Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 293 of 295
Found at i:92971017 original size:20 final size:21
Alignment explanation
Indices: 92970992--92971030 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
92970982 ATGGGTTAAT
92970992 GGTTAGG-GTTTAAGGGTTGA
1 GGTTAGGTGTTTAAGGGTTGA
*
92971012 GGTTAGGTTTTTAAGGGTT
1 GGTTAGGTGTTTAAGGGTT
92971031 TTAATGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (21 bp):
GGTTAGGTGTTTAAGGGTTGA
Found at i:92978399 original size:33 final size:33
Alignment explanation
Indices: 92978357--92978424 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
92978347 AATTGCTTAC
92978357 CTCACCTTTTGTTCAAGATCCTGTTGTCTTTCT
1 CTCACCTTTTGTTCAAGATCCTGTTGTCTTTCT
92978390 CTCACCTTTTGTTCAAGATCCTGTTGTCTTTCT
1 CTCACCTTTTGTTCAAGATCCTGTTGTCTTTCT
92978423 CT
1 CT
92978425 TTGTATCCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.12, C:0.28, G:0.12, T:0.49
Consensus pattern (33 bp):
CTCACCTTTTGTTCAAGATCCTGTTGTCTTTCT
Found at i:92981097 original size:3 final size:3
Alignment explanation
Indices: 92981089--92981120 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
92981079 AATTCTTGTT
92981089 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
92981121 TTGAAGATAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:92981942 original size:15 final size:15
Alignment explanation
Indices: 92981922--92981958 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
92981912 TTATTAATTA
92981922 AAATAATAAT-TTTAT
1 AAATAA-AATATTTAT
92981937 AAATAAAATATTTAT
1 AAATAAAATATTTAT
92981952 -AATAAAA
1 AAATAAAA
92981959 AATACCTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATAAAATATTTAT
Found at i:92981945 original size:20 final size:21
Alignment explanation
Indices: 92981908--92981946 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
92981898 CTCTAACATG
*
92981908 AATTTTATTAATTAAAATAAT
1 AATTTTATTAAATAAAATAAT
92981929 AATTTTA-TAAATAAAATA
1 AATTTTATTAAATAAAATA
92981947 TTTATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTTTATTAAATAAAATAAT
Found at i:92985867 original size:15 final size:15
Alignment explanation
Indices: 92985847--92985895 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 15
92985837 CCATAGTTCC
92985847 GACTTAAATGTTTAA
1 GACTTAAATGTTTAA
92985862 GACTTAAATTTTAGTTTAA
1 GACTTAAA---T-GTTTAA
92985881 GACTTAAATGTTTAA
1 GACTTAAATGTTTAA
92985896 TATTATTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 14 0.47
16 1 0.03
18 1 0.03
19 14 0.47
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (15 bp):
GACTTAAATGTTTAA
Found at i:92985880 original size:19 final size:20
Alignment explanation
Indices: 92985856--92985894 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
92985846 CGACTTAAAT
92985856 GTTTAAGACTTAAAT-TTTA
1 GTTTAAGACTTAAATGTTTA
92985875 GTTTAAGACTTAAATGTTTA
1 GTTTAAGACTTAAATGTTTA
92985895 ATATTATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (20 bp):
GTTTAAGACTTAAATGTTTA
Found at i:92990649 original size:13 final size:13
Alignment explanation
Indices: 92990631--92990655 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92990621 AAATATTAAG
92990631 TGTTTAACCAAAT
1 TGTTTAACCAAAT
92990644 TGTTTAACCAAA
1 TGTTTAACCAAA
92990656 ACGTAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TGTTTAACCAAAT
Found at i:92999681 original size:21 final size:21
Alignment explanation
Indices: 92999657--92999696 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
92999647 ATGTTCGAAA
* *
92999657 TTTAGTCTCTTTATTTTTATT
1 TTTAGTCTATTTACTTTTATT
92999678 TTTAGTCTATTTACTTTTA
1 TTTAGTCTATTTACTTTTA
92999697 AGATTTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTAGTCTATTTACTTTTATT
Found at i:93015694 original size:13 final size:14
Alignment explanation
Indices: 93015668--93015708 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
93015658 AATATAACCA
93015668 TATTAAATATATTT
1 TATTAAATATATTT
93015682 TATTAAA-ATATTT
1 TATTAAATATATTT
* *
93015695 GATTAAATAAATTT
1 TATTAAATATATTT
93015709 ACTTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
TATTAAATATATTT
Found at i:93018514 original size:30 final size:29
Alignment explanation
Indices: 93018480--93018564 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
93018470 TATCTTTTGT
*
93018480 ATCGACAATCATCGCATTTTGTCACACACA
1 ATCGACAA-CATCGCATTCTGTCACACACA
* **
93018510 ATCGACAACTATTGCATTCTGTTGCACACA
1 ATCGACAAC-ATCGCATTCTGTCACACACA
* *
93018540 ATCAACAACCATCGCAATCTGTCAC
1 ATCGACAA-CATCGCATTCTGTCAC
93018565 TTCCTATGTG
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 1 0.02
30 42 0.95
31 1 0.02
ACGTcount: A:0.33, C:0.31, G:0.11, T:0.26
Consensus pattern (29 bp):
ATCGACAACATCGCATTCTGTCACACACA
Found at i:93023850 original size:23 final size:22
Alignment explanation
Indices: 93023801--93023849 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
93023791 TAATGACTTA
*
93023801 GAATTTT--TTTATATTTTTTT
1 GAATTTTCATTTATAATTTTTT
93023821 GAATTTTCATTTATAATTTTTT
1 GAATTTTCATTTATAATTTTTT
93023843 GAATTTT
1 GAATTTT
93023850 TAGAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.27
22 19 0.73
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (22 bp):
GAATTTTCATTTATAATTTTTT
Found at i:93025900 original size:61 final size:61
Alignment explanation
Indices: 93025824--93025958 Score: 252
Period size: 61 Copynumber: 2.2 Consensus size: 61
93025814 ATATATATTA
93025824 TTCTTTCTTTCTTTCTAAGTAGCCTTTGCCAAACTTCTAACCCTTTTGCCTATTCATTTCT
1 TTCTTTCTTTCTTTCTAAGTAGCCTTTGCCAAACTTCTAACCCTTTTGCCTATTCATTTCT
93025885 TTCTTTCTTTCTTTCTAAGTAGCCTTTGCCAAACTTCTAACCCTTTTGCCTATTCATTTCT
1 TTCTTTCTTTCTTTCTAAGTAGCCTTTGCCAAACTTCTAACCCTTTTGCCTATTCATTTCT
*
93025946 TCTCTTTCGTTCT
1 T-TCTTTCTTTCT
93025959 CTTTTGAGAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 62 0.86
62 10 0.14
ACGTcount: A:0.15, C:0.28, G:0.07, T:0.50
Consensus pattern (61 bp):
TTCTTTCTTTCTTTCTAAGTAGCCTTTGCCAAACTTCTAACCCTTTTGCCTATTCATTTCT
Found at i:93041889 original size:19 final size:19
Alignment explanation
Indices: 93041853--93041890 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
93041843 CATGAGGTTG
*
93041853 TTTATAAATTATTTATAAT
1 TTTATAAATTATTAATAAT
93041872 TTTAT-AATTAATTAATAAT
1 TTTATAAATT-ATTAATAAT
93041891 AAATTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATAAATTATTAATAAT
Found at i:93043735 original size:24 final size:24
Alignment explanation
Indices: 93043708--93043755 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
93043698 AAAAATGGCT
93043708 ATTAAATAT-AAATTTTAAATAATA
1 ATTAAA-ATCAAATTTTAAATAATA
* *
93043732 ATTAAAATCATATTTTAATTAATA
1 ATTAAAATCAAATTTTAAATAATA
93043756 TATATTGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTAAAATCAAATTTTAAATAATA
Found at i:93052285 original size:19 final size:20
Alignment explanation
Indices: 93052260--93052309 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
93052250 TGTTTTAAAT
93052260 TGATTAATTGTTCTATGTGA
1 TGATTAATTGTTCTATGTGA
93052280 -GATTAATTGTTCTATGTGA
1 TGATTAATTGTTCTATGTGA
93052299 TG-TTAATTGTT
1 TGATTAATTGTT
93052310 TCAATTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 28 0.97
20 1 0.03
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.52
Consensus pattern (20 bp):
TGATTAATTGTTCTATGTGA
Found at i:93054633 original size:49 final size:50
Alignment explanation
Indices: 93054569--93054668 Score: 157
Period size: 49 Copynumber: 2.0 Consensus size: 50
93054559 TTATTTTCAA
*
93054569 TACATAAGATAATATTTATTTTAAAACAAA-TCCAAAAATAATATTTATT
1 TACATAAGATAATATTTATTTTAAAACAAACTCAAAAAATAATATTTATT
* * *
93054618 TACATAAGATAATATTTGTTTTGAAGCAAACTCAAAAAATAATATTTATT
1 TACATAAGATAATATTTATTTTAAAACAAACTCAAAAAATAATATTTATT
93054668 T
1 T
93054669 TCATTCAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 27 0.59
50 19 0.41
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (50 bp):
TACATAAGATAATATTTATTTTAAAACAAACTCAAAAAATAATATTTATT
Found at i:93054866 original size:16 final size:16
Alignment explanation
Indices: 93054847--93054877 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93054837 GTATATTTTT
*
93054847 ATTAATAAATGATAAA
1 ATTAATAAATAATAAA
93054863 ATTAATAAATAATAA
1 ATTAATAAATAATAA
93054878 GTATAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
ATTAATAAATAATAAA
Found at i:93058691 original size:3 final size:3
Alignment explanation
Indices: 93058685--93058935 Score: 133
Period size: 3 Copynumber: 83.0 Consensus size: 3
93058675 TTACATCATC
* **
93058685 ATT ATT ATT AATT -TGT ATT ATC ATT ATT ATT ATT ATT -TT ACC ATT
1 ATT ATT ATT -ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * *
93058730 ATA ACTT AAC A-T ATT ATT ATT ATT ACTT -TT ATT TTT ATT TTT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
** * *
93058775 ACC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
93058823 ATT ATT -TAT ATT CGTT AGT ATT ATT ATT AATT -TT GTCT -TT ATT -TT
1 ATT ATT AT-T ATT -ATT ATT ATT ATT ATT -ATT ATT AT-T ATT ATT ATT
* * * * * *
93058868 CTTT ACT ATT ATT TTT ATT ATC ATT ATTT ATTT ATT ACT ATT GTT ATT
1 -ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT ATT
* *
93058916 ATT ATT GTC A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
93058936 TATGTTTTAT
Statistics
Matches: 187, Mismatches: 42, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
2 13 0.07
3 150 0.80
4 24 0.13
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:93058903 original size:26 final size:29
Alignment explanation
Indices: 93058874--93058936 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 29
93058864 TTTTCTTTAC
93058874 TATTATTTTTATTATCATTATT-T-AT-T
1 TATTATTTTTATTATCATTATTGTCATAT
* * * *
93058900 TATTACTATTGTTATTATTATTGTCATAT
1 TATTATTTTTATTATCATTATTGTCATAT
93058929 TATTATTT
1 TATTATTT
93058937 ATGTTTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 18 0.64
27 1 0.04
28 2 0.07
29 7 0.25
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (29 bp):
TATTATTTTTATTATCATTATTGTCATAT
Found at i:93065960 original size:19 final size:20
Alignment explanation
Indices: 93065936--93066001 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 20
93065926 AGAAAATCTC
93065936 AAAAAATATA-AAATAATAA
1 AAAAAATATACAAATAATAA
* * **
93065955 AAAAAATTTAGAAA-AATTT
1 AAAAAATATACAAATAATAA
* *
93065974 TAAAAATA-ACAAATATTAA
1 AAAAAATATACAAATAATAA
93065993 AAAAAATAT
1 AAAAAATAT
93066002 TATAAAGGGA
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
18 4 0.12
19 27 0.79
20 3 0.09
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAAATATACAAATAATAA
Found at i:93072734 original size:28 final size:30
Alignment explanation
Indices: 93072694--93072766 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 30
93072684 TCACTGGTGG
* *
93072694 AACTAAAAAAAAAAC-TT-AATAACCTAGT
1 AACTTAAATAAAAACTTTGAATAACCTAGT
**
93072722 AACTTAAATAAAAACTTTTGAATAATTTAGT
1 AACTTAAATAAAAAC-TTTGAATAACCTAGT
93072753 AACTTAAATAAAAA
1 AACTTAAATAAAAA
93072767 AATTTTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 13 0.34
30 2 0.05
31 23 0.61
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.29
Consensus pattern (30 bp):
AACTTAAATAAAAACTTTGAATAACCTAGT
Found at i:93079990 original size:18 final size:19
Alignment explanation
Indices: 93079962--93079999 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
93079952 TTTATAATAC
*
93079962 TTTATATTATTATGTTATT
1 TTTATATTATTATGTAATT
93079981 TTTATA-TATTATGTAATT
1 TTTATATTATTATGTAATT
93079999 T
1 T
93080000 AGAACACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTATATTATTATGTAATT
Found at i:93080538 original size:9 final size:9
Alignment explanation
Indices: 93080524--93080566 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
93080514 TTTGGTTAAA
93080524 AATTACCCG
1 AATTACCCG
93080533 AATTACCCG
1 AATTACCCG
93080542 AATTACCCG
1 AATTACCCG
*
93080551 AATTAACCG
1 AATTACCCG
93080560 AATTACC
1 AATTACC
93080567 GAAAAATACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:93082578 original size:9 final size:9
Alignment explanation
Indices: 93082564--93082594 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
93082554 AACTTGGTGC
93082564 ATTTTGTTT
1 ATTTTGTTT
93082573 ATTTTGTTT
1 ATTTTGTTT
93082582 ATTTTGTTT
1 ATTTTGTTT
93082591 ATTT
1 ATTT
93082595 GTAATGATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:93082667 original size:23 final size:23
Alignment explanation
Indices: 93082637--93082688 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
93082627 TGCAACTTGA
93082637 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
93082660 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
93082683 TTTCAT
1 TTTCAT
93082689 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:93087114 original size:23 final size:23
Alignment explanation
Indices: 93087084--93087132 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
93087074 TGCAACTTGG
93087084 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
93087107 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
93087130 TTT
1 TTT
93087133 TATCTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:93104833 original size:17 final size:17
Alignment explanation
Indices: 93104803--93104835 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
93104793 CGTCAATATG
93104803 TTTATATTTAATAATTT
1 TTTATATTTAATAATTT
93104820 TTTAT-TTTATATAATT
1 TTTATATTTA-ATAATT
93104836 AATTTAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTTAATAATTT
Found at i:93119819 original size:29 final size:28
Alignment explanation
Indices: 93119783--93119860 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
93119773 TCATGAGATT
93119783 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
93119813 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
93119840 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
93119861 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:93120084 original size:145 final size:145
Alignment explanation
Indices: 93119838--93120111 Score: 485
Period size: 145 Copynumber: 1.9 Consensus size: 145
93119828 GTTTAAAGTA
**
93119838 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCAGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* * *
93119903 ATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
93119968 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
93119983 CATGGCACTAAGTGTGCGCAGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCAGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* *
93120048 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGTGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
93120112 ACCTTGAGTT
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 122 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCAGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:93122424 original size:5 final size:5
Alignment explanation
Indices: 93122414--93122485 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
93122404 TGTTAAAAAA
* *
93122414 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
93122460 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
93122486 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:93122467 original size:19 final size:19
Alignment explanation
Indices: 93122443--93122485 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
93122433 ATTATGTTTT
93122443 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
93122462 TATATTATATTATATTATA
1 TATATTATATTATATTATA
93122481 TATAT
1 TATAT
93122486 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:93122517 original size:17 final size:17
Alignment explanation
Indices: 93122495--93122528 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
93122485 TACATAAAAC
*
93122495 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
93122512 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
93122529 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:93122524 original size:9 final size:9
Alignment explanation
Indices: 93122495--93122528 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
93122485 TACATAAAAC
93122495 AAAAGAAAG
1 AAAAGAAAG
*
93122504 AATAGAAA-
1 AAAAGAAAG
93122512 AAAAGAAAG
1 AAAAGAAAG
93122521 AAAAGAAA
1 AAAAGAAA
93122529 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:93123523 original size:46 final size:44
Alignment explanation
Indices: 93123463--93123577 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
93123453 ACAGGACAGA
* *
93123463 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
93123509 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
93123553 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93123578 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:93123558 original size:44 final size:45
Alignment explanation
Indices: 93123463--93123596 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
93123453 ACAGGACAGA
* *
93123463 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
93123509 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
93123553 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93123597 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:93125405 original size:29 final size:29
Alignment explanation
Indices: 93125357--93125448 Score: 150
Period size: 29 Copynumber: 3.2 Consensus size: 29
93125347 CCAAATTAAA
*
93125357 CACCCTACTAGACCGA-CCACTAACTCCAT
1 CACCCTACTAAACC-ATCCACTAACTCCAT
93125386 CACCCTACTAAACCATCCACTAACTCCAT
1 CACCCTACTAAACCATCCACTAACTCCAT
*
93125415 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCTACTAAACCATCCACTAACTCCAT
93125444 CACCC
1 CACCC
93125449 CCACTAACTC
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
28 1 0.02
29 59 0.98
ACGTcount: A:0.32, C:0.48, G:0.02, T:0.18
Consensus pattern (29 bp):
CACCCTACTAAACCATCCACTAACTCCAT
Found at i:93125454 original size:18 final size:18
Alignment explanation
Indices: 93125431--93125466 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
93125421 ACTAAACCAT
*
93125431 CCACTACCTCCATCACCC
1 CCACTAACTCCATCACCC
93125449 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
93125467 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.58, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:93125893 original size:64 final size:64
Alignment explanation
Indices: 93125752--93125883 Score: 155
Period size: 64 Copynumber: 2.1 Consensus size: 64
93125742 TTTATTTTTG
* *
93125752 TTATTTTACTGTTAAATTAATTAATTTGAGGTTTATTCTCATTATTTTTATAGTTGTTTTTATTA
1 TTATTTT-CTATTAAATTAATTAATTTGAGGTTTATTCTCATTATTGTTATAGTTGTTTTTATTA
* * *
93125817 TTATTTTCTATTAATTTAATTAATTTGA-G-TTATGTTTCA-TATTGTTATA-TTATTTATTTAT
1 TTATTTTCTATTAAATTAATTAATTTGAGGTTTAT-TCTCATTATTGTTATAGTT-GTT-TTTAT
93125878 TA
63 TA
93125880 TTAT
1 TTAT
93125884 ATATTTATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
61 2 0.03
62 15 0.25
63 16 0.27
64 19 0.32
65 7 0.12
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.61
Consensus pattern (64 bp):
TTATTTTCTATTAAATTAATTAATTTGAGGTTTATTCTCATTATTGTTATAGTTGTTTTTATTA
Found at i:93125904 original size:17 final size:14
Alignment explanation
Indices: 93125864--93125894 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
93125854 CATATTGTTA
*
93125864 TATTATTTATTTAT
1 TATTATATATTTAT
93125878 TATTATATATTTAT
1 TATTATATATTTAT
93125892 TAT
1 TAT
93125895 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:93126224 original size:13 final size:12
Alignment explanation
Indices: 93126203--93126252 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 12
93126193 ATTACTGTTG
93126203 TTTTATTAATTA
1 TTTTATTAATTA
93126215 TTTCTATTAATTA
1 TTT-TATTAATTA
*
93126228 CTATTATT-ATTA
1 -TTTTATTAATTA
*
93126240 TTTTATTATTTA
1 TTTTATTAATTA
93126252 T
1 T
93126253 ATATGGTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
11 6 0.19
12 11 0.34
13 13 0.41
14 2 0.06
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTATTAATTA
Found at i:93126576 original size:126 final size:126
Alignment explanation
Indices: 93126351--93126594 Score: 425
Period size: 126 Copynumber: 1.9 Consensus size: 126
93126341 CATTGATCTT
* *
93126351 CTCTCAAAATTTTTTAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
* *
93126416 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTATCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTATTTGTCTTGAATATTCAAATATCCTCTTATCAGTTCA
* *
93126477 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTTGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
*
93126542 ACGTACTGGGTTTCGCTTTCTTTATTTGTTTTGAATATTCAAATATCCTCTTA
66 ACGTACTGGGTTTCGCTTTCTTTATTTGTCTTGAATATTCAAATATCCTCTTA
93126595 AGGCTAAAAT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 111 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTATTTGTCTTGAATATTCAAATATCCTCTTATCAGTTCA
Found at i:93128538 original size:27 final size:26
Alignment explanation
Indices: 93128508--93128569 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 26
93128498 TACAAAAAAA
93128508 AAATTCAA-ATCTAATTACCAAATTAT
1 AAATTCAACAT-TAATTACCAAATTAT
93128534 GAAATTCAACATTAATTACCAAATTAT
1 -AAATTCAACATTAATTACCAAATTAT
93128561 AAATTCAAC
1 AAATTCAAC
93128570 TTACAGAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 9 0.26
27 23 0.68
28 2 0.06
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (26 bp):
AAATTCAACATTAATTACCAAATTAT
Found at i:93138415 original size:21 final size:21
Alignment explanation
Indices: 93138390--93138438 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
93138380 TAAGAAAATG
93138390 AAAAT-ATATAAAATTATCATA
1 AAAATAAT-TAAAATTATCATA
*
93138411 AAAATAATTAATATTATCATA
1 AAAATAATTAAAATTATCATA
93138432 AAAATAA
1 AAAATAA
93138439 ATATTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAATTAAAATTATCATA
Found at i:93138443 original size:18 final size:18
Alignment explanation
Indices: 93138397--93138443 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 18
93138387 ATGAAAATAT
93138397 ATAAA-ATTATCATAAAA
1 ATAAATATTATCATAAAA
93138414 ATAATTAATATTATCATAAAA
1 AT-A--AATATTATCATAAAA
93138435 ATAAATATT
1 ATAAATATT
93138444 TTTAATTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.08
18 7 0.27
20 3 0.12
21 14 0.54
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAATATTATCATAAAA
Found at i:93138451 original size:25 final size:26
Alignment explanation
Indices: 93138401--93138473 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 26
93138391 AAATATATAA
*
93138401 AATTATCATAAAAAT--A-ATTA-AT
1 AATTATCATAAAAATAAATATTATTT
93138423 -ATTATCATAAAAATAAATATT-TTT
1 AATTATCATAAAAATAAATATTATTT
* * *
93138447 AATTATCATTAAGATAATTATTATTT
1 AATTATCATAAAAATAAATATTATTT
93138473 A
1 A
93138474 TCTTAATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
21 14 0.34
23 1 0.02
24 4 0.10
25 18 0.44
26 4 0.10
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (26 bp):
AATTATCATAAAAATAAATATTATTT
Found at i:93138930 original size:18 final size:19
Alignment explanation
Indices: 93138907--93138945 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
93138897 ATTTTAGGGT
93138907 TTGGGTTAGGGAAAT-TGG
1 TTGGGTTAGGGAAATCTGG
*
93138925 TTGGGTTTGGGAAATCTGG
1 TTGGGTTAGGGAAATCTGG
93138944 TT
1 TT
93138946 AAGGAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.18, C:0.03, G:0.41, T:0.38
Consensus pattern (19 bp):
TTGGGTTAGGGAAATCTGG
Found at i:93141097 original size:18 final size:17
Alignment explanation
Indices: 93141074--93141107 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
93141064 TATAATGCAC
*
93141074 ATAAAAGTAAGGTAATAT
1 ATAAAAATAAGG-AATAT
93141092 ATAAAAATAAGGAATA
1 ATAAAAATAAGGAATA
93141108 ATAGTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
ATAAAAATAAGGAATAT
Found at i:93148679 original size:43 final size:43
Alignment explanation
Indices: 93148537--93148704 Score: 174
Period size: 44 Copynumber: 3.8 Consensus size: 43
93148527 GAGGAAGATT
* * * *
93148537 TGGCAACTTGTCTGTGAATTTGATGGTTTCCTCCAAAACCTACA
1 TGGCAGCTTGTCTGTGAATTTGGTGGTTT-ATCCACAACCTACA
* * * *
93148581 TGGCAGCTTGTCTGAGAATTTAGTAGCTTTATCCATAACCTACA
1 TGGCAGCTTGTCTGTGAATTTGGT-GGTTTATCCACAACCTACA
93148625 TGGCAGCTTGTCTGTGAATTTGGTGGTTTATCCACAACCTACA
1 TGGCAGCTTGTCTGTGAATTTGGTGGTTTATCCACAACCTACA
* * * *** *
93148668 CGACAGTTTGTCTACAAATTTGGTGGCTTTGTCCACA
1 TGGCAGCTTGTCTGTGAATTTGGTGG-TTTATCCACA
93148705 TATATATTAG
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
43 37 0.36
44 63 0.61
45 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (43 bp):
TGGCAGCTTGTCTGTGAATTTGGTGGTTTATCCACAACCTACA
Found at i:93149647 original size:19 final size:19
Alignment explanation
Indices: 93149623--93149664 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
93149613 CGCGTACTGG
93149623 CACACGAAGTGCATCCTGA
1 CACACGAAGTGCATCCTGA
*
93149642 CACACGAAGTGCATCCTGG
1 CACACGAAGTGCATCCTGA
93149661 CACA
1 CACA
93149665 TAAACACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.14
Consensus pattern (19 bp):
CACACGAAGTGCATCCTGA
Found at i:93158850 original size:16 final size:16
Alignment explanation
Indices: 93158829--93158864 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
93158819 TTTGGTTCGC
93158829 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
93158845 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
93158861 TGTA
1 TGTA
93158865 ATAGCTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:93159187 original size:157 final size:157
Alignment explanation
Indices: 93158987--93159303 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
93158977 TAGAATACCC
*
93158987 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
93159052 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAATA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA-A
93159117 ATATATAATTTAATAAAATTCTT-ATAA
130 ATATATAATTTAATAAAATTCTTAATAA
* *
93159144 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
93159209 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
93159274 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
93159301 TTA
1 TTA
93159304 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 24 0.16
157 128 0.84
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:93159274 original size:16 final size:16
Alignment explanation
Indices: 93159237--93159278 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
93159227 TTAATCATAT
*
93159237 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
93159253 TT-AAATATATTATAA
1 TTAAAATATATTATAA
93159268 TTAAAATATAT
1 TTAAAATATAT
93159279 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:93159285 original size:14 final size:15
Alignment explanation
Indices: 93159246--93159287 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
93159236 TTTAAACATA
*
93159246 ATTATTATTAAATAT
1 ATTATAATTAAATAT
93159261 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
93159275 A-TATAATTTAATA
1 ATTATAATTAAATA
93159288 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:93159374 original size:120 final size:121
Alignment explanation
Indices: 93159240--93159532 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 121
93159230 ATCATATTTA
93159240 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
93159305 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-GT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATGTG
93159360 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
93159425 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
* * *
93159481 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
93159533 TAAAATAATT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 3 0.02
120 160 0.97
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
Found at i:93159405 original size:14 final size:15
Alignment explanation
Indices: 93159366--93159407 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
93159356 AAGTAACATA
*
93159366 ATTATTATTAAATAT
1 ATTATAATTAAATAT
93159381 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
93159395 A-TATAATTTAATA
1 ATTATAATTAAATA
93159408 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:93168086 original size:18 final size:18
Alignment explanation
Indices: 93168037--93168080 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
93168027 TGTTGCTACT
93168037 ATTTTGTTGTTATTGTATA
1 ATTTTGTT-TTATTGTATA
*
93168056 ACTTTGTTTTATTGT-TA
1 ATTTTGTTTTATTGTATA
93168073 ATTTTGTT
1 ATTTTGTT
93168081 ACTATTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 7 0.30
19 7 0.30
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.66
Consensus pattern (18 bp):
ATTTTGTTTTATTGTATA
Found at i:93187383 original size:5 final size:5
Alignment explanation
Indices: 93187373--93187400 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
93187363 AATAATTAAG
93187373 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
93187401 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:93188933 original size:27 final size:27
Alignment explanation
Indices: 93188881--93188949 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 27
93188871 ATGCCTTATT
**
93188881 GGTGTGTTTGGGAGGATATATTATATC
1 GGTGTGTTTGGGAGGATATACAATATC
*
93188908 GGTGTG-TTGTGGAGGATTTACAATATTCC
1 GGTGTGTTTG-GGAGGATATACAATA-T-C
93188937 GGGTGTGTTTGGG
1 -GGTGTGTTTGGG
93188950 TTGGATATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 3 0.09
27 18 0.53
28 1 0.03
29 1 0.03
30 8 0.24
31 3 0.09
ACGTcount: A:0.17, C:0.06, G:0.38, T:0.39
Consensus pattern (27 bp):
GGTGTGTTTGGGAGGATATACAATATC
Found at i:93195868 original size:686 final size:672
Alignment explanation
Indices: 93194570--93195923 Score: 1964
Period size: 686 Copynumber: 2.0 Consensus size: 672
93194560 GCTAAGGATG
*
93194570 TTTGGAATCAAGTCCTCCCAGGTAATTGTTTATCGAATTTTTTCTCTACTAATTCACAAGATTGG
1 TTTGGAATCAAGTCCTCCCAGGTAATTGTTTATCGAACTTTTTCTCTACTAATTCACAAGATTGG
* * * *
93194635 CTTCTTGCTAACTTGCAGGGTAATAGCATGGTCCATGAGGAAGGATCCAGTTGGGTTTGTCTTTT
66 CTTCTTGCTAACTTGCAGGATAATAGCATGGTCCACGAGGAAGGATCCAGTTGGGCTTATCTTTT
* * * *
93194700 TGGACTTCTTATTTGGCGCTTATGTAAGAATCATAACTTATTCATTTTTCAAGTAAGATCTTGGA
131 TAGACTTCTTATTTAGCGCTTATGGAAGAATCATAACTTATTCATTTTTCAAGGAAGATCTTGGA
* * * *
93194765 GCCCGAGAGAGATTATTCAAGTTTTTTTAAGTTGGGCGAATCAGCTTTTAAAGTAGATGTTAAGG
196 GCCAGAGAGAGATTATTCAAGTTTCTTTAAGTTGGGCGAATCAGCTTTTAAAGCAGATGTTAAAG
* * * * *
93194830 GTAGTTTTAAATCTCCCGTCGAAGAGGAATCTTTTGAAGATCCGATAAACACTGATTGGGTAGTG
261 GTAATTTTAAATCTCCCGTCGAAGAGGAATCTTTTAAAGATCAGATAAACACTGATGGGGCAGTG
93194895 CAACTAGAATCTAGAAAAGCAGCAGCTGGTGAAGTTGTTCATGATACTAATGAAGATTGGATTTT
326 CAACTAGAATCTAGAAAAGCAGCAGCTGGTGAAGTTGTTCATGATACTAATGAAGATTGGATTTT
* *
93194960 TGGATACAATCGTGGACTTGGAAAATTTTCTATCTTTAATGCTGAACTATGAGGCATTTTGGAGG
391 TGGATACAATCGTGGACTTGGAAAATGTTCTATCTTTAATGCTGAACTACGAGGCATTTTGGAGG
* *
93195025 GTCTCAGGCTAATTCAATAAAGGGTCCATGATGAAGTCATCATTCAATCTGATAGTTTGGAAGTT
456 GTCTCAGGCTAATTCAAGAAAGGGTCCATAATGAAGTCATCATTCAATCTGATAGTTTGGAAGTT
* *
93195090 ATCAAAGCTATACTTGATAGTACCTCTACCAAGGCGAATTCAACGTTAATTAGTCGCATCCAAAG
521 ACCAAAGCTATACTTGATAGTACCTCTACCAAGGCGAATTCAACGTTAATTAGGCGCATCCAAAG
* *
93195155 TATTTTATTTCAAGAAAAACAGTGGTTGTTGCGGTACATTCCAAGATATCAAAATCAAGTTGCAG
586 TATTTTATTTCAAGAAAAACAGTGGTTGTTGCGGTACATTCCAAGAGATCAAAATCAAGTTGCAA
93195220 ACTGTCTAGCTAAACAAGGACA
651 ACTGTCTAGCTAAACAAGGACA
* * *
93195242 TTTGGAATCAAGTCCTCCTAGGTAATTGTTTATCGAACTTTTTCTCTATTAATTCTCAAGATTGG
1 TTTGGAATCAAGTCCTCCCAGGTAATTGTTTATCGAACTTTTTCTCTACTAATTCACAAGATTGG
* *
93195307 CTTCTTGCTAACTTGTAGGAT-ATAGCATGGTCTACGAGGAAGGATCCAGTTGGGCTTATCTTTT
66 CTTCTTGCTAACTTGCAGGATAATAGCATGGTCCACGAGGAAGGATCCAGTTGGGCTTATCTTTT
*
93195371 TAGACTTCTTATTTAGCGCTTATGGAAGAA-CTGTAACTTATTCATTTTTCAAGGAAGATCTTGG
131 TAGACTTCTTATTTAGCGCTTATGGAAGAATC-ATAACTTATTCATTTTTCAAGGAAGATCTTGG
* * *
93195435 AGCTAGCGAGAGATTATTCAAGTTTCTTTAAGTTGGGTGAATCAACTCTTTTCAGCTTTTAAAGC
195 AGCCAGAGAGAGATTATTCAAGTTTCTTTAAGTTGGGCG----AA------TCAGCTTTTAAAGC
* *
93195500 AGATGTTAAAGGTAATTTTAAATCTCTCGTCGAAGAGGAATCTTTTAAAGATCAGATTTTTCTTA
250 AGATGTTAAAGGTAATTTTAAATCTCCCGTCGAAGAGGAATCTTTTAAAGATCAGA------TAA
* * * * * *
93195565 ACATTGATGGGGCAGTGCAATTAGAATCTTGAAATGCAGCCA-CTGGTGAAGTTGTTCGTGATGC
309 ACACTGATGGGGCAGTGCAACTAGAATCTAGAAAAGCAG-CAGCTGGTGAAGTTGTTCATGATAC
* * * * *
93195629 TAATGGAGATTGGATTTTTGGATA-TATTGTCGG-CTTGGAAAATGTTCTATTTTTAATGTTGAA
373 TAATGAAGATTGGATTTTTGGATACAATCGT-GGACTTGGAAAATGTTCTATCTTTAATGCTGAA
* *
93195692 CTACGAGGCATTTTGGAGGGTCTCATGCTAATTCAACGAAGGGGT-CATAATGAAGTCATCATTC
437 CTACGAGGCATTTTGGAGGGTCTCAGGCTAATTCAA-GAAAGGGTCCATAATGAAGTCATCATTC
* * *
93195756 AATCTGATAGTTTGGAAGTTGCCAAAGCTATACTTGATAGTACCTCTACCGAGGCGAATTCAGCG
501 AATCTGATAGTTTGGAAGTTACCAAAGCTATACTTGATAGTACCTCTACCAAGGCGAATTCAACG
** * *
93195821 TTAATTAGGCGCATCCAAAGTATTTTATTTCAAGAAAAATGGTGGTTGTTGCGGTACATTTCGAG
566 TTAATTAGGCGCATCCAAAGTATTTTATTTCAAGAAAAACAGTGGTTGTTGCGGTACATTCCAAG
*
93195886 AGATCAAAATCAAGTTGCAAACTGTCTATCTAAACAAG
631 AGATCAAAATCAAGTTGCAAACTGTCTAGCTAAACAAG
93195924 CCGTGATCGG
Statistics
Matches: 604, Mismatches: 58, Indels: 26
0.88 0.08 0.04
Matches are distributed among these distances:
670 1 0.00
671 130 0.22
672 80 0.13
675 2 0.00
681 64 0.11
686 239 0.40
687 86 0.14
688 2 0.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (672 bp):
TTTGGAATCAAGTCCTCCCAGGTAATTGTTTATCGAACTTTTTCTCTACTAATTCACAAGATTGG
CTTCTTGCTAACTTGCAGGATAATAGCATGGTCCACGAGGAAGGATCCAGTTGGGCTTATCTTTT
TAGACTTCTTATTTAGCGCTTATGGAAGAATCATAACTTATTCATTTTTCAAGGAAGATCTTGGA
GCCAGAGAGAGATTATTCAAGTTTCTTTAAGTTGGGCGAATCAGCTTTTAAAGCAGATGTTAAAG
GTAATTTTAAATCTCCCGTCGAAGAGGAATCTTTTAAAGATCAGATAAACACTGATGGGGCAGTG
CAACTAGAATCTAGAAAAGCAGCAGCTGGTGAAGTTGTTCATGATACTAATGAAGATTGGATTTT
TGGATACAATCGTGGACTTGGAAAATGTTCTATCTTTAATGCTGAACTACGAGGCATTTTGGAGG
GTCTCAGGCTAATTCAAGAAAGGGTCCATAATGAAGTCATCATTCAATCTGATAGTTTGGAAGTT
ACCAAAGCTATACTTGATAGTACCTCTACCAAGGCGAATTCAACGTTAATTAGGCGCATCCAAAG
TATTTTATTTCAAGAAAAACAGTGGTTGTTGCGGTACATTCCAAGAGATCAAAATCAAGTTGCAA
ACTGTCTAGCTAAACAAGGACA
Found at i:93200205 original size:39 final size:40
Alignment explanation
Indices: 93200151--93200327 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
93200141 AAACCAAGTA
* * * *
93200151 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
93200190 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
93200230 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
93200270 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
93200309 CCTTCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
93200328 TTATCATCCG
Statistics
Matches: 125, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 46 0.37
40 78 0.62
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:93200228 original size:40 final size:40
Alignment explanation
Indices: 93200184--93200331 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
93200174 GCTACTTGCT
93200184 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
93200224 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
93200264 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
93200303 CAAATGCCTTCAGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
93200332 CATCCGAATA
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.33
40 65 0.65
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:93200283 original size:79 final size:80
Alignment explanation
Indices: 93200184--93200331 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 80
93200174 GCTACTTGCT
* * *
93200184 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCAGGACTTAGCCCG
93200248 GTTATAGTAACTCGCA
65 GTTATAGTAACTCGCA
*
93200264 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCAGGACTTAGCCCGG
93200328 TTAT
66 TTAT
93200332 CATCCGAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
79 48 0.76
80 15 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCAGGACTTAGCCCGG
TTATAGTAACTCGCA
Found at i:93204890 original size:40 final size:40
Alignment explanation
Indices: 93204846--93205033 Score: 317
Period size: 40 Copynumber: 4.7 Consensus size: 40
93204836 GCTACTTGCT
93204846 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
93204886 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
93204926 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
93204966 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
93205005 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
93205034 CATCCGAATA
Statistics
Matches: 139, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.24
40 103 0.74
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:93209227 original size:35 final size:35
Alignment explanation
Indices: 93209164--93209232 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
93209154 CTAGTTTTAG
*** *
93209164 TTTTATCCCCAAATCAGTTTCCCAAAATCTCTTAT
1 TTTTATCCCCAAATCAAAATCCCAAAATCCCTTAT
* *
93209199 TTTTTTCCCCAAATCAAAATCCCCAAATCCCTTA
1 TTTTATCCCCAAATCAAAATCCCAAAATCCCTTA
93209233 GATTTTCCCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.01, T:0.36
Consensus pattern (35 bp):
TTTTATCCCCAAATCAAAATCCCAAAATCCCTTAT
Found at i:93209307 original size:25 final size:25
Alignment explanation
Indices: 93209248--93209308 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
93209238 TCCCTGAATG
* *
93209248 TCTGCTGCATCGTCGTCGACAGTCC
1 TCTGCTGCATCGCCATCGACAGTCC
* * *
93209273 TCTACCGCATCGCCATCGACAGTCT
1 TCTGCTGCATCGCCATCGACAGTCC
93209298 TCTGCTGCATC
1 TCTGCTGCATC
93209309 ACCTTGTAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.15, C:0.38, G:0.20, T:0.28
Consensus pattern (25 bp):
TCTGCTGCATCGCCATCGACAGTCC
Found at i:93218078 original size:34 final size:34
Alignment explanation
Indices: 93218016--93218080 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
93218006 ACATTTATCA
* * *
93218016 TCATGTCATTATTATTAACATATTTCATGGATTT
1 TCATGCCATTATTATTAACAAATATCATGGATTT
93218050 TCATGCCATTATTA-TAACCAAATATCATGGA
1 TCATGCCATTATTATTAA-CAAATATCATGGA
93218081 CTTATAACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 3 0.11
34 24 0.89
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (34 bp):
TCATGCCATTATTATTAACAAATATCATGGATTT
Found at i:93218454 original size:20 final size:18
Alignment explanation
Indices: 93218417--93218455 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
93218407 ATAGAAGCCC
*
93218417 ATATTTTTCCATTATTTT
1 ATATTTTTCCAATATTTT
93218435 ATATTTTTACCACATATTTT
1 ATATTTTT-CCA-ATATTTT
93218455 A
1 A
93218456 CACCTTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTTTTCCAATATTTT
Found at i:93222185 original size:16 final size:17
Alignment explanation
Indices: 93222101--93222187 Score: 60
Period size: 16 Copynumber: 5.1 Consensus size: 17
93222091 TAAAGAAATG
93222101 TAAAATAATA-TT-TAA
1 TAAAATAATACTTATAA
*
93222116 GAAAAATAATAC--ATAA
1 -TAAAATAATACTTATAA
93222132 TAAGTAATAAT-CATATATAA
1 TAA--AATAATAC-T-TATAA
93222152 TTAAAATAATACTTATAA
1 -TAAAATAATACTTATAA
*
93222170 TAAAATAAT-TTTATAA
1 TAAAATAATACTTATAA
93222186 TA
1 TA
93222188 TATAATATAA
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
15 2 0.03
16 21 0.36
17 15 0.26
18 5 0.09
19 7 0.12
20 5 0.09
21 3 0.05
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (17 bp):
TAAAATAATACTTATAA
Found at i:93224004 original size:87 final size:87
Alignment explanation
Indices: 93223828--93224092 Score: 386
Period size: 87 Copynumber: 3.1 Consensus size: 87
93223818 TTCGATTTGT
* *
93223828 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATA----TCTGCAATGTCC
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGTCTGCAATGTCC
*
93223889 TCGATTTGTTCCTCGTAAGCAC
66 TCGATTTGTTCCTTGTAAGCAC
93223911 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGTCTGCAATGTCC
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGTCTGCAATGTCC
93223976 TCGATTTGTTCCTTGTAAGCAC
66 TCGATTTGTTCCTTGTAAGCAC
* *
93223998 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCAAATCTG-CT---ATGTCT
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGTCTGCAATGTCC
*
93224059 TCGATTTGTTTCC-TGTAAACAC
66 TCGATTTG-TTCCTTGTAAGCAC
* *
93224081 AAGAATACCAAA
1 AAGGATGCCAAA
93224093 TCATTTTGGA
Statistics
Matches: 169, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
83 78 0.46
84 4 0.02
86 2 0.01
87 85 0.50
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (87 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGTCTGCAATGTCC
TCGATTTGTTCCTTGTAAGCAC
Found at i:93224121 original size:87 final size:82
Alignment explanation
Indices: 93223828--93224092 Score: 395
Period size: 83 Copynumber: 3.1 Consensus size: 82
93223818 TTCGATTTGT
* * *
93223828 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTATGTCCTCGA
93223893 TTTGTTCCTCGTAAGCAC
66 TTTGTTCCT-GTAAGCAC
93223911 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGTCTGCAATGTCC
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTG-CT---ATGTCC
93223976 TCGATTTGTTCCTTGTAAGCAC
62 TCGATTTGTTCC-TGTAAGCAC
* *
93223998 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCAAATCTGCTATGTCTTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTATGTCCTCGA
*
93224063 TTTGTTTCCTGTAAACAC
66 TTTG-TTCCTGTAAGCAC
* *
93224081 AAGAATACCAAA
1 AAGGATGCCAAA
93224093 TCATTTTGGA
Statistics
Matches: 168, Mismatches: 8, Indels: 12
0.89 0.04 0.06
Matches are distributed among these distances:
83 82 0.49
84 5 0.03
86 2 0.01
87 78 0.46
88 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (82 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTATGTCCTCGA
TTTGTTCCTGTAAGCAC
Found at i:93224148 original size:62 final size:62
Alignment explanation
Indices: 93224077--93224199 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
93224067 TTTCCTGTAA
*
93224077 ACACAAGAATACCAAATCATTTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGT
1 ACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGT
93224139 ACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
1 ACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
93224200 CTATCTTTGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (62 bp):
ACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGT
Found at i:93224350 original size:119 final size:118
Alignment explanation
Indices: 93224139--93224436 Score: 490
Period size: 119 Copynumber: 2.5 Consensus size: 118
93224129 TTAGATCTGT
93224139 ACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
1 ACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
* *
93224204 CTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAA
66 CTTTGAGAACGTCTGAGAGTCAAATCTGCTATGT-CTCGACTTGTTCCTTGTAA
* *
93224258 ACACAAGAATATCAAATCATCTTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTAT
1 ACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
*
93224323 CTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCTCGACTTGTTTCTTGTAA
66 CTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCTCGACTTGTTCCTTGTAA
** **
93224376 ACACAAGAATACCAAATCATCTTGGATCTGCTTCAACATAAATGTCTGAA-GTCTAGATCTG
1 ACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTG
93224437 TTGTCTTCAA
Statistics
Matches: 167, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
117 2 0.01
118 68 0.41
119 97 0.58
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (118 bp):
ACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
CTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCTCGACTTGTTCCTTGTAA
Found at i:93246118 original size:57 final size:59
Alignment explanation
Indices: 93246055--93246176 Score: 158
Period size: 57 Copynumber: 2.1 Consensus size: 59
93246045 TCATATTCAT
* *
93246055 TTTTCATTTTCATTTTAAAGAAAACCACATTAATTTCCAAATGA-TTC-CATTTCTCCA
1 TTTTCATTTTCATTTTAAAGAAAACCACAATAATTTCCAAATAATTTCTCATTTCTCCA
** * * * *
93246112 TTTTCATTTTCATTTTGGAGAAAACTATAATCATTTCCAAATAATTTCTCATTTCTCTA
1 TTTTCATTTTCATTTTAAAGAAAACCACAATAATTTCCAAATAATTTCTCATTTCTCCA
93246171 TTTTCA
1 TTTTCA
93246177 ACCATTTCTG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 37 0.67
58 3 0.05
59 15 0.27
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (59 bp):
TTTTCATTTTCATTTTAAAGAAAACCACAATAATTTCCAAATAATTTCTCATTTCTCCA
Found at i:93248996 original size:34 final size:34
Alignment explanation
Indices: 93248958--93249093 Score: 272
Period size: 34 Copynumber: 4.0 Consensus size: 34
93248948 TCTGTCTTCA
93248958 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
1 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
93248992 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
1 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
93249026 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
1 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
93249060 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
1 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
93249094 ATTGACCTAA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 102 1.00
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (34 bp):
CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
Found at i:93257128 original size:48 final size:46
Alignment explanation
Indices: 93257047--93257150 Score: 172
Period size: 48 Copynumber: 2.2 Consensus size: 46
93257037 TTGGCATATG
*
93257047 TATTATTATTAATGTAAGAGAATGTGAGTTTAAGTACGCTGAAACC
1 TATTATTATCAATGTAAGAGAATGTGAGTTTAAGTACGCTGAAACC
*
93257093 TATTATTATCAATGTATAGGTGAATGTGAGTTTAAGTACGCTGAAACC
1 TATTATTATCAATGTA-A-GAGAATGTGAGTTTAAGTACGCTGAAACC
93257141 TATTATTATC
1 TATTATTATC
93257151 TTATTTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
46 15 0.28
47 1 0.02
48 38 0.70
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.38
Consensus pattern (46 bp):
TATTATTATCAATGTAAGAGAATGTGAGTTTAAGTACGCTGAAACC
Found at i:93264681 original size:8 final size:8
Alignment explanation
Indices: 93264664--93264727 Score: 71
Period size: 8 Copynumber: 8.4 Consensus size: 8
93264654 AACAAACTGA
93264664 AGGG-TTT
1 AGGGTTTT
93264671 AGGGTTTT
1 AGGGTTTT
93264679 AGGGTTTT
1 AGGGTTTT
*
93264687 A-GGATTT
1 AGGGTTTT
*
93264694 A-AGTTTT
1 AGGGTTTT
93264701 AGGGTTTT
1 AGGGTTTT
*
93264709 AGAGTTTT
1 AGGGTTTT
*
93264717 AGAGTTTT
1 AGGGTTTT
93264725 AGG
1 AGG
93264728 CTTTCTTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
7 15 0.31
8 34 0.69
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (8 bp):
AGGGTTTT
Found at i:93264688 original size:355 final size:360
Alignment explanation
Indices: 93264033--93264754 Score: 1186
Period size: 355 Copynumber: 2.0 Consensus size: 360
93264023 AAATAAGCAT
*
93264033 TCTACTAGTTCGAAGATGGGTTGAAGTCTTGGGCAAAATAGGAGATGCATCGACAAGGTATCATT
1 TCTACTAGTTCAAAGATGGGTTGAAGTCTTGGGCAAAATAGGAGATGCATCGACAAGG-ATCATT
*
93264098 AAACTTACTATAGCCATGGCTAATGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTT
65 AAACTTACTATAGCCATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTT
93264163 CAAGTCTTCCGAGCCCAAAGAGATAGACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTG
130 CAAGTCTTCCGAGCCCAAAGAGATAGACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTG
* * * **
93264228 AAAATGGAAATAGTGGAAATCGTAAGAATGGTGGTAATGAGAAACCACATAATGGGAAGTGGAAG
195 AAAATGGAAATAGTGAAAATCGTAAGAATGGTGGTAATGAGAAACCACATAATAGAAAGTAAAAG
*
93264293 TCTAACAACAAATTGAAGGGTTTAGGGTTTTAAAGTTTTAGAATTTAGAG-TTTAGGGTTTT-A-
260 TCTAACAACAAACTGAAGGGTTTAGGGTTTTAAAGTTTTAGAATTTA-AGTTTTAGGGTTTTAAT
93264355 AG-GTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
324 AGAGTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
* * **
93264391 TCTACTATTTCAAAGATGGGTTGAAGTCTTGGGCAAAATAGGAGTTGTGTCGACAAGG-T-ATTA
1 TCTACTAGTTCAAAGATGGGTTGAAGTCTTGGGCAAAATAGGAGATGCATCGACAAGGATCATTA
93264454 AACTTACTATAGCCATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTTC
66 AACTTACTATAGCCATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTTC
*
93264519 AAGTCTTCCGAGCCCAAAGAGATAGACAATGGTGCGAGAAACCATGGGGAAGAGGGACAAGTTGA
131 AAGTCTTCCGAGCCCAAAGAGATAGACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTGA
*
93264584 AAATGGAAATAGTGAAAATCGTAAGAATGGTGGTAATGAGAAATCACATAATAGAAAGTAAAAGT
196 AAATGGAAATAGTGAAAATCGTAAGAATGGTGGTAATGAGAAACCACATAATAGAAAGTAAAAGT
** *
93264649 CTAACAACAAACTGAAGGGTTTAGGGTTTTAGGGTTTTAGGATTTAAGTTTTAGGGTTTTAGAGT
261 CTAACAACAAACTGAAGGGTTTAGGGTTTTAAAGTTTTAGAATTTAAGTTTTAGGGTTTTA-A--
93264714 TTTAGAGTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
323 --TAGAGTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
93264754 T
1 T
93264755 AAGGAATTGT
Statistics
Matches: 338, Mismatches: 17, Indels: 13
0.92 0.05 0.04
Matches are distributed among these distances:
354 2 0.01
355 244 0.72
356 1 0.00
357 1 0.00
358 53 0.16
362 2 0.01
363 35 0.10
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (360 bp):
TCTACTAGTTCAAAGATGGGTTGAAGTCTTGGGCAAAATAGGAGATGCATCGACAAGGATCATTA
AACTTACTATAGCCATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTTC
AAGTCTTCCGAGCCCAAAGAGATAGACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTGA
AAATGGAAATAGTGAAAATCGTAAGAATGGTGGTAATGAGAAACCACATAATAGAAAGTAAAAGT
CTAACAACAAACTGAAGGGTTTAGGGTTTTAAAGTTTTAGAATTTAAGTTTTAGGGTTTTAATAG
AGTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
Found at i:93264699 original size:22 final size:24
Alignment explanation
Indices: 93264668--93264727 Score: 88
Period size: 22 Copynumber: 2.6 Consensus size: 24
93264658 AACTGAAGGG
*
93264668 TTTAGGGTTTTAGGGTTTTAG-GA
1 TTTAGAGTTTTAGGGTTTTAGAGA
*
93264691 TTTA-AGTTTTAGGGTTTTAGAGT
1 TTTAGAGTTTTAGGGTTTTAGAGA
93264714 TTTAGAGTTTTAGG
1 TTTAGAGTTTTAGG
93264728 CTTTCTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 15 0.45
23 9 0.27
24 9 0.27
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (24 bp):
TTTAGAGTTTTAGGGTTTTAGAGA
Found at i:93264701 original size:14 final size:15
Alignment explanation
Indices: 93264676--93264718 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
93264666 GGTTTAGGGT
*
93264676 TTTAGGGTTTTAGGA
1 TTTAGAGTTTTAGGA
*
93264691 TTTA-AGTTTTAGGGT
1 TTTAGAGTTTTA-GGA
93264706 TTTAGAGTTTTAG
1 TTTAGAGTTTTAG
93264719 AGTTTTAGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.25
15 11 0.46
16 7 0.29
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (15 bp):
TTTAGAGTTTTAGGA
Found at i:93266049 original size:50 final size:50
Alignment explanation
Indices: 93265990--93266085 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
93265980 AATATGCTAG
* *
93265990 ATAGACTTTTC-CAATAACTTGCCACAAAGGCTTTCCAGATTATACGTCAC
1 ATAGACTTTTCAC-ATAACTTGCCACAAAGACTTTCCAGATAATACGTCAC
* * * *
93266040 ATAGGCTTTTTACATAACTTGTCACAATGACTTTCCAGATAATACG
1 ATAGACTTTTCACATAACTTGCCACAAAGACTTTCCAGATAATACG
93266086 CCATAATGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 38 0.97
51 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (50 bp):
ATAGACTTTTCACATAACTTGCCACAAAGACTTTCCAGATAATACGTCAC
Found at i:93266093 original size:25 final size:25
Alignment explanation
Indices: 93266065--93266113 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
93266055 AACTTGTCAC
*
93266065 AATGACTTTCCAGATAATACGCCAT
1 AATGACTTTCAAGATAATACGCCAT
* * *
93266090 AATGGCTTTTAAGATAATATGCCA
1 AATGACTTTCAAGATAATACGCCA
93266114 CATAGGATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (25 bp):
AATGACTTTCAAGATAATACGCCAT
Found at i:93266097 original size:75 final size:75
Alignment explanation
Indices: 93266018--93266163 Score: 175
Period size: 75 Copynumber: 1.9 Consensus size: 75
93266008 TTGCCACAAA
* * * * * * * *
93266018 GGCTTTCCAGATTATACGTCACATAGGCTTTTTACATAACTTGTCACAATGACTTTCCAGATAAT
1 GGCTTTCAAGATAATACGCCACATAGGATTTTCAAATAACTTGACACAAAGACTTTCCAGATAAT
93266083 ACGCCATAAT
66 ACGCCATAAT
* * * *
93266093 GGCTTTTAAGATAATATGCCACATAGGATTTTCAAATAACTTGACACAAAGGCTTTCTAGATAAT
1 GGCTTTCAAGATAATACGCCACATAGGATTTTCAAATAACTTGACACAAAGACTTTCCAGATAAT
*
93266158 ATGCCA
66 ACGCCA
93266164 CATAAGCCTT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
75 58 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (75 bp):
GGCTTTCAAGATAATACGCCACATAGGATTTTCAAATAACTTGACACAAAGACTTTCCAGATAAT
ACGCCATAAT
Found at i:93266124 original size:25 final size:25
Alignment explanation
Indices: 93266096--93266167 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 25
93266086 CCATAATGGC
93266096 TTTTAAGATAATATGCCACATAGGA
1 TTTTAAGATAATATGCCACATAGGA
* * *
93266121 TTTTCAA-ATAACT-TGACACAAAGGC
1 TTTT-AAGATAA-TATGCCACATAGGA
93266146 TTTCT-AGATAATATGCCACATA
1 TTT-TAAGATAATATGCCACATA
93266168 AGCCTTGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
24 2 0.05
25 31 0.84
26 4 0.11
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (25 bp):
TTTTAAGATAATATGCCACATAGGA
Found at i:93267796 original size:12 final size:12
Alignment explanation
Indices: 93267781--93268013 Score: 72
Period size: 12 Copynumber: 19.7 Consensus size: 12
93267771 TTGTTATTTA
93267781 TATTATTACTAT
1 TATTATTACTAT
*** *
93267793 TATTAACGCTCT
1 TATTATTACTAT
*
93267805 TATTATTGCTAT
1 TATTATTACTAT
** *
93267817 TATTATCCCTTT
1 TATTATTACTAT
*
93267829 TACTATTACTAT
1 TATTATTACTAT
* *
93267841 TATTACTATCTTT
1 TATTATTA-CTAT
* *
93267854 TTTTATGT-TTAT
1 TATTAT-TACTAT
* *
93267866 TTTTATTAATAT
1 TATTATTACTAT
*
93267878 TATTATTA-TAA
1 TATTATTACTAT
* *
93267889 TCTTATT-TTAT
1 TATTATTACTAT
*
93267900 TACTATTA-TCAT
1 TATTATTACT-AT
*
93267912 T-TT-TTA-AAT
1 TATTATTACTAT
*
93267921 TATTGTTACTAT
1 TATTATTACTAT
* *
93267933 TATTCTTTTACCA-
1 TA-T-TATTACTAT
*
93267946 T-TTAATAC-AT
1 TATTATTACTAT
*
93267956 TATTATTGCTAT
1 TATTATTACTAT
* * *
93267968 TTTTGTTATTAT
1 TATTATTACTAT
*
93267980 TACTATTACTATT
1 TATTATTACTA-T
93267993 GTATTATTACTAT
1 -TATTATTACTAT
93268006 TATTATTA
1 TATTATTA
93268014 TTACATTTTC
Statistics
Matches: 159, Mismatches: 46, Indels: 32
0.67 0.19 0.14
Matches are distributed among these distances:
9 4 0.03
10 10 0.06
11 27 0.17
12 90 0.57
13 11 0.07
14 17 0.11
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:93267808 original size:24 final size:24
Alignment explanation
Indices: 93267781--93267845 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
93267771 TTGTTATTTA
*
93267781 TATTATTACTATTATTAACGCTCT
1 TATTATTACTATTATTAACCCTCT
* * *
93267805 TATTATTGCTATTATTATCCCTTT
1 TATTATTACTATTATTAACCCTCT
*
93267829 TACTATTACTATTATTA
1 TATTATTACTATTATTA
93267846 CTATCTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.54
Consensus pattern (24 bp):
TATTATTACTATTATTAACCCTCT
Found at i:93267999 original size:20 final size:20
Alignment explanation
Indices: 93267974--93268012 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
93267964 CTATTTTTGT
93267974 TATTATTACTATTACTATTG
1 TATTATTACTATTACTATTG
*
93267994 TATTATTACTATTATTATT
1 TATTATTACTATTACTATT
93268013 ATTACATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTATTACTATTACTATTG
Found at i:93268409 original size:3 final size:3
Alignment explanation
Indices: 93268179--93268393 Score: 152
Period size: 3 Copynumber: 71.7 Consensus size: 3
93268169 CAAACTTTAG
*
93268179 ATT ATTT ATT ATT -TGT ATT ATT ATT ATT ATT ATT ACT ATTT ATT ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
** * * * *
93268226 ACC ATT ATT ATT ACT ATT ATT TTT ACTT -TT ATT ACT ATT ACT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* * * * * *
93268270 ATT ATT TTT ATT TTT ATT TTT ATT TTCT ATT ACT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * * * * * *
93268316 ATT AAT ACT AAT ATT AAT ATT CTT ATT ATT ATT ATT ATT ATC ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
93268364 ATT ATT ATT -TT -TT ACT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
93268394 CGTTTTCATT
Statistics
Matches: 164, Mismatches: 39, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
2 9 0.05
3 145 0.88
4 10 0.06
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:93268419 original size:43 final size:43
Alignment explanation
Indices: 93268339--93268420 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 43
93268329 TTAATATTCT
* * *
93268339 TATTATTATTATTATTATCATTAGTATTATTATTTTTTACTAC
1 TATTATTATTATCATTATCATTAGTATTATCAATTTTTACTAC
* * * *
93268382 TATTATTATTATCGTTTTCATTATTATTGTCAATTTTTA
1 TATTATTATTATCATTATCATTAGTATTATCAATTTTTA
93268421 TTTTGTCATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (43 bp):
TATTATTATTATCATTATCATTAGTATTATCAATTTTTACTAC
Found at i:93271148 original size:23 final size:24
Alignment explanation
Indices: 93271100--93271151 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
93271090 ATTTGAAGTT
*
93271100 ATATTAAAAATTGCATTTTAAAAA
1 ATATTAAAAATTGCATATTAAAAA
*
93271124 ATATTACAAAA-TG-ATATTAATAA
1 ATATTA-AAAATTGCATATTAAAAA
93271147 ATATT
1 ATATT
93271152 TTTTTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.52
24 8 0.32
25 4 0.16
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATTAAAAATTGCATATTAAAAA
Found at i:93273881 original size:20 final size:20
Alignment explanation
Indices: 93273856--93273898 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
93273846 TTGTTTGGAA
*
93273856 CTTTTTCCAGGATTCTTGAT
1 CTTTTTCCAGGATTCTTCAT
*
93273876 CTTTTTCTAGGATTCTTCAT
1 CTTTTTCCAGGATTCTTCAT
93273896 CTT
1 CTT
93273899 AAAATATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.21, G:0.12, T:0.53
Consensus pattern (20 bp):
CTTTTTCCAGGATTCTTCAT
Found at i:93275979 original size:20 final size:20
Alignment explanation
Indices: 93275954--93275993 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
93275944 TAGAGATGGT
93275954 AATAAAGATTCTGGCTGGAC
1 AATAAAGATTCTGGCTGGAC
93275974 AATAAAGATTCTGGCTGGAC
1 AATAAAGATTCTGGCTGGAC
93275994 TCATGGGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (20 bp):
AATAAAGATTCTGGCTGGAC
Found at i:93294321 original size:45 final size:45
Alignment explanation
Indices: 93294249--93294335 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
93294239 CAAATCTACC
*
93294249 CTTTGAACTTAATTCTTATTAGCTTAATGAA-ATATAATGACTTAT
1 CTTTGAACTTAATTCTTACTAGCTTAAT-AACATATAATGACTTAT
* *
93294294 CTTTTAACTTAATTCTTACTAGTTTAATAACATATAATGACT
1 CTTTGAACTTAATTCTTACTAGCTTAATAACATATAATGACT
93294336 AATAAATAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 2 0.05
45 36 0.95
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (45 bp):
CTTTGAACTTAATTCTTACTAGCTTAATAACATATAATGACTTAT
Found at i:93298888 original size:14 final size:16
Alignment explanation
Indices: 93298869--93298907 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
93298859 TAATTCATGA
93298869 TTCAAAAATT-TC-AT
1 TTCAAAAATTGTCAAT
93298883 TTCAAAAATTGTCAAT
1 TTCAAAAATTGTCAAT
*
93298899 TCCAAAAAT
1 TTCAAAAAT
93298908 GATAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 2 0.09
16 10 0.45
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (16 bp):
TTCAAAAATTGTCAAT
Found at i:93301431 original size:17 final size:17
Alignment explanation
Indices: 93301409--93301469 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 17
93301399 AGTCATCTTA
93301409 ACATTATTTAAATATTT
1 ACATTATTTAAATATTT
93301426 ACATTA--TAATAGTCATCTT
1 ACATTATTTAA-A-T-AT-TT
93301445 AACATTATTTAAATATTT
1 -ACATTATTTAAATATTT
93301463 ACATTAT
1 ACATTAT
93301470 AGTAGTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
15 3 0.08
16 1 0.03
17 14 0.38
18 4 0.11
19 4 0.11
20 7 0.19
21 1 0.03
22 3 0.08
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.48
Consensus pattern (17 bp):
ACATTATTTAAATATTT
Found at i:93301445 original size:37 final size:37
Alignment explanation
Indices: 93301393--93301475 Score: 150
Period size: 37 Copynumber: 2.3 Consensus size: 37
93301383 TTGAATTTTT
93301393 TTAT-ATAGTCATCTTAACATTATTTAAATATTTACA
1 TTATAATAGTCATCTTAACATTATTTAAATATTTACA
93301429 TTATAATAGTCATCTTAACATTATTTAAATATTTACA
1 TTATAATAGTCATCTTAACATTATTTAAATATTTACA
*
93301466 TTATAGTAGT
1 TTATAATAGT
93301476 ATTATATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 4 0.09
37 41 0.91
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.47
Consensus pattern (37 bp):
TTATAATAGTCATCTTAACATTATTTAAATATTTACA
Found at i:93301451 original size:20 final size:20
Alignment explanation
Indices: 93301393--93301452 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
93301383 TTGAATTTTT
93301393 TTAT-ATAGTCATCTTAACA
1 TTATAATAGTCATCTTAACA
93301412 TTATTTAA-A-T-AT-TT-ACA
1 TTA--TAATAGTCATCTTAACA
93301429 TTATAATAGTCATCTTAACA
1 TTATAATAGTCATCTTAACA
93301449 TTAT
1 TTAT
93301453 TTAAATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 15
0.69 0.00 0.31
Matches are distributed among these distances:
15 3 0.09
16 1 0.03
17 7 0.21
18 4 0.12
19 7 0.21
20 8 0.24
21 2 0.06
22 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (20 bp):
TTATAATAGTCATCTTAACA
Found at i:93302585 original size:20 final size:23
Alignment explanation
Indices: 93302560--93302601 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 23
93302550 ATTATAACAC
93302560 TTTTTT-TATAA-ATA-AGTATA
1 TTTTTTGTATAATATATAGTATA
93302580 TTTTTTGTATAATATATAGTAT
1 TTTTTTGTATAATATATAGTAT
93302602 GCACATGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 5 0.26
22 3 0.16
23 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (23 bp):
TTTTTTGTATAATATATAGTATA
Found at i:93302736 original size:22 final size:24
Alignment explanation
Indices: 93302706--93302749 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
93302696 ACACAAATTA
93302706 ATTTCATAATATA-TATTTTTAGG
1 ATTTCATAATATAGTATTTTTAGG
*
93302729 ATTT-ATAATATAGTTTTTTTA
1 ATTTCATAATATAGTATTTTTA
93302750 AAAAAGTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
ATTTCATAATATAGTATTTTTAGG
Found at i:93303413 original size:22 final size:22
Alignment explanation
Indices: 93303385--93303426 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
93303375 AATTTAAAAT
93303385 TTATATT-TATTAAATAATTTAA
1 TTATATTCTA-TAAATAATTTAA
*
93303407 TTATATTCTATAATTAATTT
1 TTATATTCTATAAATAATTT
93303427 TAAAGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATTCTATAAATAATTTAA
Found at i:93303935 original size:22 final size:23
Alignment explanation
Indices: 93303887--93303935 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
93303877 TTTTTTTCTG
* *
93303887 TTTTTTTATTGTTTTGTTGATAT
1 TTTTTTTATTGTTTTGCTCATAT
93303910 TTTTTTTATTGTTTT-CTCATTAT
1 TTTTTTTATTGTTTTGCTCA-TAT
93303933 TTT
1 TTT
93303936 ATTACAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.76
Consensus pattern (23 bp):
TTTTTTTATTGTTTTGCTCATAT
Found at i:93306348 original size:20 final size:20
Alignment explanation
Indices: 93306306--93306371 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
93306296 ATATAAATAT
*
93306306 TTATT-AATTATTATTATT-
1 TTATTAAATTATAATTATTA
*
93306324 CTATTAAATTATAATT-TATA
1 TTATTAAATTATAATTAT-TA
*
93306344 TTATTAAATTATGATTATTA
1 TTATTAAATTATAATTATTA
93306364 TTATTAAA
1 TTATTAAA
93306372 AATAAATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.12
19 10 0.25
20 24 0.60
21 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTATTAAATTATAATTATTA
Found at i:93306677 original size:13 final size:14
Alignment explanation
Indices: 93306659--93306705 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
93306649 TTATAAAGTT
93306659 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
93306672 AATAAAAGAAATGA
1 AATAAAATAAAAGA
93306686 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
93306699 AATAAAA
1 AATAAAA
93306706 CAAAGTAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 22 0.76
14 7 0.24
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.15
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:93306699 original size:18 final size:18
Alignment explanation
Indices: 93306663--93306717 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
93306653 AAAGTTAATA
* *
93306663 AAATAAAAGAATA-AAAG
1 AAATAAAACAAAATAAAG
* *
93306680 AAATGAAATAAAATAAAG
1 AAATAAAACAAAATAAAG
*
93306698 AAATAAAACAAAGTAAAG
1 AAATAAAACAAAATAAAG
93306716 AA
1 AA
93306718 GAAACAGAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.13
Consensus pattern (18 bp):
AAATAAAACAAAATAAAG
Found at i:93307822 original size:45 final size:45
Alignment explanation
Indices: 93307772--93307878 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
93307762 CGACTACTGT
*
93307772 TACTGTTACCTTTACTGTTACCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCTTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
* *
93307817 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCTTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
93307862 TACTGTTA-CTGTTACTG
1 TACTGTTACCT-TTACTG
93307879 CTACTGCTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
44 1 0.02
45 54 0.96
46 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACCTTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:93308992 original size:27 final size:27
Alignment explanation
Indices: 93308937--93309000 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
93308927 AAAATGTCTC
*
93308937 TAAATTAAT-AAATATTAATTCATCGA
1 TAAATTAATAAAATATTAATTCATCAA
93308963 TAAATTAATAAAATATTAA-TCTATCAA
1 TAAATTAATAAAATATTAATTC-ATCAA
*
93308990 TAAACTAATAA
1 TAAATTAATAA
93309001 CCTCGATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 11 0.32
27 23 0.68
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTCATCAA
Found at i:93319437 original size:23 final size:23
Alignment explanation
Indices: 93319403--93319446 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
93319393 TTCTACCCAT
93319403 AATTATCATCTCAACA-CAAAGG
1 AATTATCATCTCAACATCAAAGG
* *
93319425 AATTGATCTTCTCTACATCAAA
1 AATT-ATCATCTCAACATCAAA
93319447 CCAAAGCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (23 bp):
AATTATCATCTCAACATCAAAGG
Found at i:93321813 original size:6 final size:6
Alignment explanation
Indices: 93321802--93321842 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
93321792 AACAGCAGTT
* * *
93321802 CCAGCA CCAGCA CCAGCA CCAACA CCAACA CCAACA CCAGC
1 CCAGCA CCAGCA CCAGCA CCAGCA CCAGCA CCAGCA CCAGC
93321843 CCCCTCCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.39, C:0.51, G:0.10, T:0.00
Consensus pattern (6 bp):
CCAGCA
Found at i:93321819 original size:12 final size:12
Alignment explanation
Indices: 93321802--93321842 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
93321792 AACAGCAGTT
*
93321802 CCAGCACCAGCA
1 CCAGCACCAACA
93321814 CCAGCACCAACA
1 CCAGCACCAACA
*
93321826 CCAACACCAACA
1 CCAGCACCAACA
93321838 CCAGC
1 CCAGC
93321843 CCCCTCCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.39, C:0.51, G:0.10, T:0.00
Consensus pattern (12 bp):
CCAGCACCAACA
Found at i:93326807 original size:18 final size:17
Alignment explanation
Indices: 93326780--93326814 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
93326770 TTTAATTATT
93326780 TTAAAAAATATATTTTTA
1 TTAAAAAATAT-TTTTTA
*
93326798 TTAAATAATATTTTTTA
1 TTAAAAAATATTTTTTA
93326815 AAAAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAAAAAATATTTTTTA
Found at i:93326825 original size:15 final size:15
Alignment explanation
Indices: 93326772--93326827 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
93326762 ATGTATATTT
93326772 TAATTATTTTAAAAAA
1 TAATT-TTTTAAAAAA
*
93326788 TATATTTTTATTAAATAA
1 TA-A-TTTT-TTAAAAAA
93326806 T-ATTTTTTAAAAAA
1 TAATTTTTTAAAAAA
93326820 TAATTTTT
1 TAATTTTT
93326828 CTGACAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 8 0.24
15 10 0.29
16 3 0.09
17 3 0.09
18 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTTTTTAAAAAA
Found at i:93336048 original size:7 final size:7
Alignment explanation
Indices: 93336036--93336061 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
93336026 GTTAGTTTTG
93336036 TTTATAA
1 TTTATAA
93336043 TTTATAA
1 TTTATAA
93336050 TTTATAA
1 TTTATAA
93336057 TTTAT
1 TTTAT
93336062 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTATAA
Found at i:93343657 original size:22 final size:23
Alignment explanation
Indices: 93343627--93343677 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
93343617 AAAATTAAGT
93343627 GAGAA-TTAAAAG-GGAATTGAGA
1 GAGAATTTAAAAGAGG-ATTGAGA
*
93343649 GA-AATTTAAAAGAGGTTTGAGA
1 GAGAATTTAAAAGAGGATTGAGA
93343671 GAGAATT
1 GAGAATT
93343678 GAGAATGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (23 bp):
GAGAATTTAAAAGAGGATTGAGA
Found at i:93346184 original size:5 final size:5
Alignment explanation
Indices: 93346174--93346211 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
93346164 ACACACAAAA
93346174 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
93346212 GTTATATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:93346510 original size:3 final size:3
Alignment explanation
Indices: 93346502--93346528 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
93346492 AGGCACGTGC
93346502 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
93346529 TTGTTAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:93349353 original size:15 final size:16
Alignment explanation
Indices: 93349329--93349361 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
93349319 ACTAATTTTT
93349329 TTTATATTTT-TAATA
1 TTTATATTTTATAATA
*
93349344 TTTATTTTTTATAATA
1 TTTATATTTTATAATA
93349360 TT
1 TT
93349362 ATAATGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATATTTTATAATA
Found at i:93350051 original size:22 final size:21
Alignment explanation
Indices: 93350004--93350050 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
93349994 AGCCATTTAC
93350004 CTTTTAAAAAGAGTCAAACTG
1 CTTTTAAAAAGAGTCAAACTG
93350025 CTTTTAAAAAGAGTCAAACTG
1 CTTTTAAAAAGAGTCAAACTG
93350046 CTTTT
1 CTTTT
93350051 TCACTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (21 bp):
CTTTTAAAAAGAGTCAAACTG
Found at i:93354288 original size:53 final size:53
Alignment explanation
Indices: 93354165--93354273 Score: 200
Period size: 53 Copynumber: 2.1 Consensus size: 53
93354155 TATCTCAAAC
*
93354165 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATTTAGGAACCATCTTCT
1 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATCTTCT
*
93354218 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATTTTCT
1 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATCTTCT
93354271 TCT
1 TCT
93354274 TCTTCTTTTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (53 bp):
TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATCTTCT
Found at i:93354300 original size:16 final size:16
Alignment explanation
Indices: 93354270--93354318 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
93354260 AACCATTTTC
93354270 TTCTTCTTCTTTTCTTT
1 TTCTTCTT-TTTTCTTT
*
93354287 TTCTAT-TTTTTTCTTC
1 TTCT-TCTTTTTTCTTT
93354303 TTCTTCTTTTTT-TTT
1 TTCTTCTTTTTTCTTT
93354318 T
1 T
93354319 GCAAATAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 4 0.14
16 17 0.61
17 6 0.21
18 1 0.04
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (16 bp):
TTCTTCTTTTTTCTTT
Found at i:93354302 original size:27 final size:28
Alignment explanation
Indices: 93354264--93354316 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
93354254 TCTAGGAACC
93354264 ATTTTCTTCTTCTTCTT-TTCTTTTTCT
1 ATTTTCTTCTTCTTCTTCTTCTTTTTCT
* *
93354291 ATTTTTTTCTTCTTCTTCTTTTTTTT
1 ATTTTCTTCTTCTTCTTCTTCTTTTT
93354317 TTGCAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (28 bp):
ATTTTCTTCTTCTTCTTCTTCTTTTTCT
Done.