Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold240
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: 472780
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
File 2 of 4
Found at i:76168 original size:32 final size:32
Alignment explanation
Indices: 76113--76213 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
76103 TTCAACGATT
76113 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
76146 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
76178 TGTATCGATACATAATTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
76210 TGTA
1 TGTA
76214 AGCTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:76170 original size:19 final size:17
Alignment explanation
Indices: 76110--76208 Score: 79
Period size: 19 Copynumber: 5.9 Consensus size: 17
76100 AATTTCAACG
76110 ATTTGTATCGATACATAA
1 ATTTGTATCGATACAT-A
76128 AGTGTTGTATCGATAC--A
1 A-T-TTGTATCGATACATA
76145 A--TGTATCGATACATA
1 ATTTGTATCGATACATA
76160 AGTGTTGTATCGATAC--A
1 A-T-TTGTATCGATACATA
76177 A--TGTATCGATACATA
1 ATTTGTATCGATACATA
76192 ATTTTTGTATCGATACA
1 A--TTTGTATCGATACA
76209 ATGTAAGCTA
Statistics
Matches: 67, Mismatches: 0, Indels: 27
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
18 1 0.01
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (17 bp):
ATTTGTATCGATACATA
Found at i:76269 original size:13 final size:13
Alignment explanation
Indices: 76251--76308 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
76241 ATTACTCAAA
76251 TGTATCGATACAT
1 TGTATCGATACAT
*
76264 TGTATCGATACAC
1 TGTATCGATACAT
76277 TG-ATC--T---T
1 TGTATCGATACAT
76284 TGTATCGATACAT
1 TGTATCGATACAT
76297 TGTATCGATACA
1 TGTATCGATACA
76309 CTGATCTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
10 2 0.05
12 3 0.08
13 27 0.73
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:76288 original size:20 final size:20
Alignment explanation
Indices: 76263--76328 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
76253 TATCGATACA
76263 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
76283 TTGTATCGAT--AC--A---
1 TTGTATCGATACACTGATCT
76296 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
76316 TTGTATCGATACA
1 TTGTATCGATACA
76329 TGTAGGCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 23 0.59
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACACTGATCT
Found at i:76293 original size:33 final size:33
Alignment explanation
Indices: 76251--76329 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
76241 ATTACTCAAA
76251 TGTATCGATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
76284 TGTATCGATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
76317 TGTATCGATACAT
1 TGTATCGATACAT
76330 GTAGGCAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACACTGATCTT
Found at i:76361 original size:52 final size:52
Alignment explanation
Indices: 76317--76445 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
76307 CACTGATCTT
*
76317 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
76369 TGTATCGATACATGCAGGCAGATTTGCCCAGATGCATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
76421 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
76446 TCATATTTTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:85177 original size:20 final size:20
Alignment explanation
Indices: 85152--85202 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
85142 GTTAGAAGCA
*
85152 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
85172 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
85192 ATGTATCGATA
1 ATGTATCGATA
85203 TAAACAGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:85278 original size:19 final size:20
Alignment explanation
Indices: 85234--85282 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
85224 TTGCCAGTTT
***
85234 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTAAA
85254 CATGTATCGATACAA-TAAA
1 CATGTATCGATACAATTAAA
85273 CATGTATCGA
1 CATGTATCGA
85283 AGCATAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTAAA
Found at i:87157 original size:27 final size:27
Alignment explanation
Indices: 87119--87172 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
87109 AGAAAAGAAT
87119 GATAAAAAAGCTTTCATGTTCTTTTGG
1 GATAAAAAAGCTTTCATGTTCTTTTGG
87146 GATAAAAAAGCTTTCATGTTCTTTTGG
1 GATAAAAAAGCTTTCATGTTCTTTTGG
87173 TCCTCTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (27 bp):
GATAAAAAAGCTTTCATGTTCTTTTGG
Found at i:88498 original size:307 final size:307
Alignment explanation
Indices: 87944--88560 Score: 1081
Period size: 307 Copynumber: 2.0 Consensus size: 307
87934 TGAAAAGTTC
*
87944 GATCATGAAGTCTTAGGAATGAAAAATTAAATCGACAAACTGGTAAGAATGGTTGAGGATTTGCA
1 GATCATGAAGTCTTAGGAATGAAAAATCAAATCGACAAACTGGTAAGAATGGTTGAGGATTTGCA
*
88009 TGGGACAAGAAAAGAACTTTTCTTAAAAACATCATCATCCTTAATGAATCTAAAGAATCAAAATC
66 TGGGACAAGAAAAGAACTTTTCTTAAAAACATCATCATCCTCAATGAATCTAAAGAATCAAAATC
* * * *
88074 TAGGAGATCGATTGGAAGCACAAATAAGTACCTTGGAAGGAAATCGGAGGAATGGAACACAAGAT
131 TAAGAGATCAATTCGAAGCACAAATAAGTACCTTGGAAGGAAATCAGAGGAATGGAACACAAGAT
*
88139 CTAAAAGATAAAGGAACGATTGCTCAAGTTGACAAAACTCATTAAAGATTTTTTAGGTGATCCCT
196 CTAAAAGATAAAGGAACAATTGCTCAAGTTGACAAAACTCATTAAAGATTTTTTAGGTGATCCCT
88204 AAAGTTACCTTTGCTTTTACTCAACCTTTGGCACTTGAAAACTCAGA
261 AAAGTTACCTTTGCTTTTACTCAACCTTTGGCACTTGAAAACTCAGA
* * *
88251 GATCATGAAGTCTTAGGAATGAAAAATCAAATCGATAGATTGGTAAGAATGGTTGAGGATTTGCA
1 GATCATGAAGTCTTAGGAATGAAAAATCAAATCGACAAACTGGTAAGAATGGTTGAGGATTTGCA
*
88316 TGGGACAAGAAAAGAACTTTTCTTAAAAACATCATCATCCTCAATGAATCTAGAGAATCAAAATC
66 TGGGACAAGAAAAGAACTTTTCTTAAAAACATCATCATCCTCAATGAATCTAAAGAATCAAAATC
*
88381 TAAGAGATCAATTCGAAGCACAAATAAGTACCTTGGAAGGAAATCAGAGGAATGGAACATAAGAT
131 TAAGAGATCAATTCGAAGCACAAATAAGTACCTTGGAAGGAAATCAGAGGAATGGAACACAAGAT
* * *
88446 CTGAAAGATAAAGGGACAATTGCTCAAGTTGACAAAACTTATTAAAGATTTTTTAGGTGATCCCT
196 CTAAAAGATAAAGGAACAATTGCTCAAGTTGACAAAACTCATTAAAGATTTTTTAGGTGATCCCT
* *
88511 AAAGTTACCTTTGCTTTTACTCAACCTTTGGCACTTGAAGACTTAGA
261 AAAGTTACCTTTGCTTTTACTCAACCTTTGGCACTTGAAAACTCAGA
88558 GAT
1 GAT
88561 TGAATTGAGC
Statistics
Matches: 293, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
307 293 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (307 bp):
GATCATGAAGTCTTAGGAATGAAAAATCAAATCGACAAACTGGTAAGAATGGTTGAGGATTTGCA
TGGGACAAGAAAAGAACTTTTCTTAAAAACATCATCATCCTCAATGAATCTAAAGAATCAAAATC
TAAGAGATCAATTCGAAGCACAAATAAGTACCTTGGAAGGAAATCAGAGGAATGGAACACAAGAT
CTAAAAGATAAAGGAACAATTGCTCAAGTTGACAAAACTCATTAAAGATTTTTTAGGTGATCCCT
AAAGTTACCTTTGCTTTTACTCAACCTTTGGCACTTGAAAACTCAGA
Found at i:92232 original size:51 final size:51
Alignment explanation
Indices: 92126--92235 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 51
92116 TATGGAAGGA
* * *
92126 AAATGTATCGATACATTTCTATTGTATCAACACATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTTCTATTATATCAACACATTCTAGGTTTTTCACCC
* * *
92177 AAATGTATCGATACATTAT-TCATTATATCGATACATTCTAGG-TTTTCACCT
1 AAATGTATCGATACATT-TCT-ATTATATCAACACATTCTAGGTTTTTCACCC
92228 AAATGTAT
1 AAATGTAT
92236 TGTCGCAACG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
51 33 0.65
52 18 0.35
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (51 bp):
AAATGTATCGATACATTTCTATTATATCAACACATTCTAGGTTTTTCACCC
Found at i:92655 original size:15 final size:15
Alignment explanation
Indices: 92627--92659 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
92617 ACTCGATATT
92627 GATTACATTGATTTC
1 GATTACATTGATTTC
92642 GATTATCATT-ATTTC
1 GATTA-CATTGATTTC
92657 GAT
1 GAT
92660 ATGATCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (15 bp):
GATTACATTGATTTC
Found at i:96447 original size:49 final size:49
Alignment explanation
Indices: 96233--96981 Score: 548
Period size: 49 Copynumber: 15.8 Consensus size: 49
96223 GAAGAATGAT
* * * * *
96233 AATGTGTTGATTCATGGCCAGCGACATTAGACTT---GAAGAAGGATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG-TGCC
** * * * *
96280 AATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA--AA-GATGAAGGTGCC
* * * * *
96332 AATTTGCTGATTCAAGGCCAACGATATTGGTTTTAAAGAAGACGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--A-AAGATGAAGGTGCC
* * * *
96384 AATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* *
96433 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTACCACC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT---GAAGGT---GCC
* * * * *
96488 AATATGCAGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * *
96537 AATGTGCTGATTCAAGGCCAACGATATTGGGC-T-----T--A--TGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* *
96576 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * *
96624 AATATGCTGATTCCAGGCCAGCGATATTAGG-C-T-----T--A--TGCC
1 AATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATGAAGGTGCC
* * *
96663 AATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * * *
96711 AATATGCTGATTCAAGGCCAACGATATTAGG-C-T-----T--A--TGCT
1 AATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATGAAGGTGCC
* * * *
96750 AAAGTGCTGATTCAAGGCCAGCGACATTGGTCTGAGAGA-CAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * *
96798 AATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * * *
96847 AATGTGTTGATTCAAGGCCAGCAACATTGGTCTTCAAGATGAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
** * *
96896 AATGTGCTGATTCAAGGCCAATGACATTGGTCTTAAAAATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * * *
96945 AGTATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
96982 AGAAGACGCC
Statistics
Matches: 564, Mismatches: 87, Indels: 100
0.75 0.12 0.13
Matches are distributed among these distances:
38 4 0.01
39 90 0.16
40 2 0.00
41 3 0.01
43 1 0.00
46 3 0.01
47 30 0.05
48 97 0.17
49 207 0.37
50 1 0.00
52 79 0.14
53 7 0.01
54 1 0.00
55 39 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
Found at i:96505 original size:55 final size:52
Alignment explanation
Indices: 96270--96571 Score: 303
Period size: 52 Copynumber: 5.8 Consensus size: 52
96260 TAGACTTGAA
* ** * * * **
96270 GAAGGATGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTT-AGGAATGTT
1 GAAGG-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG-ATGAC
* * * * ** *
96323 AAAGATGCCAATTTGCTGATTCAAGGCCAACGATATTGGTTTTAAAGAAGAC
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC
*
96375 GAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC
* *
96424 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC
* *
96476 GAAGGTACCACCAATATGCAGATTCAAGGCCAGCGATATTGGACTTAAAGAT-A-
1 GAAGGT---GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC
* * *
96529 -AAGGTGCCAATGTGCTGATTCAAGGCCAACGATATTGGGCTTA
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
96572 TGCCAATGTG
Statistics
Matches: 209, Mismatches: 33, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
49 79 0.38
52 85 0.41
53 5 0.02
54 1 0.00
55 39 0.19
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (52 bp):
GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC
Found at i:96533 original size:104 final size:101
Alignment explanation
Indices: 96292--96981 Score: 382
Period size: 87 Copynumber: 7.2 Consensus size: 101
96282 TGTGCTGAGA
* * * * *
96292 CAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATTTGCTGATTCAAGGCCAACGAT
1 CAAGGCCAGCGATATTGGACTTA--AA-GATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGAT
** * **
96357 ATTGGTTTTAAAGAAGACGAAGGTGCCAATATGTTGATT
63 ATTGGACTTAAAGAAGACGAAGGTACCAATATGCAGATT
* * *
96396 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT
1 CAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGATATT
*
96461 GGACTTAAAGATGACGAAGGTACCACCAATATGCAGATT
66 GGACTTAAAGAAGACGAAGGT---ACCAATATGCAGATT
96500 CAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGATATT
1 CAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGATATT
* * * *
96565 GGGCTT-----------A--TGCCAATGTGCTGATT
66 GGACTTAAAGAAGACGAAGGTACCAATATGCAGATT
* * * * * * *
96588 CAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGATTCCAGGCCAGCGATATT
1 CAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGATATT
* * *
96652 AGG-CTT-----------A--TGCCAATGTGCTGATT
66 -GGACTTAAAGAAGACGAAGGTACCAATATGCAGATT
* * * * * *
96675 TAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAACGATATT
1 CAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGATATT
* * *
96739 AGG-CTT----ATG-C-----TA--AA-GTGCTGATT
66 -GGACTTAAAGAAGACGAAGGTACCAATATGCAGATT
* * * * * * *
96762 CAAGGCCAGCGACATTGGTCTGAGAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
1 CAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGATATT
* * * * * **
96826 GGTCTT--A-AAGATGAAGATGCCAATGTGTTGATT
66 GGACTTAAAGAAGACGAAGGTACCAATATGCAGATT
* * * * * * * *
96859 CAAGGCCAGCAACATTGGTCTTCAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAATGACATT
1 CAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGATATT
* * * * *
96924 GGTCTTAAA-AATA--AAGGTGCCAGTATGCTGATT
66 GGACTTAAAGAAGACGAAGGTACCAATATGCAGATT
96957 CAAGGCCAGCGATATTGGACTTAAA
1 CAAGGCCAGCGATATTGGACTTAAA
96982 AGAAGACGCC
Statistics
Matches: 506, Mismatches: 58, Indels: 50
0.82 0.09 0.08
Matches are distributed among these distances:
86 2 0.00
87 193 0.38
88 42 0.08
90 1 0.00
91 1 0.00
93 1 0.00
94 1 0.00
96 2 0.00
97 31 0.06
98 74 0.15
100 4 0.01
101 52 0.10
102 2 0.00
104 100 0.20
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (101 bp):
CAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGATATT
GGACTTAAAGAAGACGAAGGTACCAATATGCAGATT
Found at i:96587 original size:39 final size:39
Alignment explanation
Indices: 96533--96779 Score: 197
Period size: 39 Copynumber: 5.9 Consensus size: 39
96523 AAGATAAAGG
* *
96533 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGGCTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
*
96572 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT-------A
* * * *
96618 GGTGCCAATATGCTGATTCCAGGCCAGCGATATTAGGCTTA
1 --TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
* *
96659 TGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAGAGACAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT-------A
* * * *
96705 GGTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTTA
1 --TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
* *
96746 TGCTAAAGTGCTGATTCAAGGCCAGCGACATTGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
96780 TCTGAGAGAC
Statistics
Matches: 164, Mismatches: 26, Indels: 36
0.73 0.12 0.16
Matches are distributed among these distances:
39 95 0.58
41 2 0.01
46 2 0.01
48 65 0.40
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
Found at i:96643 original size:87 final size:87
Alignment explanation
Indices: 96486--96930 Score: 541
Period size: 87 Copynumber: 5.0 Consensus size: 87
96476 GAAGGTACCA
* * * * * * *
96486 CCAATATGCAGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGATTCA
96551 AGGCCAACGATATTGGGCTTATG
65 AGGCCAACGATATTGGGCTTATG
*
96574 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAA
* *
96639 GGCCAGCGATATTAGGCTTATG
66 GGCCAACGATATTGGGCTTATG
*
96661 CCAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAA
*
96726 GGCCAACGATATTAGGCTTATG
66 GGCCAACGATATTGGGCTTATG
* * *
96748 CTAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTGAGAGACAAGGTGCCAATATGCTGATTCAA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAA
* *
96813 GGCCAGCGATATTGGTCTTAAAGATGAAGATG
66 GGCCAACGATATTGGGC-T-----T----ATG
* * * * *
96845 CCAATGTGTTGATTCAAGGCCAGCAACATTGGTCTTCA-AGATGAAGATGCCAATGTGCTGATTC
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AGAGA-CAAGGTGCCAATATGCTGATTC
* * *
96909 AAGGCCAATGACATTGGTCTTA
64 AAGGCCAACGATATTGGGCTTA
96931 AAAATAAAGG
Statistics
Matches: 314, Mismatches: 31, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
87 200 0.64
88 38 0.12
92 1 0.00
93 1 0.00
97 38 0.12
98 36 0.11
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAA
GGCCAACGATATTGGGCTTATG
Found at i:97123 original size:33 final size:33
Alignment explanation
Indices: 97042--97359 Score: 238
Period size: 34 Copynumber: 9.6 Consensus size: 33
97032 TGTGCTTTTG
* * * * *
97042 AAGGTTGCCACTGACTTGTGGGCTT-AAAGGAGA
1 AAGG-TGCCACGGAGTTGTGGACTTAAAAAGAAA
* * *
97075 AAGATGCCACAGAGTTGTGGACTTAAAAAGAAC
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * * *
97108 AAGGTGCCATGGAGTTGTGGGCTTTAAAAGGGGAA
1 AAGGTGCCACGGAGTTGTGGAC-TTAAAA-AGAAA
* * * *
97143 AGGGTGCCACAGAGTCGTGGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
*
97176 AAGATGCCACGGAGTTGTGGACTT-AAAAG---
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* *
97205 --GGTGTCACGGAGTTGTGGACTTAAAAGGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAA-AGAAA
* * *
97237 AAGATGCCACGAAGTTGTGGACTT-AAAAGGAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * * * *
97269 AAGGTCCCACTGAGTGGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
* *
97303 AAGGTGCCACGGAGTTATGGGCTTTGAAGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGAC-TT--A-AAAAGAAA
97340 AAGGTGCCACGGAGTTGTGG
1 AAGGTGCCACGGAGTTGTGG
97360 GCTTTGGAGA
Statistics
Matches: 224, Mismatches: 46, Indels: 26
0.76 0.16 0.09
Matches are distributed among these distances:
27 20 0.09
28 3 0.01
29 1 0.00
32 40 0.18
33 55 0.25
34 59 0.26
35 19 0.08
37 27 0.12
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (33 bp):
AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
Found at i:97254 original size:61 final size:60
Alignment explanation
Indices: 97141--97266 Score: 207
Period size: 61 Copynumber: 2.1 Consensus size: 60
97131 TTAAAAGGGG
*
97141 AAAGGGTGCCACAGAGTCGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACAGAGTCGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTGTGGACTTA
* * *
97201 AAAGGGTGTCACGGAGTTGTGGACTTAAAAGGGAAAAAGATGCCACGAAGTTGTGGACTTA
1 AAAGGGTGCCACAGAGTCGTGGACTTAAAA-GGAAAAAGATGCCACGAAGTTGTGGACTTA
97262 AAAGG
1 AAAGG
97267 AAAAGGTCCC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
60 27 0.44
61 34 0.56
ACGTcount: A:0.36, C:0.13, G:0.33, T:0.19
Consensus pattern (60 bp):
AAAGGGTGCCACAGAGTCGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTGTGGACTTA
Found at i:97379 original size:31 final size:31
Alignment explanation
Indices: 97338--97517 Score: 215
Period size: 31 Copynumber: 5.9 Consensus size: 31
97328 GAAGAAAAGA
* * * *
97338 AAAAGGTGCCACGGAGTTGTGGGCTTTGGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGAG
*
97369 AAAAGATGCCACTAAGTCGTGGACTTTGGA-
1 AAAAGATGCCACTGAGTCGTGGACTTTGGAG
* * *
97399 AAGAGATGCCACTGAGTAGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGAG
97430 AAAAGATGCCACTGAGTCGTGGACTTTGG-G
1 AAAAGATGCCACTGAGTCGTGGACTTTGGAG
*
97460 ACAAA-ATGCCACTGAGTCGTGGGCTTT-GAG
1 A-AAAGATGCCACTGAGTCGTGGACTTTGGAG
* *
97490 AAGAGATTACCACTGAGTCGTGGACTTT
1 AAAAGA-TGCCACTGAGTCGTGGACTTT
97518 AAGAATATAT
Statistics
Matches: 128, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
29 3 0.02
30 52 0.41
31 73 0.57
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGGAG
Found at i:97432 original size:61 final size:60
Alignment explanation
Indices: 97344--97517 Score: 226
Period size: 61 Copynumber: 2.9 Consensus size: 60
97334 AAGAAAAAGG
* * *
97344 TGCCACGGAGTTGTGGGCTTTGGAGAAAAGATGCCACTAAGTCGTGGACTTT-GGA-AAGAGA
1 TGCCACTGAGTAGTGGGCTTT-GAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAA-A-A
*
97405 TGCCACTGAGTAGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAA
1 TGCCACTGAGTAGTGGGCTTTG-AGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAA
* * *
97466 TGCCACTGAGTCGTGGGCTTTGAGAAGAGATTACCACTGAGTCGTGGACTTT
1 TGCCACTGAGTAGTGGGCTTTGAGAAAAGA-TGCCACTGAGTCGTGGACTTT
97518 AAGAATATAT
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
60 8 0.08
61 87 0.86
62 4 0.04
63 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.25
Consensus pattern (60 bp):
TGCCACTGAGTAGTGGGCTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAA
Found at i:103033 original size:15 final size:15
Alignment explanation
Indices: 103005--103037 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
102995 ACTCGATATT
103005 GATTACATTGATTTC
1 GATTACATTGATTTC
103020 GATTATCATT-ATTTC
1 GATTA-CATTGATTTC
103035 GAT
1 GAT
103038 ATGATCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (15 bp):
GATTACATTGATTTC
Found at i:105705 original size:13 final size:13
Alignment explanation
Indices: 105687--105714 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
105677 ATACAAAGAT
105687 CAATGTATCGATA
1 CAATGTATCGATA
105700 CAATGTATCGATA
1 CAATGTATCGATA
105713 CA
1 CA
105715 TTTCCTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:117406 original size:51 final size:52
Alignment explanation
Indices: 117351--117463 Score: 149
Period size: 51 Copynumber: 2.2 Consensus size: 52
117341 AAATGTATTA
* * * *
117351 ATACATTTTTCATTATATCTATACATTCTGGG-TTTTGA-CTCAATTGTATCG
1 ATACATTTTTCATTATATCAATACATTATGGGTTTTTGATC-CAAATGTACCG
* *
117402 ATACATTCTTCATTGTATCAATACATTATGGGTTTTTGATCCAAATGTACCG
1 ATACATTTTTCATTATATCAATACATTATGGGTTTTTGATCCAAATGTACCG
117454 ATACATTTTT
1 ATACATTTTT
117464 TAATGTATCG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 28 0.53
52 24 0.45
53 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (52 bp):
ATACATTTTTCATTATATCAATACATTATGGGTTTTTGATCCAAATGTACCG
Found at i:117471 original size:52 final size:51
Alignment explanation
Indices: 117351--117479 Score: 152
Period size: 52 Copynumber: 2.5 Consensus size: 51
117341 AAATGTATTA
* * * * *
117351 ATACATTTTTCATTATATCTATACATTCTGGGTTTTGACTCAATTGTATCG
1 ATACATTTTTCATTGTATCAATACATTATGGGTTTTGACTCAAATGTACCG
*
117402 ATACATTCTTCATTGTATCAATACATTATGGGTTTTTGA-TCCAAATGTACCG
1 ATACATTTTTCATTGTATCAATACATTATGGG-TTTTGACT-CAAATGTACCG
* * *
117454 ATACATTTTTTAATGTATCGATACAT
1 ATACATTTTTCATTGTATCAATACAT
117480 CCAGTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
51 29 0.44
52 37 0.56
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (51 bp):
ATACATTTTTCATTGTATCAATACATTATGGGTTTTGACTCAAATGTACCG
Found at i:124619 original size:18 final size:18
Alignment explanation
Indices: 124563--124619 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
124553 TAAAAAAACA
* * *
124563 AACAAAAAATAACAAAAT
1 AACAAAAAAGAAAAAAAG
124581 AACAAAAAAGAAAAAAGAAG
1 AACAAAAAAG-AAAAA-AAG
124601 AACAAAAAA-AAAAGAAAG
1 AACAAAAAAGAAAA-AAAG
124619 A
1 A
124620 GAATTAGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 17 0.52
19 5 0.15
20 11 0.33
ACGTcount: A:0.81, C:0.07, G:0.09, T:0.04
Consensus pattern (18 bp):
AACAAAAAAGAAAAAAAG
Found at i:124622 original size:20 final size:20
Alignment explanation
Indices: 124559--124619 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
124549 TGGCTAAAAA
*
124559 AACAAACAAAAAATAACAA-AAT
1 AACAAA-AAAAAA-AA-AAGAAG
*
124581 AACAAAAAAGAAAAAAGAAG
1 AACAAAAAAAAAAAAAGAAG
124601 AACAAAAAAAAAAGAAAGA
1 AACAAAAAAAAAA-AAAGA
124620 GAATTAGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 2 0.06
20 16 0.47
21 10 0.29
22 6 0.18
ACGTcount: A:0.80, C:0.08, G:0.08, T:0.03
Consensus pattern (20 bp):
AACAAAAAAAAAAAAAGAAG
Found at i:125821 original size:108 final size:108
Alignment explanation
Indices: 125632--125827 Score: 268
Period size: 108 Copynumber: 1.8 Consensus size: 108
125622 AGCGAGACAA
* ** * * *
125632 CTTTTTCTTTTCAAAGCCCACATAAGTTAGTGGCATCTTCTATTTTGTGAGTCCTTATAAAGCAA
1 CTTTTTCTTTTAAAAGCCCACATAAACTAGTGGCATCTTCTATCTTATGAGTCCTCATAAAGCAA
* *
125697 GATGCCTTTTTCTTTCTAAAGCCCAAAGAAGTTAGTGGAACAC
66 GATACCATTTTCTTTCTAAAGCCCAAAGAAGTTAGTGGAACAC
* * *
125740 CTTTTTCTTTTAAAAGCCCACATAAACTGGTGGCATCTTCTATCTTATTAGTTCTCA-AAGAGCA
1 CTTTTTCTTTTAAAAGCCCACATAAACTAGTGGCATCTTCTATCTTATGAGTCCTCATAA-AGCA
*
125804 GGATACCATTTTCTTTCTAAAGCC
65 AGATACCATTTTCTTTCTAAAGCC
125828 TACACATGTT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
107 2 0.03
108 73 0.97
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (108 bp):
CTTTTTCTTTTAAAAGCCCACATAAACTAGTGGCATCTTCTATCTTATGAGTCCTCATAAAGCAA
GATACCATTTTCTTTCTAAAGCCCAAAGAAGTTAGTGGAACAC
Found at i:125897 original size:72 final size:72
Alignment explanation
Indices: 125812--125950 Score: 215
Period size: 72 Copynumber: 1.9 Consensus size: 72
125802 CAGGATACCA
* * * * *
125812 TTTTCTTTCTAAAGCCTACACATGTTGGTGGCATACCTTTTTATCCTTTTAGTCCTTAAAGAGCA
1 TTTTCTTTCTAAAGCCCACACAAGTTGGTGACATACCTTTTTATCCTCTTAATCCTTAAAGAGCA
125877 GGGCGCC
66 GGGCGCC
* *
125884 TTTTCTTTTTAAAGCCCACACAAGTTGGTGACGTACCTTTTTATCCTCTTAATCCTTAAAGAGCA
1 TTTTCTTTCTAAAGCCCACACAAGTTGGTGACATACCTTTTTATCCTCTTAATCCTTAAAGAGCA
125949 GG
66 GG
125951 ATAACATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (72 bp):
TTTTCTTTCTAAAGCCCACACAAGTTGGTGACATACCTTTTTATCCTCTTAATCCTTAAAGAGCA
GGGCGCC
Found at i:126907 original size:20 final size:20
Alignment explanation
Indices: 126882--126922 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
126872 TATTCATTGT
*
126882 TGGAAACTAGTTTAGTTAGC
1 TGGAAACTAGTCTAGTTAGC
126902 TGGAAACTAGTCTAGTTAGC
1 TGGAAACTAGTCTAGTTAGC
126922 T
1 T
126923 TCCAATTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (20 bp):
TGGAAACTAGTCTAGTTAGC
Found at i:134400 original size:22 final size:22
Alignment explanation
Indices: 134351--134398 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
134341 AGACTAAAAT
**
134351 TTTTAAAATTCATCAAATATTA
1 TTTTAAAATTCATCAAATACCA
*
134373 TTTTAAAATTCATCTAATCACCA
1 TTTTAAAATTCATCAAAT-ACCA
134396 TTT
1 TTT
134399 AATTGGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTTAAAATTCATCAAATACCA
Found at i:134660 original size:165 final size:166
Alignment explanation
Indices: 134399--134777 Score: 419
Period size: 166 Copynumber: 2.3 Consensus size: 166
134389 ATCACCATTT
* * * * *
134399 AATTGGTTTTGAAAATTTCATTTATTTTTATGAGTTTTTCATTTTTTCCCTTGAAATTACTCAAT
1 AATTAGTTTTAAAAAATTCATTTA-TTTTATGAGTTTTTAATTTTTTCCCTTAAAATTACTCAAT
* * **
134464 TTCCAAAAAATCGAGTTTTCTAGTGCATAAATATTTTTTGGGGGATTTTTCT-TGATCCAAAATT
65 TTCCAAAAAATCGAATTTTCTAGTCCATAAATATTTTTAAGGGGATTTTTCTCTG-TCCAAAATT
*
134528 TTT--AATATTATCAAATATCATCATTTAAATCAT-AGTA
129 TTTAGAAT-TTATCAAATATCATCATTGAAATC-TCAGTA
* *
134565 AATTAGTTTTAAAAAATTCATTTATTTTCATGAGTTTTTTATTTTTT-CCTTAAAATT-CTCTTA
1 AATTAGTTTTAAAAAATTCATTTATTTT-ATGAGTTTTTAATTTTTTCCCTTAAAATTACTC-AA
* * * **
134628 TTTCCAAAAAATCGAATTTTTTATTCCATAAATGTTTTTAAGGGGATTTTTCTCTGTGTAAAATT
64 TTTCCAAAAAATCGAATTTTCTAGTCCATAAATATTTTTAAGGGGATTTTTCTCTGTCCAAAATT
* ** * *
134693 TTTAGAATTTATCTAATATTGTCATTGAATTCTCATTA
129 TTTAGAATTTATCAAATATCATCATTGAAATCTCAGTA
* * * *
134731 AATTTGTTTCAAAAAATTCAATTTATTTTTTGAGTTTTGAATTTTTT
1 AATTAGTTTTAAAAAATTC-ATTTATTTTATGAGTTTTTAATTTTTT
134778 TGTATTTATT
Statistics
Matches: 180, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
164 3 0.02
165 71 0.39
166 94 0.52
167 12 0.07
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (166 bp):
AATTAGTTTTAAAAAATTCATTTATTTTATGAGTTTTTAATTTTTTCCCTTAAAATTACTCAATT
TCCAAAAAATCGAATTTTCTAGTCCATAAATATTTTTAAGGGGATTTTTCTCTGTCCAAAATTTT
TAGAATTTATCAAATATCATCATTGAAATCTCAGTA
Found at i:135288 original size:11 final size:11
Alignment explanation
Indices: 135258--135300 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
135248 TTTTGCAAGT
135258 AGAAAGAAAAAA
1 AGAAA-AAAAAA
135270 GAGTAAAAAAAAA
1 -AG-AAAAAAAAA
*
135283 AGAAAAAGAAA
1 AGAAAAAAAAA
135294 AGAAAAA
1 AGAAAAA
135301 GTAGAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 15 0.54
12 2 0.07
13 8 0.29
14 3 0.11
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:136434 original size:175 final size:176
Alignment explanation
Indices: 136040--136492 Score: 610
Period size: 175 Copynumber: 2.6 Consensus size: 176
136030 ATTTTAATTG
* * * * *
136040 TTTTTATATATTTCTATTATTCTTATGGTTTTCTGTAAGGGTATAAAAATATTTAAAAC-ATTTC
1 TTTTCATAAATTTCTATTATTCTTATGGTTATCCGTAAAGGTATAAAAATATTTAAAACTA-TTC
* * * *
136104 GTATTTTTTCGGTTTTCCATTAAGGTACGAAAT-AAAATTTTCAAAAATAAAAAATAACATAAAT
65 GTATTTTTTCGATTTTCCATTAAGGTACAAAATGAAAATTTTCAAAAAT---AAATAAAAGAAAT
* *
136168 AAAATAATAAAAAATATTATTTTATCACTAAATTAAAATTATTATCTTAA
127 AAAATAATAAAAAATATTATTTTATCACTAAATGAAAATTATTATATTAA
* * * *
136218 TTTTCATATATTTCTAGTATTCTTATAGTTATCCGTAAAGGTATAAAAACATTTAAAACTATTCG
1 TTTTCATAAATTTCTATTATTCTTATGGTTATCCGTAAAGGTATAAAAATATTTAAAACTATTCG
136283 TATTTTTTCGATTTTCCATTAAGGTACAAAATGAAAATTTT-AAAAAT-AATAAAAGAAATAAAA
66 TATTTTTTCGATTTTCCATTAAGGTACAAAATGAAAATTTTCAAAAATAAATAAAAGAAATAAAA
136346 TAATAAATAAATATTATTTTATCACTAAATGAAAATTATTATATTAA
131 TAATAAA-AAATATTATTTTATCACTAAATGAAAATTATTATATTAA
* * * * * *
136393 TTTTTCA-AAATTTCTATTATTCTTATGGTTGTCCATAAAGGTATAGAAATATCTAAAACTGTTT
1 -TTTTCATAAATTTCTATTATTCTTATGGTTATCCGTAAAGGTATAAAAATATTTAAAACTATTC
* *
136457 GTATCTTTTCGATTTTCCATTAAGGTATAAAATGAA
65 GTATTTTTTCGATTTTCCATTAAGGTACAAAATGAA
136493 GTTTTTGAAA
Statistics
Matches: 246, Mismatches: 25, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
174 21 0.09
175 118 0.48
176 6 0.02
178 92 0.37
179 9 0.04
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (176 bp):
TTTTCATAAATTTCTATTATTCTTATGGTTATCCGTAAAGGTATAAAAATATTTAAAACTATTCG
TATTTTTTCGATTTTCCATTAAGGTACAAAATGAAAATTTTCAAAAATAAATAAAAGAAATAAAA
TAATAAAAAATATTATTTTATCACTAAATGAAAATTATTATATTAA
Found at i:138795 original size:51 final size:51
Alignment explanation
Indices: 138728--138845 Score: 200
Period size: 51 Copynumber: 2.3 Consensus size: 51
138718 GTGAAAATAA
*
138728 TGGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAGGC
1 TGGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAAGC
* *
138779 TGGGGTTGAAGTATCCTCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
1 TGGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAAGC
*
138830 CGGGGTTGGAGTATCC
1 TGGGGTTGGAGTATCC
138846 CCTTGAAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.31
Consensus pattern (51 bp):
TGGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAAGC
Found at i:138932 original size:28 final size:28
Alignment explanation
Indices: 138830--138934 Score: 158
Period size: 28 Copynumber: 3.8 Consensus size: 28
138820 GAAATAAAGC
*
138830 CGGGGTTGGAGTATCCCC-TTGAAAATAA
1 CGGGGTTGGAGTATCCCCGATG-AAATAA
* *
138858 CGAGGTTGGAGTATCCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
138886 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
138914 TGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
138935 TGTGAGAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
28 68 0.97
29 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:138939 original size:186 final size:185
Alignment explanation
Indices: 138705--139090 Score: 663
Period size: 186 Copynumber: 2.1 Consensus size: 185
138695 AAAATAGGGA
*
138705 TTGGAGTATCCCCG-TGAAAATAATGGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTA
1 TTGGAGTATCCCCGATGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
*
138769 GAAATAAGG-CTGGGGTTGAAGTATCCTCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGG
66 GAAATAAGGTC-GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGG
* *
138833 GGTTGGAGTATCCCCTTGAAAATAACGAGGTTGGAGTATCCCTGATGAAATAA-CGGGG
130 GGTTGGAGTATCCCC--G-AAATAACGAGGTTGGAGTATCCCTGATGAAATAATCAGAG
138891 TTGGAGTATCCCCGATG-AAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
1 TTGGAGTATCCCCGATGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
138955 GAAATAAGGTCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGG
66 GAAATAAGGTCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGG
*
139020 GTTGGAGTATCCCCGAAATAACGGGGTTGGAGTATCCCTGATGAAATAATCAGAG
131 GTTGGAGTATCCCCGAAATAACGAGGTTGGAGTATCCCTGATGAAATAATCAGAG
139075 TTGGAGTATCCCCGAT
1 TTGGAGTATCCCCGAT
139091 TGTGGAGAAT
Statistics
Matches: 192, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
183 33 0.17
184 20 0.10
186 136 0.71
187 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (185 bp):
TTGGAGTATCCCCGATGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
GAAATAAGGTCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGG
GTTGGAGTATCCCCGAAATAACGAGGTTGGAGTATCCCTGATGAAATAATCAGAG
Found at i:138980 original size:51 final size:51
Alignment explanation
Indices: 138915--139035 Score: 206
Period size: 51 Copynumber: 2.4 Consensus size: 51
138905 ATGAAATAAT
* *
138915 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGTC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* *
138966 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
139017 GGGGTTGGAGTATCCCCGA
1 GGGGTTGGAGTATCCCCGA
139036 AATAACGGGG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:139047 original size:25 final size:26
Alignment explanation
Indices: 139016--139089 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
139006 GAAATAAAGC
139016 CGGGGTTGGAGTATCCCCGAAATAA-
1 CGGGGTTGGAGTATCCCCGAAATAAT
*
139041 CGGGGTTGGAGTATCCCTGATGAAATAAT
1 CGGGGTTGGAGTATCCC---CGAAATAAT
* *
139070 CAGAGTTGGAGTATCCCCGA
1 CGGGGTTGGAGTATCCCCGA
139090 TTGTGGAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 17 0.41
26 2 0.05
28 7 0.17
29 15 0.37
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCCCGAAATAAT
Found at i:139115 original size:105 final size:106
Alignment explanation
Indices: 138969--139162 Score: 239
Period size: 105 Copynumber: 1.8 Consensus size: 106
138959 TAAGGTCGGG
* * *
138969 GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCC
1 GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
* *
139034 -GAAATAACGGGGTTGGAGTATCCCTGATGAAATAATCAGA
66 TGAAATAACCGGATTGGAGTATCCCTGATGAAATAATCAGA
* *** * **
139074 GTTGGAGTATCCCCGATTGTG-GAGAATTGGTGTTTTAGAAATAAAATTAGGGTTGGAGTATCCC
1 GTTGAAGTATCCCCGATTGTGAGA-AATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCC
139138 CTTGGAAATAACCGGATTGGAGTAT
65 C-T-GAAATAACCGGATTGGAGTAT
139163 ACCCGATTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
104 2 0.03
105 52 0.71
108 19 0.26
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (106 bp):
GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
TGAAATAACCGGATTGGAGTATCCCTGATGAAATAATCAGA
Found at i:139187 original size:79 final size:79
Alignment explanation
Indices: 139043--139451 Score: 409
Period size: 79 Copynumber: 5.2 Consensus size: 79
139033 CGAAATAACG
* * * * * *
139043 GGGTTGGAGTAT-CCC-TGATGAAATAATCAGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTG
1 GGGTTGGAGTATCCCCTTG--GAAATAA-CCGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
*
139106 TTTTAGAAATAAAATTA
63 TTTTAGAAATAAAACTA
* *
139123 GGGTTGGAGTATCCCCTTGGAAATAACCGGATTGGAGTATACCCGATTATGAAAAATTGATGTTT
1 GGGTTGGAGTATCCCCTTGGAAATAACCGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTT
*
139188 TAGAAATAAAACTG
66 TAGAAATAAAACTA
*** * * * * *
139202 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTT
1 GGGTTGGAGTATCCCCTTGGAAATAACCGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTT
* * **
139267 TGGAAATAAAGCCC
66 TAGAAATAAAACTA
* ** *
139281 GGGTTGGAGTATCCCCTCGGAAATAAGGGGGCTGGAGTATCCCCG---ATGAAAAATTGATGTTT
1 GGGTTGGAGTATCCCCTTGGAAATAACCGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTT
*
139343 TAGAAATAAAACCA
66 TAGAAATAAAACTA
* ** * * *
139357 GGGTTGGAGTGTCCCCTTAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGTT-AGTGTT
1 GGGTTGGAGTATCCCCTTGGAAATAACCGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTT
* *
139421 TTGGAAATAAAA-TC
65 TTAGAAATAAAACTA
139435 GGAGTTGGAGTATCCCC
1 GG-GTTGGAGTATCCCC
139452 GATTATGGAA
Statistics
Matches: 274, Mismatches: 48, Indels: 15
0.81 0.14 0.04
Matches are distributed among these distances:
76 64 0.23
78 3 0.01
79 183 0.67
80 19 0.07
81 3 0.01
82 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTTGGAAATAACCGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTT
TAGAAATAAAACTA
Found at i:139390 original size:155 final size:155
Alignment explanation
Indices: 139043--139451 Score: 448
Period size: 155 Copynumber: 2.6 Consensus size: 155
139033 CGAAATAACG
* * * * * * ** *
139043 GGGTTGGAGTAT-CCCTGATGAAATAATCAGAGTTGGAGTATCCCCGATTGTGGAGAA-TTGGTG
1 GGGTTGGAGTATCCCCTCA-AAAATAA-CAGGGTTGAAGTATCCCCGATTAT-GAAAAGTTAATA
* ** * *
139106 TTTTAGAAATAAAATTAGGGTTGGAGTATCCCCTTGGAAATAACCGGATTGGAGTATACCCGATT
63 TTTTGGAAATAAAA-CCGGGTTGGAGTATCCCCTCGGAAATAACCGGACTGGAGTATACCCG--T
**
139171 ATGAAAAATTGATGTTTTAGAAATAAAACTG
125 ATGAAAAATTGATGTTTTAGAAATAAAACCA
139202 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGAAGTATCCCCGATTATGAGAAA-TTAATATT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGAAGTATCCCCGATTATGA-AAAGTTAATATT
* ** * *
139266 TTGGAAATAAAGCCCGGGTTGGAGTATCCCCTCGGAAATAAGGGGGCTGGAGTATCCCCG-ATGA
65 TTGGAAATAAA-ACCGGGTTGGAGTATCCCCTCGGAAATAACCGGACTGGAGTATACCCGTATGA
139330 AAAATTGATGTTTTAGAAATAAAACCA
129 AAAATTGATGTTTTAGAAATAAAACCA
* * * * * * *
139357 GGGTTGGAGTGTCCCCTTAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGTTAGTGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGAAGTATCCCCGATTATGAAAAGTTAATATTT
*
139422 TGGAAATAAAATCGGAGTTGGAGTATCCCC
66 TGGAAATAAAACCGG-GTTGGAGTATCCCC
139452 GATTATGGAA
Statistics
Matches: 215, Mismatches: 30, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
154 6 0.03
155 107 0.50
157 2 0.01
158 77 0.36
159 18 0.08
160 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (155 bp):
GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGAAGTATCCCCGATTATGAAAAGTTAATATTT
TGGAAATAAAACCGGGTTGGAGTATCCCCTCGGAAATAACCGGACTGGAGTATACCCGTATGAAA
AATTGATGTTTTAGAAATAAAACCA
Found at i:139515 original size:51 final size:51
Alignment explanation
Indices: 139387--139515 Score: 186
Period size: 51 Copynumber: 2.5 Consensus size: 51
139377 AAATAACGGG
* * * *
139387 GTTGGAGTATCCCCGATTGTGAAAAGTTAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATGAGTGTTTTAGAAATAAAATCGGA
* *
139438 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATGAGTGTTTTAGAAATAAAATCGGA
* *
139489 GTTGAAGTATCCCCGATTAAGAAAAAT
1 GTTGGAGTATCCCCGATTATGAAAAAT
139516 TGATATCTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATGAGTGTTTTAGAAATAAAATCGGA
Found at i:139530 original size:51 final size:51
Alignment explanation
Indices: 139421--139530 Score: 148
Period size: 51 Copynumber: 2.2 Consensus size: 51
139411 AGTTAGTGTT
* * * * * *
139421 TTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATGGAAAATGGGTGTT
1 TTGGAAATAAAATCGGAGTTGAAGTATCCCCGATTAAGAAAAATGGATATC
* *
139472 TTAGAAATAAAATCGGAGTTGAAGTATCCCCGATTAAGAAAAATTGATATC
1 TTGGAAATAAAATCGGAGTTGAAGTATCCCCGATTAAGAAAAATGGATATC
139523 TTGGAAAT
1 TTGGAAAT
139531 GAAACCGGGA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (51 bp):
TTGGAAATAAAATCGGAGTTGAAGTATCCCCGATTAAGAAAAATGGATATC
Found at i:142279 original size:40 final size:40
Alignment explanation
Indices: 142235--142334 Score: 105
Period size: 42 Copynumber: 2.5 Consensus size: 40
142225 GTCCCACTTT
* *
142235 TTGAGGACAAAG-GAAAAGATAATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGAGAAAAGA-AAAGAAA-AGTGTCCTGCTCC
* *
142275 TTGAGGACAAAGAAAGAAAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAG--AGAAAAGAAAAGAAAAGTGTCCTGCTCC
*
142317 TTGAGGACAAAGTGAAAA
1 TTGAGGACAAAGAGAAAA
142335 AGAGTACGTC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
40 17 0.33
41 2 0.04
42 25 0.49
43 7 0.14
ACGTcount: A:0.44, C:0.11, G:0.26, T:0.19
Consensus pattern (40 bp):
TTGAGGACAAAGAGAAAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:142400 original size:42 final size:42
Alignment explanation
Indices: 142354--142443 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 42
142344 CCCGTTTTTG
* *
142354 GAGGAC-AAAGAAAAAAGGGAAATGAAA-TACGTCCTGCTCTTT
1 GAGGACGAAAG-AAAAAGGAAAAT-AAAGTACATCCTGCTCTTT
* *
142396 GAGGACGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTT
1 GAGGACGAAAGAAAAAGGAAAATAAAGTACATCCTGCTCTTT
*
142438 AAGGAC
1 GAGGAC
142444 TAAAAAGTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.07
42 34 0.83
43 4 0.10
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (42 bp):
GAGGACGAAAGAAAAAGGAAAATAAAGTACATCCTGCTCTTT
Found at i:142571 original size:55 final size:55
Alignment explanation
Indices: 142495--142730 Score: 307
Period size: 55 Copynumber: 4.3 Consensus size: 55
142485 ATGTCCTGCA
* *
142495 CTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTACT
1 CTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCCTACT
* * *
142550 CTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCT
1 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTACT
* * *
142605 CTTTGAGGACTGGAAAATGCGACCAACTTGTGTGGGCTTTAAGAGGCGTCTTGCT
1 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTACT
* * * *
142660 CTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGAA-AGGCATCCTACT
1 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCCTACT
*
142715 CTTTGAGAACTGGAAA
1 CTTTGAGGACTGGAAA
142731 TTCGTCCCCA
Statistics
Matches: 161, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
54 2 0.01
55 152 0.94
56 7 0.04
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (55 bp):
CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTACT
Found at i:142635 original size:110 final size:111
Alignment explanation
Indices: 142427--142730 Score: 339
Period size: 110 Copynumber: 2.7 Consensus size: 111
142417 ATAAAGTGCA
* * *
142427 TCCTGCTCTTTAAGGACTA-AAAAGTGCCACCAACTCCTGTGGGCTTTGAAAAAGAATGATGTCC
1 TCCTACTCTTTGAGGACTAGAAAA-TGCCACCAACTCGTGTGGGCTTTG--AAAG---G-TGTCC
* * *
142491 TGCACTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
59 TGCTCTTTGAGGACTGGAAAGATGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
* * *
142543 TCCTACTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCT
1 TCCTACTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
*
142607 TTGAGGACTGGAAA-ATGCGACCAACTTGTGTGGGCTTTAAGAGGCG
65 TTGAGGACTGGAAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGCG
* * * ** *
142653 TCTTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCATCCTACTCTT
1 TCCTACTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
142718 TGAGAACTGGAAA
66 TGAGGACTGGAAA
142731 TTCGTCCCCA
Statistics
Matches: 163, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
109 2 0.01
110 109 0.67
111 8 0.05
113 2 0.01
114 2 0.01
116 36 0.22
117 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (111 bp):
TCCTACTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGGAAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGCG
Found at i:143390 original size:55 final size:55
Alignment explanation
Indices: 143253--144131 Score: 742
Period size: 55 Copynumber: 15.3 Consensus size: 55
143243 ATAAAGTGCA
** * *
143253 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT------GAAAGGCG
* *
143314 TCCTGCTCTTTGAGGATTGGAAGGTGCCGCCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * **
143369 TCTTGCTCTTTGAGGATTGGAAACTGCCACCAACTTGTGTGGGCTTT-AAAGGGCG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GGCG
* ** *
143424 CCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGC-TTT-----G-AAAGGCG
* * ** * * * *
143486 TCTTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTATGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* ** * * *
143541 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGG-TTTTAAGTGGCA
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
143596 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGC-TTT-----G-AAAGGCG
* * ** * *
143658 TCCTACTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
143713 TCTTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
143768 TCCTGCTCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAGACG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
143823 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* * * * *
143884 TCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAGAGAAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTT----G-AA-AGGCG
* * * * * *
143946 TCATGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * * *
144001 TCCTACTCTTTGAGAACT-AAAGGTGCCACTAGCTTATGTGGGCTTTAAATGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGC-TT---TG--AAAGGCG
* *** * *
144061 TCCTGATCTTTGAGGACT-GAAGGTGCCACCGGTTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
144115 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
144132 AAAAAGGCAA
Statistics
Matches: 681, Mismatches: 103, Indels: 75
0.79 0.12 0.09
Matches are distributed among these distances:
54 52 0.08
55 343 0.50
56 10 0.01
57 3 0.00
58 1 0.00
59 2 0.00
60 42 0.06
61 98 0.14
62 125 0.18
63 5 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:143533 original size:117 final size:109
Alignment explanation
Indices: 143253--144131 Score: 803
Period size: 117 Copynumber: 7.7 Consensus size: 109
143243 ATAAAGTGCA
* *
143253 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT----A--AAAGGCGTCCT
* * ** *
143318 GCTCTTTGAGGATTGGAAGGTGCCGCCAACTTGTGTGGGCTTTGAAAGGCG
59 ACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * * *
143369 TCTTGCTCTTTGAGGATTGGAAACTGCCACCAACTTGTGTGGGCTTTAAAGGGCGCCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
*
143434 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTG
65 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTT-----G-AAAGGCG
* * * * *
143486 TCTTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTATGGGCTTTAAAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
* * *
143551 TGAGGACTGGAAAATGCCACCAACTTGTGTGGG-TTTTAAGTGGCA
65 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
143596 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCC
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGC-TTT------AAAAGGCGTCC
* * *
143661 TACTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCG
58 TACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
143713 TCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
* * *
143778 TGAGGACT-GAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAGACG
65 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
143823 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCT
* * *
143888 ACTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAGAGAAAGAGGTG
59 ACTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT----G-AA-AGGCG
* ** * *
143946 TCATGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGTGTCCTACTCTT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
* * * * *
144011 TGAGAACT--AAAGGTGCCACTAGCTTATGTGGGCTTTAAATGAAAAAGGCG
65 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGC-TT---TG--AAAGGCG
* * *** * *
144061 TCCTGATCTTTGAGGACTGAAGGTGCCACCGGTTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTT
144126 GAGGAC
66 GAGGAC
144132 AAAAAGGCAA
Statistics
Matches: 642, Mismatches: 80, Indels: 84
0.80 0.10 0.10
Matches are distributed among these distances:
109 13 0.02
110 172 0.27
111 6 0.01
112 1 0.00
114 44 0.07
115 45 0.07
116 74 0.12
117 230 0.36
118 8 0.01
119 1 0.00
121 1 0.00
122 2 0.00
123 43 0.07
124 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (109 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTT
GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:143554 original size:172 final size:171
Alignment explanation
Indices: 143244--144131 Score: 826
Period size: 172 Copynumber: 5.2 Consensus size: 171
143234 AAGAGGAAAA
* * * * * *
143244 TAAAGTGCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGA
1 TAAAGGGCGTCCTGCTCTTTGAGGACTGAAAGA-TGCCACCAACTTGTGTGGGCTTTAAAAAGAA
* * ** * * * *
143308 AAGGCGTCCTGCTCTTTGAGGATTGGAAGGTGCCGCCAACTTGTGTGGGCTTTGAAAGGCGTCTT
65 AAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCT
* * *
143373 GCTCTTTGAGGATTGGAAACTGCCACCAACTTGTGTGGGCTT
130 ACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTT
*
143415 TAAAGGGCGCCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTTAAAAAGA
1 TAAAGGGCGTCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGC-TTTAAAAAGA
* * * *
143479 AAAGGTGTCTTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTATGGGCTTTAAAAGGCGTCC
64 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCC
*
143544 TACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGG-TT
129 TACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTT
* * * *
143586 TTAAGTGGCATCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGA
1 TAAAG-GGCGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGC-TTTAAAAAGA
* * * * *
143651 AAAGGTGTCCTACTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCGTCT
64 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCC
* *
143716 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTT
129 TACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTT
* * *
143759 TAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGGCTTT-----G-AA
1 TAAAGGGCGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
* * *
143818 AGACGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGG
66 AGGCGTCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTCGTGTGGGCTTT------AAAAGG
* * *
143882 CATCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTT
124 CGTCCTACTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTT
* * * * *
143931 TAAGAGAAAGAGGTGTCATGCTCTTTGAGGACT-AGAGGGTGCCACCAACTCGTGTGGGCTTT--
1 T-----AAAG-GGCGTCCTGCTCTTTGAGGACTGA-AAGATGCCACCAACTTGTGTGGGCTTTAA
* * * ** * * **
143993 ----AAAAGGTGTCCTACTCTTTGAGAACTA-AAGGTGCCACTAGCTTATGTGGGCTTTAAATGA
59 AAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGC-TT---T--
* ***
144053 AAAAGGCGTCCTGA-TCTTTGAGGACT-GAAGGTGCCACCGGTTTGTGTGGGCTT
118 AAAAGGCGTCCT-ACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTT
* *
144106 TAAAAGGCATCCTGCTCTTTGAGGAC
1 TAAAGGGCGTCCTGCTCTTTGAGGAC
144132 AAAAAGGCAA
Statistics
Matches: 611, Mismatches: 78, Indels: 58
0.82 0.10 0.08
Matches are distributed among these distances:
164 4 0.01
165 43 0.07
166 1 0.00
169 18 0.03
170 3 0.00
171 78 0.13
172 317 0.52
173 8 0.01
175 22 0.04
177 46 0.08
178 70 0.11
181 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (171 bp):
TAAAGGGCGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
AGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTA
CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTT
Found at i:143718 original size:227 final size:227
Alignment explanation
Indices: 143256--144111 Score: 948
Period size: 227 Copynumber: 3.7 Consensus size: 227
143246 AAGTGCATCC
*
143256 TGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGC
1 TGCTCTTTGAGGACTAGAAAA-TGCCACCAACTCGTGTGGGCTTT----A--AAAGGCGTCCTAC
* * * *
143320 TCTTTGAGGATTGGAAGGTGCCGCCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTGAGGA
59 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
* * * * *
143385 TTGGAAA-CTGCCACCAACTTGTGTGGGCTTT-AAAG----GGCGCCCTGCTCTTTGAGGACTGG
124 CT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAG
143444 AAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCT
188 AAAATGCCACCAACTTGTGTGGGC-TTT----AGAAAAGGTGTCT
* *
143489 TGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTATGGGCTTTAAAAGGCGTCCTACTCTTTGA
1 TGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGA
* * * * *
143554 GGACTGGAAAATGCCACCAACTTGTGTGGG-TTTTAAGTGGCATCCTGCTCTTTAAGGACTGAAA
66 GGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGACTGAAA
*
143618 GGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAT
130 GGTGCCACCAACTTGTGTGGGC-TTT-AAAAGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAT
* * *
143683 GCCACCGACTCGTGTGGGCTTT-G-AAAGGCGTCT
193 GCCACCAACTTGTGTGGGCTTTAGAAAAGGTGTCT
* * * * *
143716 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
1 TGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGA
* *
143781 GGACT-GAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAGACGTCCTGCTCTTTGAGGACTGAAA
66 GGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAA
* *
143845 GGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTCTTTGAGGACTAGAAAAGT
130 GGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAA-T
* *
143910 GCCACCAACTTATGTGGGCTTTAAGAGAAAGAGGTGTCA
193 GCCACCAACTTGTGTGGGCTTT---AGAAA-AGGTGTCT
*** *
143949 TGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGTGTCCTACTCTTTGA
1 TGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGA
* * * * *
144014 GAACT--AAAGGTGCCACTAGCTTATGTGGGCTTTAAATGAAAAAGGCGTCCTGATCTTTGAGGA
66 GGACTGGAAA-GTGCCACCAACTTGTGTGGGC-TT---TG--AAAGGCGTCCTGCTCTTTGAGGA
***
144077 CTG-AAGGTGCCACCGGTTTGTGTGGGCTTTAAAAG
124 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
144112 GCATCCTGCT
Statistics
Matches: 536, Mismatches: 62, Indels: 47
0.83 0.10 0.07
Matches are distributed among these distances:
226 50 0.09
227 238 0.44
228 9 0.02
229 1 0.00
230 4 0.01
231 1 0.00
232 23 0.04
233 110 0.21
234 46 0.09
236 6 0.01
237 24 0.04
238 24 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (227 bp):
TGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGA
GGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAATGCC
ACCAACTTGTGTGGGCTTTAGAAAAGGTGTCT
Found at i:145243 original size:1 final size:1
Alignment explanation
Indices: 145223--145292 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
145213 CTTTTCTCTC
* * * * * * * * * *
145223 TTTTTTCTTTGTTTTGTTTTTTTTTTGTTTTTTGTTTTTGTTTTTTTTGTTTTTGTTTTTGTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
145288 TTTTT
1 TTTTT
145293 AGAAGAGAAG
Statistics
Matches: 49, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:145247 original size:21 final size:21
Alignment explanation
Indices: 145223--145292 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 21
145213 CTTTTCTCTC
* *
145223 TTTTTTCTTTGTTTTGTTTTTT
1 TTTTTTTTTTGTTTT-TGTTTT
145245 TTTTGTTTTTTGTTTTTGTTTT
1 TTTT-TTTTTTGTTTTTGTTTT
* *
145267 TTTTGTTTTTGTTTTTGTTTC
1 TTTTTTTTTTGTTTTTGTTTT
145288 TTTTT
1 TTTTT
145293 AGAAGAGAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
21 19 0.45
22 13 0.31
23 10 0.24
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (21 bp):
TTTTTTTTTTGTTTTTGTTTT
Found at i:145255 original size:28 final size:28
Alignment explanation
Indices: 145223--145282 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
145213 CTTTTCTCTC
*
145223 TTTTT-TCTTTGTTTTGTTTTTTTTTTGT
1 TTTTTGTCTTTGTTTT-TTTTGTTTTTGT
*
145251 TTTTTGTTTTTGTTTTTTTTGTTTTTGT
1 TTTTTGTCTTTGTTTTTTTTGTTTTTGT
145279 TTTT
1 TTTT
145283 GTTTCTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.87
Consensus pattern (28 bp):
TTTTTGTCTTTGTTTTTTTTGTTTTTGT
Found at i:145277 original size:15 final size:15
Alignment explanation
Indices: 145230--145292 Score: 76
Period size: 15 Copynumber: 4.2 Consensus size: 15
145220 CTCTTTTTTC
145230 TTTGTTTTGTTTT-TT
1 TTTGTTTT-TTTTGTT
*
145245 TTT-TGTTTTTTGTT
1 TTTGTTTTTTTTGTT
145259 TTTGTTTTTTTTGTT
1 TTTGTTTTTTTTGTT
*
145274 TTTGTTTTTGTTTCTT
1 TTTGTTTTT-TTTGTT
145290 TTT
1 TTT
145293 AGAAGAGAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
13 4 0.10
14 8 0.19
15 22 0.52
16 8 0.19
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.86
Consensus pattern (15 bp):
TTTGTTTTTTTTGTT
Found at i:148126 original size:285 final size:285
Alignment explanation
Indices: 147615--148188 Score: 1013
Period size: 285 Copynumber: 2.0 Consensus size: 285
147605 GGCAGTATTA
147615 TCTACCAAGGTATCGATGTGAGGTAGAGGGAAATTATCTTTGAGACTAGCTTGGTTCAGGTTCCT
1 TCTACCAAGGTATCGATGTGAGGTAGAGGGAAATTATCTTTGAGACTAGCTTGGTTCAGGTTCCT
*
147680 GTAATCCACGCACATTCGTACCTTGCCATTTTTTTTGGGAACTGAGACTATATTGGCCACCCATT
66 GTAATCCACGCACATTCGTACCTTGCCATCTTTTTTGGGAACTGAGACTATATTGGCCACCCATT
147745 CCGGATATTTGGCCACCGCGAGAAAACCCGCTTCAAATTGTTTCTTGACTTCTTCCTTGATCTTC
131 CCGGATATTTGGCCACCGCGAGAAAACCCGCTTCAAATTGTTTCTTGACTTCTTCCTTGATCTTC
* * *
147810 AAAAGCAATTCGGGTTTCAGCCTTTTGAGCTTCTCTTGTATGGGCTTACACTCAGGTTTAACAGG
196 AAAAGCAATTCGAGTTTCAGCCTTCTGAGCTTCTCTTGTACGGGCTTACACTCAGGTTTAACAGG
147875 AAGCTTATGGACCACAATGTTGGTG
261 AAGCTTATGGACCACAATGTTGGTG
* * *
147900 TCTACCAAGGTATCGATGTGAGGTAGAGGGAAATTATCTTTGGGGCTAGCTTGGTTCAGGTTCTT
1 TCTACCAAGGTATCGATGTGAGGTAGAGGGAAATTATCTTTGAGACTAGCTTGGTTCAGGTTCCT
* *
147965 GTAATCCACGCACATTCGTACCTTGCCATCTTTTTTGGGAATTGAGACTATATTGGCCTCCCATT
66 GTAATCCACGCACATTCGTACCTTGCCATCTTTTTTGGGAACTGAGACTATATTGGCCACCCATT
* * *
148030 CTGGATATTTGGCCATCGCGAGAAAACCTGCTTCAAATTGTTTCTTGACTTCTTCCTTGATCTTC
131 CCGGATATTTGGCCACCGCGAGAAAACCCGCTTCAAATTGTTTCTTGACTTCTTCCTTGATCTTC
* * *
148095 AAAAGCATTTCGAGTTTCATCCTTCTGAGCTTCTCTTGTACGGGCTTACACTCAGGTTTGACAGG
196 AAAAGCAATTCGAGTTTCAGCCTTCTGAGCTTCTCTTGTACGGGCTTACACTCAGGTTTAACAGG
148160 AAGCTTATGGACCACAATGTTGGTG
261 AAGCTTATGGACCACAATGTTGGTG
148185 TCTA
1 TCTA
148189 ACCCAGGCAT
Statistics
Matches: 274, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
285 274 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (285 bp):
TCTACCAAGGTATCGATGTGAGGTAGAGGGAAATTATCTTTGAGACTAGCTTGGTTCAGGTTCCT
GTAATCCACGCACATTCGTACCTTGCCATCTTTTTTGGGAACTGAGACTATATTGGCCACCCATT
CCGGATATTTGGCCACCGCGAGAAAACCCGCTTCAAATTGTTTCTTGACTTCTTCCTTGATCTTC
AAAAGCAATTCGAGTTTCAGCCTTCTGAGCTTCTCTTGTACGGGCTTACACTCAGGTTTAACAGG
AAGCTTATGGACCACAATGTTGGTG
Found at i:157524 original size:51 final size:50
Alignment explanation
Indices: 157458--157733 Score: 211
Period size: 51 Copynumber: 5.3 Consensus size: 50
157448 TGAAAATAAT
*
157458 GGGGTTGGTGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAA-GCC
* * **
157509 GGGGTTGAAGTATCCCAGATTGTGAGAAATCAATATTTT-GAAAATAAAGTT
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAG-AAAT-AAGCC
** * *** * * ***
157560 GGGGTTGGAGTATCCCCTCAGA-AATAACGGGGTTGGAGTATCCCCGATGAAATAA--C
1 GGGGTTGGAGTAT-CCC-C-GATTGTGA--GAAAT-CAATAT--TTTA-GAAATAAGCC
*
157616 GGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAA-GCC
* *
157667 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTT-GAAAATAAACC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAG-AAATAAGCC
*
157717 GAGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
157734 AAAATAACAG
Statistics
Matches: 172, Mismatches: 36, Indels: 35
0.71 0.15 0.14
Matches are distributed among these distances:
48 7 0.04
49 1 0.01
50 19 0.11
51 101 0.59
52 7 0.04
53 4 0.02
54 5 0.03
55 4 0.02
56 17 0.10
58 2 0.01
59 4 0.02
60 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (50 bp):
GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGCC
Found at i:157593 original size:28 final size:28
Alignment explanation
Indices: 157560--157630 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
157550 AAATAAAGTT
157560 GGGGTTGGAGTATCCCCTCA-GAAATAAC
1 GGGGTTGGAGTATCCCC-CATGAAATAAC
*
157588 GGGGTTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTATCCCCCATGAAATAAC
157616 GGGGTTGGAGTATCC
1 GGGGTTGGAGTATCC
157631 TCGATTGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCCATGAAATAAC
Found at i:157779 original size:29 final size:27
Alignment explanation
Indices: 157719--157790 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 27
157709 AATAAACCGA
157719 GGTTGGAGTATCCCC-A-AAATAACAG
1 GGTTGGAGTATCCCCGATAAATAACAG
157744 GGTTGGAGTATCCCCGATGAAATAATC-G
1 GGTTGGAGTATCCCCGAT-AAATAA-CAG
157772 GAGTTGGAGTATCCCCGAT
1 G-GTTGGAGTATCCCCGAT
157791 TATGGAGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
25 15 0.36
26 1 0.02
28 8 0.19
29 18 0.43
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (27 bp):
GGTTGGAGTATCCCCGATAAATAACAG
Found at i:157997 original size:78 final size:79
Alignment explanation
Indices: 157743--158109 Score: 300
Period size: 79 Copynumber: 4.7 Consensus size: 79
157733 CAAAATAACA
* ** * * ** *
157743 GGGTTGGAGTAT-CCC-CGATGAAATAATCGGAGTTGGAGTATCCCCGATTATGGAGAATTGGTG
1 GGGTTGGAGTATCCCCTCGA--AAATAA-CGGGGTCAGAGTATCCCCGATTATGAAAAATTAATA
* *
157806 TTTTAGAAAAAAAATCG
63 TTTTAGAAATAAAACCG
* * * * * * * * *
157823 GGGTTGGAGTATCCCCT-TAGAAATAACGAGATTAGAGTATTCTCGATTATGAAAAACTGATGTT
1 GGGTTGGAGTATCCCCTCGA-AAATAACGGGGTCAGAGTATCCCCGATTATGAAAAATTAATATT
**
157887 TTAGAAATAAAATTG
65 TTAGAAATAAAACCG
* *
157902 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTCAAAGTATCCCCGATTATGAGAAATTAA-ATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTCAGAGTATCCCCGATTATGAAAAATTAATATTT
* * *
157966 TGGAAATGAAGCCG
66 TAGAAATAAAACCG
* * *
157980 GGGTTGGAGTATCCCCTCGAAAATCACGGGG-CTAGAGTAT-CCC--TGATGAAAAATTAATGTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTC-AGAGTATCCCCGATTATGAAAAATTAATATT
*
158041 TTAGAAATAAAACCA
65 TTAGAAATAAAACCG
* * * * ** *
158056 AGGTTGGAGTGTCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAA
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTCAGAGTATCCCCGATTATGAAA
158110 TGTCAGTGTT
Statistics
Matches: 231, Mismatches: 47, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
75 12 0.05
76 45 0.19
77 7 0.03
78 48 0.21
79 95 0.41
80 20 0.09
81 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTCAGAGTATCCCCGATTATGAAAAATTAATATTT
TAGAAATAAAACCG
Found at i:158146 original size:51 final size:51
Alignment explanation
Indices: 158086--158254 Score: 157
Period size: 51 Copynumber: 3.3 Consensus size: 51
158076 AAATAACAGG
* * * *
158086 GTTGGAGTATCCCCGATTGT-G-AAATGTCAGTGTTTTGGTAATAGAATCAGA
1 GTTGGAGTATCCCCGATTATGGAAAATG--AGTGTTTTAGAAATAAAATCAGA
* *
158137 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATGAGTGTTTTAGAAATAAAATCAGA
* * * * * * *
158188 GTTGGAGTATCCCCGATTAAGAAAAATTGA-TGTCTTGGAAATGAAA-CCGG
1 GTTGGAGTATCCCCGATTATGGAAAA-TGAGTGTTTTAGAAATAAAATCAGA
158238 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
158255 GATGAAAAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
50 3 0.03
51 89 0.89
52 3 0.03
53 5 0.05
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATGAGTGTTTTAGAAATAAAATCAGA
Found at i:161003 original size:55 final size:55
Alignment explanation
Indices: 160937--161217 Score: 298
Period size: 55 Copynumber: 5.0 Consensus size: 55
160927 TTCGTCGGGC
*
160937 GCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGGTCTTTAAGGACTGGAAAAT
1 GCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTGGAAAAT
* * * * *
160992 GCCACCAACTTGTGTTGACTTT-AAGAGGCGTCCTGCTCTGTGAGCACTGGAAAAT
1 GCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTAAGGACTGGAAAAT
* * *
161047 GCCACCAACTTGTGTTGGCTTT-AAGAGGCGTCCTGCTCTTTGAGGACTGGAGAAT
1 GCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTAAGGACTGGAAAAT
* * **
161102 GCCACCAACTTTTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTAAGGACAAGAAAAT
1 GCCACCAACTTGTGTGGGC-TTT-----G-AAAGGCGTCCTGCTCTTTAAGGACTGGAAAAT
* * * * *
161164 GCCACCGACTCGTGTGGGCTTTGAAAGGCGTCCTCCTCTTTGAGGA-TGGGAAAT
1 GCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTGGAAAAT
161218 TCGTCCCAAC
Statistics
Matches: 191, Mismatches: 26, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
54 7 0.04
55 134 0.70
56 4 0.02
61 3 0.02
62 41 0.21
63 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
GCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTGGAAAAT
Found at i:161979 original size:55 final size:55
Alignment explanation
Indices: 161895--162317 Score: 501
Period size: 55 Copynumber: 7.6 Consensus size: 55
161885 CTTTGAAAAG
* * ** * *
161895 GAAAGGCGTCCTGCTCTTTAAGGATTGGAAGGTGCCGCCAACTTGTGTGGGCATT
1 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* *
161950 GAAAGGCGTCCTGCTCTTCGAGGACTGGAAAAAGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* *
162005 -AAGAGGCGTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGCCTTT
1 GAA-AGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
162060 -AAGTGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTTGGCTTT
1 GAA-AGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * * *
162115 -AAGAGGTGTCCGGCCCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
1 GAA-AGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
162170 AAAAGGTGTCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTT
1 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTT
* * * * *
162226 AAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTAGGCTTT
1 -----G-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
*
162287 GAAAGGCGTCCTTCTCTTTGAGGACTGGAAA
1 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAA
162318 TTCGTCCCCA
Statistics
Matches: 323, Mismatches: 36, Indels: 18
0.86 0.10 0.05
Matches are distributed among these distances:
54 2 0.01
55 266 0.82
56 6 0.02
61 3 0.01
62 46 0.14
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (55 bp):
GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:163090 original size:55 final size:54
Alignment explanation
Indices: 162997--163306 Score: 352
Period size: 55 Copynumber: 5.5 Consensus size: 54
162987 TTTGAAAAGG
* * * * *
162997 AAAGGCGTCTTGCTCTTTGAGGATTGGAATATGACACCAACTTGTGTAGGCTTT
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* *
163051 GTAAGGCGTCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 -AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
*
163106 AAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 AA-AGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
*
163161 AAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTT
1 -AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTT
* * * * *
163217 AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCATCGA-TTCGTGTGTGCTTT
1 -------AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTT-GTGTGGGCTTT
* *
163278 GAAAGGCATCCTGCTCTTTGAGGATTGGA
1 -AAAGGCGTCCTGCTCTTTGAGGACTGGA
163307 GATTCGTCCC
Statistics
Matches: 224, Mismatches: 21, Indels: 20
0.85 0.08 0.08
Matches are distributed among these distances:
54 1 0.00
55 170 0.76
56 5 0.02
61 5 0.02
62 43 0.19
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (54 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:163283 original size:117 final size:115
Alignment explanation
Indices: 162945--163306 Score: 461
Period size: 110 Copynumber: 3.2 Consensus size: 115
162935 AAAGTGCATT
* * * * *
162945 CTGCTTTTTGAGGACT-AAAAACTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGGCGTCTTG
1 CTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTTAAAAGGAAAGGTGTCCTG
* * * *
163009 CTCTTTGAGGATTGGAATATGACACCAACTTGTGTAGGCTTTGTAAGGCGTC
65 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT-GGCTTTGAAAGGCGTC
*
163061 TTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTT--AA-G--AGGTGTCCTGC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAGGAAAGGTGTCCTGC
*
163120 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTC
66 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGT-GGCTTTGAAAGGCGTC
*
163171 CTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAGGAAAAGGTGTCCTG
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAGG-AAAGGTGTCCTG
* * * *
163236 CTCTTTGAGGACTAGAAAATGCCATCGA-TTCGTGTGTGCTTTGAAAGGCATC
65 CTCTTTGAGGACTGGAAAATGCCACCAACTT-GTGTG-GCTTTGAAAGGCGTC
*
163288 CTGCTCTTTGAGGATTGGA
1 CTGCTCTTTGAGGACTGGA
163307 GATTCGTCCC
Statistics
Matches: 217, Mismatches: 19, Indels: 19
0.85 0.07 0.07
Matches are distributed among these distances:
110 94 0.43
111 3 0.01
112 1 0.00
113 4 0.02
114 1 0.00
115 2 0.01
116 37 0.17
117 75 0.35
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (115 bp):
CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAGGAAAGGTGTCCTGC
TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGCTTTGAAAGGCGTC
Found at i:164077 original size:55 final size:55
Alignment explanation
Indices: 163936--164298 Score: 372
Period size: 55 Copynumber: 6.4 Consensus size: 55
163926 AAGTGCATCT
* * *
163936 TGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT------GAAAGGCGTCC
* * *** *
163997 TACTCTTTGAGGATTGGACGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *
164052 TGCTCTTTGAGGACTGGAAAATGCCACCAGCTTGTGTGGGCTTT-AAGAGGCGTCT
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCC
* *
164107 TGCTCTTTGAGGACTAGAAAATACCACCAACTTGTGTGGGCTTT-AAGAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCC
* * *
164162 TGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAACGTGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTT-----G-AAAGGCGTCC
** * * *
164224 TGCTCTTTGAGGACTAAAAAATGCCACCGACTCGTGTAGGCTTTGAAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
164279 TGCTCTTTGAGGACTGGAAA
1 TGCTCTTTGAGGACTGGAAA
164299 TTCGTCCCCA
Statistics
Matches: 258, Mismatches: 34, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
54 2 0.01
55 170 0.66
56 4 0.02
61 38 0.15
62 42 0.16
63 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
Found at i:164200 original size:990 final size:991
Alignment explanation
Indices: 161960--164384 Score: 3894
Period size: 991 Copynumber: 2.5 Consensus size: 991
161950 GAAAGGCGTC
* * *
161960 CTGCTCTTCGAGGACTGGAAAAA--GCCACCAACTTGTGTGGGCTTT---AA-G--AGGCGTCCT
1 CTGCTCTTTGAGGACT--AAAAACTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCCT
* * * * * *
162017 GCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGCCTTT-AAGTGGCGTCCTGCTCTTTGA
64 ACTCTTTGAGGATTGGAAGATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGA
* * * *
162081 GGACTGGAAAATGCCACCAACTTGGGTTGGCTTTAAGAGGTGTCCGGCCCTTTGAGGACTAGAAA
128 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTAGAAA
* * *
162146 ATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCCGCTCTTTGAGGACTGGAAAATGCCACCAA
193 ATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAA
162211 CTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTC
258 CTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTC
*
162276 GTGTAGGCTTTGAAAGGCGTCCTTCTCTTTGAGGACTGGAAATTCGTCCCCACATATGTCCAATC
323 GTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAATTCGTCCCCACATATGTCCAATC
* * *
162341 CTCCACCCACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCTCGGACAAAATGAGGTATCTACAGC
388 CTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGGACAAAATGAGGTGTCTACAGC
* *
162406 TGCCCCACTTTGGCCATTTCTGAGTATCAAGAGCAGGGCAAAGATAAATAGACACCCTTTCGTCC
453 TGCCCCACTTTGGCCATTTCAGAGTATCAAGAGCAGGGCAAAGACAAATAGACACCCTTTCGTCC
* *
162471 GTGGCCGCATGCTGTGGCCTTGGAGTGATCAAACAAGAGGTTTGACTAAAGCTTCGCCATGATGA
518 GCGGCCACATGCTGTGGCCTTGGAGTGATCAAACAAGAGGTTTGACTAAAGCTTCGCCATGATGA
* * *
162536 AGAGTGTATTGGCGATGGTTTCGATGGAAAAATGAGTTTGTAGGATTTGTCCTCCCTACTAGGCT
583 AGAATGTATTGGCGACGGTTCCGATGGAAAAATGAGTTTGTAGGATTTGTCCTCCCTACTAGGCT
*
162601 TTGAGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGATTT
648 TTGAGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGAGTT
* *
162666 TGCCACCAACTTGTGTGGGATTTTTGGGTGCTGCCAACTTTTGCAGACTTTAGGAGGGGAAAAAA
713 TGCCACCAACTTGTGTGGGATTTTTGGGTGCTACCAACTTGTGCAGACTTTAGGAGGGGAAAAAA
*
162731 ATGGAGGGGGTGTCCCACTTTTTGAGGGCAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGA
778 ATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGA
* *
162796 GGACAAAGGAAGAGAAGAAAAGGAAAGTGTCTGCTTCTTGAGGACAAAGTGAAAAAAAGTATGTC
843 GGACAAAGGAAGAGAAGAAAAGGAAAATGTCTGCTACTTGAGGACAAAGTGAAAAAAAGTATGTC
* *
162861 CTATTTTTCGAGGACAAAGGAAAAAGGGAAACGAAGTACGTCCTGCTCTTTGAGGAAGAAAGAAA
908 CTATTTTTCGAGGACAAAGGAAAAAAGGAAACGAAATACGTCCTGCTCTTTGAGGAAGAAAGAAA
162926 GACGAAAATAAAGTGCATT
973 GACGAAAATAAAGTGCATT
* * * * *
162945 CTGCTTTTTGAGGACTAAAAACTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGGCGTCTTGC
1 CTGCTCTTTGAGGACTAAAAACTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCCTAC
* * * * *
163010 TCTTTGAGGATTGGAATATGACACCAACTTGTGTAGGCTTTGTAAGGCGTCTTGCTCTTTGAGGA
66 TCTTTGAGGATTGGAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
*
163075 CTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATG
131 CTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTAGAAAATG
163140 CCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTT
196 CCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTT
* * *
163205 GTGTGGGCTTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCATCGATTCGTG
261 GTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTG
* * *
163270 T-GTGCTTTGAAAGGCATCCTGCTCTTTGAGGATTGGAGATTCGTCCCCACATATGTCCAATCCT
326 TAG-GCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAATTCGTCCCCACATATGTCCAATCCT
* * *
163334 CCACCTACTAGCTAGGCTTCAAGTTGTCGAACATTGGCCCGGACAAAATGAGGTGTTTGCAGCTG
390 CCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGGACAAAATGAGGTGTCTACAGCTG
* * *
163399 CCCCTCTTTGGGCATTTCAGAGTATCCGAA-A-CAGGGCAAAGACAAATAGACACCCTTTTGTCC
455 CCCCACTTTGGCCATTTCAGAGTAT-C-AAGAGCAGGGCAAAGACAAATAGACACCCTTTCGTCC
* *
163462 GCGGCCACATGCTGTGGCCTTGGAGTGATTAAACAAGAGGTTTGATTAAAGCTTCGCCATGATGA
518 GCGGCCACATGCTGTGGCCTTGGAGTGATCAAACAAGAGGTTTGACTAAAGCTTCGCCATGATGA
* *
163527 AGAATGTATTTGCGACGGTTCCGATGGAAAAATGAGTTTGTAGGGTTTGTCCTCCCTACTAGGCT
583 AGAATGTATTGGCGACGGTTCCGATGGAAAAATGAGTTTGTAGGATTTGTCCTCCCTACTAGGCT
163592 TTGAGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAG-GTT
648 TTGAGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGAGTT
*
163656 TGCCACCAACTTGTGTGGGCTTTTTGGGTGCTACCAACTTGTGCAGACTTTAGGAGGGG-AAAAA
713 TGCCACCAACTTGTGTGGGATTTTTGGGTGCTACCAACTTGTGCAGACTTTAGGAGGGGAAAAAA
*
163720 ATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATTAAATAGGTCTTGCTCCTTGA
778 ATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGA
* *
163785 GGATAAAGGAAGAGAAGAAAAGGAAAATGTCCTGCTACTTGAGGACAAAGTGAAAAAGAGTACAT
843 GGACAAAGGAAGAGAAGAAAAGGAAAATGT-CTGCTACTTGAGGACAAAGTGAAAAAAAGT--AT
* *
163850 -TCC-GTTTTTCGAGGACAAAGGAAAAAAGGAAACGAAATACGTCCTGCTCTTTGAGGATGAAAG
905 GTCCTATTTTTCGAGGACAAAGGAAAAAAGGAAACGAAATACGTCCTGCTCTTTGAGGAAGAAAG
*
163913 AAAGAGGAAAATAAAGTGCA-T
970 AAAGACGAAAATAAAGTGCATT
*
163934 CTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCCTA
1 C-TGCTCTTTGAGGACTAAAAACTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCCTA
* * *
163999 CTCTTTGAGGATTGGACGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGG
65 CTCTTTGAGGATTGGAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
* * *
164064 ACTGGAAAATGCCACCAGCTTGTGTGGGCTTTAAGAGGCGTCTTGCTCTTTGAGGACTAGAAAAT
130 ACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTAGAAAAT
* *
164129 ACCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACT
195 GCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACT
* *
164194 TGTGTGGGCTTTTAAAAAGAAAACGTGTCCTGCTCTTTGAGGACTAAAAAATGCCACCGACTCGT
260 TGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGT
164259 GTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAATTCGTCCCCACATATGTCCAATCCT
325 GTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAATTCGTCCCCACATATGTCCAATCCT
* * *
164324 CCATCTACTAGCTAGGCTTCAAGTTATCGAAAATTGGCCTGGACAAAATGAGGTGTCTACA
390 CCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGGACAAAATGAGGTGTCTACA
164385 ATGACGATGG
Statistics
Matches: 1327, Mismatches: 96, Indels: 29
0.91 0.07 0.02
Matches are distributed among these distances:
983 5 0.00
985 36 0.03
988 2 0.00
989 99 0.07
990 575 0.43
991 603 0.45
992 5 0.00
993 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (991 bp):
CTGCTCTTTGAGGACTAAAAACTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCCTAC
TCTTTGAGGATTGGAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
CTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTAGAAAATG
CCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTT
GTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTG
TAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAATTCGTCCCCACATATGTCCAATCCTC
CACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGGACAAAATGAGGTGTCTACAGCTGC
CCCACTTTGGCCATTTCAGAGTATCAAGAGCAGGGCAAAGACAAATAGACACCCTTTCGTCCGCG
GCCACATGCTGTGGCCTTGGAGTGATCAAACAAGAGGTTTGACTAAAGCTTCGCCATGATGAAGA
ATGTATTGGCGACGGTTCCGATGGAAAAATGAGTTTGTAGGATTTGTCCTCCCTACTAGGCTTTG
AGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGAGTTTGC
CACCAACTTGTGTGGGATTTTTGGGTGCTACCAACTTGTGCAGACTTTAGGAGGGGAAAAAAATG
GAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGAGGA
CAAAGGAAGAGAAGAAAAGGAAAATGTCTGCTACTTGAGGACAAAGTGAAAAAAAGTATGTCCTA
TTTTTCGAGGACAAAGGAAAAAAGGAAACGAAATACGTCCTGCTCTTTGAGGAAGAAAGAAAGAC
GAAAATAAAGTGCATT
Found at i:171361 original size:25 final size:21
Alignment explanation
Indices: 171315--171462 Score: 115
Period size: 20 Copynumber: 6.8 Consensus size: 21
171305 AAAATTAACT
171315 AAATGTATCGATACATTGAAA
1 AAATGTATCGATACATTGAAA
171336 AAATGTATCGATACATCTGGGTAAAAAAA
1 AAATGTATCGATACAT-T--G----A-AA
171365 CATAATGTATCGATACATTG-AA
1 -A-AATGTATCGATACATTGAAA
* *
171387 AAATGTATCGATACATT-CAT
1 AAATGTATCGATACATTGAAA
* *
171407 ACATGTATCGATATATTG-AA
1 AAATGTATCGATACATTGAAA
* *
171427 AAATGTATCGATGCATCG-AA
1 AAATGTATCGATACATTGAAA
*
171447 AAATGTATAGATACAT
1 AAATGTATCGATACAT
171463 ATAGGTAAAA
Statistics
Matches: 105, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
20 63 0.60
21 17 0.16
22 3 0.03
24 1 0.01
28 2 0.02
29 2 0.02
30 2 0.02
31 15 0.14
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (21 bp):
AAATGTATCGATACATTGAAA
Found at i:171393 original size:20 final size:20
Alignment explanation
Indices: 171368--171462 Score: 127
Period size: 20 Copynumber: 4.8 Consensus size: 20
171358 AAAAAAACAT
171368 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
* *
171388 AATGTATCGATACATTCATA
1 AATGTATCGATACATTGAAA
* *
171408 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAA
* *
171428 AATGTATCGATGCATCGAAA
1 AATGTATCGATACATTGAAA
*
171448 AATGTATAGATACAT
1 AATGTATCGATACAT
171463 ATAGGTAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:171506 original size:21 final size:21
Alignment explanation
Indices: 171480--171532 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
171470 AAAATAAAAT
* *
171480 ATATCGATACCTGTACTATTC
1 ATATCGATACATGGACTATTC
*
171501 ATATCGATACATGGACTGTTC
1 ATATCGATACATGGACTATTC
*
171522 ATATCAATACA
1 ATATCGATACA
171533 AATTATGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (21 bp):
ATATCGATACATGGACTATTC
Found at i:175045 original size:44 final size:43
Alignment explanation
Indices: 174949--175046 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
174939 TACGTTACTT
* * * *
174949 AATGTATCGAAACATTGCATTTAAAAATCTAGTCGTTGGGCTA
1 AATGTATCGATACATTGCATTTAAAAAACTAGTCATTGGGCCA
* *
174992 ATTGTATCGATACATTGCTTTTAAAAGAACTAG-CTATTGGGCCA
1 AATGTATCGATACATTGCATTTAAAA-AACTAGTC-ATTGGGCCA
175036 AATGTATCGAT
1 AATGTATCGAT
175047 CCAATATTGG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
43 24 0.52
44 22 0.48
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (43 bp):
AATGTATCGATACATTGCATTTAAAAAACTAGTCATTGGGCCA
Found at i:175882 original size:16 final size:16
Alignment explanation
Indices: 175857--175887 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
175847 GTAAAAGTAT
175857 AAGCACAATTTCATAA
1 AAGCACAATTTCATAA
*
175873 AAGCATAATTTCATA
1 AAGCACAATTTCATA
175888 GATCATGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.29
Consensus pattern (16 bp):
AAGCACAATTTCATAA
Found at i:183611 original size:43 final size:43
Alignment explanation
Indices: 183535--183632 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
183525 TTCTCGCATC
* * * *
183535 ATTGTATCGATACATTGCATTTGAAAATATAGCCGTTGGGCTA
1 ATTGTATTGATACATTGCATTTGAAAAAATAGCCATTGGGCCA
183578 ATTGTATTGATACATTGC-TTT-AAAAGAACTAGCCATTGGGCCA
1 ATTGTATTGATACATTGCATTTGAAAA-AA-TAGCCATTGGGCCA
*
183621 AATGTATTGATA
1 ATTGTATTGATA
183633 TAATATTGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.08
42 4 0.08
43 40 0.83
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (43 bp):
ATTGTATTGATACATTGCATTTGAAAAAATAGCCATTGGGCCA
Found at i:183768 original size:20 final size:21
Alignment explanation
Indices: 183725--183795 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 21
183715 GCCAATGACT
183725 TGTATCGATACATTTACATAA
1 TGTATCGATACATTTACATAA
*
183746 TGTATCGATATA-TTACA-ATA
1 TGTATCGATACATTTACATA-A
* *
183766 TGTATCGATACATTTTCAT-G
1 TGTATCGATACATTTACATAA
183786 TGTATCGATA
1 TGTATCGATA
183796 GAAATGAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.02
20 27 0.63
21 15 0.35
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATTTACATAA
Found at i:187996 original size:24 final size:24
Alignment explanation
Indices: 187919--188000 Score: 73
Period size: 30 Copynumber: 3.3 Consensus size: 24
187909 TGATACATTG
187919 AAAAATGTATCGATACATCTAGGT
1 AAAAATGTATCGATACATCTAGGT
187943 AAAAGACAGAATGTATCGATACAT-T--G-
1 ---A-A-A-AATGTATCGATACATCTAGGT
*
187969 AAAAATGTAACGATACATCTAGGT
1 AAAAATGTATCGATACATCTAGGT
187993 AAAAATGT
1 AAAAATGT
188001 GACTTTTTCC
Statistics
Matches: 47, Mismatches: 1, Indels: 17
0.72 0.02 0.26
Matches are distributed among these distances:
20 14 0.30
21 2 0.04
22 1 0.02
23 2 0.04
24 8 0.17
27 2 0.04
28 1 0.02
29 2 0.04
30 15 0.32
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAAATGTATCGATACATCTAGGT
Found at i:188752 original size:28 final size:28
Alignment explanation
Indices: 188688--189154 Score: 575
Period size: 28 Copynumber: 16.6 Consensus size: 28
188678 GTTGCCACCA
* **
188688 ACTTGTGTGGCTTTAGAGAAGGTTGCCACCA
1 ACTTGTG-GGCTTT-GA-AAGGATGCCACTG
* *
188719 ACTTGTGGGCTTTAAAAGGATGCCATTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
188747 ATTTGTGGGCTTTGAAAGG-TGCCACTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
188774 ACTTGTGGGCTTTAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
188802 ACTTGTAGGCTTTGAAAGGGA-GCCAC-A
1 ACTTGTGGGCTTTGAAA-GGATGCCACTG
* * *
188829 ATTTGTGGGCTTTGAAAGGGTGCCACTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
188857 ACTTGTATGGGC-TT-AAAGGGGTGCCACTG
1 ACTTG--TGGGCTTTGAAA-GGATGCCACTG
*
188886 ACTTGTGGGCTTTGAAAGGATGCCACTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
188914 ACATGTGGGCTTTGAAAGGATGCCACTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
188942 ACTTGTGGGCTTTGAAAGGATGCTACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
188970 ACTTGTGGGCTTTGAAAGGTTGCCAATG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* * *
188998 ACATATGGGCTTTGAAAGGATGCTACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
189026 ACTTGTGGGCTTTGAAAGGTTGCCAATG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
189054 ACTTGTGGGCTTTGGAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
189082 ACATGTGGGCTTTGAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
189110 ACTTGTGGGCTTTGAAAGGATACCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
189138 ACTTGTGGGCTTTGAAA
1 ACTTGTGGGCTTTGAAA
189155 AGGGTCGTAT
Statistics
Matches: 380, Mismatches: 47, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.01
27 48 0.13
28 289 0.76
29 23 0.06
30 11 0.03
31 7 0.02
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (28 bp):
ACTTGTGGGCTTTGAAAGGATGCCACTG
Found at i:190449 original size:13 final size:13
Alignment explanation
Indices: 190431--190455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190421 CATTATGCTT
190431 TGTATCGATACAA
1 TGTATCGATACAA
190444 TGTATCGATACA
1 TGTATCGATACA
190456 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:190486 original size:20 final size:20
Alignment explanation
Indices: 190440--190496 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
190430 TTGTATCGAT
*
190440 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
190459 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
190478 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
190497 AAACTAGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:195541 original size:13 final size:13
Alignment explanation
Indices: 195523--195548 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
195513 ACAATATTCT
195523 TTGTATCGATACA
1 TTGTATCGATACA
195536 TTGTATCGATACA
1 TTGTATCGATACA
195549 AGGGTTACTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:197490 original size:23 final size:23
Alignment explanation
Indices: 197447--197491 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
197437 TTGTAACCGA
*
197447 TTATCAAGGGGGAAAAATTTTTT
1 TTATCAAGAGGGAAAAATTTTTT
197470 TTATCAA-AGGG-AAAATTTTTT
1 TTATCAAGAGGGAAAAATTTTTT
197491 T
1 T
197492 AACGAAAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
22 3 0.14
23 7 0.33
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.42
Consensus pattern (23 bp):
TTATCAAGAGGGAAAAATTTTTT
Found at i:197499 original size:21 final size:21
Alignment explanation
Indices: 197460--197499 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
197450 TCAAGGGGGA
*
197460 AAAATTTTTTTTATCAAAGGG
1 AAAATTTTTTTTAACAAAGGG
197481 AAAA-TTTTTTTAACGAAAG
1 AAAATTTTTTTTAAC-AAAG
197500 CCTTAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (21 bp):
AAAATTTTTTTTAACAAAGGG
Found at i:198063 original size:13 final size:13
Alignment explanation
Indices: 198045--198069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
198035 CATTATGCTT
198045 TGTATCGATACAA
1 TGTATCGATACAA
198058 TGTATCGATACA
1 TGTATCGATACA
198070 TATTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:198082 original size:19 final size:20
Alignment explanation
Indices: 198054--198109 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
198044 TTGTATCGAT
*
198054 ACAA-TGTATCGATACATAT
1 ACAATTGTATCGATACATAG
* *
198073 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATAG
198092 ACAATTGTATCGATACAT
1 ACAATTGTATCGATACAT
198110 GAAACTAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
ACAATTGTATCGATACATAG
Found at i:198085 original size:32 final size:33
Alignment explanation
Indices: 198024--198088 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
198014 AAACACCTAG
*
198024 ATGTATCAATACATTATGCTTTGTATCGATACA
1 ATGTATCAATACATTATGCATTGTATCGATACA
* *
198057 ATGTATCGATACA-TATTCATTGTATCGATACA
1 ATGTATCAATACATTATGCATTGTATCGATACA
198089 TGGACAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (33 bp):
ATGTATCAATACATTATGCATTGTATCGATACA
Found at i:198100 original size:20 final size:20
Alignment explanation
Indices: 198054--198110 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
198044 TTGTATCGAT
**
198054 ACAA-TGTATCGATACATAT
1 ACAATTGTATCGATACATGG
*
198073 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
198092 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
198111 AAACTAGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
20 16 0.50
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:198182 original size:33 final size:33
Alignment explanation
Indices: 198140--198204 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
198130 TACCACTGTT
198140 TGTATCGATACATG-GGACATTGTATCAATACAA
1 TGTATCGATACATGAGGA-ATTGTATCAATACAA
* *
198173 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGAGGAATTGTATCAATACA
198205 TTGCTTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGAGGAATTGTATCAATACAA
Found at i:198542 original size:44 final size:45
Alignment explanation
Indices: 198475--198568 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
198465 GCCTTTGCAT
*
198475 TCATTATTGTTATTTTTCGAAAGCTCTTTTGTATTTGTTTTGAG-
1 TCATTATTGTTATTTTTCGAAAGCTCTTTTGTATTTGTTCTGAGC
* * **
198519 TCATTGTTGTTTTTTTTTTAAAGCTCTTTTGTATTTGTTCTGAGC
1 TCATTATTGTTATTTTTCGAAAGCTCTTTTGTATTTGTTCTGAGC
198564 TCATT
1 TCATT
198569 CTTTCACAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 39 0.89
45 5 0.11
ACGTcount: A:0.16, C:0.11, G:0.15, T:0.59
Consensus pattern (45 bp):
TCATTATTGTTATTTTTCGAAAGCTCTTTTGTATTTGTTCTGAGC
Found at i:198564 original size:21 final size:21
Alignment explanation
Indices: 198496--198565 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
198486 ATTTTTCGAA
198496 AGCTCTTTTGTATTTGTTTTG
1 AGCTCTTTTGTATTTGTTTTG
* * *
198517 AG-TCATTGTTGTTTTTTTTTTAA
1 AGCTC-TT-TTGTATTTGTTTT-G
*
198540 AGCTCTTTTGTATTTGTTCTG
1 AGCTCTTTTGTATTTGTTTTG
198561 AGCTC
1 AGCTC
198566 ATTCTTTCAC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
20 2 0.05
21 9 0.24
22 21 0.55
23 4 0.11
24 2 0.05
ACGTcount: A:0.13, C:0.11, G:0.17, T:0.59
Consensus pattern (21 bp):
AGCTCTTTTGTATTTGTTTTG
Found at i:225009 original size:13 final size:13
Alignment explanation
Indices: 224991--225016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
224981 ACAATATTCT
224991 TTGTATCGATACA
1 TTGTATCGATACA
225004 TTGTATCGATACA
1 TTGTATCGATACA
225017 AGGTTACTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:226968 original size:20 final size:21
Alignment explanation
Indices: 226927--226968 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
226917 TATCAAGGGT
*
226927 GGAAAATTTTTTTTATCAAAA
1 GGAAAATTTTTTTTAACAAAA
*
226948 GGAAAA-TTTTTTTAACGAAA
1 GGAAAATTTTTTTTAACAAAA
226968 G
1 G
226969 CCTTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (21 bp):
GGAAAATTTTTTTTAACAAAA
Found at i:227584 original size:19 final size:19
Alignment explanation
Indices: 227526--227584 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
227516 TGTAATCGAT
227526 ACAA-TGTATCGATACAT-
1 ACAATTGTATCGATACATG
227543 ATTC-ATTGTA-CGATACATGG
1 A--CAATTGTATCGATACAT-G
227563 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
227582 ACA
1 ACA
227585 CTAGCAGTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
17 1 0.03
18 10 0.29
19 15 0.43
20 9 0.26
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (19 bp):
ACAATTGTATCGATACATG
Found at i:227655 original size:33 final size:33
Alignment explanation
Indices: 227613--227677 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
227603 TACCACTGTT
227613 TGTATCGATACATG-GGACATTGTATCAATACAA
1 TGTATCGATACATGAGGA-ATTGTATCAATACAA
* *
227646 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGAGGAATTGTATCAATACA
227678 TTGCTTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGAGGAATTGTATCAATACAA
Found at i:227999 original size:44 final size:46
Alignment explanation
Indices: 227945--228039 Score: 131
Period size: 45 Copynumber: 2.1 Consensus size: 46
227935 GCTTTGCAAT
*
227945 TCATTATTG-TTATTTTTCGAAAGCTCTTTTGTATTTGTTTTGAG-
1 TCATTATTGTTTATTTTTCGAAAGCTCTTTTGTATTTGTTCTGAGC
* * **
227989 TCATTGTTGTTTTTTTTTTTAAAGCTCTTTTGTATTTGTTCTGAGC
1 TCATTATTGTTTATTTTTCGAAAGCTCTTTTGTATTTGTTCTGAGC
228035 TCATT
1 TCATT
228040 CTTTCACAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 8 0.18
45 31 0.70
46 5 0.11
ACGTcount: A:0.16, C:0.11, G:0.15, T:0.59
Consensus pattern (46 bp):
TCATTATTGTTTATTTTTCGAAAGCTCTTTTGTATTTGTTCTGAGC
Found at i:228035 original size:21 final size:21
Alignment explanation
Indices: 227966--228036 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 21
227956 ATTTTTCGAA
227966 AGCTCTTTTGTATTTGTTTTG
1 AGCTCTTTTGTATTTGTTTTG
* * *
227987 AG-TCATTGTTGTTTTTTTTTTTAA
1 AGCTC-TT-TTG-TATTTGTTTT-G
*
228011 AGCTCTTTTGTATTTGTTCTG
1 AGCTCTTTTGTATTTGTTTTG
228032 AGCTC
1 AGCTC
228037 ATTCTTTCAC
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
20 2 0.05
21 9 0.24
22 10 0.26
23 11 0.29
24 4 0.11
25 2 0.05
ACGTcount: A:0.13, C:0.11, G:0.17, T:0.59
Consensus pattern (21 bp):
AGCTCTTTTGTATTTGTTTTG
Found at i:242607 original size:50 final size:50
Alignment explanation
Indices: 242549--242703 Score: 186
Period size: 50 Copynumber: 2.9 Consensus size: 50
242539 TTTTAACTAG
242549 ATGTATCGATACATTGAAAATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAAATGTATCGATACATCTGGGTAAAAAGACAGA
*
242599 ATGTATCGATACATCTAGGTAAAAGACAGAATGTATCGATACATCTAGGT-AAAAGACAGA
1 ATGTATCGATACA--T---T----GA-A-AATGTATCGATACATCTGGGTAAAAAGACAGA
242659 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATTG-AAAATGTATCGATACATCTGGGTAAAAA
242704 TGTGACTTGT
Statistics
Matches: 90, Mismatches: 2, Indels: 25
0.77 0.02 0.21
Matches are distributed among these distances:
50 33 0.37
51 6 0.07
52 2 0.02
55 2 0.02
58 1 0.01
59 2 0.02
60 24 0.27
61 20 0.22
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAATGTATCGATACATCTGGGTAAAAAGACAGA
Found at i:242625 original size:30 final size:30
Alignment explanation
Indices: 242567--242672 Score: 194
Period size: 30 Copynumber: 3.5 Consensus size: 30
242557 ATACATTGAA
*
242567 AATGTATCGATACATCTGGGTAAAAAGACAG
1 AATGTATCGATACATCTAGGT-AAAAGACAG
242598 AATGTATCGATACATCTAGGTAAAAGACAG
1 AATGTATCGATACATCTAGGTAAAAGACAG
242628 AATGTATCGATACATCTAGGTAAAAGACAG
1 AATGTATCGATACATCTAGGTAAAAGACAG
242658 AATGTATCGATACAT
1 AATGTATCGATACAT
242673 TGAAAAATGT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
30 54 0.73
31 20 0.27
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (30 bp):
AATGTATCGATACATCTAGGTAAAAGACAG
Found at i:244570 original size:92 final size:92
Alignment explanation
Indices: 244412--244932 Score: 559
Period size: 92 Copynumber: 5.7 Consensus size: 92
244402 AGAAAGTGCA
* * * * *
244412 AACCACATATTCCCAATCATATCCCCTTCATCCAACTACTAGATGGTACTGATGCATCACATAGC
1 AACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGC
* * * *
244477 CTATTTTCCTTAGGGCAAGGATATCCC
66 CTAGTTTCCTTAGGGTAAGGACATCCT
* *
244504 AACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAAATGGTATTAATGCATCACAAAGC
1 AACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGC
* * * * *
244569 CTAATTTCCTAAAGGTAGGGACATCTT
66 CTAGTTTCCTTAGGGTAAGGACATCCT
* * * *
244596 GACCACATATTCCCAATCATAAC-CCTTTCATCCAACCACTAGATGGTATTGATGCATCACAGAG
1 AACCACACATTCCCAATCATATCTCC-TTCATCCAACCACTAGATGGTATTGATGCATCACAAAG
* * *
244660 -CTTGATTT-CTTAGGGCCAAGGACATCCC
65 CCTAG-TTTCCTTAGGG-TAAGGACATCCT
* * * *
244688 AACCACACATTCCCAATCATATACT-TTTCATCAAACCACTAGATGGTATTGATGTATTACAAAG
1 AACCACACATTCCCAATCATAT-CTCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAG
* *
244752 CCTGGTTTCCTTAGGGTAAAGACATCCT
65 CCTAGTTTCCTTAGGGTAAGGACATCCT
* * * *
244780 GACCACACATTCCCAATCATATCAT-TTTCATCCAATCACTAGATGGTATTGATGCATCATAAAG
1 AACCACACATTCCCAATCATATC-TCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAG
* * * *
244844 CCTGGTTTCCTTGGGGTAAAGATATCCT
65 CCTAGTTTCCTTAGGGTAAGGACATCCT
* * ** * *
244872 AGCCACACATTCCTAATCATATC-CCTTCATTTTAGCCATTAGATGGTATTGATGCATCACA
1 AACCACACATTCCCAATCATATCTCCTTCA-TCCAACCACTAGATGGTATTGATGCATCACA
244933 TCACCACAAA
Statistics
Matches: 360, Mismatches: 59, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
91 14 0.04
92 335 0.93
93 11 0.03
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (92 bp):
AACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGC
CTAGTTTCCTTAGGGTAAGGACATCCT
Found at i:244917 original size:184 final size:182
Alignment explanation
Indices: 244413--244932 Score: 621
Period size: 184 Copynumber: 2.8 Consensus size: 182
244403 GAAAGTGCAA
* * *
244413 ACCACATATTCCCAATCATATCCCCTTCATCCAACTACTAGATGGTACTGATGCATCACATAGCC
1 ACCACATATTCCCAATCATATCCCTTTCATCCAAC-ACTAGATGGTATTGATGCATCACAAAGCC
* *
244478 T-ATTTTCCTTAGGGCAAGGATATCCCAACCACACATTCCCAATCATATCTCCTTCATCCAACCA
65 TGA-TTTCCTTGGGGCAAGGATATCCCAACCACACATTCCCAATCATATC-CCTTCATCAAACCA
* * ** *
244542 CTAAATGGTATTAATGCATCACAAAGCCTAATTTCCTAAAGGTAGGGACATCTTG
128 CTAGATGGTATTGATGCATCACAAAGCCTAATTTCCTAAAGGTAAAGACATCCTG
* * *
244597 ACCACATATTCCCAATCATAACCCTTTCATCCAACCACTAGATGGTATTGATGCATCACAGAGCT
1 ACCACATATTCCCAATCATATCCCTTTCATCCAA-CACTAGATGGTATTGATGCATCACAAAGCC
* * **
244662 TGATTT-CTTAGGGCCAAGGACATCCCAACCACACATTCCCAATCATATACTTTTCATCAAACCA
65 TGATTTCCTT-GGGGCAAGGATATCCCAACCACACATTCCCAATCATAT-CCCTTCATCAAACCA
* * ** * *
244726 CTAGATGGTATTGATGTATTACAAAGCCTGGTTTCCTTAGGGTAAAGACATCCTG
128 CTAGATGGTATTGATGCATCACAAAGCCTAATTTCCTAAAGGTAAAGACATCCTG
* ** *
244781 ACCACACATTCCCAATCATATCATTTTCATCCAATCACTAGATGGTATTGATGCATCATAAAGCC
1 ACCACATATTCCCAATCATATCCCTTTCATCCAA-CACTAGATGGTATTGATGCATCACAAAGCC
* * * * * * ** * *
244846 TGGTTTCCTTGGGGTAAAGATATCCTAGCCACACATTCCTAATCATATCCCTTCATTTTAGCCAT
65 TGATTTCCTTGGGGCAAGGATATCCCAACCACACATTCCCAATCATATCCCTTCA-TCAAACCAC
244911 TAGATGGTATTGATGCATCACA
129 TAGATGGTATTGATGCATCACA
244933 TCACCACAAA
Statistics
Matches: 284, Mismatches: 46, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
183 8 0.03
184 270 0.95
185 6 0.02
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (182 bp):
ACCACATATTCCCAATCATATCCCTTTCATCCAACACTAGATGGTATTGATGCATCACAAAGCCT
GATTTCCTTGGGGCAAGGATATCCCAACCACACATTCCCAATCATATCCCTTCATCAAACCACTA
GATGGTATTGATGCATCACAAAGCCTAATTTCCTAAAGGTAAAGACATCCTG
Found at i:244917 original size:276 final size:276
Alignment explanation
Indices: 244412--244932 Score: 652
Period size: 276 Copynumber: 1.9 Consensus size: 276
244402 AGAAAGTGCA
* * * * *
244412 AACCACATATTCCCAATCATATCCCCTTCATCCAACTACTAGATGGTACTGATGCATCACATAGC
1 AACCACACATTCCCAATCATATACCCTTCATCAAACCACTAGATGGTACTGATGCATCACAAAGC
* * *
244477 CTATTTTCCTTAGGGCAAGGATATCCCAACCACACATTCCCAATCATATCTCCTTCATCCAACCA
66 CTAGTTTCCTTAGGGCAAAGACATCCCAACCACACATTCCCAATCATATCTCCTTCATCCAACCA
** * *
244542 CTAAATGGTATTAATGCATCACAAAGCCTAATTTCCTAAAGGTAGGGACATCTTGACCACATATT
131 CTAAATGGTATTAATGCATCACAAAGCCTAATTTCCTAAAGGTAAAGACATCTAGACCACACATT
244607 CCCAATCATAACCCTTTCATCCAACCACTAGATGGTATTGATGCATCACAGAGCTTGATTTCTTA
196 CCCAATCATAACCCTTTCATCCAACCACTAGATGGTATTGATGCATCACAGAGCTTGATTTCTTA
244672 GGGCCAAGGACATCCC
261 GGGCCAAGGACATCCC
** * * *
244688 AACCACACATTCCCAATCATATACTTTTCATCAAACCACTAGATGGTATTGATGTATTACAAAGC
1 AACCACACATTCCCAATCATATACCCTTCATCAAACCACTAGATGGTACTGATGCATCACAAAGC
* * ** * *
244753 CTGGTTTCCTTAGGGTAAAGACATCCTGACCACACATTCCCAATCATATCAT-TTTCATCCAATC
66 CTAGTTTCCTTAGGGCAAAGACATCCCAACCACACATTCCCAATCATATC-TCCTTCATCCAACC
* * * ** *** *
244817 ACTAGATGGTATTGATGCATCATAAAGCCTGGTTTCCTTGGGGTAAAGATATCCTAG-CCACACA
130 ACTAAATGGTATTAATGCATCACAAAGCCTAATTTCCTAAAGGTAAAGACAT-CTAGACCACACA
* * ** * *
244881 TTCCTAATCATATCCC-TTCATTTTAGCCATTAGATGGTATTGATGCATCACA
194 TTCCCAATCATAACCCTTTCA-TCCAACCACTAGATGGTATTGATGCATCACA
244933 TCACCACAAA
Statistics
Matches: 204, Mismatches: 38, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
275 4 0.02
276 196 0.96
277 4 0.02
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (276 bp):
AACCACACATTCCCAATCATATACCCTTCATCAAACCACTAGATGGTACTGATGCATCACAAAGC
CTAGTTTCCTTAGGGCAAAGACATCCCAACCACACATTCCCAATCATATCTCCTTCATCCAACCA
CTAAATGGTATTAATGCATCACAAAGCCTAATTTCCTAAAGGTAAAGACATCTAGACCACACATT
CCCAATCATAACCCTTTCATCCAACCACTAGATGGTATTGATGCATCACAGAGCTTGATTTCTTA
GGGCCAAGGACATCCC
Found at i:245538 original size:45 final size:45
Alignment explanation
Indices: 245483--245656 Score: 120
Period size: 45 Copynumber: 3.8 Consensus size: 45
245473 GTATTTGGTA
* *
245483 AAACTATTTTCACTACAATTTGACATGATGGTTCTTGCACTAGTT
1 AAACTCTTTTCACTACTATTTGACATGATGGTTCTTGCACTAGTT
* * * *
245528 AAACTCTTTTC-TTCCTTGTTTGACATGATGGTTCTT--ATTATGGTT
1 AAACTCTTTTCACTAC-TATTTGACATGATGGTTCTTGCACTA--GTT
* * * ** * * *
245573 AAACATCTTTTCATTCCGATTTGATGTGATGGTTCTTGCCCAAGTC
1 AAAC-TCTTTTCACTACTATTTGACATGATGGTTCTTGCACTAGTT
* * * * *
245619 AAGCCCTTCTCACTACTATTTGACGTGATAGTTCTTGC
1 AAACTCTTTTCACTACTATTTGACATGATGGTTCTTGC
245657 CATTGTCAAA
Statistics
Matches: 100, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
43 3 0.03
44 2 0.02
45 62 0.62
46 28 0.28
47 4 0.04
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (45 bp):
AAACTCTTTTCACTACTATTTGACATGATGGTTCTTGCACTAGTT
Found at i:245908 original size:81 final size:81
Alignment explanation
Indices: 245632--245956 Score: 262
Period size: 81 Copynumber: 4.0 Consensus size: 81
245622 CCCTTCTCAC
* * * * *** *
245632 TACTATTTGACGTGATAGTTCTTGCCATT-GTCAAACAACTTTTCATTATTGTTTAACTGTATCT
1 TACTGTTTGACATAATAGTTCTTGCC-TTGGTCAAACATCTTTTCATTACCATTTAACTATATCT
245696 AGTCAAACTCTTTTCAT
65 AGTCAAACTCTTTTCAT
* * ** * * * * * * ** * * * *
245713 TACCGTTTGACTTGGTGGTCCCTACCTTGGTCGAACATGTTTTCATCCCCATTTGACTGTATTTG
1 TACTGTTTGACATAATAGTTCTTGCCTTGGTCAAACATCTTTTCATTACCATTTAACTATATCTA
* *
245778 GTTAAACTCCTTTTTAT
66 GTCAAACT-CTTTTCAT
* * * * * *
245795 TACT-TCTTGACATAATGGTTATTGCCTTGGTCAAACATCTATTCATTATCGTTTGACTATATCT
1 TACTGT-TTGACATAATAGTTCTTGCCTTGGTCAAACATCTTTTCATTACCATTTAACTATATCT
*
245859 AGTCAAACTTTTTTCAT
65 AGTCAAACTCTTTTCAT
*
245876 TACTGTTTGACATAATAGTTCTTGCAC-TGGTCAAACATCTTTTCA-TCCCTATTTAACTATATC
1 TACTGTTTGACATAATAGTTCTTGC-CTTGGTCAAACATCTTTTCATTACC-ATTTAACTATATC
*
245939 TGGTCAAACTCTTTTCAT
64 TAGTCAAACTCTTTTCAT
245957 CCTCGTTTGA
Statistics
Matches: 187, Mismatches: 51, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
80 4 0.02
81 122 0.65
82 61 0.33
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (81 bp):
TACTGTTTGACATAATAGTTCTTGCCTTGGTCAAACATCTTTTCATTACCATTTAACTATATCTA
GTCAAACTCTTTTCAT
Found at i:247633 original size:166 final size:166
Alignment explanation
Indices: 247298--247667 Score: 415
Period size: 166 Copynumber: 2.2 Consensus size: 166
247288 ATCAGCTTTA
*
247298 AAAAATTGATTTATTTTTATGAGTTTTTCATTTTTTTCCTTGAAATTCTCATATTTATAAAAAAA
1 AAAAATTCATTTATTTTTATGAG-TTTTCA-TTTTTTCCTTGAAATTCTCATATTTATAAAAAAA
* * ** **
247363 TCGAGTTTTCTTATTCCATAAATGTTTTCAAGGGGTTTTTCTCGGTTCAAAATTTTTAATACTCA
64 TCGAATTTTCTTATTCAATAAATGTTTTCAAGGAATTTTTCTCAATTCAAAATTTTTAATACTCA
* *
247428 TCAAATATCATCATTTAAATCATCGTAAATTAATTTTG
129 TCAAATATCATCATTGAAATCATAGTAAATTAATTTTG
* * **
247466 AAAAATTCATTTATTTTTCATGAGTTTTCATTTTTTCTTTGAAATTCTCCTATTT-TTGAAAAAT
1 AAAAATTCATTTATTTTT-ATGAGTTTTCATTTTTTCCTTGAAATTCTCATATTTATAAAAAAAT
* ** * *
247530 TGAATTTTC-TATTCAATAAATGTTTTTGAGGTAATTTTTCTCAATTTAAAATTTTTACA-ATTC
65 CGAATTTTCTTATTCAATAAATGTTTTCAAGG-AATTTTTCTCAATTCAAAATTTTTA-ATACTC
* ** * * * *
247593 ATCTAATATTGTCATTGAATTCTTATTAAATTACTTTTG
128 ATCAAATATCATCATTGAAATCATAGTAAATTAATTTTG
*
247632 AAAAATTCAATTTATTTTT-TGAGTTTTGAATTTTTT
1 AAAAATTC-ATTTATTTTTATGAGTTTT-CATTTTTT
247668 TGTATTTATT
Statistics
Matches: 171, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
165 27 0.16
166 82 0.48
167 34 0.20
168 23 0.13
169 5 0.03
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.50
Consensus pattern (166 bp):
AAAAATTCATTTATTTTTATGAGTTTTCATTTTTTCCTTGAAATTCTCATATTTATAAAAAAATC
GAATTTTCTTATTCAATAAATGTTTTCAAGGAATTTTTCTCAATTCAAAATTTTTAATACTCATC
AAATATCATCATTGAAATCATAGTAAATTAATTTTG
Found at i:247800 original size:5 final size:5
Alignment explanation
Indices: 247792--247827 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
247782 TTTTTTTGAA
247792 TATTT TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT T
247828 TTCGGCTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:248170 original size:12 final size:12
Alignment explanation
Indices: 248139--248184 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
248129 TTTGGCAAGT
248139 AGAAAGAAAAA-
1 AGAAAGAAAAAG
*
248150 AGAGTAGAAAAAG
1 AGA-AAGAAAAAG
248163 AGAAAGAAAAAG
1 AGAAAGAAAAAG
248175 A-AAAGAAAAA
1 AGAAAGAAAAA
248185 TAAGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 12 0.39
12 16 0.52
13 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:248184 original size:24 final size:23
Alignment explanation
Indices: 248139--248203 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
248129 TTTGGCAAGT
**
248139 AGAAAGAAAAAAGAGTAGAAAA-A
1 AGAAAG-AAAAAGAAAAGAAAATA
248162 GAGAAAGAAAAAGAAAAGAAAAATA
1 -AGAAAGAAAAAGAAAAG-AAAATA
*
248187 AGAAAAAAATAAGAAAA
1 AGAAAGAAA-AAGAAAA
248204 AAAGGCTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 9 0.26
24 18 0.51
25 8 0.23
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (23 bp):
AGAAAGAAAAAGAAAAGAAAATA
Found at i:248191 original size:20 final size:20
Alignment explanation
Indices: 248166--248204 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
248156 GAAAAAGAGA
248166 AAGAAAAAGAA-AAGAAAAAT
1 AAGAAAAA-AATAAGAAAAAT
248186 AAGAAAAAAATAAGAAAAA
1 AAGAAAAAAATAAGAAAAA
248205 AAGGCTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (20 bp):
AAGAAAAAAATAAGAAAAAT
Found at i:248194 original size:11 final size:11
Alignment explanation
Indices: 248180--248206 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
248170 AAAAGAAAAG
248180 AAAAATAAGAA
1 AAAAATAAGAA
248191 AAAAATAAGAA
1 AAAAATAAGAA
248202 AAAAA
1 AAAAA
248207 GGCTAAACTC
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:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAATAAGAA
Found at i:249902 original size:3 final size:3
Alignment explanation
Indices: 249894--249924 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
249884 CCAAATAGAA
*
249894 TAG TAG TAG TAG TAG TCG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
249925 GAAAAGCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.03, G:0.32, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:252214 original size:13 final size:13
Alignment explanation
Indices: 252196--252221 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
252186 TACAGCAAGT
252196 ATGTATCGATACA
1 ATGTATCGATACA
252209 ATGTATCGATACA
1 ATGTATCGATACA
252222 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:256722 original size:21 final size:21
Alignment explanation
Indices: 256697--256748 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
256687 TTGTATAAAT
256697 TTTGTATTAAAGGGAAGAACA
1 TTTGTATTAAAGGGAAGAACA
256718 TTTGTATTAAAGGGAAGAACA
1 TTTGTATTAAAGGGAAGAACA
256739 TTTGTATTAA
1 TTTGTATTAA
256749 GGGGGAGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (21 bp):
TTTGTATTAAAGGGAAGAACA
Found at i:259670 original size:13 final size:13
Alignment explanation
Indices: 259634--259670 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
259624 CTGATGATGA
259634 TGATTTTGTGC-T
1 TGATTTTGTGCTT
259646 TG-TTTT-TGCTT
1 TGATTTTGTGCTT
259657 TGATTTTGTGCTT
1 TGATTTTGTGCTT
259670 T
1 T
259671 TTAAGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.14
11 7 0.32
12 6 0.27
13 6 0.27
ACGTcount: A:0.05, C:0.08, G:0.22, T:0.65
Consensus pattern (13 bp):
TGATTTTGTGCTT
Found at i:260432 original size:167 final size:166
Alignment explanation
Indices: 260257--260558 Score: 437
Period size: 167 Copynumber: 1.8 Consensus size: 166
260247 AGCAAAATTG
* * *
260257 AATTTTAATCATTCTTTTTAATCTTTTATATTCTTATGGGAGTCCGTAGGGGTATAAAAGATTTT
1 AATTTTAATCATCCTTTTTAATCTTTTATATTCCTATAGGAGTCCGTAGGGGTATAAAAGATTTT
* *
260322 CAAAACTTTTCGCATATTTTCGAGCT-TCCATTAAGGTACGAAATGATATTTTTC-GAAATTAAA
66 CAAAACTTTTCACATATTTTC-AGCTCTCCATTAAGGT-CGAAATGA-ATTTTTCAAAAATTAAA
*
260385 TAAATAAATAACTAAATTTAAACTTTTATAACCAGAATA
128 AAAATAAATAACTAAATTTAAACTTTTATAACCAGAATA
* *** *
260424 AATTTTAATTATCCTTTTTAATCTTTTATATTCCTATAGTTTTCTGTAGGGGTATAAAAGATTTT
1 AATTTTAATCATCCTTTTTAATCTTTTATATTCCTATAGGAGTCCGTAGGGGTATAAAAGATTTT
* * *
260489 CAAAACTTTTCATATCTTTTCAGTTCTCCATTAAGGTCGAAATGAATTTTTCAAAAATTAAAAAA
66 CAAAACTTTTCACATATTTTCAGCTCTCCATTAAGGTCGAAATGAATTTTTCAAAAATTAAAAAA
260554 ATAAA
131 ATAAA
260559 AATAAAAATT
Statistics
Matches: 119, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
165 7 0.06
166 26 0.22
167 86 0.72
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (166 bp):
AATTTTAATCATCCTTTTTAATCTTTTATATTCCTATAGGAGTCCGTAGGGGTATAAAAGATTTT
CAAAACTTTTCACATATTTTCAGCTCTCCATTAAGGTCGAAATGAATTTTTCAAAAATTAAAAAA
ATAAATAACTAAATTTAAACTTTTATAACCAGAATA
Found at i:261254 original size:156 final size:156
Alignment explanation
Indices: 260986--261569 Score: 823
Period size: 156 Copynumber: 3.7 Consensus size: 156
260976 TACATTAAAG
* * * * * * * *
260986 GTATCCTCTAGGGGTATTTTTATAACTTTTTAGAACCAACTCCTACA-TCATCACTGGGTCTGCT
1 GTATCCCCTAGGGGCATTTTCATAATTTTTTAGAATCAACTCCTA-AGTTATAACTGGGTCCGCT
* * * ***
261050 TTTATGCCGAAGATGGTTATTTAGGATAGGTTCATCTAATTTCTAGTCCTTTTTAAGT-CTATAA
65 TTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTCTAGTCCTTTTTAAGTCCT-TAA
* * *
261114 GGGGTACCGAGATACTTTCATGTCGAAG
129 GGGGTACCGGGATACTTTCATGTTGAAA
* * ** * * *
261142 GTATCCCCTAGAGGTATTTTTGTAATTTTTTAGAATCAAGTCCTAAGTTATAACCGGGACCGCTT
1 GTATCCCCTAGGGGCATTTTCATAATTTTTTAGAATCAACTCCTAAGTTATAACTGGGTCCGCTT
*
261207 TTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTCTAGTCCTTTTTAAGTCCTTTAGG
66 TTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTCTAGTCCTTTTTAAGTCCTTAAGG
*
261272 GGTACTGGGATACTTTCATGTTGAAA
131 GGTACCGGGATACTTTCATGTTGAAA
* * *
261298 GTATCTCCTAGGGGCATTTTCATAATTTTTTAGAATCGAGTCCTAAGTTATAACTGGGTCCGCTT
1 GTATCCCCTAGGGGCATTTTCATAATTTTTTAGAATCAACTCCTAAGTTATAACTGGGTCCGCTT
* *
261363 TTATGCCGAAGGTGAGTATTTAGAATAGGTTCACCCCTTTTCTAGTCCTTTTTAAGTCCTTTAA-
66 TTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTCTAGTCCTTTTTAAGTCC-TTAAG
261427 GGGTACCGGGATACTTTCATGTTGAAA
130 GGGTACCGGGATACTTTCATGTTGAAA
*
261454 GTATCCCCTAGGGGCATTTTCATAATTTTTTAGAATCAACTCCTAAGTTATAACTGGGTCCGGTT
1 GTATCCCCTAGGGGCATTTTCATAATTTTTTAGAATCAACTCCTAAGTTATAACTGGGTCCGCTT
*
261519 TTATGCCGAAGGTGGGTATTTAGGATAGGTTCTCCCCTTTTCTAGTCCTTT
66 TTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTCTAGTCCTTT
261570 AGGGGCACCG
Statistics
Matches: 384, Mismatches: 41, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
155 1 0.00
156 378 0.98
157 5 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (156 bp):
GTATCCCCTAGGGGCATTTTCATAATTTTTTAGAATCAACTCCTAAGTTATAACTGGGTCCGCTT
TTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTCTAGTCCTTTTTAAGTCCTTAAGG
GGTACCGGGATACTTTCATGTTGAAA
Found at i:261760 original size:221 final size:221
Alignment explanation
Indices: 261377--261786 Score: 599
Period size: 221 Copynumber: 1.9 Consensus size: 221
261367 GCCGAAGGTG
* *
261377 AGTATTTAGAATAGGTTCACCCCTTTTCTAGTCCTTTTTAAGTCCTTTAAGGGTACCGGGATACT
1 AGTATTTAGAATAGGTTCACCCCATTTCTAGTCCTTTTTAAGTCCTTTAAGGGTACCGAGATACT
* * * *
261442 TTCATGTTGAAAGTATCCCCTAGGGGCATTTTCATAATTTTTTAGAATCAACTCCTAAGTTATAA
66 TTCACGTCGAAAGTATCCCCTAAGGGCATTTTCATAATTTTTTAGAACCAACTCCTAAGTTATAA
* * * * *
261507 CTGGGTCCGGTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCTCCCCTTTTCTAGTCCTTTAG
131 CTGGGTCCGCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCACCCCTGTTATAGTCCTTTAG
261572 GGGCACCGAGAAACTTTCACGTCGAA
196 GGGCACCGAGAAACTTTCACGTCGAA
* *
261598 AGTATTTAGGATAGGTTCATCCCATTTCTAGTCCTTTTTAAGTCCTTT-AGGTGTACCGAGATAC
1 AGTATTTAGAATAGGTTCACCCCATTTCTAGTCCTTTTTAAGTCCTTTAAGG-GTACCGAGATAC
* * * * *
261662 TTTCACGTCGAAAGTAT-CCCTCAAGGGCATTTTCATATTTTTTTAGAACCGAGTCCTAGGTTGT
65 TTTCACGTCGAAAGTATCCCCT-AAGGGCATTTTCATAATTTTTTAGAACCAACTCCTAAGTTAT
***
261726 CGTTGGGTCCGCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCACCCCTGTTATAGTC
129 AACTGGGTCCGCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCACCCCTGTTATAGTC
261787 ATTTTTATGT
Statistics
Matches: 166, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
220 7 0.04
221 159 0.96
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (221 bp):
AGTATTTAGAATAGGTTCACCCCATTTCTAGTCCTTTTTAAGTCCTTTAAGGGTACCGAGATACT
TTCACGTCGAAAGTATCCCCTAAGGGCATTTTCATAATTTTTTAGAACCAACTCCTAAGTTATAA
CTGGGTCCGCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCACCCCTGTTATAGTCCTTTAG
GGGCACCGAGAAACTTTCACGTCGAA
Found at i:261893 original size:156 final size:155
Alignment explanation
Indices: 261599--262417 Score: 754
Period size: 156 Copynumber: 5.3 Consensus size: 155
261589 CACGTCGAAA
* * * * * *
261599 GTATTTAGGATAGGTTCATCCCATTTCTAGTCCTTTTTAAGTCCTTTAGGTGTACCGAGATACTT
1 GTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCCTTTAGGGGTATCGGGATACTT
* * * * * * * *
261664 TCACGTCGAAAG-TATCCCTCAAGGGCATTTTCATATTTTTTTAGAACCGAGTCCTAGGTTGTCG
66 TCACGTC-AAAGATATCTCTTAAGGGCTTTTTCGTAATTTTTTAGAATCGAGTCCTAGGTTATCA
**
261728 TTGGGTCCGCTTTTATGCCGAAAGTGG
130 CCGGGTCCGCTTTTATG-CGAAAGTGG
* * *
261755 GTATTTAGGATAGGTTCACCCCTGTTATAGTCATTTTTATGTCCTTTAGGGGTA-CGGTGATACT
1 GTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCCTTTAGGGGTATCGG-GATACT
* * * * *
261819 TTCATGTCGAAGCTATCTCTTATGGGCTTTTTTGTAATTTTTTAGAATCGAGTCCTAGGTTATCA
65 TTCACGTCAAAGATATCTCTTAAGGGCTTTTTCGTAATTTTTTAGAATCGAGTCCTAGGTTATCA
** *
261884 CCGAATCCGCTTTTATGTTGAAAGTGG
130 CCGGGTCCGCTTTTATG-CGAAAGTGG
* * * * **
261911 GTATTGAGGATAGGTTCGCCCCTTTTACAGTCCTTTTTAAGTCTTTTAGGGGTATCAAGATACTT
1 GTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCCTTTAGGGGTATCGGGATACTT
** * * * * * *
261976 TCATATTAAAAAAATC-CTCTAAGAG-TATTTTCGTAATTTTTCAGAA-CTGAGTTCTAGGTTAT
66 TCACGTCAAAGATATCTCT-TAAGGGCT-TTTTCGTAATTTTTTAGAATC-GAGTCCTAGGTTAT
* *
262038 AACCGGGTCC-C-----T--GAAGGTGG
128 CACCGGGTCCGCTTTTATGCGAAAGTGG
* * ** *
262058 GTACTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTGTTTTAGGGGTATCAGG-TACTT
1 GTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCCTTTAGGGGTATCGGGATACTT
* * * * * * *
262122 TTACATCAAAGATATATTTTAAGGGGTATTTTTGTAATTTTTTAGAATCGAGTCCTACGTTATCA
66 TCACGTCAAAGATATCTCTTAAGGGCT-TTTTCGTAATTTTTTAGAATCGAGTCCTAGGTTATCA
* *
262187 CCGGGTTCGCTTTTATGCTAAAGGTGG
130 CCGGGTCCGCTTTTATGCGAAA-GTGG
* *
262214 GTATTGAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCATTTAGGGGTATCGGGATACTT
1 GTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCCTTTAGGGGTATCGGGATACTT
* * * * * * *
262279 TCACGTCAAAGGTAT-TCTCTAAAGGCATTTTCATAATTTTTTAGAATC--GTCTTAAGTTATAA
66 TCACGTCAAAGATATCTCT-TAAGGGCTTTTTCGTAATTTTTTAGAATCGAGTCCTAGGTTATCA
* ** *
262341 CCGAGTCTACTTTTATGCCAAAAGTGG
130 CCGGGTCCGCTTTTATG-CGAAAGTGG
* * * *
262368 GTATTTAGGATAAGTTCATCCCTTTTATAGTCATTTCTAAGTCCTTTAGG
1 GTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCCTTTAGG
262418 CATATCAAGT
Statistics
Matches: 540, Mismatches: 102, Indels: 44
0.79 0.15 0.06
Matches are distributed among these distances:
146 20 0.04
147 99 0.18
148 2 0.00
150 1 0.00
153 1 0.00
154 72 0.13
155 16 0.03
156 306 0.57
157 23 0.04
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (155 bp):
GTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCCTTTAGGGGTATCGGGATACTT
TCACGTCAAAGATATCTCTTAAGGGCTTTTTCGTAATTTTTTAGAATCGAGTCCTAGGTTATCAC
CGGGTCCGCTTTTATGCGAAAGTGG
Found at i:261923 original size:377 final size:377
Alignment explanation
Indices: 261222--261946 Score: 999
Period size: 377 Copynumber: 1.9 Consensus size: 377
261212 CCGAAGGTGG
* * *
261222 GTATTTAGGATAGGTTCACCCCTTTTCTAGTCCTTTTTAAGTCCTTTAGGGGTACTGGGATACTT
1 GTATTTAGGATAGGTTCACCCCATTTCTAGTCCTTTTTAAGTCCTTTAGGGGTACCGAGATACTT
* * * *
261287 TCATGTTGAAAGTATCTCCTAGGGGCATTTTCATAATTTTTTAGAATCGAGTCCTAAGTTATAAC
66 TCACGTCGAAAGTATCTCCTAAGGGCATTTTCATAATTTTTTAGAACCGAGTCCTAAGTTATAAC
* * * *
261352 TGGGTCCGCTTTTATGCCGAAGGTGAGTATTTAGAATAGGTTCACCCCTTTTCTAGTCCTTTTTA
131 TGGGTCCGCTTTTATGCCGAAAGTGAGTATTTAGAATAGGTTCACCCCTGTTATAGTCATTTTTA
*
261417 AGTCCTTTAAGGGTACCGGGATACTTTCATGTTGAAAGTATCCCCTAGGGGCATTTTCATAATTT
196 AGTCCTTTAAGGGTACCGGGATACTTTCATGTCGAAAGTATCCCCTAGGGGCATTTTCATAATTT
* ** * * *
261482 TTTAGAATCAACTCCTAAGTTATAACTGGGTCCGGTTTTATGCCGAAGGTGGGTATTTAGGATAG
261 TTTAGAATCAACTCCTAAGTTATAACCGAATCCGCTTTTATGCCGAAAGTGGGTATTGAGGATAG
*
261547 GTTCTCCCCTTTT-CTAGTCCTTTAGGGGCACCGAGAAACTTTCACGTCGAAA
326 GTTCGCCCCTTTTAC-AGTCCTTTAGGGGCACCGAGAAACTTTCACGTCGAAA
* *
261599 GTATTTAGGATAGGTTCATCCCATTTCTAGTCCTTTTTAAGTCCTTTAGGTGTACCGAGATACTT
1 GTATTTAGGATAGGTTCACCCCATTTCTAGTCCTTTTTAAGTCCTTTAGGGGTACCGAGATACTT
* * * **
261664 TCACGTCGAAAGTATC-CCTCAAGGGCATTTTCATATTTTTTTAGAACCGAGTCCTAGGTTGTCG
66 TCACGTCGAAAGTATCTCCT-AAGGGCATTTTCATAATTTTTTAGAACCGAGTCCTAAGTTATAA
* * *
261728 TTGGGTCCGCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCACCCCTGTTATAGTCATTTTT
130 CTGGGTCCGCTTTTATGCCGAAAGTGAGTATTTAGAATAGGTTCACCCCTGTTATAGTCATTTTT
* * * * * * **
261793 ATGTCCTTTAGGGGTA-CGGTGATACTTTCATGTCG-AAGCTATCTCTTATGGGCTTTTTTGTAA
195 AAGTCCTTTAAGGGTACCGG-GATACTTTCATGTCGAAAG-TATCCCCTAGGGGCATTTTCATAA
* * * * **
261856 TTTTTTAGAATCGAGTCCTAGGTTATCACCGAATCCGCTTTTATGTTGAAAGTGGGTATTGAGGA
258 TTTTTTAGAATCAACTCCTAAGTTATAACCGAATCCGCTTTTATGCCGAAAGTGGGTATTGAGGA
261921 TAGGTTCGCCCCTTTTACAGTCCTTT
323 TAGGTTCGCCCCTTTTACAGTCCTTT
261947 TTAAGTCTTT
Statistics
Matches: 301, Mismatches: 43, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
376 9 0.03
377 291 0.97
378 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (377 bp):
GTATTTAGGATAGGTTCACCCCATTTCTAGTCCTTTTTAAGTCCTTTAGGGGTACCGAGATACTT
TCACGTCGAAAGTATCTCCTAAGGGCATTTTCATAATTTTTTAGAACCGAGTCCTAAGTTATAAC
TGGGTCCGCTTTTATGCCGAAAGTGAGTATTTAGAATAGGTTCACCCCTGTTATAGTCATTTTTA
AGTCCTTTAAGGGTACCGGGATACTTTCATGTCGAAAGTATCCCCTAGGGGCATTTTCATAATTT
TTTAGAATCAACTCCTAAGTTATAACCGAATCCGCTTTTATGCCGAAAGTGGGTATTGAGGATAG
GTTCGCCCCTTTTACAGTCCTTTAGGGGCACCGAGAAACTTTCACGTCGAAA
Found at i:262318 original size:303 final size:305
Alignment explanation
Indices: 261599--262417 Score: 794
Period size: 303 Copynumber: 2.7 Consensus size: 305
261589 CACGTCGAAA
* * * * * * *
261599 GTATTTAGGATAGGTTCATCCCATTTCTAGTCCTTTTTAAGTCCTTTAGGTGTACCGAGATACTT
1 GTATTGAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCATTTAGGGGTATCGAGATACTT
* * * * **
261664 TCACGTCGAAAGTA-TCCCTCAAGGGCATTTTCATATTTTTTTAGAACCGAGTCCTAGGTTGTCG
66 TCACGTC-AAAGTATTCTCT-AAAGGCATTTTCATAATTTTTTAGAACCGAGTCCTAGGTTATAA
** *
261728 TTGGGTCCGCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCACCCCTGTTATAGTCATTTTT
129 CCGGGTCCGC---T-T--CGAAAGTGGGTACTTAGGATAGGTTCACCCCTGTTATAGTCATTTTT
* * ** * * * *
261793 ATGTCCTTTAGGGGTACGGTGATACTTTCATGTCGAAGCTATCTCTTATGGGCTTTTTTGTAATT
188 AAGTCCTTTAGGGGTACAGTGATACTTTCACATCAAAGATATATCTTAAGGGCTTTTTTGTAATT
* *
261858 TTTTAGAATCGAGTCCTAGGTTATCACCGAATCCGCTTTTATGTTGAAAGTGG
253 TTTTAGAATCGAGTCCTACGTTATCACCGAATCCGCTTTTATGCTGAAAGTGG
* * * *
261911 GTATTGAGGATAGGTTCGCCCCTTTTACAGTCCTTTTTAAGTCTTTTAGGGGTATCAAGATACTT
1 GTATTGAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCATTTAGGGGTATCGAGATACTT
** * ** * * * * * *
261976 TCATATTAAAAAAATCCTCT-AAGAGTATTTTCGTAATTTTTCAGAACTGAGTTCTAGGTTATAA
66 TCA-CGTCAAAGTATTCTCTAAAG-GCATTTTCATAATTTTTTAGAACCGAGTCCTAGGTTATAA
* * * * **
262040 CCGGGTCC-C-T-GAAGGTGGGTACTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTGT
129 CCGGGTCCGCTTCGAAAGTGGGTACTTAGGATAGGTTCACCCCTGTTATAGTCATTTTTAAGTCC
* * *
262102 TTTAGGGGTATCAG-G-TACTTTTACATCAAAGATATATTTTAAGGGGTATTTTTGTAATTTTTT
194 TTTAGGGGTA-CAGTGATACTTTCACATCAAAGATATATCTTAAGGGCT-TTTTTGTAATTTTTT
** *
262165 AGAATCGAGTCCTACGTTATCACCGGGTTCGCTTTTATGCT-AAAGGTGG
257 AGAATCGAGTCCTACGTTATCACCGAATCCGCTTTTATGCTGAAA-GTGG
*
262214 GTATTGAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCATTTAGGGGTATCGGGATACTT
1 GTATTGAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCATTTAGGGGTATCGAGATACTT
* * *
262279 TCACGTCAAAGGTATTCTCTAAAGGCATTTTCATAATTTTTTAGAATC--GTCTTAAGTTATAAC
66 TCACGTCAAA-GTATTCTCTAAAGGCATTTTCATAATTTTTTAGAACCGAGTCCTAGGTTATAAC
* ** * * * * * *
262342 CGAGTCTACTTTTATGCCAAAAGTGGGTATTTAGGATAAGTTCATCCCTTTTATAGTCATTTCTA
130 CGGGTC--C-GCT-T--CGAAAGTGGGTACTTAGGATAGGTTCACCCCTGTTATAGTCATTTTTA
262407 AGTCCTTTAGG
189 AGTCCTTTAGG
262418 CATATCAAGT
Statistics
Matches: 409, Mismatches: 81, Indels: 36
0.78 0.15 0.07
Matches are distributed among these distances:
301 17 0.04
302 30 0.07
303 199 0.49
304 5 0.01
306 1 0.00
307 1 0.00
310 50 0.12
311 3 0.01
312 99 0.24
313 4 0.01
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (305 bp):
GTATTGAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAAGTCATTTAGGGGTATCGAGATACTT
TCACGTCAAAGTATTCTCTAAAGGCATTTTCATAATTTTTTAGAACCGAGTCCTAGGTTATAACC
GGGTCCGCTTCGAAAGTGGGTACTTAGGATAGGTTCACCCCTGTTATAGTCATTTTTAAGTCCTT
TAGGGGTACAGTGATACTTTCACATCAAAGATATATCTTAAGGGCTTTTTTGTAATTTTTTAGAA
TCGAGTCCTACGTTATCACCGAATCCGCTTTTATGCTGAAAGTGG
Found at i:263876 original size:20 final size:22
Alignment explanation
Indices: 263846--263889 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
263836 TGATTTCCCG
263846 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
263867 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
263888 TG
1 TG
263890 AAAATATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:263961 original size:13 final size:13
Alignment explanation
Indices: 263943--263968 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
263933 CAATTTTTGG
263943 TGTATCGATACAT
1 TGTATCGATACAT
263956 TGTATCGATACAT
1 TGTATCGATACAT
263969 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.