAA
* * *
109609 CAATAACAGTAGGAGCAA
1 CAATAACAATAGCAACAA
* * *
109627 CAACAACTATAACAACAA
1 CAATAACAATAGCAACAA
**
109645 CAATAGTAATAG--AC-A
1 CAATAACAATAGCAACAA
* * *
109660 TAACAAC-ATCAACAACAA
1 CAATAACAAT-AGCAACAA
* * *
109678 AAATAACGATAACAACAA
1 CAATAACAATAGCAACAA
* * * * *
109696 TAACAACAATAACAATAG
1 CAATAACAATAGCAACAA
* * * *
109714 TAATAGCAACAACAACAA
1 CAATAACAATAGCAACAA
*
109732 CAATAACAATAGGAACAA
1 CAATAACAATAGCAACAA
*
109750 CAACAAC-AT--CAACAA
1 CAATAACAATAGCAACAA
* * * *
109765 CAATAGCAGTAACAACAT
1 CAATAACAATAGCAACAA
* * * *
109783 CAATAGCTACAACAACAA
1 CAATAACAATAGCAACAA
*
109801 CAATAGCAAATA-CAAC-A
1 CAATAAC-AATAGCAACAA
* * *
109818 CTATAACAACAACAACAA
1 CAATAACAATAGCAACAA
*
109836 CAAAAACAA
1 CAATAACAA
109845 AACAGAAAAA
Statistics
Matches: 400, Mismatches: 101, Indels: 94
0.67 0.17 0.16
Matches are distributed among these distances:
14 6 0.01
15 43 0.11
16 7 0.02
17 24 0.06
18 243 0.61
19 19 0.05
20 1 0.00
21 48 0.12
22 1 0.00
24 7 0.02
25 1 0.00
ACGTcount: A:0.58, C:0.23, G:0.06, T:0.13
Consensus pattern (18 bp):
CAATAACAATAGCAACAA
Found at i:109336 original size:15 final size:14
Alignment explanation
Indices: 109316--109365 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
109306 CTACAATAAC
*
109316 AACAACAATAGCAAT
1 AACAACAA-AACAAT
*
109331 AACAACAACAACAAA
1 AACAACAA-AACAAT
109346 AACAACACAAACAAT
1 AACAACA-AAACAAT
109361 AACAA
1 AACAA
109366 TGGAAACAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 29 0.97
16 1 0.03
ACGTcount: A:0.68, C:0.24, G:0.02, T:0.06
Consensus pattern (14 bp):
AACAACAAAACAAT
Found at i:109349 original size:12 final size:12
Alignment explanation
Indices: 109283--112618 Score: 201
Period size: 12 Copynumber: 274.9 Consensus size: 12
109273 CAGTAGCAAT
*
109283 AACAATAGCAAC
1 AACAATAACAAC
*
109295 AACAATAACTAC
1 AACAATAACAAC
*
109307 TACAATAACAAC
1 AACAATAACAAC
* *
109319 AACAATAGCAAT
1 AACAATAACAAC
*
109331 AACAACAACAAC
1 AACAATAACAAC
* *
109343 AAAAACAAC-AC
1 AACAATAACAAC
*
109354 AAACAATAACAATGGA
1 -AACAATAACAA---C
*
109370 AACAATAGCAAC
1 AACAATAACAAC
**
109382 AACTACATCAGTAAC
1 AAC-A-AT-AACAAC
* *
109397 AACAACAGA-AAT
1 AACAATA-ACAAC
* * *
109409 AGCAACAACATC
1 AACAATAACAAC
*
109421 AACAATAACATC
1 AACAATAACAAC
** **
109433 AACAATAGTAGT
1 AACAATAACAAC
**
109445 AACAATATTAAC
1 AACAATAACAAC
*
109457 AACAATAACAAT
1 AACAATAACAAC
*
109469 AGC-A-AAC-AC
1 AACAATAACAAC
* *
109478 AAC-ATCATCATC
1 AACAAT-AACAAC
* *
109490 AACAACAAGAAC
1 AACAATAACAAC
* *
109502 AATAGTAACAAC
1 AACAATAACAAC
* * * *
109514 ATCAACAAAAAT
1 AACAATAACAAC
* **
109526 AGCAGCAACAAC
1 AACAATAACAAC
* * *
109538 AACAATAGCTAT
1 AACAATAACAAC
109550 AACAATAACAAC
1 AACAATAACAAC
109562 AAC-AT--CAAC
1 AACAATAACAAC
109571 AACAATAACAAC
1 AACAATAACAAC
* * *
109583 ATCAACATCAAC
1 AACAATAACAAC
* * * *
109595 ATCAATAGCTAT
1 AACAATAACAAC
**
109607 AACAATAACAGT
1 AACAATAACAAC
** **
109619 AGGAGCAACAAC
1 AACAATAACAAC
*
109631 AACTATAACAAC
1 AACAATAACAAC
** *
109643 AACAATAGTAAT
1 AACAATAACAAC
109655 AGAC-ATAACAAC
1 A-ACAATAACAAC
*
109667 ATC---AACAAC
1 AACAATAACAAC
* * *
109676 AAAAATAACGAT
1 AACAATAACAAC
* *
109688 AACAACAATAAC
1 AACAATAACAAC
*
109700 AACAATAACAAT
1 AACAATAACAAC
** *
109712 AGTAATAGCAAC
1 AACAATAACAAC
* *
109724 AACAACAACAAT
1 AACAATAACAAC
**
109736 AACAATAGGAAC
1 AACAATAACAAC
109748 AAC---AACAAC
1 AACAATAACAAC
* * *
109757 ATCAACAACAAT
1 AACAATAACAAC
* *
109769 AGCAGTAACAAC
1 AACAATAACAAC
* * *
109781 ATCAATAGCTAC
1 AACAATAACAAC
* *
109793 AACAACAACAAT
1 AACAATAACAAC
*
109805 AGCAA-ATACAAC
1 AACAATA-ACAAC
*
109817 -ACTATAACAAC
1 AACAATAACAAC
* *
109828 AACAACAACAAA
1 AACAATAACAAC
*
109840 AACAA-AACAGAA
1 AACAATAACA-AC
* *
109852 AAAAATAATAAC
1 AACAATAACAAC
* *
109864 AATAATAGA-GA-
1 AACAATA-ACAAC
**
109875 AACAGCAACAAC
1 AACAATAACAAC
**
109887 AACAGCAACAAC
1 AACAATAACAAC
*
109899 AAGAGA-AACAGA-
1 AACA-ATAACA-AC
***
109911 AACAATAGTTAC
1 AACAATAACAAC
* * *
109923 AATAATAGCAAG
1 AACAATAACAAC
109935 AAC-ATCAACAAC
1 AACAAT-AACAAC
* * *
109947 AATAATATCAAT
1 AACAATAACAAC
* * *
109959 AATAAAAATAAC
1 AACAATAACAAC
109971 AACAGTATAA-AA-
1 AACA--ATAACAAC
* **
109983 AATAAATTGCAAC
1 AA-CAATAACAAC
* * *
109996 AACAACAATAAT
1 AACAATAACAAC
* *
110008 AACATTAACAAA
1 AACAATAACAAC
* *
110020 AATAGTAGCTACAAC
1 AACAATA---ACAAC
* * *
110035 ACCAACAACAGC
1 AACAATAACAAC
* * **
110047 ACCAACAACAGG
1 AACAATAACAAC
110059 AACAATAACAAC
1 AACAATAACAAC
* *
110071 AATAGCAAGAACAAG
1 -A-A-CAATAACAAC
**
110086 AACAGGAACAAC
1 AACAATAACAAC
*
110098 AACAAAAACAGA-
1 AACAATAACA-AC
110110 AACAATAACAAC
1 AACAATAACAAC
* *
110122 AATAGTAACAAC
1 AACAATAACAAC
* *
110134 AACAACAACCAC
1 AACAATAACAAC
110146 AACAATAGCAACAAC
1 AACAAT---AACAAC
*
110161 AACAAGAGCAACAAC
1 AAC-A-A-TAACAAC
* *
110176 AACAATGGCAGCAGC
1 AACAAT---AACAAC
* *
110191 AACAATAACGAT
1 AACAATAACAAC
* * *
110203 AGCAATAATAGC
1 AACAATAACAAC
* * *
110215 AGCAACAACGAC
1 AACAATAACAAC
*
110227 AACAATAACAAT
1 AACAATAACAAC
* *
110239 TACAACAACAAC
1 AACAATAACAAC
**
110251 AGTAATAGA-AAC
1 AACAATA-ACAAC
* *
110263 AACAACAACAAT
1 AACAATAACAAC
110275 AAC-ATCAACAAC
1 AACAAT-AACAAC
* *
110287 AAATTGTTGCAATAGCAAA
1 -AA------CAATAACAAC
110306 AAC-A-AA-AAC
1 AACAATAACAAC
*
110315 AACAACAACAAC
1 AACAATAACAAC
*
110327 ATCAATAACAA-
1 AACAATAACAAC
* ** *
110338 ATTGCAGCAATAAC
1 A--ACAATAACAAC
110352 AACAAT-A-AAC
1 AACAATAACAAC
110362 AAC-ATCAACAAC
1 AACAAT-AACAAC
*
110374 AACAATAACAATT
1 AACAATAACAA-C
** *
110387 ATA-AATTGCAGC
1 A-ACAATAACAAC
110399 AACATGAGGGGTAACAAC
1 AACA--A----TAACAAC
* *
110417 GACAACAACAAC
1 AACAATAACAAC
*
110429 AACAATAGA-AAT
1 AACAATA-ACAAC
* *
110441 AACAACAATAAC
1 AACAATAACAAC
110453 AACAATAACAA-
1 AACAATAACAAC
110464 AAGC-ATCAACAAC
1 AA-CAAT-AACAAC
* * * *
110477 AATAGTATCATC
1 AACAATAACAAC
*
110489 AACAACAACAAC
1 AACAATAACAAC
* *
110501 AACAACAACAAAA
1 AACAATAAC-AAC
110514 AACAA-AA-AA-
1 AACAATAACAAC
*
110523 AA-TATAACCATCACC
1 AACAATAA-CA--A-C
* *
110538 AGCAGTAACAAC
1 AACAATAACAAC
*
110550 AAC-A-AAC-CC
1 AACAATAACAAC
*
110559 AACAATAACAAA
1 AACAATAACAAC
* * *
110571 AATAACAACAAA
1 AACAATAACAAC
*
110583 AACAAAAACAAC
1 AACAATAACAAC
* * *
110595 AACAACAAGAGC
1 AACAATAACAAC
** *
110607 AACAACGATAAC
1 AACAATAACAAC
** *
110619 AGTAGTAA-AGAC
1 AACAATAACA-AC
**
110631 AACAGCAACAAC
1 AACAATAACAAC
* *
110643 AATAGTAGCAGCAA-
1 AACAATA--A-CAAC
110657 AATCAA-AAGCAAC
1 AA-CAATAA-CAAC
110670 AACAATAACAAC
1 AACAATAACAAC
* *
110682 AACAATAATAAA
1 AACAATAACAAC
*
110694 AACAAAAATTGCAAC
1 AACAATAA---CAAC
* *
110709 AACTGA-AACAAG
1 AAC-AATAACAAC
* *
110721 AGCAATAACAAA
1 AACAATAACAAC
**
110733 AACAATAGTAAC
1 AACAATAACAAC
* * *
110745 AACAACATCAAT
1 AACAATAACAAC
**
110757 AACAATAGTAAC
1 AACAATAACAAC
* *
110769 AATAACAACAAC
1 AACAATAACAAC
110781 AA-AATAACAAC
1 AACAATAACAAC
* **
110792 ATCAATAGTAAC
1 AACAATAACAAC
*
110804 AAC---AACATC
1 AACAATAACAAC
* *
110813 AACAATAATAGC
1 AACAATAACAAC
* *
110825 AATAACAACAAC
1 AACAATAACAAC
110837 AA-AATAACAAC
1 AACAATAACAAC
* * *
110848 ATCAATAGCAAT
1 AACAATAACAAC
* * *
110860 AGCAACAACATC
1 AACAATAACAAC
* *
110872 AACAATAATAGC
1 AACAATAACAAC
* *
110884 AAC--T-GCAAT
1 AACAATAACAAC
* *
110893 AACAATAGCTAC
1 AACAATAACAAC
* *
110905 AACAAAAATAAC
1 AACAATAACAAC
*
110917 AACAAT---AGC
1 AACAATAACAAC
110926 AACAATAACAAC
1 AACAATAACAAC
*
110938 AACAATAGCAAC
1 AACAATAACAAC
* *
110950 ATCAACAACAAC
1 AACAATAACAAC
* *
110962 AACAACAACCTCAAT
1 AACAATAA---CAAC
110977 AACAATAGAAACAAC
1 AACAAT---AACAAC
*
110992 AAAAATAGCTACAAC
1 AACAATA---ACAAC
*
111007 AACAACT-ACTAC
1 AACAA-TAACAAC
* *
111019 ACCTATAACAAC
1 AACAATAACAAC
111031 AAC-ATAA-AA-
1 AACAATAACAAC
* * *
111040 AACAGTAGCAGC
1 AACAATAACAAC
*
111052 AACAA-AA-ATC
1 AACAATAACAAC
*
111062 ATAGCAACAACAAC
1 A-A-CAATAACAAC
* * **
111076 AATAATAGCAGT
1 AACAATAACAAC
111088 AACAATAACAAC
1 AACAATAACAAC
* * *
111100 TACAACATCAAC
1 AACAATAACAAC
* *
111112 AATAATAA-AGC
1 AACAATAACAAC
*
111123 AGC-ATAA-AA-
1 AACAATAACAAC
* * * **
111132 AATAGTTACAGT
1 AACAATAACAAC
111144 AACAATAACAA-
1 AACAATAACAAC
*
111155 AAAAATAACTATAAC
1 AACAATAAC---AAC
* * **
111170 TACAATAATAGT
1 AACAATAACAAC
* * *
111182 GATAATAGCAAC
1 AACAATAACAAC
111194 AGA-AATAACAAC
1 A-ACAATAACAAC
* **
111206 AATAGCAACAAC
1 AACAATAACAAC
* *
111218 -ACAAACAAGAAC
1 AAC-AATAACAAC
*
111230 AACAA-AAAAAC
1 AACAATAACAAC
111241 ACACAATAACAAC
1 A-ACAATAACAAC
*
111254 AACAAAAACAAC
1 AACAATAACAAC
**
111266 AACAATAGTAAC
1 AACAATAACAAC
* * *
111278 AATAACAACAAT
1 AACAATAACAAC
* * * *
111290 TATAAAAATAAC
1 AACAATAACAAC
* *
111302 AACAACAACAAT
1 AACAATAACAAC
111314 AACAATAACAAC
1 AACAATAACAAC
* * *
111326 AACAACAACTAT
1 AACAATAACAAC
*
111338 AAAAATAACAAC
1 AACAATAACAAC
*
111350 AATAATAACAAC
1 AACAATAACAAC
* *
111362 AACAACAATAAC
1 AACAATAACAAC
* *
111374 AACAACAACAAT
1 AACAATAACAAC
*
111386 AACAAAAAC-AC
1 AACAATAACAAC
** * *
111397 AAACACGAGCAAT
1 -AACAATAACAAC
* *
111410 AATAGTAACAAC
1 AACAATAACAAC
* * *
111422 AACAACAATAGC
1 AACAATAACAAC
* *
111434 AGCAACAACAAC
1 AACAATAACAAC
111446 AA-AATAACAA-
1 AACAATAACAAC
*
111456 AACCA-AA-AA-
1 AACAATAACAAC
* *
111465 AATAATATCAAC
1 AACAATAACAAC
* **
111477 AACAACAGTAAC
1 AACAATAACAAC
* * *
111489 AACAAGAATAAT
1 AACAATAACAAC
* *
111501 AACAAGAGCAAC
1 AACAATAACAAC
**
111513 AACAATAACATG
1 AACAATAACAAC
*
111525 AGCAATAACAAC
1 AACAATAACAAC
* * * *
111537 AAGAACATCATC
1 AACAATAACAAC
* *
111549 AACAACAACAAT
1 AACAATAACAAC
* * *
111561 AATAGTATCAAC
1 AACAATAACAAC
*
111573 AAGAAATTGTAAATGCAAC
1 AA-CAA---T-AA--CAAC
* *
111592 AGTAGTAGTAACAAC
1 A--A-CAATAACAAC
* * *
111607 ATCAACAAGAA-
1 AACAATAACAAC
* **
111618 ATTACAGTTGCAAC
1 A--ACAATAACAAC
*
111632 AACAGTAACAAC
1 AACAATAACAAC
* *
111644 AA-AAGCATCAAC
1 AACAA-TAACAAC
* *
111656 AACAATAGCAGC
1 AACAATAACAAC
*
111668 AACAAAAACAAC
1 AACAATAACAAC
*
111680 TACAATAACAATC
1 AACAATAACAA-C
*
111693 -ACAACAACAAC
1 AACAATAACAAC
* *
111704 ACCACTAACAAC
1 AACAATAACAAC
* * *
111716 AACTACAA-AAA
1 AACAATAACAAC
* *
111727 AATAATAACAGC
1 AACAATAACAAC
* *
111739 ATCAACAACAA-
1 AACAATAACAAC
*
111750 AA-AATAACAAT
1 AACAATAACAAC
* *
111761 AGCAACAACAAC
1 AACAATAACAAC
* *
111773 AACAACAACAAA
1 AACAATAACAAC
*
111785 AACAATAACAAT
1 AACAATAACAAC
*
111797 AATAATAACAAC
1 AACAATAACAAC
* *
111809 AACAACAACTAC
1 AACAATAACAAC
* *
111821 TAC--T-ACAAA
1 AACAATAACAAC
*
111830 AACAACAACAA-
1 AACAATAACAAC
* * **
111841 AAAAATAATAGT
1 AACAATAACAAC
* * *
111853 AATAACAATAAC
1 AACAATAACAAC
* *
111865 AACAATAGCAAT
1 AACAATAACAAC
*
111877 AACAATAGAAACAC
1 AACAATA-ACA-AC
* *
111891 TAACAA-AAAAAT
1 -AACAATAACAAC
* *
111903 AAAAATAGCAAC
1 AACAATAACAAC
*
111915 AAC-AT--CATC
1 AACAATAACAAC
* * *
111924 ATCATTAACAAT
1 AACAATAACAAC
* *
111936 AGC-ATCATCAAC
1 AACAAT-AACAAC
*
111948 AACAATAATAAC
1 AACAATAACAAC
*
111960 AACAATAACAGAGT
1 AACAATAACA-A-C
111974 AACAAT-A-AA-
1 AACAATAACAAC
*
111983 AAC-AT--CATC
1 AACAATAACAAC
111992 AACAATAACAAC
1 AACAATAACAAC
*
112004 AACAGCT-ACAAC
1 AACA-ATAACAAC
** * *
112016 AATTACAAAAAC
1 AACAATAACAAC
* **
112028 AACAATCACATT
1 AACAATAACAAC
** *
112040 AACAATAGGAAT
1 AACAATAACAAC
*
112052 AACAACAACATA-
1 AACAATAACA-AC
*
112064 AACAAGAACAAC
1 AACAATAACAAC
* *
112076 AATAGTAACAAC
1 AACAATAACAAC
*
112088 AACAACAACAATAGC
1 AACAATAAC-A-A-C
* *
112103 AAAAATAACAAT
1 AACAATAACAAC
*
112115 AACAACAACAAC
1 AACAATAACAAC
112127 AACAATAACAAC
1 AACAATAACAAC
* *
112139 AA-AAGAAGCGAC
1 AACAATAA-CAAC
112151 AACAATAGCACTAGTAAC
1 AACAATA--AC----AAC
112169 AACAATAACAAC
1 AACAATAACAAC
* *
112181 ACCAACAA-AA-
1 AACAATAACAAC
*** *
112191 AATTGTAGCCATAAC
1 AACAATA---ACAAC
* *
112206 AACAGTAACAAT
1 AACAATAACAAC
*
112218 AACAACAACAAC
1 AACAATAACAAC
* **
112230 AACAACATTAAC
1 AACAATAACAAC
112242 AACAATAACAGTAGC
1 AACAATAACA--A-C
*
112257 AACAACAACAAC
1 AACAATAACAAC
*
112269 TACAATGAA-AAC
1 AACAAT-AACAAC
*
112281 AATAGCAATAATAAC
1 -A-A-CAATAACAAC
112296 TACTACAACT-ACAAC
1 -A--ACAA-TAACAAC
* * *
112311 TACTATAATAAC
1 AACAATAACAAC
*
112323 AACAATAGCAAC
1 AACAATAACAAC
*
112335 AACACA-AACAAT
1 AACA-ATAACAAC
* *
112347 AACAAAAATAAC
1 AACAATAACAAC
* * **
112359 AATAATAGCAGT
1 AACAATAACAAC
* *
112371 AA-TATCAGCAAC
1 AACAAT-AACAAC
112383 AAC-ATCAACAAC
1 AACAAT-AACAAC
** *
112395 AACAATAGTAGC
1 AACAATAACAAC
***
112407 GGTAATAACATTAAC
1 AACAATAAC---AAC
112422 AACAATAACAAC
1 AACAATAACAAC
* *
112434 AA-TATAAACAAAA
1 AACAAT-AAC-AAC
112447 ATATCAATAACAAC
1 A-A-CAATAACAAC
*
112461 AACAATAATAGTAAC
1 AACAAT-A-A-CAAC
*
112476 AACAATAACAAT
1 AACAATAACAAC
112488 AACAAT---AAC
1 AACAATAACAAC
* *
112497 AATAATAGCAAC
1 AACAATAACAAC
* * *
112509 AACAACATCATC
1 AACAATAACAAC
* * *
112521 AACAACAGCAAT
1 AACAATAACAAC
*
112533 AACAGTAACAAC
1 AACAATAACAAC
** *
112545 ATTAACAACAAC
1 AACAATAACAAC
112557 AACAATAACAGACAC
1 AACAATAAC--A-AC
*
112572 AACAATATCAAC
1 AACAATAACAAC
* *
112584 AATAATAACAAT
1 AACAATAACAAC
* *
112596 AACAACAACAAT
1 AACAATAACAAC
112608 AACAATAACAA
1 AACAATAACAA
112619 TAGCAATAGT
Statistics
Matches: 2277, Mismatches: 786, Indels: 522
0.64 0.22 0.15
Matches are distributed among these distances:
8 4 0.00
9 89 0.04
10 52 0.02
11 151 0.07
12 1589 0.70
13 107 0.05
14 46 0.02
15 184 0.08
16 15 0.01
17 4 0.00
18 21 0.01
19 10 0.00
20 2 0.00
21 3 0.00
ACGTcount: A:0.60, C:0.22, G:0.06, T:0.12
Consensus pattern (12 bp):
AACAATAACAAC
Found at i:109430 original size:33 final size:33
Alignment explanation
Indices: 109308--109589 Score: 128
Period size: 33 Copynumber: 8.6 Consensus size: 33
109298 AATAACTACT
* *
109308 ACAATAACAACAACAAT-AGCAATAACAACAACA
1 ACAATAGCAACAAC-ATCAACAATAACAACAACA
**
109341 ACAA-A--AACAACA-CAAACAATAACAATGGA-A
1 ACAATAGCAACAACATC-AACAATAACAA-CAACA
* *
109371 ACAATAGCAACAAC-TACATCAGTAACAACAACA
1 ACAATAGCAACAACAT-CAACAATAACAACAACA
*
109404 GA-AATAGCAACAACATCAACAATAACATCAACA
1 -ACAATAGCAACAACATCAACAATAACAACAACA
* * * * * * * *
109437 ATAGTAGTAACAATATTAACAACAATAACAATA
1 ACAATAGCAACAACATCAACAATAACAACAACA
* * *
109470 GCAA-A-C-ACAACATCATC-ATCAACAACAAGA
1 ACAATAGCAACAACATCAACAAT-AACAACAACA
*
109500 ACAATAGTAACAACATCAACAAAAATAGCAGCAACAACA
1 ACAATAGCAACAACATCAAC---AATA--A-CAACAACA
* * * *
109539 ACAATAGCTATAACAAT-AACAACAACATCAACA
1 ACAATAGCAACAAC-ATCAACAATAACAACAACA
109572 ACAAT---AACAACATCAACA
1 ACAATAGCAACAACATCAACA
109590 TCAACATCAA
Statistics
Matches: 185, Mismatches: 39, Indels: 53
0.67 0.14 0.19
Matches are distributed among these distances:
29 4 0.02
30 48 0.26
31 3 0.02
32 4 0.02
33 92 0.50
34 4 0.02
36 4 0.02
37 2 0.01
38 1 0.01
39 21 0.11
40 2 0.01
ACGTcount: A:0.59, C:0.23, G:0.05, T:0.12
Consensus pattern (33 bp):
ACAATAGCAACAACATCAACAATAACAACAACA
Found at i:109513 original size:21 final size:21
Alignment explanation
Indices: 109489--109542 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
109479 ACATCATCAT
* * *
109489 CAACAACAAGAACAATAGTAA
1 CAACAACAACAAAAATAGCAA
* *
109510 CAACATCAACAAAAATAGCAG
1 CAACAACAACAAAAATAGCAA
109531 CAACAACAACAA
1 CAACAACAACAA
109543 TAGCTATAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.61, C:0.24, G:0.07, T:0.07
Consensus pattern (21 bp):
CAACAACAACAAAAATAGCAA
Found at i:109542 original size:6 final size:6
Alignment explanation
Indices: 109489--109848 Score: 80
Period size: 6 Copynumber: 60.3 Consensus size: 6
109479 ACATCATCAT
* * * * * * * * *
109489 CAACAA CAAGAA CAATAG TAACAA CATCAA CAAAAA TAGCAG CAACAA
1 CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA
* * * * * * * *
109537 CAACAA TAGCTA TAACAA TAACAA CAACAT CAACAA CAATAA CAACAT
1 CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA
* * * * * * * ** * * *
109585 CAACAT CAACAT CAATAG CTATAA CAATAA CAGTAG GAGCAA CAACAA
1 CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA
* * * * * * * * *
109633 CTATAA CAACAA CAATAG TAATAGA C-ATAA CAACAT CAACAA CAAAAA
1 CAACAA CAACAA CAACAA CAACA-A CAACAA CAACAA CAACAA CAACAA
* * * * * * ** * *
109681 TAACGA TAACAA CAATAA CAACAA TAACAA TAGTAA TAGCAA CAACAA
1 CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA
* * ** * * * **
109729 CAACAA TAACAA TAGGAA CAACAA CAACAT CAACAA CAATAG CAGTAA
1 CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA
* * * * * * * *
109777 CAACAT CAATAG CTACAA CAACAA CAATAG CAA-ATA CAAC-A CTATAA
1 CAACAA CAACAA CAACAA CAACAA CAACAA CAACA-A CAACAA CAACAA
*
109824 CAACAA CAACAA CAAAAA CAA-AA CA
1 CAACAA CAACAA CAACAA CAACAA CA
109849 GAAAAAAATA
Statistics
Matches: 254, Mismatches: 95, Indels: 11
0.71 0.26 0.03
Matches are distributed among these distances:
5 10 0.04
6 244 0.96
ACGTcount: A:0.59, C:0.23, G:0.06, T:0.12
Consensus pattern (6 bp):
CAACAA
Found at i:109559 original size:21 final size:21
Alignment explanation
Indices: 109535--109583 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
109525 TAGCAGCAAC
* * *
109535 AACAACAATAGCTATAACAAT
1 AACAACAACAGCAACAACAAT
*
109556 AACAACAACATCAACAACAAT
1 AACAACAACAGCAACAACAAT
109577 AACAACA
1 AACAACA
109584 TCAACATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.61, C:0.24, G:0.02, T:0.12
Consensus pattern (21 bp):
AACAACAACAGCAACAACAAT
Found at i:109646 original size:57 final size:57
Alignment explanation
Indices: 109534--109779 Score: 164
Period size: 57 Copynumber: 4.4 Consensus size: 57
109524 ATAGCAGCAA
* *
109534 CAACAACAATAGCTATAACAATAACAACAACATCAACAACAATAACAACATCAACAT
1 CAACAACAATAGCTATAACAATAACAACAACAGCAACAACAATAACAACAACAACAT
* ** ** *
109591 CAACATCAATAGCTATAACAATAACAGTAGGAGCAACAACAACT-ATAACAAC-A-A-
1 CAACAACAATAGCTATAACAATAACAACAACAGCAACAACAA-TAACAACAACAACAT
* ** * * ** * * * *
109645 CAATAGTAATAGAC-ATAACAACATCAACAACAAAAATAACGATAACAACAATAACAA
1 CAACAACAATAG-CTATAACAATAACAACAACAGCAACAACAATAACAACAACAACAT
* * * ** * **
109702 CAATAACAATAG-TAATAGCAACAACAACAACAATAACAATAGGAACAACAACAACAT
1 CAACAACAATAGCT-ATAACAATAACAACAACAGCAACAACAATAACAACAACAACAT
109759 CAACAACAATAGC-AGTAACAA
1 CAACAACAATAGCTA-TAACAA
109780 CATCAATAGC
Statistics
Matches: 142, Mismatches: 37, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
53 1 0.01
54 33 0.23
55 3 0.02
56 3 0.02
57 101 0.71
58 1 0.01
ACGTcount: A:0.58, C:0.22, G:0.06, T:0.13
Consensus pattern (57 bp):
CAACAACAATAGCTATAACAATAACAACAACAGCAACAACAATAACAACAACAACAT
Found at i:109667 original size:27 final size:27
Alignment explanation
Indices: 109637--109757 Score: 84
Period size: 27 Copynumber: 4.5 Consensus size: 27
109627 CAACAACTAT
* **
109637 AACAACAACAATAGTAATAGAC-ATAAC
1 AACAACAACAACAAAAATA-ACGATAAC
*
109664 AACATCAACAACAAAAATAACGATAAC
1 AACAACAACAACAAAAATAACGATAAC
* * * * *
109691 AACAATAACAACAATAACAA-TAGTAAT
1 AACAACAACAACAAAAATAACGA-TAAC
* * * **
109718 AGCAACAACAACAACAATAACAATAGG
1 AACAACAACAACAAAAATAACGATAAC
109745 AACAACAACAACA
1 AACAACAACAACA
109758 TCAACAACAA
Statistics
Matches: 73, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
26 3 0.04
27 69 0.95
28 1 0.01
ACGTcount: A:0.62, C:0.21, G:0.06, T:0.12
Consensus pattern (27 bp):
AACAACAACAACAAAAATAACGATAAC
Found at i:109779 original size:30 final size:29
Alignment explanation
Indices: 109625--109781 Score: 111
Period size: 30 Copynumber: 5.2 Consensus size: 29
109615 CAGTAGGAGC
* * **
109625 AACAACAACTATAACAACAACAATAGTAAT
1 AACAACAACAACAACAACAACAATAG-CGT
* * *
109655 AGACATAACAACATCAACAACAAAAATAACGAT
1 A-AC--AACAACAACAACAACAACAATAGCG-T
* * **
109688 AACAACAATAACAACAATAACAATAGTAAT
1 AACAACAACAACAACAACAACAATAG-CGT
* *
109718 AGCAACAACAACAACAATAACAATAG-G-
1 AACAACAACAACAACAACAACAATAGCGT
*
109745 AACAACAACAACATCAACAACAATAGCAGT
1 AACAACAACAACAACAACAACAATAGC-GT
109775 AACAACA
1 AACAACA
109782 TCAATAGCTA
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
27 23 0.23
29 1 0.01
30 51 0.52
31 2 0.02
32 2 0.02
33 20 0.20
ACGTcount: A:0.61, C:0.22, G:0.06, T:0.12
Consensus pattern (29 bp):
AACAACAACAACAACAACAACAATAGCGT
Found at i:110068 original size:6 final size:6
Alignment explanation
Indices: 110030--110288 Score: 90
Period size: 6 Copynumber: 43.2 Consensus size: 6
110020 AATAGTAGCT
* * * ** * * *
110030 ACAACA CCAACA ACAGCA CCAACA ACAGGA ACAATA ACAACA ATAGCA
1 ACAACA ACAACA ACAACA ACAACA ACAACA ACAACA ACAACA ACAACA
* * ** * * *
110078 AGAACA AGAACA GGAACA ACAACA AAAACA GA-AACA ATAACA ACAATA
1 ACAACA ACAACA ACAACA ACAACA ACAACA -ACAACA ACAACA ACAACA
** * * * * *
110126 GTAACA ACAACA ACAACC ACAACA ATAGCA ACAACA ACAAGA GCAACA
1 ACAACA ACAACA ACAACA ACAACA ACAACA ACAACA ACAACA ACAACA
*** * * * * * * * * * *
110174 ACAACA ATGGCA GCAGCA ACAATA ACGATA GCAATA ATAGCA GCAACA
1 ACAACA ACAACA ACAACA ACAACA ACAACA ACAACA ACAACA ACAACA
* * ** ** *
110222 ACGACA ACAATA ACAATT ACAACA ACAACA GTAATA GA-AACA ACAACA
1 ACAACA ACAACA ACAACA ACAACA ACAACA ACAACA -ACAACA ACAACA
* *
110270 ACAATA ACATCA ACAACA A
1 ACAACA ACAACA ACAACA A
110289 ATTGTTGCAA
Statistics
Matches: 178, Mismatches: 71, Indels: 8
0.69 0.28 0.03
Matches are distributed among these distances:
5 2 0.01
6 175 0.98
7 1 0.01
ACGTcount: A:0.59, C:0.25, G:0.09, T:0.07
Consensus pattern (6 bp):
ACAACA
Found at i:110148 original size:51 final size:51
Alignment explanation
Indices: 110008--110150 Score: 151
Period size: 51 Copynumber: 2.8 Consensus size: 51
109998 CAACAATAAT
* * * * * * * * *
110008 AACATTAACAAAAATAGTAGCTACAACACCAACAACAGCACCAACAACAGG
1 AACAATAACAACAATAGTAACAACAACAACAACAACAACAACAAAAACAGA
* * * **
110059 AACAATAACAACAATAGCAAGAACAAGAACAGGAACAACAACAAAAACAGA
1 AACAATAACAACAATAGTAACAACAACAACAACAACAACAACAAAAACAGA
*
110110 AACAATAACAACAATAGTAACAACAACAACAACCACAACAA
1 AACAATAACAACAATAGTAACAACAACAACAACAACAACAA
110151 TAGCAACAAC
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.60, C:0.24, G:0.08, T:0.07
Consensus pattern (51 bp):
AACAATAACAACAATAGTAACAACAACAACAACAACAACAACAAAAACAGA
Found at i:110162 original size:27 final size:27
Alignment explanation
Indices: 110030--111012 Score: 136
Period size: 27 Copynumber: 35.2 Consensus size: 27
110020 AATAGTAGCT
* ** *
110030 ACAACACCAACAACAGCACCAACAACA
1 ACAACAACAACAACAATAGCAACAACA
** * *
110057 GGAACAATAACAACAATAGCAAGAACA
1 ACAACAACAACAACAATAGCAACAACA
* ** *
110084 AGAACAGGAACAAC-A-A-CAAAAACA
1 ACAACAACAACAACAATAGCAACAACA
* *
110108 GA-AACAATAACAACAATAGTAACAACA
1 -ACAACAACAACAACAATAGCAACAACA
*
110135 ACAACAACCACAACAATAGCAACAACA
1 ACAACAACAACAACAATAGCAACAACA
* * *
110162 ACAAGAGCAACAACAACAATGGCAGCAGCA
1 AC-A-A-CAACAACAACAATAGCAACAACA
* * *
110192 ACAATAACGATAGCAATAATAGCAGCAACA
1 ACAACAAC-A-A-CAACAATAGCAACAACA
* *
110222 ACGACAACAATAACAATTA-CAACAACA
1 ACAACAACAACAACAA-TAGCAACAACA
** * * * *
110249 ACAGTAATAGA-AACAACAACAACAATA
1 ACAACAACA-ACAACAATAGCAACAACA
* *
110276 ACATCAACAACAAATTGTTGCAATAGCAAAAACA
1 ACAACAACAAC-AA------CAATAGCAACAACA
* * * *
110310 AAAACAACAACAACAACATCAATAACAA
1 ACAACAACAACAACAATAGCAACAAC-A
* * * *
110338 ATTGCAGCAATAACAACAATAAACAACATCA
1 A---CAACAACAACAACAAT-AGCAACAACA
* ** *
110369 ACAACAACAATAACAATTATAAATTGCAGCA
1 ACAACAACAACAACAA-TAGCAA---CAACA
* * * *
110400 ACATGAGGGGTAACAACGACAACAACAACAACA
1 ACA--A----CAACAACAACAATAGCAACAACA
* * * *
110433 ATAGA-AATAACAACAATAACAACAATA
1 ACA-ACAACAACAACAATAGCAACAACA
* * * *
110460 ACAAAAGCATCAACAACAATAGTATCATCA
1 AC--AA-CAACAACAACAATAGCAACAACA
110490 ACAACAACAACAAC-A-A-CAACAA-A
1 ACAACAACAACAACAATAGCAACAACA
* * * *
110513 A-AACAA-AA-AAAATATAACCATCACCA
1 ACAACAACAACAACA-AT-AGCAACAACA
* ** * *
110539 GCAGTAACAACAACAA-ACCCAACAATA
1 ACAACAACAACAACAATA-GCAACAACA
* *
110566 ACAAAAATAACAACAA-A--AAC-A-A
1 ACAACAACAACAACAATAGCAACAACA
* *
110588 A-AACAACAACAACAAGAGCAACAACG
1 ACAACAACAACAACAATAGCAACAACA
* * *
110614 ATAACAGTAGTAA-AGACAACAGCAACAACA
1 ACAACA--A-CAACA-ACAATAGCAACAACA
* * *
110644 ATAGTAGCAGCAA-AATCAAAAGCAACAACA
1 ACA--A-CAACAACAA-CAATAGCAACAACA
* * ** *
110674 ATAACAACAACAATAATAAAAACAAAA
1 ACAACAACAACAACAATAGCAACAACA
* * *
110701 ATTGCAACAACTGA-AACAAGAGCAATAACA
1 A---CAACAAC-AACAACAATAGCAACAACA
* * ** *
110731 AAAACAATAGTAAC-A-A-CAACATCA
1 ACAACAACAACAACAATAGCAACAACA
* * ** *
110755 ATAACAATAGTAACAATAACAACAACA
1 ACAACAACAACAACAATAGCAACAACA
* * *
110782 A-AATAACAACATCAATAGTAACAACA
1 ACAACAACAACAACAATAGCAACAACA
* * *
110808 ACATCAACAATAATAGCAATAACAACAACA
1 ACAACAACAA-CA-A-CAATAGCAACAACA
* * * *
110838 A-AATAACAACATCAATAGCAATAGCA
1 ACAACAACAACAACAATAGCAACAACA
* * *
110864 ACAACATCAACAATAATAGCAACTGCAATA
1 ACAACAACAACAACAATAGCAA---CAACA
* * *
110894 ACAATAGCTACAACAAAAATAACAACAATAGCA
1 AC-A-A-CAACAACAACAATAGCAAC-A-A-CA
* *
110927 ACAATAACAACAACAATAGCAACATCA
1 ACAACAACAACAACAATAGCAACAACA
*** *
110954 ACAACAACAACAACAACCTCAATAACA
1 ACAACAACAACAACAATAGCAACAACA
* * *
110981 ATAGA-AACAACAAAAATAGCTACAACA
1 ACA-ACAACAACAACAATAGCAACAACA
111008 ACAAC
1 ACAAC
111013 TACTACACCT
Statistics
Matches: 683, Mismatches: 183, Indels: 180
0.65 0.17 0.17
Matches are distributed among these distances:
20 2 0.00
21 14 0.02
22 9 0.01
23 3 0.00
24 46 0.07
25 11 0.02
26 43 0.06
27 257 0.38
28 38 0.06
29 19 0.03
30 145 0.21
31 25 0.04
32 12 0.02
33 28 0.04
34 19 0.03
36 3 0.00
37 9 0.01
ACGTcount: A:0.60, C:0.23, G:0.07, T:0.10
Consensus pattern (27 bp):
ACAACAACAACAACAATAGCAACAACA
Found at i:110224 original size:24 final size:24
Alignment explanation
Indices: 110188--110288 Score: 61
Period size: 21 Copynumber: 4.5 Consensus size: 24
110178 CAATGGCAGC
* * *
110188 AGCAACAATAACGATAGCAATAAT
1 AGCAACAACAACGACAACAATAAT
*
110212 AGCAGCAACAACGACAACAAT-A-
1 AGCAACAACAACGACAACAATAAT
** * *
110234 A-CAATTACAACAACAACAGTAAT
1 AGCAACAACAACGACAACAATAAT
* *
110257 AG--A-AACAACAACAACAATAAC
1 AGCAACAACAACGACAACAATAAT
*
110278 ATCAACAACAA
1 AGCAACAACAA
110289 ATTGTTGCAA
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
21 30 0.52
22 3 0.05
23 3 0.05
24 22 0.38
ACGTcount: A:0.58, C:0.23, G:0.08, T:0.11
Consensus pattern (24 bp):
AGCAACAACAACGACAACAATAAT
Found at i:110243 original size:21 final size:21
Alignment explanation
Indices: 110209--110288 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
110199 CGATAGCAAT
* * *
110209 AATAGCAGCAACAACGACAAC
1 AATAACAGAAACAACAACAAC
*
110230 AATAACA-ATTACAACAACAAC
1 AATAACAGA-AACAACAACAAC
* *
110251 AGTAATAGAAACAACAACAAC
1 AATAACAGAAACAACAACAAC
**
110272 AATAACATCAACAACAA
1 AATAACAGAAACAACAA
110289 ATTGTTGCAA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 45 0.98
22 1 0.02
ACGTcount: A:0.60, C:0.24, G:0.06, T:0.10
Consensus pattern (21 bp):
AATAACAGAAACAACAACAAC
Found at i:110278 original size:15 final size:15
Alignment explanation
Indices: 110059--113486 Score: 319
Period size: 15 Copynumber: 225.7 Consensus size: 15
110049 CAACAACAGG
*
110059 AACAATAACAACAAT
1 AACAATAACAACAAC
* * *
110074 AGCAAGAACAAGAAC
1 AACAATAACAACAAC
** * *
110089 AGGAACAACAACAAA
1 AACAATAACAACAAC
*
110104 AACAGA-AACAATAAC
1 AACA-ATAACAACAAC
**
110119 AACAATAGTAACAAC
1 AACAATAACAACAAC
*
110134 AAC---AACAACCAC
1 AACAATAACAACAAC
*
110146 AACAATAGCAACAAC
1 AACAATAACAACAAC
* *
110161 AACAAGAGCAACAAC
1 AACAATAACAACAAC
** * *
110176 AACAATGGCAGCAGC
1 AACAATAACAACAAC
* * *
110191 AACAATAACGATAGC
1 AACAATAACAACAAC
* * *
110206 AATAATAGCAGCAAC
1 AACAATAACAACAAC
* * *
110221 AACGACAACAATAAC
1 AACAATAACAACAAC
** *
110236 AATTACAACAACAAC
1 AACAATAACAACAAC
**
110251 AGTAATAGAAACAACAAC
1 AACAAT---AACAACAAC
*
110269 AACAATAACATCAAC
1 AACAATAACAACAAC
***** *
110284 AACAAATTGTTGCAAT
1 AAC-AATAACAACAAC
* *
110300 AGC-A-AA-AACAAA
1 AACAATAACAACAAC
*
110312 AACAACAACAACAAC
1 AACAATAACAACAAC
* *
110327 ATCAATAACAA-ATTGC
1 AACAATAACAACA--AC
* *
110343 AGCAATAACAACAATA
1 AACAATAACAACAA-C
* *
110359 AACAACATCAACAAC
1 AACAATAACAACAAC
**
110374 AACAATAACAATTA-
1 AACAATAACAACAAC
* ** *
110388 TA-AATTGCAGCAAC
1 AACAATAACAACAAC
*** *
110402 ATGAGGGGTAACAACGAC
1 A--A-CAATAACAACAAC
* *
110420 AACAACAACAACAAT
1 AACAATAACAACAAC
*
110435 AGA-AATAACAACAAT
1 A-ACAATAACAACAAC
* *
110450 AACAACAATAACAA-
1 AACAATAACAACAAC
110464 AAGC-AT--CAACAAC
1 AA-CAATAACAACAAC
* * * *
110477 AATAGTATCATCAAC
1 AACAATAACAACAAC
*
110492 AACAACAACAACAAC
1 AACAATAACAACAAC
*
110507 AACAA-AA-AACAAAA
1 AACAATAACAAC-AAC
* * *
110521 AAAATATAACCATCACC
1 AACA-ATAA-CAACAAC
* *
110538 AGCAGTAACAACAAC
1 AACAATAACAACAAC
** *
110553 AA-ACCCAACAATAAC
1 AACA-ATAACAACAAC
* *
110568 AAAAATAACAACAAA
1 AACAATAACAACAAC
110583 AAC-A-AA-AACAAC
1 AACAATAACAACAAC
* * *
110595 AACAACAAGAGCAAC
1 AACAATAACAACAAC
* ** **
110610 AACGATAACAGTAGT
1 AACAATAACAACAAC
* *
110625 AA-AGACAACAGCAAC
1 AACA-ATAACAACAAC
** * *
110640 AACAATAGTAGCAGC
1 AACAATAACAACAAC
110655 AA-AATCAA-AAGCAAC
1 AACAAT-AACAA-CAAC
110670 AACAATAACAACAAC
1 AACAATAACAACAAC
* * *
110685 AATAATAAAAACAAA
1 AACAATAACAACAAC
* *
110700 AATTGCAACAACTGAAACAAG
1 AA---CAATAAC---AACAAC
* *
110721 AGCAATAACAAAAAC
1 AACAATAACAACAAC
* *
110736 AATAGTAACAACAAC
1 AACAATAACAACAAC
* * **
110751 ATCAATAACAATAGT
1 AACAATAACAACAAC
110766 AACAATAACAACAAC
1 AACAATAACAACAAC
*
110781 AA-AATAACAACATC
1 AACAATAACAACAAC
* *
110795 AATAGTAACAACAAC
1 AACAATAACAACAAC
* * *
110810 ATC---AACAATAAT
1 AACAATAACAACAAC
*
110822 AGCAATAACAACAAC
1 AACAATAACAACAAC
*
110837 AA-AATAACAACATC
1 AACAATAACAACAAC
*
110851 AATAGCAATAGCAACAACATC
1 -A-A-CAAT---AACAACAAC
* *
110872 AACAATAATAGCAAC
1 AACAATAACAACAAC
** * *
110887 TGCAATAACAATAGC
1 AACAATAACAACAAC
* * * *
110902 TACAACAAAAATAAC
1 AACAATAACAACAAC
* *
110917 AACAATAGCAACAAT
1 AACAATAACAACAAC
* * *
110932 AACAACAACAATAGC
1 AACAATAACAACAAC
110947 AAC-ATCAACAACAAC
1 AACAAT-AACAACAAC
* ** *
110962 AACAACAACCTCAAT
1 AACAATAACAACAAC
110977 AACAATAGA-AACAAC
1 AACAATA-ACAACAAC
* * *
110992 AAAAATAGCTACAAC
1 AACAATAACAACAAC
* * *
111007 AACAACTACTACACCTAT
1 AACAA-TA--ACAACAAC
* *
111025 AACAACAACATA-AAA
1 AACAATAACA-ACAAC
* * *
111040 AACAGTAGCAGCAAC
1 AACAATAACAACAAC
*
111055 AAAAATCATAGCAACAAC
1 AACAAT-A-A-CAACAAC
* * **
111073 AACAATAATAGCAGT
1 AACAATAACAACAAC
*
111088 AACAATAACAACTAC
1 AACAATAACAACAAC
*
111103 AAC-AT--CAACAAT
1 AACAATAACAACAAC
* * *
111115 AATAA-AGCAGCATA-
1 AACAATAACAACA-AC
* *** **
111129 AAAAATAGTTACAGT
1 AACAATAACAACAAC
111144 AACAATAAC-A-AA-
1 AACAATAACAACAAC
* *
111156 AA-AATAACTATAAC
1 AACAATAACAACAAC
* * * *
111170 TACAATAATAGTGATAAT
1 AACAATAACA---ACAAC
* * *
111188 AGCAACAGA-AATAAC
1 AACAATA-ACAACAAC
*
111203 AACAATAGCAACAAC
1 AACAATAACAACAAC
*
111218 -AC-A-AACAAGAAC
1 AACAATAACAACAAC
*
111230 AACAA-AAAAAC-AC
1 AACAATAACAACAAC
111243 -ACAATAACAACAAC
1 AACAATAACAACAAC
* * *
111257 AAAAACAACAACAATAGT
1 AACAATAACAAC-A-A-C
*
111275 AACAATAACAACAATTAT
1 AACAATAACAAC-A--AC
*
111293 AAAAATAACAACAAC
1 AACAATAACAACAAC
*
111308 AACAATAACAATAAC
1 AACAATAACAACAAC
111323 AAC---AACAACAAC
1 AACAATAACAACAAC
* * * *
111335 TATAAAAATAACAAC
1 AACAATAACAACAAC
*
111350 AATAATAACAACAAC
1 AACAATAACAACAAC
111365 AACAATAACAACAAC
1 AACAATAACAACAAC
*
111380 AACAATAACAAAAAC
1 AACAATAACAACAAC
* *
111395 -ACAA-ACACGAGCAAT
1 AACAATA-AC-AACAAC
* *
111410 AATAGTAACAACAAC
1 AACAATAACAACAAC
* *
111425 AACAATAGCAGCAAC
1 AACAATAACAACAAC
*
111440 AAC---AACAA-AAT
1 AACAATAACAACAAC
*
111451 AACAA-AACCAA-AAA
1 AACAATAA-CAACAAC
* *
111465 AATAATATCAACAAC
1 AACAATAACAACAAC
* *
111480 AACAGTAACAACAAG
1 AACAATAACAACAAC
* * *
111495 AATAATAACAAGAGC
1 AACAATAACAACAAC
* * **
111510 AACAACAATAACATG
1 AACAATAACAACAAC
* *
111525 AGCAATAACAACAAG
1 AACAATAACAACAAC
111540 AACATCATCAACAACAAC
1 AACA--AT-AACAACAAC
* *
111558 AATAATAGTATCAACAAG
1 AACAATA--A-CAACAAC
* *
111576 AA-ATTGTAA-ATGCAAC
1 AACA--ATAACA-ACAAC
* * *
111592 AGTAGTAGTAACAACATC
1 A--A-CAATAACAACAAC
* **
111610 AACAAGAA-ATTACAGT
1 AACAATAACA--ACAAC
** * **
111626 TGCAACAACAGTAAC
1 AACAATAACAACAAC
*
111641 AACAA-AAGCATCAAC
1 AACAATAA-CAACAAC
* *
111656 AACAATAGCAGCAAC
1 AACAATAACAACAAC
* * * *
111671 AAAAACAACTACAAT
1 AACAATAACAACAAC
*
111686 AACAATCACAACAAC
1 AACAATAACAACAAC
111701 AACACCACTAACAACAAC
1 AACA--A-TAACAACAAC
* * * *
111719 TACAA-AAAAATAAT
1 AACAATAACAACAAC
111733 AACAGCATCAACAACAA-
1 AACA--AT-AACAACAAC
* *
111750 AA-AATAACAATAGC
1 AACAATAACAACAAC
*
111764 AACAACAACAACAAC
1 AACAATAACAACAAC
* *
111779 AACAAAAACAATAAC
1 AACAATAACAACAAC
* *
111794 AATAATAATAACAAC
1 AACAATAACAACAAC
* * *
111809 AACAACAACTACTAC
1 AACAATAACAACAAC
* *
111824 TACAAAAACAACAAC
1 AACAATAACAACAAC
* * ** *
111839 AAAAAAATAATAGTAAT
1 --AACAATAACAACAAC
*
111856 AACAATAACAACAAT
1 AACAATAACAACAAC
* *
111871 AGCAATAACAATAGA-
1 AACAATAACAACA-AC
* *
111886 AACACTAACAA-AAA
1 AACAATAACAACAAC
* * * *
111900 AATAAAAATAGCAAC
1 AACAATAACAACAAC
* * **
111915 AAC-ATCATCATCATT
1 AACAAT-AACAACAAC
* * *
111930 AACAATAGCATCATC
1 AACAATAACAACAAC
* * *
111945 AACAACAATAATAAC
1 AACAATAACAACAAC
*
111960 AACAATAACAGAGTAAC
1 AACAATAACA-A-CAAC
* * * *
111977 AATAAAAACATCATC
1 AACAATAACAACAAC
111992 AACAATAACAACAAC
1 AACAATAACAACAAC
* *
112007 AGC--T-ACAACAAT
1 AACAATAACAACAAC
* *
112019 TACAAAAACAACAATC
1 AACAATAACAACAA-C
* * **
112035 -ACATTAACAATAGG
1 AACAATAACAACAAC
* *
112049 AATAACAACAACATA-
1 AACAATAACAACA-AC
* *
112064 AACAAGAACAACAAT
1 AACAATAACAACAAC
** *
112079 AGTAACAACAACAAC
1 AACAATAACAACAAC
* * *
112094 AACAATAGCAAAAAT
1 AACAATAACAACAAC
112109 AACAATAACAACAAC
1 AACAATAACAACAAC
*
112124 AAC---AACAATAAC
1 AACAATAACAACAAC
* *
112136 AACAA-AAGAAGCGAC
1 AACAATAACAA-CAAC
**
112151 AACAATAGCACTAGTAAC
1 AACAATA--AC-AACAAC
*
112169 AACAATAACAACACC
1 AACAATAACAACAAC
****
112184 AACAA-AA-AATTGT
1 AACAATAACAACAAC
* * **
112197 AGCCATAACAACAGT
1 AACAATAACAACAAC
112212 AACAATAACAACAAC
1 AACAATAACAACAAC
* **
112227 AACAACAACATTAAC
1 AACAATAACAACAAC
** *
112242 AACAATAACAGTAGC
1 AACAATAACAACAAC
* *
112257 AACAACAACAACTAC
1 AACAATAACAACAAC
* * *
112272 AATGAA-AACAATAGC
1 AA-CAATAACAACAAC
*
112287 AATAATAACTACTACAAC
1 AACAATAAC-A--ACAAC
* * *
112305 TACAACTACTATAATAAC
1 AACAA-TA--ACAACAAC
*
112323 AACAATAGCAACAAC
1 AACAATAACAACAAC
*
112338 -AC-A-AACAATAAC
1 AACAATAACAACAAC
* * *
112350 AAAAATAACAATAAT
1 AACAATAACAACAAC
* * * * *
112365 AGCAGTAATATCAGC
1 AACAATAACAACAAC
* *
112380 AACAACATCAACAAC
1 AACAATAACAACAAC
*
112395 AACAATAGTAGCGGTAATAAC
1 AACAATA--A-C---AACAAC
** * *
112416 ATTAACAACAATAAC
1 AACAATAACAACAAC
*
112431 AACAATATA-AACAAAA
1 AACAATA-ACAAC-AAC
112447 ATATCAATAACAACAAC
1 A-A-CAATAACAACAAC
* *
112464 AATAATAGTAACAACAAT
1 AA-CA-A-TAACAACAAC
*
112482 AACAATAACAATAAC
1 AACAATAACAACAAC
* *
112497 AATAATAGCAACAAC
1 AACAATAACAACAAC
*
112512 AAC-ATCATCAACAAC
1 AACAAT-AACAACAAC
* **
112527 AGCAATAACAGTAAC
1 AACAATAACAACAAC
*
112542 AACATTAACAACAAC
1 AACAATAACAACAAC
112557 AACAATAACAGAC-AC
1 AACAATAACA-ACAAC
* *
112572 AACAATATCAACAAT
1 AACAATAACAACAAC
* * *
112587 AATAACAATAACAAC
1 AACAATAACAACAAC
*
112602 AACAATAACAATAAC
1 AACAATAACAACAAC
**
112617 AATAGCAATAGTAACAAC
1 -A-A-CAATAACAACAAC
* * *
112635 ATCAACAA-AATAA-
1 AACAATAACAACAAC
**
112648 AAGCAATAGAAGCAACATT
1 AA-CAAT--AA-CAACAAC
* * *
112667 AACTATAATAACAAT
1 AACAATAACAACAAC
*
112682 AACAGA-CACAACAAC
1 AACA-ATAACAACAAC
* * *
112697 ACCAACAACAACAGC
1 AACAATAACAACAAC
* **
112712 AGCAGCAACAACAAC
1 AACAATAACAACAAC
* *
112727 AACAAAAACAATAAC
1 AACAATAACAACAAC
* * *
112742 AAAAATAGCAA-TA-
1 AACAATAACAACAAC
* *
112755 GA-AATAGCAACAAC
1 AACAATAACAACAAC
* *
112769 TTGAACAATAGTAGTAGCAAC
1 ---AACAATA--A-CAACAAC
** * *
112790 ATTAATGACTACAAC
1 AACAATAACAACAAC
* * * *
112805 AACAACAATAATAAT
1 AACAATAACAACAAC
*
112820 AACAATAA-AATCTAC
1 AACAATAACAA-CAAC
* *
112835 AACAAAAACAATAAC
1 AACAATAACAACAAC
* *
112850 ATCAATAGCAACAAC
1 AACAATAACAACAAC
* * * *
112865 AGA-AGTATCGACAAT
1 A-ACAATAACAACAAC
* * ** * *
112880 AATAGTAGTAATAAT
1 AACAATAACAACAAC
* *
112895 AACAATAGCTACAAC
1 AACAATAACAACAAC
* *
112910 AACAATAATAACAAT
1 AACAATAACAACAAC
* *
112925 AACAACAACATCAAC
1 AACAATAACAACAAC
112940 AAC-AT--CAACAAC
1 AACAATAACAACAAC
**
112952 AACAA-AAGCAGTAAC
1 AACAATAA-CAACAAC
* *
112967 AATAATAACATCAATAAC
1 AACAAT-A-A-CAACAAC
*
112985 AACAATAACAATAAC
1 AACAATAACAACAAC
* *
113000 ATC-GTCAACAACAA-
1 AACAAT-AACAACAAC
* * **
113014 ATTGTAGCCATAATAACAGT
1 A----A-CAATAACAACAAC
*
113034 AACAATAACAAGAAC
1 AACAATAACAACAAC
*
113049 AAGAATAACAACAAC
1 AACAATAACAACAAC
* *
113064 ATTAACAATAATAACAGC
1 ---AACAATAACAACAAC
** * *
113082 GGCAACAA-AAAAAC
1 AACAATAACAACAAC
* * *
113096 TACAATAAAAATAA-
1 AACAATAACAACAAC
* ** *
113110 TATTACAACAACAAC
1 AACAATAACAACAAC
* * * *
113125 AACTACAACTATAAC
1 AACAATAACAACAAC
* *
113140 TACAACAACAACAAC
1 AACAATAACAACAAC
* *
113155 AACTATAACTACAAC
1 AACAATAACAACAAC
*
113170 AACAACAACAACAACC
1 AACAATAACAACAA-C
113186 ATAGCAATAAC-ACAAAC
1 A-A-CAATAACAAC-AAC
*
113203 AACAACAACAA-AATC
1 AACAATAACAACAA-C
* *
113218 AACAATAATAGTAGCAAT
1 AACAATAACA--A-CAAC
*
113236 ATCAATAACAACATA-
1 AACAATAACAACA-AC
*
113251 AAC---AACAACATC
1 AACAATAACAACAAC
* * **
113263 AACAATAACTATAGT
1 AACAATAACAACAAC
* * * *
113278 AGCAGTAAAAACATC
1 AACAATAACAACAAC
* *
113293 AATAATAACAACAAT
1 AACAATAACAACAAC
* * *
113308 ATCAATAACAATAGC
1 AACAATAACAACAAC
** * *
113323 AACAATAGTAGCAGC
1 AACAATAACAACAAC
* * * *
113338 AAC-GTCACCATCACC
1 AACAAT-AACAACAAC
* * * *
113353 ACCAACAACAATAAT
1 AACAATAACAACAAC
* *
113368 AGCAATAGCAACAAC
1 AACAATAACAACAAC
*
113383 AACATTAACAACAAC
1 AACAATAACAACAAC
* *
113398 AACAATAATAGATACAAT
1 AACAAT-A-ACA-ACAAC
* *
113416 AAC-ATCAATAAAAAC
1 AACAAT-AACAACAAC
*
113431 AACAATAACAATAAC
1 AACAATAACAACAAC
*
113446 AACAACAACAACAAC
1 AACAATAACAACAAC
* *
113461 AACAATAATAATAAC
1 AACAATAACAACAAC
113476 AACAATAACAA
1 AACAATAACAA
113487 TAGCAATAAA
Statistics
Matches: 2353, Mismatches: 805, Indels: 510
0.64 0.22 0.14
Matches are distributed among these distances:
11 11 0.00
12 122 0.05
13 52 0.02
14 167 0.07
15 1507 0.64
16 121 0.05
17 63 0.03
18 253 0.11
19 22 0.01
20 5 0.00
21 30 0.01
ACGTcount: A:0.60, C:0.22, G:0.06, T:0.13
Consensus pattern (15 bp):
AACAATAACAACAAC
Found at i:110426 original size:3 final size:3
Alignment explanation
Indices: 110411--110970 Score: 102
Period size: 3 Copynumber: 188.0 Consensus size: 3
110401 CATGAGGGGT
* * * *
110411 AAC AAC GAC AAC AAC AAC AAC AAT AGA- AAT AAC AAC AAT AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC A-AC AAC AAC AAC AAC AAC AAC
* * * ** * *
110456 AAT AAC AA- AAGC ATC AAC AAC AAT AGT ATC ATC AAC AAC AAC AAC
1 AAC AAC AAC AA-C AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * * * **
110501 AAC AAC AAC AA- AA- AAC AA- AA- AAA ATAT AACC ATC ACC AGC AGT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC A-AC AA-C AAC AAC AAC AAC
* * * * * *
110544 AAC AAC AAC AA- ACCC AAC AAT AAC AAA AAT AAC AAC AAA AAC AAA
1 AAC AAC AAC AAC A-AC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * * ** **
110589 AAC AAC AAC AAC AAG AGC AAC AAC GAT AAC AGT AGT AA- AGAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A-AC AAC
* * ** * * *
110634 AGC AAC AAC AAT AGT AGC AGC AA- AATC AA- AAGC AAC AAC AAT AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AA-C AAC AA-C AAC AAC AAC AAC
* * * * * ** * * *
110679 AAC AAC AAT AAT AAA AAC AAA AAT TGC AAC AAC TGA- AAC AAG AGC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC -AAC AAC AAC AAC
* * * ** * * * ** *
110724 AAT AAC AAA AAC AAT AGT AAC AAC AAC ATC AAT AAC AAT AGT AAC AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * ** * *
110772 AAC AAC AAC AA- AAT AAC AAC ATC AAT AGT AAC AAC AAC ATC AAC AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * * * * * * *
110819 AAT AGC AAT AAC AAC AAC AA- AAT AAC AAC ATC AAT AGC AAT AGC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * * ** * * * * * *
110866 AAC ATC AAC AAT AAT AGC AAC TGC AAT AAC AAT AGC TAC AAC AAA AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * * * *
110914 AAC AAC AAT AGC AAC AAT AAC AAC AAC AAT AGC AAC ATC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
110962 AAC AAC AAC
1 AAC AAC AAC
110971 CTCAATAACA
Statistics
Matches: 391, Mismatches: 146, Indels: 40
0.68 0.25 0.07
Matches are distributed among these distances:
2 22 0.06
3 357 0.91
4 12 0.03
ACGTcount: A:0.61, C:0.23, G:0.06, T:0.11
Consensus pattern (3 bp):
AAC
Done.