Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 108 of 172
Found at i:36183117 original size:21 final size:22
Alignment explanation
Indices: 36183075--36183117 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
36183065 AAGTGTGGTC
* *
36183075 AAATATGGTAAGTTTTGTATGG
1 AAATATGGTAAGTTGTGAATGG
*
36183097 AAATA-GGTTAGTTGTGAATGG
1 AAATATGGTAAGTTGTGAATGG
36183118 TTGATGAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (22 bp):
AAATATGGTAAGTTGTGAATGG
Found at i:36187017 original size:20 final size:20
Alignment explanation
Indices: 36186974--36187017 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
36186964 TTTTCCATTC
*
36186974 TTTTCTCCTTCTCCCTCTAT
1 TTTTCTCCTTCTCCATCTAT
*
36186994 TTTTCTCCCTTCTCCATTTAT
1 TTTTCT-CCTTCTCCATCTAT
36187015 TTT
1 TTT
36187018 AAGGTAGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.07, C:0.34, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTCTCCTTCTCCATCTAT
Found at i:36187411 original size:78 final size:78
Alignment explanation
Indices: 36187282--36187473 Score: 289
Period size: 78 Copynumber: 2.5 Consensus size: 78
36187272 TAAATTAACG
* * *
36187282 CAGCTTATATGGTAATCTCAATTGATAAAGAGTCCAAAAGACGCTACAAACTATCATAGCTTATA
1 CAGCTTATATGGCAATCTCAAGTGATAAAGCGTCCAAAAGACGCTACAAACTATCATAGCTTATA
36187347 TGACATTCTTAAA
66 TGACATTCTTAAA
* *
36187360 CAGCTTATATGGCAATCTGAAGTGATAAAGCGTCCAAATGACGCTACAAACTATCATAGCTTATA
1 CAGCTTATATGGCAATCTCAAGTGATAAAGCGTCCAAAAGACGCTACAAACTATCATAGCTTATA
*
36187425 TGATATTCTTAAA
66 TGACATTCTTAAA
* * *
36187438 CAACTTATATGACAATCTTAAGTG--AAAGCGTCCAAA
1 CAGCTTATATGGCAATCTCAAGTGATAAAGCGTCCAAA
36187474 CAATACTATA
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
76 12 0.11
78 93 0.89
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (78 bp):
CAGCTTATATGGCAATCTCAAGTGATAAAGCGTCCAAAAGACGCTACAAACTATCATAGCTTATA
TGACATTCTTAAA
Found at i:36191999 original size:39 final size:40
Alignment explanation
Indices: 36191948--36192031 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
36191938 AATAATTAAA
*
36191948 AAATA-GTTAATTAACTAATC-ATATATGGGAATAAAATC
1 AAATACGTAAATTAACTAATCTATATATGGGAATAAAATC
* * * *
36191986 AAATACGTAAATTAACTACTCTATTTTTGGTAATAAAATC
1 AAATACGTAAATTAACTAATCTATATATGGGAATAAAATC
*
36192026 ACATAC
1 AAATAC
36192032 ACCGATACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 5 0.13
39 13 0.34
40 20 0.53
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.33
Consensus pattern (40 bp):
AAATACGTAAATTAACTAATCTATATATGGGAATAAAATC
Found at i:36196007 original size:3 final size:3
Alignment explanation
Indices: 36195999--36196030 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
36195989 ATCCCCCCAG
36195999 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
36196031 CAAAAGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:36203315 original size:64 final size:64
Alignment explanation
Indices: 36203214--36203341 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
36203204 TTTCAAAAGT
*
36203214 AATGTTTACTTATTTTATTTTTGAAAATATATATATATTCAGATTATAGTTAATAAATATGAAA
1 AATGTTTACTTATTCTATTTTTGAAAATATATATATATTCAGATTATAGTTAATAAATATGAAA
36203278 AATGTTTACTTATTCTATTTTTGAAAATATATATATATTCAGATTATAGTTAATAAATATGAAA
1 AATGTTTACTTATTCTATTTTTGAAAATATATATATATTCAGATTATAGTTAATAAATATGAAA
36203342 TATTGATCTT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (64 bp):
AATGTTTACTTATTCTATTTTTGAAAATATATATATATTCAGATTATAGTTAATAAATATGAAA
Found at i:36209147 original size:18 final size:19
Alignment explanation
Indices: 36209077--36209145 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 19
36209067 CAGAACCCCT
* *
36209077 AAACCCTAGAAATTAAATA
1 AAACCCTACAAAATAAATA
* *
36209096 AAACCCTACAACCTATAATTAA
1 AAACCCTACAA--AATAAAT-A
36209118 TAAACACCTA-AAAATAAATA
1 -AAAC-CCTACAAAATAAATA
36209138 AAACCCTA
1 AAACCCTA
36209146 AACCTAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
18 4 0.10
19 14 0.36
20 1 0.03
21 9 0.23
22 1 0.03
23 6 0.15
24 4 0.10
ACGTcount: A:0.57, C:0.22, G:0.01, T:0.20
Consensus pattern (19 bp):
AAACCCTACAAAATAAATA
Found at i:36209153 original size:18 final size:18
Alignment explanation
Indices: 36209090--36209153 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 18
36209080 CCCTAGAAAT
36209090 TAAATAAAACCCTACAACC
1 TAAATAAAACCCTA-AACC
**
36209109 TATAATTAATAAACACCTAAAAA
1 TA-AA-T-A-AAAC-CCTAAACC
36209132 TAAATAAAACCCTAAACC
1 TAAATAAAACCCTAAACC
36209150 TAAA
1 TAAA
36209154 CACTGACAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
18 10 0.28
19 6 0.17
20 3 0.08
21 2 0.06
22 3 0.08
23 8 0.22
24 4 0.11
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.20
Consensus pattern (18 bp):
TAAATAAAACCCTAAACC
Found at i:36209154 original size:32 final size:32
Alignment explanation
Indices: 36209118--36209180 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
36209108 CTATAATTAA
* *
36209118 TAAACACCT-AAAAATAAATAAAACCCTAAACC
1 TAAACA-CTGAAAAATAAAAAAAAACCTAAACC
*
36209150 TAAACACTGACAAATAAAAAAAAACCTAAAC
1 TAAACACTGAAAAATAAAAAAAAACCTAAAC
36209181 TTTAATTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.62, C:0.22, G:0.02, T:0.14
Consensus pattern (32 bp):
TAAACACTGAAAAATAAAAAAAAACCTAAACC
Found at i:36211923 original size:11 final size:11
Alignment explanation
Indices: 36211909--36211952 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
36211899 TTCTGTTTTT
36211909 TTATTTGTTTA
1 TTATTTGTTTA
*
36211920 TTATTTGTTTT
1 TTATTTGTTTA
*
36211931 TCTATTTATTTA
1 T-TATTTGTTTA
36211943 TTATTTGTTT
1 TTATTTGTTT
36211953 TATAATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (11 bp):
TTATTTGTTTA
Found at i:36211936 original size:23 final size:23
Alignment explanation
Indices: 36211902--36211953 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
36211892 GTCTTTTTTC
* *
36211902 TGTTTTTTTATTTGTTTATTATT
1 TGTTTTTCTATTTATTTATTATT
36211925 TGTTTTTCTATTTATTTATTATT
1 TGTTTTTCTATTTATTTATTATT
36211948 TGTTTT
1 TGTTTT
36211954 ATAATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.13, C:0.02, G:0.08, T:0.77
Consensus pattern (23 bp):
TGTTTTTCTATTTATTTATTATT
Found at i:36211954 original size:12 final size:12
Alignment explanation
Indices: 36211902--36211955 Score: 60
Period size: 11 Copynumber: 4.7 Consensus size: 12
36211892 GTCTTTTTTC
*
36211902 TGTTTTTTTATT
1 TGTTTTATTATT
36211914 TG-TTTATTATT
1 TGTTTTATTATT
36211925 TGTTTT-TCTATT
1 TGTTTTAT-TATT
*
36211937 T-ATTTATTATT
1 TGTTTTATTATT
36211948 TGTTTTAT
1 TGTTTTAT
36211956 AATATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 19 0.54
12 16 0.46
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (12 bp):
TGTTTTATTATT
Found at i:36213917 original size:22 final size:22
Alignment explanation
Indices: 36213892--36213937 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
36213882 ATGTTTAAAT
**
36213892 TATTTAGATAAATGATTTACCA
1 TATTTAGATAAAAAATTTACCA
**
36213914 TATTTTTATAAAAAATTTACCA
1 TATTTAGATAAAAAATTTACCA
36213936 TA
1 TA
36213938 CAGGATGGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (22 bp):
TATTTAGATAAAAAATTTACCA
Found at i:36218862 original size:9 final size:10
Alignment explanation
Indices: 36218840--36218871 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
36218830 TTGAATAAAC
36218840 AAATATTATA
1 AAATATTATA
36218850 AAATATT-TA
1 AAATATTATA
36218859 AAATATTATA
1 AAATATTATA
36218869 AAA
1 AAA
36218872 CAAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATATTATA
Found at i:36218888 original size:22 final size:22
Alignment explanation
Indices: 36218857--36218898 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36218847 ATAAAATATT
* *
36218857 TAAAATATTATAAAACAAATAA
1 TAAAAAATTAAAAAACAAATAA
36218879 TAAAAAATTAAAAAACAAAT
1 TAAAAAATTAAAAAACAAAT
36218899 TTTCAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAAAAATTAAAAAACAAATAA
Found at i:36218983 original size:23 final size:25
Alignment explanation
Indices: 36218951--36219009 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 25
36218941 AAAATATTAT
* *
36218951 AAAACAAATAATA-ATAAATTAA-A
1 AAAACAAATAATACACAAATAAAGA
*
36218974 AAAACGAATAATACACAAATAAAGA
1 AAAACAAATAATACACAAATAAAGA
36218999 AAAACAAATAA
1 AAAACAAATAA
36219010 AAAAACAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 12 0.40
24 7 0.23
25 11 0.37
ACGTcount: A:0.73, C:0.08, G:0.03, T:0.15
Consensus pattern (25 bp):
AAAACAAATAATACACAAATAAAGA
Found at i:36223630 original size:18 final size:17
Alignment explanation
Indices: 36223585--36223637 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
36223575 CGTGTGGGCT
*
36223585 CACACGGGTATGTAGGC
1 CACACGGGCATGTAGGC
* *
36223602 CACACGAGCATGTATGC
1 CACACGGGCATGTAGGC
*
36223619 CTACACGGGCATGTGGGC
1 C-ACACGGGCATGTAGGC
36223637 C
1 C
36223638 CATTATGTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.23, C:0.28, G:0.32, T:0.17
Consensus pattern (17 bp):
CACACGGGCATGTAGGC
Found at i:36224160 original size:35 final size:35
Alignment explanation
Indices: 36224086--36224161 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
36224076 CTATAACTAC
* *
36224086 ATCTGTATCTGAAATAGGCTCTGGCCCGAATCTGT
1 ATCTGTATCTGAAATAGGCTCAGGCCCGAATCTGA
* * * * *
36224121 ATCTGTATCTGACATGGGCTCAGGCTCGATTGTGA
1 ATCTGTATCTGAAATAGGCTCAGGCCCGAATCTGA
36224156 ATCTGT
1 ATCTGT
36224162 GTGATTTGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (35 bp):
ATCTGTATCTGAAATAGGCTCAGGCCCGAATCTGA
Found at i:36225586 original size:14 final size:15
Alignment explanation
Indices: 36225567--36225595 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36225557 TTACCTTCTA
36225567 GAGCAAG-TATGTGG
1 GAGCAAGCTATGTGG
36225581 GAGCAAGCTATGTGG
1 GAGCAAGCTATGTGG
36225596 ATGCTCGCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.10, G:0.41, T:0.21
Consensus pattern (15 bp):
GAGCAAGCTATGTGG
Found at i:36232266 original size:18 final size:18
Alignment explanation
Indices: 36232230--36232264 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36232220 GCCGAAATTT
36232230 CAAAAAAAAAGAATAAAA
1 CAAAAAAAAAGAATAAAA
*
36232248 CAAAAACAAA-AATAAAA
1 CAAAAAAAAAGAATAAAA
36232265 ACTGATAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.83, C:0.09, G:0.03, T:0.06
Consensus pattern (18 bp):
CAAAAAAAAAGAATAAAA
Found at i:36240024 original size:4 final size:4
Alignment explanation
Indices: 36240015--36240044 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
36240005 CCTGCAAAAG
*
36240015 AATA AATA AATA AATA AATG AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
36240045 AGAGGCTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:36247388 original size:28 final size:28
Alignment explanation
Indices: 36247320--36247411 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 28
36247310 AAACAAACAA
* * *
36247320 CAAAATTTAAAAAAAACGACAACAACAG
1 CAAAATTTAAAATAAACGATAACACCAG
* *
36247348 C-AAATTCAAAATAAATGATAACACCAG
1 CAAAATTTAAAATAAACGATAACACCAG
* **
36247375 CAAAATTTAAAATAAAGGAT-ACACTTG
1 CAAAATTTAAAATAAACGATAACACCAG
36247402 -AAAATTTAAA
1 CAAAATTTAAA
36247412 CACATGCTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.19
27 27 0.50
28 17 0.31
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.20
Consensus pattern (28 bp):
CAAAATTTAAAATAAACGATAACACCAG
Found at i:36264306 original size:15 final size:15
Alignment explanation
Indices: 36264286--36264337 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
36264276 ACTACAAAAC
36264286 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
36264301 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
36264320 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
36264335 ATT
1 ATT
36264338 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:36264431 original size:18 final size:18
Alignment explanation
Indices: 36264393--36264428 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36264383 TTGTTATTTT
*
36264393 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
36264411 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
36264429 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:36264434 original size:34 final size:32
Alignment explanation
Indices: 36264392--36264468 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
36264382 TTTGTTATTT
*
36264392 TTAA-AATTTATTATTAAAATAA-AATTTAAATA
1 TTAATAATTTATTATTAAAATAATAAATT--ATA
36264424 TTAAATAA--T-TTATTAAAATAATAAATTATA
1 TT-AATAATTTATTATTAAAATAATAAATTATA
36264454 TTAATAATTTATTAT
1 TTAATAATTTATTAT
36264469 ATGACTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
29 5 0.13
30 5 0.13
31 13 0.34
32 11 0.29
33 2 0.05
34 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
TTAATAATTTATTATTAAAATAATAAATTATA
Found at i:36264467 original size:16 final size:16
Alignment explanation
Indices: 36264421--36264470 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
36264411 TAAAATTTAA
36264421 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
36264438 A-A--AATAATAAATT
1 ATATTAATAATTTATT
36264451 ATATTAATAATTTATT
1 ATATTAATAATTTATT
36264467 ATAT
1 ATAT
36264471 GACTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:36264478 original size:29 final size:30
Alignment explanation
Indices: 36264402--36264467 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
36264392 TTAAAATTTA
*
36264402 TTATTAAAATAA-AATTTAAATATTAAATAAT
1 TTATTAAAATAATAAATT--ATATTAAATAAT
36264433 TTATTAAAATAATAAATTATATT-AATAAT
1 TTATTAAAATAATAAATTATATTAAATAAT
36264462 TTATTA
1 TTATTA
36264468 TATGACTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 12 0.36
30 5 0.15
31 12 0.36
32 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TTATTAAAATAATAAATTATATTAAATAAT
Found at i:36265281 original size:99 final size:99
Alignment explanation
Indices: 36265178--36265373 Score: 356
Period size: 99 Copynumber: 2.0 Consensus size: 99
36265168 AAATTTAGCC
*
36265178 AAAAAACACCTCCACTTAGAAGAGAATGACTGGAAGGGAGCAGAGAGCACAACGCTGGCGTCGGA
1 AAAAAACACCTCCACTTAGAAGAGAATGACTGGAAGGGAGCAGAGAGCACAACGCTAGCGTCGGA
*
36265243 AAAAACACAGAGGCAGCAGGTGAAGGCCACGCCA
66 AAAAACACAGAGGCAGCAAGTGAAGGCCACGCCA
* *
36265277 AAAAAACACCTCCACTTAGAAGAGAATGACTGGAAGGGAGCAGAGAGCACAGCGTTAGCGTCGGA
1 AAAAAACACCTCCACTTAGAAGAGAATGACTGGAAGGGAGCAGAGAGCACAACGCTAGCGTCGGA
36265342 AAAAACACAGAGGCAGCAAGTGAAGGCCACGC
66 AAAAACACAGAGGCAGCAAGTGAAGGCCACGC
36265374 ACGACACGTG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.40, C:0.22, G:0.29, T:0.09
Consensus pattern (99 bp):
AAAAAACACCTCCACTTAGAAGAGAATGACTGGAAGGGAGCAGAGAGCACAACGCTAGCGTCGGA
AAAAACACAGAGGCAGCAAGTGAAGGCCACGCCA
Found at i:36266742 original size:1 final size:1
Alignment explanation
Indices: 36266736--36266773 Score: 67
Period size: 1 Copynumber: 38.0 Consensus size: 1
36266726 ACGACCTTCC
*
36266736 TTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
36266774 ACCTCTTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:36270252 original size:23 final size:23
Alignment explanation
Indices: 36270212--36270281 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
36270202 CTAAAATGCC
* * *
36270212 AGTAATAAAAGCACCGAAGTGCT
1 AGTAATAGAAGTACCGAAGTACT
*
36270235 AGTAATAGAAGTATCGAAGTACT
1 AGTAATAGAAGTACCGAAGTACT
* * **
36270258 AATAACAGAAGTACAAAAGTACT
1 AGTAATAGAAGTACCGAAGTACT
36270281 A
1 A
36270282 TGCCTGAAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.20
Consensus pattern (23 bp):
AGTAATAGAAGTACCGAAGTACT
Found at i:36271973 original size:36 final size:36
Alignment explanation
Indices: 36271926--36272001 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
36271916 ATATGCGTCA
36271926 AACACACTTTAACATAGATTTAACATAAAGTAAATT
1 AACACACTTTAACATAGATTTAACATAAAGTAAATT
36271962 AACACACTTTAACATAGATTTAACATAAAGTAAATT
1 AACACACTTTAACATAGATTTAACATAAAGTAAATT
36271998 AACA
1 AACA
36272002 TAAATGTCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.29
Consensus pattern (36 bp):
AACACACTTTAACATAGATTTAACATAAAGTAAATT
Found at i:36285131 original size:42 final size:43
Alignment explanation
Indices: 36285070--36285169 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 43
36285060 AATTTGAGAT
* * * *
36285070 TTACGTGTAATACCATGTCTGGGACATAGGGATCG-TATCTG-A
1 TTACATGTAAGACCATGTCTGGGACAGAGGCATCGATA-CTGAA
* *
36285112 TTTCATGTAAGACCTTGTCTGGGACAGAGGCATCGATACTGAA
1 TTACATGTAAGACCATGTCTGGGACAGAGGCATCGATACTGAA
*
36285155 TTACATGTAGGACCA
1 TTACATGTAAGACCA
36285170 CATCCGGGAC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 32 0.68
43 15 0.32
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGAGGCATCGATACTGAA
Found at i:36289442 original size:40 final size:40
Alignment explanation
Indices: 36289405--36289585 Score: 192
Period size: 40 Copynumber: 4.5 Consensus size: 40
36289395 GCTACTCGTT
*
36289405 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
36289445 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTTATAGTAACTCGCA
* * *
36289485 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
36289524 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
36289565 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
36289586 TGGACATCAT
Statistics
Matches: 117, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 28 0.24
40 72 0.62
41 14 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:36289573 original size:79 final size:80
Alignment explanation
Indices: 36289405--36289585 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
36289395 GCTACTCGTT
* * *
36289405 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCAG
* *
36289470 ATTTAGTAACTCGCAC
65 ATATAGTAACTAGCAC
* ** *
36289486 CAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCA
* *
36289548 GATATGGTCACTTAGCA-
64 GATATAGTAAC-TAGCAC
36289565 CAAAGCCTTCGGGACTTAGCC
1 CAAAGCCTTCGGGACTTAGCC
36289586 TGGACATCAT
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
78 4 0.05
79 57 0.68
80 20 0.24
81 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCAGA
TATAGTAACTAGCAC
Found at i:36292733 original size:19 final size:19
Alignment explanation
Indices: 36292709--36292752 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
36292699 TAAAAGCAAC
36292709 ACAACATCAACT-CAAATAA
1 ACAACAT-AACTCCAAATAA
* *
36292728 ACAACATGATTCCAAATAA
1 ACAACATAACTCCAAATAA
36292747 ACAACA
1 ACAACA
36292753 AAAATAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.57, C:0.25, G:0.02, T:0.16
Consensus pattern (19 bp):
ACAACATAACTCCAAATAA
Found at i:36295547 original size:91 final size:91
Alignment explanation
Indices: 36295410--36295845 Score: 658
Period size: 91 Copynumber: 4.7 Consensus size: 91
36295400 TATAATAGTA
* * *
36295410 TGTTAAACTACATTTTAAACTTTAAAGTTAGTTAATTGAAGTCTAAATTAATATAATAGTACAAT
1 TGTTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAAT
36295475 AGCATAAATTAAACAAAAAAAAAGTC
66 AGCATAAATTAAACAAAAAAAAAGTC
* * * *
36295501 TGTTAAGCTACCGTTTAAACTTTAAAGTTAGTTAATTGGAGCCTAAATTAATATAATAGTACAAG
1 TGTTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAA-
36295566 TACAACAGCATAAATTAAACAAAAAAAAAAGT-
65 T-----AGCATAAATTAAAC-AAAAAAAAAGTC
* * *
36295598 TACCTTAGACTACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACA
1 T--GTTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACA
*
36295663 ATAGCATAAATTAAACAAAAAAAATGTC
64 ATAGCATAAATTAAACAAAAAAAAAGTC
*
36295691 TGTTAAACCACAGTTTAAACTTTAAAGTTAATTAATTGAAGCCTAAATTAATATAATAGTACAAT
1 TGTTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAAT
*
36295756 AGCATAAATTAAACAAAAAAAATGTC
66 AGCATAAATTAAACAAAAAAAAAGTC
*
36295782 TGTTAAACCACAGTTTAAACTTTAAAGTTAATTAATTGAAGCCTAAATTAATATAATAGTACAA
1 TGTTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAA
36295846 CATAAATTAA
Statistics
Matches: 320, Mismatches: 15, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
91 209 0.65
92 11 0.03
93 15 0.05
97 15 0.05
98 12 0.04
99 58 0.18
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (91 bp):
TGTTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAAT
AGCATAAATTAAACAAAAAAAAAGTC
Found at i:36295746 original size:190 final size:182
Alignment explanation
Indices: 36295412--36295845 Score: 663
Period size: 190 Copynumber: 2.3 Consensus size: 182
36295402 TAATAGTATG
* *
36295412 TTAAACTACATTTTAAACTTTAAAGTTAGTTAATTGAAGTCTAAATTAATATAATAGTACAATAG
1 TTAAACTACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAG
* * * * *
36295477 CATAAATTAAACAAAAAAAAAGTCTGTTAAGCTACCGTTTAAACTTTAAAGTTAGTTAATTGGAG
66 CATAAATTAAACAAAAAAAAAGTCTGTTAAACCACAGTTTAAACTTTAAAGTTAATTAATTGAAG
36295542 CCTAAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAAAAGT-TACC
131 CCTAAATTAATATAATAGTACAA-T-----AGCATAAATTAAAC-AAAAAAAAAGTCT--C
*
36295602 TTAGACTACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAG
1 TTAAACTACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAG
*
36295667 CATAAATTAAACAAAAAAAATGTCTGTTAAACCACAGTTTAAACTTTAAAGTTAATTAATTGAAG
66 CATAAATTAAACAAAAAAAAAGTCTGTTAAACCACAGTTTAAACTTTAAAGTTAATTAATTGAAG
* *
36295732 CCTAAATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAATGTCTG
131 CCTAAATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAAGTCTC
* *
36295784 TTAAACCACAGTTTAAACTTTAAAGTTAATTAATTGAAGCCTAAATTAATATAATAGTACAA
1 TTAAACTACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAA
36295846 CATAAATTAA
Statistics
Matches: 229, Mismatches: 14, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
182 59 0.26
183 10 0.04
184 15 0.07
189 1 0.00
190 144 0.63
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (182 bp):
TTAAACTACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAG
CATAAATTAAACAAAAAAAAAGTCTGTTAAACCACAGTTTAAACTTTAAAGTTAATTAATTGAAG
CCTAAATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAAGTCTC
Found at i:36296178 original size:17 final size:17
Alignment explanation
Indices: 36296156--36296196 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
36296146 ATTTTTTCTC
*
36296156 TATTACTAATATTATAT
1 TATTACTAATATTACAT
36296173 TATTACTAATATTACAT
1 TATTACTAATATTACAT
36296190 TATTACT
1 TATTACT
36296197 TTGGGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTACTAATATTACAT
Found at i:36296590 original size:19 final size:19
Alignment explanation
Indices: 36296566--36296627 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
36296556 GGAGAAGGAA
36296566 AATAGAGCAAAAATCATTC
1 AATAGAGCAAAAATCATTC
* * * *
36296585 AATAGAGTGAAACA-GATGC
1 AATAGAG-CAAAAATCATTC
*
36296604 AAATAGAGCTAAAATCATTC
1 -AATAGAGCAAAAATCATTC
36296624 AATA
1 AATA
36296628 ATTAAAAAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.21
Consensus pattern (19 bp):
AATAGAGCAAAAATCATTC
Found at i:36299640 original size:21 final size:22
Alignment explanation
Indices: 36299601--36299641 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36299591 TTGAATTGGT
*
36299601 CACACGGGTGTGTTGCCCCTCC
1 CACACGGGTATGTTGCCCCTCC
36299623 CACACGGGTATG-TGCCCCT
1 CACACGGGTATGTTGCCCCT
36299642 ATGTCTAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.39, G:0.27, T:0.22
Consensus pattern (22 bp):
CACACGGGTATGTTGCCCCTCC
Found at i:36300652 original size:20 final size:20
Alignment explanation
Indices: 36300627--36300664 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36300617 CTTGCAAATC
36300627 ACCATAATCTTTCACAACAT
1 ACCATAATCTTTCACAACAT
* *
36300647 ACCATAGTCTTTCCCAAC
1 ACCATAATCTTTCACAAC
36300665 TATAACATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.03, T:0.29
Consensus pattern (20 bp):
ACCATAATCTTTCACAACAT
Found at i:36300861 original size:42 final size:42
Alignment explanation
Indices: 36300750--36300871 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
36300740 TACCATACCA
* * *
36300750 ATGCCATATCCCAGATATGATCTTACATGTGATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
* * * * *
36300792 ATTCCAAGAGCCCAGCTATGGTCTTACATGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAATCTCATATCG
36300835 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
36300872 ACTAACCCTA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:36308120 original size:43 final size:43
Alignment explanation
Indices: 36308073--36308196 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 43
36308063 TATCACTTAT
* * *
36308073 CGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCA-AATAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT-A
* * * * *
36308116 CGATGCCAATGTCCCAAACATAGTTTTACGCGTAACCACAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATA
* *
36308159 CAATGCCAATGTCCCAGACATGGTCTTACTCGTAATCA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
36308197 TATCTCGGTA
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
43 63 0.95
44 3 0.05
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATA
Found at i:36311410 original size:49 final size:49
Alignment explanation
Indices: 36311320--36311445 Score: 173
Period size: 49 Copynumber: 2.6 Consensus size: 49
36311310 AGATGCCGAC
* * *
36311320 GCCATATCCCAGACATGGTCTTACACTGGATTTCTTATATCGAG-GTCGAT
1 GCCATGTCCCAAACA-GGTCTTACACTGGATTTCATATATCG-GTGTCGAT
* * *
36311370 GTCATGTCCCAAACAGGTCTTACACTGGCTTTCATCTATCGGTGTCGAT
1 GCCATGTCCCAAACAGGTCTTACACTGGATTTCATATATCGGTGTCGAT
36311419 GCCATGTCCCAAACAGGTCTTACACTG
1 GCCATGTCCCAAACAGGTCTTACACTG
36311446 ACACACAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 1 0.01
49 55 0.81
50 12 0.18
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
GCCATGTCCCAAACAGGTCTTACACTGGATTTCATATATCGGTGTCGAT
Found at i:36312320 original size:26 final size:24
Alignment explanation
Indices: 36312284--36312331 Score: 78
Period size: 26 Copynumber: 1.9 Consensus size: 24
36312274 CTATTAACCA
36312284 TTACTATTTCTAAAACTTTCTAAAAC
1 TTACTATTTCTAAAA-TTT-TAAAAC
36312310 TTACTATTTCTAAAATTTTAAA
1 TTACTATTTCTAAAATTTTAAA
36312332 TCTTCAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.18
25 3 0.14
26 15 0.68
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (24 bp):
TTACTATTTCTAAAATTTTAAAAC
Found at i:36312321 original size:16 final size:17
Alignment explanation
Indices: 36312300--36312359 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 17
36312290 TTTCTAAAAC
36312300 TTTCTAAAA-CTTACTA
1 TTTCTAAAACCTTACTA
** *
36312316 TTTCTAAAATTTTA-AA
1 TTTCTAAAACCTTACTA
36312332 TCTTC-AAAACCCTTACTA
1 T-TTCTAAAA-CCTTACTA
36312350 TTTCTAAAAC
1 TTTCTAAAAC
36312360 TTTTGGTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
16 15 0.44
17 13 0.38
18 6 0.18
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTCTAAAACCTTACTA
Found at i:36319187 original size:49 final size:49
Alignment explanation
Indices: 36319097--36319222 Score: 164
Period size: 49 Copynumber: 2.6 Consensus size: 49
36319087 AGATGCCGAC
* * *
36319097 GCCATATCCCAGACATGGTCTTACACTGGATTTCTTATATCGAG-GTCGAT
1 GCCATGTCCCAAACA-GGTCTTACACTGGATTTCATATATCG-GTGTCGAT
* * * *
36319147 GTCGTGTCCCAAACAGGTCTTACACTGGCTTTCATCTATCGGTGTCGAT
1 GCCATGTCCCAAACAGGTCTTACACTGGATTTCATATATCGGTGTCGAT
36319196 GCCATGTCCCAAACAGGTCTTACACTG
1 GCCATGTCCCAAACAGGTCTTACACTG
36319223 ACACACAATA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 54 0.82
50 11 0.17
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (49 bp):
GCCATGTCCCAAACAGGTCTTACACTGGATTTCATATATCGGTGTCGAT
Found at i:36326008 original size:17 final size:19
Alignment explanation
Indices: 36325981--36326015 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
36325971 TAGAAGTGAA
36325981 TGGATAGGTTT-AAATAAG
1 TGGATAGGTTTCAAATAAG
36325999 TGGA-AGGTTTCAAATAA
1 TGGATAGGTTTCAAATAA
36326016 ATGTAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (19 bp):
TGGATAGGTTTCAAATAAG
Found at i:36328519 original size:43 final size:43
Alignment explanation
Indices: 36328350--36328519 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 43
36328340 ATAAAGCTCG
* * * * *
36328350 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-T
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* * * * * *
36328391 TATCGATGCCACTGTCCCAGATAGGGTCTTACACGAAATC-GAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* *
36328434 TAACGATGCCAATGTCCCAAACATGGTCTTACACGTAATCACAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* *
36328478 TACAATGCCAATGTCCCAGACACGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
36328520 TCTCGGTAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 93 0.89
44 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
Found at i:36350389 original size:17 final size:18
Alignment explanation
Indices: 36350361--36350394 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
36350351 TCTTTAGGTT
36350361 CACAATTTCACAAACAAA
1 CACAATTTCACAAACAAA
36350379 CACAA-TTCACAAACAA
1 CACAATTTCACAAACAA
36350395 TTGAAGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (18 bp):
CACAATTTCACAAACAAA
Found at i:36353075 original size:35 final size:35
Alignment explanation
Indices: 36353035--36353132 Score: 162
Period size: 35 Copynumber: 2.8 Consensus size: 35
36353025 AAATGCTTAC
*
36353035 AAGAGCTAGTCCAACTGTAACACACCAATACTCAT
1 AAGAGCTAGTCCAACTGAAACACACCAATACTCAT
*
36353070 AAGAGCTAGTCCAACCGAAACACACCAATACTCAT
1 AAGAGCTAGTCCAACTGAAACACACCAATACTCAT
36353105 AAGAGCTAGTCCAA-TCGAAACACACCAA
1 AAGAGCTAGTCCAACT-GAAACACACCAA
36353133 AGAGAGAGTA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.43, C:0.30, G:0.12, T:0.15
Consensus pattern (35 bp):
AAGAGCTAGTCCAACTGAAACACACCAATACTCAT
Found at i:36353321 original size:36 final size:36
Alignment explanation
Indices: 36353272--36353346 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
36353262 ATCCCTCGTT
* * *
36353272 CAATCTAATCTGAACATTACATTCAATAACATTTCA
1 CAATCTAAACTGAACATCAAATTCAATAACATTTCA
36353308 CAATCTAAACTGAACATCAAATTCAATAACATTTCA
1 CAATCTAAACTGAACATCAAATTCAATAACATTTCA
36353344 CAA
1 CAA
36353347 ATATTCTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.29
Consensus pattern (36 bp):
CAATCTAAACTGAACATCAAATTCAATAACATTTCA
Found at i:36353490 original size:35 final size:35
Alignment explanation
Indices: 36353441--36353557 Score: 146
Period size: 35 Copynumber: 3.3 Consensus size: 35
36353431 AATCCTTCTA
* * *
36353441 AAACACATCAAATACTTATAAGAGCTAGTCTAACAG
1 AAACACA-CCAATACTCATAAGAGCTAGTCCAACAG
* * *
36353477 TAACACGCCAATACTCATAAGAGCTAGTCCAACCG
1 AAACACACCAATACTCATAAGAGCTAGTCCAACAG
*
36353512 AAACACACCAATGCTCATAAGAGCTAGTCCAATC-G
1 AAACACACCAATACTCATAAGAGCTAGTCCAA-CAG
36353547 AAACACACCAA
1 AAACACACCAA
36353558 AGAGAGAGTA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
35 65 0.92
36 6 0.08
ACGTcount: A:0.44, C:0.27, G:0.12, T:0.17
Consensus pattern (35 bp):
AAACACACCAATACTCATAAGAGCTAGTCCAACAG
Found at i:36360693 original size:46 final size:45
Alignment explanation
Indices: 36360516--36360693 Score: 119
Period size: 46 Copynumber: 3.8 Consensus size: 45
36360506 TGTGTGAGCT
* * ***
36360516 AGTGTAAGACATGTGTGGGACATGCATCAGCCAC-ATTTTGAAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGACT--AAGCC
* * * * *
36360562 AGTGTAAAACCATGTTTGGGACATGACATCGGC-ATCGAGACGAGTGCT
1 AGTGTAAGA-CATGTTTGGGACATG-CATCAGCTA-CGAGACTA-AGCC
* * ** *
36360610 AGTATAAGACATGTTTAGGACATGTTTCGGTCT-CGAGACCTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAG-CTACGAGA-CTAAGCC
*
36360656 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGA
1 AGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGA
36360694 TGTGTCAGTG
Statistics
Matches: 100, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
45 2 0.02
46 48 0.48
47 33 0.33
48 16 0.16
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGACTAAGCC
Found at i:36360723 original size:34 final size:34
Alignment explanation
Indices: 36360676--36360747 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
36360666 ATGTCTGGGA
36360676 CATGCATCAGCTACGAGATGTGTCAGTGTAAGAC
1 CATGCATCAGCTACGAGATGTGTCAGTGTAAGAC
*
36360710 CATGCATCGGCTACGAGATGTGTCAGTGTAAGAC
1 CATGCATCAGCTACGAGATGTGTCAGTGTAAGAC
36360744 CATG
1 CATG
36360748 TCTGGGACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (34 bp):
CATGCATCAGCTACGAGATGTGTCAGTGTAAGAC
Found at i:36362130 original size:16 final size:15
Alignment explanation
Indices: 36362087--36362128 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
36362077 TTAATTTAGT
*
36362087 ACTTAATTTTTTAAT
1 ACTTAATTTTTTAAC
*
36362102 ATTTAATTTTTTAAC
1 ACTTAATTTTTTAAC
36362117 ACTTAATTTTTT
1 ACTTAATTTTTT
36362129 TAGTTTATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
ACTTAATTTTTTAAC
Found at i:36365976 original size:10 final size:10
Alignment explanation
Indices: 36365946--36366057 Score: 72
Period size: 10 Copynumber: 11.5 Consensus size: 10
36365936 ATAAAATATT
*
36365946 AAAATATTAA
1 AAAATATAAA
* *
36365956 AAATTAGAAA
1 AAAATATAAA
36365966 AAAATAT--A
1 AAAATATAAA
*
36365974 AAAATCGTAAA
1 AAAAT-ATAAA
36365985 AAAATATAAA
1 AAAATATAAA
*
36365995 AAAAT-TATA
1 AAAATATAAA
* * *
36366004 AAATTTTACA
1 AAAATATAAA
*
36366014 AAAATCGTAAA
1 AAAAT-ATAAA
36366025 AAAAT-T-AA
1 AAAATATAAA
*
36366033 AAAATATATA
1 AAAATATAAA
*
36366043 GAAATATAAA
1 AAAATATAAA
36366053 AAAAT
1 AAAAT
36366058 TTATAAAATT
Statistics
Matches: 78, Mismatches: 17, Indels: 14
0.72 0.16 0.13
Matches are distributed among these distances:
8 13 0.17
9 10 0.13
10 41 0.53
11 14 0.18
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.25
Consensus pattern (10 bp):
AAAATATAAA
Found at i:36366006 original size:19 final size:19
Alignment explanation
Indices: 36365870--36366065 Score: 82
Period size: 19 Copynumber: 10.3 Consensus size: 19
36365860 ATGCTTTTAT
*
36365870 TAAAAATTAGAAAAAACATTA
1 TAAAAA-TATAAAAAA-ATTA
36365891 TAAAAA-ATTAAAAACAA-TA
1 TAAAAATA-TAAAAA-AATTA
* *
36365910 -AAAGATAT--AAATATTA
1 TAAAAATATAAAAAAATTA
* * * *
36365926 TTAAATTTTAATAAAA-TA
1 TAAAAATATAAAAAAATTA
* *
36365944 TTAAAATAT-TAAAAATTA
1 TAAAAATATAAAAAAATTA
* * *
36365962 GAAAAAAATATAAAAATCGTA
1 TAAAAATATAAAAAAAT--TA
*
36365983 AAAAAATATAAAAAAATTA
1 TAAAAATATAAAAAAATTA
* * * **
36366002 TAAAATTTTACAAAAATCG
1 TAAAAATATAAAAAAATTA
* *
36366021 TAAAAAAATTAAAAAATATA
1 TAAAAATATAAAAAAAT-TA
*
36366041 TAGAAATATAAAAAAATTTA
1 TAAAAATATAAAAAAA-TTA
36366061 TAAAA
1 TAAAA
36366066 TTTTATAAAA
Statistics
Matches: 126, Mismatches: 36, Indels: 27
0.67 0.19 0.14
Matches are distributed among these distances:
15 1 0.01
16 5 0.04
17 8 0.06
18 22 0.17
19 41 0.33
20 25 0.20
21 24 0.19
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
TAAAAATATAAAAAAATTA
Found at i:36366017 original size:30 final size:29
Alignment explanation
Indices: 36365945--36366112 Score: 110
Period size: 29 Copynumber: 5.8 Consensus size: 29
36365935 AATAAAATAT
* * *
36365945 TAAAATATT-AAAAATTAGAAAAAAA-TA
1 TAAAATTTTAAAAAAATATAAAAAAATTA
**
36365972 TAAAAATCGTAAAAAAATATAAAAAAATTA
1 T-AAAATTTTAAAAAAATATAAAAAAATTA
* *
36366002 TAAAATTTTACAAAAATCGTAAAAAAATTA
1 TAAAATTTTAAAAAAAT-ATAAAAAAATTA
* * * *
36366032 -AAAAATATATAGAAATATAAAAAAATTTA
1 TAAAATTTTAAAAAAATATAAAAAAA-TTA
* * *
36366061 TAAAATTTT-ATAAAATCCTAAGAAAATTA
1 TAAAATTTTAAAAAAAT-ATAAAAAAATTA
* * *
36366090 TACAAAATGTAAAGAAATATAAA
1 TA-AAATTTTAAAAAAATATAAA
36366113 TTTTGTAATT
Statistics
Matches: 106, Mismatches: 26, Indels: 15
0.72 0.18 0.10
Matches are distributed among these distances:
27 1 0.01
28 14 0.13
29 51 0.48
30 35 0.33
31 5 0.05
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (29 bp):
TAAAATTTTAAAAAAATATAAAAAAATTA
Found at i:36366051 original size:58 final size:60
Alignment explanation
Indices: 36365963--36366112 Score: 184
Period size: 58 Copynumber: 2.5 Consensus size: 60
36365953 TAAAAATTAG
* * *
36365963 AAAAAAA-TATA-AAAATCGTAAAAAAATATAAAAAAA-TTATAAAATTTTACAAAAATCGT
1 AAAAAAATTATACAAAAT-ATAAAGAAATATAAAAAAATTTATAAAATTTTA-AAAAATCCT
* *
36366022 AAAAAAATTA-A-AAAATATATAGAAATATAAAAAAATTTATAAAATTTTATAAAATCCT
1 AAAAAAATTATACAAAATATAAAGAAATATAAAAAAATTTATAAAATTTTAAAAAATCCT
* *
36366080 AAGAAAATTATACAAAATGTAAAGAAATATAAA
1 AAAAAAATTATACAAAATATAAAGAAATATAAA
36366113 TTTTGTAATT
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
58 32 0.41
59 27 0.34
60 20 0.25
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (60 bp):
AAAAAAATTATACAAAATATAAAGAAATATAAAAAAATTTATAAAATTTTAAAAAATCCT
Found at i:36366065 original size:10 final size:10
Alignment explanation
Indices: 36365970--36366075 Score: 56
Period size: 10 Copynumber: 10.7 Consensus size: 10
36365960 TAGAAAAAAA
*
36365970 TATAAAAATCG
1 TATAAAAAT-T
* *
36365981 TAAAAAAATA
1 TATAAAAATT
*
36365991 TA-AAAAAAT
1 TATAAAAATT
*
36366000 TATAAAATTT
1 TATAAAAATT
* *
36366010 TACAAAAATCG
1 TATAAAAAT-T
*
36366021 TA-AAAAAAT
1 TATAAAAATT
*
36366030 TA-AAAAATA
1 TATAAAAATT
* *
36366039 TATAGAAATA
1 TATAAAAATT
*
36366049 TAAAAAAATT
1 TATAAAAATT
*
36366059 TATAAAATTT
1 TATAAAAATT
36366069 TATAAAA
1 TATAAAA
36366076 TCCTAAGAAA
Statistics
Matches: 73, Mismatches: 19, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
9 16 0.22
10 47 0.64
11 10 0.14
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (10 bp):
TATAAAAATT
Found at i:36366322 original size:20 final size:20
Alignment explanation
Indices: 36366299--36366354 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
36366289 AAAATTTTAC
*
36366299 AATTTTTTAATTTTTATTAA
1 AATTTATTAATTTTTATTAA
*
36366319 AATTTAATAATTTTTA-TAA
1 AATTTATTAATTTTTATTAA
*
36366338 AATTTATTATTTTTTAT
1 AATTTATTAATTTTTAT
36366355 AATTTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AATTTATTAATTTTTATTAA
Found at i:36366334 original size:27 final size:27
Alignment explanation
Indices: 36366281--36366333 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
36366271 TTCTTTTATG
*
36366281 ATTTTTATAAAATTTTACAATTTTTTA
1 ATTTTTATAAAATTTAACAATTTTTTA
*
36366308 ATTTTTATTAAAATTTAATAATTTTT
1 ATTTTTA-TAAAATTTAACAATTTTT
36366334 ATAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (27 bp):
ATTTTTATAAAATTTAACAATTTTTTA
Found at i:36366338 original size:19 final size:19
Alignment explanation
Indices: 36366306--36366366 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
36366296 TACAATTTTT
36366306 TAATTTTTATTAAAATTTAA
1 TAATTTTTA-TAAAATTTAA
*
36366326 TAATTTTTATAAAATTTAT
1 TAATTTTTATAAAATTTAA
* **
36366345 TATTTTTTATAATTTTTAA
1 TAATTTTTATAAAATTTAA
36366364 TAA
1 TAA
36366367 AAGCAAGGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
19 26 0.74
20 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TAATTTTTATAAAATTTAA
Found at i:36366533 original size:90 final size:90
Alignment explanation
Indices: 36366365--36366548 Score: 228
Period size: 90 Copynumber: 2.0 Consensus size: 90
36366355 AATTTTTAAT
* * * * * *
36366365 AAAAGCAAGGGCTTAATTGTTTTTTTGAAAAATTTTGAGGGTCTTTTTTATGCAATTTGACAGTT
1 AAAAGCAAGGGCTTAATTGTTTTATTGAAAAAGTTTGAGGGCCTTTTTGATGCAATTTGAAAGTC
*
36366430 TAAGTACCTAATTGAGTG-AAAAAA
66 CAAGTACCTAATTGAGTGCAAAAAA
* * *
36366454 AAAAGCAGGGGCTTAATTGCTTTTATTGAAGAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGT
1 AAAAGCAAGGGCTTAATTG-TTTTATTGAAAAAGTTTGAGGGCCTTTTTGATGCAATTTGAAAGT
* *
36366519 CCAAGT-GCTCAATTGGGTGCAAAAAA
65 CCAAGTACCT-AATTGAGTGCAAAAAA
36366545 AAAA
1 AAAA
36366549 AAGGGAGAGG
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
89 20 0.25
90 50 0.62
91 10 0.12
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (90 bp):
AAAAGCAAGGGCTTAATTGTTTTATTGAAAAAGTTTGAGGGCCTTTTTGATGCAATTTGAAAGTC
CAAGTACCTAATTGAGTGCAAAAAA
Found at i:36367302 original size:15 final size:15
Alignment explanation
Indices: 36367279--36367325 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
36367269 TTGATGTGGA
36367279 TTTAGTTTATAATTT
1 TTTAGTTTATAATTT
* *
36367294 TTTAATTTA-ATTTT
1 TTTAGTTTATAATTT
*
36367308 TTTAGTTTCTATATTT
1 TTTAGTTTATA-ATTT
36367324 TT
1 TT
36367326 CAAATTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 11 0.44
15 9 0.36
16 5 0.20
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (15 bp):
TTTAGTTTATAATTT
Found at i:36368710 original size:27 final size:27
Alignment explanation
Indices: 36368679--36368769 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
36368669 GTCTTAAGTT
36368679 TATTTAATGTGTTCTAATTAGTTCAGC
1 TATTTAATGTGTTCTAATTAGTTCAGC
* *
36368706 AATTTAAAT-TG-TCT--TAAGTT----
1 TATTT-AATGTGTTCTAATTAGTTCAGC
36368726 TATTTAATGTGTTCTAATTAGTTCAGC
1 TATTTAATGTGTTCTAATTAGTTCAGC
* *
36368753 TATTTAATATGTCCTAA
1 TATTTAATGTGTTCTAA
36368770 GTTTATTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
19 3 0.06
20 6 0.12
21 3 0.06
23 5 0.10
24 5 0.10
26 3 0.06
27 21 0.43
28 3 0.06
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (27 bp):
TATTTAATGTGTTCTAATTAGTTCAGC
Found at i:36368723 original size:47 final size:46
Alignment explanation
Indices: 36368661--36368785 Score: 205
Period size: 47 Copynumber: 2.7 Consensus size: 46
36368651 TAGTTTAAGT
36368661 ATTTAATTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGCA
1 ATTTAATTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGCA
*
36368707 ATTTAAATTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGCT
1 ATTT-AATTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGCA
* *
36368754 ATTTAATATGTCCTAAGTTTATTTAATATGTT
1 ATTTAAT-TGTCTTAAGTTTATTTAATGTGTT
36368786 TTAGTTAATA
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
46 7 0.09
47 67 0.91
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (46 bp):
ATTTAATTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGCA
Found at i:36368801 original size:47 final size:47
Alignment explanation
Indices: 36368660--36368821 Score: 204
Period size: 47 Copynumber: 3.5 Consensus size: 47
36368650 TTAGTTTAAG
*
36368660 TATTTAAT-TGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGC
1 TATTTAATATGTCCTAAGTTTATTTAATGTGTTCTAATTAGTTCAGC
* *
36368706 AATTTAA-ATTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGC
1 TATTTAATA-TGTCCTAAGTTTATTTAATGTGTTCTAATTAGTTCAGC
* * * *
36368753 TATTTAATATGTCCTAAGTTTATTTAATATGTTTTAGTTAATAT-AGC
1 TATTTAATATGTCCTAAGTTTATTTAATGTGTTCTAATTAGT-TCAGC
* *
36368800 TACTTAATGTGTCCTAAGTTTA
1 TATTTAATATGTCCTAAGTTTA
36368822 GGCAACTTAG
Statistics
Matches: 103, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
46 6 0.06
47 95 0.92
48 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (47 bp):
TATTTAATATGTCCTAAGTTTATTTAATGTGTTCTAATTAGTTCAGC
Found at i:36383792 original size:42 final size:42
Alignment explanation
Indices: 36383697--36383843 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 42
36383687 CAAATGTCCT
* *
36383697 AGACGTGGTCTTACATGTAATCAAATATCGATGCC-ACTATCCC
1 AGACGTGGTCTTACACGAAATCAAATA-CGATGCCAAC-ATCCC
* ** **
36383740 AAACAAGGTCTTACACGAAATCAAATACGATGCCAACATTTC
1 AGACGTGGTCTTACACGAAATCAAATACGATGCCAACATCCC
*
36383782 AGACGTGGTCTTACACGTAAATCATAAGT-CGATGCCAACGTCCC
1 AGACGTGGTCTTACACG-AAATCA-AA-TACGATGCCAACATCCC
36383826 AGACGTGGTCTTACACGA
1 AGACGTGGTCTTACACGA
36383844 TAACACATAT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 24 0.28
43 31 0.36
44 31 0.36
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
AGACGTGGTCTTACACGAAATCAAATACGATGCCAACATCCC
Found at i:36383829 original size:44 final size:42
Alignment explanation
Indices: 36383697--36383842 Score: 154
Period size: 44 Copynumber: 3.4 Consensus size: 42
36383687 CAAATGTCCT
*
36383697 AGACGTGGTCTTACATGT-AATCAAATATCGATGCC-ACTATCCC
1 AGACGTGGTCTTACACGTAAATC-AA-ATCGATGCCAAC-ATCCC
* ** **
36383740 AAACAAGGTCTTACACG-AAATCAAATACGATGCCAACATTTC
1 AGACGTGGTCTTACACGTAAATCAAAT-CGATGCCAACATCCC
*
36383782 AGACGTGGTCTTACACGTAAATCATAAGTCGATGCCAACGTCCC
1 AGACGTGGTCTTACACGTAAATCA-AA-TCGATGCCAACATCCC
36383826 AGACGTGGTCTTACACG
1 AGACGTGGTCTTACACG
36383843 ATAACACATA
Statistics
Matches: 85, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.02
42 26 0.31
43 25 0.29
44 31 0.36
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
AGACGTGGTCTTACACGTAAATCAAATCGATGCCAACATCCC
Found at i:36394455 original size:18 final size:18
Alignment explanation
Indices: 36394434--36394469 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36394424 AATTCATATC
*
36394434 ACTTTCAATTTCAATTTT
1 ACTTTCAACTTCAATTTT
*
36394452 ACTTTCACCTTCAATTTT
1 ACTTTCAACTTCAATTTT
36394470 GATCACAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (18 bp):
ACTTTCAACTTCAATTTT
Found at i:36401602 original size:20 final size:20
Alignment explanation
Indices: 36401577--36401616 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36401567 AGTTTGATTT
36401577 GTTAAAAGAC-TTTTAACTTG
1 GTTAAAA-ACATTTTAACTTG
*
36401597 GTTAAAATCATTTTAACTTG
1 GTTAAAAACATTTTAACTTG
36401617 ATCTTAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (20 bp):
GTTAAAAACATTTTAACTTG
Found at i:36403414 original size:24 final size:25
Alignment explanation
Indices: 36403387--36403434 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
36403377 ATGTTCTACC
36403387 TTTCACCTTTTAACTTCTT-TAACA
1 TTTCACCTTTTAACTTCTTGTAACA
*
36403411 TTTCACCTTTTATCTTCTTGTAAC
1 TTTCACCTTTTAACTTCTTGTAAC
36403435 CACTTTCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.21, C:0.25, G:0.02, T:0.52
Consensus pattern (25 bp):
TTTCACCTTTTAACTTCTTGTAACA
Found at i:36412854 original size:30 final size:30
Alignment explanation
Indices: 36412818--36412878 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
36412808 TTCCCGAGCC
36412818 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
36412848 TAGGGGCAAAATTGTAATTATTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
36412878 T
1 T
36412879 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:36423832 original size:3 final size:3
Alignment explanation
Indices: 36423824--36423858 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
36423814 TGAATATAGT
36423824 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36423859 TCTTCCATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36428092 original size:41 final size:41
Alignment explanation
Indices: 36428031--36428115 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
36428021 GTAACACCTT
*
36428031 AAACCCGGCCTAGACATTATGGCCGAATTTGAAAATGTTAC
1 AAACCCAGCCTAGACATTATGGCCGAATTTGAAAATGTTAC
* *
36428072 AAACCCAGCCTAGACGTTATGGCCGAATTTGGAAATGTTAC
1 AAACCCAGCCTAGACATTATGGCCGAATTTGAAAATGTTAC
36428113 AAA
1 AAA
36428116 GAAGACAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (41 bp):
AAACCCAGCCTAGACATTATGGCCGAATTTGAAAATGTTAC
Found at i:36439141 original size:23 final size:25
Alignment explanation
Indices: 36439109--36439167 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 25
36439099 ATTTCTAATA
*
36439109 TTTTAGAAAAGA-TAAT-AT-ACTAT
1 TTTTAAAAAAGATTAATAATCACT-T
*
36439132 TTTTAAAAAATATTAATAATCACTT
1 TTTTAAAAAAGATTAATAATCACTT
36439157 TTTCTAAAAAA
1 TTT-TAAAAAA
36439168 ACAAATAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 10 0.33
24 4 0.13
25 6 0.20
26 10 0.33
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (25 bp):
TTTTAAAAAAGATTAATAATCACTT
Found at i:36440121 original size:19 final size:20
Alignment explanation
Indices: 36440097--36440136 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
36440087 AGGGAGAAAG
* *
36440097 TGGGAGAGAGTAAAAA-TTT
1 TGGGAGAAAATAAAAAGTTT
36440116 TGGGAGAAAATAAAAAGTTT
1 TGGGAGAAAATAAAAAGTTT
36440136 T
1 T
36440137 AAGGGTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (20 bp):
TGGGAGAAAATAAAAAGTTT
Found at i:36440352 original size:9 final size:9
Alignment explanation
Indices: 36440338--36440374 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
36440328 TATTGTTTGA
36440338 TATTCGAAT
1 TATTCGAAT
36440347 TATTCGAAT
1 TATTCGAAT
*
36440356 TATTCGAGT
1 TATTCGAAT
36440365 TATTCGAAT
1 TATTCGAAT
36440374 T
1 T
36440375 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:36443480 original size:25 final size:25
Alignment explanation
Indices: 36443451--36443512 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
36443441 AGTGGCAAAG
*
36443451 TATAATTTTTAATAGTTTATATTTT
1 TATAATTTTTAATAGTTTATATCTT
36443476 TATAATTTTTAATAGTTTATATCTT
1 TATAATTTTTAATAGTTTATATCTT
36443501 TATAATTTTTAA
1 TATAATTTTTAA
36443513 AGAATTCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (25 bp):
TATAATTTTTAATAGTTTATATCTT
Found at i:36450199 original size:38 final size:38
Alignment explanation
Indices: 36450139--36450211 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
36450129 AAGACTACCG
* *
36450139 AAGTATCGTCATTGGTATTCCAAGGAGAATGGTAACCA
1 AAGTATCGTCATTAGTAATCCAAGGAGAATGGTAACCA
36450177 AAGTATCGTCATTAGTAATCCAAGGAGAATGGTAA
1 AAGTATCGTCATTAGTAATCCAAGGAGAATGGTAA
36450212 AGGAGTACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (38 bp):
AAGTATCGTCATTAGTAATCCAAGGAGAATGGTAACCA
Found at i:36450322 original size:46 final size:46
Alignment explanation
Indices: 36450271--36450446 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
36450261 TATTTGGGCA
*
36450271 TCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * * *
36450317 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACG
36450364 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * *
36450410 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36450447 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.64
47 37 0.34
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:36450376 original size:93 final size:93
Alignment explanation
Indices: 36450267--36450439 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
36450257 AGGATATTTG
* *
36450267 GGCATCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
36450332 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
*
36450360 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
*
36450425 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
36450440 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:36452896 original size:21 final size:20
Alignment explanation
Indices: 36452854--36452901 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
36452844 ATAAATAAAA
* *
36452854 TCATTCA-TGTCAATTCCTG
1 TCATTCATTGACAATTCCGG
36452873 TCATTCATTGACAATTTCCGG
1 TCATTCATTGACAA-TTCCGG
36452894 TCATTCAT
1 TCATTCAT
36452902 AACATCTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.28
20 5 0.20
21 13 0.52
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (20 bp):
TCATTCATTGACAATTCCGG
Found at i:36453129 original size:21 final size:20
Alignment explanation
Indices: 36453073--36453142 Score: 108
Period size: 19 Copynumber: 3.5 Consensus size: 20
36453063 CGAATATGCC
*
36453073 AACAGAAGCTCGAA-AGCTA
1 AACAGAAGCTCGAAGAGCTG
36453092 AACAGAAGCTC-AAGAGCTG
1 AACAGAAGCTCGAAGAGCTG
36453111 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCG-AAGAGCTG
36453132 AACAGAAGCTC
1 AACAGAAGCTC
36453143 ATAAGAGCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
18 2 0.04
19 26 0.55
21 19 0.40
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.11
Consensus pattern (20 bp):
AACAGAAGCTCGAAGAGCTG
Found at i:36453147 original size:21 final size:20
Alignment explanation
Indices: 36453073--36453151 Score: 108
Period size: 21 Copynumber: 4.0 Consensus size: 20
36453063 CGAATATGCC
* *
36453073 AACAGAAGCTCGAA-AGCTA
1 AACAGAAGCTCTAAGAGCTG
36453092 AACAGAAGCTC-AAGAGCTG
1 AACAGAAGCTCTAAGAGCTG
36453111 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTC-TAAGAGCTG
36453132 AACAGAAGCTCATAAGAGCT
1 AACAGAAGCTC-TAAGAGCT
36453152 AAATAGAAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
18 2 0.04
19 26 0.47
21 27 0.49
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (20 bp):
AACAGAAGCTCTAAGAGCTG
Found at i:36460130 original size:21 final size:20
Alignment explanation
Indices: 36460088--36460136 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
36460078 TTAAATAGAA
*
36460088 TCATTCATGTCAATTCCTTG
1 TCATTCATGACAATTCCTTG
36460108 TCATTCACTGACAATTTCC-TG
1 TCATTCA-TGACAA-TTCCTTG
36460129 TCATTCAT
1 TCATTCAT
36460137 AGTTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 14 0.54
22 4 0.15
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (20 bp):
TCATTCATGACAATTCCTTG
Found at i:36463269 original size:119 final size:120
Alignment explanation
Indices: 36463061--36463285 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
36463051 GCTACTCGTT
* *
36463061 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGGACATAGCACGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
* *
36463126 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
36463181 CAAATGCCTTCGGG-CTTAGCACGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCACGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * * *
36463243 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 AGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
36463286 CATCATTCAA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
118 4 0.04
119 64 0.71
120 22 0.24
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCACGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36463285 original size:40 final size:40
Alignment explanation
Indices: 36463042--36463285 Score: 282
Period size: 40 Copynumber: 6.1 Consensus size: 40
36463032 CGGAATTTAA
** *
36463042 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36463082 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
36463122 CCAGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
36463162 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
36463201 ACGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
36463241 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36463281 CCGGA
1 CCGGA
36463286 CATCATTCAA
Statistics
Matches: 177, Mismatches: 20, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 131 0.74
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36472869 original size:48 final size:48
Alignment explanation
Indices: 36472551--36472871 Score: 199
Period size: 48 Copynumber: 6.9 Consensus size: 48
36472541 CACATAATAA
* * *
36472551 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATATC
*
36472599 GATGCCAAT---A-G-CCCAG-CTATGGTCTTACATGATG-TCCCATA--
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGA-GATCTCATATC
* * * *
36472640 -ATG---ATGCTATGTCCTAGACATGGTCTTACACGAAAT-TACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCT-CATATC
* * * * * * **
36472684 GATACCGATGCCATGTTCCAGATATGGTCTTACACT-AGCTCACACGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACA-TGAGATCTCATATC
* * * *
36472732 GAGGCCAATGCCATGTCCCAAACATGGTATTACACT-AGCA-CGCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACA-TGAG-ATCTCATATC
* * * * * * * * *
36472780 AATGTCGATACCATGTCCCAAACATAGTCTTATACGAGATCTCATCTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATATC
*
36472828 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCA
36472872 CATGTATTGC
Statistics
Matches: 203, Mismatches: 49, Indels: 42
0.69 0.17 0.14
Matches are distributed among these distances:
37 2 0.01
40 4 0.02
41 1 0.00
42 23 0.11
43 25 0.12
44 1 0.00
45 3 0.01
47 1 0.00
48 143 0.70
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATATC
Found at i:36473811 original size:23 final size:23
Alignment explanation
Indices: 36473781--36473827 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
36473771 AAGATCATAT
36473781 GGCAATAATCTCAATTGGGCAAA
1 GGCAATAATCTCAATTGGGCAAA
36473804 GGCAATAATCTCAATTGGGCAAA
1 GGCAATAATCTCAATTGGGCAAA
36473827 G
1 G
36473828 CAAACATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (23 bp):
GGCAATAATCTCAATTGGGCAAA
Found at i:36475688 original size:6 final size:6
Alignment explanation
Indices: 36475679--36475717 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
36475669 AATTTCTTTT
36475679 TCAATC TCAATC TCAATC TCAATC TCAATC TCAATC TCA
1 TCAATC TCAATC TCAATC TCAATC TCAATC TCAATC TCA
36475718 TTTTCTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (6 bp):
TCAATC
Found at i:36475756 original size:12 final size:12
Alignment explanation
Indices: 36475741--36475770 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36475731 TTTCTTTTTA
36475741 TTTTTCAAAGGC
1 TTTTTCAAAGGC
*
36475753 TTTTTTAAAGGC
1 TTTTTCAAAGGC
36475765 TTTTTC
1 TTTTTC
36475771 GAGCTCTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (12 bp):
TTTTTCAAAGGC
Found at i:36475838 original size:15 final size:15
Alignment explanation
Indices: 36475813--36475860 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
36475803 TACTTGCCTC
36475813 TTTTCTCTCTTTTCTT
1 TTTTCT-TCTTTTCTT
* *
36475829 TTTTTTTCTTTTGC-C
1 TTTTCTTCTTTT-CTT
36475844 TTTTCTTCTTTTCTT
1 TTTTCTTCTTTTCTT
36475859 TT
1 TT
36475861 ACATGATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 1 0.04
15 19 0.73
16 6 0.23
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTCTTCTTTTCTT
Found at i:36482404 original size:13 final size:13
Alignment explanation
Indices: 36482386--36482412 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36482376 GCTCAGTAGG
36482386 GACACGCCTGTGT
1 GACACGCCTGTGT
36482399 GACACGCCTGTGT
1 GACACGCCTGTGT
36482412 G
1 G
36482413 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:36497260 original size:93 final size:93
Alignment explanation
Indices: 36497163--36497354 Score: 366
Period size: 93 Copynumber: 2.1 Consensus size: 93
36497153 TGGTTCATAT
36497163 AAAAAGCTGTAACAACAATAATCATTAGGCTCATGTCAAAATTTTCATAAACTTCCAAATTAATA
1 AAAAAGCTGTAACAACAATAATCATTAGGCTCATGTCAAAATTTTCATAAACTTCCAAATTAATA
36497228 AAATATCTAAAGACTATTGCATCCACCA
66 AAATATCTAAAGACTATTGCATCCACCA
36497256 AAAAAGCTGTAACAACAATAATCATTAGGCTCATGTCAAAATTTTCATAAACTTCCAAATTAATA
1 AAAAAGCTGTAACAACAATAATCATTAGGCTCATGTCAAAATTTTCATAAACTTCCAAATTAATA
*
36497321 AAATATCTAAAGATTATTGCATCCACCA
66 AAATATCTAAAGACTATTGCATCCACCA
*
36497349 CAAAAG
1 AAAAAG
36497355 TGCATTATAC
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 97 1.00
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.28
Consensus pattern (93 bp):
AAAAAGCTGTAACAACAATAATCATTAGGCTCATGTCAAAATTTTCATAAACTTCCAAATTAATA
AAATATCTAAAGACTATTGCATCCACCA
Found at i:36497429 original size:2 final size:2
Alignment explanation
Indices: 36497422--36497448 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36497412 AGTCATAGTT
36497422 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
36497449 TAAAACTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36502130 original size:20 final size:20
Alignment explanation
Indices: 36502092--36502134 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
36502082 AAGAATATTT
**
36502092 TTAATTATTTCAATTTTATA
1 TTAATTATTTCAACGTTATA
*
36502112 TTAATTATTTTAACGTTATA
1 TTAATTATTTCAACGTTATA
36502132 TTA
1 TTA
36502135 TCCTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (20 bp):
TTAATTATTTCAACGTTATA
Found at i:36503999 original size:29 final size:29
Alignment explanation
Indices: 36503965--36504021 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
36503955 TTCACATTGA
* *
36503965 CACGAATTCTCAATGAACAAGTTCTTCAT
1 CACGAACTCTCAACGAACAAGTTCTTCAT
36503994 CACGAACTCTCAACGAACAAGTTCTTCA
1 CACGAACTCTCAACGAACAAGTTCTTCA
36504022 CCTCTTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTTCAT
Found at i:36507437 original size:29 final size:30
Alignment explanation
Indices: 36507387--36507454 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
36507377 TGGCCCAAGA
* * *
36507387 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTAAAGGACTAATAGT
*
36507417 GTAAATATGAAAAGTTAAAGGACTAATAGT
1 GTAAATATCAAAAGTTAAAGGACTAATAGT
*
36507447 GCAAATAT
1 GTAAATAT
36507455 TTTAAGGGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTAAAGGACTAATAGT
Found at i:36511512 original size:20 final size:18
Alignment explanation
Indices: 36511465--36511571 Score: 51
Period size: 19 Copynumber: 5.8 Consensus size: 18
36511455 AATGTTTATC
*
36511465 ATTAAATTAA-ATTTAGT
1 ATTAAATTAATATTTAAT
36511482 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
36511502 ATTAAATTAATAAAATATT
1 ATTAAATTAAT-ATTTAAT
*
36511521 ATTAAGA-TATGTATTTAAT
1 ATTAA-ATTA-ATATTTAAT
* *
36511540 -TTAATTTAATATTAAACT
1 ATTAAATTAATATTTAA-T
*
36511558 ATTAAAATAATATT
1 ATTAAATTAATATT
36511572 ATTTTTGGAA
Statistics
Matches: 66, Mismatches: 14, Indels: 18
0.67 0.14 0.18
Matches are distributed among these distances:
17 14 0.21
18 8 0.12
19 27 0.41
20 17 0.26
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:36518516 original size:35 final size:35
Alignment explanation
Indices: 36518470--36518540 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
36518460 ACCCTTACTC
*
36518470 ATGCAGAGATTCAATCACAAACCTCCAGCAAGTTA
1 ATGCAGAGATTCAAACACAAACCTCCAGCAAGTTA
*
36518505 ATGCAGAGATTCAAACACAAACCTCTAGCAAGTTA
1 ATGCAGAGATTCAAACACAAACCTCCAGCAAGTTA
36518540 A
1 A
36518541 CTCCTTACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (35 bp):
ATGCAGAGATTCAAACACAAACCTCCAGCAAGTTA
Found at i:36520734 original size:19 final size:19
Alignment explanation
Indices: 36520684--36520722 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
36520674 ACTTTGAAAT
36520684 AGGTACCGATACCCCTGAA
1 AGGTACCGATACCCCTGAA
*
36520703 AGGTACCGATACCTCTGAA
1 AGGTACCGATACCCCTGAA
36520722 A
1 A
36520723 TTTACCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (19 bp):
AGGTACCGATACCCCTGAA
Found at i:36526174 original size:22 final size:22
Alignment explanation
Indices: 36526124--36526206 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 22
36526114 TACACCATAC
*
36526124 CAAAGAGCATCGAAGTGCTAAA
1 CAAAGAGCATTGAAGTGCTAAA
* * *
36526146 CAGAGAGCACTGAAGTGCTAAG
1 CAAAGAGCATTGAAGTGCTAAA
* * * *
36526168 CAAAGAGTATTGAAATGCTTAT
1 CAAAGAGCATTGAAGTGCTAAA
36526190 CAAAGAGCATTGAAGTG
1 CAAAGAGCATTGAAGTG
36526207 TTGATCAAAG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.19
Consensus pattern (22 bp):
CAAAGAGCATTGAAGTGCTAAA
Found at i:36526213 original size:22 final size:22
Alignment explanation
Indices: 36526124--36526230 Score: 90
Period size: 22 Copynumber: 4.9 Consensus size: 22
36526114 TACACCATAC
* * *
36526124 CAAAGAGCATCGAAGTGCTAAA
1 CAAAGAGCATTGAAGTGTTAAT
* * * *
36526146 CAGAGAGCACTGAAGTGCTAAG
1 CAAAGAGCATTGAAGTGTTAAT
* *
36526168 CAAAGAGTATTGAAATGCTT-AT
1 CAAAGAGCATTGAAGTG-TTAAT
*
36526190 CAAAGAGCATTGAAGTGTTGAT
1 CAAAGAGCATTGAAGTGTTAAT
* *
36526212 CAAAGAGAATTAAAGTGTT
1 CAAAGAGCATTGAAGTGTT
36526231 GAACCCATAC
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
21 2 0.03
22 66 0.96
23 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.22
Consensus pattern (22 bp):
CAAAGAGCATTGAAGTGTTAAT
Found at i:36530753 original size:20 final size:20
Alignment explanation
Indices: 36530674--36530803 Score: 107
Period size: 20 Copynumber: 6.2 Consensus size: 20
36530664 GGTGCCTGGG
*
36530674 TGGCATTCTGTTAGCCTTTA
1 TGGCATTTTGTTAGCCTTTA
* * *
36530694 TGATCTATTCTGATTTGGCCTTTA
1 TG-GC-ATTTTG--TTAGCCTTTA
*
36530718 TGGCGTGTTCTGTTAGCCTTTA
1 TGGCAT-TT-TGTTAGCCTTTA
*
36530740 TGGCATTTTGTTAGCTTTTA
1 TGGCATTTTGTTAGCCTTTA
*
36530760 TGGCATTTTGTTAGCCTTTG
1 TGGCATTTTGTTAGCCTTTA
** * *
36530780 TCACATTATGTTAGACTTTA
1 TGGCATTTTGTTAGCCTTTA
36530800 TGGC
1 TGGC
36530804 GTACTCTATA
Statistics
Matches: 87, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
20 48 0.55
21 3 0.03
22 21 0.24
23 2 0.02
24 13 0.15
ACGTcount: A:0.15, C:0.16, G:0.21, T:0.48
Consensus pattern (20 bp):
TGGCATTTTGTTAGCCTTTA
Found at i:36544999 original size:70 final size:67
Alignment explanation
Indices: 36544916--36545048 Score: 194
Period size: 70 Copynumber: 1.9 Consensus size: 67
36544906 TCCGAATAAG
** *
36544916 AAAAGGCAAAACTACGCTGTTTTGATAAACATTTACCTTTTCTAAAGTTAAAAGTCAAAACCATT
1 AAAAGGCAAAACTACGCTGTTTTGATAAACATTTA-CTCAT-T-AAGTTAAAAGGCAAAACCATT
36544981 AAATT
63 AAATT
* *
36544986 AAAAGGCAAAACTACGTTGTTTTGATAAATATTTACTCATTAAGTTAAAAGGCAAAACCATTA
1 AAAAGGCAAAACTACGCTGTTTTGATAAACATTTACTCATTAAGTTAAAAGGCAAAACCATTA
36545049 TATTGTTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
67 21 0.36
68 1 0.02
69 3 0.05
70 33 0.57
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (67 bp):
AAAAGGCAAAACTACGCTGTTTTGATAAACATTTACTCATTAAGTTAAAAGGCAAAACCATTAAA
TT
Found at i:36545704 original size:29 final size:27
Alignment explanation
Indices: 36545669--36545724 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 27
36545659 CAAAAATTAC
36545669 CAAAATAATTCA-AAATAATTTTCAAAATT
1 CAAAATAATT-ATAAA-AATTTT-AAAATT
36545698 CAAAATAATTATAAAAATTTTAAAATT
1 CAAAATAATTATAAAAATTTTAAAATT
36545725 TATATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 6 0.23
28 7 0.27
29 13 0.50
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (27 bp):
CAAAATAATTATAAAAATTTTAAAATT
Found at i:36545714 original size:19 final size:19
Alignment explanation
Indices: 36545675--36545716 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
36545665 TTACCAAAAT
* *
36545675 AATTCAAAATAATTTTCAA
1 AATTCAAAATAATTATAAA
36545694 AATTCAAAATAATTATAAA
1 AATTCAAAATAATTATAAA
36545713 AATT
1 AATT
36545717 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTCAAAATAATTATAAA
Found at i:36545735 original size:15 final size:16
Alignment explanation
Indices: 36545715--36545744 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36545705 ATTATAAAAA
36545715 TTTT-AAAATTTATAT
1 TTTTAAAAATTTATAT
36545730 TTTTAAAAATTTATA
1 TTTTAAAAATTTATA
36545745 ACAATTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTAAAAATTTATAT
Found at i:36547188 original size:16 final size:16
Alignment explanation
Indices: 36547167--36547221 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
36547157 GTTTGGTTCA
36547167 CTGTAATAGAATA-AGG
1 CTGTAATAGAATAGA-G
* *
36547183 CTGTAATTGAATAGAA
1 CTGTAATAGAATAGAG
36547199 CTGTAATAGAATAGAG
1 CTGTAATAGAATAGAG
36547215 CTGTAAT
1 CTGTAAT
36547222 CAATAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 33 0.97
17 1 0.03
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:36547288 original size:44 final size:45
Alignment explanation
Indices: 36547207--36547295 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 45
36547197 AACTGTAATA
*
36547207 GAATAGAGCTGTAATCAATAATTTAATTGTTTAGTTGAATGGAATG
1 GAATAGAGCTGTAAT-AAGAATTTAATTGTTTAGTTGAATGGAATG
* *
36547253 GAATAGAGCTGTAAT-AGAATTT-TTGTGTTTGGTTGAATGGAAT
1 GAATAGAGCTGTAATAAGAATTTAAT-TGTTTAGTTGAATGGAAT
36547296 AAATGTTGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 23 0.59
46 15 0.38
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (45 bp):
GAATAGAGCTGTAATAAGAATTTAATTGTTTAGTTGAATGGAATG
Found at i:36551087 original size:23 final size:21
Alignment explanation
Indices: 36551060--36551102 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36551050 CTTTTACTAT
36551060 TTAATTTATAGATAAATTTTCAA
1 TTAATTT-TAGAT-AATTTTCAA
*
36551083 TTAATTTTAGGTAATTTTCA
1 TTAATTTTAGATAATTTTCA
36551103 CCCTAATCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (21 bp):
TTAATTTTAGATAATTTTCAA
Found at i:36557337 original size:8 final size:8
Alignment explanation
Indices: 36557324--36557350 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
36557314 TTTTTAAAAA
36557324 AAATTTAT
1 AAATTTAT
36557332 AAATTTAT
1 AAATTTAT
36557340 AAATTTAT
1 AAATTTAT
36557348 AAA
1 AAA
36557351 CATTTTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAATTTAT
Found at i:36562221 original size:3 final size:3
Alignment explanation
Indices: 36562213--36562299 Score: 53
Period size: 3 Copynumber: 30.3 Consensus size: 3
36562203 AATATATTAA
* *
36562213 ATT ATT ATT CTT ATT ATTT ATT ATT A-T AGTT -TT A-T ATT -TA ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
* * *
36562256 ATT ATT GTT ATT GTT ATT ATT ATT -TA ATT GA-T ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
36562299 A
1 A
36562300 AATTAAATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
2 11 0.17
3 48 0.75
4 5 0.08
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:36562277 original size:21 final size:19
Alignment explanation
Indices: 36562213--36562279 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
36562203 AATATATTAA
*
36562213 ATTATTATTCTTATTA-TTT
1 ATTATTATTATT-TTATTTT
36562232 ATTATTA-TAGTTTTATATTT
1 ATTATTATTA-TTTTAT-TTT
36562252 A--ATTATTATTGTTATTGTT
1 ATTATTATTATT-TTATT-TT
36562271 ATTATTATT
1 ATTATTATT
36562280 TAATTGATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
18 11 0.28
19 18 0.46
20 4 0.10
21 6 0.15
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (19 bp):
ATTATTATTATTTTATTTT
Found at i:36562297 original size:40 final size:39
Alignment explanation
Indices: 36562205--36562299 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 39
36562195 TGTGTTAAAA
* *
36562205 TATATTAAATTATTATTCTTATTATTTATTATTATAGTTT
1 TATATTATATTATTATTCTTATTAGTTATTATTATA-TTT
*
36562245 TATATT-TAATTATTATTGTTATT-GTTATTATTAT-TTAAT
1 TATATTAT-ATTATTATTCTTATTAGTTATTATTATATT--T
36562284 TGATATTATATTATTA
1 T-ATATTATATTATTA
36562300 AATTAAATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
37 2 0.04
39 12 0.26
40 32 0.68
41 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (39 bp):
TATATTATATTATTATTCTTATTAGTTATTATTATATTT
Found at i:36563806 original size:28 final size:28
Alignment explanation
Indices: 36563774--36563830 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
36563764 ACTGAATAAA
*
36563774 TAAATGACTGCTATTGAATAATAATGAT
1 TAAATGACTGCTATTGAAAAATAATGAT
* * *
36563802 TAAATGATTGTTATTGAAAAATATTGAT
1 TAAATGACTGCTATTGAAAAATAATGAT
36563830 T
1 T
36563831 GTCATCGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (28 bp):
TAAATGACTGCTATTGAAAAATAATGAT
Found at i:36570588 original size:33 final size:34
Alignment explanation
Indices: 36570544--36570617 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
36570534 ATATGACATT
*
36570544 ATTTTACTTTATA-TATCACAACAATTTATTTAA
1 ATTTTATTTTATATTATCACAACAATTTATTTAA
36570577 ATTTTATTTTATATTATCACAACAATTTATTTAA
1 ATTTTATTTTATATTATCACAACAATTTATTTAA
36570611 ATTTTAT
1 ATTTTAT
36570618 AAATATTCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 12 0.31
34 27 0.69
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (34 bp):
ATTTTATTTTATATTATCACAACAATTTATTTAA
Done.