Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 168 of 344
Found at i:56106456 original size:50 final size:48
Alignment explanation
Indices: 56106387--56106522 Score: 129
Period size: 47 Copynumber: 2.8 Consensus size: 48
56106377 TCGGCTACAA
* *
56106387 GATGTGTCAGTG-AATGACCATGTCTGGGACAA-GGCTTCGATACGAATATG
1 GATGAGTCAGTGTAA-GACCATGTCTGGGACAATGGCATCG--ACGAA-ATG
**
56106437 TGA-GAGTCAGTGTAAGACCATGTCTGGGA-AATGGCATCGACTTAATG
1 -GATGAGTCAGTGTAAGACCATGTCTGGGACAATGGCATCGACGAAATG
* * *
56106484 GATGAGCCAGTGTAAGACCATGTCTAGGAC-ATGACATCG
1 GATGAGTCAGTGTAAGACCATGTCTGGGACAATGGCATCG
56106523 GTATTATACC
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
46 2 0.03
47 35 0.47
48 3 0.04
49 2 0.03
50 28 0.38
51 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (48 bp):
GATGAGTCAGTGTAAGACCATGTCTGGGACAATGGCATCGACGAAATG
Found at i:56110032 original size:18 final size:19
Alignment explanation
Indices: 56110001--56110036 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
56109991 CAATAAAAAT
*
56110001 ATTTTTTCATTATTTTCTA
1 ATTTTTACATTATTTTCTA
56110020 ATTTTTACA-TATTTTCT
1 ATTTTTACATTATTTTCT
56110037 TTTTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTACATTATTTTCTA
Found at i:56112308 original size:79 final size:80
Alignment explanation
Indices: 56112150--56112308 Score: 178
Period size: 79 Copynumber: 2.0 Consensus size: 80
56112140 TGAAATTGTA
* * * * * *
56112150 TTTTGTTTGTAAACAGAAATCAATTGAACAATTATGTTTTAGGATTTTATTCCTGCCGTTTAACA
1 TTTTGTTTGCAAACAGAAATCAATTGAACAATCATGTTTCAGGATTTTATTCCTACCATTCAACA
** * *
56112215 GGGTTTGTTTGATTT
66 GAATTTATTCGATTT
* * *
56112230 TTTTGTTT-CAAACAGAAATCAATTGAATAATCCTGTTTCAGGATTCTT-TTCCTACCATTCAAT
1 TTTTGTTTGCAAACAGAAATCAATTGAACAATCATGTTTCAGGATT-TTATTCCTACCATTCAAC
56112293 AGAATTTATTCGATTT
65 AGAATTTATTCGATTT
56112309 CTGTTGTTAA
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
79 55 0.85
80 10 0.15
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (80 bp):
TTTTGTTTGCAAACAGAAATCAATTGAACAATCATGTTTCAGGATTTTATTCCTACCATTCAACA
GAATTTATTCGATTT
Found at i:56119671 original size:19 final size:20
Alignment explanation
Indices: 56119628--56119678 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
56119618 ATTGATTAGT
**
56119628 TTAATTAATCATGTTTTCACC
1 TTAATTAATCATAATTT-ACC
56119649 TTAATTAATCATAATTT-CC
1 TTAATTAATCATAATTTACC
56119668 TTAATTAATCA
1 TTAATTAATCA
56119679 ACAAATATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.46
21 15 0.54
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (20 bp):
TTAATTAATCATAATTTACC
Found at i:56120448 original size:20 final size:21
Alignment explanation
Indices: 56120420--56120458 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56120410 TTCCTAAACC
56120420 TTAG-CTTTTCTTCTTTTACG
1 TTAGTCTTTTCTTCTTTTACG
* *
56120440 TTAGTTTTTTTTTCTTTTA
1 TTAGTCTTTTCTTCTTTTA
56120459 TTTTATTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.13, G:0.08, T:0.69
Consensus pattern (21 bp):
TTAGTCTTTTCTTCTTTTACG
Found at i:56122468 original size:48 final size:48
Alignment explanation
Indices: 56122394--56122488 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
56122384 TCGAGAATCC
* * *
56122394 CGCACCTGAAGTGCCAATATCATGGCCCAAAGCTAAATCAATGTATCT
1 CGCACCCGAAGTGACAATATCATGGCCCAAAGCCAAATCAATGTATCT
* ** *
56122442 CGCACCCGAAGTGACAATATCGTGGCCTGAAGCCAACTCAATGTATC
1 CGCACCCGAAGTGACAATATCATGGCCCAAAGCCAAATCAATGTATC
56122489 ACATATACTG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (48 bp):
CGCACCCGAAGTGACAATATCATGGCCCAAAGCCAAATCAATGTATCT
Found at i:56124204 original size:39 final size:39
Alignment explanation
Indices: 56124161--56124288 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
56124151 GGCGTATGCC
* *
56124161 CAGGCCATGTGAGGGCTAGTGAGTCACACGAGTGTGTGA
1 CAGGCCGTGTGAGGGCTTGTGAGTCACACGAGTGTGTGA
** *
56124200 CAGGCCGTGTGAGGGCTTGCAAGTCACACAAGTGTGTGA
1 CAGGCCGTGTGAGGGCTTGTGAGTCACACGAGTGTGTGA
* * * *
56124239 CAGGCCGTGTAAGAGCTTGTGAGTCACATGAGTGTGTGT
1 CAGGCCGTGTGAGGGCTTGTGAGTCACACGAGTGTGTGA
56124278 CAGGCCGTGTG
1 CAGGCCGTGTG
56124289 CCAGACCATG
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.23
Consensus pattern (39 bp):
CAGGCCGTGTGAGGGCTTGTGAGTCACACGAGTGTGTGA
Found at i:56126045 original size:3 final size:3
Alignment explanation
Indices: 56126039--56126103 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
56126029 ATAACGTAAA
56126039 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56126087 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
56126104 ATTCACTAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:56142803 original size:22 final size:23
Alignment explanation
Indices: 56142775--56142827 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
56142765 AATTGAACTT
*
56142775 TTTTTATTAATTATATACTAC-A
1 TTTTTATTAATGATATACTACTA
* * *
56142797 TTTTTATCAATGCTTTACTACTA
1 TTTTTATTAATGATATACTACTA
56142820 TTTTTATT
1 TTTTTATT
56142828 CATTGTGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTTATTAATGATATACTACTA
Found at i:56143349 original size:20 final size:21
Alignment explanation
Indices: 56143314--56143352 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
56143304 TAACATGAAA
56143314 ATTAAAATAATTAAAATATTT
1 ATTAAAATAATTAAAATATTT
*
56143335 ATTAAAAT-TTTAAAATAT
1 ATTAAAATAATTAAAATAT
56143353 AATGCTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAAAATAATTAAAATATTT
Found at i:56144508 original size:26 final size:26
Alignment explanation
Indices: 56144479--56144586 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
56144469 TGATACAAAT
56144479 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56144505 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56144531 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56144557 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56144583 TGAT
1 TGAT
56144587 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56147665 original size:40 final size:40
Alignment explanation
Indices: 56147609--56147776 Score: 180
Period size: 40 Copynumber: 4.3 Consensus size: 40
56147599 GGACTAAGAT
* * * *
56147609 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
56147649 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
56147689 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGT-
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * * * *
56147728 -CGAAAGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
56147766 CCGAAGGCATT
1 CCGAAGGCATT
56147777 TGAACGAGGA
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
37 22 0.21
38 7 0.07
39 7 0.07
40 70 0.66
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:56147705 original size:80 final size:77
Alignment explanation
Indices: 56147609--56147776 Score: 183
Period size: 77 Copynumber: 2.1 Consensus size: 77
56147599 GGACTAAGAT
* * ** *
56147609 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTA
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGT--CGAAAGCA-TCGTGCGAGTTACTA
* *
56147674 AAGCCGGGTTAAGTC
63 AAACCGGGCTAAGTC
* ** * * *
56147689 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCGAAAGCATGGTGTGAGTTACTAAAA
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCGAAAGCATCGTGCGAGTTACTAAAA
*
56147754 CCGGGCTATGTC
66 CCGGGCTAAGTC
56147766 CCGAAGGCATT
1 CCGAAGGCATT
56147777 TGAACGAGGA
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
77 35 0.47
78 6 0.08
80 33 0.45
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCGAAAGCATCGTGCGAGTTACTAAAA
CCGGGCTAAGTC
Found at i:56149237 original size:107 final size:107
Alignment explanation
Indices: 56149051--56149264 Score: 428
Period size: 107 Copynumber: 2.0 Consensus size: 107
56149041 AAGATATGAT
56149051 TTTTGAAGCGACTAGTACTCAGACTGGGCAGTGTCTGGAAAAATTTTCAAAGTTTGTTAACATCT
1 TTTTGAAGCGACTAGTACTCAGACTGGGCAGTGTCTGGAAAAATTTTCAAAGTTTGTTAACATCT
56149116 CGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACA
66 CGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACA
56149158 TTTTGAAGCGACTAGTACTCAGACTGGGCAGTGTCTGGAAAAATTTTCAAAGTTTGTTAACATCT
1 TTTTGAAGCGACTAGTACTCAGACTGGGCAGTGTCTGGAAAAATTTTCAAAGTTTGTTAACATCT
56149223 CGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACA
66 CGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACA
56149265 AAAAGTGGAT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (107 bp):
TTTTGAAGCGACTAGTACTCAGACTGGGCAGTGTCTGGAAAAATTTTCAAAGTTTGTTAACATCT
CGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACA
Found at i:56149723 original size:33 final size:34
Alignment explanation
Indices: 56149650--56149730 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
56149640 TATGGGCCAT
*
56149650 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* **
56149684 ATTGTTATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
*
56149717 ACTGTTACCTGAAT
1 ACTGTTATCTGAAT
56149731 GGGCTTAGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 13 0.33
33 14 0.36
34 12 0.31
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:56154762 original size:26 final size:26
Alignment explanation
Indices: 56154733--56154840 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
56154723 TGATACAAAT
56154733 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56154759 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56154785 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56154811 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56154837 TGAT
1 TGAT
56154841 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56161917 original size:15 final size:16
Alignment explanation
Indices: 56161899--56161935 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
56161889 CAATATATAA
56161899 ATATAA-AATGATGTT
1 ATATAACAATGATGTT
56161914 ATATGAACAATGATGTT
1 ATAT-AACAATGATGTT
56161931 A-ATAA
1 ATATAA
56161936 TGTATAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.30
16 4 0.20
17 10 0.50
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.35
Consensus pattern (16 bp):
ATATAACAATGATGTT
Found at i:56165465 original size:6 final size:6
Alignment explanation
Indices: 56165454--56165479 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
56165444 TCTTTTCTGC
56165454 AATTAA AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AA
56165480 AGTTACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:56166075 original size:3 final size:3
Alignment explanation
Indices: 56166063--56166113 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
56166053 GTTTGAAAAA
* *
56166063 AAG AAA AAG AAG AAG AAG -AG AAG CAGG AAG -AG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG
*
56166107 GAG AAG A
1 AAG AAG A
56166114 GGAAAAATGG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:56168250 original size:18 final size:20
Alignment explanation
Indices: 56168218--56168264 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
56168208 ATGCTGTCCG
56168218 GGCTAAGTCCCGAAGGC-TT
1 GGCTAAGTCCCGAAGGCTTT
56168237 GGCTAAGT-CCGAAGGCTTT
1 GGCTAAGTCCCGAAGGCTTT
56168256 GTGCTAAGT
1 G-GCTAAGT
56168265 GAATATATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.31
19 11 0.42
20 7 0.27
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (20 bp):
GGCTAAGTCCCGAAGGCTTT
Found at i:56168316 original size:40 final size:39
Alignment explanation
Indices: 56168240--56168456 Score: 181
Period size: 40 Copynumber: 5.5 Consensus size: 39
56168230 AAGGCTTGGC
* * * **
56168240 TAAGTCCGAAGGC-TTTGTGCTA-AGTGAATATATCCGGAC
1 TAAGTCCGAAGGCATTTGTGCGAGA-T-ACTAAATCCGGGT
*
56168279 TAAGATCCGAAGGCATTTGTGTGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
56168319 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
56168359 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * *
56168399 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
56168438 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
56168457 AACGAGGAGC
Statistics
Matches: 150, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 40 0.27
40 98 0.65
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:56168396 original size:80 final size:79
Alignment explanation
Indices: 56168285--56168454 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 79
56168275 GGACTAAGAT
* * *
56168285 CCGAAGGCATTTGTGTGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTA
* *
56168350 AATCCGGGTTAAGTC
65 AAACCGGGCTAAGTC
* * * * * *
56168365 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTA
1 CCGAAGGCATTCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTA
*
56168429 AAACCGGGCTATGTC
65 AAACCGGGCTAAGTC
56168444 CCGAAGGCATT
1 CCGAAGGCATT
56168455 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 37 0.48
80 37 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:56168436 original size:39 final size:39
Alignment explanation
Indices: 56168285--56168454 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 39
56168275 GGACTAAGAT
* *
56168285 CCGAAGGCATTTGTGTGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
56168325 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
56168365 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
56168405 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
56168444 CCGAAGGCATT
1 CCGAAGGCATT
56168455 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 38 0.33
40 74 0.64
41 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:56168474 original size:79 final size:80
Alignment explanation
Indices: 56168312--56168489 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
56168302 AGATACAAAT
* * * *
56168312 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
56168377 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
56168392 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
56168456 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
56168471 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56168490 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:56176200 original size:21 final size:21
Alignment explanation
Indices: 56176174--56176224 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
56176164 AATGCTGTCC
56176174 GGGCTAAGTCCCGAAGGCTTT
1 GGGCTAAGTCCCGAAGGCTTT
56176195 GGGCTAAGTCCCGAAGGCTTT
1 GGGCTAAGTCCCGAAGGCTTT
*
56176216 GTGCTAAGT
1 GGGCTAAGT
56176225 GAATATATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.25
Consensus pattern (21 bp):
GGGCTAAGTCCCGAAGGCTTT
Found at i:56176356 original size:80 final size:79
Alignment explanation
Indices: 56176245--56176414 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 79
56176235 GGACTAAGAT
* * *
56176245 CCGAAGGCATTTGTGTGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTA
* *
56176310 AATCCGGGTTAAGTC
65 AAACCGGGCTAAGTC
* * * * * *
56176325 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTA
1 CCGAAGGCATTCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTA
*
56176389 AAACCGGGCTATGTC
65 AAACCGGGCTAAGTC
56176404 CCGAAGGCATT
1 CCGAAGGCATT
56176415 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 37 0.48
80 37 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:56176396 original size:39 final size:39
Alignment explanation
Indices: 56176245--56176414 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 39
56176235 GGACTAAGAT
* *
56176245 CCGAAGGCATTTGTGTGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
56176285 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
56176325 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
56176365 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
56176404 CCGAAGGCATT
1 CCGAAGGCATT
56176415 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 38 0.33
40 74 0.64
41 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:56176434 original size:79 final size:80
Alignment explanation
Indices: 56176272--56176449 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
56176262 AGATACAAAT
* * * *
56176272 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
56176337 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
56176352 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
56176416 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
56176431 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56176450 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:56177894 original size:59 final size:59
Alignment explanation
Indices: 56177802--56177927 Score: 191
Period size: 59 Copynumber: 2.2 Consensus size: 59
56177792 GGTGTTACAC
* * * *
56177802 TTGGTATACATGGCTGCTGGTTAGAAAAGATAACAATTGATATAGAAATTGTTTAACAG
1 TTGGTATAAATGGCTGCTAGTTAGAAAAGATAACAATTGATATACAAATTGCTTAACAG
* *
56177861 TTGGTATAAATGGCTGCTAGTTAGAAAAGATAACAGTTGGTATACAAATTGCTTAACAG
1 TTGGTATAAATGGCTGCTAGTTAGAAAAGATAACAATTGATATACAAATTGCTTAACAG
56177920 TTGG-ATAA
1 TTGGTATAA
56177928 CAAATAGCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 4 0.07
59 57 0.93
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (59 bp):
TTGGTATAAATGGCTGCTAGTTAGAAAAGATAACAATTGATATACAAATTGCTTAACAG
Found at i:56178343 original size:21 final size:20
Alignment explanation
Indices: 56178319--56178373 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
56178309 CAGCTTCTTG
*
56178319 ATGAGTTAGGGCAGTAGGTA
1 ATGAGTTGGGGCAGTAGGTA
*
56178339 TATGAGTTGGGGTAGTAGGTA
1 -ATGAGTTGGGGCAGTAGGTA
56178360 ACTGAGTTGGGGCA
1 A-TGAGTTGGGGCA
56178374 CCTTATTGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.25, C:0.05, G:0.42, T:0.27
Consensus pattern (20 bp):
ATGAGTTGGGGCAGTAGGTA
Found at i:56178410 original size:21 final size:21
Alignment explanation
Indices: 56178384--56178423 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
56178374 CCTTATTGAG
56178384 TTGGGGTACCCTCTTGCTGAC
1 TTGGGGTACCCTCTTGCTGAC
* *
56178405 TTGGGGTAGCCTGTTGCTG
1 TTGGGGTACCCTCTTGCTG
56178424 GGTTCGGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.35, T:0.35
Consensus pattern (21 bp):
TTGGGGTACCCTCTTGCTGAC
Found at i:56179180 original size:43 final size:43
Alignment explanation
Indices: 56179091--56179268 Score: 222
Period size: 43 Copynumber: 4.2 Consensus size: 43
56179081 AAAAAAAAAC
* *
56179091 TCATTGCATGTATATTAAAAAATAGGCAACAGA---CCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGATTTCCAACAA
*
56179131 TCATTGCATGCATATTAAAAAATAGTCAATAGATTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGATTTCCAACAA
*
56179174 TCATTGCATGCATATTAAAAAATAGTCAACA-ACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGA-TTTCCAACAA
* ** * *
56179217 TCATTACATATATATTAAAAAA-AGTCAATAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGATTTCCAACAA
*
56179259 TCACTGCATG
1 TCATTGCATG
56179269 TGATCAGCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
40 30 0.25
42 24 0.20
43 65 0.55
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAGATTTCCAACAA
Found at i:56179267 original size:85 final size:83
Alignment explanation
Indices: 56179095--56179268 Score: 226
Period size: 85 Copynumber: 2.1 Consensus size: 83
56179085 AAAAACTCAT
* * *
56179095 TGCATGTATATTAAAAAATAGGCAACAGACCAACAATCATTGCATGCATATTAAAAAATAGTCAA
1 TGCATGCATATTAAAAAATAGGCAACAGACCAACAATCATTACATACATATTAAAAAATAGTCAA
*
56179160 TAGATTTCCAACAATCAT
66 TAGATTTCCAACAATCAC
* * *
56179178 TGCATGCATATTAAAAAATAGTCAACA-ACTTTCCAATAATCATTACATATATATTAAAAAA-AG
1 TGCATGCATATTAAAAAATAGGCAACAGA----CCAACAATCATTACATACATATTAAAAAATAG
*
56179241 TCAATAGCTTTCCAACAATCAC
62 TCAATAGATTTCCAACAATCAC
56179263 TGCATG
1 TGCATG
56179269 TGATCAGCAA
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
82 1 0.01
83 25 0.32
85 28 0.35
86 25 0.32
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (83 bp):
TGCATGCATATTAAAAAATAGGCAACAGACCAACAATCATTACATACATATTAAAAAATAGTCAA
TAGATTTCCAACAATCAC
Found at i:56180930 original size:15 final size:16
Alignment explanation
Indices: 56180905--56180938 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
56180895 TCAGATGCAT
56180905 CACTATCACTACCAGA
1 CACTATCACTACCAGA
56180921 CACT-TCACTACCAGA
1 CACTATCACTACCAGA
56180936 CAC
1 CAC
56180939 ATTTTCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.35, C:0.41, G:0.06, T:0.18
Consensus pattern (16 bp):
CACTATCACTACCAGA
Found at i:56181342 original size:46 final size:46
Alignment explanation
Indices: 56181232--56181334 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 46
56181222 GGATACAAAC
*
56181232 AATGACAGATATACACAATAAACATCAGTTTAATAATGTATAATTT
1 AATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTT
*
56181278 AATGGCAGATATACACAATAAACATCAGTTTGATAATGTATAATTT
1 AATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTT
56181324 AATGGCAGATA
1 AATGGCAGATA
56181335 CAAACAATGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.31
Consensus pattern (46 bp):
AATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTT
Found at i:56181391 original size:48 final size:48
Alignment explanation
Indices: 56181338--56181492 Score: 247
Period size: 48 Copynumber: 3.2 Consensus size: 48
56181328 GCAGATACAA
* *
56181338 ACAATGGCAGATATACACAATAAACATCAATTTGAAAATGACATTCAT
1 ACAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
* *
56181386 ACAATGGCAGATATACACAATAAAGATCAATTTGCTAATGACATTCAC
1 ACAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
* *
56181434 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCAT
1 ACAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
*
56181482 ACAATGACAGA
1 ACAATGGCAGA
56181493 GACAAGCAAT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.25
Consensus pattern (48 bp):
ACAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
Found at i:56181484 original size:34 final size:34
Alignment explanation
Indices: 56181446--56181548 Score: 78
Period size: 34 Copynumber: 3.1 Consensus size: 34
56181436 AATGGCAGAT
56181446 ATACACAATAAAGATCAGTTTGATAATGGCATTC
1 ATACACAATAAAGATCAGTTTGATAATGGCATTC
* * *
56181480 AT--ACAATGACAGAGA-CA---AG-CAATGGCAGAT-
1 ATACACAAT-A-A-AGATCAGTTTGATAATGGCA-TTC
*
56181510 ATACACAATAAAGATCAGTTTGATAATGGCGTTC
1 ATACACAATAAAGATCAGTTTGATAATGGCATTC
56181544 ATACA
1 ATACA
56181549 ATGGCAGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 24
0.62 0.09 0.30
Matches are distributed among these distances:
29 3 0.06
30 12 0.24
31 3 0.06
32 10 0.20
33 3 0.06
34 16 0.32
35 3 0.06
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (34 bp):
ATACACAATAAAGATCAGTTTGATAATGGCATTC
Found at i:56181505 original size:64 final size:64
Alignment explanation
Indices: 56181434--56181566 Score: 230
Period size: 64 Copynumber: 2.1 Consensus size: 64
56181424 TGACATTCAC
56181434 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGACAGAGACAA
1 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGACAGAGACAA
* * * *
56181498 GCAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCGTTCATACAATGGCAGATACAA
1 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGACAGAGACAA
56181562 ACAAT
1 ACAAT
56181567 AAACATCAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.23
Consensus pattern (64 bp):
ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGACAGAGACAA
Found at i:56181723 original size:12 final size:12
Alignment explanation
Indices: 56181706--56181745 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
56181696 CGAAATAACC
*
56181706 CTAAATTGAAAT
1 CTAAATCGAAAT
56181718 CTAAATCGAAAT
1 CTAAATCGAAAT
56181730 CTAAATC-AAATT
1 CTAAATCGAAA-T
56181742 CTAA
1 CTAA
56181746 TCCTAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 3 0.12
12 23 0.88
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (12 bp):
CTAAATCGAAAT
Found at i:56181756 original size:42 final size:42
Alignment explanation
Indices: 56181705--56181787 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
56181695 TCGAAATAAC
*
56181705 CCTAAATTGAAATCT-AAATCGAAATCT-AAATCAAATTCTAAT
1 CCTAAATTGAAAT-TGAAATCGAAAT-TGAAATCAAAATCTAAT
*
56181747 CCTAAATTGAGATTGAAATCGAAATTGAAATCAAAATCTAA
1 CCTAAATTGAAATTGAAATCGAAATTGAAATCAAAATCTAA
56181788 ATCAGAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.29
Consensus pattern (42 bp):
CCTAAATTGAAATTGAAATCGAAATTGAAATCAAAATCTAAT
Found at i:56181831 original size:6 final size:6
Alignment explanation
Indices: 56181817--56181885 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
56181807 TCAAAATTGT
* * * * *
56181817 AATCAA AATCGA AATAGA AATCGA AATCAA AATCAA AATCAA AATCGA
1 AATCGA AATCGA AATCGA AATCGA AATCGA AATCGA AATCGA AATCGA
* *
56181865 AAT-TA AATTTGA AATCGA AAT
1 AATCGA AA-TCGA AATCGA AAT
56181886 ATCCCTAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
5 3 0.06
6 47 0.89
7 3 0.06
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.22
Consensus pattern (6 bp):
AATCGA
Found at i:56181837 original size:12 final size:12
Alignment explanation
Indices: 56181807--56181867 Score: 79
Period size: 12 Copynumber: 5.1 Consensus size: 12
56181797 AGTGAGTGTT
* *
56181807 TCAAAATTGTAA
1 TCAAAATCGAAA
56181819 TCAAAATCGAAA
1 TCAAAATCGAAA
56181831 T-AGAAATCGAAA
1 TCA-AAATCGAAA
*
56181843 TCAAAATCAAAA
1 TCAAAATCGAAA
56181855 TCAAAATCGAAA
1 TCAAAATCGAAA
56181867 T
1 T
56181868 TAAATTTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
11 1 0.02
12 41 0.95
13 1 0.02
ACGTcount: A:0.57, C:0.13, G:0.08, T:0.21
Consensus pattern (12 bp):
TCAAAATCGAAA
Found at i:56182432 original size:31 final size:29
Alignment explanation
Indices: 56182394--56182466 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
56182384 GGTAACTGTT
*
56182394 AGTTAGTGACTGTTTTGTCACTTTTTTATA
1 AGTTAGTGACTGTTTTGTCACTTTTTGA-A
** *
56182424 ATGTTAGTGACCATTTTGTTACTTTTTGAA
1 A-GTTAGTGACTGTTTTGTCACTTTTTGAA
56182454 AGTTAAGTGACTG
1 AGTT-AGTGACTG
56182467 AAATGAAACC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 3 0.09
30 9 0.26
31 23 0.66
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (29 bp):
AGTTAGTGACTGTTTTGTCACTTTTTGAA
Found at i:56183853 original size:20 final size:20
Alignment explanation
Indices: 56183805--56183856 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
56183795 GTTAAGCCTC
*
56183805 ACACGCCCATGTGTTTTGGG
1 ACACGCCCGTGTGTTTTGGG
56183825 ACACGCCCGTGTGTTTTGGG
1 ACACGCCCGTGTGTTTTGGG
56183845 ACACGCCCGTGT
1 ACACGCCCGTGT
56183857 TGAATTTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.29, G:0.31, T:0.27
Consensus pattern (20 bp):
ACACGCCCGTGTGTTTTGGG
Found at i:56191778 original size:46 final size:46
Alignment explanation
Indices: 56191726--56192030 Score: 376
Period size: 46 Copynumber: 6.6 Consensus size: 46
56191716 GCTTTCTGAA
** * * * *
56191726 ATGAAATGTGTAAGACCATGTTTGAAAGATATCATGGAAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
56191772 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
56191818 ATGAAATGAACAAGACCATGGTTGAAAGATATCATGGAAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
56191864 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * **
56191910 GGGAAATGAATAAGACCACGGTTGAAAGATACCATGGCAATGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
56191956 ATTAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAGATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
56192002 AGGAAATGAGTAAGACCGTAGTTGAAAGA
1 ATGAAATGAATAAGACCATGGTTGAAAGA
56192031 CACTATGACA
Statistics
Matches: 225, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 225 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:56191974 original size:138 final size:138
Alignment explanation
Indices: 56191737--56192030 Score: 428
Period size: 138 Copynumber: 2.1 Consensus size: 138
56191727 TGAAATGTGT
* * * * *
56191737 AAGACCATGTTTGAAAGATATCATGGAAACATGATATGAAATGTATAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGAAACATGATAGGAAATGAATAAGACCACGGTTGAAAGAT
* *
56191802 ACCATGGCAACGTGACATGAAATGAACAAGACCATGGTTGAAAGATATCATGGAAACG-TGACAT
66 ACCATGGCAACGTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGAAA-GATGACAG
56191866 GAAATGAAC
130 GAAATGAAC
* *
56191875 AAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAATGAATAAGACCACGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGAAACATGATAGGAAATGAATAAGACCACGGTTGAAAGAT
* * *
56191940 ACCATGGCAATGTGACATTAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAGATGACAGG
66 ACCATGGCAACGTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGAAAGATGACAGG
**
56192005 AAATGAGT
131 AAATGAAC
* *
56192013 AAGACCGTAGTTGAAAGA
1 AAGACCATGGTTGAAAGA
56192031 CACTATGACA
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
137 1 0.01
138 138 0.99
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (138 bp):
AAGACCATGGTTGAAAGATACCATGGAAACATGATAGGAAATGAATAAGACCACGGTTGAAAGAT
ACCATGGCAACGTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGAAAGATGACAGG
AAATGAAC
Found at i:56197448 original size:19 final size:18
Alignment explanation
Indices: 56197419--56197466 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
56197409 GTATATATTT
56197419 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
56197437 TAAATCTTATTTAGGTAGA
1 TAAAT-TTATTTAGGTAGA
56197456 TAAGATTTATT
1 TAA-ATTTATT
56197467 CATATTCTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.18
19 21 0.75
20 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.46
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:56197542 original size:42 final size:42
Alignment explanation
Indices: 56197483--56197571 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
56197473 CTAGGAATAT
* * *
56197483 TTTTGTTTTATCTTTTAGTAGTTTATTAGGACAAAGCAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAAGCAACTA
* * *
56197525 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAAGCAACTA
56197567 TTTTC
1 TTTTC
56197572 CCAATTAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAAGCAACTA
Found at i:56201419 original size:19 final size:19
Alignment explanation
Indices: 56201373--56201420 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
56201363 GTATATATTT
56201373 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
56201391 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
56201410 TAAGTTTTATT
1 TAAATTTTATT
56201421 CATATTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:56201518 original size:42 final size:42
Alignment explanation
Indices: 56201429--56201524 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
56201419 TTCATATTCT
* * *
56201429 AAGAA-TATTTTATTTTATCTTTTAGTAGTTTATTAGGACAA
1 AAGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
** *
56201470 GGGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAATAA
1 AAGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
56201512 AAGAACTATTTTC
1 AAGAACTATTTTC
56201525 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 3 0.07
42 43 0.93
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (42 bp):
AAGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
Found at i:56202833 original size:15 final size:15
Alignment explanation
Indices: 56202813--56202842 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56202803 TTTAATCCTT
*
56202813 TATAAATTATAAAAA
1 TATAAACTATAAAAA
56202828 TATAAACTATAAAAA
1 TATAAACTATAAAAA
56202843 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:56205097 original size:14 final size:14
Alignment explanation
Indices: 56205078--56205107 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
56205068 TGATCCTGTC
56205078 ATTAGTTATAGGGA
1 ATTAGTTATAGGGA
56205092 ATTAGTTATAGGGA
1 ATTAGTTATAGGGA
56205106 AT
1 AT
56205108 GCAGGTTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (14 bp):
ATTAGTTATAGGGA
Found at i:56205133 original size:16 final size:16
Alignment explanation
Indices: 56205112--56205145 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
56205102 GGGAATGCAG
56205112 GTTCGAACGTGTTAAA
1 GTTCGAACGTGTTAAA
56205128 GTTCGAACGTGTTAAA
1 GTTCGAACGTGTTAAA
56205144 GT
1 GT
56205146 ATATTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (16 bp):
GTTCGAACGTGTTAAA
Found at i:56207694 original size:20 final size:20
Alignment explanation
Indices: 56207669--56207742 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
56207659 ACCATTATGT
56207669 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAATTTA
**
56207689 ATCAATTAACCCTAAACTCCAAA
1 ATCAATTAACCCTAAA-T--TTA
56207712 ATCAATT---CCT-AATTTA
1 ATCAATTAACCCTAAATTTA
56207728 ATCAATTAACCCTAA
1 ATCAATTAACCCTAA
56207743 TACCCTAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
16 8 0.19
18 1 0.02
19 5 0.12
20 20 0.47
21 1 0.02
23 8 0.19
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (20 bp):
ATCAATTAACCCTAAATTTA
Found at i:56207883 original size:23 final size:23
Alignment explanation
Indices: 56207857--56207903 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
56207847 AAAACCTTAA
56207857 CTTAAAAAATCCTAACCCTAAAT
1 CTTAAAAAATCCTAACCCTAAAT
*
56207880 CTTAAAGAATCCTAACCCTAAAT
1 CTTAAAAAATCCTAACCCTAAAT
56207903 C
1 C
56207904 AATTAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.28, G:0.02, T:0.26
Consensus pattern (23 bp):
CTTAAAAAATCCTAACCCTAAAT
Found at i:56211267 original size:18 final size:18
Alignment explanation
Indices: 56211244--56211279 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
56211234 CCAAATCTGA
56211244 ACAAATGATATTTTTACT
1 ACAAATGATATTTTTACT
56211262 ACAAATGATATTTTTACT
1 ACAAATGATATTTTTACT
56211280 TTCTTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (18 bp):
ACAAATGATATTTTTACT
Found at i:56222732 original size:40 final size:40
Alignment explanation
Indices: 56222494--56222718 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
56222484 TCGAATGATG
* * * *
56222494 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
56222534 TCCGGACTAAGAT-CCGAAAGAATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56222574 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
56222613 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56222653 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56222694 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56222719 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 117 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56230775 original size:40 final size:40
Alignment explanation
Indices: 56230537--56230761 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
56230527 TCGAATGATG
* * * *
56230537 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
56230577 TCCGGACTAAGAT-CCGAAGCCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56230617 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56230656 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56230696 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56230737 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56230762 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56230783 original size:119 final size:119
Alignment explanation
Indices: 56230537--56230794 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
56230527 TCGAATGATG
* *
56230537 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGCCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGCCATTT
* **
56230602 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * ** *
56230656 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGCCAT
* * * *
56230719 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
56230776 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56230795 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGCCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:56236595 original size:41 final size:41
Alignment explanation
Indices: 56236533--56236682 Score: 133
Period size: 41 Copynumber: 3.7 Consensus size: 41
56236523 TTGGGGTTTA
*
56236533 AATCCGAGCTTGGTCTCGAAGGGATTTTGAGCCAGTGTAAT
1 AATCCAAGCTTGGTCTCGAAGGGATTTTGAGCCAGTGTAAT
* * * *
56236574 AATCCAAGCTTGGTCTTGAAGGGCTTTTGAGTCAGTGTTAT
1 AATCCAAGCTTGGTCTCGAAGGGATTTTGAGCCAGTGTAAT
* * * ** * * * *
56236615 AA-CCGAA-CCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCC-AAGCTTGGTCTCGAAGGGATTTTGAGCCAGTGTAAT
* *
56236655 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCAAGCTTGGTCTCGAAGGGATTTT
56236683 TGAGTCAGCG
Statistics
Matches: 85, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
40 28 0.33
41 57 0.67
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (41 bp):
AATCCAAGCTTGGTCTCGAAGGGATTTTGAGCCAGTGTAAT
Found at i:56253151 original size:40 final size:40
Alignment explanation
Indices: 56253084--56253291 Score: 242
Period size: 40 Copynumber: 5.2 Consensus size: 40
56253074 CCTTCGGAGT
* *
56253084 TTAG-CCGGATATAGCAACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* *
56253123 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* * * * *
56253163 TTAGCCCAGATATAATAGCTCGCACAAATGCCTTTGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* * *
56253203 TTAGCCCGGATATAGTAGCTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
** *
56253243 TTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGTAACTAGCACAAATGCCT-TCGGGAC
56253283 TTAGCCCGG
1 TTAGCCCGG
56253292 TTATCATCCG
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 7 0.05
40 139 0.95
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:56261145 original size:40 final size:40
Alignment explanation
Indices: 56261078--56261285 Score: 215
Period size: 40 Copynumber: 5.2 Consensus size: 40
56261068 CCTTCGGAGT
** * *
56261078 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
56261117 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
56261157 TTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * * *
56261197 TTAGCCCGAATATAGTAGCTCGCACGAACGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* ** * *
56261237 TTAGCCC-GAAATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCT-TCGGGAC
56261277 TTAGCCCGG
1 TTAGCCCGG
56261286 TTATCATCCG
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 8 0.06
40 134 0.94
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:56261274 original size:80 final size:83
Alignment explanation
Indices: 56261088--56261284 Score: 246
Period size: 80 Copynumber: 2.4 Consensus size: 83
56261078 TTAGCCGGAT
** * *
56261088 ATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCG
1 ATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAACGCCTTCG
56261153 GGACTTAGCCCGGATATA
66 GGACTTAGCCCGGATATA
* * * * *
56261171 ATAG---CTCGCACAAACGCCTTCGGGACTTAGCCCGAATATAGTAGCTCGCACGAACGCCTTCG
1 ATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAACGCCTTCG
56261233 GGACTTAGCCC-GA-A-A
66 GGACTTAGCCCGGATATA
*
56261248 TTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 ATAGCCACTAGCTCAAATGCCT-TCGGGACTTAGCCCG
56261285 GTTATCATCC
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
77 4 0.04
78 1 0.01
79 4 0.04
80 84 0.87
83 4 0.04
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (83 bp):
ATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAACGCCTTCG
GGACTTAGCCCGGATATA
Found at i:56267326 original size:24 final size:23
Alignment explanation
Indices: 56267294--56267339 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
56267284 TACATAAGTC
* *
56267294 AAAGATTTCTTGATTTGAAACAT
1 AAAGATTTCTAGAATTGAAACAT
56267317 AAAGAATTTCTAGAATTGAAACA
1 AAAG-ATTTCTAGAATTGAAACA
56267340 AGGCGGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.33
Consensus pattern (23 bp):
AAAGATTTCTAGAATTGAAACAT
Found at i:56269522 original size:48 final size:48
Alignment explanation
Indices: 56269315--56269547 Score: 204
Period size: 48 Copynumber: 4.8 Consensus size: 48
56269305 GAAGGTAAAT
* * *
56269315 TGCCGATGCCATG-TCTCAAACATGGTCTTACATTGGCTCACATGTCGA
1 TGCCGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATATCAA
* * * * * * *
56269363 -GACTGATG-C-TGTGTCCTAGACATGGACTTACACTAGCTCTCGTCTCAA
1 TG-CCGATGCCATGT-TCC-AAACATGGTCTTACACTGGCTCACATATCAA
* * * * *
56269411 TGTCGATGCCATGTCCCAGACATGGTCTTACACTTGCACACACATATCAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACAC-TG-GCTCACATATCAA
* *
56269461 CGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAA
* * *
56269509 TGCCTATGCCATGTCCCAAACATGGTCTTACATTGGCTC
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC
56269548 TCACACAACG
Statistics
Matches: 146, Mismatches: 30, Indels: 18
0.75 0.15 0.09
Matches are distributed among these distances:
46 2 0.01
47 3 0.02
48 94 0.64
49 7 0.05
50 40 0.27
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAA
Found at i:56269575 original size:50 final size:47
Alignment explanation
Indices: 56269418--56269592 Score: 172
Period size: 50 Copynumber: 3.6 Consensus size: 47
56269408 CAATGTCGAT
* * * * *
56269418 GCCATGTCCCAGACATGGTCTTACACTTGCACACACATATCAACGCCGA
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCACACA-A-CAATGCCTA
* *
56269467 TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCCTA
1 -GCCATGTCCCAAACATGGTCTTACACTGGCTCACACAACAATGCCTA
* **
56269515 TGCCATGTCCCAAACATGGTCTTACATTGGCTCTCACACAACGGTGTCGCTA
1 -GCCATGTCCCAAACATGGTCTTACACTGG--CTCACACAACAATG-C-CTA
*
56269567 -CCATGTCCCGAACATGGTCTTACACT
1 GCCATGTCCCAAACATGGTCTTACACT
56269593 ACCTCACGTA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
48 35 0.33
49 1 0.01
50 67 0.63
51 1 0.01
52 3 0.03
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (47 bp):
GCCATGTCCCAAACATGGTCTTACACTGGCTCACACAACAATGCCTA
Found at i:56269605 original size:146 final size:146
Alignment explanation
Indices: 56269316--56269592 Score: 319
Period size: 146 Copynumber: 1.9 Consensus size: 146
56269306 AAGGTAAATT
* ** * ** *
56269316 GCCGATGCCATGTCTCAAACATGGTCTTACATTGGCTCACATGTCGAGACTGATGCTGTGTCCTA
1 GCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCACATAACAAGACTGATGCCATGTCCCA
* * * *
56269381 GACATGGACTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTT
66 AACATGGACTTACACTAGCTCTCGACACAATGTCGATACCATGTCCCAGACATGGTCTTACACTT
*
56269446 GCACACACATATCAAC
131 ACACACACATATCAAC
*
56269462 GCCGATGCCATGT-TCCAAACATGGTCTTACACTGGCTCACATAACAATGCCT-ATGCCATGTCC
1 GCCGATGCCATGTCT-CAAACATGGTCTTACACTGGCTCACATAACAA-GACTGATGCCATGTCC
* * * *
56269525 CAAACATGGTCTTACATTGGCTCTC-ACACAACGGTGTCGCTACCATGTCCC-GAACATGGTCTT
64 CAAACATGGACTTACACTAGCTCTCGACACAA---TGTCGATACCATGTCCCAG-ACATGGTCTT
56269588 ACACT
125 ACACT
56269593 ACCTCACGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
145 5 0.05
146 70 0.64
147 4 0.04
148 30 0.28
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (146 bp):
GCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCACATAACAAGACTGATGCCATGTCCCA
AACATGGACTTACACTAGCTCTCGACACAATGTCGATACCATGTCCCAGACATGGTCTTACACTT
ACACACACATATCAAC
Found at i:56275325 original size:43 final size:43
Alignment explanation
Indices: 56275273--56275382 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
56275263 CGAGATGTGC
* *
56275273 TTACATGTAAGACCATGTCTGGGACATGGGCATTG-TATTGAGA
1 TTACGTGTAAGACCATGTCTGGGACATGGGCATTGTTAAT-AGA
* * *
56275316 TTACGTGTAAGACCATGTCTGAGACATTGGCATTGTTAATCGA
1 TTACGTGTAAGACCATGTCTGGGACATGGGCATTGTTAATAGA
* * *
56275359 TTTCGTGTAAGACCTTGTTTGGGA
1 TTACGTGTAAGACCATGTCTGGGA
56275383 AAGTGGCATC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 54 0.95
44 3 0.05
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACATGGGCATTGTTAATAGA
Found at i:56285958 original size:50 final size:50
Alignment explanation
Indices: 56285713--56286006 Score: 261
Period size: 50 Copynumber: 5.8 Consensus size: 50
56285703 ACTGAAGCTC
* * * *
56285713 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * *
56285763 TTTGGTACATGGAGTGGCCTGCACTTAGTACTACACACT-TGACCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA-TGTGACCTAACAA
* * * *
56285813 TCTGATACACGTAGTAGCTTGCACTTAGTACTACACATGTGA-TTGAAGCTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CAA
* * * *
56285864 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * **
56285914 TCTGGTACATGTGGCAGCCTGCACTTAGTACTACACACATGACCTAA-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
*** * * *
56285963 CCGTCTTAAACACATAGTAGCCTACACATAGTACTACACATGTG
1 ---TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTG
56286007 TTCTCACAAC
Statistics
Matches: 191, Mismatches: 45, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
49 4 0.02
50 115 0.60
51 41 0.21
52 31 0.16
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:56300552 original size:23 final size:23
Alignment explanation
Indices: 56300519--56300567 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
56300509 CACCGGTTCC
*
56300519 TTCGGCTAATGATCCCAATTAAT
1 TTCGGCCAATGATCCCAATTAAT
56300542 TTCGGCCAATGATCCCAATTAAT
1 TTCGGCCAATGATCCCAATTAAT
56300565 TTC
1 TTC
56300568 TACTCAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (23 bp):
TTCGGCCAATGATCCCAATTAAT
Found at i:56320592 original size:34 final size:34
Alignment explanation
Indices: 56320540--56320612 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
56320530 GCATTACTAT
* *
56320540 TACTGTTACAGTATTGGGCTA-AGGCCC-ACACTGA
1 TACTGATACAGTAATGGGCTATA-GCCCTA-ACTGA
*
56320574 TACTGATACTGTAATGGGCTATAGCCCTAACTGA
1 TACTGATACAGTAATGGGCTATAGCCCTAACTGA
56320608 TACTG
1 TACTG
56320613 GACTGTCACT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 32 0.94
35 2 0.06
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (34 bp):
TACTGATACAGTAATGGGCTATAGCCCTAACTGA
Found at i:56325521 original size:34 final size:34
Alignment explanation
Indices: 56325471--56325536 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
56325461 ATTTCAGTTA
*
56325471 GGGCCTTAGCCCATTTCAGCAACAGTAGCAGTCT
1 GGGCCTGAGCCCATTTCAGCAACAGTAGCAGTCT
* * *
56325505 GGGCCTGAGCCTATTTCAGTAACAGTATCAGT
1 GGGCCTGAGCCCATTTCAGCAACAGTAGCAGT
56325537 GGGGCCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (34 bp):
GGGCCTGAGCCCATTTCAGCAACAGTAGCAGTCT
Found at i:56334665 original size:36 final size:36
Alignment explanation
Indices: 56334624--56334692 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
56334614 CTAAACTAAT
*
56334624 AACTCACAGAGAAAATAATTGAGGAATTGCTTTAAG
1 AACTCACAGAGAAAAGAATTGAGGAATTGCTTTAAG
*
56334660 AACTCACAGAGAAAAGAATTGGGGAATTGCTTT
1 AACTCACAGAGAAAAGAATTGAGGAATTGCTTT
56334693 TGGGAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (36 bp):
AACTCACAGAGAAAAGAATTGAGGAATTGCTTTAAG
Found at i:56334827 original size:19 final size:19
Alignment explanation
Indices: 56334803--56334867 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
56334793 TTCAGTAGAG
56334803 ATCCCTAAGTTATGTTATT
1 ATCCCTAAGTTATGTTATT
* * *
56334822 ATCCCT-A-TTCAAGACTAATA
1 ATCCCTAAGTT-ATG--TTATT
56334842 ATCCCTAAGTTATGTTATT
1 ATCCCTAAGTTATGTTATT
56334861 ATCCCTA
1 ATCCCTA
56334868 TTCAAGACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 2 0.06
18 3 0.09
19 16 0.46
20 9 0.26
21 3 0.09
22 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (19 bp):
ATCCCTAAGTTATGTTATT
Found at i:56334846 original size:39 final size:39
Alignment explanation
Indices: 56334803--56334882 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
56334793 TTCAGTAGAG
56334803 ATCCCTAAGTTATGTTATTATCCCTATTCAAGACTAATA
1 ATCCCTAAGTTATGTTATTATCCCTATTCAAGACTAATA
56334842 ATCCCTAAGTTATGTTATTATCCCTATTCAAGACTAATA
1 ATCCCTAAGTTATGTTATTATCCCTATTCAAGACTAATA
56334881 AT
1 AT
56334883 GTCTAATCCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (39 bp):
ATCCCTAAGTTATGTTATTATCCCTATTCAAGACTAATA
Found at i:56334847 original size:20 final size:20
Alignment explanation
Indices: 56334822--56334882 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
56334812 TTATGTTATT
56334822 ATCCCTATTCAAGACTAATA
1 ATCCCTATTCAAGACTAATA
* * *
56334842 ATCCCTAAGTT-ATG--TTATT
1 ATCCCT-A-TTCAAGACTAATA
56334861 ATCCCTATTCAAGACTAATA
1 ATCCCTATTCAAGACTAATA
56334881 AT
1 AT
56334883 GTCTAATCCC
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
17 2 0.07
18 3 0.10
19 9 0.30
20 11 0.37
21 3 0.10
22 2 0.07
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (20 bp):
ATCCCTATTCAAGACTAATA
Found at i:56340699 original size:18 final size:20
Alignment explanation
Indices: 56340665--56340702 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
56340655 AAAAAGTGTA
56340665 AAATATATGGTAGAAATGTG
1 AAATATATGGTAGAAATGTG
56340685 AAATA-ATGG-AGAAATGTG
1 AAATATATGGTAGAAATGTG
56340703 GGCTTCCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 4 0.22
20 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (20 bp):
AAATATATGGTAGAAATGTG
Found at i:56342042 original size:29 final size:28
Alignment explanation
Indices: 56341976--56342084 Score: 128
Period size: 29 Copynumber: 3.8 Consensus size: 28
56341966 CACATACCTG
* * * *
56341976 TATATGGCCCACTAGACCCAACTATATT
1 TATATGGCCCATTAGGCCCAAATACATT
* *
56342004 CACATGGCCCATTAGGCCCAAATGACATT
1 TATATGGCCCATTAGGCCCAAAT-ACATT
*
56342033 TATATGGCCCTTTAGGCCCAAATTACATT
1 TATATGGCCCATTAGGCCCAAA-TACATT
*
56342062 TATGTGGCCCATTAGGCCCAAAT
1 TATATGGCCCATTAGGCCCAAAT
56342085 CAAATTATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 19 0.28
29 48 0.71
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (28 bp):
TATATGGCCCATTAGGCCCAAATACATT
Found at i:56346441 original size:29 final size:29
Alignment explanation
Indices: 56346370--56346488 Score: 134
Period size: 29 Copynumber: 4.2 Consensus size: 29
56346360 CACATACCTG
* * * *
56346370 TATATGGCCCACTAGACCCAACT-ATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
56346398 CATATGGCCCATTAGGCTCAAATGACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
56346427 TATATGGCCCTTTAGGCCCAAATTACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
56346456 TATGTGGCCCATTAGGCCCAAATCACA-T
1 TATATGGCCCATTAGGCCCAAATCACATT
56346484 TATAT
1 TATAT
56346489 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 23 0.30
29 53 0.70
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:56355714 original size:21 final size:21
Alignment explanation
Indices: 56355688--56355733 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
56355678 ATATCCCTCT
56355688 ACATAGATTGTGGTATATCCA
1 ACATAGATTGTGGTATATCCA
56355709 ACATAGATTGTGGTATATCCA
1 ACATAGATTGTGGTATATCCA
56355730 ACAT
1 ACAT
56355734 CAGCCTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
ACATAGATTGTGGTATATCCA
Found at i:56356102 original size:15 final size:17
Alignment explanation
Indices: 56356082--56356113 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
56356072 TTCTCAGGAC
56356082 TTTA-TTATAAA-ACAG
1 TTTATTTATAAACACAG
56356097 TTTATTTATAAACACAG
1 TTTATTTATAAACACAG
56356114 AAAGAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 7 0.47
17 4 0.27
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
TTTATTTATAAACACAG
Found at i:56362973 original size:39 final size:39
Alignment explanation
Indices: 56362930--56363008 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
56362920 TCATATTACA
* *
56362930 CATATAATAACCTATCATACAAGCATATACCACAATACT
1 CATATAATAACATAACATACAAGCATATACCACAATACT
* ** **
56362969 CATATAATCACATAACATTTAAGCATATGTCACAATACT
1 CATATAATAACATAACATACAAGCATATACCACAATACT
56363008 C
1 C
56363009 GAAAACATCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.28
Consensus pattern (39 bp):
CATATAATAACATAACATACAAGCATATACCACAATACT
Found at i:56363657 original size:18 final size:18
Alignment explanation
Indices: 56363634--56363670 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
56363624 ATTTAGAGTA
56363634 AGGGTTTAGGGTACTACT
1 AGGGTTTAGGGTACTACT
56363652 AGGGTTTAGGGTACTACT
1 AGGGTTTAGGGTACTACT
56363670 A
1 A
56363671 AATTCCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.32
Consensus pattern (18 bp):
AGGGTTTAGGGTACTACT
Found at i:56366126 original size:22 final size:22
Alignment explanation
Indices: 56366101--56366144 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
56366091 AATACAATAT
56366101 TTTTAAGCATATAAGTTATTCC
1 TTTTAAGCATATAAGTTATTCC
56366123 TTTTAAGCATATAAGTTATTCC
1 TTTTAAGCATATAAGTTATTCC
56366145 AACTCGTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (22 bp):
TTTTAAGCATATAAGTTATTCC
Found at i:56366666 original size:39 final size:39
Alignment explanation
Indices: 56366602--56366700 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
56366592 TATTCACTTT
* * * * *
56366602 CAAGCATATATCATATTACAT-ATATAATTACCTATCATA
1 CAAGCATATATCACAATAC-TCATATAATCACATAACATA
*
56366641 CAAGCATATATCACAATACTCATATAATCACATAACATT
1 CAAGCATATATCACAATACTCATATAATCACATAACATA
* *
56366680 TAAGCATATGTCACAATACTC
1 CAAGCATATATCACAATACTC
56366701 GAAACCATCC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 1 0.02
39 50 0.98
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.31
Consensus pattern (39 bp):
CAAGCATATATCACAATACTCATATAATCACATAACATA
Found at i:56369001 original size:17 final size:18
Alignment explanation
Indices: 56368981--56369021 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
56368971 ATAAACATAA
56368981 ATCATTCATTTCAT-TAT-
1 ATCATT-ATTTCATGTATC
*
56368998 ATCAATATTTCATGTATC
1 ATCATTATTTCATGTATC
56369016 ATCATT
1 ATCATT
56369022 TTCATGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (18 bp):
ATCATTATTTCATGTATC
Found at i:56375281 original size:28 final size:28
Alignment explanation
Indices: 56375232--56375344 Score: 119
Period size: 27 Copynumber: 4.1 Consensus size: 28
56375222 AGCATGGCTG
* *
56375232 CCAGA-ACAGATAA-TGTGACAGAGTCA
1 CCAGATACAGATAATTGTGGCAGAGCCA
* *
56375258 CCAGATAAAGATAATTGTGGCAGAACCA
1 CCAGATACAGATAATTGTGGCAGAGCCA
56375286 CCAGA-ACAGAT-ATATGTGGCAGAGCCA
1 CCAGATACAGATAAT-TGTGGCAGAGCCA
**
56375313 CCAGAT-CAGATAATTTGTGGCATCGCCA
1 CCAGATACAGATAA-TTGTGGCAGAGCCA
56375341 CCAG
1 CCAG
56375345 GACGCTTCCC
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.10
27 34 0.47
28 31 0.42
29 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATAATTGTGGCAGAGCCA
Found at i:56376791 original size:24 final size:24
Alignment explanation
Indices: 56376760--56376830 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
56376750 CTAGATTTCC
**
56376760 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
* *
56376784 TCCGTTATCAACTCCCAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
56376808 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
56376831 CTCCTGACAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.25, C:0.38, G:0.03, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:56381575 original size:20 final size:20
Alignment explanation
Indices: 56381550--56381590 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
56381540 TCAACTCCCA
56381550 TCAGCTCACTTGAGCTCGAT
1 TCAGCTCACTTGAGCTCGAT
** *
56381570 TCAGCTCGTTTGAGCTTGAT
1 TCAGCTCACTTGAGCTCGAT
56381590 T
1 T
56381591 TTAGCCCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (20 bp):
TCAGCTCACTTGAGCTCGAT
Found at i:56391397 original size:28 final size:28
Alignment explanation
Indices: 56391340--56391464 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
56391330 TAAATTGTGC
*
56391340 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
56391367 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
56391395 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
56391423 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
56391450 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56391465 GACTTAATAT
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 39 0.42
28 54 0.58
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:56395425 original size:185 final size:184
Alignment explanation
Indices: 56395104--56395474 Score: 589
Period size: 185 Copynumber: 2.0 Consensus size: 184
56395094 ACATCAAGTC
* *
56395104 CTTGAACTATTTCTATTTCAACAATTTAGTCCCTAATCGCGAAATTCATCAAAAATCACTTGACA
1 CTTGAACTATTTCTATTTCAACAATTTAGTCCCTAATCGCGAAATTCATAAAAAATCACTTAACA
* * ** *
56395169 AAATACTTTTAAATACCAACCAATAATCCAAATTGATCATTTAACATCTAAAATCACAAAGATTC
66 AAATAATTTTAAATACAAAAAAATAATCCAAATTCATCATTTAACATCTAAAATCACAAAGATTC
* *
56395234 ATTAATGGAAACATTCAAAATCTTTAACAGTTTCAAAAATAAAGGTAAGGGCTAG
131 ATTAATGAAAAC-TTCAAAATCTTTAACAGTTTCAAAAACAAAGGTAAGGGCTAG
** *
56395289 CTTGAACTATTTCTATTTCAACAATTTAGTCTTTAATTGCGAAATTCATAAAAAATCACTTAACA
1 CTTGAACTATTTCTATTTCAACAATTTAGTCCCTAATCGCGAAATTCATAAAAAATCACTTAACA
* * *
56395354 AAATAATTTTAAATACAAAAAAATAATTCAAATTCATCATTTAACATCTAAAATCACAAATATTT
66 AAATAATTTTAAATACAAAAAAATAATCCAAATTCATCATTTAACATCTAAAATCACAAAGATTC
*
56395419 ATTAATGAAAACTTCAAAATCTTTAACAGTTTCAAAAACAAAGGTACGGGCTAG
131 ATTAATGAAAACTTCAAAATCTTTAACAGTTTCAAAAACAAAGGTAAGGGCTAG
56395473 CT
1 CT
56395475 GGACCTAGTT
Statistics
Matches: 170, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
184 42 0.25
185 128 0.75
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.32
Consensus pattern (184 bp):
CTTGAACTATTTCTATTTCAACAATTTAGTCCCTAATCGCGAAATTCATAAAAAATCACTTAACA
AAATAATTTTAAATACAAAAAAATAATCCAAATTCATCATTTAACATCTAAAATCACAAAGATTC
ATTAATGAAAACTTCAAAATCTTTAACAGTTTCAAAAACAAAGGTAAGGGCTAG
Found at i:56404948 original size:20 final size:19
Alignment explanation
Indices: 56404876--56404954 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 19
56404866 TTGTACGGTA
*
56404876 TTTGCACTTTGGTGCCTCTG
1 TTTGCAC-TTGGTGCCCCTG
* * *
56404896 TATACACTTCGGTGTCCCTG
1 TTTGCACTT-GGTGCCCCTG
* *
56404916 TTCGTACTATGGTGCCCCTG
1 TTTGCACT-TGGTGCCCCTG
56404936 TTTGCACATTGGTGCCCCT
1 TTTGCAC-TTGGTGCCCCT
56404955 TTCTGCACCG
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
19 2 0.04
20 41 0.91
21 2 0.04
ACGTcount: A:0.10, C:0.29, G:0.23, T:0.38
Consensus pattern (19 bp):
TTTGCACTTGGTGCCCCTG
Found at i:56411371 original size:29 final size:28
Alignment explanation
Indices: 56411335--56411416 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
56411325 GCATGAATAT
*
56411335 AATGTGATTTAGGCTTAATGGGCCACATA
1 AATGTGATTT-GGCCTAATGGGCCACATA
* * *
56411364 AATGTGATTTTGCCTAAAGGGCCATATA
1 AATGTGATTTGGCCTAATGGGCCACATA
*
56411392 AATGTGATTTGGGCCTAATAGGCCA
1 AATGTGATTT-GGCCTAATGGGCCA
56411417 TGTGAATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (28 bp):
AATGTGATTTGGCCTAATGGGCCACATA
Found at i:56414825 original size:52 final size:50
Alignment explanation
Indices: 56414759--56414883 Score: 146
Period size: 50 Copynumber: 2.4 Consensus size: 50
56414749 ATGAACAAAT
* *
56414759 GAGTTAC-TGAATGCATGATTTAATTTAATGATTCAAACTTTAACTAACATGG
1 GAGTTACAT-AATGCATGATTTAATTT-ATGATGCAAAC-TTAACTAACATGA
* *
56414811 GAGTTACATAATGCATG-TCATAATTTATGATGCATACTTAACTAACATGA
1 GAGTTACATAATGCATGAT-TTAATTTATGATGCAAACTTAACTAACATGA
*
56414861 GAGCTACATAATGCATGACTTTA
1 GAGTTACATAATGCATGA-TTTA
56414884 TTAAATGTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
50 28 0.44
51 12 0.19
52 22 0.35
53 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGATTTAATTTATGATGCAAACTTAACTAACATGA
Found at i:56414869 original size:50 final size:52
Alignment explanation
Indices: 56414779--56414877 Score: 148
Period size: 50 Copynumber: 1.9 Consensus size: 52
56414769 ATGCATGATT
* * *
56414779 TAATTTAATGATTCAAACTTTAACTAACATGGGAGTTACATAATGCATGTCA
1 TAATTTAATGATGCAAACTTTAACTAACATGAGAGCTACATAATGCATGTCA
*
56414831 TAATTT-ATGATGCATAC-TTAACTAACATGAGAGCTACATAATGCATG
1 TAATTTAATGATGCAAACTTTAACTAACATGAGAGCTACATAATGCATG
56414878 ACTTTATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 28 0.65
51 9 0.21
52 6 0.14
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (52 bp):
TAATTTAATGATGCAAACTTTAACTAACATGAGAGCTACATAATGCATGTCA
Found at i:56417041 original size:40 final size:40
Alignment explanation
Indices: 56416974--56417150 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
56416964 ACCCAAGTAT
* *
56416974 CTTCGGGAT-TTAG-CCGGATATAACAACTCGTACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
56417013 CTTTGGGTCTTAGCACGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
56417053 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
56417093 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
56417133 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
56417151 TTATCATCCG
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 100 0.87
41 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:56419971 original size:42 final size:42
Alignment explanation
Indices: 56419909--56420070 Score: 146
Period size: 42 Copynumber: 3.7 Consensus size: 42
56419899 CGTTTCCTTG
* * *
56419909 ATGCCATAGTCCAACTATGGTCTTACACATCTTCACATAAT-A
1 ATGCCATAGACCAACTATGGTCTTACACATATTAACAT-ATCA
* * ** *
56419951 ATTCCATAGCCCAGTTATGGTCTTACACATATTAACATATCG
1 ATGCCATAGACCAACTATGGTCTTACACATATTAACATATCA
* *
56419993 ATGCCATAGACCAACTATGGTCTTACACGTAATCACATATCACATATCG
1 ATGCCATAGACCAACTATGGTCTTACAC---AT---AT-TAACATATCA
*
56420042 ATGCCATAGACCAGCTATGGTCTTACACA
1 ATGCCATAGACCAACTATGGTCTTACACA
56420071 GAATCACATA
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 56 0.57
45 2 0.02
46 1 0.01
48 2 0.02
49 36 0.36
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (42 bp):
ATGCCATAGACCAACTATGGTCTTACACATATTAACATATCA
Found at i:56420049 original size:49 final size:49
Alignment explanation
Indices: 56419976--56420188 Score: 250
Period size: 50 Copynumber: 4.3 Consensus size: 49
56419966 TATGGTCTTA
* * *
56419976 CACATATTAACATATCGATGCCATAGACCAACTATGGTCTTACACGTAAT
1 CACATAATCACATATCGATGCCATAGACCAGCTATGGTCTTACACG-AAT
56420026 CACAT-ATCACATATCGATGCCATAGACCAGCTATGGTCTTACACAGAAT
1 CACATAATCACATATCGATGCCATAGACCAGCTATGGTCTTACAC-GAAT
* * * * *
56420075 CACATAATCACATACCGATGCCATAGCCCACCTATAGTCTTATACGGAAT
1 CACATAATCACATATCGATGCCATAGACCAGCTATGGTCTTACAC-GAAT
* * * *
56420125 CACATAATCACATA-CTGATGCCATAGCCCAGCTATGATCTTATAAGGAAAT
1 CACATAATCACATATC-GATGCCATAGACCAGCTATGGTCTTA-CACG-AAT
56420176 CACATAATCACAT
1 CACATAATCACAT
56420189 CTTGCCATGA
Statistics
Matches: 144, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
49 45 0.31
50 82 0.57
51 17 0.12
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.25
Consensus pattern (49 bp):
CACATAATCACATATCGATGCCATAGACCAGCTATGGTCTTACACGAAT
Found at i:56420116 original size:99 final size:101
Alignment explanation
Indices: 56419976--56420188 Score: 281
Period size: 99 Copynumber: 2.1 Consensus size: 101
56419966 TATGGTCTTA
* * * * *
56419976 CACATATTAACATATCGATGCCATAGACCAACTATGGTCTTACACGTAATCACAT-ATCACATA-
1 CACATAATCACATACCGATGCCATAGACCAACTATAGTCTTACACGGAATCACATAATCACATAC
*
56420039 TCGATGCCATAGACCAGCTATGGTCTTACACA-G-AAT
66 T-GATGCCATAGACCAGCTATGATCTTACA-AGGAAAT
* * *
56420075 CACATAATCACATACCGATGCCATAGCCCACCTATAGTCTTATACGGAATCACATAATCACATAC
1 CACATAATCACATACCGATGCCATAGACCAACTATAGTCTTACACGGAATCACATAATCACATAC
* *
56420140 TGATGCCATAGCCCAGCTATGATCTTATAAGGAAAT
66 TGATGCCATAGACCAGCTATGATCTTACAAGGAAAT
56420176 CACATAATCACAT
1 CACATAATCACAT
56420189 CTTGCCATGA
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
99 48 0.48
100 34 0.34
101 17 0.17
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.25
Consensus pattern (101 bp):
CACATAATCACATACCGATGCCATAGACCAACTATAGTCTTACACGGAATCACATAATCACATAC
TGATGCCATAGACCAGCTATGATCTTACAAGGAAAT
Found at i:56422926 original size:49 final size:49
Alignment explanation
Indices: 56422872--56423103 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 49
56422862 CTGGTACGCA
* **
56422872 TAGTAGCCTGCACATAGTACTACACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
*
56422921 TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * ** * *
56422970 TAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* ** * * ** *
56423020 TAGTAGCCTGCACTTAGTACTACACACGTGATCACTGTTTTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATTATCCGGTACACG
*
56423071 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
56423104 TCACAATAGA
Statistics
Matches: 156, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 76 0.49
50 43 0.28
51 36 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:56423043 original size:99 final size:101
Alignment explanation
Indices: 56422859--56423096 Score: 266
Period size: 99 Copynumber: 2.4 Consensus size: 101
56422849 TAGCCAAAGC
* * * * * ** ** * *
56422859 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACC-AATTATCCGGTACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACGTA
*
56422923 GTAGCCTACACTTAGTACTACACATGTGA-C-CAAT
66 GTAGCCTACACTTAGTACTACACACGTGATCACAAT
*
56422957 TATCCGGTACACGTAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACGTA
* **
56423022 GTAGCCTGCACTTAGTACTACACACGTGATCACTGT
66 GTAGCCTACACTTAGTACTACACACGTGATCACAAT
* * ** *
56423058 TTTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTAATACACA
56423097 TGCGACCTCA
Statistics
Matches: 115, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
98 38 0.33
99 41 0.36
100 1 0.01
101 35 0.30
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACGTA
GTAGCCTACACTTAGTACTACACACGTGATCACAAT
Found at i:56425283 original size:15 final size:15
Alignment explanation
Indices: 56425235--56425301 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
56425225 TAAAGATAAC
*
56425235 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
56425249 AAGAAATCCTAG-ATA
1 AAGAAA-CCCAGAATA
*
56425264 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
* *
56425279 AAGAAACCTAGAGTA
1 AAGAAACCCAGAATA
56425294 AAGAAACC
1 AAGAAACC
56425302 GAAGATACGA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
14 10 0.23
15 32 0.74
16 1 0.02
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:56425288 original size:29 final size:30
Alignment explanation
Indices: 56425235--56425301 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
56425225 TAAAGATAAC
*
56425235 AAGAAAACCGAATAAAGAAATCCTAGA-TA
1 AAGAAACCCGAATAAAGAAATCCTAGAGTA
*
56425264 GAGAAACCCAGAATAAAGAAA-CCTAGAGTA
1 AAGAAACCC-GAATAAAGAAATCCTAGAGTA
56425294 AAGAAACC
1 AAGAAACC
56425302 GAAGATACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGAATAAAGAAATCCTAGAGTA
Found at i:56428372 original size:49 final size:49
Alignment explanation
Indices: 56428319--56428543 Score: 288
Period size: 49 Copynumber: 4.5 Consensus size: 49
56428309 CTGGTACGCA
* * *
56428319 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
56428368 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
56428417 TAGTAGCCTGCACTTAATACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * * *
56428467 TAGTAGCCTACACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
*
56428518 TAGTAGCATGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
56428544 TGCGACCTCA
Statistics
Matches: 153, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
49 78 0.51
50 41 0.27
51 33 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:56428488 original size:99 final size:100
Alignment explanation
Indices: 56428306--56428550 Score: 305
Period size: 99 Copynumber: 2.5 Consensus size: 100
56428296 TAGCCAAAGC
* * * * ** *
56428306 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
*
56428371 TAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTACACTTAGTACTACACACGTGATCACAAT
* * * *
56428404 TATCCGGTACACGTAGTAGCCTGCACTTAATACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
*
56428469 GTAGCCTACACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTACACTTAGTACTACACACGTGATCACAAT
* * * * *
56428505 TTTCGGGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
56428551 TCACAATAGA
Statistics
Matches: 123, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 39 0.32
99 42 0.34
100 1 0.01
101 41 0.33
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTACACTTAGTACTACACACGTGATCACAAT
Found at i:56430215 original size:24 final size:24
Alignment explanation
Indices: 56430185--56430234 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
56430175 GCCTCAGCCA
56430185 TTTTAAAATGATCCATTTTCCATT
1 TTTTAAAATGATCCATTTTCCATT
56430209 TTTTAAAATGATCCATTTTCCATT
1 TTTTAAAATGATCCATTTTCCATT
56430233 TT
1 TT
56430235 AGTCCTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTTAAAATGATCCATTTTCCATT
Found at i:56432758 original size:68 final size:67
Alignment explanation
Indices: 56432712--56432869 Score: 271
Period size: 68 Copynumber: 2.3 Consensus size: 67
56432702 ATACTATATA
56432712 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTAC-TGAGAGATA
56432777 AAT
65 AAT
*
56432780 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTAC-TGAGAGATA
56432845 AAT
65 AAT
* *
56432848 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
56432870 TCCAAGTGAA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACTGAGAGATAA
AT
Found at i:56432943 original size:66 final size:67
Alignment explanation
Indices: 56432746--56432943 Score: 192
Period size: 68 Copynumber: 2.9 Consensus size: 67
56432736 GAGATGTATC
* * *
56432746 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
56432808 TGTATC-
62 AGGA-CA
*
56432814 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
56432879 AGGACA
62 AGGACA
* *
56432885 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
56432944 TTCACCATGT
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 55 0.47
69 1 0.01
70 1 0.01
71 26 0.22
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:56441563 original size:33 final size:33
Alignment explanation
Indices: 56441521--56441586 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
56441511 TTGATGAGAG
*
56441521 GATATGTATGATATTACGATATTGTTTCTTCTA
1 GATATGTATGATATTACGATACTGTTTCTTCTA
* *
56441554 GATATGTATGATATTATGATACTGTTTTTTCTA
1 GATATGTATGATATTACGATACTGTTTCTTCTA
56441587 CTTAATGCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (33 bp):
GATATGTATGATATTACGATACTGTTTCTTCTA
Found at i:56441785 original size:15 final size:15
Alignment explanation
Indices: 56441761--56441829 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
56441751 AATCGTATCT
56441761 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
*
56441776 TGGATTTCTTTATTC
1 TGGGTTTCTTTATTC
56441791 TGGGTTT-TTCTA-TC
1 TGGGTTTCTT-TATTC
56441805 TTGGGTTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
56441821 -GGTTTTCTT
1 TGGGTTTCTT
56441830 GTCATCTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
14 12 0.26
15 31 0.66
16 4 0.09
ACGTcount: A:0.07, C:0.13, G:0.19, T:0.61
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:56447086 original size:42 final size:42
Alignment explanation
Indices: 56447040--56447154 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 42
56447030 ATTCCATAGT
*
56447040 CCAACTATGGTCTTACACATCTTCACATAAT-GATGCCACAAC
1 CCAACTATGGTCTTACACATATTCACAT-ATCGATGCCACAAC
* *
56447082 CCAACTATGGTCTTACACATATTCACATATCGATGCCATAGC
1 CCAACTATGGTCTTACACATATTCACATATCGATGCCACAAC
* * *
56447124 CCAGCTATGGTCTTACACGTAATCACATATC
1 CCAACTATGGTCTTACACATATTCACATATC
56447155 ACATATCGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 2 0.03
42 64 0.97
ACGTcount: A:0.31, C:0.30, G:0.11, T:0.28
Consensus pattern (42 bp):
CCAACTATGGTCTTACACATATTCACATATCGATGCCACAAC
Found at i:56447227 original size:50 final size:50
Alignment explanation
Indices: 56447104--56447316 Score: 329
Period size: 50 Copynumber: 4.3 Consensus size: 50
56447094 TTACACATAT
* *
56447104 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACAT-A
1 TCACATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGA
* *
56447153 TCACATATCGATGCCATAGCCTAGCTATGGTCTTACACGGAATCACATGA
1 TCACATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGA
* *
56447203 TCACATACCGATGCCATAGCCTAGCTATGGTCTTACACGAAATCACATGA
1 TCACATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGA
* * *
56447253 TCACATACCGATGCCATAGCCCAACTATGGTCTTACATGGAATCACATAA
1 TCACATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGA
*
56447303 TCACATACCAATGC
1 TCACATACCGATGC
56447317 TTATAAGTAA
Statistics
Matches: 153, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 46 0.30
50 107 0.70
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (50 bp):
TCACATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGA
Found at i:56451996 original size:18 final size:18
Alignment explanation
Indices: 56451973--56452022 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
56451963 AAAACAAAAG
*
56451973 AAATAACAAAATAACAAA
1 AAATAAAAAAATAACAAA
*
56451991 AAATAAAAAAATAATAAA
1 AAATAAAAAAATAACAAA
56452009 ATAATAAAAGAAAT
1 A-AATAAAA-AAAT
56452023 CCTAACCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 17 0.61
19 7 0.25
20 4 0.14
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (18 bp):
AAATAAAAAAATAACAAA
Found at i:56452002 original size:26 final size:27
Alignment explanation
Indices: 56451963--56452017 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
56451953 CTCTTTTTTT
56451963 AAAACAAAAGAAATAACAAAATAACAA
1 AAAACAAAAGAAATAACAAAATAACAA
* * *
56451990 AAAATAAAA-AAATAATAAAATAATAA
1 AAAACAAAAGAAATAACAAAATAACAA
56452016 AA
1 AA
56452018 GAAATCCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.13
Consensus pattern (27 bp):
AAAACAAAAGAAATAACAAAATAACAA
Found at i:56466986 original size:22 final size:22
Alignment explanation
Indices: 56466958--56466999 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
56466948 TGCCCTTGGA
*
56466958 GTTAGAACATAGAGCTTACTGG
1 GTTAGAACATAAAGCTTACTGG
56466980 GTTAGAACATAAAGCTTACT
1 GTTAGAACATAAAGCTTACT
56467000 AGGCTCTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (22 bp):
GTTAGAACATAAAGCTTACTGG
Found at i:56468201 original size:21 final size:21
Alignment explanation
Indices: 56468168--56468228 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
56468158 CTCTTGAAAT
56468168 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
56468188 AGGGCAATACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
56468209 AGGGCAACACGCCAGTGTGG
1 AGGGCAACACGCCCGTGTGG
56468229 TCATTATAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 5 0.14
21 32 0.86
ACGTcount: A:0.23, C:0.26, G:0.39, T:0.11
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:56471386 original size:27 final size:27
Alignment explanation
Indices: 56471369--56471894 Score: 570
Period size: 27 Copynumber: 19.7 Consensus size: 27
56471359 TTACACTACA
* *
56471369 AGGGTATTTCAGTAATTTTACATTAT-A
1 AGGGTATTTCAGTAATTTTACA-AATCG
*
56471396 AAGGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* *
56471423 AGGGTGTTTTAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** *
56471450 AAGGTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
56471477 AGGGTATTTC-GTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** *
56471503 AGGGTGTTTTGGTAATTTCACAAATCTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
56471531 -GGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
56471557 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
56471584 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
56471610 AGTGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
** *
56471637 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
56471664 AGGGTATTTCAATAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
56471690 AGAGTATTTTGGTAATTTTACAAATC-
1 AGGGTATTTCAGTAATTTTACAAATCG
*
56471716 AGGGGTATTTC-GATAATTTTACAAATTG
1 A-GGGTATTTCAG-TAATTTTACAAATCG
** * *
56471744 AGGGTATTTTGGTAATTTCAC-AATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
**
56471770 ATAGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
56471797 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
56471823 AAGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** *
56471850 GGGGTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
56471877 AGGGTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTT
56471895 CTCTTTATTA
Statistics
Matches: 421, Mismatches: 62, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.00
26 115 0.27
27 300 0.71
28 5 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:56471513 original size:53 final size:53
Alignment explanation
Indices: 56471369--56471894 Score: 553
Period size: 53 Copynumber: 9.8 Consensus size: 53
56471359 TTACACTACA
* * * *
56471369 AGGGTATTTCAGTAATTTTACATTAT-AAAGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTC-GTAATTTTACA-AATCGAGGGTATTTCGGTAATTTTACAAATCG
* * * * *
56471423 AGGGTGTTTTAGTAATTTTACAAATCGAAGGTATTTTGGTAATTTTACAAATCA
1 AGGGT-ATTTCGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
* * *
56471477 AGGGTATTTCGTAATTTTACAAATCGAGGGTGTTTTGGTAATTTCACAAATCTG
1 AGGGTATTTCGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATC-G
*
56471531 -GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTC-GTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
* * *
56471584 AGGGTATTTCAGTAATTTCAC-AATCGAGTGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTC-GTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
* * ** *
56471637 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAATAATTTCAC-AATCG
1 AGGGTA-TTTCGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
* * * *
56471690 AGAGTATTTTGGTAATTTTACAAATC-AGGGGTATTTCGATAATTTTACAAATTG
1 AGGGTA-TTTCGTAATTTTACAAATCGA-GGGTATTTCGGTAATTTTACAAATCG
* * * ** *
56471744 AGGGTATTTTGGTAATTTCAC-AATTGATAGTATTTCAGTAATTTTACAAATCG
1 AGGGTA-TTTCGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
* * *
56471797 AGGGTATTTCAGTAATTTCAC-AATCGAAGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTC-GTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
* * * *
56471850 GGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTT
1 AGGGTA-TTTCGTAATTTTACAAATCGAGGGTATTTCGGTAATTT
56471895 CTCTTTATTA
Statistics
Matches: 406, Mismatches: 53, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.01
53 226 0.56
54 173 0.43
55 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (53 bp):
AGGGTATTTCGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
Found at i:56471895 original size:80 final size:79
Alignment explanation
Indices: 56471369--56471894 Score: 608
Period size: 80 Copynumber: 6.6 Consensus size: 79
56471359 TTACACTACA
* * * * *
56471369 AGGGTATTTCAGTAATTTTACATTAT-AAAGGTATTTCGATAATTTTACAAATCGAGGGTGTTTT
1 AGGGTATTTCGGTAATTTTACA-AATCAAGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTC
*
56471433 AGTAATTTTACAAATCG
64 AGTAATTTCAC-AATCG
* * * **
56471450 AAGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGTAATTTTACAAATCGAGGGTGTTTTGG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGTAATTTTACAAATCGAGGGTATTTCAG
56471515 TAATTTCACAAATCTG
66 TAATTTCAC-AATC-G
*
56471531 -GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTC-GTAATTTTACAAATCGAGGGTATTTCA
56471595 GTAATTTCACAATCG
65 GTAATTTCACAATCG
* * * * *
56471610 AGTGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCA
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTA-TTTCGTAATTTTACAAATCGAGGGTATTTCA
*
56471675 ATAATTTCACAATCG
65 GTAATTTCACAATCG
* * * * **
56471690 AGAGTATTTTGGTAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAATTGAGGGTATTTTG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTCA
*
56471755 GTAATTTCACAATTG
65 GTAATTTCACAATCG
** * * * * *
56471770 ATAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-AATCGAAGGTATTTCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTC-GTAATTTTACAAATCGAGGGTATTTCA
* *
56471834 GTAATTTTACAAATTG
65 GTAATTTCAC-AATCG
* *
56471850 GGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTC-GTAATTT
56471895 CTCTTTATTA
Statistics
Matches: 393, Mismatches: 44, Indels: 17
0.87 0.10 0.04
Matches are distributed among these distances:
79 27 0.07
80 297 0.76
81 69 0.18
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (79 bp):
AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGTAATTTTACAAATCGAGGGTATTTCAG
TAATTTCACAATCG
Found at i:56472237 original size:29 final size:29
Alignment explanation
Indices: 56472195--56472284 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
56472185 TCCACACTTA
* * *
56472195 TTCATTTGGCCCCTTTAGGCCCAATCTTG
1 TTCATATGACCCCTTTAGGCCCAATCTCG
*
56472224 TTCATATGACCCCTTTAGGTCCAATCTCG
1 TTCATATGACCCCTTTAGGCCCAATCTCG
* * * * *
56472253 TTCACATG-GCTCATCAGGCCCAATCTCG
1 TTCATATGACCCCTTTAGGCCCAATCTCG
56472281 TTCA
1 TTCA
56472285 CATGGCCCAT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 19 0.37
29 32 0.63
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.33
Consensus pattern (29 bp):
TTCATATGACCCCTTTAGGCCCAATCTCG
Done.