Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 44 of 55
Found at i:8873043 original size:10 final size:10
Alignment explanation
Indices: 8873028--8873101 Score: 64
Period size: 10 Copynumber: 7.5 Consensus size: 10
8873018 TATTATGCTT
8873028 GAAAAAAAAA
1 GAAAAAAAAA
*
8873038 G--AAAAAAT
1 GAAAAAAAAA
*
8873046 GAAGAAAAAA
1 GAAAAAAAAA
8873056 GAAAAAAAAA
1 GAAAAAAAAA
8873066 GAAAGAAAAAA
1 GAAA-AAAAAA
**
8873077 TG-TTAAAAAA
1 -GAAAAAAAAA
*
8873087 GAAAAAAATA
1 GAAAAAAAAA
8873097 GAAAA
1 GAAAA
8873102 GGAGGGTCAG
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
8 7 0.14
9 1 0.02
10 35 0.70
11 6 0.12
12 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:8873050 original size:11 final size:11
Alignment explanation
Indices: 8873036--8873078 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
8873026 TTGAAAAAAA
8873036 AAGAAAAAATG
1 AAGAAAAAATG
8873047 AAGAAAAAA-G
1 AAGAAAAAATG
*
8873057 AA-AAAAAAAG
1 AAGAAAAAATG
8873067 AAAGAAAAAATG
1 -AAGAAAAAATG
8873079 TTAAAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 6 0.21
10 4 0.14
11 11 0.39
12 7 0.25
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (11 bp):
AAGAAAAAATG
Found at i:8873053 original size:18 final size:18
Alignment explanation
Indices: 8873027--8873062 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8873017 ATATTATGCT
8873027 TGAAAAAAAAAGAAAAAA
1 TGAAAAAAAAAGAAAAAA
*
8873045 TGAAGAAAAAAGAAAAAA
1 TGAAAAAAAAAGAAAAAA
8873063 AAAGAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.06
Consensus pattern (18 bp):
TGAAAAAAAAAGAAAAAA
Found at i:8873054 original size:21 final size:21
Alignment explanation
Indices: 8873029--8873101 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
8873019 ATTATGCTTG
8873029 AAAAAA-AAAGAAAAAATG-AAG
1 AAAAAAGAAA-AAAAAA-GAAAG
8873050 AAAAAAGAAAAAAAAAGAAAG
1 AAAAAAGAAAAAAAAAGAAAG
**
8873071 AAAAAATG-TTAAAAAAGAAA-
1 AAAAAA-GAAAAAAAAAGAAAG
*
8873091 AAAATAGAAAA
1 AAAAAAGAAAA
8873102 GGAGGGTCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 1 0.02
20 7 0.16
21 31 0.72
22 4 0.09
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAAAAGAAAAAAAAAGAAAG
Found at i:8873075 original size:31 final size:31
Alignment explanation
Indices: 8873029--8873100 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
8873019 ATTATGCTTG
8873029 AAAAAA-AAAGAAAAAATGAAGAAAAAAGAAA
1 AAAAAAGAAAGAAAAAATG-AGAAAAAAGAAA
**
8873060 AAAAAAGAAAGAAAAAATGTTAAAAAAGAAA
1 AAAAAAGAAAGAAAAAATGAGAAAAAAGAAA
*
8873091 AAAATAGAAA
1 AAAAAAGAAA
8873101 AGGAGGGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 25 0.68
32 12 0.32
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (31 bp):
AAAAAAGAAAGAAAAAATGAGAAAAAAGAAA
Found at i:8873087 original size:17 final size:15
Alignment explanation
Indices: 8873032--8873093 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 15
8873022 ATGCTTGAAA
8873032 AAAAAAGAAAAAATGAAG
1 AAAAAAGAAAAAAT---G
8873050 AAAAAAGAAAAAA--
1 AAAAAAGAAAAAATG
8873063 AAAGAAAGAAAAAATG
1 AAA-AAAGAAAAAATG
8873079 TTAAAAAAGAAAAAA
1 --AAAAAAGAAAAAA
8873094 ATAGAAAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.08
14 10 0.26
17 10 0.26
18 16 0.41
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (15 bp):
AAAAAAGAAAAAATG
Found at i:8873446 original size:18 final size:18
Alignment explanation
Indices: 8873423--8873457 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8873413 CAAGTTTATC
8873423 TTTTTGAAATTCAATTTA
1 TTTTTGAAATTCAATTTA
8873441 TTTTTGAAATTCAATTT
1 TTTTTGAAATTCAATTT
8873458 GTTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTTGAAATTCAATTTA
Found at i:8874817 original size:113 final size:113
Alignment explanation
Indices: 8874618--8875176 Score: 615
Period size: 123 Copynumber: 4.8 Consensus size: 113
8874608 TCTATCATTC
*
8874618 GATGGATCAACATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 GATGGATCAACATTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * **
8874683 TTCATAATGTGAAGAACTTGTTTAACCTTTTGC-TCAAAT-TCATCAC-TT
65 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCAT-AACTCT-ATCACAGA
*
8874731 GATGGATCAACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
1 GATGGATCAACATTTCCAGAGA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* ** * ***
8874796 TTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTGAATTC-ATCA-TTT
65 TTCATAATGAGAAGAACTTGTTC-AACCTTTTGCAT-AACTCTATCACAGA
* *
8874845 GATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGT
1 GATGGATCAACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* *
8874910 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGA
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCATAACTCTATCAC---A-GA
* * *
8874962 GATAGATCAACATCAACTTTTCCAGAGAAATTCATAATGAGAAAAACTCATCTGAAGAAGGAAGA
1 GATGGATC-A-A-C-A--TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
* * *
8875027 AGAAGTTTATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGA
60 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATAACTCTATCAC---A-GA
*
8875085 GATAGATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 GATGGATC-A-A-C-A--TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
*
8875150 AGAAATTCATAATGAGAAGAACTTGTT
60 AGAAGTTCATAATGAGAAGAACTTGTT
8875177 TATTTTTTTT
Statistics
Matches: 398, Mismatches: 31, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
111 3 0.01
112 16 0.04
113 141 0.35
114 36 0.09
115 4 0.01
117 7 0.02
118 1 0.00
119 1 0.00
120 1 0.00
123 188 0.47
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (113 bp):
GATGGATCAACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTTTGCATAACTCTATCACAGA
Found at i:8875499 original size:3 final size:3
Alignment explanation
Indices: 8875480--8875516 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
8875470 TTTTTATTTA
* *
8875480 ATT ACT ATT AGT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8875517 AATAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:8878341 original size:15 final size:16
Alignment explanation
Indices: 8878321--8878350 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8878311 TGTGGGGGTG
8878321 GTGGGTA-GTGGTTTA
1 GTGGGTAGGTGGTTTA
8878336 GTGGGTAGGTGGTTT
1 GTGGGTAGGTGGTTT
8878351 TTAAGTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.10, C:0.00, G:0.50, T:0.40
Consensus pattern (16 bp):
GTGGGTAGGTGGTTTA
Found at i:8888499 original size:16 final size:16
Alignment explanation
Indices: 8888478--8888517 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8888468 GTCGCTGGTA
8888478 TCTTCCCCTATCTACT
1 TCTTCCCCTATCTACT
*
8888494 TCTTCCCCTGTCTACT
1 TCTTCCCCTATCTACT
*
8888510 TATTCCCC
1 TCTTCCCC
8888518 ATCATTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.10, C:0.45, G:0.03, T:0.42
Consensus pattern (16 bp):
TCTTCCCCTATCTACT
Found at i:8889665 original size:2 final size:2
Alignment explanation
Indices: 8889658--8889712 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
8889648 AATAAATAAA
8889658 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8889700 AT AT AG AT AT AT A
1 AT AT AT AT AT AT A
8889713 AAAATGTAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8890678 original size:2 final size:2
Alignment explanation
Indices: 8890671--8890705 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8890661 ATTCTCATAG
8890671 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8890706 TTAGATCAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8892839 original size:2 final size:2
Alignment explanation
Indices: 8892834--8892889 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
8892824 GTATAACCAC
8892834 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8892876 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
8892890 GATCTATTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8893802 original size:21 final size:21
Alignment explanation
Indices: 8893777--8893819 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
8893767 TGATCGGATA
8893777 CCTTATTTCTTACCTGATCTG
1 CCTTATTTCTTACCTGATCTG
8893798 CCTTATTTCTTACCTGATCTG
1 CCTTATTTCTTACCTGATCTG
8893819 C
1 C
8893820 GTCTTACCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.30, G:0.09, T:0.47
Consensus pattern (21 bp):
CCTTATTTCTTACCTGATCTG
Found at i:8894230 original size:4 final size:4
Alignment explanation
Indices: 8894221--8894248 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
8894211 TAAAACGGAA
8894221 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
8894249 GAGGAAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:8894312 original size:2 final size:2
Alignment explanation
Indices: 8894299--8894328 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8894289 ATTAAATAAA
*
8894299 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8894329 TCAAATGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8896607 original size:105 final size:105
Alignment explanation
Indices: 8896282--8896938 Score: 1028
Period size: 105 Copynumber: 6.2 Consensus size: 105
8896272 GTATTGTTCC
* * * * * *
8896282 GAGTCCAATATCATCCGCTGTGAAGTTGAAGTTGGCTCTGAAACTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAA
* * * * *
8896347 CCAGCGATCCCTTCGTCGTGAAGTTGAACTTGTGTTGCCTT
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* *
8896388 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AGATTGCTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TTG-TTGTTGACA
* ** * * *
8896452 ATCAGCGGTCCCTTCGTTATGAAGTTGAACTTGTGCTGTCTT
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
*
8896494 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
8896559 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* * * *
8896599 GAGTCCAATATCCTTCGCTGTGAATTTGAAATTGGCTCTGAGATTAGGAAGTTATTGTTGACAAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
8896664 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
*
8896704 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
* *
8896769 TAGAGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
8896809 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
*
8896874 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
8896914 GAGTCCAATATCCTTCGCTGTGAAG
1 GAGTCCAATATCCTTCGCTGTGAAG
8896939 ATGACGGGCT
Statistics
Matches: 515, Mismatches: 34, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
105 371 0.72
106 142 0.28
107 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
Found at i:8900102 original size:4 final size:4
Alignment explanation
Indices: 8900093--8900120 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
8900083 TAAAACGGAA
8900093 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
8900121 GAGGAAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:8900184 original size:2 final size:2
Alignment explanation
Indices: 8900171--8900210 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
8900161 ATTAAATAAA
*
8900171 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8900211 TCGAATGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8900480 original size:16 final size:17
Alignment explanation
Indices: 8900461--8900496 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
8900451 AATAACGTAT
*
8900461 AAATAAAATATATA-TA
1 AAATAAAATAAATAGTA
8900477 AAATAAAATAAATAGTA
1 AAATAAAATAAATAGTA
8900494 AAA
1 AAA
8900497 AATATATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATAAAATAAATAGTA
Found at i:8902273 original size:10 final size:10
Alignment explanation
Indices: 8902258--8902290 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
8902248 CATCATAAAT
8902258 GGGACAATAA
1 GGGACAATAA
8902268 GGGACAATAA
1 GGGACAATAA
*
8902278 GGGACGATAA
1 GGGACAATAA
8902288 GGG
1 GGG
8902291 TGATTGGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.39, T:0.09
Consensus pattern (10 bp):
GGGACAATAA
Found at i:8904396 original size:2 final size:2
Alignment explanation
Indices: 8904389--8904420 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8904379 ACAAATAACA
8904389 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8904421 TTCATCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8907174 original size:2 final size:2
Alignment explanation
Indices: 8907167--8907230 Score: 59
Period size: 2 Copynumber: 35.0 Consensus size: 2
8907157 AACTAAAGTA
*
8907167 AT AT AT AT AT AT AT AT AT AT AT -T AT -T AT A- AT AC AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
8907205 A- AT AT AT AT AT A- AT AT TT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8907231 GATTTATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
1 6 0.12
2 46 0.88
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:8907227 original size:11 final size:11
Alignment explanation
Indices: 8907165--8907241 Score: 58
Period size: 10 Copynumber: 7.5 Consensus size: 11
8907155 AAAACTAAAG
*
8907165 TAATATATATA
1 TAATATATTTA
*
8907176 T-ATATATATA
1 TAATATATTTA
8907186 T-AT-TA-TTA
1 TAATATATTTA
*
8907194 TAATACA-TTA
1 TAATATATTTA
*
8907204 TAATATATATA
1 TAATATATTTA
*
8907215 TAATATTTTTA
1 TAATATATTTA
8907226 T-ATATGATTTA
1 TAATAT-ATTTA
8907237 TAATA
1 TAATA
8907242 AAAAAAATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
8 3 0.06
9 4 0.07
10 26 0.48
11 18 0.33
12 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (11 bp):
TAATATATTTA
Found at i:8915409 original size:23 final size:23
Alignment explanation
Indices: 8915382--8915470 Score: 124
Period size: 23 Copynumber: 3.9 Consensus size: 23
8915372 CGTATAAATG
* * *
8915382 CGAAGTACCACGTAGGATTGCAC
1 CGAAGTGCCACGTAGAAATGCAC
*
8915405 CGAAGTGCCGCGTAGAAATGCAC
1 CGAAGTGCCACGTAGAAATGCAC
* *
8915428 TGAAGTGCCGCGTAGAAATGCAC
1 CGAAGTGCCACGTAGAAATGCAC
8915451 CGAAGTGCCACGTAGAAATG
1 CGAAGTGCCACGTAGAAATG
8915471 TCCATAAGGG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.31, C:0.24, G:0.29, T:0.16
Consensus pattern (23 bp):
CGAAGTGCCACGTAGAAATGCAC
Found at i:8915483 original size:23 final size:22
Alignment explanation
Indices: 8915457--8915500 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
8915447 GCACCGAAGT
*
8915457 GCCACGTAGAAATGTCCATAAGG
1 GCCACATAGAAAT-TCCATAAGG
*
8915480 GCCACATAGAAATTCCTTAAG
1 GCCACATAGAAATTCCATAAG
8915501 AATCATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (22 bp):
GCCACATAGAAATTCCATAAGG
Found at i:8915490 original size:46 final size:46
Alignment explanation
Indices: 8915400--8915492 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
8915390 CACGTAGGAT
* * * *
8915400 TGCACCGAAGTGCCGCGTAGAAATGCACTGAAGTGCCGCGTAGAAA
1 TGCACCGAAGTGCCACGTAGAAATGCACTGAAGGGCCACATAGAAA
8915446 TGCACCGAAGTGCCACGTAGAAATGTC-CAT-AAGGGCCACATAGAAA
1 TGCACCGAAGTGCCACGTAGAAATG-CAC-TGAAGGGCCACATAGAAA
8915492 T
1 T
8915493 TCCTTAAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
46 39 0.95
47 2 0.05
ACGTcount: A:0.33, C:0.24, G:0.27, T:0.16
Consensus pattern (46 bp):
TGCACCGAAGTGCCACGTAGAAATGCACTGAAGGGCCACATAGAAA
Found at i:8924138 original size:35 final size:35
Alignment explanation
Indices: 8924087--8924157 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
8924077 CGTGGTCATC
*
8924087 CAAAGTCTACTCGAATTCATTGTGATGTGGATATT
1 CAAAATCTACTCGAATTCATTGTGATGTGGATATT
8924122 CAAAATCTACTCGAATTCATTGTGATGTGGATATT
1 CAAAATCTACTCGAATTCATTGTGATGTGGATATT
8924157 C
1 C
8924158 GAGAAAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (35 bp):
CAAAATCTACTCGAATTCATTGTGATGTGGATATT
Found at i:8924639 original size:13 final size:13
Alignment explanation
Indices: 8924586--8924610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8924576 GTAATAAACA
8924586 AAATTAACAAAAT
1 AAATTAACAAAAT
8924599 AAATTAACAAAA
1 AAATTAACAAAA
8924611 AGTCCAACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATTAACAAAAT
Found at i:8927932 original size:29 final size:30
Alignment explanation
Indices: 8927898--8927968 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
8927888 CAAAAAATTA
8927898 ATTAAATAAAATATTAA-AAAAT-TTAAAT
1 ATTAAATAAAATATTAACAAAATATTAAAT
*
8927926 AGTTAAATAAAATACTAACAAAATATTAAAT
1 A-TTAAATAAAATATTAACAAAATATTAAAT
8927957 A-T-AATAAAATAT
1 ATTAAATAAAATAT
8927969 ACCTTAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 10 0.26
29 16 0.42
30 5 0.13
31 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (30 bp):
ATTAAATAAAATATTAACAAAATATTAAAT
Found at i:8927967 original size:17 final size:18
Alignment explanation
Indices: 8927935--8927968 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8927925 TAGTTAAATA
8927935 AAATACTAACAAAATATT
1 AAATACTAACAAAATATT
*
8927953 AAATA-TAATAAAATAT
1 AAATACTAACAAAATAT
8927969 ACCTTAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATACTAACAAAATATT
Found at i:8931834 original size:26 final size:25
Alignment explanation
Indices: 8931799--8931852 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
8931789 TTCTTTAATA
8931799 TTAAAAAATAAATAAATAT-TATTAT
1 TTAAAAAATAAATAAATATATA-TAT
* *
8931824 TTAAACAAATATATATATATATATAT
1 TTAAA-AAATAAATAAATATATATAT
8931850 TTA
1 TTA
8931853 TATATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 18 0.72
27 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTAAAAAATAAATAAATATATATAT
Found at i:8933478 original size:3 final size:3
Alignment explanation
Indices: 8933470--8933512 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
8933460 AATATTTATT
*
8933470 TAA TAA TAA TAA TAA TGTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
8933513 CAAACTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8933686 original size:45 final size:45
Alignment explanation
Indices: 8933635--8933803 Score: 320
Period size: 45 Copynumber: 3.8 Consensus size: 45
8933625 GATGAAAATG
8933635 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
8933680 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGTTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
8933725 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGATGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
8933770 TTGAAAACATCATGCACTGAAGGGCTTACAGATG
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATG
8933804 TAGGAAATAG
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 121 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (45 bp):
TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
Found at i:8934942 original size:54 final size:54
Alignment explanation
Indices: 8934870--8934991 Score: 129
Period size: 54 Copynumber: 2.3 Consensus size: 54
8934860 AAAACATGTG
* * * * * *
8934870 ACAATACATTAATCCTTTCTCGTGGCTTTTGCCCGGAT-TTTCGTAAAGCTTTTA
1 ACAACACATTCATCCTTTCTCATGGCTTTTGCCCAGATGTTT-GCAAAGCATTTA
* * * * *
8934924 ATAACACATTCATTCTTTCTTATGGCTTTTGTCCAGATGTTTGCAAAGCATTTG
1 ACAACACATTCATCCTTTCTCATGGCTTTTGCCCAGATGTTTGCAAAGCATTTA
8934978 ACAACACATTCATC
1 ACAACACATTCATC
8934992 ATTTTCTGTG
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
54 51 0.94
55 3 0.06
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.39
Consensus pattern (54 bp):
ACAACACATTCATCCTTTCTCATGGCTTTTGCCCAGATGTTTGCAAAGCATTTA
Found at i:8935996 original size:70 final size:72
Alignment explanation
Indices: 8935883--8936054 Score: 206
Period size: 75 Copynumber: 2.4 Consensus size: 72
8935873 CATAATGATG
* * * * *
8935883 TGGGCCTTCAGCATGCCCCAGCATTTACTGATATGAACGTTCAAAAT-GT-TATTCCAATTTCTG
1 TGGGCTTTCAGCATGCCCCAACATTTGCTAATAAGAACGTTCAAAATCGTATATTCCAATTTCTG
8935946 ATTAAAA
66 ATTAAAA
* *
8935953 TGGGCTTTCAGCATGCCCCATCATTTGCTAATACAG-ACGTTCAAAATGCGTCAATATTCTAATT
1 TGGGCTTTCAGCATGCCCCAACATTTGCTAATA-AGAACGTTCAAAAT-CGT--ATATTCCAATT
*
8936017 TCTGATTTAAA
62 TCTGATTAAAA
*
8936028 TGGGCTTTCAGCATGCCTCAACATTTG
1 TGGGCTTTCAGCATGCCCCAACATTTG
8936055 TGAACATTCA
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
70 40 0.46
71 1 0.01
72 2 0.02
75 44 0.51
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (72 bp):
TGGGCTTTCAGCATGCCCCAACATTTGCTAATAAGAACGTTCAAAATCGTATATTCCAATTTCTG
ATTAAAA
Found at i:8936099 original size:69 final size:73
Alignment explanation
Indices: 8935883--8936125 Score: 209
Period size: 69 Copynumber: 3.4 Consensus size: 73
8935873 CATAATGATG
* * * * * *
8935883 TGGGCCTTCAGCATGCCCCAGCATTTACTGATATGAACGTTCAAAAT--GT---TATTCCAATTT
1 TGGGCTTTCAGCATGCCCCAACATTTGCTAATA-CAAC-TTCAAAATGCGTCAATATTCTAATTT
* * *
8935943 CTGATTAAAA
64 ATAATTGAAA
*
8935953 TGGGCTTTCAGCATGCCCCATCATTTGCTAATACAGACGTTCAAAATGCGTCAATATTCTAATTT
1 TGGGCTTTCAGCATGCCCCAACATTTGCTAATACA-AC-TTCAAAATGCGTCAATATTCTAATTT
* * *
8936018 CTGATTTAAA
64 ATAATTGAAA
* * *
8936028 TGGGCTTTCAGCATGCCTCAACATTTG-TGA-AC-A-TTCAAAATGCGTCAATATTCCTGA-TTA
1 TGGGCTTTCAGCATGCCCCAACATTTGCTAATACAACTTCAAAATGCGTCAATATT-CTAATTTA
8936088 TAATTGAAA
65 TAATTGAAA
* *
8936097 TGGGCTTTCAGCATACCCCATCATTTGCT
1 TGGGCTTTCAGCATGCCCCAACATTTGCT
8936126 TCTTATTGAT
Statistics
Matches: 148, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
69 53 0.36
70 44 0.30
71 1 0.01
72 2 0.01
73 2 0.01
74 2 0.01
75 44 0.30
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (73 bp):
TGGGCTTTCAGCATGCCCCAACATTTGCTAATACAACTTCAAAATGCGTCAATATTCTAATTTAT
AATTGAAA
Found at i:8941949 original size:14 final size:14
Alignment explanation
Indices: 8941930--8942026 Score: 50
Period size: 14 Copynumber: 6.5 Consensus size: 14
8941920 AAATGTAATT
* *
8941930 ATGCAAAGATGCAA
1 ATGCAAAAATGAAA
8941944 ATGCAAAAATGAAA
1 ATGCAAAAATGAAA
*
8941958 ATGTAAATACAAATGTAAAA
1 ATG--CA-A-AAATG--AAA
*
8941978 ATGCAAAAATGCAA
1 ATGCAAAAATGAAA
* **
8941992 ATGCAAATATGTGA
1 ATGCAAAAATGAAA
* * *
8942006 ATGTAACAATAAAA
1 ATGCAAAAATGAAA
8942020 ATGCAAA
1 ATGCAAA
8942027 TTGTGCAATA
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
14 41 0.67
16 6 0.10
17 2 0.03
18 6 0.10
20 6 0.10
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (14 bp):
ATGCAAAAATGAAA
Found at i:8942008 original size:28 final size:27
Alignment explanation
Indices: 8941977--8942031 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
8941967 CAAATGTAAA
**
8941977 AATGCAAAAATGCAAATGCAAATATGTG
1 AATGCAAAAATAAAAATGCAAAT-TGTG
* *
8942005 AATGTAACAATAAAAATGCAAATTGTG
1 AATGCAAAAATAAAAATGCAAATTGTG
8942032 CAATATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (27 bp):
AATGCAAAAATAAAAATGCAAATTGTG
Found at i:8942086 original size:7 final size:7
Alignment explanation
Indices: 8942058--8942101 Score: 72
Period size: 7 Copynumber: 6.3 Consensus size: 7
8942048 ATAAAAATAT
8942058 AAATG-A
1 AAATGCA
8942064 AAATGCA
1 AAATGCA
8942071 AAGATGCA
1 AA-ATGCA
8942079 AAATGCA
1 AAATGCA
8942086 AAATGCA
1 AAATGCA
8942093 AAATGCA
1 AAATGCA
8942100 AA
1 AA
8942102 GCATGTATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 5 0.14
7 24 0.67
8 7 0.19
ACGTcount: A:0.59, C:0.11, G:0.16, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:8942244 original size:43 final size:44
Alignment explanation
Indices: 8942182--8942265 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
8942172 TGCATCAAAC
** * *
8942182 AAAACTTTTACATGTAGGGGACAGCTTTCAGTCCTAACTTCAAT
1 AAAACTTTTACATACAGGGGACAACTTTCACTCCTAACTTCAAT
* *
8942226 AAAAC-TTTACATACAGGGGATAACTTTCCCTCCTAACTTC
1 AAAACTTTTACATACAGGGGACAACTTTCACTCCTAACTTC
8942266 TCTAAAGCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 29 0.85
44 5 0.15
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (44 bp):
AAAACTTTTACATACAGGGGACAACTTTCACTCCTAACTTCAAT
Found at i:8942779 original size:36 final size:36
Alignment explanation
Indices: 8942719--8942787 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
8942709 TCTTACCATA
* *
8942719 GAATGCTTTTGGTATCAATCTAACAGGATCTTTATG
1 GAATACTTTTGGTATCAATATAACAGGATCTTTATG
*
8942755 GAATACTTTTGGTATTAATATAACAGGATCTTT
1 GAATACTTTTGGTATCAATATAACAGGATCTTT
8942788 GTGTGCATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (36 bp):
GAATACTTTTGGTATCAATATAACAGGATCTTTATG
Found at i:8943681 original size:2 final size:2
Alignment explanation
Indices: 8943674--8943704 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8943664 ATAAAGAATA
8943674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8943705 ACAAATAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8944541 original size:24 final size:22
Alignment explanation
Indices: 8944502--8944546 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8944492 ATTAAAAAAT
*
8944502 AAATAAATATTATTATTTAAAC
1 AAATAAATATTATTATATAAAC
*
8944524 AAATATATATATATTTATATAAA
1 AAATAAATAT-TA-TTATATAAA
8944547 ATAATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATAAATATTATTATATAAAC
Found at i:8950091 original size:25 final size:25
Alignment explanation
Indices: 8950040--8950091 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
8950030 AACAATCATC
*
8950040 ATGAGTATCCATTGTAGCAATACTG
1 ATGAGCATCCATTGTAGCAATACTG
*
8950065 ATGAGCATCCATTGTAGCAATATTG
1 ATGAGCATCCATTGTAGCAATACTG
8950090 AT
1 AT
8950092 TGTTCTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (25 bp):
ATGAGCATCCATTGTAGCAATACTG
Found at i:8953858 original size:32 final size:32
Alignment explanation
Indices: 8953817--8953895 Score: 158
Period size: 32 Copynumber: 2.5 Consensus size: 32
8953807 CATATACTAG
8953817 TCAGGTTTGTATTCAGATAATACACAATACAA
1 TCAGGTTTGTATTCAGATAATACACAATACAA
8953849 TCAGGTTTGTATTCAGATAATACACAATACAA
1 TCAGGTTTGTATTCAGATAATACACAATACAA
8953881 TCAGGTTTGTATTCA
1 TCAGGTTTGTATTCA
8953896 CACAATCATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (32 bp):
TCAGGTTTGTATTCAGATAATACACAATACAA
Found at i:8956575 original size:37 final size:37
Alignment explanation
Indices: 8956530--8956604 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
8956520 GTTAGAAAAT
*
8956530 ATTTATAT-ATTTTCTTAAAAAAATTTAAATTCATAAA
1 ATTTATATAATTTTCTTAAAAAAATTTAAAAT-ATAAA
* * *
8956567 ATTTATATAATTTTTTTTACAAAATTTAAAATATAAA
1 ATTTATATAATTTTCTTAAAAAAATTTAAAATATAAA
8956604 A
1 A
8956605 AGGTTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (37 bp):
ATTTATATAATTTTCTTAAAAAAATTTAAAATATAAA
Found at i:8957932 original size:24 final size:24
Alignment explanation
Indices: 8957905--8957952 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
8957895 ATGGTTAGAA
8957905 AAGGTAAAAAGGTTATTTGACCAT
1 AAGGTAAAAAGGTTATTTGACCAT
8957929 AAGGTAAAAAGGTTATTTGACCAT
1 AAGGTAAAAAGGTTATTTGACCAT
8957953 GTCGTATCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (24 bp):
AAGGTAAAAAGGTTATTTGACCAT
Found at i:8958467 original size:2 final size:2
Alignment explanation
Indices: 8958460--8958486 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8958450 GAAGTTAGAC
8958460 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8958487 GAAAATACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8958948 original size:17 final size:17
Alignment explanation
Indices: 8958922--8958956 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8958912 GTTAGTGATC
*
8958922 AATATGTTACTTTTGAA
1 AATATATTACTTTTGAA
8958939 AATATATTACTTTTGAA
1 AATATATTACTTTTGAA
8958956 A
1 A
8958957 CTTCAGCGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (17 bp):
AATATATTACTTTTGAA
Found at i:8963218 original size:95 final size:96
Alignment explanation
Indices: 8963101--8963293 Score: 361
Period size: 95 Copynumber: 2.0 Consensus size: 96
8963091 TTCGCCAAGC
*
8963101 AATCACTAATTTTTCAATAATTAACCTCAATTCAAGCTAGCAATATATCAAAGCAGATAAGTAAA
1 AATCACTAATTTTTCAATAATTAACCTCAATTCAAGCTAGCAATAGATCAAAGCAGATAAGTAAA
8963166 CAAAACCCATATTTCCAAACAATCCAAAAAA
66 CAAAACCCATATTTCCAAACAATCCAAAAAA
8963197 AATCACTAA-TTTTCAATAATTAACCTCAATTCAAGCTAGCAATAGATCAAAGCAGATAAGTAAA
1 AATCACTAATTTTTCAATAATTAACCTCAATTCAAGCTAGCAATAGATCAAAGCAGATAAGTAAA
*
8963261 TAAAACCCATATTTCCAAACAATCCAAAAAA
66 CAAAACCCATATTTCCAAACAATCCAAAAAA
8963292 AA
1 AA
8963294 AAATCATGCT
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
95 86 0.91
96 9 0.09
ACGTcount: A:0.50, C:0.20, G:0.06, T:0.24
Consensus pattern (96 bp):
AATCACTAATTTTTCAATAATTAACCTCAATTCAAGCTAGCAATAGATCAAAGCAGATAAGTAAA
CAAAACCCATATTTCCAAACAATCCAAAAAA
Found at i:8965055 original size:57 final size:57
Alignment explanation
Indices: 8964967--8965079 Score: 226
Period size: 57 Copynumber: 2.0 Consensus size: 57
8964957 GGAAAGATAG
8964967 TTTTTGTATAATTGCTGGTCTTGGTTGCAGATTGTTTCGGGGTTGTTTGGTCTGGTA
1 TTTTTGTATAATTGCTGGTCTTGGTTGCAGATTGTTTCGGGGTTGTTTGGTCTGGTA
8965024 TTTTTGTATAATTGCTGGTCTTGGTTGCAGATTGTTTCGGGGTTGTTTGGTCTGGT
1 TTTTTGTATAATTGCTGGTCTTGGTTGCAGATTGTTTCGGGGTTGTTTGGTCTGGT
8965080 GTGCATCTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.10, C:0.09, G:0.32, T:0.50
Consensus pattern (57 bp):
TTTTTGTATAATTGCTGGTCTTGGTTGCAGATTGTTTCGGGGTTGTTTGGTCTGGTA
Found at i:8966551 original size:19 final size:19
Alignment explanation
Indices: 8966527--8966570 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
8966517 GGAGCAAAAA
8966527 TATGTTGAAAAGCTTGAAG
1 TATGTTGAAAAGCTTGAAG
8966546 TATGTTGAAAAGCTTGAAG
1 TATGTTGAAAAGCTTGAAG
8966565 TATGTT
1 TATGTT
8966571 AACTTGGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (19 bp):
TATGTTGAAAAGCTTGAAG
Found at i:8968550 original size:4 final size:4
Alignment explanation
Indices: 8968541--8968664 Score: 248
Period size: 4 Copynumber: 31.0 Consensus size: 4
8968531 TGTCATGTTT
8968541 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
8968589 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
8968637 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
8968665 CTTAGTATGG
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 120 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:8978153 original size:14 final size:14
Alignment explanation
Indices: 8978126--8978175 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
8978116 ATAAACAAGG
**
8978126 AAATAAAACAAATA
1 AAATAAAAGGAATA
*
8978140 AGAT-AAAGAGAATA
1 AAATAAAAG-GAATA
8978154 AAATAAAAGGAATA
1 AAATAAAAGGAATA
8978168 AAATAAAA
1 AAATAAAA
8978176 TAAATAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 3 0.10
14 23 0.77
15 4 0.13
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (14 bp):
AAATAAAAGGAATA
Found at i:8978181 original size:14 final size:13
Alignment explanation
Indices: 8978126--8978183 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
8978116 ATAAACAAGG
8978126 AAATAAAACAAATA
1 AAATAAAA-AAATA
* *
8978140 AGATAAAGAGAATA
1 AAATAAA-AAAATA
*
8978154 AAATAAAAGGAATA
1 AAATAAAA-AAATA
8978168 AAATAAAATAAATA
1 AAATAAAA-AAATA
8978182 AA
1 AA
8978184 TAAGATAAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 1 0.03
14 35 0.95
15 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.16
Consensus pattern (13 bp):
AAATAAAAAAATA
Found at i:8978411 original size:41 final size:39
Alignment explanation
Indices: 8978344--8978420 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 39
8978334 TCACTTCACC
* * *
8978344 GAAAGTGGGGGGCTTTAGTCATAAATAAGACAAAAAGAG
1 GAAAGTGGGGGACTTTAGTCAGAAATAAAACAAAAAGAG
*
8978383 GAAAGTGGGAGAGACTTTAGTTAGAAATAAAACAAAAA
1 GAAAGTGGG-G-GACTTTAGTCAGAAATAAAACAAAAA
8978421 AATGACCCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 9 0.28
40 1 0.03
41 22 0.69
ACGTcount: A:0.48, C:0.06, G:0.27, T:0.18
Consensus pattern (39 bp):
GAAAGTGGGGGACTTTAGTCAGAAATAAAACAAAAAGAG
Found at i:8978537 original size:23 final size:22
Alignment explanation
Indices: 8978491--8978538 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
8978481 CAAGATTTTT
* **
8978491 TAAAAAATAATATAATAATGAA
1 TAAAAAATAAAATAATAAAAAA
8978513 TAAAAAATGAAAATAATAAAAAA
1 TAAAAAAT-AAAATAATAAAAAA
8978536 TAA
1 TAA
8978539 TATATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (22 bp):
TAAAAAATAAAATAATAAAAAA
Found at i:8978831 original size:17 final size:18
Alignment explanation
Indices: 8978798--8978833 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8978788 ATATATACGT
*
8978798 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
8978816 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
8978833 A
1 A
8978834 AATATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:8980248 original size:92 final size:96
Alignment explanation
Indices: 8979759--8980469 Score: 635
Period size: 106 Copynumber: 6.9 Consensus size: 96
8979749 GTGAAGTTGA
* * * * * * * *
8979759 AATTGGCTCTGGAACTGGAAAATTGTTTGTTGACAGCCAACCGCCCCTTCGCTGTGAAGTTGAGC
1 AATT-GCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
* * * *
8979824 TTATGCTGTCTTGAGTCTAATATCCTTCGATGTGAAGTT
65 TTGTGTTGTCTCGAGTCCAATATCCTTC-------AGTT
*
8979863 GAAATTGACCCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGA
1 --AATTG-CTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGA
* *
8979928 ACTTGTGTCGTCTCGAGTCCAATATCTTTCGCTGTGAAGTT
63 ACTTGTGTTGTCTCGAGTCCAATA----TC-CT-T-CAGTT
*
8979969 GAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGA
1 --AATT-GCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGA
8980034 ACTTGTG--GTCTCGAGTCCAATATCCTTCGATGTGAAGTT
63 ACTTGTGTTGTCTCGAGTCCAATATCCTTC-------AGTT
* * * *
8980073 AAAATTGACCCTAAAATTGGGAAATTATTTATTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGA
1 --AATTG-CTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGA
* *
8980138 ACTTGTGTCGTCTCGAGTCCAATATCCTTC-GCT
63 ACTTGTGTTGTCTCGAGTCCAATATCCTTCAGTT
* *
8980171 -A-T-CTCTGAAATTGGGAGATTGTTTGTTGACAACCAGCTGTCCCTTCGTTGTGAAGTTGAACT
1 AATTGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACT
*
8980233 TGTGTTGTCTTGAGTCCAATATCCTTCACTGTGAAGTT
66 TGTGTTGTCTCGAGTCCAATATCCTT--C-----AGTT
*
8980271 GAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACAACTAGCCGTCCCTT-GTTGTGAAGTTGA
1 --AATTG-CTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGA
* *
8980335 ACTTGTGTTGTCCCGAGTCCAACATCCTTCGATGTGAAGTT
63 ACTTGTGTTGTCTCGAGTCCAATATCCTTC-------AGTT
* *
8980376 GAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGTCGTCCATTCGTTGTGAAGTTGA
1 --AATT-GCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGA
*
8980441 ACTTGTGTTGTCTTGAGTCCAATATCCTT
63 ACTTGTGTTGTCTCGAGTCCAATATCCTT
8980470 TACTGTGAAG
Statistics
Matches: 524, Mismatches: 44, Indels: 74
0.82 0.07 0.12
Matches are distributed among these distances:
92 78 0.15
94 2 0.00
95 1 0.00
98 3 0.01
99 2 0.00
100 4 0.01
103 3 0.01
104 86 0.16
105 95 0.18
106 244 0.47
107 1 0.00
110 2 0.00
111 2 0.00
112 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (96 bp):
AATTGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACT
TGTGTTGTCTCGAGTCCAATATCCTTCAGTT
Found at i:8988575 original size:38 final size:40
Alignment explanation
Indices: 8988506--8988585 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
8988496 ATTATATATA
* *
8988506 TATATATATATACATCAAAGTATTAATAAAATA-AATAAGC
1 TATATATATATACATAAAAATATTAATAAAATAGAA-AAGC
*
8988546 TATATATATATACA-AAAAATATTTA-AAAATAGAAAAGC
1 TATATATATATACATAAAAATATTAATAAAATAGAAAAGC
8988584 TA
1 TA
8988586 CCCTCTCACT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 12 0.33
39 10 0.28
40 14 0.39
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.31
Consensus pattern (40 bp):
TATATATATATACATAAAAATATTAATAAAATAGAAAAGC
Found at i:8988798 original size:24 final size:23
Alignment explanation
Indices: 8988754--8988799 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
8988744 TTTTTTTTTT
* **
8988754 AAAATAATATAATAATGAATAAA
1 AAAATAAAATAATAAAAAATAAA
8988777 AAAATGAAAATAATAAAAAATAA
1 AAAAT-AAAATAATAAAAAATAA
8988800 TATATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAATAAAATAATAAAAAATAAA
Found at i:8988837 original size:2 final size:2
Alignment explanation
Indices: 8988799--8988823 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8988789 ATAAAAAATA
8988799 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8988824 GTTATAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8988930 original size:2 final size:2
Alignment explanation
Indices: 8988876--8988922 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
8988866 ATAATTAAGA
8988876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8988918 AT AT A
1 AT AT A
8988923 GGTATATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8989129 original size:17 final size:18
Alignment explanation
Indices: 8989096--8989131 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8989086 ATATATACGT
*
8989096 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
8989114 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
8989131 A
1 A
8989132 AATATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:8989548 original size:35 final size:35
Alignment explanation
Indices: 8989509--8989586 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
8989499 ACTAAACACC
8989509 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
8989544 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
8989579 CTTATTTT
1 C-TATTTT
8989587 TCGATTACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 36 0.86
36 6 0.14
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
Found at i:8999133 original size:3 final size:3
Alignment explanation
Indices: 8999125--8999168 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
8999115 TTTGTTTTAT
*
8999125 TTA TTA TTA TT- TTG TT- TTA TTA TTA -TA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8999169 AATAATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 8 0.22
3 29 0.78
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8999145 original size:16 final size:16
Alignment explanation
Indices: 8999119--8999167 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
8999109 ATTTCATTTG
8999119 TTTTA-TTTATTATTA
1 TTTTATTTTATTATTA
*
8999134 TTTTGTTTTATTATTA
1 TTTTATTTTATTATTA
* *
8999150 TATTATATTATTATTA
1 TTTTATTTTATTATTA
8999166 TT
1 TT
8999168 AAATAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 4 0.14
16 24 0.86
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTATTTTATTATTA
Found at i:8999147 original size:19 final size:18
Alignment explanation
Indices: 8999115--8999168 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
8999105 TTTTATTTCA
8999115 TTTGTTTTATTTATTATTAT
1 TTTGTTTTA-TTATTA-TAT
8999135 TTTGTTTTATTATTATAT
1 TTTGTTTTATTATTATAT
* *
8999153 TATATTATTATTATTA
1 TTTGTT-TTATTATTA
8999169 AATAATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 7 0.23
19 15 0.48
20 9 0.29
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTGTTTTATTATTATAT
Found at i:9003349 original size:14 final size:14
Alignment explanation
Indices: 9003329--9003366 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
9003319 ATTTTAAATA
9003329 ATTTACATTTACAT
1 ATTTACATTTACAT
* *
9003343 TTTTACATTTTCAT
1 ATTTACATTTACAT
9003357 ATTTACATTT
1 ATTTACATTT
9003367 GGAATCTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTACATTTACAT
Found at i:9007846 original size:19 final size:19
Alignment explanation
Indices: 9007822--9007861 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
9007812 ACACTTCTCC
9007822 CATTTATCATTTTAAAACA
1 CATTTATCATTTTAAAACA
9007841 CATTTATCATTTTAAAACA
1 CATTTATCATTTTAAAACA
9007860 CA
1 CA
9007862 CTTAACACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (19 bp):
CATTTATCATTTTAAAACA
Found at i:9010176 original size:20 final size:21
Alignment explanation
Indices: 9010130--9010190 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
9010120 TTCCCCTGTG
*
9010130 GGGGGAATCGGTTCCTATTCAAT
1 GGGGGAATCGGTTCC--CTCAAT
9010153 GGGGGAATCGGTTCCCTC-AT
1 GGGGGAATCGGTTCCCTCAAT
* *
9010173 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
9010191 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.51
21 2 0.06
23 15 0.43
ACGTcount: A:0.16, C:0.23, G:0.34, T:0.26
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAT
Found at i:9018885 original size:75 final size:75
Alignment explanation
Indices: 9018753--9018927 Score: 244
Period size: 75 Copynumber: 2.3 Consensus size: 75
9018743 ACAAGAAACA
* * * * *
9018753 AATGATGGAGCATGCTGAAAGCCCATTTCATTCATGATCAGGAATGATGACACATTTTGAATGTT
1 AATGTTGGGGCATGCTGAAAGCCCATTTCAATCATGATCAAGAATGATGACACATTTTGAACGTT
*
9018818 TGTATTAGCT
66 TGTATTAGCC
* *
9018828 AATGTTGGGGCATGCTGAAAGCCCCTTTCAATCA-GAATCAAGAATGTTGACACATTTTGAACGT
1 AATGTTGGGGCATGCTGAAAGCCCATTTCAATCATG-ATCAAGAATGATGACACATTTTGAACGT
9018892 TTGTATTAGCC
65 TTGTATTAGCC
* *
9018903 AATGTTGGGGCATACTGAAGGCCCA
1 AATGTTGGGGCATGCTGAAAGCCCA
9018928 CATCGTCATA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
74 1 0.01
75 87 0.99
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (75 bp):
AATGTTGGGGCATGCTGAAAGCCCATTTCAATCATGATCAAGAATGATGACACATTTTGAACGTT
TGTATTAGCC
Found at i:9020897 original size:113 final size:113
Alignment explanation
Indices: 9020668--9021200 Score: 750
Period size: 113 Copynumber: 4.7 Consensus size: 113
9020658 CCATTACTTA
* *
9020668 ATGGATCAACA-TGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAG
1 ATGGATCAACATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * ** *
9020731 TTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTTAATTCATCACCCG
65 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACCCG
* * * * *
9020780 ATGGATTAGCATTGCCTGAGAAAGTTAATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGT
1 ATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
***
9020845 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTT
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACCCG
*
9020893 ATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 ATGGATCAACATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* ** *
9020957 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTTAATTCATCACCCG
65 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACCCG
* * * *
9021006 ATGGATTAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAGGAAGT
1 ATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
**
9021071 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACCCG
* * **
9021119 ATGGATCAATATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
9021183 TCATAATGAGAAGAACTT
66 TCATAATGAGAAGAACTT
9021201 ATCTGAAGAG
Statistics
Matches: 370, Mismatches: 47, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
112 69 0.19
113 299 0.81
114 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (113 bp):
ATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACCCG
Found at i:9021073 original size:226 final size:226
Alignment explanation
Indices: 9020656--9021197 Score: 962
Period size: 226 Copynumber: 2.4 Consensus size: 226
9020646 AAAGATTTGT
*
9020656 ATCCATTACTTAATGGATCAACA-TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
1 ATCCATCACTTAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
* *
9020720 GAAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTTAATTCATCACCCGATGGA
66 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTTAATTCATCACCCGATGGA
*
9020785 TTAGCATTGCCTGAGAAAGTTAATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATA
131 TTAGCATTGCCAGAGAAAGTTAATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATA
9020850 ATGAGAAGAACTTGTTCAACCTTTTGCTCAA
196 ATGAGAAGAACTTGTTCAACCTTTTGCTCAA
*
9020881 ATCCATCACTTTATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
1 ATCCATCACTTAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
9020946 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTTAATTCATCACCCGATGGA
66 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTTAATTCATCACCCGATGGA
* *
9021011 TTAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAGGAAGTTCATA
131 TTAGCATTGCCAGAGAAAGTTAATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATA
9021076 ATGAGAAGAACTTGTTCAACCTTTTGCTCAA
196 ATGAGAAGAACTTGTTCAACCTTTTGCTCAA
* * * * *
9021107 ATCCATCACTTGATGGATCAATATTTCCA-GAAGTGTTCATAATGAGAAGAACTCATCTGAAGAA
1 ATCCATCACTTAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
9021171 GGAAGAAGAAGTTCATAATGAGAAGAA
66 GGAAGAAGAAGTTCATAATGAGAAGAA
9021198 CTTATCTGAA
Statistics
Matches: 304, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
225 81 0.27
226 223 0.73
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (226 bp):
ATCCATCACTTAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTTAATTCATCACCCGATGGA
TTAGCATTGCCAGAGAAAGTTAATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTCAA
Found at i:9021213 original size:39 final size:40
Alignment explanation
Indices: 9021141--9021236 Score: 167
Period size: 39 Copynumber: 2.4 Consensus size: 40
9021131 TTCCAGAAGT
9021141 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
*
9021181 GTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
*
9021220 ATTCATAATGAGAAGAA
1 GTTCATAATGAGAAGAA
9021237 TTTGTTCAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
39 27 0.50
40 27 0.50
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (40 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
Found at i:9021328 original size:152 final size:152
Alignment explanation
Indices: 9021027--9021348 Score: 497
Period size: 152 Copynumber: 2.1 Consensus size: 152
9021017 TTGCCAGAGA
* * *
9021027 AAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAGGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTT
**
9021092 CAACCTTTTGCTCAAATCCATCACTTGATGGATCAATATTTCCAGAAGTGTTCATAATGAGAAGA
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATCAATATTTCCAGAAAAGTTCATAATGAGAAGA
9021157 ACTCATCTGAAGAAGGAAGAAG
131 ACTCATCTGAAGAAGGAAGAAG
* *
9021179 AAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTT
* * *
9021243 CAACCTTTTGC-CTGAATTCATCACTTGATGGATTAACT-TTTCCAGAGAAAGTTCATAATGAGA
66 CAACCTTTTGCTC-AAATCCATCACTTGATGGATCAA-TATTTCCAGA-AAAGTTCATAATGAGA
*
9021306 AGAACTCGTCTGAAGAAGGAAGAAG
128 AGAACTCATCTGAAGAAGGAAGAAG
9021331 AAGTTCATAATGAGAAGA
1 AAGTTCATAATGAGAAGA
9021349 GCTTGTTCAA
Statistics
Matches: 156, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
150 1 0.01
151 70 0.45
152 85 0.54
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (152 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTCAAATCCATCACTTGATGGATCAATATTTCCAGAAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAGAAG
Found at i:9021711 original size:24 final size:24
Alignment explanation
Indices: 9021682--9021734 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
9021672 ACACTAGTTT
*
9021682 TTATTTCATTTGTTTTATT-TATTA
1 TTATTTCATTT-TATTATTATATTA
**
9021706 TTATTTTGTTTTATTATTATATTA
1 TTATTTCATTTTATTATTATATTA
9021730 TTATT
1 TTATT
9021735 ATTAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (24 bp):
TTATTTCATTTTATTATTATATTA
Found at i:9023302 original size:2 final size:2
Alignment explanation
Indices: 9023295--9023384 Score: 105
Period size: 2 Copynumber: 46.0 Consensus size: 2
9023285 AGTTATGTCA
* * * * *
9023295 AT AT AT AT AT AA AT A- AT AT TT AT TT AGT CT -T AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
9023336 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9023378 AT A- AT AT
1 AT AT AT AT
9023385 TCATTTATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
1 3 0.04
2 71 0.95
3 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9033449 original size:20 final size:19
Alignment explanation
Indices: 9033424--9033465 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
9033414 TGGATGTATG
*
9033424 ATTTTTAAATTTAAATTTAA
1 ATTTTTAAA-TAAAATTTAA
9033444 ATTTTTTAAATAAAATTTAA
1 A-TTTTTAAATAAAATTTAA
9033464 AT
1 AT
9033466 GATTAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTTAAATAAAATTTAA
Found at i:9037700 original size:16 final size:17
Alignment explanation
Indices: 9037679--9037718 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
9037669 TTAATTATAT
9037679 ATCATTTTCAG-TTT-A
1 ATCATTTTCAGATTTCA
9037694 GATCA-TTTCAGATTTCA
1 -ATCATTTTCAGATTTCA
9037711 ATCATTTT
1 ATCATTTT
9037719 AAATGTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.29
16 11 0.52
17 4 0.19
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (17 bp):
ATCATTTTCAGATTTCA
Found at i:9041387 original size:16 final size:17
Alignment explanation
Indices: 9041368--9041406 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
9041358 GTATACTATA
9041368 TATATATTTT-AAAAAC
1 TATATATTTTCAAAAAC
*
9041384 TATATCTTTTCAAAAAC
1 TATATATTTTCAAAAAC
9041401 TATATA
1 TATATA
9041407 ATATATTACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (17 bp):
TATATATTTTCAAAAAC
Found at i:9041412 original size:42 final size:42
Alignment explanation
Indices: 9041359--9041506 Score: 133
Period size: 42 Copynumber: 3.4 Consensus size: 42
9041349 TAATATATTG
9041359 TATACTATATATATATTTTAAAAACTATATCTTTTCAAAAACTA
1 TATA-TATATATATATTTTAAAAACTATAT-TTTTCAAAAACTA
* *
9041403 TATA-ATATAT-TACGTTTTCAAAAACTATGTTTTT-AAAAATTA
1 TATATATATATATA--TTTT-AAAAACTATATTTTTCAAAAACTA
** *
9041445 TATATATATATATATTAAAAAATTATACTATATATTTTCAAAAACCA
1 TATATATATATATATT-TTAAA--A-ACTATAT-TTTTCAAAAACTA
9041492 T-TATATATATATATT
1 TATATATATATATATT
9041507 CAAAACCACA
Statistics
Matches: 86, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
41 2 0.02
42 22 0.26
43 14 0.16
44 17 0.20
45 6 0.07
46 18 0.21
47 7 0.08
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (42 bp):
TATATATATATATATTTTAAAAACTATATTTTTCAAAAACTA
Found at i:9041508 original size:24 final size:22
Alignment explanation
Indices: 9041447--9041511 Score: 87
Period size: 24 Copynumber: 2.9 Consensus size: 22
9041437 AAAAATTATA
9041447 TATATATATATATT-AAAAAAT
1 TATATATATATATTCAAAAAAT
*
9041468 TATACTATATATTTTCAAAAACCAT
1 TATA-TATATATATTCAAAAA--AT
9041493 TATATATATATATTCAAAA
1 TATATATATATATTCAAAA
9041512 CCACATATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
21 4 0.11
22 9 0.24
23 5 0.13
24 14 0.37
25 6 0.16
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATATATATATTCAAAAAAT
Found at i:9042138 original size:12 final size:11
Alignment explanation
Indices: 9042102--9042148 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
9042092 TAAATTGATA
9042102 TTAATAT-TTT
1 TTAATATATTT
* * *
9042112 TTAAAATAGTA
1 TTAATATATTT
9042123 TTAATATTATTT
1 TTAATA-TATTT
9042135 TTAATATATTT
1 TTAATATATTT
9042146 TTA
1 TTA
9042149 TAAAAAGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
10 6 0.21
11 14 0.48
12 9 0.31
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TTAATATATTT
Found at i:9042140 original size:21 final size:21
Alignment explanation
Indices: 9042084--9042144 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
9042074 AAAGGGTTTA
*
9042084 ATTATTTTTAAATTGATATTAAT
1 ATTATTTTT-AATAG-TATTAAT
*
9042107 ATT-TTTTAAAATAGTATTAAT
1 ATTATTTT-TAATAGTATTAAT
9042128 ATTATTTTTAATA-TATT
1 ATTATTTTTAATAGTATT
9042145 TTTATAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 4 0.12
21 14 0.42
22 12 0.36
23 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTATTTTTAATAGTATTAAT
Found at i:9047830 original size:141 final size:141
Alignment explanation
Indices: 9047576--9048000 Score: 850
Period size: 141 Copynumber: 3.0 Consensus size: 141
9047566 AGACAGGTCA
9047576 AGCATGTAACCTGTATAATACAGCTAATAATGGTGCCGACCAACCAGGCAACTTTGACAACCTGG
1 AGCATGTAACCTGTATAATACAGCTAATAATGGTGCCGACCAACCAGGCAACTTTGACAACCTGG
9047641 AGTAGTCCCCACCATCTTAGTAAAAGAAACCAAGAGATTGAAAATCTGATGCTGCCACTTGGGAA
66 AGTAGTCCCCACCATCTTAGTAAAAGAAACCAAGAGATTGAAAATCTGATGCTGCCACTTGGGAA
9047706 GCACCTGATGT
131 GCACCTGATGT
9047717 AGCATGTAACCTGTATAATACAGCTAATAATGGTGCCGACCAACCAGGCAACTTTGACAACCTGG
1 AGCATGTAACCTGTATAATACAGCTAATAATGGTGCCGACCAACCAGGCAACTTTGACAACCTGG
9047782 AGTAGTCCCCACCATCTTAGTAAAAGAAACCAAGAGATTGAAAATCTGATGCTGCCACTTGGGAA
66 AGTAGTCCCCACCATCTTAGTAAAAGAAACCAAGAGATTGAAAATCTGATGCTGCCACTTGGGAA
9047847 GCACCTGATGT
131 GCACCTGATGT
9047858 AGCATGTAACCTGTATAATACAGCTAATAATGGTGCCGACCAACCAGGCAACTTTGACAACCTGG
1 AGCATGTAACCTGTATAATACAGCTAATAATGGTGCCGACCAACCAGGCAACTTTGACAACCTGG
9047923 AGTAGTCCCCACCATCTTAGTAAAAGAAACCAAGAGATTGAAAATCTGATGCTGCCACTTGGGAA
66 AGTAGTCCCCACCATCTTAGTAAAAGAAACCAAGAGATTGAAAATCTGATGCTGCCACTTGGGAA
9047988 GCACCTGATGT
131 GCACCTGATGT
9047999 AG
1 AG
9048001 TTACCAACTC
Statistics
Matches: 284, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 284 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (141 bp):
AGCATGTAACCTGTATAATACAGCTAATAATGGTGCCGACCAACCAGGCAACTTTGACAACCTGG
AGTAGTCCCCACCATCTTAGTAAAAGAAACCAAGAGATTGAAAATCTGATGCTGCCACTTGGGAA
GCACCTGATGT
Found at i:9048485 original size:23 final size:23
Alignment explanation
Indices: 9048454--9048507 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
9048444 AGCGAATATA
*
9048454 TAAACGAATATATTCT-CAAACAT
1 TAAACGAATATATT-TACAAACAC
*
9048477 TAAATGAATATATTTACAAACAC
1 TAAACGAATATATTTACAAACAC
9048500 TAAACGAA
1 TAAACGAA
9048508 CCAAACACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (23 bp):
TAAACGAATATATTTACAAACAC
Found at i:9052473 original size:9 final size:9
Alignment explanation
Indices: 9052461--9052494 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
9052451 TATTATTTTG
9052461 TATTTAATT
1 TATTTAATT
*
9052470 TATTTAA-G
1 TATTTAATT
9052478 TATTTAATT
1 TATTTAATT
9052487 TATTTAAT
1 TATTTAAT
9052495 ATTTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:9052482 original size:17 final size:17
Alignment explanation
Indices: 9052460--9052498 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
9052450 TTATTATTTT
9052460 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
9052477 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
9052494 -TATTT
1 GTATTT
9052499 TTTTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:9052504 original size:16 final size:16
Alignment explanation
Indices: 9052444--9052516 Score: 58
Period size: 16 Copynumber: 4.6 Consensus size: 16
9052434 ATATTTTATT
* *
9052444 ATATTTTTATTATTTT
1 ATATTTTTTTTATTTA
* **
9052460 GTATTTAATTTATTTA
1 ATATTTTTTTTATTTA
**
9052476 AGTATTTAATTTATTTA
1 A-TATTTTTTTTATTTA
*
9052493 ATATTTTTTTTAATTA
1 ATATTTTTTTTATTTA
9052509 AT-TTTTTT
1 ATATTTTTT
9052517 GCAGATATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
15 6 0.13
16 25 0.53
17 16 0.34
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
ATATTTTTTTTATTTA
Found at i:9057340 original size:3 final size:3
Alignment explanation
Indices: 9057332--9057411 Score: 128
Period size: 3 Copynumber: 27.3 Consensus size: 3
9057322 CCATTTTAAA
* *
9057332 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9057380 ATT ATT ATT A-T ATT ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
9057412 ATAAATAATT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 4 0.06
3 67 0.94
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:9058661 original size:22 final size:22
Alignment explanation
Indices: 9058636--9058677 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9058626 TAGTTTGATA
* *
9058636 ATTTTTATTTAATATATTTTTC
1 ATTTTAATTTAATAAATTTTTC
*
9058658 ATTTTAATTTTATAAATTTT
1 ATTTTAATTTAATAAATTTT
9058678 AATTTATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTAATTTAATAAATTTTTC
Found at i:9058770 original size:23 final size:23
Alignment explanation
Indices: 9058711--9058778 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
9058701 TTTATTTGCA
*
9058711 ATATTATTTTATTATTACTTTTG
1 ATATTATTTTATTATTACTTTCG
*
9058734 ATA-TATTTAAATTATTACTTTCG
1 ATATTATTT-TATTATTACTTTCG
* *
9058757 TTATTATTTTATTATTATTTTC
1 ATATTATTTTATTATTACTTTC
9058779 ATCTTAGTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
22 5 0.13
23 28 0.74
24 5 0.13
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (23 bp):
ATATTATTTTATTATTACTTTCG
Found at i:9058773 original size:11 final size:11
Alignment explanation
Indices: 9058712--9058777 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
9058702 TTATTTGCAA
9058712 TATTATTTTAT
1 TATTATTTTAT
9058723 TATTACTTTTGA-
1 TATTA-TTTT-AT
*
9058735 TA-TATTTAAAT
1 TATTATTT-TAT
**
9058746 TATTACTTTCGT
1 TATTA-TTTTAT
9058758 TATTATTTTAT
1 TATTATTTTAT
9058769 TATTATTTT
1 TATTATTTT
9058778 CATCTTAGTC
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
10 4 0.09
11 22 0.50
12 14 0.32
13 4 0.09
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:9059058 original size:23 final size:22
Alignment explanation
Indices: 9059032--9059077 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
9059022 TATTTTAAAA
9059032 ATAAATAAATAAATATCCTACTT
1 ATAAATAAATAAATAT-CTACTT
** *
9059055 ATAAATGTATATATATCTACTT
1 ATAAATAAATAAATATCTACTT
9059077 A
1 A
9059078 GTTTTTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
ATAAATAAATAAATATCTACTT
Found at i:9061615 original size:49 final size:49
Alignment explanation
Indices: 9061562--9061655 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 49
9061552 ACTATGGCCA
*
9061562 AGAACAAGACATTGAAGAAATGTTTAGATGATTATGGAGATCTTGTACG
1 AGAACAAGACATTGAAGAAATGTTTAAATGATTATGGAGATCTTGTACG
9061611 AGAACAAGACATTGAAGAAATGTTTAAATGATTATGGAGATCTTG
1 AGAACAAGACATTGAAGAAATGTTTAAATGATTATGGAGATCTTG
9061656 AACATAAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (49 bp):
AGAACAAGACATTGAAGAAATGTTTAAATGATTATGGAGATCTTGTACG
Found at i:9062057 original size:26 final size:26
Alignment explanation
Indices: 9062024--9062103 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
9062014 ATTCGTATTT
9062024 TTTTCA-TTACATTTGCATTTTT-TA
1 TTTTCATTTACATTTGCATTTTTATA
*
9062048 TGTTTGCATTTGCATTTGCATTTTTATA
1 T-TTT-CATTTACATTTGCATTTTTATA
*
9062076 TTTTCATTTACATTTTCA-TTTTATA
1 TTTTCATTTACATTTGCATTTTTATA
9062101 TTT
1 TTT
9062104 GCATATTTGC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
24 1 0.02
25 13 0.27
26 14 0.29
27 18 0.37
28 3 0.06
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.62
Consensus pattern (26 bp):
TTTTCATTTACATTTGCATTTTTATA
Found at i:9062085 original size:12 final size:13
Alignment explanation
Indices: 9062069--9062103 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
9062059 GCATTTGCAT
9062069 TTTTATATTTTCA
1 TTTTATATTTTCA
*
9062082 -TTTACATTTTCA
1 TTTTATATTTTCA
9062094 TTTTATATTT
1 TTTTATATTT
9062104 GCATATTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATATTTTCA
Found at i:9062112 original size:53 final size:52
Alignment explanation
Indices: 9061997--9062116 Score: 136
Period size: 53 Copynumber: 2.2 Consensus size: 52
9061987 AACACCTTTG
* *
9061997 TTGCATTTGCATTTTGCATTCGTATTTTTTTCATTACATTTGCATTTTTTATGT
1 TTGCATTTGCA-TTTGCATTCGTATTATTTTCATTACATTTGCA-TTTTTATAT
** *
9062051 TTGCATTTGCATTTGCATTTTTA-TATTTTCATTTACATTTTCA-TTTTATAT
1 TTGCATTTGCATTTGCATTCGTATTATTTTCA-TTACATTTGCATTTTTATAT
9062102 TTGCATATTTGCATT
1 TTGC--ATTTGCATT
9062117 GCACAGTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
51 11 0.19
52 7 0.12
53 29 0.50
54 11 0.19
ACGTcount: A:0.19, C:0.12, G:0.09, T:0.59
Consensus pattern (52 bp):
TTGCATTTGCATTTGCATTCGTATTATTTTCATTACATTTGCATTTTTATAT
Found at i:9067691 original size:22 final size:22
Alignment explanation
Indices: 9067661--9067720 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
9067651 TCTCCATCTA
*
9067661 CATTCTTCAAAGATGATAGATT
1 CATTATTCAAAGATGATAGATT
9067683 CATTATTCAAAGATGATAGATT
1 CATTATTCAAAGATGATAGATT
*
9067705 C-TCTTTTCAAAGATGA
1 CAT-TATTCAAAGATGA
9067721 AAGCTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (22 bp):
CATTATTCAAAGATGATAGATT
Found at i:9068468 original size:45 final size:46
Alignment explanation
Indices: 9068404--9068494 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 46
9068394 CTATTTCCCA
*
9068404 CATCTGTAAGCCCCTCAGTGCATGATGTTTTC-AAAGCCTTCGGGT
1 CATCTGTAAGCCCCTCAGTGCAGGATGTTTTCAAAAGCCTTCGGGT
9068449 CATCTGTAAG-CCCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGG
1 CATCTGTAAGCCCCT-CAGTGCAGGATGTTTTC-AAAAGCCTTCGGG
9068495 AGCTTTTTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 4 0.10
45 26 0.62
47 12 0.29
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (46 bp):
CATCTGTAAGCCCCTCAGTGCAGGATGTTTTCAAAAGCCTTCGGGT
Found at i:9068557 original size:76 final size:76
Alignment explanation
Indices: 9068426--9068795 Score: 584
Period size: 76 Copynumber: 4.9 Consensus size: 76
9068416 CCTCAGTGCA
* *
9068426 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
9068491 CGGGAGCTTTT
66 CGGGAGCTTTT
* *
9068502 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGACGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
*
9068567 CGGGAGTTTTT
66 CGGGAGCTTTT
* *
9068578 TGATA-TTTCAAAGCCTTCGGGTCATCTTTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
9068642 CGGGAGCTTTT
66 CGGGAGCTTTT
* ** *
9068653 TGATATTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
9068718 CGGGAGCTTTT
66 CGGGAGCTTTT
* * * *
9068729 TGATATTTTCAAAGCCTTCGGGTCACCTGTAAGACCTTCAGTGGATGATGTTTTC-AAAA-CCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
9068792 CGGG
66 CGGG
9068796 TCATCCATAA
Statistics
Matches: 272, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
74 8 0.03
75 74 0.27
76 190 0.70
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (76 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:9068706 original size:151 final size:152
Alignment explanation
Indices: 9068426--9068795 Score: 593
Period size: 151 Copynumber: 2.5 Consensus size: 152
9068416 CCTCAGTGCA
* * *
9068426 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
* ** **
9068491 CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGACGTTTT
66 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAGGACGTTTT
*
9068556 CAAAAAGCCTTCGGGAGTTTTT
131 CAAAAAGCCTTCGGGAGCTTTT
*
9068578 TGATA-TTTCAAAGCCTTCGGGTCATCTTTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
*
9068642 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTTT
66 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAGGACGTTTT
9068707 CAAAAAGCCTTCGGGAGCTTTT
131 CAAAAAGCCTTCGGGAGCTTTT
* * *
9068729 TGATATTTTCAAAGCCTTCGGGTCACCTGTAAGACCTTCAGTGGATGATGTTTTC-AAAA-CCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
9068792 CGGG
66 CGGG
9068796 TCATCCATAA
Statistics
Matches: 202, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
150 8 0.04
151 145 0.72
152 49 0.24
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (152 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAGGACGTTTT
CAAAAAGCCTTCGGGAGCTTTT
Found at i:9068785 original size:45 final size:45
Alignment explanation
Indices: 9068729--9068842 Score: 149
Period size: 45 Copynumber: 2.5 Consensus size: 45
9068719 GGGAGCTTTT
* * * *
9068729 TGATATTTTCAAAGCCTTCGGGTCA-CCTGTAAGACCTTCAGTGGA
1 TGATGTTTTCAAAGCCTTCGGGTCATCC-ATAAGACCTACAGTGCA
*
9068774 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCATAAGACCTACAGTGCA
9068819 TGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC--AAAGCCTTCGGG
9068843 AGCTTTTTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
45 47 0.78
46 2 0.03
47 11 0.18
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCCATAAGACCTACAGTGCA
Found at i:9068803 original size:121 final size:121
Alignment explanation
Indices: 9068653--9068886 Score: 423
Period size: 121 Copynumber: 1.9 Consensus size: 121
9068643 GGGAGCTTTT
9068653 TGATATTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
9068718 CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCACCTGTAAGACCTTCAGTGGA
66 CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCACCTGTAAGACCTTCAGTGGA
* * *
9068774 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
* *
9068839 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCT
66 CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCACCTGTAAGACCT
9068887 ACAATGCAAG
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 108 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (121 bp):
TGATATTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCACCTGTAAGACCTTCAGTGGA
Found at i:9068948 original size:121 final size:122
Alignment explanation
Indices: 9068661--9068948 Score: 392
Period size: 121 Copynumber: 2.4 Consensus size: 122
9068651 TTTGATATTT
* *
9068661 TCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAG--GATGTTTTCAAAAAGCCTTCGGGAG
1 TCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCAGATGATGTTTTCAAAAAGCCTTCGGGAG
* * * * *
9068724 CTTTTTGATATTTTCAAAGCCTTCGGGTCACCTGTAAGACCTTCAGTGGATGATGTTT
66 CTTTTTGATATTTTCAAAGCCTTCGGGTCACCTGTAAGACCTACAATGCAAGATG-TA
*
9068782 TCAAAACCTTCGGGTCATCCATAAGACCTACAGTGC--ATGATGTTTTCAAAAAGCCTTCGGGAG
1 TCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCAGATGATGTTTTCAAAAAGCCTTCGGGAG
* *
9068845 CTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAATGCAAGATG-A
66 CTTTTTGATATTTTCAAAGCCTTCGGGTCACCTGTAAGACCTACAATGCAAGATGTA
* *
9068901 T-AAGACC-TCAGGGCCATCCATAAGACCTACAGTGCAAGATGAGGTTTT
1 TCAAAACCTTC-GGGCCATCCATAAGACCTACAGTGC-AGATGATGTTTT
9068949 AACATTTCCA
Statistics
Matches: 150, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
117 2 0.01
118 29 0.19
119 1 0.01
121 118 0.79
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (122 bp):
TCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCAGATGATGTTTTCAAAAAGCCTTCGGGAG
CTTTTTGATATTTTCAAAGCCTTCGGGTCACCTGTAAGACCTACAATGCAAGATGTA
Found at i:9069092 original size:3 final size:3
Alignment explanation
Indices: 9069084--9069130 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
9069074 TATAAATTTG
* *
9069084 TTA TTA TTA TTA TTA TAA GTA TTA TTA TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9069131 ATAAAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:9070388 original size:23 final size:22
Alignment explanation
Indices: 9070330--9070396 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
9070320 TTATTTGCAA
*
9070330 TATTATTTTATTATTACTTTTG
1 TATTATTTTATTATTACTTTCG
* * *
9070352 AAATATTTAAATTATTACTTTCG
1 TATTATTT-TATTATTACTTTCG
*
9070375 TTATTATTTTATTATTATTTTC
1 -TATTATTTTATTATTACTTTC
9070397 ATCTTAGTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 6 0.17
23 23 0.66
24 6 0.17
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (22 bp):
TATTATTTTATTATTACTTTCG
Found at i:9070754 original size:151 final size:148
Alignment explanation
Indices: 9070443--9070778 Score: 351
Period size: 151 Copynumber: 2.2 Consensus size: 148
9070433 TTTAAATAAT
* * * **
9070443 AATATTTATTTATTTTTTAATATTAAGAATGGGCAGTCTTAATATAACTAGATGTCTTATTCTGG
1 AATATTTATTTATTTTTTAATATTAAGAAAGGGCAATCTTAATATAACTAGATGTCCTATTCTAA
* * * *
9070508 TATTTAAAATAAATAAATAAAAATTATATATATTTACTTTTATTTTATTTAAATTATTTTCTTTT
66 TATTTAAAATAAATAAATAAAAATTATATAAATGTACTTATATTTTATTT--ATTATTATCTTTT
* *
9070573 AGGAGAGATTATCACATTTTC
129 AGGAGAAATTAT-ACATATTC
9070594 AATATTTATTTATTTTTTAATATTAAGAAAGGGCAATCTTAATATAACTAGATGTCCTATTCTAA
1 AATATTTATTTATTTTTTAATATTAAGAAAGGGCAATCTTAATATAACTAGATGTCCTATTCTAA
*
9070659 TATTTTAAAATAAATAAATAAATATTATGCTTATAAATGTA-TATATATCTACTTAGTTT-TTAT
66 TA-TTTAAAATAAATAAATAAAAATTA----TATAAATGTACT-TATAT-T--TTA-TTTATTAT
*
9070722 TAT-TTTTAGGA-AAATTAT-TATATTC
121 TATCTTTTAGGAGAAATTATACATATTC
* *
9070747 -TTATTATTATTTATTTATTAATATTAAAGAAA
1 AATA-T-TTATTTATTTTTTAATATT-AAGAAA
9070779 AAACAATTTT
Statistics
Matches: 157, Mismatches: 15, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
151 62 0.39
152 25 0.16
153 6 0.04
154 18 0.11
155 13 0.08
156 20 0.13
157 7 0.04
159 3 0.02
160 3 0.02
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (148 bp):
AATATTTATTTATTTTTTAATATTAAGAAAGGGCAATCTTAATATAACTAGATGTCCTATTCTAA
TATTTAAAATAAATAAATAAAAATTATATAAATGTACTTATATTTTATTTATTATTATCTTTTAG
GAGAAATTATACATATTC
Found at i:9076422 original size:20 final size:20
Alignment explanation
Indices: 9076397--9076489 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
9076387 TTTTCCCAAT
9076397 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
9076417 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
9076437 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
9076458 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
9076479 TCGCAATGCGA
1 TCGCAATGCGA
9076490 TACTGACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:9076439 original size:41 final size:41
Alignment explanation
Indices: 9076394--9076489 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
9076384 CGATTTTCCC
*
9076394 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
9076435 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
9076476 AAATCGCAATGCGA
1 AATTCGCAATGCGA
9076490 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:9076502 original size:41 final size:41
Alignment explanation
Indices: 9076416--9076550 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
9076406 GAATAAGTAA
* * * *
9076416 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
9076457 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
9076498 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
9076539 TTCGCAACGCGA
1 ATCGCAACGCGA
9076551 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:9076503 original size:20 final size:20
Alignment explanation
Indices: 9076478--9076571 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
9076468 AATTGAGAAA
*
9076478 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
9076498 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
9076519 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
9076539 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
9076559 TTCGCAACGCGAT
1 ATCGCAACGCGAT
9076572 TTACTTAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:9077133 original size:19 final size:19
Alignment explanation
Indices: 9077095--9077161 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
9077085 TTCGAGAATG
*
9077095 AAAATCGCAAAGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
9077115 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
9077134 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
9077153 AAAATCGCA
1 AAAATCGCA
9077162 TTGCGATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 30 0.75
20 10 0.25
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:9077213 original size:38 final size:35
Alignment explanation
Indices: 9077157--9077281 Score: 141
Period size: 33 Copynumber: 3.6 Consensus size: 35
9077147 GAAACCAAAA
**
9077157 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTC
1 TCGCATTGCGATAGTCATTTCGCGTTGCGATTTTC
*
9077192 ATTTCGCGTTGCGATAGTCATTTCGCGTTGCGA--TTC
1 ---TCGCATTGCGATAGTCATTTCGCGTTGCGATTTTC
* *
9077228 TCTCATCGCGATAGTCATTTCGCGTTGCGA--TTC
1 TCGCATTGCGATAGTCATTTCGCGTTGCGATTTTC
*
9077261 TCTCATTGCGATAGTCATTTC
1 TCGCATTGCGATAGTCATTTC
9077282 CTCGTTGCAA
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
33 50 0.62
36 3 0.04
38 27 0.34
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (35 bp):
TCGCATTGCGATAGTCATTTCGCGTTGCGATTTTC
Found at i:9077215 original size:24 final size:19
Alignment explanation
Indices: 9077157--9077226 Score: 113
Period size: 19 Copynumber: 3.7 Consensus size: 19
9077147 GAAACCAAAA
*
9077157 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
9077176 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
9077195 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
9077214 TCGCGTTGCGATT
1 TCGCGTTGCGATT
9077227 CTCTCATCGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.13, C:0.21, G:0.23, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:9077236 original size:19 final size:18
Alignment explanation
Indices: 9077156--9077237 Score: 53
Period size: 19 Copynumber: 4.3 Consensus size: 18
9077146 CGAAACCAAA
*
9077156 ATCGCATTGCGATTT-TC
1 ATCGCGTTGCGATTTCTC
9077173 ATTTCGCGTTGCGATTT-TC
1 A--TCGCGTTGCGATTTCTC
*
9077192 ATTTCGCGTTGCGATAGTCAT-
1 A--TCGCGTTGCGAT-TTC-TC
*
9077213 TTCGCGTTGCGATTCTCTC
1 ATCGCGTTGCGATT-TCTC
9077232 ATCGCG
1 ATCGCG
9077238 ATAGTCATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
17 1 0.02
18 1 0.02
19 49 0.92
20 1 0.02
22 1 0.02
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.40
Consensus pattern (18 bp):
ATCGCGTTGCGATTTCTC
Found at i:9077244 original size:33 final size:33
Alignment explanation
Indices: 9077202--9077296 Score: 154
Period size: 33 Copynumber: 2.8 Consensus size: 33
9077192 ATTTCGCGTT
9077202 GCGATAGTCATTTCGCGTTGCGATTCTCTCATC
1 GCGATAGTCATTTCGCGTTGCGATTCTCTCATC
*
9077235 GCGATAGTCATTTCGCGTTGCGATTCTCTCATT
1 GCGATAGTCATTTCGCGTTGCGATTCTCTCATC
* *
9077268 GCGATAGTCATTTCCTCGTTGCAATTCTC
1 GCGATAGTCATTT-CGCGTTGCGATTCTC
9077297 ATTATCTCGT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 45 0.78
34 13 0.22
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (33 bp):
GCGATAGTCATTTCGCGTTGCGATTCTCTCATC
Done.