Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 87 of 230
Found at i:24251638 original size:24 final size:24
Alignment explanation
Indices: 24251573--24251647 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 24
24251563 CTTCTATTTT
*
24251573 ATTTTATTTATTATTTCTTATA-TT
1 ATTTTATTTATTA-TTCTTATACTA
24251597 A-TTTATTT-TTA-T-TT-TACTA
1 ATTTTATTTATTATTCTTATACTA
24251616 ATTTTATTTATTATTCTTATACTTA
1 ATTTTATTTATTATTCTTATAC-TA
24251641 GATTTTA
1 -ATTTTA
24251648 AATTTATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
18 2 0.05
19 4 0.10
20 8 0.19
21 3 0.07
22 4 0.10
23 9 0.21
24 4 0.10
25 2 0.05
26 6 0.14
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (24 bp):
ATTTTATTTATTATTCTTATACTA
Found at i:24251661 original size:43 final size:40
Alignment explanation
Indices: 24251567--24251663 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 40
24251557 CCACCCCTTC
**
24251567 TATTTT-ATTTTATTTATTATTTCTTATATTATTTATTTT
1 TATTTTAATTTTATTTATTATTTCTTATATTATTTAAATT
24251606 TATTTTACTAATTTTATTTATTA-TTCTTATACTTAGATTTTAAATT
1 TA-TTT--TAATTTTATTTATTATTTCTTATA-TT--A-TTTAAATT
24251652 TATTTTAATTTT
1 TATTTTAATTTT
24251664 TCTACTATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
39 2 0.04
40 3 0.06
42 9 0.19
43 22 0.46
45 4 0.08
46 8 0.17
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (40 bp):
TATTTTAATTTTATTTATTATTTCTTATATTATTTAAATT
Found at i:24252771 original size:17 final size:16
Alignment explanation
Indices: 24252740--24252780 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
24252730 TATTATTGTA
*
24252740 AAAAAATCAAAAAAAT
1 AAAAAATAAAAAAAAT
*
24252756 CAAAAATAAAAGAAAAT
1 AAAAAATAAAA-AAAAT
24252773 AAAAAATA
1 AAAAAATA
24252781 TTGATTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:24256451 original size:28 final size:29
Alignment explanation
Indices: 24256415--24256469 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
24256405 GGTGGGATTT
** *
24256415 TGTTTTTTTTCTTTCTCT-GTTCTTTTAC
1 TGTTTTTTTAATTTATCTAGTTCTTTTAC
24256443 TGTTTTTTTAATTTATCTAGTTCTTTT
1 TGTTTTTTTAATTTATCTAGTTCTTTT
24256470 CTTTTGCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.09, C:0.13, G:0.07, T:0.71
Consensus pattern (29 bp):
TGTTTTTTTAATTTATCTAGTTCTTTTAC
Found at i:24258757 original size:40 final size:40
Alignment explanation
Indices: 24258704--24258843 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 40
24258694 AACACGCTAG
* **
24258704 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
* * *
24258744 TTTGACACTCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
* * * * * * *
24258782 TTAG-CACCCAATGCCTCATTGAATTAATCCAAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCGGA-TAAACCGAAGTAATAA
* *
24258822 ATTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
24258844 ACTTGAAGTC
Statistics
Matches: 75, Mismatches: 21, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
37 13 0.17
38 14 0.19
39 1 0.01
40 33 0.44
41 14 0.19
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
Found at i:24259301 original size:24 final size:23
Alignment explanation
Indices: 24259273--24259318 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
24259263 TGCTTTCTCT
24259273 TTCCTTTCTTTCCTTTTTCTTTTC
1 TTCCTTTCTTT-CTTTTTCTTTTC
24259297 TTCCTTTCTTTCTTTTTCTTTT
1 TTCCTTTCTTTCTTTTTCTTTT
24259319 TGTTTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (23 bp):
TTCCTTTCTTTCTTTTTCTTTTC
Found at i:24259309 original size:4 final size:4
Alignment explanation
Indices: 24259270--24259344 Score: 55
Period size: 4 Copynumber: 18.2 Consensus size: 4
24259260 TGTTGCTTTC
* * *
24259270 TCTT TCCTT TCTT TCCT T-TT TCTTT TCTT CCTT TCTT TCTT T-TT CTTTT
1 TCTT T-CTT TCTT TCTT TCTT TC-TT TCTT TCTT TCTT TCTT TCTT -TCTT
* *
24259319 TGTT TCATT TCTA TCTT TCTT TCTT T
1 TCTT TC-TT TCTT TCTT TCTT TCTT T
24259345 TTATTTATTC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
3 4 0.07
4 39 0.68
5 14 0.25
ACGTcount: A:0.03, C:0.24, G:0.01, T:0.72
Consensus pattern (4 bp):
TCTT
Found at i:24260316 original size:15 final size:15
Alignment explanation
Indices: 24260296--24260324 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24260286 AATAATATTA
24260296 ATAATAATGATAATG
1 ATAATAATGATAATG
24260311 ATAATAATGATAAT
1 ATAATAATGATAAT
24260325 TTAAAGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (15 bp):
ATAATAATGATAATG
Found at i:24260565 original size:13 final size:12
Alignment explanation
Indices: 24260538--24260570 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
24260528 GTTTAATAAT
24260538 ATAATAATAAAA
1 ATAATAATAAAA
24260550 ATAATAATAGAAA
1 ATAATAATA-AAA
24260563 ATAATAAT
1 ATAATAAT
24260571 GACAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (12 bp):
ATAATAATAAAA
Found at i:24261812 original size:14 final size:14
Alignment explanation
Indices: 24261789--24261822 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
24261779 ATTTGGACTA
24261789 TTTTGCTGTTTGGG
1 TTTTGCTGTTTGGG
*
24261803 TTTTGGTGTTTGGG
1 TTTTGCTGTTTGGG
24261817 TTTTGC
1 TTTTGC
24261823 CCTGGGCAAA
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:0.00, C:0.06, G:0.35, T:0.59
Consensus pattern (14 bp):
TTTTGCTGTTTGGG
Found at i:24266527 original size:107 final size:107
Alignment explanation
Indices: 24266355--24266620 Score: 298
Period size: 107 Copynumber: 2.5 Consensus size: 107
24266345 CACCACCGCG
* ** * * * *
24266355 ATGGCTGAAATCCTGCATATGTTATGGATTCTCGACAGCTTGTGTGAGCAACATCGTGAATTGGT
1 ATGGCTGAGATCCTGCATATGTTGCGAATTCTCGACAGCTTGTGTGAGCAGCATCGCGAACTGGT
* ** * * * * * *
24266420 GAACTGAATGGCTACTTTATTTTGATGATATAGATCGTTTCA
66 GAAATGAATGAATACTCTATTATGATGAAACAGATCATTACA
* * *
24266462 ATGGTTGAGATCCTGCATATGTTGCAAATTCTCGACAGCTTTTGTGAGCAGCATCGCGAACTGGT
1 ATGGCTGAGATCCTGCATATGTTGCGAATTCTCGACAGCTTGTGTGAGCAGCATCGCGAACTGGT
* * * *
24266527 GAAATGACTGAATACTCTGTTATGATGAAACGGATCATTACG
66 GAAATGAATGAATACTCTATTATGATGAAACAGATCATTACA
* * *
24266569 ATGGCTGAGATCCTACATACGTTGCGAATTCTCGTCAGCTTGTGTGAGCAGC
1 ATGGCTGAGATCCTGCATATGTTGCGAATTCTCGACAGCTTGTGTGAGCAGC
24266621 CTCATGAACC
Statistics
Matches: 130, Mismatches: 29, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
107 130 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (107 bp):
ATGGCTGAGATCCTGCATATGTTGCGAATTCTCGACAGCTTGTGTGAGCAGCATCGCGAACTGGT
GAAATGAATGAATACTCTATTATGATGAAACAGATCATTACA
Found at i:24279038 original size:14 final size:14
Alignment explanation
Indices: 24279021--24279096 Score: 93
Period size: 14 Copynumber: 5.4 Consensus size: 14
24279011 ATTTTTTTAA
24279021 TTTTAAAATACTTT
1 TTTTAAAATACTTT
**
24279035 TTTTAAAATTTTTT
1 TTTTAAAATACTTT
*
24279049 TAATTTTAAAT--TTT
1 T--TTTAAAATACTTT
24279063 TTTTAAAATACTTT
1 TTTTAAAATACTTT
24279077 TTTTAAAATACTTT
1 TTTTAAAATACTTT
24279091 TTTTAA
1 TTTTAA
24279097 TTTTAAAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
12 7 0.13
14 40 0.74
16 7 0.13
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTAAAATACTTT
Found at i:24279046 original size:31 final size:31
Alignment explanation
Indices: 24279011--24279096 Score: 112
Period size: 28 Copynumber: 3.0 Consensus size: 31
24279001 TATTTTTTTT
24279011 ATTTTTTTAATTTTAAAATACTTTTTTTAAA
1 ATTTTTTTAATTTTAAAATACTTTTTTTAAA
24279042 ATTTTTTTAATTTT-AAAT--TTTTTTTAAA
1 ATTTTTTTAATTTTAAAATACTTTTTTTAAA
**
24279070 A-TACTTT--TTTTAAAATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAATACTTTTTTTAA
24279097 TTTTAAAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
25 4 0.08
26 4 0.08
27 4 0.08
28 20 0.40
30 4 0.08
31 14 0.28
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTTTTAATTTTAAAATACTTTTTTTAAA
Found at i:24279092 original size:45 final size:42
Alignment explanation
Indices: 24279021--24279149 Score: 170
Period size: 45 Copynumber: 3.0 Consensus size: 42
24279011 ATTTTTTTAA
*
24279021 TTTTAAAATACTTTTTTTAAAATTTTTTTAATTTTAAATTTT
1 TTTTAAAATACTTTTTTTAAAATTTTTTTAATTTTAAAATTT
24279063 TTTTAAAATACTTTTTTTAAAATACTTTTTTTAATTTTAAAATTT
1 TTTTAAAATACTTTTTTT-AAA-A-TTTTTTTAATTTTAAAATTT
* **
24279108 TTTAAAAATAC-TTTTTTAATTTTTATTTTAATTTTTAAAATT
1 TTTTAAAATACTTTTTTTAAAATTT-TTTTAA-TTTTAAAATT
24279150 CTAGGCCTAT
Statistics
Matches: 78, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
41 3 0.04
42 24 0.31
43 15 0.19
44 7 0.09
45 29 0.37
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (42 bp):
TTTTAAAATACTTTTTTTAAAATTTTTTTAATTTTAAAATTT
Found at i:24279122 original size:14 final size:14
Alignment explanation
Indices: 24279060--24279126 Score: 57
Period size: 14 Copynumber: 4.6 Consensus size: 14
24279050 AATTTTAAAT
*
24279060 TTTTTTTAAAATAC
1 TTTTTTAAAAATAC
*
24279074 TTTTTTTAAAATAC
1 TTTTTTAAAAATAC
24279088 TTTTTTTAATTTTAAA-A-
1 -TTTTTTAA----AAATAC
24279105 TTTTTTAAAAATAC
1 TTTTTTAAAAATAC
24279119 TTTTTTAA
1 TTTTTTAA
24279127 TTTTTATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
12 3 0.07
13 1 0.02
14 22 0.49
15 7 0.16
16 8 0.18
18 1 0.02
19 3 0.07
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTTAAAAATAC
Found at i:24279917 original size:11 final size:11
Alignment explanation
Indices: 24279903--24279928 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24279893 TTACACTGTC
24279903 CACTCACTACT
1 CACTCACTACT
24279914 CACTCACTACT
1 CACTCACTACT
24279925 CACT
1 CACT
24279929 ACTCACTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.46, G:0.00, T:0.27
Consensus pattern (11 bp):
CACTCACTACT
Found at i:24288571 original size:75 final size:75
Alignment explanation
Indices: 24288421--24288574 Score: 168
Period size: 75 Copynumber: 2.1 Consensus size: 75
24288411 TCATAAAAGT
* * * * *
24288421 TATTTTATTGTATTTTACATCAATAATATATTTATTTACAATCTAAGAAAAAAAATCAAAAAATT
1 TATTCTATTGTATTTCACATAAATAATATACTTATTTACAATATAAGAAAAAAAATCAAAAAATT
* **
24288486 ATTTGTATTG
66 ACTTACATTG
* * *
24288496 TATTCTATTGTATTTCATATAAATAATATAGACTTATTTACAATATATG-AAAAAAAT-GAAAAA
1 TATTCTATTGTATTTCACATAAATAATAT--ACTTATTTACAATATAAGAAAAAAAATCAAAAAA
*
24288559 TTGCTTACATTG
64 TTACTTACATTG
24288571 TATT
1 TATT
24288575 TTACATCAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
75 42 0.65
76 8 0.12
77 15 0.23
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (75 bp):
TATTCTATTGTATTTCACATAAATAATATACTTATTTACAATATAAGAAAAAAAATCAAAAAATT
ACTTACATTG
Found at i:24300235 original size:22 final size:22
Alignment explanation
Indices: 24300185--24300242 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
24300175 CTCGAATTAG
* *
24300185 TTTTTTTGTTATTGTTTTGCTG
1 TTTTTTTGTTGTTGTTTTGCTC
**
24300207 TCATTTTGTTGTTGTTTTGCTAC
1 TTTTTTTGTTGTTGTTTTGCT-C
24300230 TTTTTTTGTTGTT
1 TTTTTTTGTTGTT
24300243 ATTGTTTGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 18 0.62
23 11 0.38
ACGTcount: A:0.05, C:0.07, G:0.17, T:0.71
Consensus pattern (22 bp):
TTTTTTTGTTGTTGTTTTGCTC
Found at i:24300803 original size:3 final size:3
Alignment explanation
Indices: 24300795--24300828 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
24300785 TTTAAAAACC
24300795 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24300829 TTAAAAAATT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24301640 original size:23 final size:23
Alignment explanation
Indices: 24301613--24301663 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
24301603 AGATTTAAAT
24301613 AAATACTCATA-TTTATATTACTA
1 AAATACTCATATTTTATATTA-TA
* *
24301636 AAATATTTATATTTTATATTATA
1 AAATACTCATATTTTATATTATA
24301659 AAATA
1 AAATA
24301664 TTTTTTAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATACTCATATTTTATATTATA
Found at i:24301717 original size:18 final size:20
Alignment explanation
Indices: 24301678--24301716 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24301668 TTAATCATAA
24301678 TATATATTAATATAAAATTT
1 TATATATTAATATAAAATTT
*
24301698 TATATATTACT-TAAAATTT
1 TATATATTAATATAAAATTT
24301717 AAATTCTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATATTAATATAAAATTT
Found at i:24301835 original size:9 final size:9
Alignment explanation
Indices: 24301809--24301859 Score: 61
Period size: 8 Copynumber: 5.8 Consensus size: 9
24301799 ATTTGATATT
24301809 AATATTTTA
1 AATATTTTA
*
24301818 ATATTTTTTA
1 A-ATATTTTA
24301828 AATATTTTA
1 AATATTTTA
24301837 AA-ATTTTA
1 AATATTTTA
24301845 AA-ATTTTA
1 AATATTTTA
*
24301853 AAAATTT
1 AATATTT
24301860 ATTATTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 16 0.42
9 14 0.37
10 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
AATATTTTA
Found at i:24302296 original size:20 final size:21
Alignment explanation
Indices: 24302271--24302309 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24302261 TTTATATTTA
24302271 TTTTTTAA-TTTTAAAATACT
1 TTTTTTAATTTTTAAAATACT
24302291 TTTTTTAATTTTTAAAATA
1 TTTTTTAATTTTTAAAATA
24302310 AATTTTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTTAATTTTTAAAATACT
Found at i:24302315 original size:20 final size:20
Alignment explanation
Indices: 24302272--24302316 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
24302262 TTATATTTAT
**
24302272 TTTTTAATTTTAAAATACTT
1 TTTTTAATTTTAAAATACAA
24302292 TTTTTAATTTTTAAAATA-AA
1 TTTTTAA-TTTTAAAATACAA
24302312 TTTTT
1 TTTTT
24302317 GGTGTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAATTTTAAAATACAA
Found at i:24302315 original size:21 final size:20
Alignment explanation
Indices: 24302270--24302316 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
24302260 ATTTATATTT
*
24302270 ATTTTTTAATTTTAAAATAC
1 ATTTTTTAATTTTAAAATAA
*
24302290 TTTTTTTAATTTTTAAAATAA
1 ATTTTTTAA-TTTTAAAATAA
24302311 ATTTTT
1 ATTTTT
24302317 GGTGTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTTAATTTTAAAATAA
Found at i:24307884 original size:29 final size:29
Alignment explanation
Indices: 24307847--24307964 Score: 120
Period size: 29 Copynumber: 4.2 Consensus size: 29
24307837 CCATGAGGAT
24307847 TATCTGATATGTGGAAAGTCTGCC-AGAAC
1 TATCTGATATGTGGAAAGTCTGCCAAG-AC
24307876 TATCTGATATGTGGAAAGT-TCGCCAAGAC
1 TATCTGATATGTGGAAAGTCT-GCCAAGAC
* *** *
24307905 TATAT--TATGTGG-AAGTCTATGAGGAC
1 TATCTGATATGTGGAAAGTCTGCCAAGAC
* *
24307931 TATATGATATGTGGAAAGTCCGCCAAGAC
1 TATCTGATATGTGGAAAGTCTGCCAAGAC
24307960 TATCT
1 TATCT
24307965 TAATATGGGA
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
26 13 0.18
27 8 0.11
28 8 0.11
29 41 0.57
30 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (29 bp):
TATCTGATATGTGGAAAGTCTGCCAAGAC
Found at i:24307921 original size:55 final size:56
Alignment explanation
Indices: 24307854--24307962 Score: 157
Period size: 55 Copynumber: 2.0 Consensus size: 56
24307844 GATTATCTGA
* * *
24307854 TATGTGGAAAGTCTGCCAGAACTATCTGATATGTGGAAAGTTCGCCAAGACTATAT
1 TATGTGGAAAGTCTACCAGAACTATATGATATGTGGAAAGTCCGCCAAGACTATAT
** *
24307910 TATGTGG-AAGTCTATGAGGACTATATGATATGTGGAAAGTCCGCCAAGACTAT
1 TATGTGGAAAGTCTACCAGAACTATATGATATGTGGAAAGTCCGCCAAGACTAT
24307963 CTTAATATGG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 40 0.85
56 7 0.15
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (56 bp):
TATGTGGAAAGTCTACCAGAACTATATGATATGTGGAAAGTCCGCCAAGACTATAT
Found at i:24307941 original size:84 final size:84
Alignment explanation
Indices: 24307800--24307964 Score: 233
Period size: 84 Copynumber: 2.0 Consensus size: 84
24307790 AACACCGTTA
* * *
24307800 ATGTGGAAAGTCCACCAAGACTATCTTATGTAGAAATCCATGAGGATTATCTGATATGTGGAAAG
1 ATGTGGAAAGTCCACCAAGACTATATTATGTAGAAATCCATGAGGACTATATGATATGTGGAAAG
*
24307865 TCTGCC-AGAACTATCTGAT
66 TCCGCCAAG-ACTATCTGAT
* * * * *
24307884 ATGTGGAAAGTTCGCCAAGACTATATTATGTGGAAGTCTATGAGGACTATATGATATGTGGAAAG
1 ATGTGGAAAGTCCACCAAGACTATATTATGTAGAAATCCATGAGGACTATATGATATGTGGAAAG
24307949 TCCGCCAAGACTATCT
66 TCCGCCAAGACTATCT
24307965 TAATATGGGA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 69 0.97
85 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (84 bp):
ATGTGGAAAGTCCACCAAGACTATATTATGTAGAAATCCATGAGGACTATATGATATGTGGAAAG
TCCGCCAAGACTATCTGAT
Found at i:24313188 original size:22 final size:22
Alignment explanation
Indices: 24313163--24313215 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
24313153 AAGGCGATGA
*
24313163 TGGCATGTTCTATTAGCTTTTG
1 TGGCATATTCTATTAGCTTTTG
* *
24313185 TGGCATATTCTGTTAGTTTTTG
1 TGGCATATTCTATTAGCTTTTG
*
24313207 TGGCGTATT
1 TGGCATATT
24313216 TCATATGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.13, C:0.11, G:0.25, T:0.51
Consensus pattern (22 bp):
TGGCATATTCTATTAGCTTTTG
Found at i:24317766 original size:27 final size:27
Alignment explanation
Indices: 24317736--24317794 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
24317726 ATCCTAATGG
* *
24317736 ACTATCTCGTTTTTAATATCCCGACGA
1 ACTATCTCATGTTTAATATCCCGACGA
* *
24317763 ACTATCTCATGTTTAATGTCCCGATGA
1 ACTATCTCATGTTTAATATCCCGACGA
24317790 ACTAT
1 ACTAT
24317795 TTATGGTGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (27 bp):
ACTATCTCATGTTTAATATCCCGACGA
Found at i:24320049 original size:24 final size:24
Alignment explanation
Indices: 24320010--24320067 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
24320000 ACCGAGGTAA
* *
24320010 CTTGTTGG-CTTATCTTAGTAGAC
1 CTTGGTGGCCTTATCTTAATAGAC
24320033 CTTGGTGGCCTTATCTTAATAGAC
1 CTTGGTGGCCTTATCTTAATAGAC
24320057 CTTGGTGGCCT
1 CTTGGTGGCCT
24320068 ACTTTTTCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 7 0.22
24 25 0.78
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.40
Consensus pattern (24 bp):
CTTGGTGGCCTTATCTTAATAGAC
Found at i:24323895 original size:7 final size:7
Alignment explanation
Indices: 24323883--24323907 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24323873 AATGAAAATG
24323883 AAATATT
1 AAATATT
24323890 AAATATT
1 AAATATT
24323897 AAATATT
1 AAATATT
24323904 AAAT
1 AAAT
24323908 TTCTTAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:24328233 original size:12 final size:12
Alignment explanation
Indices: 24328216--24328241 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24328206 CCTAGGCTAA
24328216 AAGATACCACCT
1 AAGATACCACCT
24328228 AAGATACCACCT
1 AAGATACCACCT
24328240 AA
1 AA
24328242 AAACAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.08, T:0.15
Consensus pattern (12 bp):
AAGATACCACCT
Found at i:24329368 original size:19 final size:19
Alignment explanation
Indices: 24329344--24329456 Score: 190
Period size: 19 Copynumber: 5.8 Consensus size: 19
24329334 AATTTTTGAG
24329344 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
24329363 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
24329382 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24329401 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
24329422 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24329441 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
24329457 ATATATGATT
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
19 69 0.78
21 19 0.22
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24329386 original size:38 final size:38
Alignment explanation
Indices: 24329344--24329463 Score: 190
Period size: 40 Copynumber: 3.2 Consensus size: 38
24329334 AATTTTTGAG
*
24329344 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
24329382 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCTTAGATAT
*
24329422 GATATGTAATCTTAGATATGATATGCAATCTTAGA-AT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
24329459 -ATATG
1 GATATG
24329464 ATTTTGTAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
36 5 0.06
37 2 0.03
38 35 0.45
40 36 0.46
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:24329411 original size:59 final size:59
Alignment explanation
Indices: 24329345--24329456 Score: 206
Period size: 59 Copynumber: 1.9 Consensus size: 59
24329335 ATTTTTGAGG
24329345 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
* *
24329404 ATATGCAATCTTAGATATGATATGTAATCTTAGATATGATATGCAATCTTAGA
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGA
24329457 ATATATGATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
Found at i:24331048 original size:98 final size:98
Alignment explanation
Indices: 24330932--24331126 Score: 329
Period size: 98 Copynumber: 2.0 Consensus size: 98
24330922 AAAAATCATG
*
24330932 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGTCC-TAACGTATTGGGTATGATTTCT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTG-CCGTAACGTATTGGGTATGATTTCT
24330996 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
65 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* * *
24331030 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCGTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCGTAACGTATTGGGTATGATTTCTT
*
24331095 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
24331127 TTTATTGTAT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 2 0.02
98 89 0.98
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCGTAACGTATTGGGTATGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:24335631 original size:13 final size:12
Alignment explanation
Indices: 24335610--24335645 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
24335600 GTTCAGATTC
24335610 AAAAAAAAAACA
1 AAAAAAAAAACA
24335622 AAAAACAAAAACA
1 AAAAA-AAAAACA
24335635 AAAATAAAAAA
1 AAAA-AAAAAA
24335646 ATAAAAGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 16 0.73
14 1 0.05
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:24337154 original size:132 final size:132
Alignment explanation
Indices: 24336916--24337172 Score: 444
Period size: 132 Copynumber: 1.9 Consensus size: 132
24336906 CTGCATTGAC
*
24336916 AGTGGAGCAGATCGAAGACGGCGAATCTTATTTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
24336981 CAAGCCTTGTCTCCCTGAGCAGCAGCGAAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGAAGAAGGTTAAAGATTGTAGATCCTATCTCCCTAAGCA
24337046 GT
131 GT
* *
24337048 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
24337113 CAAGCCTTGTCTCCCTCAGCAGCAGC-AGAGAAGGTTGAAGATTGTAGATCCTATCTCCCT
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGA-AGAAGGTTAAAGATTGTAGATCCTATCTCCCT
24337173 GAAGTTGCAG
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
131 1 0.01
132 117 0.99
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTCAGCAGCAGCGAAGAAGGTTAAAGATTGTAGATCCTATCTCCCTAAGCA
GT
Found at i:24337205 original size:44 final size:44
Alignment explanation
Indices: 24337157--24337714 Score: 312
Period size: 44 Copynumber: 12.9 Consensus size: 44
24337147 TTGAAGATTG
* **
24337157 TAGATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCT
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCT
* * ** *
24337201 TAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCAT
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCT
* * * * * *
24337241 TAAATCTTATCTCTCTGAAGTTGTAGTGGAGCAAACTAAGTAAGC-
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCT
* * * **
24337286 AAG-TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGC-
1 TAGATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-ACCT
* * **
24337331 AAG-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCGA
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CCT
* * * *
24337375 TA-ATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCT
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCT
* * * *
24337418 TAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT---GCAT
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCT
* * * * *
24337458 CAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCT
* * * * * ***
24337503 AAG-TCTTATCTTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGG
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAACCT
* * ** * * *
24337547 CAAATCTTATCTCATTGAAGTTGCAGTGGAGTAGATTAAAGCCGA
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-T
* *
24337592 TA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCT
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCT
* * *** *
24337635 TAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATC-
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCT
* * *
24337676 TAG-TCTTATCTCCTTGAAGTTGCAGTGAAGCAGACTAAA
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
24337715 TAAGCAAGTC
Statistics
Matches: 390, Mismatches: 97, Indels: 56
0.72 0.18 0.10
Matches are distributed among these distances:
40 70 0.18
41 23 0.06
42 6 0.02
43 28 0.07
44 197 0.51
45 65 0.17
46 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCT
Found at i:24337412 original size:217 final size:217
Alignment explanation
Indices: 24337160--24337765 Score: 984
Period size: 217 Copynumber: 2.8 Consensus size: 217
24337150 AAGATTGTAG
*
24337160 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
* *
24337225 AGAGAGCAGATCGCATTAAATCTTATCTCTCTGAAGTTGTAGTGGAGCAAACTAAGTAAGCAAGT
66 AGAGAGCAGATCGCATTAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
* *
24337290 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCCTATCTCCCTGAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCCTATCTCACTGAAGTTGCA
*
24337355 GTGGAGCAGATTAAAATCGATA
196 GTGGAGCAGATTAAAACCGATA
* *
24337377 ATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
* *
24337442 AGAGAGCAGATTGCATCAAATCTTATCT-TCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
66 AGAGAGCAGATCGCATTAAATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
* * *
24337506 TCTTATCTTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCTCATTGAAGTTGC
130 TCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCCTATCTCACTGAAGTTGC
* *
24337571 AGTGGAGTAGATTAAAGCCGATA
195 AGTGGAGCAGATTAAAACCGATA
24337594 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
* * *
24337659 AGAGAGCAGATCGCATCT-AGTCTTATCTC-CTTGAAGTTGCAGTGAAGCAGACTAAATAAGCAA
66 AGAGAGCAGATCGCAT-TAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
* *
24337722 GTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
129 GTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
24337766 CTAATTCCTA
Statistics
Matches: 360, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
216 2 0.01
217 358 0.99
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (217 bp):
ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
AGAGAGCAGATCGCATTAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCCTATCTCACTGAAGTTGCA
GTGGAGCAGATTAAAACCGATA
Found at i:24337510 original size:84 final size:87
Alignment explanation
Indices: 24337164--24337714 Score: 259
Period size: 84 Copynumber: 6.4 Consensus size: 87
24337154 TTGTAGATCC
* * ** **
24337164 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA-CCTTAGATCTTATC-TCTCTGAAGTTGCAG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAATCGATA-ATCTTATCTTC-CTGAAGTTGCAG
* * * ** *
24337227 -AGAGCAGA-T-CGCATTAAATCT
64 TGGAGCAGACTAAGAAGCAAGTCT
* * * * * * *
24337248 TATCTCTCTGAAGTTGTAGTGGAGCAAACTAAGTAAGC-A-AGTCTTATCCTCCTGAAGTTGCAG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATTAA--AATCGATAATCTTATCTTCCTGAAGTTGCAG
* * *
24337311 TGGGGCAGACTGAAGATGGCAAGTCC
64 TGGAGCAGACT-AAGA-AGCAAGTCT
* * * * * *
24337337 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCGATAATCCTATCTCCCTAAAGTTGCAGTA
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAATCGATAATCTTATCTTCCTGAAGTTGCAGTG
* * * *
24337402 GAGCGGATTAA-AACCTTAGATCT
66 GAGCAGACTAAGAAGC-AAG-TCT
**
24337425 TATCTCTCTGAAGTTGCAG-AGAGCAGATT-GCATC-A-AATCTTATCTTCCTGAAGTTGCAGTG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAATCGATAATCTTATCTTCCTGAAGTTGCAGTG
24337486 GAGCAGACTAAGTAAGCAAGTCT
66 GAGCAGACTAAG-AAGCAAGTCT
* * * * * *
24337509 TATCT-TCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA-AATCTTATC-TCATTGAAGTTGC
1 TATCTCT-CTGAAGTTGCAGTAGAGCAGA-TTAAAATCG-ATAATCTTATCTTC-CTGAAGTTGC
* * * *
24337571 AGTGGAGTAGA-TTA-AAGCCGATAATCC
62 AGTGGAGCAGACTAAGAAG-C-A-AGTCT
* * * **
24337598 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-CCTTAGATCTTATC-TCTCTGAAGTTGCAG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAATCGATA-ATCTTATCTTC-CTGAAGTTGCAG
* * * * *
24337661 -AGAGCAGA-T-CGCATCTAGTCT
64 TGGAGCAGACTAAGAAGCAAGTCT
*
24337682 TATCTC-CTTGAAGTTGCAGT-GAAGCAGACTAAA
1 TATCTCTC-TGAAGTTGCAGTAG-AGCAGATTAAA
24337715 TAAGCAAGTC
Statistics
Matches: 358, Mismatches: 78, Indels: 62
0.72 0.16 0.12
Matches are distributed among these distances:
83 3 0.01
84 126 0.35
85 18 0.05
86 15 0.04
87 28 0.08
88 54 0.15
89 114 0.32
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (87 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAATCGATAATCTTATCTTCCTGAAGTTGCAGTG
GAGCAGACTAAGAAGCAAGTCT
Found at i:24337570 original size:173 final size:173
Alignment explanation
Indices: 24337289--24337616 Score: 412
Period size: 173 Copynumber: 1.9 Consensus size: 173
24337279 AGTAAGCAAG
* *
24337289 TCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCCTATCTCCCTGAAGTTGC
1 TCTTATCCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCCTATCTCCCTGAAGTTGC
* * * *
24337354 AGTGGAGCAGATTAAAATCGATAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACC-T
66 AGTGGAGCAGATGAAAATCGATAATCCTATCTCACTAAAGTTGCAGTAGAGCAGATTAAAACCGA
* *
24337418 TAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCATCAAA
131 TA-ATCCTATCTCCCTGAAGTTGCAGAGAGCAGATTGCATCAAA
* * *
24337462 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAGTCTTATCTTCCTGAAGTTG
1 TCTTATCCTCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAAGTCCTATCTCCCTGAAGTTG
* * * * * * * * *
24337525 CAGTGGGGCAGACTGAAGATGGCA-AATCTTATCTCATTGAAGTTGCAGTGGAGTAGATTAAAGC
65 CAGTGGAGCAGA-TGAAAATCG-ATAATCCTATCTCACTAAAGTTGCAGTAGAGCAGATTAAAAC
24337589 CGATAATCCTATCTCCCTGAAGTTGCAG
128 CGATAATCCTATCTCCCTGAAGTTGCAG
24337617 TGGAGCGGAT
Statistics
Matches: 131, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
171 1 0.01
172 36 0.27
173 91 0.69
174 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (173 bp):
TCTTATCCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCCTATCTCCCTGAAGTTGC
AGTGGAGCAGATGAAAATCGATAATCCTATCTCACTAAAGTTGCAGTAGAGCAGATTAAAACCGA
TAATCCTATCTCCCTGAAGTTGCAGAGAGCAGATTGCATCAAA
Found at i:24338018 original size:19 final size:19
Alignment explanation
Indices: 24337931--24338021 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
24337921 AATTTTTGAG
24337931 GATATGCAATC-TAGATAT
1 GATATGCAATCTTAGATAT
*
24337949 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
24337968 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
24337987 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
24338006 GATATGCAGTCTTAGA
1 GATATGCAATCTTAGA
24338022 ATATATGATT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
18 11 0.17
19 55 0.83
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24338807 original size:23 final size:24
Alignment explanation
Indices: 24338766--24338819 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
24338756 ACATGTATAT
24338766 ATATTTTTTTAAAACGAATATTTTC
1 ATATTTTTTT-AAACGAATATTTTC
* *
24338791 CTATTTTTTT-AATGAATATTTTC
1 ATATTTTTTTAAACGAATATTTTC
24338814 ATATTT
1 ATATTT
24338820 ATATGTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 17 0.65
25 9 0.35
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (24 bp):
ATATTTTTTTAAACGAATATTTTC
Found at i:24339602 original size:98 final size:98
Alignment explanation
Indices: 24339487--24339681 Score: 329
Period size: 98 Copynumber: 2.0 Consensus size: 98
24339477 AAAAATCATG
*
24339487 AAGGAAATATTCCGAGTTTGAGATTCT-AAAGGAATTGTACCCTAACGTATTGGGTGTGATTTCT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAAGG-ATCGTACCCTAACGTATTGGGTGTGATTTCT
24339551 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
65 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* * *
24339585 AAGGAAATATTCCGAGTTTGGGGTTCTAAAAGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAAGGATCGTACCCTAACGTATTGGGTGTGATTTCTT
*
24339650 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
24339682 TTTATTGTAT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 86 0.95
99 5 0.05
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAAGGATCGTACCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:24340208 original size:55 final size:55
Alignment explanation
Indices: 24340149--24340315 Score: 316
Period size: 55 Copynumber: 3.0 Consensus size: 55
24340139 ATGATAAAAT
* *
24340149 AATGATGATATATGAAATAAATAATTAAAATAAGTCATTTTTCATCATCTTTCCC
1 AATGATGATAAATGAAACAAATAATTAAAATAAGTCATTTTTCATCATCTTTCCC
24340204 AATGATGATAAATGAAACAAATAATTAAAATAAGTCATTTTTCATCATCTTTCCC
1 AATGATGATAAATGAAACAAATAATTAAAATAAGTCATTTTTCATCATCTTTCCC
24340259 AATGATGATAAATGAAACAAATAATTAAAATAAGTCATTTTTCATCATCTTTCCC
1 AATGATGATAAATGAAACAAATAATTAAAATAAGTCATTTTTCATCATCTTTCCC
24340314 AA
1 AA
24340316 ATAAAAACAT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 110 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (55 bp):
AATGATGATAAATGAAACAAATAATTAAAATAAGTCATTTTTCATCATCTTTCCC
Found at i:24341258 original size:24 final size:25
Alignment explanation
Indices: 24341202--24341300 Score: 80
Period size: 25 Copynumber: 4.0 Consensus size: 25
24341192 TATATAGCTT
*
24341202 TTATGAGCATCCCGATTAATGGCTC
1 TTATGAGCTTCCCGATTAATGGCTC
*
24341227 TCT-GGAGCTTCCCGATT-ATGGCTC
1 T-TATGAGCTTCCCGATTAATGGCTC
**
24341251 TTATGAGCTTCTTG-TTACATGGCTC
1 TTATGAGCTTCCCGATTA-ATGGCTC
** *
24341276 ACATAAGCTTCCCG-TTATATGGCTC
1 TTATGAGCTTCCCGATTA-ATGGCTC
24341301 GAGAGAGAGC
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
23 3 0.05
24 16 0.27
25 39 0.66
26 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.35
Consensus pattern (25 bp):
TTATGAGCTTCCCGATTAATGGCTC
Found at i:24344428 original size:17 final size:18
Alignment explanation
Indices: 24344406--24344449 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
24344396 TAATAAGATG
24344406 TAATATTAAAT-TTAATA
1 TAATATTAAATATTAATA
* *
24344423 TAATATT-TATATTAATT
1 TAATATTAAATATTAATA
24344440 TAATATTAAA
1 TAATATTAAA
24344450 GTGATTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 19 0.86
18 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATTAAATATTAATA
Found at i:24344445 original size:11 final size:11
Alignment explanation
Indices: 24344406--24344448 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
24344396 TAATAAGATG
24344406 TAATATTAAATT
1 TAATATT-AATT
24344418 TAATA-TAATAT
1 TAATATTAAT-T
*
24344429 TTATATTAATT
1 TAATATTAATT
24344440 TAATATTAA
1 TAATATTAA
24344449 AGTGATTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.11
11 15 0.56
12 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TAATATTAATT
Found at i:24375191 original size:19 final size:19
Alignment explanation
Indices: 24375167--24375204 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24375157 CGATTGGGTG
24375167 CAGTGCGGTGCGTTTAGCT
1 CAGTGCGGTGCGTTTAGCT
*
24375186 CAGTGCGGTGTGTTTAGCT
1 CAGTGCGGTGCGTTTAGCT
24375205 TACTTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.18, G:0.37, T:0.34
Consensus pattern (19 bp):
CAGTGCGGTGCGTTTAGCT
Found at i:24385812 original size:21 final size:22
Alignment explanation
Indices: 24385788--24385829 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
24385778 TGATTTTTTA
24385788 AAATATTAAAATATT-AATATC
1 AAATATTAAAATATTCAATATC
*
24385809 AAATATTATAATATTCAATAT
1 AAATATTAAAATATTCAATAT
24385830 TATTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATATTAAAATATTCAATATC
Found at i:24385876 original size:19 final size:17
Alignment explanation
Indices: 24385846--24385911 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 17
24385836 AAATACATGT
*
24385846 TAAATTATTTATATTTAA
1 TAAATAATTTAT-TTTAA
24385864 TAATATAATTTATTATTAA
1 TAA-ATAATTTATT-TTAA
24385883 TAAAATTAA-TTATTTTAA
1 T-AAA-TAATTTATTTTAA
*
24385901 TAAATTATTTA
1 TAAATAATTTA
24385912 ATATTAAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 2 0.05
17 6 0.15
18 9 0.22
19 19 0.46
20 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATAATTTATTTTAA
Found at i:24385911 original size:36 final size:38
Alignment explanation
Indices: 24385847--24385918 Score: 103
Period size: 36 Copynumber: 1.9 Consensus size: 38
24385837 AATACATGTT
* *
24385847 AAATTATTTATATTTAATAATATAATTTATTATTAATA
1 AAATTAATTATATTTAATAATATAATTTAATATTAATA
*
24385885 AAATTAATTAT-TTTAATAA-ATTATTTAATATTAA
1 AAATTAATTATATTTAATAATATAATTTAATATTAA
24385919 AGTTTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 13 0.42
37 8 0.26
38 10 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (38 bp):
AAATTAATTATATTTAATAATATAATTTAATATTAATA
Found at i:24390182 original size:23 final size:25
Alignment explanation
Indices: 24390152--24390199 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
24390142 TATCATTTTT
24390152 TAATTAAA-ATATTAATA-AATATC
1 TAATTAAATATATTAATATAATATC
24390175 TAATTAAATTATATTAATATAATAT
1 TAATTAAA-TATATTAATATAATAT
24390200 TTTTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.36
25 9 0.41
26 5 0.23
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
TAATTAAATATATTAATATAATATC
Found at i:24392003 original size:15 final size:16
Alignment explanation
Indices: 24391973--24392005 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24391963 TAAATTATTT
24391973 TTTGGTTACTTTGCATG
1 TTTGGTTAC-TTGCATG
24391990 TTTGGTTA-TTGCATG
1 TTTGGTTACTTGCATG
24392005 T
1 T
24392006 GTAAGTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.09, G:0.24, T:0.55
Consensus pattern (16 bp):
TTTGGTTACTTGCATG
Found at i:24395460 original size:20 final size:21
Alignment explanation
Indices: 24395431--24395474 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
24395421 AAGAACAAAA
24395431 AAAAGAAGGAAGA-GAAGAAG
1 AAAAGAAGGAAGAGGAAGAAG
* * *
24395451 AAAAGTAGGATGAGGAGGAAG
1 AAAAGAAGGAAGAGGAAGAAG
24395472 AAA
1 AAA
24395475 TTAAAGATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05
Consensus pattern (21 bp):
AAAAGAAGGAAGAGGAAGAAG
Found at i:24399730 original size:18 final size:18
Alignment explanation
Indices: 24399679--24399731 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
24399669 ATCGAGAAAA
*
24399679 TTAAAA-TATTGTGAGAG
1 TTAAAAGTATTGTGAGTG
* * *
24399696 TTAAAAGCATGGCGAGTG
1 TTAAAAGTATTGTGAGTG
24399714 TTAAAAGTATTGTGAGTG
1 TTAAAAGTATTGTGAGTG
24399732 AAAGAATAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 6 0.21
18 22 0.79
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (18 bp):
TTAAAAGTATTGTGAGTG
Found at i:24404571 original size:19 final size:18
Alignment explanation
Indices: 24404549--24404596 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
24404539 TGTCTAATTT
24404549 GGTAAAATTGTGGA-AGAGA
1 GGTAAAATTGT-GACA-AGA
24404568 GGTAAAATTGTGACCAAGA
1 GGTAAAATTGTGA-CAAGA
24404587 GGTAAAATTG
1 GGTAAAATTG
24404597 AGCCACTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.07
19 24 0.89
20 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.31, T:0.23
Consensus pattern (18 bp):
GGTAAAATTGTGACAAGA
Found at i:24405243 original size:5 final size:5
Alignment explanation
Indices: 24405233--24405266 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
24405223 GACTTGGAAA
*
24405233 TTAAT TTAAT TTAAT TTAAT TATTAT TTAAT TTA
1 TTAAT TTAAT TTAAT TTAAT T-TAAT TTAAT TTA
24405267 TTGTAATTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:24410891 original size:33 final size:33
Alignment explanation
Indices: 24410849--24410918 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
24410839 TACACTATGT
*
24410849 TTGGTGTGTTGGTTAGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTAGATTAACTCTTATGAGCA
*
24410882 TTGGTGTGTTGGTTGGATTAACTCTTATGAGCA
1 TTGGTGTGTTGGTTAGATTAACTCTTATGAGCA
24410915 TTGG
1 TTGG
24410919 AGTGATGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.17, C:0.09, G:0.31, T:0.43
Consensus pattern (33 bp):
TTGGTGTGTTGGTTAGATTAACTCTTATGAGCA
Found at i:24410933 original size:33 final size:33
Alignment explanation
Indices: 24410864--24410933 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
24410854 GTGTTGGTTA
* * * **
24410864 GATTAGCTCTTATGAGCATTGGTGTGTTGGTTG
1 GATTAACTCTTATGAGCATTGGAGTGATGGAAG
24410897 GATTAACTCTTATGAGCATTGGAGTGATGGAAG
1 GATTAACTCTTATGAGCATTGGAGTGATGGAAG
24410930 GATT
1 GATT
24410934 GGCTCATGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.31, T:0.37
Consensus pattern (33 bp):
GATTAACTCTTATGAGCATTGGAGTGATGGAAG
Found at i:24411418 original size:11 final size:11
Alignment explanation
Indices: 24411386--24411419 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
24411376 GTATTATGCA
24411386 AATGAAACGGT
1 AATGAAACGGT
*
24411397 AA-GAAAAGGT
1 AATGAAACGGT
24411407 AATGAAACGGT
1 AATGAAACGGT
24411418 AA
1 AA
24411420 GTTCATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.53, C:0.06, G:0.26, T:0.15
Consensus pattern (11 bp):
AATGAAACGGT
Found at i:24413010 original size:12 final size:12
Alignment explanation
Indices: 24412993--24413020 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
24412983 GCAAGTTATA
24412993 ACAATATATTAC
1 ACAATATATTAC
24413005 ACAATATATTAC
1 ACAATATATTAC
24413017 ACAA
1 ACAA
24413021 CACCTACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.29
Consensus pattern (12 bp):
ACAATATATTAC
Found at i:24445084 original size:44 final size:45
Alignment explanation
Indices: 24445053--24445148 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 45
24445043 AAAACAACTA
* * *
24445053 AAAAT-AAAAATAAACATAAACATAAACAT-AAACATAAACATAA
1 AAAATAAAAAATAAAAATAAAAATAAAAATAAAACATAAACATAA
24445096 AAAATAAAAAATAAAAATAAAAATAAAAATAAAA-ATCAAACA-AA
1 AAAATAAAAAATAAAAATAAAAATAAAAATAAAACAT-AAACATAA
24445140 TAAAATAAA
1 -AAAATAAA
24445149 TGATCCTCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
43 5 0.11
44 25 0.54
45 16 0.35
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (45 bp):
AAAATAAAAAATAAAAATAAAAATAAAAATAAAACATAAACATAA
Found at i:24445104 original size:7 final size:6
Alignment explanation
Indices: 24445027--24445131 Score: 104
Period size: 6 Copynumber: 16.8 Consensus size: 6
24445017 GAAGTACAAG
* * *
24445027 AAAAGA AAAATA AAACA-A AACAACTA AAAATA AAAATA AACATA AACATA
1 AAAATA AAAATA AAA-ATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA
* * *
24445077 AACATA AACATA AACATAA AAAATAA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAAT-A AAAAT-A AAAATA AAAATA AAAATA AAAATA
24445127 AAAAT
1 AAAAT
24445132 CAAACAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 10
0.88 0.03 0.10
Matches are distributed among these distances:
6 72 0.79
7 16 0.18
8 3 0.03
ACGTcount: A:0.77, C:0.08, G:0.01, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:24445145 original size:32 final size:31
Alignment explanation
Indices: 24445027--24445148 Score: 117
Period size: 32 Copynumber: 3.9 Consensus size: 31
24445017 GAAGTACAAG
* *
24445027 AAAAGAAAAATAAAACAAA-ACAACTAAAAATA
1 AAAATAAAAAT-AAACAAATA-AAATAAAAATA
* *
24445059 AAAATAAACATAAAC--ATAAACATAAACATA
1 AAAATAAAAATAAACAAATAAA-ATAAAAATA
*
24445089 AACATAAAAAATAAA-AAATAAAAATAAAAATA
1 AAAAT-AAAAATAAACAAAT-AAAATAAAAATA
24445121 AAAATAAAAATCAAACAAATAAAATAAA
1 AAAATAAAAAT-AAACAAATAAAATAAA
24445149 TGATCCTCAT
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
29 3 0.04
30 12 0.16
31 18 0.24
32 34 0.46
33 7 0.09
ACGTcount: A:0.77, C:0.08, G:0.01, T:0.14
Consensus pattern (31 bp):
AAAATAAAAATAAACAAATAAAATAAAAATA
Found at i:24446830 original size:8 final size:8
Alignment explanation
Indices: 24446810--24446859 Score: 68
Period size: 8 Copynumber: 6.4 Consensus size: 8
24446800 TAAAATGAAT
24446810 TAATAAAGA
1 TAATAAA-A
24446819 -AATAAAA
1 TAATAAAA
24446826 TAATAAAA
1 TAATAAAA
24446834 TAATAAAA
1 TAATAAAA
*
24446842 TAATAATA
1 TAATAAAA
24446850 -AATAAAA
1 TAATAAAA
24446857 TAA
1 TAA
24446860 ATAGGAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.19
8 30 0.81
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (8 bp):
TAATAAAA
Found at i:24446862 original size:16 final size:15
Alignment explanation
Indices: 24446793--24446859 Score: 80
Period size: 16 Copynumber: 4.3 Consensus size: 15
24446783 TAAGCAGAGT
* *
24446793 AATAATATAAAATGA
1 AATAATAAAAAATAA
*
24446808 ATTAATAAAGAAATAA
1 AATAATAAA-AAATAA
24446824 AATAATAAAATAATAA
1 AATAATAAAA-AATAA
*
24446840 AATAATAATAAATAA
1 AATAATAAAAAATAA
24446855 AATAA
1 AATAA
24446860 ATAGGAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
15 18 0.40
16 27 0.60
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (15 bp):
AATAATAAAAAATAA
Found at i:24446869 original size:35 final size:37
Alignment explanation
Indices: 24446799--24446870 Score: 87
Period size: 35 Copynumber: 2.0 Consensus size: 37
24446789 GAGTAATAAT
* *
24446799 ATAAAATGAATTAATAAAGAAATAAAATAATAAAATA
1 ATAAAATGAATTAATAAAAAAATAAAATAAGAAAATA
*
24446836 ATAAAAT-AA-TAATAAATAAAAT-AAATAGGAAAATA
1 ATAAAATGAATTAATAAA-AAAATAAAATAAGAAAATA
24446871 GGGAAAAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 18 0.58
36 6 0.19
37 7 0.23
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (37 bp):
ATAAAATGAATTAATAAAAAAATAAAATAAGAAAATA
Found at i:24453559 original size:12 final size:12
Alignment explanation
Indices: 24453542--24453581 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
24453532 AATTAGAATG
*
24453542 TAAAAATTAAAC
1 TAAAAATTAAAA
*
24453554 TAAAAACTAAAA
1 TAAAAATTAAAA
*
24453566 TAAAAATAAAAA
1 TAAAAATTAAAA
24453578 TAAA
1 TAAA
24453582 TGGCTAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAAATTAAAA
Found at i:24455149 original size:19 final size:19
Alignment explanation
Indices: 24455122--24455158 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24455112 GAGTTAGGCA
24455122 TACGAGTCATCAAAACAAT
1 TACGAGTCATCAAAACAAT
* *
24455141 TACGGGTCATCGAAACAA
1 TACGAGTCATCAAAACAA
24455159 CAGAAAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (19 bp):
TACGAGTCATCAAAACAAT
Found at i:24456513 original size:5 final size:5
Alignment explanation
Indices: 24456499--24456528 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
24456489 GTTTCTCTCC
24456499 CTTTT C-TTT CTTTT CTTTT CTTTT CTTTT C
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT C
24456529 CCTGGTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:24457282 original size:11 final size:12
Alignment explanation
Indices: 24457250--24457287 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
24457240 GGGGGTAGGA
24457250 ATCTGCATCTAT
1 ATCTGCATCTAT
*
24457262 ATCTAC-TCTAT
1 ATCTGCATCTAT
24457273 -TCTGCATCTAT
1 ATCTGCATCTAT
24457284 ATCT
1 ATCT
24457288 TATATGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 4 0.18
11 10 0.45
12 8 0.36
ACGTcount: A:0.24, C:0.26, G:0.05, T:0.45
Consensus pattern (12 bp):
ATCTGCATCTAT
Found at i:24463688 original size:25 final size:27
Alignment explanation
Indices: 24463660--24463709 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
24463650 ACTTTTATAA
24463660 CATAA-TATAAAAA-ATATTTTTTTGT
1 CATAATTATAAAAAGATATTTTTTTGT
* *
24463685 CATAATTTTAAAAAGTTATTTTTTT
1 CATAATTATAAAAAGATATTTTTTT
24463710 ACGAATAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 7 0.33
27 9 0.43
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (27 bp):
CATAATTATAAAAAGATATTTTTTTGT
Found at i:24464271 original size:17 final size:17
Alignment explanation
Indices: 24464238--24464271 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24464228 ATTCACAAAT
*
24464238 TATTTTTATAATATATA
1 TATTTTTACAATATATA
*
24464255 TATTTTTACAATTTATA
1 TATTTTTACAATATATA
24464272 ATATAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTTACAATATATA
Found at i:24472143 original size:109 final size:109
Alignment explanation
Indices: 24471952--24472174 Score: 401
Period size: 109 Copynumber: 2.0 Consensus size: 109
24471942 GGTTTAATTT
* *
24471952 CTAAAAATGATGGGAGAGAATGATGACTGGAGTGTAAAACCCCTGACTACATCGCAGAAGGGTAA
1 CTAAAAATGACGGGAGAGAATGATGACTGGAGTGTAAAACCCCTGACTACATCGCAGAAGGGCAA
*
24472017 ACGCCCTGGTCAGAGTAGTAATACGGGTGTAAATCGCAGTGGTG
66 ACGCCCTGGTCAGAGTAGTAATACGGGTGTAAATCGCAGTGGTA
*
24472061 CTAAAAATGACGGGAGAGAATGATGACTGGAGTGTAAAACCCTTGACTACATCGCAGAAGGGCAA
1 CTAAAAATGACGGGAGAGAATGATGACTGGAGTGTAAAACCCCTGACTACATCGCAGAAGGGCAA
*
24472126 ACGCCCTGGTCAGAGTAGTAATATGGGTGTAAATCGCAGTGGTA
66 ACGCCCTGGTCAGAGTAGTAATACGGGTGTAAATCGCAGTGGTA
24472170 CTAAA
1 CTAAA
24472175 GACATGACTA
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (109 bp):
CTAAAAATGACGGGAGAGAATGATGACTGGAGTGTAAAACCCCTGACTACATCGCAGAAGGGCAA
ACGCCCTGGTCAGAGTAGTAATACGGGTGTAAATCGCAGTGGTA
Found at i:24475783 original size:50 final size:50
Alignment explanation
Indices: 24475668--24475910 Score: 360
Period size: 50 Copynumber: 4.8 Consensus size: 50
24475658 GATAATAACA
* * ** *
24475668 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
24475719 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
24475769 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
24475819 TGCCAACGCCATGTCCCAGGCATGATCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
24475869 TGCCAACGCCATGTCCCAGACATGGTCTTACATTGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
24475911 TTACCCAAAT
Statistics
Matches: 173, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 141 0.82
51 32 0.18
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24482575 original size:41 final size:41
Alignment explanation
Indices: 24482530--24482667 Score: 204
Period size: 41 Copynumber: 3.4 Consensus size: 41
24482520 CAGCAATTAG
* * *
24482530 CCTGCTAGACTTAAAGTCCGAATTATTTCACCGGCCTTAAA
1 CCTGCTAGACTTTAAGTCTGAATTATATCACCGGCCTTAAA
* *
24482571 CCTGCTAGACTTTAAGTCTGAATTATATCACTGGCCTTAAG
1 CCTGCTAGACTTTAAGTCTGAATTATATCACCGGCCTTAAA
* * *
24482612 CCTACTAGACTTTAAGTTTGAATTATATCATCGGCCTTAAA
1 CCTGCTAGACTTTAAGTCTGAATTATATCACCGGCCTTAAA
24482653 CCTGCTAGACTTTAA
1 CCTGCTAGACTTTAA
24482668 AAATTTCAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (41 bp):
CCTGCTAGACTTTAAGTCTGAATTATATCACCGGCCTTAAA
Found at i:24491118 original size:17 final size:18
Alignment explanation
Indices: 24491096--24491136 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
24491086 TTATCGTTTG
24491096 TTTATTTTTC-CTATTTA
1 TTTATTTTTCACTATTTA
*
24491113 TTTA-TTTTCATTATTTA
1 TTTATTTTTCACTATTTA
24491130 TTTATTT
1 TTTATTT
24491137 CTATCTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 14 0.67
18 2 0.10
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTTTCACTATTTA
Found at i:24494751 original size:27 final size:27
Alignment explanation
Indices: 24494707--24494768 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
24494697 GAGCCCTATT
*
24494707 CAGTAACAGTACAGTGT-GGCCTTAGCC
1 CAGT-ACAGTACAATGTGGGCCTTAGCC
24494734 CAGTACAGTAACAATGTGGGCCTTAGCC
1 CAGTACAGT-ACAATGTGGGCCTTAGCC
*
24494762 CAATACA
1 CAGTACA
24494769 ATATCAGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 5 0.16
27 10 0.32
28 16 0.52
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGTACAGTACAATGTGGGCCTTAGCC
Found at i:24494892 original size:26 final size:26
Alignment explanation
Indices: 24494858--24494964 Score: 135
Period size: 26 Copynumber: 4.1 Consensus size: 26
24494848 AACACACCAA
* *
24494858 TATCACAGCAAAGCTGCCCGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
*
24494884 TATCGCAGCAAAGCTACCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* *
24494910 TATCGCAACAAAGCTGCCAAT-ATCAG
1 TATCGCAGCAAAGCTGCCAGTAAT-AG
* *
24494936 TATCGCAGCAAAGTTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
24494962 TAT
1 TAT
24494965 ACTTCCTCCA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
25 2 0.03
26 66 0.96
27 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAATAG
Found at i:24497411 original size:18 final size:18
Alignment explanation
Indices: 24497390--24497430 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
24497380 AGGATCTATG
* *
24497390 TCTGCATTTGTATCTGAA
1 TCTGAATTTGCATCTGAA
*
24497408 TCTGAATTTGCATCTGTA
1 TCTGAATTTGCATCTGAA
24497426 TCTGA
1 TCTGA
24497431 TTATGAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (18 bp):
TCTGAATTTGCATCTGAA
Found at i:24497437 original size:24 final size:24
Alignment explanation
Indices: 24497392--24497437 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24497382 GATCTATGTC
* *
24497392 TGCATTTGTATCTGAATCTGAATT
1 TGCATCTGTATCTGAATATGAATT
*
24497416 TGCATCTGTATCTGATTATGAA
1 TGCATCTGTATCTGAATATGAA
24497438 AATACATCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (24 bp):
TGCATCTGTATCTGAATATGAATT
Found at i:24502923 original size:22 final size:22
Alignment explanation
Indices: 24502881--24502927 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
24502871 GGTTTTTGGA
* *
24502881 AAAAAATAATAAAAATTAAATT
1 AAAAAATAAGAAAAATAAAATT
24502903 AAAAAATAAGAAATAA-AAAATT
1 AAAAAATAAGAAA-AATAAAATT
24502925 AAA
1 AAA
24502928 TCCTACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAAATAAGAAAAATAAAATT
Found at i:24506846 original size:31 final size:32
Alignment explanation
Indices: 24506707--24506876 Score: 166
Period size: 32 Copynumber: 5.4 Consensus size: 32
24506697 GAATGGTTAC
* * * *
24506707 AAGCCATAAGT-ACAGTAATGTGATTGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* *** * *
24506738 AAGCTATCAGTAGTAGTGATATGAGCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* *
24506770 CAA-CCATCAGTAACAGTAAAATGATCGGCACA
1 -AAGCCATCAGTAACGGTAATATGATCGGCACA
* * *
24506802 TAGCCATCGGTAACGGTAATATGATAGGC-CA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
*
24506833 AAGCCATCAGTAACGGTACTATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
24506865 AAGCCATCAGTA
1 AAGCCATCAGTA
24506877 GCATCGCAGC
Statistics
Matches: 112, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
31 37 0.33
32 73 0.65
33 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGGCACA
Found at i:24507274 original size:27 final size:27
Alignment explanation
Indices: 24507141--24507279 Score: 152
Period size: 27 Copynumber: 5.1 Consensus size: 27
24507131 TTTACCTACC
*
24507141 AGGGCATTACGGTCATTTTACCCTACA
1 AGGGCATTACGGTCATTTTACCCTATA
** * *
24507168 TTGGTATTACGGTCATTTTACCCTACA
1 AGGGCATTACGGTCATTTTACCCTATA
* * * *
24507195 GGGGTATTACGATTATTTTACCCTATA
1 AGGGCATTACGGTCATTTTACCCTATA
* *
24507222 AGGGCATTACGGTTATTTTACTCTATA
1 AGGGCATTACGGTCATTTTACCCTATA
* * *
24507249 GGGGCATTACAGTCATGTTACCCTATA
1 AGGGCATTACGGTCATTTTACCCTATA
24507276 AGGG
1 AGGG
24507280 TATTGCAGTC
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
AGGGCATTACGGTCATTTTACCCTATA
Found at i:24509514 original size:18 final size:18
Alignment explanation
Indices: 24509491--24509533 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
24509481 TTTTTTTGTC
*
24509491 TTTATTTATTTATTTATT
1 TTTATTTATTTATTTATA
24509509 TTTATTTA-TTATTTATA
1 TTTATTTATTTATTTATA
24509526 TTT-TTTAT
1 TTTATTTAT
24509534 GCTTTAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTTATTTATTTATA
Found at i:24509522 original size:13 final size:13
Alignment explanation
Indices: 24509495--24509533 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
24509485 TTTGTCTTTA
24509495 TTTATTTATTTATT
1 TTTATTTA-TTATT
24509509 TTTATTTATTATT
1 TTTATTTATTATT
* *
24509522 TATATTTTTTAT
1 TTTATTTATTAT
24509534 GCTTTAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTTATTATT
Found at i:24510585 original size:17 final size:17
Alignment explanation
Indices: 24510563--24510645 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
24510553 CCAAATAAGT
24510563 AATAAATAATAAAATAA
1 AATAAATAATAAAATAA
24510580 AATAAAGTAAT-AAATAA
1 AATAAA-TAATAAAATAA
* * *
24510597 AGTAAAGAA-AGAAAGAAA
1 AATAAATAATA-AAA-TAA
24510615 TAATAAATAATTAAAAT-A
1 -AATAAATAA-TAAAATAA
24510633 AATAAA-AATAAAA
1 AATAAATAATAAAA
24510646 ATTGGGTTGC
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
15 5 0.09
16 4 0.08
17 26 0.49
18 7 0.13
19 7 0.13
20 3 0.06
21 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (17 bp):
AATAAATAATAAAATAA
Found at i:24510589 original size:25 final size:26
Alignment explanation
Indices: 24510555--24510638 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 26
24510545 ATTAATATCC
24510555 AAAT-AAGTAATAAATAA-TAAAATA
1 AAATAAAGTAATAAATAAGTAAAATA
*
24510579 AAATAAAGTAATAAATAAAGTAAAGAAA
1 AAATAAAGTAATAAAT-AAGTAAA-ATA
* *
24510607 GAAAGAAA-TAATAAATAATTAAAAT-
1 -AAATAAAGTAATAAATAAGTAAAATA
24510632 AAATAAA
1 AAATAAA
24510639 AATAAAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
24 10 0.20
25 11 0.22
26 3 0.06
27 10 0.20
28 10 0.20
29 6 0.12
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (26 bp):
AAATAAAGTAATAAATAAGTAAAATA
Found at i:24510597 original size:4 final size:4
Alignment explanation
Indices: 24510563--24510638 Score: 50
Period size: 4 Copynumber: 18.5 Consensus size: 4
24510553 CCAAATAAGT
* *
24510563 AATA AAT- AATAA AATAA AATA AAGT- AATA AATA AAGTA AAGA AAGA
1 AATA AATA AAT-A AAT-A AATA AA-TA AATA AATA AA-TA AATA AATA
* *
24510609 AAGA AAT- AATA AATA ATTAA AATA AATA AA
1 AATA AATA AATA AATA AAT-A AATA AATA AA
24510639 AATAAAAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
3 7 0.11
4 38 0.62
5 16 0.26
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:24510633 original size:16 final size:16
Alignment explanation
Indices: 24510563--24510647 Score: 52
Period size: 16 Copynumber: 5.2 Consensus size: 16
24510553 CCAAATAAGT
24510563 AATAAATAATAAA-ATAA
1 AATAAATAA-AAATA-AA
24510580 AATAAAGTAATAAAT-AA
1 AATAAA-TAA-AAATAAA
* * *
24510597 AGTAAAGAAAGAA-AGA
1 AATAAATAAA-AATAAA
*
24510613 AAT-AATAAATAATTAA
1 AATAAATAAA-AATAAA
24510629 AATAAATAAAAATAAA
1 AATAAATAAAAATAAA
24510645 AAT
1 AAT
24510648 TGGGTTGCCT
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
15 8 0.15
16 19 0.36
17 19 0.36
18 7 0.13
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
AATAAATAAAAATAAA
Found at i:24515741 original size:44 final size:43
Alignment explanation
Indices: 24515670--24515825 Score: 147
Period size: 42 Copynumber: 3.7 Consensus size: 43
24515660 ATTGTGTTAT
* * *
24515670 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGA-GATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATAT-ATGA-TTA
* * * *
24515714 CGTGTAAGACCATGTTTGAGACATTGGCGTC-ATATATGATTG
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
* * *
24515756 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
* * * *
24515799 CTTGTAAGA-CACGTCTAGGACGTTGGC
1 CGTGTAAGACCATGTCTGGGACATTGGC
24515826 TTTGTACGAG
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 42 0.47
43 22 0.24
44 26 0.29
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
Found at i:24521489 original size:44 final size:43
Alignment explanation
Indices: 24521418--24521573 Score: 147
Period size: 42 Copynumber: 3.7 Consensus size: 43
24521408 AATGTGTTAT
* * *
24521418 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGAT-ATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATAT-ATGA-TTA
* * *
24521462 CGTGTAAGACCATGTTTGAGACATTGGCGTC-ATATATGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
* * * *
24521504 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGAATA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
* * * *
24521547 CTTGTAAGA-CACGTCTAGGACGTTGGC
1 CGTGTAAGACCATGTCTGGGACATTGGC
24521574 TTTGTACGAG
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
42 44 0.48
43 21 0.23
44 26 0.29
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
Found at i:24527349 original size:43 final size:42
Alignment explanation
Indices: 24527252--24527361 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
24527242 GATTTGAGAT
* * * *
24527252 TTACGTGTAAGACCATGTCTGGGACATTGGCGTCGTATATGA
1 TTACGTGTAAGACCCTGTTTGGGACAATGGCATCGTATATGA
*
24527294 TTACGTGTAAGACCCTGTTTGGGACAATGGCATCGATATTTGA
1 TTACGTGTAAGACCCTGTTTGGGACAATGGCATCG-TATATGA
*
24527337 TTACTTGTAAGACCAC-GTTTGGGAC
1 TTACGTGTAAGACC-CTGTTTGGGAC
24527362 GTTGGCATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 31 0.52
43 28 0.47
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCCTGTTTGGGACAATGGCATCGTATATGA
Found at i:24527368 original size:43 final size:43
Alignment explanation
Indices: 24527213--24527369 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
24527203 TGTGTTATCA
* * *
24527213 TGTAAGACCACATCTGGGACATTAGCATCGAT-TTGAGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATT-TGA-TTACG
* * *
24527257 TGTAAGACCATGTCTGGGACATTGGCGTCG-TATATGATTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACG
* * *
24527299 TGTAAGACC-CTGTTTGGGACAATGGCATCGATATTTGATTACT
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTACG
* *
24527342 TGTAAGACCACGTTTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
24527370 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 30 0.32
43 37 0.39
44 28 0.29
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACG
Found at i:24527718 original size:100 final size:100
Alignment explanation
Indices: 24527591--24527790 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
24527581 TCATATTCGG
24527591 CCAAATAGAAAAATGTGGTGAATGTTCTTATTATACTTGATTTGCTGATGACTTACTAAGCTTTC
1 CCAAATAGAAAAATGTGGTGAATGTTCTTATTATACTTGATTTGCTGATGACTTACTAAGCTTTC
24527656 TAAGCTTACTTTGTGTGTTCTTTCAGTGTATTATA
66 TAAGCTTACTTTGTGTGTTCTTTCAGTGTATTATA
24527691 CCAAATAGAAAAATGTGGTGAATGTTCTTATTATACTTGATTTGCTGATGACTTACTAAGCTTTC
1 CCAAATAGAAAAATGTGGTGAATGTTCTTATTATACTTGATTTGCTGATGACTTACTAAGCTTTC
24527756 TAAGCTTACTTTGTGTGTTCTTTCAGTGTATTATA
66 TAAGCTTACTTTGTGTGTTCTTTCAGTGTATTATA
24527791 GATTTTGGAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (100 bp):
CCAAATAGAAAAATGTGGTGAATGTTCTTATTATACTTGATTTGCTGATGACTTACTAAGCTTTC
TAAGCTTACTTTGTGTGTTCTTTCAGTGTATTATA
Found at i:24531662 original size:72 final size:73
Alignment explanation
Indices: 24531555--24531692 Score: 224
Period size: 72 Copynumber: 1.9 Consensus size: 73
24531545 TTTTCAAACT
* *
24531555 CAAGTTTTAAACAATCTCGGGAATTAAGAAGAGATCGTATCCTAACTTACTGGGCATGAT-CCTT
1 CAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATCGTATCCTAACTTACTGGGCATGATACCTT
24531619 TTTTTCCC
66 TTTTTCCC
* * *
24531627 CAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCGTGATACCTT
1 CAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATCGTATCCTAACTTACTGGGCATGATACCTT
24531692 T
66 T
24531693 CTCTAAAATC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
72 55 0.92
73 5 0.08
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (73 bp):
CAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATCGTATCCTAACTTACTGGGCATGATACCTT
TTTTTCCC
Found at i:24531984 original size:106 final size:106
Alignment explanation
Indices: 24531838--24532040 Score: 284
Period size: 106 Copynumber: 1.9 Consensus size: 106
24531828 AAAAATAATA
* * * *
24531838 AAGGCAATATTTTGCATTTGGGAATTCGGGAAAGCATGCCCTAATGTGTTGGGTTTCGATTTTTT
1 AAGGCAATATTTTGCATTTAGAAATTCGGGAAAG-ATGCCCTAATGTGCTGGGTTTCAATTTTTT
*
24531903 CGTTCGACCAAATAACCAAATATCCT-TTAAAATTTCAGAGT
65 CGTTCAACCAAATAACCAAATATCCTCTTAAAATTTCAGAGT
*
24531944 AAGGCAATATTTTGCGTTTAGAAATTCGAGGAAATG-TGCCCTAATGTGCTGGGTTTCAATTTTT
1 AAGGCAATATTTTGCATTTAGAAATTCG-GGAAA-GATGCCCTAATGTGCTGGGTTTCAATTTTT
* * *
24532008 TCGTTTAACCAAATAGCCAAATATTCTCTTAAA
64 TCGTTCAACCAAATAACCAAATATCCTCTTAAA
24532041 TCTTAATCCA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
106 74 0.87
107 10 0.12
108 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (106 bp):
AAGGCAATATTTTGCATTTAGAAATTCGGGAAAGATGCCCTAATGTGCTGGGTTTCAATTTTTTC
GTTCAACCAAATAACCAAATATCCTCTTAAAATTTCAGAGT
Found at i:24533703 original size:25 final size:25
Alignment explanation
Indices: 24533648--24533711 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
24533638 GACACGCCAC
*
24533648 AGCTCTTATGAGCTTTCCATTATTT
1 AGCTCTTATGAGCTCTCCATTATTT
* *
24533673 ATCTCTTATGAGCATCTCGA-TATTT
1 AGCTCTTATGAGC-TCTCCATTATTT
* *
24533698 GGCTCTCATGAGCT
1 AGCTCTTATGAGCT
24533712 TTTCGTTTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.03
25 27 0.84
26 4 0.12
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (25 bp):
AGCTCTTATGAGCTCTCCATTATTT
Found at i:24533848 original size:49 final size:50
Alignment explanation
Indices: 24533681--24533899 Score: 173
Period size: 49 Copynumber: 4.4 Consensus size: 50
24533671 TTATCTCTTA
* * * * *
24533681 TGAGCATCTCGATATTTGGCTCTCATGAGCTT-TTCGTTTAGTGGCTCTCT
1 TGAGCTTCTCGATATATGGCTCTCATGAGCTTCCT-GATTAATGGCTCTCT
* * *
24533731 TGAGCTTC-CCATTTATGGCTCAT-ATGAGCTTCCTGA-TAATTGGCTC-CC
1 TGAGCTTCTCGATATATGGCTC-TCATGAGCTTCCTGATTAA-TGGCTCTCT
* * * *
24533779 GGAGCTTCCCAATATTTGGCTCTCATGAGCTTCCTGATTAATGGCTCTCT
1 TGAGCTTCTCGATATATGGCTCTCATGAGCTTCCTGATTAATGGCTCTCT
* * * * * *
24533829 TGAGCTTCTCGAT-TATGGCTTTCATGAGTTTCCCG-TAACATGGCTCACA
1 TGAGCTTCTCGATATATGGCTCTCATGAGCTTCCTGATTA-ATGGCTCTCT
* *
24533878 TGAGCTTCTTGTTATATGGCTC
1 TGAGCTTCTCGATATATGGCTC
24533900 GAAAGAGCTA
Statistics
Matches: 134, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
48 13 0.10
49 91 0.68
50 30 0.22
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (50 bp):
TGAGCTTCTCGATATATGGCTCTCATGAGCTTCCTGATTAATGGCTCTCT
Found at i:24533856 original size:24 final size:25
Alignment explanation
Indices: 24533697--24533899 Score: 111
Period size: 25 Copynumber: 8.2 Consensus size: 25
24533687 TCTCGATATT
* * *
24533697 TGGCTCTCATGAGCTT-TTCGTTTAG
1 TGGCTCTCATGAGCTTCCT-GATTAA
* * *
24533722 TGGCTCTCTTGAGCTTCC-CATTTA
1 TGGCTCTCATGAGCTTCCTGATTAA
24533746 TGGCTCAT-ATGAGCTTCCTGA-TAA
1 TGGCTC-TCATGAGCTTCCTGATTAA
** * * *
24533770 TTGGCTC-CCGGAGCTTCC-CAATATT
1 -TGGCTCTCATGAGCTTCCTGATTA-A
24533795 TGGCTCTCATGAGCTTCCTGATTAA
1 TGGCTCTCATGAGCTTCCTGATTAA
*
24533820 TGGCTCTCTTGAGCTT-CTCGATT-A
1 TGGCTCTCATGAGCTTCCT-GATTAA
* * * *
24533844 TGGCTTTCATGAGTTTCCCG-TAACA
1 TGGCTCTCATGAGCTTCCTGATTA-A
* *
24533869 TGGCTCACATGAGCTTCTTG-TTATA
1 TGGCTCTCATGAGCTTCCTGATTA-A
24533894 TGGCTC
1 TGGCTC
24533900 GAAAGAGCTA
Statistics
Matches: 134, Mismatches: 31, Indels: 26
0.70 0.16 0.14
Matches are distributed among these distances:
23 2 0.01
24 52 0.39
25 77 0.57
26 3 0.02
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (25 bp):
TGGCTCTCATGAGCTTCCTGATTAA
Found at i:24533873 original size:98 final size:98
Alignment explanation
Indices: 24533692--24533874 Score: 230
Period size: 98 Copynumber: 1.9 Consensus size: 98
24533682 GAGCATCTCG
* * *
24533692 ATATTTGGCTCTCATGAGCTTTTCGTTTAGTGGCTCTCTTGAGCTTCCCATTTATGGCTCATATG
1 ATATTTGGCTCTCATGAGCTTCTCGATTAATGGCTCTCTTGAGCTTCCCATTTATGGCTCATATG
* *
24533757 AGCTTCCTGATAATTGGCTCCCGGAGCTTCCCA
66 AGCTTCCCGATAAATGGCTCCCGGAGCTTCCCA
* *
24533790 ATATTTGGCTCTCATGAGCTTC-CTGATTAATGGCTCTCTTGAGCTTCTCGA-TTATGGCT-TTC
1 ATATTTGGCTCTCATGAGCTTCTC-GATTAATGGCTCTCTTGAGCTTC-CCATTTATGGCTCAT-
*
24533852 ATGAGTTTCCCG-TAACATGGCTC
63 ATGAGCTTCCCGATAA-ATGGCTC
24533875 ACATGAGCTT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
97 5 0.07
98 66 0.90
99 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (98 bp):
ATATTTGGCTCTCATGAGCTTCTCGATTAATGGCTCTCTTGAGCTTCCCATTTATGGCTCATATG
AGCTTCCCGATAAATGGCTCCCGGAGCTTCCCA
Found at i:24533896 original size:25 final size:25
Alignment explanation
Indices: 24533697--24533932 Score: 110
Period size: 25 Copynumber: 9.6 Consensus size: 25
24533687 TCTCGATATT
* **
24533697 TGGCTCTCATGAGCTTTTCGTT-TA
1 TGGCTCACATGAGCTTCCCGTTATA
* * *
24533721 GTGGCTCTCTTGAGCTTCCCATT-TA
1 -TGGCTCACATGAGCTTCCCGTTATA
* * *
24533746 TGGCTCATATGAGCTTCCTGATA-A
1 TGGCTCACATGAGCTTCCCGTTATA
** ** *
24533770 TTGGCTC-CCGGAGCTTCCCAATATT
1 -TGGCTCACATGAGCTTCCCGTTATA
* *
24533795 TGGCTCTCATGAGCTTCCTGATTA-A
1 TGGCTCACATGAGCTTCCCG-TTATA
* * * *
24533820 TGGCTCTCTTGAGCTTCTCGAT-TA
1 TGGCTCACATGAGCTTCCCGTTATA
** * * *
24533844 TGGCTTTCATGAGTTTCCCGTAACA
1 TGGCTCACATGAGCTTCCCGTTATA
**
24533869 TGGCTCACATGAGCTTCTTGTTATA
1 TGGCTCACATGAGCTTCCCGTTATA
* *
24533894 TGGCTCGA-AAGAGCTACCCGTT-TA
1 TGGCTC-ACATGAGCTTCCCGTTATA
24533918 TGTGCTCACATGAGC
1 TG-GCTCACATGAGC
24533933 ATTCTTGAAT
Statistics
Matches: 156, Mismatches: 45, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
24 57 0.37
25 96 0.62
26 3 0.02
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCGTTATA
Found at i:24536473 original size:13 final size:14
Alignment explanation
Indices: 24536454--24536491 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
24536444 CAATGGCATA
24536454 GAAATAATATAAAC
1 GAAATAATATAAAC
24536468 -AAATAA-ATAAAC
1 GAAATAATATAAAC
24536480 GAAACTAATATA
1 GAAA-TAATATA
24536492 CATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:24538291 original size:18 final size:18
Alignment explanation
Indices: 24538264--24538304 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24538254 ACGAATAATT
24538264 AATAAATACAAATAAG-C
1 AATAAATACAAATAAGAC
*
24538281 AATACAATACACATAAGAC
1 AATA-AATACAAATAAGAC
24538300 AATAA
1 AATAA
24538305 GCTCACATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
19 5 0.24
ACGTcount: A:0.63, C:0.15, G:0.05, T:0.17
Consensus pattern (18 bp):
AATAAATACAAATAAGAC
Found at i:24538484 original size:14 final size:14
Alignment explanation
Indices: 24538465--24538491 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24538455 CATATATGTA
24538465 TAATAAAAATAGTT
1 TAATAAAAATAGTT
24538479 TAATAAAAATAGT
1 TAATAAAAATAGT
24538492 ATATCTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
TAATAAAAATAGTT
Found at i:24540079 original size:50 final size:50
Alignment explanation
Indices: 24540017--24540349 Score: 204
Period size: 50 Copynumber: 6.7 Consensus size: 50
24540007 TCGGGGAAAC
* *
24540017 AAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGCACCGTCAAGGAAGT
1 AAGATTCGCCGTTGTAGCTTTAATCTGTTCCACTGCACCGTCAGGGAAGT
* * * * * ** * *** **
24540067 AAAATTCGCCGTTATGGCTTCAATCTATTTAATTGCAATATCAGGGAAAC
1 AAGATTCGCCGTTGTAGCTTTAATCTGTTCCACTGCACCGTCAGGGAAGT
* * * *
24540117 AAGATTCGCCATTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGAAAGT
1 AAGATTCGCCGTTGTAGCTTTAATCTGTTCCACTGCACCGTCAGGGAAGT
* * * ** ** * **
24540167 AAGATTCGCTGTTGTAGCTTGAATCTTTTTAACTGCAATGTCGGGGAAAC
1 AAGATTCGCCGTTGTAGCTTTAATCTGTTCCACTGCACCGTCAGGGAAGT
* * * * * *
24540217 AGGATTCGCCGTTAT-GACTTTAATCTGTTCCATTACACCGCCTGGGAAGT
1 AAGATTCGCCGTTGTAG-CTTTAATCTGTTCCACTGCACCGTCAGGGAAGT
* * * ** ** * *
24540267 AAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACT
1 AAGATTCGCCGTTGTAGCTTTAATCTGTTCCACTGCACCGTCAGGG-AAGT
* *
24540318 -AGATTCGTCGTTGT-GACTTTAATCTGCTCCAC
1 AAGATTCGCCGTTGTAG-CTTTAATCTGTTCCAC
24540350 CACATCGCTT
Statistics
Matches: 199, Mismatches: 80, Indels: 8
0.69 0.28 0.03
Matches are distributed among these distances:
49 2 0.01
50 193 0.97
51 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTTAATCTGTTCCACTGCACCGTCAGGGAAGT
Found at i:24540363 original size:100 final size:100
Alignment explanation
Indices: 24539985--24540371 Score: 470
Period size: 100 Copynumber: 3.9 Consensus size: 100
24539975 ATCCACCATT
* * *
24539985 TTCAGTCTGTTTAACTGCAATGTCGGGGAAACAAGATTCACCGTTGT-AGCTTTAATCTGTTCCA
1 TTCAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTTGTGA-CTTTAATCTGTTCCA
* * * * * * *
24540049 CTGCACCGTCAAGGAAGTAAAATTCGCCGTTATGGC
65 CTACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGC
* * * * * *
24540085 TTCAATCTATTTAATTGCAATATCAGGGAAACAAGATTCGCCATTGTGGCTTTAATCTGTTCCAC
1 TTCAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTTGTGACTTTAATCTGTTCCAC
* *
24540150 TGCACCGCCAGGAAAGTAAGATTCGCTGTTGTAGC
66 TACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGC
* * * *
24540185 TTGAATCTTTTTAACTGCAATGTCGGGGAAACAGGATTCGCCGTTATGACTTTAATCTGTTCCAT
1 TTCAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTTGTGACTTTAATCTGTTCCAC
* *
24540250 TACACCGCCTGGGAAGTAAGATTTGCTGTTGTAGC
66 TACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGC
* * * *
24540285 TTTAATCTTTTTAACTGCAATGTCGGGGAAACTAGATTCGTCGTTGTGACTTTAATCTGCTCCAC
1 TTCAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTTGTGACTTTAATCTGTTCCAC
* * **
24540350 CACATCGCTTGGGAAGTAAGAT
66 TACACCGCCAGGGAAGTAAGAT
24540372 CTATAATTCT
Statistics
Matches: 247, Mismatches: 39, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
100 247 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (100 bp):
TTCAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTTGTGACTTTAATCTGTTCCAC
TACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGC
Found at i:24540625 original size:132 final size:131
Alignment explanation
Indices: 24540506--24540829 Score: 567
Period size: 132 Copynumber: 2.5 Consensus size: 131
24540496 ATAGGATAAT
**
24540506 TGGCTTCAATGTACTCCACTGTAACCACAAAGAGGTAAAATCCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCC-CCATCTTTGATCTGCTCCACT
24540571 ACTGCTTAGAGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
65 ACTGCTTAGAGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
24540636 AC
130 AC
* *
24540638 TGGCTTTAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCCCTATCTTTGATCTACTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCCC-ATCTTTGATCTGCTCCACT
*
24540703 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
65 ACTGCTTAGAGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
24540768 AC
130 AC
*
24540770 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCC-CCATCTTTGATCTGCT
24540830 TTGCCGTCAG
Statistics
Matches: 182, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
131 2 0.01
132 178 0.98
133 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (131 bp):
TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCCCATCTTTGATCTGCTCCACTA
CTGCTTAGAGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTA
C
Found at i:24540657 original size:43 final size:43
Alignment explanation
Indices: 24540598--24540790 Score: 124
Period size: 44 Copynumber: 4.4 Consensus size: 43
24540588 GATCTGAAAT
*
24540598 CTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATTACTGG
* * * * * ** **
24540641 CTTTAATGTACTCCACTG-TAACCACAGGGAGGTAAAATCCCCTAT
1 CTTCAATCTACTCCACTGCT-GCC-CAGGGAGATAGAAT-TACTGG
** * ** * *
24540686 CTTTGATCTACTCCACTACTGCTTAGGGAGACA-AGA-T-CTGAAAT
1 CTTCAATCTACTCCACTGCTGCCCAGGGAGATAGA-ATTACTG---G
*
24540730 CTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATTACTGG
*
24540773 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
24540791 TAACCACAGG
Statistics
Matches: 109, Mismatches: 30, Indels: 22
0.68 0.19 0.14
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 34 0.31
44 48 0.44
45 20 0.18
46 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATTACTGG
Found at i:24540941 original size:87 final size:89
Alignment explanation
Indices: 24540841--24541040 Score: 316
Period size: 87 Copynumber: 2.3 Consensus size: 89
24540831 TGCCGTCAGT
*
24540841 ACAGGAAGGCAAGATCTGCTATCTTT-AACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTG
1 ACAGGAAGGCAAGATCTGCTATCTTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGGG
*
24540905 TCTTCGATCTGCTTC-GGGTCTAC
66 TCTTCGATCTGCTTCACGGTCTAC
* *
24540928 ACAGGAAGGCAAGATCTGCTAT-TTTCAACTTGCTCCACTGCAACTGAGGGAGGCAAGGCTGGGG
1 ACAGGAAGGCAAGATCTGCTATCTTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGGG
* *
24540992 TCTTCGATCTGCTTCACTGTCTAT
66 TCTTCGATCTGCTTCACGGTCTAC
*
24541016 GCAGGAAGGCAAGATCTGCTATCTT
1 ACAGGAAGGCAAGATCTGCTATCTT
24541041 CACTGATCTG
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
86 3 0.03
87 72 0.70
88 26 0.25
89 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (89 bp):
ACAGGAAGGCAAGATCTGCTATCTTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGGG
TCTTCGATCTGCTTCACGGTCTAC
Found at i:24543782 original size:25 final size:25
Alignment explanation
Indices: 24543732--24543797 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
24543722 AATAAAGTTC
*
24543732 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATGAAAGAATAATTACTCA
*
24543757 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
24543782 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
24543798 TGTATTTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 3 0.08
25 23 0.64
26 5 0.14
27 5 0.14
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:24547300 original size:28 final size:28
Alignment explanation
Indices: 24547232--24547385 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
24547222 CATGAGATTG
* * * *
24547232 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
24547261 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24547289 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
24547317 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24547345 GCACTAAGTGTGCGAG-TTGATTGTATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24547372 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
24547386 GACTTAATAT
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.65
29 18 0.16
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:24562110 original size:28 final size:28
Alignment explanation
Indices: 24562042--24562195 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
24562032 CATGAGATTG
* * *
24562042 GCACTAAGTGTGCGAGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
24562071 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24562099 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
24562127 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24562155 GCACTAAGTGTGCGAG-TTGATTGTATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24562182 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
24562196 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.65
29 19 0.16
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:24565658 original size:29 final size:29
Alignment explanation
Indices: 24565626--24565692 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 29
24565616 ATACATGTAC
*
24565626 ATATAAAATATATTAAAAATAATTAAATA
1 ATATAAAATATATCAAAAATAATTAAATA
* * *
24565655 ATATCTACAT-TATCAAAATTAATTAAATA
1 ATAT-AAAATATATCAAAAATAATTAAATA
24565684 A-A-AAAATAT
1 ATATAAAATAT
24565693 GTGTATCTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
26 3 0.10
27 1 0.03
28 1 0.03
29 22 0.73
30 3 0.10
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.34
Consensus pattern (29 bp):
ATATAAAATATATCAAAAATAATTAAATA
Found at i:24567002 original size:29 final size:29
Alignment explanation
Indices: 24566970--24567036 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 29
24566960 ATACATGTAC
*
24566970 ATATAAAATATATTAAAAATAATTAAATA
1 ATATAAAATATATCAAAAATAATTAAATA
* * *
24566999 ATATCTACAT-TATCAAAATTAATTAAATA
1 ATAT-AAAATATATCAAAAATAATTAAATA
24567028 A-A-AAAATAT
1 ATATAAAATAT
24567037 GTGTATCTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
26 3 0.10
27 1 0.03
28 1 0.03
29 22 0.73
30 3 0.10
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.34
Consensus pattern (29 bp):
ATATAAAATATATCAAAAATAATTAAATA
Found at i:24568415 original size:18 final size:18
Alignment explanation
Indices: 24568388--24568428 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24568378 ACGAATAATT
24568388 AATAAATACAAATAAG-C
1 AATAAATACAAATAAGAC
*
24568405 AATACAATACACATAAGAC
1 AATA-AATACAAATAAGAC
24568424 AATAA
1 AATAA
24568429 GCTCACATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
19 5 0.24
ACGTcount: A:0.63, C:0.15, G:0.05, T:0.17
Consensus pattern (18 bp):
AATAAATACAAATAAGAC
Found at i:24568607 original size:14 final size:14
Alignment explanation
Indices: 24568588--24568614 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24568578 CATATATGTA
24568588 TAATAAAAATAGTT
1 TAATAAAAATAGTT
24568602 TAATAAAAATAGT
1 TAATAAAAATAGT
24568615 ATATCTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
TAATAAAAATAGTT
Done.