Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 119 of 130
Found at i:23524231 original size:20 final size:22
Alignment explanation
Indices: 23524206--23524252 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
23524196 ATAATTCATT
* *
23524206 TATATTAAGA-TT-TATTTAAA
1 TATATTAAAATTTGTATTAAAA
23524226 TATATTAAAATTTGTATTAAAA
1 TATATTAAAATTTGTATTAAAA
23524248 TATAT
1 TATAT
23524253 ATAACAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 2 0.09
22 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TATATTAAAATTTGTATTAAAA
Found at i:23526393 original size:20 final size:21
Alignment explanation
Indices: 23526368--23526407 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
23526358 ATAATTAATT
* *
23526368 TATATTTAAATTTAT-TTAAG
1 TATATTAAAAATTATATTAAG
23526388 TATATTAAAAATTATATTAA
1 TATATTAAAAATTATATTAA
23526408 AATAATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
TATATTAAAAATTATATTAAG
Found at i:23526526 original size:8 final size:8
Alignment explanation
Indices: 23526517--23526551 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
23526507 AAATCAAATT
*
23526517 TTATAATT
1 TTATAATA
23526525 TTATAATA
1 TTATAATA
23526533 TTATAATA
1 TTATAATA
23526541 TTAT-ATA
1 TTATAATA
23526548 TTAT
1 TTAT
23526552 TTAAAAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TTATAATA
Found at i:23528170 original size:13 final size:14
Alignment explanation
Indices: 23528142--23528170 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23528132 TGTTATATTC
23528142 AATTTCTTACTTAT
1 AATTTCTTACTTAT
23528156 AATTTCTTA-TTAT
1 AATTTCTTACTTAT
23528169 AA
1 AA
23528171 ATAAAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTCTTACTTAT
Found at i:23537341 original size:26 final size:25
Alignment explanation
Indices: 23537290--23537341 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
23537280 GATTGCAAGT
* *
23537290 TATTTTTATTTTTATTTTATTTTTA
1 TATTTTTATTTTTATTTTAGTATTA
23537315 TATTTTTAATTTTT-TTGTTAGTATTA
1 TATTTTT-ATTTTTATT-TTAGTATTA
23537341 T
1 T
23537342 TATTATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (25 bp):
TATTTTTATTTTTATTTTAGTATTA
Found at i:23539001 original size:17 final size:17
Alignment explanation
Indices: 23538981--23539048 Score: 91
Period size: 17 Copynumber: 3.9 Consensus size: 17
23538971 AGATTCTTAA
*
23538981 AAGTTTGCAAGAATTTC
1 AAGTTTGTAAGAATTTC
*
23538998 AAGTTTCGTAAGAATTTT
1 AAGTTT-GTAAGAATTTC
*
23539016 AGGTTTGTAAGAATTTC
1 AAGTTTGTAAGAATTTC
*
23539033 AAGTTCGTAAGAATTT
1 AAGTTTGTAAGAATTT
23539049 TCATAATTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
17 30 0.68
18 14 0.32
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (17 bp):
AAGTTTGTAAGAATTTC
Found at i:23539045 original size:34 final size:35
Alignment explanation
Indices: 23538983--23539049 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
23538973 ATTCTTAAAA
23538983 GTTTGCAAGAATTTCAAGTTTCGTAAGAATTTTAG
1 GTTTGCAAGAATTTCAAGTTTCGTAAGAATTTTAG
*
23539018 GTTTGTAAGAATTTCAAG-TTCGTAAGAATTTT
1 GTTTGCAAGAATTTCAAGTTTCGTAAGAATTTT
23539050 CATAATTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 14 0.45
35 17 0.55
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.42
Consensus pattern (35 bp):
GTTTGCAAGAATTTCAAGTTTCGTAAGAATTTTAG
Found at i:23539059 original size:35 final size:35
Alignment explanation
Indices: 23538989--23539060 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
23538979 AAAAGTTTGC
**
23538989 AAGAATTTCAAGTTTCGTAAGAATTTTAGGTTTGT
1 AAGAATTTCAAGTTTCGTAAGAATTTTAGAATTGT
*
23539024 AAGAATTTCAAG-TTCGTAAGAATTTTCATAATTGT
1 AAGAATTTCAAGTTTCGTAAGAATTTT-AGAATTGT
23539059 AA
1 AA
23539061 AGATTCACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 14 0.42
35 19 0.58
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (35 bp):
AAGAATTTCAAGTTTCGTAAGAATTTTAGAATTGT
Found at i:23539194 original size:21 final size:21
Alignment explanation
Indices: 23539170--23539239 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
23539160 AAAATTTTAG
23539170 AGATTCATATTCAAAAGTTAA
1 AGATTCATATTCAAAAGTTAA
** * *
23539191 AGATTTTTATTGAAAAGTTTA
1 AGATTCATATTCAAAAGTTAA
* * * *
23539212 GGATTCACATTCGAAATTTAAA
1 AGATTCATATTCAAAAGTT-AA
23539234 AGATTC
1 AGATTC
23539240 CAACTTGAAA
Statistics
Matches: 35, Mismatches: 13, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
21 29 0.83
22 6 0.17
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (21 bp):
AGATTCATATTCAAAAGTTAA
Found at i:23539264 original size:46 final size:43
Alignment explanation
Indices: 23539140--23539322 Score: 140
Period size: 46 Copynumber: 4.1 Consensus size: 43
23539130 TCACTTCTAG
* * * * *
23539140 AATTCAAAGATTTTCATTCAAAAATTTTAGAGATTCATATTCAA
1 AATTTAAAGA-TTCCATTGAAAAATTTTAGGGATTCACATTCAA
* ** * *
23539184 AAGTTAAAGATTTTTATTG-AAAAGTTTA-GGATTCACATTCGA
1 AATTTAAAGA-TTCCATTGAAAAATTTTAGGGATTCACATTCAA
23539226 AATTTAAAAGATTCCAACTTGAAAAATTTTAGGGATTCACATAT-AA
1 AATTT-AAAGATTCC-A-TTGAAAAATTTTAGGGATTCACAT-TCAA
* *
23539272 AATTTCAAAGATTCTCATTTGAAAAATTTT-GGGATTTCGCATCCAA
1 AATTT-AAAGATTC-CA-TTGAAAAATTTTAGGGA-TTCACATTCAA
23539318 AATTT
1 AATTT
23539323 TAAAAAAAAT
Statistics
Matches: 113, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
42 17 0.15
43 14 0.12
44 18 0.16
45 12 0.11
46 50 0.44
47 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (43 bp):
AATTTAAAGATTCCATTGAAAAATTTTAGGGATTCACATTCAA
Found at i:23546847 original size:15 final size:15
Alignment explanation
Indices: 23546829--23546862 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
23546819 TAAGTAAAAA
*
23546829 AATAATAATAGTAAT
1 AATAATAACAGTAAT
23546844 AATAATAACAGTAAT
1 AATAATAACAGTAAT
23546859 AATA
1 AATA
23546863 CAATAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (15 bp):
AATAATAACAGTAAT
Found at i:23550876 original size:74 final size:75
Alignment explanation
Indices: 23550738--23550890 Score: 211
Period size: 74 Copynumber: 2.1 Consensus size: 75
23550728 TCAGTCCAGA
* * * *
23550738 CTTCCAGCCGTTAATTTTAGGGTTTCCCATCCTATATCTCCGAGATGACAAACATCGATCAGATC
1 CTTCCAGCCATTAATTCTAGGGTTTCCCATCCTAAATCTCCGAGATGACAAACATCCATCAGATC
23550803 ATCAACAACT
66 ATCAACAACT
* * *
23550813 CTTCCCGCCATTAATTCTAGGGTTTCCC-TTCTAAATCTGCGAGATG-CAAAACATCCATCAGAT
1 CTTCCAGCCATTAATTCTAGGGTTTCCCATCCTAAATCTCCGAGATGAC-AAACATCCATCAGAT
*
23550876 CGTCAACAACT
65 CATCAACAACT
23550887 CTTC
1 CTTC
23550891 AATTTACAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
73 1 0.01
74 43 0.62
75 25 0.36
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (75 bp):
CTTCCAGCCATTAATTCTAGGGTTTCCCATCCTAAATCTCCGAGATGACAAACATCCATCAGATC
ATCAACAACT
Found at i:23551965 original size:22 final size:22
Alignment explanation
Indices: 23551937--23551980 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
23551927 TCCTAATGTC
*
23551937 CTTAATTTTAGGGATACAAATA
1 CTTAATTTTAGAGATACAAATA
23551959 CTTAATTTTAGAGATACAAATA
1 CTTAATTTTAGAGATACAAATA
23551981 TAAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (22 bp):
CTTAATTTTAGAGATACAAATA
Found at i:23551992 original size:22 final size:22
Alignment explanation
Indices: 23551940--23551992 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
23551930 TAATGTCCTT
* * *
23551940 AATTTTAGGGATACAAATACTT
1 AATTATAGAGATACAAATACTA
*
23551962 AATTTTAGAGATACAAATA-TA
1 AATTATAGAGATACAAATACTA
23551983 AATATATAGA
1 AAT-TATAGA
23551993 TTACAAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (22 bp):
AATTATAGAGATACAAATACTA
Found at i:23553178 original size:22 final size:22
Alignment explanation
Indices: 23553152--23553195 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23553142 TGTATATTTA
*
23553152 TATTTGTA-TCTCTAGAATTAAG
1 TATTTGTATTC-CTACAATTAAG
23553174 TATTTGTATTCCTACAATTAAG
1 TATTTGTATTCCTACAATTAAG
23553196 GACAGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (22 bp):
TATTTGTATTCCTACAATTAAG
Found at i:23556859 original size:2 final size:2
Alignment explanation
Indices: 23556852--23556934 Score: 159
Period size: 2 Copynumber: 42.0 Consensus size: 2
23556842 GGAAAAACAT
23556852 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23556894 TG T- TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23556935 CATTATATAT
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 79 0.99
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:23560429 original size:2 final size:2
Alignment explanation
Indices: 23560422--23560455 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
23560412 TAGAAACACA
*
23560422 AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23560456 GGTTTGCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23563134 original size:91 final size:90
Alignment explanation
Indices: 23563037--23563206 Score: 288
Period size: 91 Copynumber: 1.9 Consensus size: 90
23563027 CAAGATATAG
*
23563037 ACCAAAATCAAAATGACAATTATCTTTTAAATT-TGTGAAATTTTTAACCTGAAAAACCAGATAA
1 ACCAAAATCAAAATGACAATTATCCTTTAAATTCT-TGAAATTTTTAACCTG-AAAACCAGATAA
*
23563101 TACTTCCCGGACTTTCAATGCAAGTAT
64 TACTTCCAGGACTTTCAATGCAAGTAT
*
23563128 ACCAAAATCAAAATGACAATTATCCTTTAAATTCTTGAAATTTTTAACCTGAAAACTAGATAATA
1 ACCAAAATCAAAATGACAATTATCCTTTAAATTCTTGAAATTTTTAACCTGAAAACCAGATAATA
23563193 CTTCCAGGACTTTC
66 CTTCCAGGACTTTC
23563207 CAACAAGTAA
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
90 26 0.35
91 48 0.64
92 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (90 bp):
ACCAAAATCAAAATGACAATTATCCTTTAAATTCTTGAAATTTTTAACCTGAAAACCAGATAATA
CTTCCAGGACTTTCAATGCAAGTAT
Found at i:23564394 original size:2 final size:2
Alignment explanation
Indices: 23564387--23564418 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23564377 TAAGGGAGTC
23564387 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23564419 AGTTGAAAAC
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):
TA
Found at i:23583913 original size:4 final size:4
Alignment explanation
Indices: 23583880--23583925 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
23583870 AGATATGGGC
* * * *
23583880 ATAT ATAA ATAT AAAT AAAT ATAT AGAT ATAT ATAT ATAT ATAT AT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT
23583926 CTTTTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (4 bp):
ATAT
Found at i:23583923 original size:6 final size:6
Alignment explanation
Indices: 23583880--23583925 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
23583870 AGATATGGGC
* * * *
23583880 ATATAT AAATAT AAATAA ATATAT AGATAT ATATAT ATATAT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
23583926 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (6 bp):
ATATAT
Found at i:23583925 original size:10 final size:10
Alignment explanation
Indices: 23583880--23583925 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
23583870 AGATATGGGC
23583880 ATATATAAAT
1 ATATATAAAT
*
23583890 ATAAATAAAT
1 ATATATAAAT
* *
23583900 ATATAGATAT
1 ATATATAAAT
*
23583910 ATATATATAT
1 ATATATAAAT
23583920 ATATAT
1 ATATAT
23583926 CTTTTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
ATATATAAAT
Found at i:23588392 original size:20 final size:20
Alignment explanation
Indices: 23588367--23588404 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
23588357 CGTTTTATCC
23588367 TTGGACTCTCAATTTCAACA
1 TTGGACTCTCAATTTCAACA
23588387 TTGGACTCTCAATTTCAA
1 TTGGACTCTCAATTTCAA
23588405 TGATAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (20 bp):
TTGGACTCTCAATTTCAACA
Found at i:23590652 original size:12 final size:12
Alignment explanation
Indices: 23590635--23590659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23590625 ATTAATCTCT
23590635 TCCTAATAAGGC
1 TCCTAATAAGGC
23590647 TCCTAATAAGGC
1 TCCTAATAAGGC
23590659 T
1 T
23590660 GGAGGGGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCTAATAAGGC
Found at i:23594481 original size:9 final size:9
Alignment explanation
Indices: 23594459--23594494 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23594449 CCTCCGGCAC
23594459 CACC-ACAA
1 CACCAACAA
23594467 CACCAACAA
1 CACCAACAA
*
23594476 CGCCAACAA
1 CACCAACAA
23594485 CACCAACAA
1 CACCAACAA
23594494 C
1 C
23594495 GCCCATCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 4 0.16
9 21 0.84
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (9 bp):
CACCAACAA
Found at i:23594486 original size:18 final size:18
Alignment explanation
Indices: 23594463--23594497 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23594453 CGGCACCACC
23594463 ACAACACCAACAACGCCA
1 ACAACACCAACAACGCCA
23594481 ACAACACCAACAACGCC
1 ACAACACCAACAACGCC
23594498 CATCACAACA
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:0.49, C:0.46, G:0.06, T:0.00
Consensus pattern (18 bp):
ACAACACCAACAACGCCA
Found at i:23607442 original size:26 final size:25
Alignment explanation
Indices: 23607392--23607459 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 25
23607382 TATTAATATA
23607392 ATTATTAAAATATTAAAAATTATTT
1 ATTATTAAAATATTAAAAATTATTT
*
23607417 ATTATTAAAGTATATT-GAAATTATTT
1 ATTATTAAA--ATATTAAAAATTATTT
23607443 ATTATTAAAATTATTAA
1 ATTATTAAAA-TATTAA
23607460 TATTCAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
24 1 0.03
25 13 0.35
26 18 0.49
27 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
ATTATTAAAATATTAAAAATTATTT
Found at i:23607647 original size:15 final size:15
Alignment explanation
Indices: 23607627--23607672 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
23607617 TTAAAATAGT
23607627 AATATTTATTATTAA
1 AATATTTATTATTAA
23607642 AATATTTA-TATTGAA
1 AATATTTATTATT-AA
* *
23607657 AATATCTATTGTTAA
1 AATATTTATTATTAA
23607672 A
1 A
23607673 TCATAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 20 0.74
16 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (15 bp):
AATATTTATTATTAA
Found at i:23607909 original size:26 final size:26
Alignment explanation
Indices: 23607860--23607909 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
23607850 AAAATATTAT
* * *
23607860 TATATTATTATTTGTTATTAAAATAA
1 TATAATATTATTTATTATCAAAATAA
*
23607886 TATAATATTATTTATTATCGAAAT
1 TATAATATTATTTATTATCAAAAT
23607910 GCTAAAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (26 bp):
TATAATATTATTTATTATCAAAATAA
Found at i:23608010 original size:24 final size:23
Alignment explanation
Indices: 23607982--23608036 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
23607972 CTTTTAATGT
23607982 TAATATTTTAATTAAAATTAAATAA
1 TAATATTTTAATTAAAA-T-AATAA
* *
23608007 -AATATTTTTATTAATATAATAA
1 TAATATTTTAATTAAAATAATAA
23608029 TAATATTT
1 TAATATTT
23608037 CAAGTTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 5 0.19
23 8 0.30
24 14 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATATTTTAATTAAAATAATAA
Found at i:23609569 original size:81 final size:81
Alignment explanation
Indices: 23609429--23609595 Score: 316
Period size: 81 Copynumber: 2.1 Consensus size: 81
23609419 GTGTCAAAAC
*
23609429 TAAATTCTATTGATAGAGTGCCTAAAGCCACAAGTGTGGTGGAGAAAAAAGATTTGGATGAGAGA
1 TAAAATCTATTGATAGAGTGCCTAAAGCCACAAGTGTGGTGGAGAAAAAAGATTTGGATGAGAGA
23609494 AGAATAAAGAGTCACG
66 AGAATAAAGAGTCACG
*
23609510 TAAAATCTATTGATAGAGTGCCTAAAGCCCCAAGTGTGGTGGAGAAAAAAGATTTGGATGAGAGA
1 TAAAATCTATTGATAGAGTGCCTAAAGCCACAAGTGTGGTGGAGAAAAAAGATTTGGATGAGAGA
23609575 AGAATAAAGAGTCACG
66 AGAATAAAGAGTCACG
23609591 TAAAA
1 TAAAA
23609596 GAGGAGATTG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.22
Consensus pattern (81 bp):
TAAAATCTATTGATAGAGTGCCTAAAGCCACAAGTGTGGTGGAGAAAAAAGATTTGGATGAGAGA
AGAATAAAGAGTCACG
Found at i:23610556 original size:381 final size:381
Alignment explanation
Indices: 23609853--23610621 Score: 1484
Period size: 381 Copynumber: 2.0 Consensus size: 381
23609843 CTCTTTGTCA
*
23609853 GTAGAGGGGACTAATGTTGGACCGATAATTAAAATTGAAGGAAATGACAATGAAAAGCCCTTAGA
1 GTAGAGGGGACTAATGTTGGACCGATAATTAAAATTGAAGGAAATGACAATGAAAAACCCTTAGA
23609918 ATCGAGAGAGAAGAAAGGTCTGCAAGGTGCACCATTCCTCAGCAAGGACAAATCTCAAGTAATTG
66 ATCGAGAGAGAAGAAAGGTCTGCAAGGTGCACCATTCCTCAGCAAGGACAAATCTCAAGTAATTG
*
23609983 CAGGTTTACTCTGTGGTCCATGTGCTGTAGATGTGAAAGCTGAAGTGCAAGAGGTGGTAAATGAG
131 CAGGTTTACTCTGTGGTCCATGTGCTGTAGATGTGAAAGCTGAAGTACAAGAGGTGGTAAATGAG
23610048 CATTCAGCTGCTTATCCTCCCTGTTTGTTAGGTCAGAGTACAAAAATTGGATTGGAAATCCAAAC
196 CATTCAGCTGCTTATCCTCCCTGTTTGTTAGGTCAGAGTACAAAAATTGGATTGGAAATCCAAAC
* * *
23610113 CTTAGAACATGAAAAAGAAAAACCCATTGAAACGAGGGAGAAGAAAGGTATGGGAGGTTCATCAT
261 CTTAGAACATGAAAAAGAAAAACCCATTGAAACAAGAGAGAAGAAAGGTATGCGAGGTTCATCAT
23610178 TCCTTTGCAAGGACAAATCTAAAATGGTTGCTGGTTCATTCAATGGTCCTTGTGCT
326 TCCTTTGCAAGGACAAATCTAAAATGGTTGCTGGTTCATTCAATGGTCCTTGTGCT
*
23610234 GTAGAGGGGACTAATGTTGGACTGATAATTAAAATTGAAGGAAATGACAATGAAAAACCCTTAGA
1 GTAGAGGGGACTAATGTTGGACCGATAATTAAAATTGAAGGAAATGACAATGAAAAACCCTTAGA
23610299 ATCGAGAGAGAAGAAAGGTCTGCAAGGTGCACCATTCCTCAGCAAGGACAAATCTCAAGTAATTG
66 ATCGAGAGAGAAGAAAGGTCTGCAAGGTGCACCATTCCTCAGCAAGGACAAATCTCAAGTAATTG
23610364 CAGGTTTACTCTGTGGTCCATGTGCTGTAGATGTGAAAGCTGAAGTACAAGAGGTGGTAAATGAG
131 CAGGTTTACTCTGTGGTCCATGTGCTGTAGATGTGAAAGCTGAAGTACAAGAGGTGGTAAATGAG
23610429 CATTCAGCTGCTTATCCTCCCTGTTTGTTAGGTCAGAGTACAAAAATTGGATTGGAAATCCAAAC
196 CATTCAGCTGCTTATCCTCCCTGTTTGTTAGGTCAGAGTACAAAAATTGGATTGGAAATCCAAAC
23610494 CTTAGAACATGAAAAAGAAAAACCCATTGAAACAAGAGAGAAGAAAGGTATGCGAGGTTCATCAT
261 CTTAGAACATGAAAAAGAAAAACCCATTGAAACAAGAGAGAAGAAAGGTATGCGAGGTTCATCAT
23610559 TCCTTTGCAAGGACAAATCTAAAATGGTTGCTGGTTCATTCAATGGTCCTTGTGCT
326 TCCTTTGCAAGGACAAATCTAAAATGGTTGCTGGTTCATTCAATGGTCCTTGTGCT
23610615 GTAGAGG
1 GTAGAGG
23610622 ACAAAGCTGA
Statistics
Matches: 382, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
381 382 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (381 bp):
GTAGAGGGGACTAATGTTGGACCGATAATTAAAATTGAAGGAAATGACAATGAAAAACCCTTAGA
ATCGAGAGAGAAGAAAGGTCTGCAAGGTGCACCATTCCTCAGCAAGGACAAATCTCAAGTAATTG
CAGGTTTACTCTGTGGTCCATGTGCTGTAGATGTGAAAGCTGAAGTACAAGAGGTGGTAAATGAG
CATTCAGCTGCTTATCCTCCCTGTTTGTTAGGTCAGAGTACAAAAATTGGATTGGAAATCCAAAC
CTTAGAACATGAAAAAGAAAAACCCATTGAAACAAGAGAGAAGAAAGGTATGCGAGGTTCATCAT
TCCTTTGCAAGGACAAATCTAAAATGGTTGCTGGTTCATTCAATGGTCCTTGTGCT
Found at i:23625234 original size:28 final size:28
Alignment explanation
Indices: 23625200--23625265 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
23625190 TAAAAATATA
23625200 TATATTTGCACAGATTATAATAACATTT
1 TATATTTGCACAGATTATAATAACATTT
*
23625228 TCTATTTGCACAGATTATAATAACATTT
1 TATATTTGCACAGATTATAATAACATTT
*
23625256 TATTTTTGCA
1 TATATTTGCA
23625266 AAGAAACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (28 bp):
TATATTTGCACAGATTATAATAACATTT
Found at i:23625458 original size:21 final size:21
Alignment explanation
Indices: 23625421--23625460 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23625411 CAAACAAAAC
*
23625421 AAAAAAAGTAGTAAAAATTAA
1 AAAAAAAATAGTAAAAATTAA
23625442 AAAAAAAAT-GTAGAAAATT
1 AAAAAAAATAGTA-AAAATT
23625461 TACCAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (21 bp):
AAAAAAAATAGTAAAAATTAA
Found at i:23625644 original size:33 final size:33
Alignment explanation
Indices: 23625607--23625671 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
23625597 CGGTTTTCAC
* *
23625607 TTTCTTACTAGGGTTTAGGTTTTAAAAAATACA
1 TTTCTTACCAGGGTTTAGGGTTTAAAAAATACA
*
23625640 TTTCTTTCCAGGGTTTAGGGTTTAAAAAATAC
1 TTTCTTACCAGGGTTTAGGGTTTAAAAAATAC
23625672 GCTATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (33 bp):
TTTCTTACCAGGGTTTAGGGTTTAAAAAATACA
Found at i:23626950 original size:22 final size:23
Alignment explanation
Indices: 23626925--23626975 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
23626915 AAAATGTATT
23626925 TTATTTATT-TA-AAACATTTTTA
1 TTATTTATTATAGAAACA-TTTTA
*
23626947 TTATTT-TTATAGCAACATTTTA
1 TTATTTATTATAGAAACATTTTA
23626969 TTATTTA
1 TTATTTA
23626976 AGAAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 19 0.76
23 4 0.16
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATTTATTATAGAAACATTTTA
Found at i:23636684 original size:21 final size:21
Alignment explanation
Indices: 23636660--23636700 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23636650 ATAAATTTAA
*
23636660 TTTTATAAATTAAAAATATTT
1 TTTTACAAATTAAAAATATTT
**
23636681 TTTTACACTTTAAAAATATT
1 TTTTACAAATTAAAAATATT
23636701 AAATAATCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTACAAATTAAAAATATTT
Found at i:23637879 original size:17 final size:17
Alignment explanation
Indices: 23637852--23637892 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
23637842 GCCCAAATCT
*
23637852 TTTTCTTGGGTTCTTTTA
1 TTTT-TTGGGTTATTTTA
23637870 TTTTTTGGGTTATTTTA
1 TTTTTTGGGTTATTTTA
23637887 TGTTTT
1 T-TTTT
23637893 AAAAAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.07, C:0.05, G:0.17, T:0.71
Consensus pattern (17 bp):
TTTTTTGGGTTATTTTA
Found at i:23642609 original size:17 final size:17
Alignment explanation
Indices: 23642583--23642626 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
23642573 CTTGATTTAT
*
23642583 ATTTATAATTTGAATAA
1 ATTTAAAATTTGAATAA
23642600 ATTTAAAATTTGAATAA
1 ATTTAAAATTTGAATAA
*
23642617 ACTTAAAATT
1 ATTTAAAATT
23642627 ATTCAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (17 bp):
ATTTAAAATTTGAATAA
Found at i:23643743 original size:33 final size:32
Alignment explanation
Indices: 23643701--23643775 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
23643691 TTGATTTTGG
*
23643701 ATATACATATTCAATAATATAAAATATGTTT-AA
1 ATATACATATTCAATAACATAAAA-AT-TTTCAA
* *
23643734 ATATGCATATTTAATAACATAAAAATTTTCAA
1 ATATACATATTCAATAACATAAAAATTTTCAA
*
23643766 ATATATATAT
1 ATATACATAT
23643776 ATATATATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
31 3 0.08
32 12 0.33
33 21 0.58
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.40
Consensus pattern (32 bp):
ATATACATATTCAATAACATAAAAATTTTCAA
Found at i:23651482 original size:15 final size:15
Alignment explanation
Indices: 23651440--23651547 Score: 90
Period size: 15 Copynumber: 7.0 Consensus size: 15
23651430 CAGCATTTCT
*
23651440 GCCATAGCCCCCACC
1 GCCATAGCCACCACC
* ***
23651455 TCCATAATTACCACC
1 GCCATAGCCACCACC
*
23651470 GCCGTAGCCACCACC
1 GCCATAGCCACCACC
23651485 GCCATAGCCACCACC
1 GCCATAGCCACCACC
* *
23651500 TCCATAGCCGCCGCCACC
1 GCCATA---GCCACCACC
**
23651518 GCTGTAGCCACCACC
1 GCCATAGCCACCACC
*
23651533 ACCATAGCCACCACC
1 GCCATAGCCACCACC
23651548 TCCAAAGTTA
Statistics
Matches: 70, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
15 59 0.84
18 11 0.16
ACGTcount: A:0.24, C:0.52, G:0.13, T:0.11
Consensus pattern (15 bp):
GCCATAGCCACCACC
Found at i:23654724 original size:21 final size:21
Alignment explanation
Indices: 23654694--23654745 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
23654684 TAAAAGTTAT
23654694 CAAAATATTATCAAAACTAATA
1 CAAAA-ATTATCAAAACTAATA
* *
23654716 CAAAAATTATCAGAAGTAATA
1 CAAAAATTATCAAAACTAATA
* *
23654737 TAAAGATTA
1 CAAAAATTA
23654746 AAAAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.27
Consensus pattern (21 bp):
CAAAAATTATCAAAACTAATA
Found at i:23659188 original size:24 final size:25
Alignment explanation
Indices: 23659135--23659189 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
23659125 TTAATTTAAC
* *
23659135 TTATAA-AATTAAAAAAATTATATT
1 TTATAATAAATAAAAAAATAATATT
*
23659159 TT-TAATAAATAAAAAACTAAT-TT
1 TTATAATAAATAAAAAAATAATATT
23659182 TTATAATA
1 TTATAATA
23659190 TATATGTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TTATAATAAATAAAAAAATAATATT
Found at i:23661351 original size:27 final size:26
Alignment explanation
Indices: 23661289--23661353 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
23661279 ACACATTCCT
* * *
23661289 TCGGAAACCGCTAAGACACCGAGCCC
1 TCGGAAACCCCTAAGACACAGAGCCA
* *
23661315 TCCGGGAACCCCTAAGCCACAGAGCGCA
1 T-CGGAAACCCCTAAGACACAGAGC-CA
23661343 TCGGAAACCCC
1 TCGGAAACCCC
23661354 CAAGTCTCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 1 0.03
27 28 0.90
28 2 0.06
ACGTcount: A:0.29, C:0.40, G:0.23, T:0.08
Consensus pattern (26 bp):
TCGGAAACCCCTAAGACACAGAGCCA
Found at i:23661979 original size:16 final size:16
Alignment explanation
Indices: 23661960--23661991 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23661950 TAAAATTTAA
23661960 ATATAAAATAAATAAT
1 ATATAAAATAAATAAT
*
23661976 ATATGAAATAAATAAT
1 ATATAAAATAAATAAT
23661992 TTTATTTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
ATATAAAATAAATAAT
Found at i:23662257 original size:15 final size:16
Alignment explanation
Indices: 23662224--23662267 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
23662214 AACATAATTT
**
23662224 AATTAATTTAATTTTA
1 AATTAATTTAATTCCA
23662240 AA-TAATTTAATTCCA
1 AATTAATTTAATTCCA
*
23662255 AATTAATTGAATT
1 AATTAATTTAATT
23662268 GATAAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
AATTAATTTAATTCCA
Found at i:23675007 original size:43 final size:43
Alignment explanation
Indices: 23674899--23675010 Score: 103
Period size: 41 Copynumber: 2.7 Consensus size: 43
23674889 ATAATTATAT
* * *
23674899 TATTAAAAAATT--AATTTCTTATT-ATATATCACATGTAATA
1 TATTAAATAATTAAAATTTATTATTAATATATCACATATAATA
* *
23674939 -ATTAAGTAA-TAAATATTTATT-TTAATATATTCA-ATATGATA
1 TATTAAATAATTAAA-ATTTATTATTAATATA-TCACATATAATA
*
23674980 TATTAAATAATTAAAATTTTTTATTAATATA
1 TATTAAATAATTAAAATTTATTATTAATATA
23675011 ATTTAATAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
38 1 0.02
39 7 0.12
40 3 0.05
41 17 0.30
42 17 0.30
43 12 0.21
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (43 bp):
TATTAAATAATTAAAATTTATTATTAATATATCACATATAATA
Found at i:23675783 original size:15 final size:13
Alignment explanation
Indices: 23675747--23675788 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
23675737 TAAAATTGTT
*
23675747 ATTTAATATTTTA
1 ATTTAATATATTA
23675760 ATTTAATATATTA
1 ATTTAATATATTA
* *
23675773 ATTTAAGATATAA
1 ATTTAATATATTA
23675786 ATT
1 ATT
23675789 ATGTTTGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
ATTTAATATATTA
Found at i:23676262 original size:12 final size:12
Alignment explanation
Indices: 23676235--23676273 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
23676225 TATAATTTAT
**
23676235 TAAAATAATATT
1 TAAAATAATAAA
23676247 TAAAATAATAAA
1 TAAAATAATAAA
23676259 T-AAATAATAAA
1 TAAAATAATAAA
23676270 TAAA
1 TAAA
23676274 TGATAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 11 0.46
12 13 0.54
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATAATAAA
Found at i:23676263 original size:11 final size:11
Alignment explanation
Indices: 23676249--23676279 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
23676239 ATAATATTTA
23676249 AAATAATAAAT
1 AAATAATAAAT
23676260 AAATAATAAAT
1 AAATAATAAAT
*
23676271 AAATGATAA
1 AAATAATAA
23676280 TATTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:23676610 original size:22 final size:22
Alignment explanation
Indices: 23676581--23676627 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
23676571 AGGTTATTTT
**
23676581 AAATTTTTTATTTAATATCATTA
1 AAATTTTAAATTTAA-ATCATTA
*
23676604 AAATTTTAAATTTAAATTATTA
1 AAATTTTAAATTTAAATCATTA
23676626 AA
1 AA
23676628 GTTAAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATTTTAAATTTAAATCATTA
Found at i:23676655 original size:28 final size:28
Alignment explanation
Indices: 23676601--23676655 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
23676591 TTTAATATCA
* *
23676601 TTAAAATTTTAAATTTAAATTATTAAAG
1 TTAAAATTTTAAATTTAAACTAATAAAG
*
23676629 TTAAAATTTTAACATTT-TACTAATAAA
1 TTAAAATTTTAA-ATTTAAACTAATAAA
23676656 TTATACGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (28 bp):
TTAAAATTTTAAATTTAAACTAATAAAG
Found at i:23678076 original size:30 final size:31
Alignment explanation
Indices: 23678015--23678082 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
23678005 ATTAATTTAT
*
23678015 TTATTTAAACAAAAAATATAATTTAAATTAA
1 TTATTTAAACAAAAAATATAATTAAAATTAA
*
23678046 -TATTTAAACAAAGAAT-T-ATTAAAAAGTTAA
1 TTATTTAAACAAAAAATATAATT-AAAA-TTAA
23678076 TTATTTA
1 TTATTTA
23678083 TAATTTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 3 0.09
29 4 0.12
30 19 0.59
31 6 0.19
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (31 bp):
TTATTTAAACAAAAAATATAATTAAAATTAA
Found at i:23689160 original size:2 final size:2
Alignment explanation
Indices: 23689153--23689177 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23689143 AGTGTATTAC
23689153 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 T
23689178 TTTTAACAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23692081 original size:32 final size:32
Alignment explanation
Indices: 23692039--23692120 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
23692029 TAGATTTTAT
* * * *
23692039 AATTCATGTATTTGTGTCATATAAAATATTAA
1 AATTTATGTATTTATATCACATAAAATATTAA
* *
23692071 AATTTATGTATTTATATTACGTAAAATATTAA
1 AATTTATGTATTTATATCACATAAAATATTAA
*
23692103 AATTTATATATTTATATC
1 AATTTATGTATTTATATC
23692121 GTATTTTATA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (32 bp):
AATTTATGTATTTATATCACATAAAATATTAA
Found at i:23699120 original size:2 final size:2
Alignment explanation
Indices: 23699113--23699138 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23699103 TGTATGAATG
23699113 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
23699139 ATTTTAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23725759 original size:14 final size:15
Alignment explanation
Indices: 23725724--23725761 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
23725714 ATTATAAAAT
23725724 TTAAATATTAATTCTA
1 TTAAATATTAA-TCTA
*
23725740 TTAAATATTAA-CTC
1 TTAAATATTAATCTA
23725754 TTAAATAT
1 TTAAATAT
23725762 GATAATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
16 11 0.52
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATATTAATCTA
Found at i:23726572 original size:3 final size:3
Alignment explanation
Indices: 23726566--23726609 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
23726556 CAGCAGCGGC
23726566 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23726610 AGGGGTGTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23733861 original size:34 final size:34
Alignment explanation
Indices: 23733823--23733896 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
23733813 TATCAAATGC
*
23733823 ATTTTTTAAAAACA-AAAAATA-AAAAATAAAAGCT
1 ATTTTTTAAAAA-ATAAAAATATAAAAATAAAA-AT
*
23733857 ATTTTTTAAAAAATAAAAATATAAACATAAAAAT
1 ATTTTTTAAAAAATAAAAATATAAAAATAAAAAT
23733891 ATTTTT
1 ATTTTT
23733897 ATTACACATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
33 1 0.03
34 26 0.72
35 9 0.25
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (34 bp):
ATTTTTTAAAAAATAAAAATATAAAAATAAAAAT
Found at i:23741132 original size:56 final size:55
Alignment explanation
Indices: 23741032--23741144 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 55
23741022 GATGGTAGAC
* * *
23741032 AAACCAAAATTATCTAAAATATTTTGCTACCATGACCAATGCTGGTTAAAGGAGA
1 AAACCAAAATTATCTAAAAAATGTTGCTACCATGACCAACGCTGGTTAAAGGAGA
*
23741087 AAACCAAAGTTATCTAAAAAAATGTTGCTACCATGACCAACGCTGGTTAAAGGAGA
1 AAACCAAAATTATCT-AAAAAATGTTGCTACCATGACCAACGCTGGTTAAAGGAGA
23741143 AA
1 AA
23741145 GGATGCAGCA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 14 0.26
56 39 0.74
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (55 bp):
AAACCAAAATTATCTAAAAAATGTTGCTACCATGACCAACGCTGGTTAAAGGAGA
Found at i:23746130 original size:17 final size:17
Alignment explanation
Indices: 23746086--23746139 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
23746076 ACTTTTAGTG
23746086 AAATAT-AATTAAATTT
1 AAATATCAATTAAATTT
23746102 AATTATTATCAATTAAATTT
1 AA--A-TATCAATTAAATTT
*
23746122 AAATATCAATAAAATTT
1 AAATATCAATTAAATTT
23746139 A
1 A
23746140 TTTGATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 2 0.06
17 14 0.42
18 2 0.06
19 3 0.09
20 12 0.36
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATATCAATTAAATTT
Found at i:23747593 original size:21 final size:21
Alignment explanation
Indices: 23747551--23747595 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
23747541 TTGCATTTAA
* *
23747551 AATTATTGAAATTTAAATTTT
1 AATTATTGAAAATTAAAGTTT
23747572 AATTATT-AAAATTAAGAGTTT
1 AATTATTGAAAATTAA-AGTTT
23747593 AAT
1 AAT
23747596 ATTTTAACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (21 bp):
AATTATTGAAAATTAAAGTTT
Found at i:23752316 original size:2 final size:2
Alignment explanation
Indices: 23752309--23752349 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
23752299 TGCATCATAA
23752309 AT AT AT AT AT AT AT AT A- AT AT GAT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
23752350 GACCCATCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.06
2 32 0.89
3 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:23752336 original size:20 final size:20
Alignment explanation
Indices: 23752311--23752351 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
23752301 CATCATAAAT
23752311 ATATATATATATATAATATG
1 ATATATATATATATAATATG
23752331 ATATATATATATATAATATG
1 ATATATATATATATAATATG
23752351 A
1 A
23752352 CCCATCACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
ATATATATATATATAATATG
Found at i:23755720 original size:12 final size:12
Alignment explanation
Indices: 23755705--23755741 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
23755695 AAATTATTTG
23755705 AAATTAATTAAA
1 AAATTAATTAAA
*
23755717 AAATTAA-AAAA
1 AAATTAATTAAA
23755728 AAATTAATTAAA
1 AAATTAATTAAA
23755740 AA
1 AA
23755742 TATGAGGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATTAATTAAA
Found at i:23786237 original size:110 final size:110
Alignment explanation
Indices: 23786098--23786436 Score: 642
Period size: 110 Copynumber: 3.1 Consensus size: 110
23786088 GTCTTGGCCC
* *
23786098 CATGAGGACACAACACCTCGTTTGCAGCAGTTGGCAATCTGTTGCTTGTACGGGACTTCAACAGT
1 CATGAGGACACAACACCTCCTTTGCAGCAGTTGGCAATCTGTTGCTTGTACGGGACTCCAACAGT
23786163 TTGGAGGAGCCGGAGCAGCTCTGCGTCATTCTTCAGCAAGGCCGT
66 TTGGAGGAGCCGGAGCAGCTCTGCGTCATTCTTCAGCAAGGCCGT
23786208 CATGAGGACACAACACCTCCTTTGCAGCAGTTGGCAATCTGTTGCTTGTACGGGACTCCAACAGT
1 CATGAGGACACAACACCTCCTTTGCAGCAGTTGGCAATCTGTTGCTTGTACGGGACTCCAACAGT
23786273 TTGGAGGAGCCGGAGCAGCTCTGCGTCATTCTTCAGCAAGGCCGT
66 TTGGAGGAGCCGGAGCAGCTCTGCGTCATTCTTCAGCAAGGCCGT
23786318 CATGAGGACACAACACCTCCTTTGCAGCAGTTGGCAATCTGTTGCTTGTACGGGACTCCAACAGT
1 CATGAGGACACAACACCTCCTTTGCAGCAGTTGGCAATCTGTTGCTTGTACGGGACTCCAACAGT
*
23786383 TTGGAGGAGCCAGAGCAGCTCTGCGTCATTCTTCAGCAAGGCCGT
66 TTGGAGGAGCCGGAGCAGCTCTGCGTCATTCTTCAGCAAGGCCGT
23786428 CATTGAGGA
1 CA-TGAGGA
23786437 ATTATTGTAC
Statistics
Matches: 225, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
110 219 0.97
111 6 0.03
ACGTcount: A:0.22, C:0.26, G:0.27, T:0.24
Consensus pattern (110 bp):
CATGAGGACACAACACCTCCTTTGCAGCAGTTGGCAATCTGTTGCTTGTACGGGACTCCAACAGT
TTGGAGGAGCCGGAGCAGCTCTGCGTCATTCTTCAGCAAGGCCGT
Found at i:23788340 original size:27 final size:27
Alignment explanation
Indices: 23788310--23788369 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
23788300 GGGTTTGTTG
23788310 TTTTTTAATGTTT-TCAA-TTGATAGATA
1 TTTTTT-ATGTTTGTCAATTTGAT-GATA
* *
23788337 TTTTTTATTTTTGTCAATTTGATGATT
1 TTTTTTATGTTTGTCAATTTGATGATA
23788364 TTTTTT
1 TTTTTT
23788370 TATTTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 5 0.17
27 19 0.66
28 5 0.17
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.65
Consensus pattern (27 bp):
TTTTTTATGTTTGTCAATTTGATGATA
Found at i:23788358 original size:28 final size:26
Alignment explanation
Indices: 23788310--23788374 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 26
23788300 GGGTTTGTTG
*
23788310 TTTTTTAATGTTTTCAATTGATAGA-TA
1 TTTTTT-ATTTTTTCAATTGAT-GATTA
*
23788337 TTTTTTATTTTTGTCAATTTGATGATTT
1 TTTTTTATTTTT-TCAA-TTGATGATTA
23788365 TTTTTTATTT
1 TTTTTTATTT
23788375 ATTTTAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 5 0.15
27 12 0.36
28 16 0.48
ACGTcount: A:0.22, C:0.03, G:0.09, T:0.66
Consensus pattern (26 bp):
TTTTTTATTTTTTCAATTGATGATTA
Found at i:23792582 original size:6 final size:6
Alignment explanation
Indices: 23792571--23792603 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
23792561 ATCATTGAAA
23792571 TTTATT TTTATTT TTTATT TTTATT TTTATT TT
1 TTTATT TTTA-TT TTTATT TTTATT TTTATT TT
23792604 CAAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:23792611 original size:19 final size:19
Alignment explanation
Indices: 23792571--23792611 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
23792561 ATCATTGAAA
** *
23792571 TTTATTTTTATTTTTTATT
1 TTTATTTTTATTTTCAAAT
23792590 TTTATTTTTATTTTCAAAT
1 TTTATTTTTATTTTCAAAT
23792609 TTT
1 TTT
23792612 TTACCATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTATTTTTATTTTCAAAT
Found at i:23793035 original size:23 final size:23
Alignment explanation
Indices: 23793009--23793057 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
23792999 TTTTATCCTG
23793009 TATTTTTTT-TTCTTTTCTTCTTT
1 TATTTTTTTCTTCTTTTCTT-TTT
*
23793032 TATTTTTTTCTTTTTTTCTTTTT
1 TATTTTTTTCTTCTTTTCTTTTT
23793055 TAT
1 TAT
23793058 ATATCTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (23 bp):
TATTTTTTTCTTCTTTTCTTTTT
Found at i:23793039 original size:21 final size:21
Alignment explanation
Indices: 23793013--23793053 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
23793003 ATCCTGTATT
23793013 TTTTTTTCTTTTCTTCTTTTA
1 TTTTTTTCTTTTCTTCTTTTA
*
23793034 TTTTTTTCTTTTTTTCTTTT
1 TTTTTTTCTTTTCTTCTTTT
23793054 TTATATATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTTCTTTTCTTCTTTTA
Found at i:23793120 original size:3 final size:3
Alignment explanation
Indices: 23793107--23793179 Score: 112
Period size: 3 Copynumber: 23.7 Consensus size: 3
23793097 ATGTATATAG
23793107 TTA TATA TTA TTA -TA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
23793153 TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA T-TA TT
23793180 TTTGGGTTTA
Statistics
Matches: 66, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.03
3 55 0.83
4 9 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:23795742 original size:59 final size:58
Alignment explanation
Indices: 23795652--23796052 Score: 506
Period size: 59 Copynumber: 6.8 Consensus size: 58
23795642 AAACATAAAA
* * *
23795652 TAAAATTTCCAAAAAAAATGTTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAT
1 TAAAATTTCCAAAAAATAT-TTTT-GGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
* ** *
23795712 TGAAAGTTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 T-AAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
* *
23795771 T-AAATTTTCAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
1 TAAAATTTCCAAAAAAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
* ** *
23795830 TAAAGTTT-CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 TAAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
* * *
23795887 TAAAATTTCAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-C-TAA-
1 TAAAATTTC-CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
* * *
23795943 TAAATTTTCAAAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
1 TAAAATTTC-CAAAAAAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
*
23796004 TAAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TAAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
23796053 TCCTGAACAA
Statistics
Matches: 301, Mismatches: 29, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
56 16 0.05
57 59 0.20
58 64 0.21
59 118 0.39
60 20 0.07
61 24 0.08
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
TAAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
Found at i:23795877 original size:116 final size:115
Alignment explanation
Indices: 23795648--23796052 Score: 591
Period size: 116 Copynumber: 3.5 Consensus size: 115
23795638 AAAAAAACAT
* *
23795648 AAAATAAAATTTCCAAAAAAAATGTTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATT
1 AAAATAAAATTTCAAAAAAAAAT-TTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT
23795713 GAAAGTTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
64 -AAAGTTT-CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
*
23795767 AAAATAAATTTTCAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTA
1 AAAATAAAATTTCAAAAAA-AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTA
23795832 AAGTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
65 AAGTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
23795883 AAAATAAAATTTCAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-C-TAA-TA
1 AAAATAAAATTTCAAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTA
* * **
23795945 AATTTTCAAAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
65 AAGTTTC--AAAAAAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
* * *
23796000 AAATTAAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAATAAAATTTCAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
23796053 TCCTGAACAA
Statistics
Matches: 268, Mismatches: 12, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
113 8 0.03
114 2 0.01
115 10 0.04
116 128 0.48
117 60 0.22
118 35 0.13
119 21 0.08
120 4 0.01
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (115 bp):
AAAATAAAATTTCAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAA
AGTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
Found at i:23796020 original size:175 final size:174
Alignment explanation
Indices: 23795652--23796052 Score: 612
Period size: 175 Copynumber: 2.3 Consensus size: 174
23795642 AAACATAAAA
* * * *
23795652 TAAAATTTCCAAAAAAA-ATGTTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTGAA
1 TAAAATTT-CAAAAAAATAT-TTTT-GGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATGAA
* * * *
23795716 AGTTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
63 AATTTCAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCT--AAATAAATTTTCA
23795781 AAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
126 AAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
* *
23795830 TAAAGTTTC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAAT
1 TAAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATGAAAAT
23795893 TTCAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCT-AATAAATTTTCAAAAA
66 TTC-AAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTAAATAAATTTTC--AAA
23795957 AAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
128 AAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
23796004 TAAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TAAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
23796053 TCCTGAACAA
Statistics
Matches: 207, Mismatches: 11, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
172 11 0.05
174 65 0.31
175 111 0.54
176 10 0.05
177 3 0.01
178 7 0.03
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (174 bp):
TAAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATGAAAAT
TTCAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTAAATAAATTTTCAAAAAA
TAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT
Found at i:23796759 original size:27 final size:27
Alignment explanation
Indices: 23796729--23796792 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
23796719 AATTTGTGAC
23796729 AATTTTAAAAAAAATTT-CTCATCTAAA
1 AATTTTAAAAAAAATTTAC-CATCTAAA
* *
23796756 AATTTT-ATAAAAATTTACCATTTAAA
1 AATTTTAAAAAAAATTTACCATCTAAA
*
23796782 ATTTTTAAAAA
1 AATTTTAAAAA
23796793 TTATATCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.41
Consensus pattern (27 bp):
AATTTTAAAAAAAATTTACCATCTAAA
Found at i:23808403 original size:3 final size:3
Alignment explanation
Indices: 23808395--23808428 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
23808385 TAAGTTTAAC
23808395 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23808429 TCTTTTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23808940 original size:13 final size:15
Alignment explanation
Indices: 23808901--23808942 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
23808891 GTTTGTTAAA
*
23808901 ATTATTT-TGATTAT
1 ATTATTTATAATTAT
23808915 ATTATTTATAATTAT
1 ATTATTTATAATTAT
23808930 -TTATTTA-AATTAT
1 ATTATTTATAATTAT
23808943 CAAATACGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 6 0.23
14 14 0.54
15 6 0.23
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
ATTATTTATAATTAT
Found at i:23809515 original size:27 final size:27
Alignment explanation
Indices: 23809476--23809559 Score: 91
Period size: 27 Copynumber: 3.0 Consensus size: 27
23809466 TAGTATGTTT
23809476 TTTAAATTATATAAATATTTAATGTAATA
1 TTTAAA-T-TATAAATATTTAATGTAATA
*
23809505 TTTAAATTATAAA-ATTTTAATGTATTA
1 TTTAAATTATAAATA-TTTAATGTAATA
* *
23809532 TTTAAATTATGAACTTTTTAAT-TAATA
1 TTTAAATTAT-AAATATTTAATGTAATA
23809559 T
1 T
23809560 AATACTTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
26 1 0.02
27 32 0.67
28 9 0.19
29 6 0.12
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (27 bp):
TTTAAATTATAAATATTTAATGTAATA
Found at i:23810001 original size:25 final size:24
Alignment explanation
Indices: 23809959--23810005 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
23809949 TAATGATTAT
*
23809959 TTATTTATTTATTATTAGCTTTTTA
1 TTATTGATTTATTATTAG-TTTTTA
23809984 TTATTGATTTATCT-TTAGTTTT
1 TTATTGATTTAT-TATTAGTTTT
23810006 ACATTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 15 0.75
26 1 0.05
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.68
Consensus pattern (24 bp):
TTATTGATTTATTATTAGTTTTTA
Found at i:23811200 original size:60 final size:61
Alignment explanation
Indices: 23811133--23811426 Score: 211
Period size: 60 Copynumber: 4.9 Consensus size: 61
23811123 TTTTGTACAA
* *
23811133 AAAAATTGATACTTTCAAC-TTTTCTTTAAAACAT-TTTTCTTGACAAAA-TT-TTTTTTAAAG
1 AAAAATTGATACTTTCAACTTTTTC-CTAAAACATATTTT-TT-AAAAAATTTATTTTTTAAAG
* ** *
23811193 AAAAATTGGTACTTTCAACTTTTTCCTAAAATGTATTTTTTAAAAAATTTTATTTTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCCTAAAACATATTTTTTAAAAAA-TTTATTTTTTAAAG
* ** *
23811255 AAAAATTGATACTTTCAACTTTTTTC-AAAA-ATATTTTTTTAGAACACTTTTATTTTCT--AG
1 AAAAATTGATACTTTCAACTTTTTCCTAAAACATA-TTTTTTA-AA-AAATTTATTTTTTAAAG
* * * * * * * *
23811315 AAAAAATGATATTTTCAAC--TTTCCAAAAAAAAAATCTTTTAGAAATTTTA-TTTTT-AAG
1 AAAAATTGATACTTTCAACTTTTTCC-TAAAACATATTTTTTAAAAAATTTATTTTTTAAAG
* * * *
23811373 AAAAATTTATACTTTCAAC-TTTCCCTCAAAA-ATATCTTTTAAAAATTTTATTTT
1 AAAAATTGATACTTTCAACTTTTTCCT-AAAACATATTTTTTAAAAAATTTATTTT
23811427 AGAAATTTTA
Statistics
Matches: 192, Mismatches: 27, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
57 4 0.02
58 45 0.23
59 17 0.09
60 57 0.30
61 24 0.12
62 44 0.23
63 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.46
Consensus pattern (61 bp):
AAAAATTGATACTTTCAACTTTTTCCTAAAACATATTTTTTAAAAAATTTATTTTTTAAAG
Found at i:23811256 original size:62 final size:60
Alignment explanation
Indices: 23811182--23811426 Score: 225
Period size: 58 Copynumber: 4.1 Consensus size: 60
23811172 TTGACAAAAT
* * * *
23811182 TTTTTTTAAAGAAAAATTGGTACTTTCAACTTTTTCCTAAAATGTATTTTTTAAAAAATTTTA
1 TTTTTTT-AAGAAAAATTGATACTTTCAAC-TTTTCCAAAAATATATCTTTT-AAAAATTTTA
* * *
23811245 TTTTTTTAAGAAAAATTGATACTTTCAACTTTTTTCAAAAATAT-TTTTTTAGAACACTTTTA
1 TTTTTTTAAGAAAAATTGATACTTTCAAC-TTTTCCAAAAATATATCTTTTA-AA-AATTTTA
* * * * * *
23811307 -TTTTCT-AGAAAAAATGATATTTTCAAC-TTTCCAAAAAAAAAATCTTTTAGAAATTTTA
1 TTTTTTTAAGAAAAATTGATACTTTCAACTTTTCC-AAAAATATATCTTTTAAAAATTTTA
* * *
23811365 --TTTTTAAGAAAAATTTATACTTTCAACTTTCCCTCAAAA-ATATCTTTTAAAAATTTTA
1 TTTTTTTAAGAAAAATTGATACTTTCAACTTTTCC-AAAAATATATCTTTTAAAAATTTTA
23811423 TTTT
1 TTTT
23811427 AGAAATTTTA
Statistics
Matches: 151, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
57 4 0.03
58 45 0.30
59 15 0.10
60 28 0.19
61 13 0.09
62 39 0.26
63 7 0.05
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.47
Consensus pattern (60 bp):
TTTTTTTAAGAAAAATTGATACTTTCAACTTTTCCAAAAATATATCTTTTAAAAATTTTA
Found at i:23811291 original size:122 final size:118
Alignment explanation
Indices: 23811133--23811427 Score: 289
Period size: 122 Copynumber: 2.5 Consensus size: 118
23811123 TTTTGTACAA
* *
23811133 AAAAATTGATACTTTCAACTTTTCTTTAAAACAT-TTTTCTT-GACAAAATTTT-TTTTAAAGAA
1 AAAAATTGATACTTTCAACTTTT-TTCAAAA-ATATTTTTTTAGA-AAAATTTTATTTTAAAGAA
* * * *** *
23811195 AAATTGGTACTTTCAACTTTTTCC-TAAAATGTATTTTTTAAAAAATTTTATTTTTTTAAG
63 AAAATGATACTTTCAAC--TTTCCAAAAAAAAAATCTTTT-AAAAATTTTA--TTTTTAAG
* * **
23811255 AAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTAGAACACTTTTATTTTCTAGAAAAA
1 AAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTAGAAAAATTTTATTTTAAAGAAAAA
* *
23811320 ATGATATTTTCAACTTTCCAAAAAAAAAATCTTTTAGAAATTTTATTTTTAAG
66 ATGATACTTTCAACTTTCCAAAAAAAAAATCTTTTAAAAATTTTATTTTTAAG
* ** *
23811373 AAAAATTTATACTTTCAACTTTCCCTCAAAAATA-TCTTTT--AAAAATTTTATTTTA
1 AAAAATTGATACTTTCAACTTT-TTTCAAAAATATTTTTTTAGAAAAATTTTATTTTA
23811428 GAAATTTTAT
Statistics
Matches: 146, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
116 12 0.08
118 34 0.23
119 9 0.06
120 16 0.11
121 28 0.19
122 47 0.32
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (118 bp):
AAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTAGAAAAATTTTATTTTAAAGAAAAA
ATGATACTTTCAACTTTCCAAAAAAAAAATCTTTTAAAAATTTTATTTTTAAG
Found at i:23811426 original size:14 final size:14
Alignment explanation
Indices: 23811409--23811442 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
23811399 CAAAAATATC
23811409 TTTTAAAAATTTTA
1 TTTTAAAAATTTTA
*
23811423 TTTTAGAAATTTTA
1 TTTTAAAAATTTTA
23811437 TTTTAA
1 TTTTAA
23811443 GGAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
TTTTAAAAATTTTA
Found at i:23811458 original size:71 final size:73
Alignment explanation
Indices: 23811351--23811500 Score: 223
Period size: 71 Copynumber: 2.1 Consensus size: 73
23811341 AAAAAAAATC
*
23811351 TTTTAGAAATTTTATTTTTAAGAAAAATTTATACTTTCAACTTTCCCTCAAAAATA-TCTTTTAA
1 TTTTAGAAATTTTATTTTTAAGAAAAATTAATACTTTCAACTTTCCCTCAAAAATATTCTTTTAA
23811415 AAATTTTA
66 AAATTTTA
* ** * *
23811423 TTTTAGAAATTTTA-TTTTAAGGAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTTGA
1 TTTTAGAAATTTTATTTTTAAGAAAAATTAATACTTTCAACTTTCCCTCAAAAATATTCTTTTAA
*
23811487 GAATTTTA
66 AAATTTTA
23811495 TTTTAG
1 TTTTAG
23811501 GAAAATCATT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
71 37 0.53
72 33 0.47
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (73 bp):
TTTTAGAAATTTTATTTTTAAGAAAAATTAATACTTTCAACTTTCCCTCAAAAATATTCTTTTAA
AAATTTTA
Found at i:23811619 original size:13 final size:12
Alignment explanation
Indices: 23811594--23811634 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
23811584 CAACAACAAT
23811594 AATAATAATAAAA
1 AATAATAA-AAAA
23811607 AATAAATAAAAAA
1 AAT-AATAAAAAA
*
23811620 AATATTAAAAAA
1 AATAATAAAAAA
23811632 AAT
1 AAT
23811635 CTTGAAACGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.42
13 10 0.38
14 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AATAATAAAAAA
Found at i:23812681 original size:44 final size:44
Alignment explanation
Indices: 23812580--23812890 Score: 274
Period size: 45 Copynumber: 7.1 Consensus size: 44
23812570 AATTTTGATC
* * * ** *
23812580 AAAGCTCCTCTAAGT-AGAGGCTCAACAATTTTGAGAATCATAAAC
1 AAAGCTCCTCTAA-TCAGAAGCTCAACGACTTTGA-AAAAATAAAA
* *
23812625 AAAGCTCATCTAATCAGAAGCTCAATGACTTTGAAAAAATAAAA
1 AAAGCTCCTCTAATCAGAAGCTCAACGACTTTGAAAAAATAAAA
* *
23812669 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAAAA
1 AAAGCTCCTCTAATCAGAAGCTCAACGACTTTGAAAAAAT-AAAA
* * * *
23812714 AAAGCTCTTATAATCAGAAACTCAACGATTTTGAAAAAAT-AAA
1 AAAGCTCCTCTAATCAGAAGCTCAACGACTTTGAAAAAATAAAA
* * * *
23812757 AAAGTTCCTCTAATCAGAAGCTCAACTACTTTGGAGAAAATAAAC
1 AAAGCTCCTCTAATCAGAAGCTCAACGACTTT-GAAAAAATAAAA
* * * * * *
23812802 ACAGCTCATCTAAAT-AGAGGCTTAATGACTTTTG-AAAAAT--AG
1 AAAGCTCCTCT-AATCAGAAGCTCAACGAC-TTTGAAAAAATAAAA
** * *
23812844 ATTGCTCCTCTAAACAGAAGCTCAACGACTTTGAAAAAAAAAAA
1 AAAGCTCCTCTAATCAGAAGCTCAACGACTTTGAAAAAATAAAA
23812888 AAA
1 AAA
23812891 TTAAGGAATA
Statistics
Matches: 210, Mismatches: 46, Indels: 21
0.76 0.17 0.08
Matches are distributed among these distances:
41 6 0.03
42 25 0.12
43 29 0.14
44 58 0.28
45 86 0.41
46 6 0.03
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (44 bp):
AAAGCTCCTCTAATCAGAAGCTCAACGACTTTGAAAAAATAAAA
Found at i:23812731 original size:89 final size:87
Alignment explanation
Indices: 23812580--23812890 Score: 299
Period size: 89 Copynumber: 3.5 Consensus size: 87
23812570 AATTTTGATC
* * * ** * * *
23812580 AAAGCTCCTCTAAGT-AGAGGCTCAACAATTTTGAGAATCATAAACAAAGCTCATCTAATCAGAA
1 AAAGCTCCTCTAA-TCAGAAGCTCAACGACTTTG-GAAAAATAAAAAAAGCTCTTATAATCAGAA
23812644 GCTCAATGACTTTGAAAAAATAAAA
64 GCTCAATGACTTTGAAAAAAT-AAA
* *
23812669 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAAAAAAAGCTCTTATAATCAGAAA
1 AAAGCTCCTCTAATCAGAAGCTCAACGACTTTGGAAAAAT-AAAAAAAGCTCTTATAATCAGAAG
* *
23812734 CTCAACGATTTTGAAAAAATAAA
65 CTCAATGACTTTGAAAAAATAAA
* * * *
23812757 AAAGTTCCTCTAATCAGAAGCTCAACTACTTTGGAGAAAATAAACACAGCTCATCTA-AAT-AGA
1 AAAGCTCCTCTAATCAGAAGCTCAACGACTTTGGA-AAAATAAAAAAAGCTC-T-TATAATCAGA
* * *
23812820 GGCTTAATGACTTTTG-AAAAAT-AG
63 AGCTCAATGAC-TTTGAAAAAATAAA
** * * *
23812844 ATTGCTCCTCTAAACAGAAGCTCAACGACTTTGAAAAAAAAAAAAAA
1 AAAGCTCCTCTAATCAGAAGCTCAACGACTTTGGAAAAATAAAAAAA
23812891 TTAAGGAATA
Statistics
Matches: 186, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
86 9 0.05
87 30 0.16
88 65 0.35
89 80 0.43
90 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (87 bp):
AAAGCTCCTCTAATCAGAAGCTCAACGACTTTGGAAAAATAAAAAAAGCTCTTATAATCAGAAGC
TCAATGACTTTGAAAAAATAAA
Found at i:23813719 original size:20 final size:20
Alignment explanation
Indices: 23813675--23813720 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
23813665 AACTTCATTT
*
23813675 TTTTTTCATTTTTTTCCTAG
1 TTTTTTCATTTTTTTCCTAA
* **
23813695 CTTTTTCATTTTTTTTTTAA
1 TTTTTTCATTTTTTTCCTAA
23813715 TTTTTT
1 TTTTTT
23813721 TTAATTTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTTCATTTTTTTCCTAA
Found at i:23813735 original size:11 final size:10
Alignment explanation
Indices: 23813705--23813735 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
23813695 CTTTTTCATT
23813705 TTTTTTTTAA
1 TTTTTTTTAA
23813715 TTTTTTTTAA
1 TTTTTTTTAA
23813725 TTTTTTATTAA
1 TTTTTT-TTAA
23813736 CAAACGTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:23815171 original size:26 final size:25
Alignment explanation
Indices: 23815141--23815190 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
23815131 ATGAAATAAT
23815141 AATTCTATAT-CTTTTATTAATTATTA
1 AATTCTATATACTTTT-TT-ATTATTA
*
23815167 AATTCTATTTACTTTTTTATTATT
1 AATTCTATATACTTTTTTATTATT
23815191 TTCCTTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 11 0.50
27 5 0.23
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (25 bp):
AATTCTATATACTTTTTTATTATTA
Found at i:23817930 original size:24 final size:22
Alignment explanation
Indices: 23817887--23817930 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
23817877 GCAATTCTGA
*
23817887 GATTTTTTTTCTTTGGGTTTTT
1 GATTTTTTTTCTTTGAGTTTTT
*
23817909 GATTTTATTTTGTTCTGAGTTT
1 GATTTT-TTTTCTT-TGAGTTT
23817931 GATTTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 6 0.33
24 6 0.33
ACGTcount: A:0.09, C:0.05, G:0.18, T:0.68
Consensus pattern (22 bp):
GATTTTTTTTCTTTGAGTTTTT
Found at i:23819513 original size:30 final size:29
Alignment explanation
Indices: 23819447--23819515 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
23819437 TGAAATAAGT
* * *
23819447 ATTTATTTGAATACAACTTGAATATTAAA
1 ATTTATTTGAATACAAATTGAAGATAAAA
*
23819476 TTTTATTT-ATATACAAATTGAAAGATAAAA
1 ATTTATTTGA-ATACAAATTG-AAGATAAAA
23819506 ATTTATTTGA
1 ATTTATTTGA
23819516 GTATAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 1 0.03
29 16 0.50
30 14 0.44
31 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (29 bp):
ATTTATTTGAATACAAATTGAAGATAAAA
Found at i:23819547 original size:21 final size:21
Alignment explanation
Indices: 23819523--23819565 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23819513 TGAGTATAAT
*
23819523 AAAAATATAAAAACTTATTTA
1 AAAAATATAAAAACTCATTTA
*
23819544 AAAAATTTAAAAACTCATTTA
1 AAAAATATAAAAACTCATTTA
23819565 A
1 A
23819566 TATTTTAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATATAAAAACTCATTTA
Found at i:23821509 original size:3 final size:3
Alignment explanation
Indices: 23821501--23821532 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
23821491 TAAGTTTAAC
23821501 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
23821533 TCTTTTGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23822044 original size:13 final size:15
Alignment explanation
Indices: 23822005--23822046 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
23821995 GTTTGTTAAA
*
23822005 ATTATTT-TGATTAT
1 ATTATTTATAATTAT
23822019 ATTATTTATAATTAT
1 ATTATTTATAATTAT
23822034 -TTATTTA-AATTAT
1 ATTATTTATAATTAT
23822047 CAAATACGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 6 0.23
14 14 0.54
15 6 0.23
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
ATTATTTATAATTAT
Found at i:23822608 original size:29 final size:27
Alignment explanation
Indices: 23822576--23822653 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 27
23822566 TTAATGTTAG
23822576 TAATGT-TTTTTAAATTATATTAAAATATT
1 TAATGTATTTTTAAATTATA--AAAAT-TT
*
23822605 TAATGTAATATTTAAATTATAAAAATTT
1 TAATGT-ATTTTTAAATTATAAAAATTT
23822633 TAAATGTATTATTTAAATTAT
1 T-AATGTATT-TTTAAATTAT
23822654 GAACTTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 5 0.12
29 26 0.60
31 12 0.28
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
TAATGTATTTTTAAATTATAAAAATTT
Found at i:23822664 original size:29 final size:29
Alignment explanation
Indices: 23822584--23822653 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 29
23822574 AGTAATGTTT
23822584 TTTAAATTATATTAAAATATTT-AATGTAATA
1 TTTAAATTATA--AAAAT-TTTAAATGTAATA
*
23822615 TTTAAATTATAAAAATTTTAAATGTATTA
1 TTTAAATTATAAAAATTTTAAATGTAATA
23822644 TTTAAATTAT
1 TTTAAATTAT
23822654 GAACTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 3 0.08
29 23 0.62
31 11 0.30
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (29 bp):
TTTAAATTATAAAAATTTTAAATGTAATA
Found at i:23823116 original size:25 final size:24
Alignment explanation
Indices: 23823074--23823120 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
23823064 TAATGATTAT
*
23823074 TTATTTATTTATTATTAGCTTTTTA
1 TTATTGATTTATTATTAG-TTTTTA
23823099 TTATTGATTTATCT-TTAGTTTT
1 TTATTGATTTAT-TATTAGTTTT
23823121 ACATTATCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 15 0.75
26 1 0.05
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.68
Consensus pattern (24 bp):
TTATTGATTTATTATTAGTTTTTA
Found at i:23824346 original size:60 final size:61
Alignment explanation
Indices: 23824273--23824566 Score: 211
Period size: 60 Copynumber: 4.9 Consensus size: 61
23824263 TTTGTACAAA
* *
23824273 AAAAATTGATACTTTCAAC-TTTTCTTTAAAACAT-TTTTCTTGACAAAA-TT-TTTTTTAAAG
1 AAAAATTGATACTTTCAACTTTTTC-CTAAAACATATTTT-TT-AAAAAATTTATTTTTTAAAG
* ** *
23824333 AAAAATTGGTACTTTCAACTTTTTCCTAAAATGTATTTTTTAAAAAATTTTATTTTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCCTAAAACATATTTTTTAAAAAA-TTTATTTTTTAAAG
* ** *
23824395 AAAAATTGATACTTTCAACTTTTTTC-AAAA-ATATTTTTTTAGAACACTTTTATTTTCT--AG
1 AAAAATTGATACTTTCAACTTTTTCCTAAAACATA-TTTTTTA-AA-AAATTTATTTTTTAAAG
* * * * * * * *
23824455 AAAAAATGATATTTTCAAC-TTTCCCTAAAAAAAAATCTTTTAGAAATTTTA-TTTTT-AAG
1 AAAAATTGATACTTTCAACTTTTTCCT-AAAACATATTTTTTAAAAAATTTATTTTTTAAAG
* * * *
23824514 -AAAATTTATACTTTCAAC-TTTCCCTCAAAA-ATATCTTTTAAAAATTTTATTTT
1 AAAAATTGATACTTTCAACTTTTTCCT-AAAACATATTTTTTAAAAAATTTATTTT
23824567 AGAAATTTTA
Statistics
Matches: 194, Mismatches: 27, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
57 17 0.09
58 33 0.17
59 17 0.09
60 48 0.25
61 32 0.16
62 46 0.24
63 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (61 bp):
AAAAATTGATACTTTCAACTTTTTCCTAAAACATATTTTTTAAAAAATTTATTTTTTAAAG
Found at i:23824396 original size:62 final size:61
Alignment explanation
Indices: 23824322--23824566 Score: 229
Period size: 62 Copynumber: 4.1 Consensus size: 61
23824312 TTGACAAAAT
* * * *
23824322 TTTTTTTAAAGAAAAATTGGTACTTTCAACTTTTTCCT-AAAATGTATTTTTTAAAAAATTTTA
1 TTTTTTT-AAGAAAAATTGATACTTTCAAC-TTTCCCTAAAAATATATCTTTT-AAAAATTTTA
** * *
23824385 TTTTTTTAAGAAAAATTGATACTTTCAACTTT-TTTCAAAAATAT-TTTTTTAGAACACTTTTA
1 TTTTTTTAAGAAAAATTGATACTTTCAACTTTCCCT-AAAAATATATCTTTTA-AA-AATTTTA
* * * * * *
23824447 -TTTTCT-AGAAAAAATGATATTTTCAACTTTCCCTAAAAAAAAATCTTTTAGAAATTTTA
1 TTTTTTTAAGAAAAATTGATACTTTCAACTTTCCCTAAAAATATATCTTTTAAAAATTTTA
* *
23824506 --TTTTTAAG-AAAATTTATACTTTCAACTTTCCCTCAAAA-ATATCTTTTAAAAATTTTA
1 TTTTTTTAAGAAAAATTGATACTTTCAACTTTCCCTAAAAATATATCTTTTAAAAATTTTA
23824563 TTTT
1 TTTT
23824567 AGAAATTTTA
Statistics
Matches: 151, Mismatches: 22, Indels: 22
0.77 0.11 0.11
Matches are distributed among these distances:
57 17 0.11
58 30 0.20
59 10 0.07
60 31 0.21
61 23 0.15
62 33 0.22
63 7 0.05
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (61 bp):
TTTTTTTAAGAAAAATTGATACTTTCAACTTTCCCTAAAAATATATCTTTTAAAAATTTTA
Found at i:23824431 original size:122 final size:119
Alignment explanation
Indices: 23824273--23824567 Score: 291
Period size: 122 Copynumber: 2.5 Consensus size: 119
23824263 TTTGTACAAA
* *
23824273 AAAAATTGATACTTTCAACTTTTCTTTAAAACAT-TTTTCTT-GACAAAATTTT-TTTTAAAGAA
1 AAAAATTGATACTTTCAACTTTT-TTCAAAA-ATATTTTTTTAGA-AAAATTTTATTTTAAAGAA
* * * *** *
23824335 AAATTGGTACTTTCAACTTTTTCCT-AAAATGTATTTTTTAAAAAATTTTATTTTTTTAAG
63 AAAATGATACTTTCAAC-TTTCCCTAAAAAAAAATCTTTT-AAAAATTTTA--TTTTTAAG
* * **
23824395 AAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTAGAACACTTTTATTTTCTAGAAAAA
1 AAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTAGAAAAATTTTATTTTAAAGAAAAA
* *
23824460 ATGATATTTTCAACTTTCCCTAAAAAAAAATCTTTTAGAAATTTTATTTTTAAG
66 ATGATACTTTCAACTTTCCCTAAAAAAAAATCTTTTAAAAATTTTATTTTTAAG
* ** *
23824514 -AAAATTTATACTTTCAACTTTCCCTCAAAAATA-TCTTTT--AAAAATTTTATTTTA
1 AAAAATTGATACTTTCAACTTT-TTTCAAAAATATTTTTTTAGAAAAATTTTATTTTA
23824568 GAAATTTTAT
Statistics
Matches: 146, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
116 12 0.08
118 25 0.17
119 17 0.12
120 2 0.01
121 33 0.23
122 57 0.39
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.46
Consensus pattern (119 bp):
AAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTAGAAAAATTTTATTTTAAAGAAAAA
ATGATACTTTCAACTTTCCCTAAAAAAAAATCTTTTAAAAATTTTATTTTTAAG
Found at i:23824544 original size:58 final size:59
Alignment explanation
Indices: 23824318--23824566 Score: 222
Period size: 60 Copynumber: 4.2 Consensus size: 59
23824308 TTTCTTGACA
* * * *** * *
23824318 AAATTTT-TTTTAAAGAAAAATTGGTACTTTCAACTTTTTCCT-AAAATGTATTTTTTAAA
1 AAATTTTATTTTTAAGAAAAATTGATACTTTCAAC-TTTCCCTCAAAAAAAATCTTTT-AG
** * * *
23824377 AAATTTTATTTTTTTAAGAAAAATTGATACTTTCAACTTT-TTTCAAAAATATTTTTTTAG
1 AAATTTTA--TTTTTAAGAAAAATTGATACTTTCAACTTTCCCTCAAAAAAAATCTTTTAG
* * *
23824437 AACACTTTTATTTTCT-AGAAAAAATGATATTTTCAACTTTCCCTAAAAAAAAATCTTTTAG
1 AA-A-TTTTATTTT-TAAGAAAAATTGATACTTTCAACTTTCCCTCAAAAAAAATCTTTTAG
* * *
23824498 AAATTTTATTTTTAAG-AAAATTTATACTTTCAACTTTCCCTC-AAAAATATCTTTTAA
1 AAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCCCTCAAAAAAAATCTTTTAG
23824555 AAATTTTATTTT
1 AAATTTTATTTT
23824567 AGAAATTTTA
Statistics
Matches: 158, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
57 25 0.16
58 23 0.15
59 18 0.11
60 31 0.20
61 31 0.20
62 30 0.19
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.47
Consensus pattern (59 bp):
AAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCCCTCAAAAAAAATCTTTTAG
Found at i:23824566 original size:14 final size:14
Alignment explanation
Indices: 23824549--23824582 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
23824539 CAAAAATATC
23824549 TTTTAAAAATTTTA
1 TTTTAAAAATTTTA
*
23824563 TTTTAGAAATTTTA
1 TTTTAAAAATTTTA
23824577 TTTTAA
1 TTTTAA
23824583 GGAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
TTTTAAAAATTTTA
Found at i:23824567 original size:71 final size:72
Alignment explanation
Indices: 23824492--23824640 Score: 221
Period size: 71 Copynumber: 2.1 Consensus size: 72
23824482 AAAAAAAATC
*
23824492 TTTTAGAAATTTTATTTTTAA-GAAAATTTATACTTTCAACTTTCCCTCAAAAATA-TCTTTTAA
1 TTTTAGAAATTTTA-TTTTAAGGAAAATTAATACTTTCAACTTTCCCTCAAAAATATTCTTTTAA
23824555 AAATTTTA
65 AAATTTTA
** * * *
23824563 TTTTAGAAATTTTATTTTAAGGAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAG
1 TTTTAGAAATTTTATTTTAAGGAAAATTAATACTTTCAACTTTCCCTCAAAAATATTCTTTTAAA
23824628 AATTTTA
66 AATTTTA
23824635 TTTTAG
1 TTTTAG
23824641 GAAAATCATT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
70 6 0.09
71 45 0.64
72 19 0.27
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (72 bp):
TTTTAGAAATTTTATTTTAAGGAAAATTAATACTTTCAACTTTCCCTCAAAAATATTCTTTTAAA
AATTTTA
Found at i:23824696 original size:26 final size:26
Alignment explanation
Indices: 23824648--23824698 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
23824638 TAGGAAAATC
*
23824648 ATTAAAAAAAACTAAAATAAAATAAA
1 ATTAAAAAAAACTAAAACAAAATAAA
* * *
23824674 ATTAAAAAAAAGTAATACCAAATAA
1 ATTAAAAAAAACTAAAACAAAATAA
23824699 TTCTAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.20
Consensus pattern (26 bp):
ATTAAAAAAAACTAAAACAAAATAAA
Found at i:23824756 original size:21 final size:21
Alignment explanation
Indices: 23824710--23824757 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
23824700 TCTAATTTAG
*
23824710 AAATAATAATAACAACAACAA
1 AAATAATAATAACAACAAAAA
* *
23824731 CAATAATAATAATAA-AAAAA
1 AAATAATAATAACAACAAAAA
23824751 TAAATAA
1 -AAATAA
23824758 AAAAAATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAATAATAACAACAAAAA
Found at i:23824758 original size:12 final size:13
Alignment explanation
Indices: 23824739--23824775 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
23824729 AACAATAATA
23824739 ATAATAAAAAAAT
1 ATAATAAAAAAAT
23824752 A-AATAAAAAAA-
1 ATAATAAAAAAAT
*
23824763 ATATTAAAAAAAT
1 ATAATAAAAAAAT
23824776 CTTGAAACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 1 0.05
12 19 0.90
13 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:23825790 original size:45 final size:44
Alignment explanation
Indices: 23825721--23826027 Score: 261
Period size: 45 Copynumber: 7.0 Consensus size: 44
23825711 AAATTTTGAT
* **
23825721 CAAAGCTCATCTAAGT-A-AAGGCTCAACAACTTTGAGAATCATAAA
1 CAAAGCTCATCTAA-TCAGAA-GCTCAACGACTTTGA-AAAAATAAA
*
23825766 CAAAGCTCATCTAATCAGAAGCTCAATGACTTTGAAAAAATAAA
1 CAAAGCTCATCTAATCAGAAGCTCAACGACTTTGAAAAAATAAA
* * *
23825810 AAAAGCTCCTCTAATCAGAAGCTCAATGACTTTGAAAAAATAAAA
1 CAAAGCTCATCTAATCAGAAGCTCAACGACTTTGAAAAAAT-AAA
* * * * *
23825855 AAAAGCTCTTATAATCAGAAACTCAACGATTTTGAAAAAATAAA
1 CAAAGCTCATCTAATCAGAAGCTCAACGACTTTGAAAAAATAAA
** * * *
23825899 -AAAATTCCTCTAATCAGAAGCTCAACTACTTTGGAGAAAATAAA
1 CAAAGCTCATCTAATCAGAAGCTCAACGACTTT-GAAAAAATAAA
* * *
23825943 CACAGCTCATCTAAAT-AGAGGCTTAACGACTTTTG-AAAAAT--A
1 CAAAGCTCATCT-AATCAGAAGCTCAACGAC-TTTGAAAAAATAAA
* ** * * *
23825985 GATTGCTCCTCTAAACAG-AGCTCAAGGACTTTGAAAAAATAAA
1 CAAAGCTCATCTAATCAGAAGCTCAACGACTTTGAAAAAATAAA
23826028 AAAATAATAA
Statistics
Matches: 216, Mismatches: 35, Indels: 24
0.79 0.13 0.09
Matches are distributed among these distances:
40 4 0.02
41 16 0.07
42 11 0.05
43 26 0.12
44 65 0.30
45 86 0.40
46 8 0.04
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (44 bp):
CAAAGCTCATCTAATCAGAAGCTCAACGACTTTGAAAAAATAAA
Found at i:23825824 original size:44 final size:44
Alignment explanation
Indices: 23825761--23826031 Score: 268
Period size: 44 Copynumber: 6.2 Consensus size: 44
23825751 TTTGAGAATC
* *
23825761 ATAAACAAAGCTCATCTAATCAGAAGCTCAATGACTTTGAAAAA
1 ATAAAAAAAGCTCCTCTAATCAGAAGCTCAATGACTTTGAAAAA
23825805 ATAAAAAAAGCTCCTCTAATCAGAAGCTCAATGACTTTGAAAAA
1 ATAAAAAAAGCTCCTCTAATCAGAAGCTCAATGACTTTGAAAAA
* * * * *
23825849 ATAAAAAAAAGCTCTTATAATCAGAAACTCAACGATTTTGAAAAA
1 AT-AAAAAAAGCTCCTCTAATCAGAAGCTCAATGACTTTGAAAAA
* *
23825894 ATAAAAAAA-TTCCTCTAATCAGAAGCTCAACT-ACTTTGGAGAAA
1 ATAAAAAAAGCTCCTCTAATCAGAAGCTCAA-TGACTTT-GAAAAA
* * * * * *
23825938 ATAAACACAGCTCATCTAAAT-AGAGGCTTAACGACTTTTG-AAAA
1 ATAAAAAAAGCTCCTCT-AATCAGAAGCTCAATGAC-TTTGAAAAA
* ** * *
23825982 AT--AGATTGCTCCTCTAAACAG-AGCTCAAGGACTTTGAAAAA
1 ATAAAAAAAGCTCCTCTAATCAGAAGCTCAATGACTTTGAAAAA
23826023 ATAAAAAAA
1 ATAAAAAAA
23826032 TAATAAAATT
Statistics
Matches: 183, Mismatches: 33, Indels: 23
0.77 0.14 0.10
Matches are distributed among these distances:
40 4 0.02
41 16 0.09
42 11 0.06
43 23 0.13
44 68 0.37
45 55 0.30
46 6 0.03
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.24
Consensus pattern (44 bp):
ATAAAAAAAGCTCCTCTAATCAGAAGCTCAATGACTTTGAAAAA
Found at i:23825920 original size:88 final size:88
Alignment explanation
Indices: 23825767--23826031 Score: 274
Period size: 89 Copynumber: 3.0 Consensus size: 88
23825757 AATCATAAAC
* * * *
23825767 AAAGCTCATCTAATCAGAAGCTCAATGACTTTGAAAAAATAAAAAAAGCTCCTCTAATCAGAAGC
1 AAAGCTCTTATAATCAGAAGCTCAACGATTTTGAAAAAATAAAAAAA-CTCCTCTAATCAGAAGC
23825832 TCAATGACTTTGAAAAAATAAAAA
65 TCAATGACTTTGAAAAAATAAAAA
* *
23825856 AAAGCTCTTATAATCAGAAACTCAACGATTTTGAAAAAATAAAAAAATTCCTCTAATCAGAAGCT
1 AAAGCTCTTATAATCAGAAGCTCAACGATTTTGAAAAAATAAAAAAACTCCTCTAATCAGAAGCT
* *
23825921 CAACT-ACTTTGGAGAAAAT-AAAC
66 CAA-TGACTTT-GAAAAAATAAAAA
* * * * *** *
23825944 ACAGCTCATCTA-AAT-AGAGGCTTAACGACTTTTG-AAAAAT-AGATTGCTCCTCTAAACAG-A
1 AAAGCTC-T-TATAATCAGAAGCTCAACGA-TTTTGAAAAAATAAAAAAACTCCTCTAATCAGAA
*
23826004 GCTCAAGGACTTTGAAAAAATAAAAA
63 GCTCAATGACTTTGAAAAAATAAAAA
23826030 AA
1 AA
23826032 TAATAAAATT
Statistics
Matches: 147, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
85 7 0.05
86 16 0.11
87 13 0.09
88 50 0.34
89 59 0.40
90 2 0.01
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (88 bp):
AAAGCTCTTATAATCAGAAGCTCAACGATTTTGAAAAAATAAAAAAACTCCTCTAATCAGAAGCT
CAATGACTTTGAAAAAATAAAAA
Found at i:23826502 original size:20 final size:20
Alignment explanation
Indices: 23826465--23826503 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23826455 TATTGGTTTT
*
23826465 TGGGTTTTATCGCTGAAAAC
1 TGGGTTTTATCGCAGAAAAC
23826485 TGGGTTTT-TCGTCAGAAAA
1 TGGGTTTTATCG-CAGAAAA
23826504 GTCACCGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (20 bp):
TGGGTTTTATCGCAGAAAAC
Found at i:23826832 original size:10 final size:10
Alignment explanation
Indices: 23826811--23826871 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
23826801 TAAATTCAAC
23826811 TTCATGTTTTT
1 TTCAT-TTTTT
23826822 TTCA-TTTTT
1 TTCATTTTTT
* **
23826831 TTCCTAGCTTT
1 TTCAT-TTTTT
23826842 TTCATTTTTT
1 TTCATTTTTT
*
23826852 TTAATTTTTT
1 TTCATTTTTT
*
23826862 TTAATTTTTT
1 TTCATTTTTT
23826872 ATTAACAAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
9 8 0.20
10 22 0.54
11 11 0.27
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (10 bp):
TTCATTTTTT
Found at i:23826876 original size:11 final size:10
Alignment explanation
Indices: 23826839--23826876 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
23826829 TTTTCCTAGC
*
23826839 TTTTTCATTT
1 TTTTTAATTT
23826849 TTTTTAATTT
1 TTTTTAATTT
23826859 TTTTTAATTT
1 TTTTTAATTT
23826869 TTTATTAA
1 TTT-TTAA
23826877 CAAACGTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 22 0.85
11 4 0.15
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:23827256 original size:9 final size:9
Alignment explanation
Indices: 23827242--23827267 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
23827232 GAAAAATTAG
23827242 AATATAAAA
1 AATATAAAA
23827251 AATATAAAA
1 AATATAAAA
23827260 AATATAAA
1 AATATAAA
23827268 TTTTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATATAAAA
Found at i:23829545 original size:13 final size:14
Alignment explanation
Indices: 23829524--23829560 Score: 53
Period size: 11 Copynumber: 2.9 Consensus size: 14
23829514 CCCAATTTTT
23829524 TTTTAAAATTAATA
1 TTTTAAAATTAATA
23829538 TTTT-AAA-T-ATA
1 TTTTAAAATTAATA
23829549 TTTTAAAATTAA
1 TTTTAAAATTAA
23829561 AATTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
11 7 0.35
12 4 0.20
13 4 0.20
14 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTTAAAATTAATA
Found at i:23831440 original size:19 final size:19
Alignment explanation
Indices: 23831416--23831470 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
23831406 TTTTTTTTTG
23831416 TTATTTTTACTTATTATTA
1 TTATTTTTACTTATTATTA
* *
23831435 TTATTTTCATCTT-TAATTA
1 TTATTTTTA-CTTATTATTA
*
23831454 TTA-TTTTACTCATTATT
1 TTATTTTTACTTATTATT
23831471 TTAAATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.07
18 8 0.28
19 16 0.55
20 3 0.10
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATTTTTACTTATTATTA
Found at i:23832686 original size:30 final size:29
Alignment explanation
Indices: 23832620--23832688 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
23832610 TGAAATAAGT
* * *
23832620 ATTTATTTGAATACAACTTGAATATTAAA
1 ATTTATTTGAATACAAATTGAAGATAAAA
*
23832649 TTTTATTT-ATATACAAATTGAAAGATAAAA
1 ATTTATTTGA-ATACAAATTG-AAGATAAAA
23832679 ATTTATTTGA
1 ATTTATTTGA
23832689 GTATAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 1 0.03
29 16 0.50
30 14 0.44
31 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (29 bp):
ATTTATTTGAATACAAATTGAAGATAAAA
Found at i:23832720 original size:21 final size:21
Alignment explanation
Indices: 23832696--23832738 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23832686 TGAGTATAAT
*
23832696 AAAAATATAAAAACTTATTTA
1 AAAAATATAAAAACTCATTTA
*
23832717 AAAAATTTAAAAACTCATTTA
1 AAAAATATAAAAACTCATTTA
23832738 A
1 A
23832739 TATTTTAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATATAAAAACTCATTTA
Done.