Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 281 of 343
Found at i:93157065 original size:33 final size:35
Alignment explanation
Indices: 93156982--93157068 Score: 142
Period size: 35 Copynumber: 2.5 Consensus size: 35
93156972 GAATCTGACG
93156982 ATGAGATTTGTGAATGGTGTTATGAACCTGACCAA
1 ATGAGATTTGTGAATGGTGTTATGAACCTGACCAA
93157017 ATGAGATTTGTGAATGGTGTTATGAACCTGACC-A
1 ATGAGATTTGTGAATGGTGTTATGAACCTGACCAA
**
93157051 A-GATTTTTGTGAATGGTG
1 ATGAGATTTGTGAATGGTG
93157069 ATGTGAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
33 15 0.30
34 2 0.04
35 33 0.66
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (35 bp):
ATGAGATTTGTGAATGGTGTTATGAACCTGACCAA
Found at i:93157823 original size:6 final size:6
Alignment explanation
Indices: 93157777--93157822 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
93157767 AATTAAAATT
* * *
93157777 AAAAGC AAAAAC AAAAAC AAAAAC AAAAAC AAAACC AAAACC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
93157823 CTATTTTTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.78, C:0.20, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:93161202 original size:33 final size:32
Alignment explanation
Indices: 93161153--93161267 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 32
93161143 ATGGACCTTT
* * * *
93161153 CCTTTTCTAGTTGTACACCCGAGGTGCACATT
1 CCTTTTCAAGTTGTACACACGAAGTGCACATA
* *
93161185 CCATTTTCAAGTGGTACACACGAAGTGTACATA
1 CC-TTTTCAAGTTGTACACACGAAGTGCACATA
* *
93161218 CCCTTTTCAATTTGTACACACAAAGTGCACATAA
1 -CCTTTTCAAGTTGTACACACGAAGTGCACAT-A
93161252 CCTTTTCAAG-TGTACA
1 CCTTTTCAAGTTGTACA
93161268 AATATAGTGT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 8 0.12
33 58 0.84
34 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (32 bp):
CCTTTTCAAGTTGTACACACGAAGTGCACATA
Found at i:93161319 original size:33 final size:33
Alignment explanation
Indices: 93161277--93161357 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
93161267 AAATATAGTG
* *
93161277 TACCTTTCCTTTTTA-AGTGGTATACACAAATTA
1 TACCTTTCCTTTTCATA-TGGTATACACAAAGTA
93161310 TACCTTTCCTTTTCATATGGTATACACAAAGTA
1 TACCTTTCCTTTTCATATGGTATACACAAAGTA
**
93161343 TACCTAACCTTTTCA
1 TACCTTTCCTTTTCA
93161358 AATTGTACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 42 0.98
34 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (33 bp):
TACCTTTCCTTTTCATATGGTATACACAAAGTA
Found at i:93164252 original size:15 final size:15
Alignment explanation
Indices: 93164232--93164260 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93164222 AATTTGGGCC
93164232 GTGTGGGCCACATGT
1 GTGTGGGCCACATGT
93164247 GTGTGGGCCACATG
1 GTGTGGGCCACATG
93164261 ACTAAACCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.41, T:0.24
Consensus pattern (15 bp):
GTGTGGGCCACATGT
Found at i:93165885 original size:5 final size:6
Alignment explanation
Indices: 93165867--93165894 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
93165857 TTAGACACTA
93165867 TTCTTT TTCTTT TTCTTT TTCTTT TTCT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCT
93165895 CAAAATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:93166480 original size:12 final size:12
Alignment explanation
Indices: 93166463--93166487 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93166453 ACATAAAATC
93166463 AAAATAAAATAA
1 AAAATAAAATAA
93166475 AAAATAAAATAA
1 AAAATAAAATAA
93166487 A
1 A
93166488 TAAAAATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:93166483 original size:17 final size:17
Alignment explanation
Indices: 93166457--93166493 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
93166447 AATTTAACAT
93166457 AAAATCAAAATAAAATAA
1 AAAATCAAAAT-AAATAA
93166475 AAAAT-AAAATAAATAA
1 AAAATCAAAATAAATAA
93166491 AAA
1 AAA
93166494 TGAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 5 0.26
18 5 0.26
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATCAAAATAAATAA
Found at i:93166998 original size:144 final size:144
Alignment explanation
Indices: 93166798--93167092 Score: 554
Period size: 144 Copynumber: 2.0 Consensus size: 144
93166788 TTGAAACTCA
93166798 GTGTATATCAAATAACTTAAAGCAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
1 GTGTATATCAAATAACTTAAAGCAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
*
93166863 AACAGAACATAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
66 AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
93166928 CGAACACACCATAT
131 CGAACACACCATAT
*
93166942 GTGTATATCAAATAACTTAAAGTAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
1 GTGTATATCAAATAACTTAAAGCAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
*
93167007 AACAGAACAGAACAGATACAATATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
66 AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
93167072 CGAACACACCATAT
131 CGAACACACCATAT
*
93167086 GGGTATA
1 GTGTATA
93167093 AAACACTCAT
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 147 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (144 bp):
GTGTATATCAAATAACTTAAAGCAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
CGAACACACCATAT
Found at i:93182337 original size:11 final size:11
Alignment explanation
Indices: 93182323--93182349 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
93182313 ATAAAAATAG
93182323 AATAAAATAAT
1 AATAAAATAAT
93182334 AATAAAATAAT
1 AATAAAATAAT
93182345 AATAA
1 AATAA
93182350 TAACTTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:93183775 original size:19 final size:20
Alignment explanation
Indices: 93183735--93183777 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
93183725 TCATTAAATA
*
93183735 AAAAGTATCTAAAAATTACT
1 AAAAGTAGCTAAAAATTACT
*
93183755 AAAAGTAGCTTAAAA-TACT
1 AAAAGTAGCTAAAAATTACT
93183774 AAAA
1 AAAA
93183778 TATGAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAAGTAGCTAAAAATTACT
Found at i:93195210 original size:240 final size:241
Alignment explanation
Indices: 93194786--93195229 Score: 674
Period size: 240 Copynumber: 1.8 Consensus size: 241
93194776 ATGGTCTTTA
* * *
93194786 TTTTTGTGATATAAGCATTCAACTATATTTCTTTTTCATGGATTGGATCGTATGGGTGGTAAAGT
1 TTTTTGTGATATAAGCATTCAACTATATTCCGTTTTCATGGATTGGATCGTATAGGTGGTAAAGT
* * * *
93194851 CCCCAATATTCCTTTACTCTTGCCAGGATATCTCTTTGCAAGGTATTTAAGGGAGTGCAATGATG
66 CCCCAATATTCCTTTACTCTTACCAAGATATCTCTTTGCAAGATATTTAAGGGACTGCAATGATG
* ** ** * *
93194916 GATAGCATGGGTGATATTCTCTTTAGGTGTTTCGGTTGTCAATAGTTTTGACGCCTTATCACAGT
131 GATAGCATAGGCAATACGCTCTTTAGGTGTTTCGGTTATCAATAGTTTTGACGCCTTATCACAGC
93194981 CTTATTATTTAAGGAATTGTAATGGTGGATAGCATGGGCGATACGC
196 CTTATTATTTAAGGAATTGTAATGGTGGATAGCATGGGCGATACGC
* *
93195027 TTTTTGTGATATAAGCATTCAACTATATTCCGTTTTCATGGCTTGGATCGTATAGGTGGTAGAGT
1 TTTTTGTGATATAAGCATTCAACTATATTCCGTTTTCATGGATTGGATCGTATAGGTGGTAAAGT
* * * *
93195092 -CCCAATATTCCTTTATTCTTACTAAGATATCTCTTTGCAAGATATTTAAGGGACTGTAATGGTG
66 CCCCAATATTCCTTTACTCTTACCAAGATATCTCTTTGCAAGATATTTAAGGGACTGCAATGATG
* * *
93195156 GATAGCGTAGGCAATACGCTTTTTAGGTGTTTTGGTTATCAATAGTTTTGACGCCTTATCACAGC
131 GATAGCATAGGCAATACGCTCTTTAGGTGTTTCGGTTATCAATAGTTTTGACGCCTTATCACAGC
93195221 CTTATTATT
196 CTTATTATT
93195230 CATTCTTTTG
Statistics
Matches: 180, Mismatches: 23, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
240 120 0.67
241 60 0.33
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (241 bp):
TTTTTGTGATATAAGCATTCAACTATATTCCGTTTTCATGGATTGGATCGTATAGGTGGTAAAGT
CCCCAATATTCCTTTACTCTTACCAAGATATCTCTTTGCAAGATATTTAAGGGACTGCAATGATG
GATAGCATAGGCAATACGCTCTTTAGGTGTTTCGGTTATCAATAGTTTTGACGCCTTATCACAGC
CTTATTATTTAAGGAATTGTAATGGTGGATAGCATGGGCGATACGC
Found at i:93197954 original size:22 final size:22
Alignment explanation
Indices: 93197929--93197971 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
93197919 TATTCAAACA
93197929 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* *
93197951 ATAATAATAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
93197972 AAGAGTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:93198771 original size:17 final size:17
Alignment explanation
Indices: 93198751--93198802 Score: 86
Period size: 17 Copynumber: 3.0 Consensus size: 17
93198741 CAACGATATG
93198751 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
93198768 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
93198786 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
93198803 TATAATCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:93198791 original size:18 final size:18
Alignment explanation
Indices: 93198749--93198801 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
93198739 TTCAACGATA
93198749 TGCAATCTTAGATATGA-
1 TGCAATCTTAGATATGAT
*
93198766 TACAATCTTAGATATGAT
1 TGCAATCTTAGATATGAT
93198784 TGCAATCTTAGATATGAT
1 TGCAATCTTAGATATGAT
93198802 ATATAATCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
17 16 0.48
18 17 0.52
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
TGCAATCTTAGATATGAT
Found at i:93198821 original size:22 final size:23
Alignment explanation
Indices: 93198793--93198837 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
93198783 TTGCAATCTT
93198793 AGATATGA-TATATAATCTTAGA
1 AGATATGATTATATAATCTTAGA
* *
93198815 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATATAATCTTAGA
93198838 GATTTAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (23 bp):
AGATATGATTATATAATCTTAGA
Found at i:93199345 original size:15 final size:16
Alignment explanation
Indices: 93199295--93199358 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 16
93199285 TCTAAACCAA
93199295 TATATAATATATTTTT
1 TATATAATATATTTTT
93199311 TATATAAT-TATTATTCT
1 TATATAATATATT-TT-T
93199328 TATA-AATATATTTTT
1 TATATAATATATTTTT
*
93199343 TATTATATTATATTTT
1 TA-TATAATATATTTT
93199359 AAATTTATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
15 7 0.17
16 17 0.40
17 18 0.43
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATAATATATTTTT
Found at i:93204437 original size:54 final size:54
Alignment explanation
Indices: 93204374--93204605 Score: 232
Period size: 54 Copynumber: 4.1 Consensus size: 54
93204364 AGTATCATAT
*
93204374 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
*
93204428 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * * *
93204482 ATTATATATTTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTATATTTTATAGTATCAT
1 ATTAT-GA-TTTGAGTA-AAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTT-TA-T-T-A-
93204546 A
54 A
*
93204547 TATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
93204602 ATTA
1 ATTA
93204606 CATATTTTAA
Statistics
Matches: 142, Mismatches: 22, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
54 61 0.43
55 2 0.01
56 7 0.05
57 12 0.08
58 5 0.04
59 4 0.03
60 16 0.11
61 4 0.03
62 5 0.04
63 12 0.08
64 7 0.05
65 2 0.01
66 5 0.04
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:93204474 original size:28 final size:27
Alignment explanation
Indices: 93204389--93204474 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 27
93204379 GATTTGAGTA
*
93204389 AATTCATATAAAAATATTAATTATTAAG
1 AATTCATAT-AAAATATTGATTATTAAG
* * *
93204417 AATT-TTATTAAAT-TATGA-T-TTGAG
1 AATTCATATAAAATAT-TGATTATTAAG
93204441 TAAATTCATATAAGAATATTGATTATTAAG
1 --AATTCATATAA-AATATTGATTATTAAG
93204471 AATT
1 AATT
93204475 TTATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
24 4 0.09
25 2 0.05
26 10 0.23
27 7 0.16
28 14 0.33
29 2 0.05
30 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (27 bp):
AATTCATATAAAATATTGATTATTAAG
Found at i:93204511 original size:15 final size:15
Alignment explanation
Indices: 93204476--93204527 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
93204466 TTAAGAATTT
*
93204476 TATTAAATTAT-ATA
1 TATTTAATTATAATA
93204490 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
93204504 TATTTAATAATAAT-
1 TATTTAATTATAATA
93204518 TATGTTAATT
1 TAT-TTAATT
93204528 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:93204553 original size:120 final size:120
Alignment explanation
Indices: 93204428--93204643 Score: 423
Period size: 120 Copynumber: 1.8 Consensus size: 120
93204418 ATTTTATTAA
*
93204428 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTACATATTT
93204493 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
66 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
93204548 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTACATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTACATATTT
93204613 TAATTATAATATATTTAATAATAATTATGTT
66 TAATTATAATATATTTAATAATAATTATGTT
93204644 TAAATATGAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 95 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (120 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTACATATTT
TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
Found at i:93204868 original size:16 final size:16
Alignment explanation
Indices: 93204847--93204898 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
93204837 GATTTGCTAT
93204847 TACACCTCTATTCCAA
1 TACACCTCTATTCCAA
93204863 TACACCTCTAATT-CAA
1 TACACCTCT-ATTCCAA
* *
93204879 TGCACCTCTAATCCAA
1 TACACCTCTATTCCAA
93204895 TACA
1 TACA
93204899 GCGAACCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 2 0.06
16 26 0.84
17 3 0.10
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.29
Consensus pattern (16 bp):
TACACCTCTATTCCAA
Found at i:93206170 original size:23 final size:21
Alignment explanation
Indices: 93206139--93206184 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
93206129 TGATATTTAA
93206139 TTTTTTTTTTAAAAAGAATATT
1 TTTTTTTTTTAAAAAGAA-ATT
* *
93206161 TTTTTATTTTTTAAATGAAATT
1 TTTTT-TTTTTAAAAAGAAATT
93206183 TT
1 TT
93206185 GTGTTATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTTTTTTTTAAAAAGAAATT
Found at i:93210267 original size:52 final size:51
Alignment explanation
Indices: 93210196--93210404 Score: 275
Period size: 52 Copynumber: 4.1 Consensus size: 51
93210186 ATCAAGTGAT
* *
93210196 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* *
93210248 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
93210299 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
93210346 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
93210398 ATAAGTG
1 A-AAGTG
93210405 GCTACACTTA
Statistics
Matches: 138, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
46 42 0.30
51 1 0.01
52 90 0.65
53 5 0.04
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:93210299 original size:7 final size:7
Alignment explanation
Indices: 93210282--93210315 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
93210272 TACACTTATC
93210282 TGATCAAG
1 TGAT-AAG
93210290 TGATAAG
1 TGATAAG
*
93210297 TGAAAAG
1 TGATAAG
93210304 TGATAAG
1 TGATAAG
93210311 TGATA
1 TGATA
93210316 GCTTCGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.26
Consensus pattern (7 bp):
TGATAAG
Found at i:93210377 original size:46 final size:44
Alignment explanation
Indices: 93210300--93210474 Score: 180
Period size: 37 Copynumber: 4.2 Consensus size: 44
93210290 TGATAAGTGA
*
93210300 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
*
93210346 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
93210392 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
93210429 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
93210466 AAAGTGATA
1 AAAGTGATA
93210475 GGTGGCTACA
Statistics
Matches: 123, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
37 68 0.55
42 1 0.01
43 1 0.01
44 1 0.01
46 50 0.41
47 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:93210412 original size:37 final size:37
Alignment explanation
Indices: 93210368--93210496 Score: 231
Period size: 37 Copynumber: 3.5 Consensus size: 37
93210358 GATAGCTTTA
**
93210368 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
93210405 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
93210442 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
93210479 GCTACACTTATCTGATCA
1 GCTACACTTATCTGATCA
93210497 GGGACAAGTG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:93212652 original size:26 final size:24
Alignment explanation
Indices: 93212617--93212667 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
93212607 TCACCTATAA
93212617 AATAATCTTTTAAAAAGAAAAATTTT
1 AATAATC-TTTAAAAAG-AAAATTTT
* *
93212643 AATATTCTTTAAAAAGATAATTTT
1 AATAATCTTTAAAAAGAAAATTTT
93212667 A
1 A
93212668 CTCTATGTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 9 0.39
26 6 0.26
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (24 bp):
AATAATCTTTAAAAAGAAAATTTT
Found at i:93213215 original size:20 final size:20
Alignment explanation
Indices: 93213190--93213229 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
93213180 GGTTTTCACC
93213190 TTTGTTGGATT-AATTATTTA
1 TTTGTT-GATTAAATTATTTA
93213210 TTTGTTGATTAAATTATTTA
1 TTTGTTGATTAAATTATTTA
93213230 AAAGTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTGTTGATTAAATTATTTA
Found at i:93219518 original size:18 final size:18
Alignment explanation
Indices: 93219484--93219517 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
93219474 ATAACTTTTA
93219484 AAAGTAAAACCTAAAAAT
1 AAAGTAAAACCTAAAAAT
93219502 AAAGTAAAA-CTAAAAA
1 AAAGTAAAACCTAAAAA
93219518 AGAGAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (18 bp):
AAAGTAAAACCTAAAAAT
Found at i:93219933 original size:3 final size:3
Alignment explanation
Indices: 93219925--93219965 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
93219915 CTAAATATTG
93219925 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
93219966 GTTTCAAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:93220640 original size:9 final size:9
Alignment explanation
Indices: 93220612--93220662 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
93220602 ATAAGTATAA
93220612 AATTAACCG
1 AATTAACCG
* *
93220621 AAGTAATCG
1 AATTAACCG
93220630 AATTAACCG
1 AATTAACCG
*
93220639 AACTAACCG
1 AATTAACCG
* *
93220648 AATCAACTG
1 AATTAACCG
93220657 AATTAA
1 AATTAA
93220663 AGTATTGAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:93222830 original size:24 final size:24
Alignment explanation
Indices: 93222785--93222831 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
93222775 TATATATACC
93222785 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
93222809 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
93222832 CCATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:93223250 original size:30 final size:28
Alignment explanation
Indices: 93223207--93223263 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
93223197 TTATCTTAAA
*
93223207 TCCCTAATTTTCAAATTTTTCACAATTTAG
1 TCCCTAATTTTCAAA-ATTT-ACAATTTAG
93223237 TCCCT-ATTATTCAAAATTTACAATTTA
1 TCCCTAATT-TTCAAAATTTACAATTTA
93223264 TTCTACAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 8 0.32
29 6 0.24
30 11 0.44
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (28 bp):
TCCCTAATTTTCAAAATTTACAATTTAG
Found at i:93223506 original size:17 final size:17
Alignment explanation
Indices: 93223484--93223536 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
93223474 GAAACCCTAA
93223484 TTTTCTCCTCTCTTTCT
1 TTTTCTCCTCTCTTTCT
* *
93223501 TTTTCTCCT-ACTTTGT
1 TTTTCTCCTCTCTTTCT
* *
93223517 TTTTACTTCTCTGTTTCT
1 TTTT-CTCCTCTCTTTCT
93223535 TT
1 TT
93223537 CTCTATTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 9 0.32
17 13 0.46
18 6 0.21
ACGTcount: A:0.04, C:0.26, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTCTCCTCTCTTTCT
Found at i:93223551 original size:14 final size:15
Alignment explanation
Indices: 93223496--93223563 Score: 50
Period size: 16 Copynumber: 4.5 Consensus size: 15
93223486 TTCTCCTCTC
*
93223496 TTTCTTTTTCTCCTA
1 TTTCTTTTTCTTCTA
* *
93223511 CTTTGTTTTTACTTCTC
1 -TTTCTTTTT-CTTCTA
*
93223528 TGTT-TCTTTC-TCTA
1 T-TTCTTTTTCTTCTA
*
93223542 TTTCTTTTTCTTTTA
1 TTTCTTTTTCTTCTA
93223557 TTTCTTT
1 TTTCTTT
93223564 GTTTTATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
13 2 0.05
14 9 0.22
15 11 0.27
16 13 0.32
17 6 0.15
ACGTcount: A:0.06, C:0.21, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTCTTTTTCTTCTA
Found at i:93228875 original size:3 final size:3
Alignment explanation
Indices: 93228867--93228905 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
93228857 ATTTATTTCA
93228867 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
93228906 CTTTTTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:93229082 original size:16 final size:15
Alignment explanation
Indices: 93229057--93229093 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
93229047 CTATAATTTA
93229057 AATAAAATAATAATT
1 AATAAAATAATAATT
*
93229072 ATATAATATAATAATT
1 A-ATAAAATAATAATT
93229088 AATAAA
1 AATAAA
93229094 TTAAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAAATAATAATT
Found at i:93236808 original size:16 final size:15
Alignment explanation
Indices: 93236783--93236818 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
93236773 TTATAATTTA
*
93236783 AATAAAATAATAATT
1 AATAATATAATAATT
93236798 ATATAATATAATAATT
1 A-ATAATATAATAATT
93236814 AATAA
1 AATAA
93236819 ATTAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATATAATAATT
Found at i:93241795 original size:28 final size:29
Alignment explanation
Indices: 93241764--93241822 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
93241754 ATACATTTTG
93241764 TATATTTAG-AATTTAGTCCCTCTACATT
1 TATATTTAGAAATTTAGTCCCTCTACATT
* *
93241792 TATATTTAGAAATTTAGTGCCTCTAGATT
1 TATATTTAGAAATTTAGTCCCTCTACATT
93241821 TA
1 TA
93241823 GATTAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.46
Consensus pattern (29 bp):
TATATTTAGAAATTTAGTCCCTCTACATT
Found at i:93241833 original size:29 final size:29
Alignment explanation
Indices: 93241773--93241834 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
93241763 GTATATTTAG
* * *
93241773 AATTTAGTCCCTCTACATTTATATTTAGA
1 AATTTAGTCCCTCTACATTTAGATTAAAA
* *
93241802 AATTTAGTGCCTCTAGATTTAGATTAAAA
1 AATTTAGTCCCTCTACATTTAGATTAAAA
93241831 AATT
1 AATT
93241835 CAGATACAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (29 bp):
AATTTAGTCCCTCTACATTTAGATTAAAA
Found at i:93243440 original size:22 final size:24
Alignment explanation
Indices: 93243397--93243441 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
93243387 CAAATTTACA
* *
93243397 TAAAAAATATTTATATATTAAATT
1 TAAAAAATATTTATAAAGTAAATT
93243421 TAAAAAA-A-TTATAAAGTAAAT
1 TAAAAAATATTTATAAAGTAAAT
93243442 ATTATTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 1 0.05
24 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAAAAATATTTATAAAGTAAATT
Found at i:93251085 original size:23 final size:25
Alignment explanation
Indices: 93251034--93251085 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
93251024 TAGATTTCAG
93251034 TATGCTTTTGTATCTAGTTTCTTTT
1 TATGCTTTTGTATCTAGTTTCTTTT
*
93251059 TATGTTTTTGTATCTA-TTT-TTTT
1 TATGCTTTTGTATCTAGTTTCTTTT
93251082 TATG
1 TATG
93251086 ATTTGATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 8 0.31
24 3 0.12
25 15 0.58
ACGTcount: A:0.13, C:0.08, G:0.12, T:0.67
Consensus pattern (25 bp):
TATGCTTTTGTATCTAGTTTCTTTT
Found at i:93274891 original size:30 final size:30
Alignment explanation
Indices: 93274855--93274911 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
93274845 ATGAATCGGA
93274855 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
93274885 AGCTTTGGCACTAAGTGTGCGATTTAA
1 AGCTTTGGCACTAAGTGTGCGATTTAA
93274912 CTCGCTTCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTGTGCGATTTAAACT
Found at i:93278444 original size:19 final size:19
Alignment explanation
Indices: 93278422--93278460 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
93278412 AACATGAACA
*
93278422 ATTGATATAAACAAAATAT
1 ATTGACATAAACAAAATAT
**
93278441 ATTGACATTTACAAAATAT
1 ATTGACATAAACAAAATAT
93278460 A
1 A
93278461 ACATTCTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTGACATAAACAAAATAT
Found at i:93286695 original size:5 final size:6
Alignment explanation
Indices: 93286678--93286702 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
93286668 TCATCAGTGC
93286678 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
93286703 AAGGAGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:93294872 original size:45 final size:45
Alignment explanation
Indices: 93294812--93294915 Score: 172
Period size: 45 Copynumber: 2.3 Consensus size: 45
93294802 GCTCCTTTAT
93294812 GTTTGACAACAAAAGTGACTTTAATACAACCAAAATTCAACCCCAAA
1 GTTTGA-AA-AAAAGTGACTTTAATACAACCAAAATTCAACCCCAAA
* *
93294859 GTTTGAAAAAAAGTGGCTTTAATACAACCAAAATTCAACCCTAAA
1 GTTTGAAAAAAAGTGACTTTAATACAACCAAAATTCAACCCCAAA
93294904 GTTTGAAAAAAA
1 GTTTGAAAAAAA
93294916 ATGCCCTTAG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
45 47 0.85
46 2 0.04
47 6 0.11
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (45 bp):
GTTTGAAAAAAAGTGACTTTAATACAACCAAAATTCAACCCCAAA
Found at i:93299178 original size:31 final size:31
Alignment explanation
Indices: 93299143--93299228 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
93299133 TTGTCACTTT
*
93299143 TAGCCGAAGCTACCACTATTCACTGATTAGG
1 TAGCCGAAGCTACCACTTTTCACTGATTAGG
93299174 TAGCCGAAGCTACCACTTTTCACTGATTAGG
1 TAGCCGAAGCTACCACTTTTCACTGATTAGG
**
93299205 TAGCTAAAGCTACCACTTTTCACT
1 TAGCCGAAGCTACCACTTTTCACT
93299229 TGCCATTTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTGATTAGG
Found at i:93299309 original size:50 final size:51
Alignment explanation
Indices: 93299211--93299331 Score: 190
Period size: 50 Copynumber: 2.4 Consensus size: 51
93299201 TAGGTAGCTA
* * * *
93299211 AAGCTACCACTTTTCACTTGCCATTTGTCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGCCACTTATCCTTGATCAGATAAGTGTAGCCG
*
93299262 AAGCTATCACTTATCACTT-TCACTTATCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGCCACTTATCCTTGATCAGATAAGTGTAGCCG
93299312 AAGCTATCACTTATCACTTG
1 AAGCTATCACTTATCACTTG
93299332 TTGCCATGGT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 47 0.73
51 17 0.27
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (51 bp):
AAGCTATCACTTATCACTTGCCACTTATCCTTGATCAGATAAGTGTAGCCG
Found at i:93315701 original size:16 final size:17
Alignment explanation
Indices: 93315680--93315711 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
93315670 TATAAAAATT
93315680 ATTTTT-AAAAATTAAA
1 ATTTTTAAAAAATTAAA
93315696 ATTTTTAAAAAATTAA
1 ATTTTTAAAAAATTAA
93315712 TTAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTTTAAAAAATTAAA
Found at i:93318658 original size:9 final size:9
Alignment explanation
Indices: 93318644--93318674 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
93318634 ATTTGAGTTG
93318644 ACTCGAATA
1 ACTCGAATA
*
93318653 ACTCGATTA
1 ACTCGAATA
93318662 ACTCGAATA
1 ACTCGAATA
93318671 ACTC
1 ACTC
93318675 TATTCTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (9 bp):
ACTCGAATA
Found at i:93319194 original size:23 final size:23
Alignment explanation
Indices: 93319162--93319211 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
93319152 GGTTAGGGTA
*
93319162 GGTTAAGGTTTTTTATGGTTTAG
1 GGTTAAGGTTTTTTAGGGTTTAG
* *
93319185 GGTTAGGGTTTTTTAGGGTTTAT
1 GGTTAAGGTTTTTTAGGGTTTAG
93319208 GGTT
1 GGTT
93319212 TTTGTAAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (23 bp):
GGTTAAGGTTTTTTAGGGTTTAG
Found at i:93319199 original size:16 final size:17
Alignment explanation
Indices: 93319180--93319226 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
93319170 TTTTTTATGG
93319180 TTTAGGG-TTAGGGTTT
1 TTTAGGGTTTAGGGTTT
*
93319196 TTTAGGGTTTATGGTTT
1 TTTAGGGTTTAGGGTTT
93319213 TTGTAAGGGTTTAG
1 TT-T-AGGGTTTAG
93319227 TTAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 7 0.27
17 10 0.38
18 1 0.04
19 8 0.31
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (17 bp):
TTTAGGGTTTAGGGTTT
Found at i:93319205 original size:33 final size:32
Alignment explanation
Indices: 93319132--93319193 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
93319122 TCTGTTGGGA
93319132 TTAGGGTTTTTTAAGGTTAGGGTTAGGGTAGG
1 TTAGGGTTTTTTAAGGTTAGGGTTAGGGTAGG
* *
93319164 TTAAGGTTTTTTATGGTTTAGGGTTAGGGT
1 TTAGGGTTTTTTAAGG-TTAGGGTTAGGGT
93319194 TTTTTAGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (32 bp):
TTAGGGTTTTTTAAGGTTAGGGTTAGGGTAGG
Found at i:93319556 original size:126 final size:126
Alignment explanation
Indices: 93319392--93319781 Score: 518
Period size: 126 Copynumber: 3.1 Consensus size: 126
93319382 AATGTTTTGG
* * * * *
93319392 TTTTTCTTCAGTAGTATCTGGAAAAAA-AATTATAAGAAGAAGTTTCTGAAGAAATAGTATCCAA
1 TTTTTCTACAGTGGTATCT-GAAAAAATAATTATGAGAAGAAGTTTCTGAAAAAATAGTGT-CAA
* *
93319456 AAA-GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCCCACGTGGACGCTT
64 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTA
* *
93319518 TTTTTCTACAGTGGTATCT-AAGAAAATAATTTTGAGAAGAAGTTTCTGAAAAAATAGTGTAAAA
1 TTTTTCTACAGTGGTATCTGAA-AAAATAATTATGAGAAGAAGTTTCTGAAAAAATAGTGTCAAA
* * *
93319582 AACGCTTTAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTA
** * **
93319644 TTTTGATACAGTGGTATCTGAAAAAATAATTGTGA-AATGACCTTTCTGAAAAAATAGTGTCAAA
1 TTTTTCTACAGTGGTATCTGAAAAAATAATTATGAGAA-GAAGTTTCTGAAAAAATAGTGTCAAA
* * * * *
93319708 AACGCTTCATGCAGTATGCACTTTCAGCAAAATTACTGAAAAAAGCTCTCATGTGGACGCTA
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTA
93319770 TTTTTCTACAGT
1 TTTTTCTACAGT
93319782 AGTTCCTATT
Statistics
Matches: 232, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
124 2 0.01
125 11 0.05
126 217 0.94
127 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTGGTATCTGAAAAAATAATTATGAGAAGAAGTTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTA
Found at i:93323095 original size:21 final size:21
Alignment explanation
Indices: 93323070--93323109 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
93323060 GTTTCGGAAA
93323070 GGGTTCTGGTTGC-TCCGGCAG
1 GGGTTCTGGTT-CATCCGGCAG
*
93323091 GGGTTGTGGTTCATCCGGC
1 GGGTTCTGGTTCATCCGGC
93323110 TGGAGATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.05, C:0.23, G:0.42, T:0.30
Consensus pattern (21 bp):
GGGTTCTGGTTCATCCGGCAG
Found at i:93323380 original size:18 final size:18
Alignment explanation
Indices: 93323359--93323393 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
93323349 AAAAGGAAAC
*
93323359 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
93323377 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
93323394 CGCACTTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:93324022 original size:7 final size:7
Alignment explanation
Indices: 93324012--93324050 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
93324002 TTGTATACAT
93324012 AATACTA
1 AATACTA
93324019 AATACTA
1 AATACTA
93324026 AATACTA
1 AATACTA
*
93324033 AATATTA
1 AATACTA
93324040 AA-ACTA
1 AATACTA
93324046 AATAC
1 AATAC
93324051 GAAACGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:93325087 original size:48 final size:49
Alignment explanation
Indices: 93324995--93325093 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
93324985 ATAAAATTAA
**
93324995 AATTAAAATTGCATAAATGAAAAAAATTATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAATGAAAAAAATTATTAAATACTATTGAAAAATT
** *
93325044 AATTAAAATTGCATAAATTTAAAAAA-TATTAAATACTATTGAAATATT
1 AATTAAAATTGCATAAATGAAAAAAATTATTAAATACTATTGAAAAATT
93325092 AA
1 AA
93325094 AATTATCACT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 21 0.47
49 24 0.53
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (49 bp):
AATTAAAATTGCATAAATGAAAAAAATTATTAAATACTATTGAAAAATT
Found at i:93338538 original size:37 final size:37
Alignment explanation
Indices: 93338468--93338538 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
93338458 ATATATTATT
* * *
93338468 TTATTAAATTATATTTAATAATAATTATGTTAAAATA
1 TTATTAAAATATATTTAATAAAAATTATATTAAAATA
93338505 TTATTAAAATATATTTAATAAAAATGT-TATTAAA
1 TTATTAAAATATATTTAATAAAAAT-TATATTAAA
93338539 GTTTAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 29 0.97
38 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (37 bp):
TTATTAAAATATATTTAATAAAAATTATATTAAAATA
Found at i:93339887 original size:29 final size:29
Alignment explanation
Indices: 93339849--93339907 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
93339839 CAATAGTATT
*
93339849 AGTCGAAATAATTAATATTATTTCAATTA
1 AGTCCAAATAATTAATATTATTTCAATTA
93339878 AGTCCAAATAATTAATATTATTTCAATTA
1 AGTCCAAATAATTAATATTATTTCAATTA
93339907 A
1 A
93339908 ATTTTTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (29 bp):
AGTCCAAATAATTAATATTATTTCAATTA
Found at i:93343656 original size:19 final size:19
Alignment explanation
Indices: 93343618--93343656 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
93343608 CTAATCAAAT
* *
93343618 AATATTTTTAATTATTTCA
1 AATATTTTTAACTATCTCA
*
93343637 AATATTTTTTACTATCTCA
1 AATATTTTTAACTATCTCA
93343656 A
1 A
93343657 GACAAATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTTTTAACTATCTCA
Found at i:93343921 original size:29 final size:29
Alignment explanation
Indices: 93343884--93343940 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 29
93343874 CGTTAGGTAC
93343884 TGAAATGAACAAAA-AA-ATATTTTAAAGA
1 TGAAATGAA-AAAACAATATATTTTAAAGA
93343912 TGAAAGTGAAAAAACCAATATATTTTAAA
1 TGAAA-TGAAAAAA-CAATATATTTTAAA
93343941 AACTAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 9 0.36
29 4 0.16
30 2 0.08
31 10 0.40
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (29 bp):
TGAAATGAAAAAACAATATATTTTAAAGA
Found at i:93344500 original size:31 final size:31
Alignment explanation
Indices: 93344465--93344525 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
93344455 TGATCTAGTT
* *
93344465 TTTGGCCCTTGAACTTGACAACTAGGTCCAC
1 TTTGGCCATTGAAATTGACAACTAGGTCCAC
*
93344496 TTTGGTCATTGAAATTGACAACTAGGTCCA
1 TTTGGCCATTGAAATTGACAACTAGGTCCA
93344526 TTTAGATCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (31 bp):
TTTGGCCATTGAAATTGACAACTAGGTCCAC
Found at i:93345720 original size:14 final size:14
Alignment explanation
Indices: 93345677--93345720 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
93345667 ATTTTGAAAG
93345677 AAATTAAATTCTTAA
1 AAATTAAATTC-TAA
* * *
93345692 AAATAAAAATATAA
1 AAATTAAATTCTAA
93345706 AAATTAAATTCTAA
1 AAATTAAATTCTAA
93345720 A
1 A
93345721 TTTTGTAAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATTAAATTCTAA
Found at i:93345857 original size:73 final size:76
Alignment explanation
Indices: 93345780--93345937 Score: 279
Period size: 73 Copynumber: 2.1 Consensus size: 76
93345770 CTCTCATGCT
93345780 ATTATTATTATTAATTTAATAATAATAACTTTTTGTGTTTAA-GTTATGATCAATTTTTCATCAA
1 ATTATTATTATTAATTTAATAATAATAACTTTTTGTGTTTAATGTTATGATCAATTTTTCATCAA
93345844 A-TTTGTCT-A
66 ATTTTGTCTAA
*
93345853 ATTATTATTATTAATTTAATAATAATAACTTTTTGTGTTTAATTTTATGATCAATTTTTCATCAA
1 ATTATTATTATTAATTTAATAATAATAACTTTTTGTGTTTAATGTTATGATCAATTTTTCATCAA
93345918 ATTTTGTCTAA
66 ATTTTGTCTAA
93345929 ATT-TTATTA
1 ATTATTATTA
93345938 AATCGTTAAC
Statistics
Matches: 81, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
73 42 0.52
74 22 0.27
75 13 0.16
76 4 0.05
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (76 bp):
ATTATTATTATTAATTTAATAATAATAACTTTTTGTGTTTAATGTTATGATCAATTTTTCATCAA
ATTTTGTCTAA
Found at i:93349014 original size:19 final size:19
Alignment explanation
Indices: 93348990--93349054 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
93348980 CTCGTAACCA
93348990 AAAATTCAAAATATTTTTT
1 AAAATTCAAAATATTTTTT
* * *
93349009 AAAATTCAGAATATTTATA
1 AAAATTCAAAATATTTTTT
93349028 AAAATTCTAAAATTTATATTTTT
1 AAAATTC-AAAA--TAT-TTTTT
93349051 AAAA
1 AAAA
93349055 AAAATTCTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 23 0.64
20 3 0.08
22 3 0.08
23 7 0.19
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATTCAAAATATTTTTT
Found at i:93350979 original size:483 final size:484
Alignment explanation
Indices: 93350074--93351040 Score: 1528
Period size: 483 Copynumber: 2.0 Consensus size: 484
93350064 GAGTCCACAG
*
93350074 GGATTGATAATTATGATCAACTTTCATGTTTTTCTTGAAAACAGAATTTTCATCGTGTCGATAAT
1 GGATTGATAATTATGATCAACTTTCATGTTTTTCTTGAAAACAGAATTTTCATCATGTCGATAAT
* * *
93350139 CGTGGCAATAGTCATGCCTACAACGTCACAACTCCAAACGAACCTGTGAAAAATAAATAAAATAA
66 CGTGGCAATAATCATGCCTACAACGGCACAACTCCAAACGAACCTCTGAAAAATAAATAAAATAA
* *
93350204 ATTAGGAGAGTTGAAAATGTCTAAAAATTAAATAATTGAGATAGCAGAAATTAACAATTAAGTAA
131 ATTAGAAGAGTTGAAAATGTCTAAAAATTAAATAATTGAGATAGCAGAAATTAAAAATTAAGTAA
*
93350269 ATTGAAAATAAAATAAAATTAGAAAATAAATTTGAACTTTGTAAACAGAATTATAAAGCCGTAGC
196 ATCGAAAATAAAATAAAATTAGAAAATAAATTTGAACTTTGTAAACAGAATTATAAAGCCGTAGC
* *
93350334 CTTAGACTTGGTAAAGTTTGGTTTCCGAATCAATCCTCGAAAATAAGTTTTCTCCTCCAAAAAAT
261 CTTAGACTTGGTAAAGCTCGGTTTCCGAATCAATCCTCGAAAATAAGTTTTCTCCTCCAAAAAAT
93350399 AGGCTAGTTATAGCGGCTAAGAACGTCTTAACCACCAATCCTTCCTCTCGTAGTTGATTCTGGTA
326 AGGCTAGTTATAGCGGCTAAGAACGTCTTAACCACCAATCCTTCCTCTCGTAGTTGATTCTGGTA
* * * ** *
93350464 TGCCTTGCAAACCAACCCTGACCGATTGTCTAA-C-GACACACGTGTTGGCAATTCAAGACCTCG
391 CGCCCTGCAAACCAACCATGACCGATTGTCTAACCGGACACACACGTTCGCAATTCAAGACCTCG
93350527 ATAGCCTTGCGTTCTGAAGAACCCAACTC
456 ATAGCCTTGCGTTCTGAAGAACCCAACTC
* ** **
93350556 GGATTGATAATTATGATCAACTTTCGTGTTTTTCTTGTGAACAGAATTTTTGTCATGTCGATAAT
1 GGATTGATAATTATGATCAACTTTCATGTTTTTCTTGAAAACAGAATTTTCATCATGTCGATAAT
* * * * *
93350621 CGTGGGAATAATCGTGCCTACAATGGCACGACTCCAAAC-AGACCTACTGAAAAATAAATAGAAT
66 CGTGGCAATAATCATGCCTACAACGGCACAACTCCAAACGA-ACCT-CTGAAAAATAAATAAAAT
* * * *
93350685 AAATTCGAAGAGTTGACATTGTCTAGAAATTAAATAATTGAGATAGCAGAAATTAAAAATTATA-
129 AAATTAGAAGAGTTGAAAATGTCTAAAAATTAAATAATTGAGATAGCAGAAATTAAAAATTA-AG
* * *
93350749 TAAATCGAAAATAAAATAAAATTAGAAAATGAATTTGAATTTTGTAAACAGAATTATAAAGCCTT
193 TAAATCGAAAATAAAATAAAATTAGAAAATAAATTTGAACTTTGTAAACAGAATTATAAAGCCGT
* *
93350814 AGCCTTAGACTTGGTAAAGCTCGGTTTCCGAATCAATCCTTGAAAATAAGTTTTCTCCTCCAAAC
258 AGCCTTAGACTTGGTAAAGCTCGGTTTCCGAATCAATCCTCGAAAATAAGTTTTCTCCTCCAAAA
*
93350879 AATAGGCTAGTTATAGCGGCTAAGAACGTCTTAACCACCAATTCTTCCTCTCGTAGTTGATTCTG
323 AATAGGCTAGTTATAGCGGCTAAGAACGTCTTAACCACCAATCCTTCCTCTCGTAGTTGATTCTG
* * *
93350944 GTACGCCCTGTAAACCAACCATTATCGATTGTCTAACCGTGACACACACGTTCGCAATTCAAGAC
388 GTACGCCCTGCAAACCAACCATGACCGATTGTCTAACCG-GACACACACGTTCGCAATTCAAGAC
93351009 CTCGATAGCCTTGCGTTCTGAAGAACCCAACT
452 CTCGATAGCCTTGCGTTCTGAAGAACCCAACT
93351041 TAGATTAATG
Statistics
Matches: 441, Mismatches: 38, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
481 1 0.00
482 96 0.22
483 288 0.65
484 2 0.00
486 54 0.12
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (484 bp):
GGATTGATAATTATGATCAACTTTCATGTTTTTCTTGAAAACAGAATTTTCATCATGTCGATAAT
CGTGGCAATAATCATGCCTACAACGGCACAACTCCAAACGAACCTCTGAAAAATAAATAAAATAA
ATTAGAAGAGTTGAAAATGTCTAAAAATTAAATAATTGAGATAGCAGAAATTAAAAATTAAGTAA
ATCGAAAATAAAATAAAATTAGAAAATAAATTTGAACTTTGTAAACAGAATTATAAAGCCGTAGC
CTTAGACTTGGTAAAGCTCGGTTTCCGAATCAATCCTCGAAAATAAGTTTTCTCCTCCAAAAAAT
AGGCTAGTTATAGCGGCTAAGAACGTCTTAACCACCAATCCTTCCTCTCGTAGTTGATTCTGGTA
CGCCCTGCAAACCAACCATGACCGATTGTCTAACCGGACACACACGTTCGCAATTCAAGACCTCG
ATAGCCTTGCGTTCTGAAGAACCCAACTC
Found at i:93354291 original size:31 final size:31
Alignment explanation
Indices: 93354256--93354326 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
93354246 ATAAATGTGC
*
93354256 AAATATGAATGATTACAGGGTATGAATAATA-
1 AAATATGAATGAATACAGGGTATG-ATAATAT
* *
93354287 AAATATGAATGAATACATGGTATGATCATAT
1 AAATATGAATGAATACAGGGTATGATAATAT
93354318 AAATATGAA
1 AAATATGAA
93354327 AATTTGATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.30
Consensus pattern (31 bp):
AAATATGAATGAATACAGGGTATGATAATAT
Found at i:93362670 original size:70 final size:70
Alignment explanation
Indices: 93362594--93362755 Score: 173
Period size: 70 Copynumber: 2.3 Consensus size: 70
93362584 CTTGTGAAGT
* * *
93362594 TATATTGAACTTGTATATTTGATTACATATGAGG-TTATATTGAATTTGTATATTCAGCCATATG
1 TATATTGAACTTGTATATTTGATTACATATGAGGATAAT-TTGAACTTATATATTCAGCCATATG
*
93362658 AGATAT
65 AGATAA
* * * * * * * *
93362664 TTTATTGAACTTGAACATTAGGTTACATGTGATGATAATTTGAACTTATATATTCGGCCATATGA
1 TATATTGAACTTGTATATTTGATTACATATGAGGATAATTTGAACTTATATATTCAGCCATATGA
93362729 GATAA
66 GATAA
* *
93362734 TATAATGAACCTTGTGTATTTG
1 TATATTGAA-CTTGTATATTTG
93362756 GCTATATAGG
Statistics
Matches: 72, Mismatches: 18, Indels: 3
0.77 0.19 0.03
Matches are distributed among these distances:
70 61 0.85
71 11 0.15
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.42
Consensus pattern (70 bp):
TATATTGAACTTGTATATTTGATTACATATGAGGATAATTTGAACTTATATATTCAGCCATATGA
GATAA
Found at i:93368474 original size:26 final size:25
Alignment explanation
Indices: 93368427--93368475 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
93368417 GGAAAACTAC
**
93368427 TTTTATATTTTTAAAATTTATTTTA
1 TTTTATATTTTTAAAAAATATTTTA
*
93368452 TTTTATTTTCTTTAAAAAATATTT
1 TTTTATATT-TTTAAAAAATATTT
93368476 ATTCACTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTATATTTTTAAAAAATATTTTA
Found at i:93370610 original size:12 final size:12
Alignment explanation
Indices: 93370593--93370622 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
93370583 CCACACACGC
93370593 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
93370605 CCGTGTGCTAGG
1 CCGTGTGCCAGG
93370617 CCGTGT
1 CCGTGT
93370623 AACACCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:93373829 original size:32 final size:34
Alignment explanation
Indices: 93373787--93373855 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 34
93373777 CGAACCCTAG
93373787 CCTTTA-TTTTTTT-TATTTCTTTGGCTTAGTTT
1 CCTTTATTTTTTTTCTATTTCTTTGGCTTAGTTT
* *
93373819 CCTTTGTTTTTTTTTTCTATTTCTTTGTCTTAGTTT
1 CC-TT-TATTTTTTTTCTATTTCTTTGGCTTAGTTT
93373855 C
1 C
93373856 GGTGTATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 2 0.06
33 2 0.06
34 1 0.03
35 7 0.23
36 19 0.61
ACGTcount: A:0.07, C:0.14, G:0.09, T:0.70
Consensus pattern (34 bp):
CCTTTATTTTTTTTCTATTTCTTTGGCTTAGTTT
Found at i:93374857 original size:20 final size:20
Alignment explanation
Indices: 93374834--93374872 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
93374824 AACCACTCCG
*
93374834 TTTATTTACTTACCATTCCT
1 TTTACTTACTTACCATTCCT
*
93374854 TTTACTTACTTTCCATTCC
1 TTTACTTACTTACCATTCC
93374873 ATTGACTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.28, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTACTTACTTACCATTCCT
Found at i:93374880 original size:20 final size:20
Alignment explanation
Indices: 93374839--93374881 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
93374829 CTCCGTTTAT
* *
93374839 TTACTTACCATTCCTTTTAC
1 TTACTTACCATTCCATTGAC
*
93374859 TTACTTTCCATTCCATTGAC
1 TTACTTACCATTCCATTGAC
93374879 TTA
1 TTA
93374882 GCATAGTTTA
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:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (20 bp):
TTACTTACCATTCCATTGAC
Found at i:93380110 original size:20 final size:20
Alignment explanation
Indices: 93380074--93380111 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
93380064 AAAATATTAA
*
93380074 AATAATCTTTTATATTTTGT
1 AATAATCTTTAATATTTTGT
93380094 AATAAT-TTTAATGATTTT
1 AATAATCTTTAAT-ATTTT
93380112 TGAACATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
AATAATCTTTAATATTTTGT
Found at i:93385353 original size:32 final size:32
Alignment explanation
Indices: 93385312--93385376 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
93385302 CTAAAAGAAG
93385312 AAAGGTAACAAAAACATGGAATCCGATTGCAA
1 AAAGGTAACAAAAACATGGAATCCGATTGCAA
93385344 AAAGGTAACAAAAACATGGAATCCGATTGCAA
1 AAAGGTAACAAAAACATGGAATCCGATTGCAA
93385376 A
1 A
93385377 TGCCAGGAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.15
Consensus pattern (32 bp):
AAAGGTAACAAAAACATGGAATCCGATTGCAA
Found at i:93389939 original size:119 final size:121
Alignment explanation
Indices: 93389788--93390004 Score: 332
Period size: 119 Copynumber: 1.8 Consensus size: 121
93389778 TGAAATATGA
* * *
93389788 GGATCAAATTGAAATTTAACCATTCTTATAATCGTAAAGAATTAGAGGGATTGGAGTTGAAA-TT
1 GGATCAAATTGAAATTTAACCATTCTTATAATCGTAAAAAATTAGAGGGATTAGAATT-AAACTT
93389852 TACCCA-TATGTTCTCATGTAAAAAAGAA-AAGATAAAACAATCGACAAGTGTCCAT
65 TACCCATTATGTTCTCATGTAAAAAAGAAGAAGATAAAACAATCGACAAGTGTCCAT
* * *
93389907 GGATCAAATTGAAATTTCACCATTCTTATAATCTTAAAAAATTAGAGGGGTTAGAATTAAACTTT
1 GGATCAAATTGAAATTTAACCATTCTTATAATCGTAAAAAATTAGAGGGATTAGAATTAAACTTT
* *
93389972 ACTCATTATGTTCTCATGTTAAAAAGAAGAAGA
66 ACCCATTATGTTCTCATGTAAAAAAGAAGAAGA
93390005 AGATGAAAGA
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
118 3 0.03
119 59 0.68
120 21 0.24
121 4 0.05
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (121 bp):
GGATCAAATTGAAATTTAACCATTCTTATAATCGTAAAAAATTAGAGGGATTAGAATTAAACTTT
ACCCATTATGTTCTCATGTAAAAAAGAAGAAGATAAAACAATCGACAAGTGTCCAT
Found at i:93390346 original size:26 final size:26
Alignment explanation
Indices: 93390291--93390347 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
93390281 TTTTGAAATT
*
93390291 TTTTAAAAAAAATTAATTGCAATGTA
1 TTTTAAAAAAAAATAATTGCAATGTA
*
93390317 -TTTAAAAAAATAAT-ATTGTAATGTA
1 TTTTAAAAAAA-AATAATTGCAATGTA
93390342 TTTTAA
1 TTTTAA
93390348 TTTAACAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (26 bp):
TTTTAAAAAAAAATAATTGCAATGTA
Found at i:93392902 original size:166 final size:160
Alignment explanation
Indices: 93392634--93392959 Score: 571
Period size: 166 Copynumber: 2.0 Consensus size: 160
93392624 ATCAATGGTT
93392634 GGGTCAGCTGAAGTGTTTTCTATCAGTAAGTTAGCATTGAAAGTGTTGTCATAGCAAGTGTGGGT
1 GGGTCAGCTGAAGTGTTTTCTATCAGTAAGTTAGCATTGAAAGTGTTGTCATAGCAAGTGTGGGT
*
93392699 CTTGAGGTTTGTAGATGATTTCCATTGTTCATATCAAAAATATAATTTCTTCATTTAATACTAAA
66 CTTGAGGTTTGTAGATGATTTCCATTGTTCATATCAAAAATATAATTTCTTCATTTAACACTAAA
*
93392764 AATAGTCGTGAAATTTCATAAACATACAAA
131 AATAGTCATGAAATTTCATAAACATACAAA
*
93392794 GGGTCAGCTGAAGTGTTTTCTATCAGTAATTTTAACTTGGCATTGAAAGTGTTGTCATAGCAAGT
1 GGGTCAGCTGAAGTGTTTTCTATCAGTAA-GTT-A----GCATTGAAAGTGTTGTCATAGCAAGT
93392859 GTGGGTCTTGAGGTTTGTAGATGATTTCCATTGTTCATATCAAAAATATAATTTCTTCATTTAAC
60 GTGGGTCTTGAGGTTTGTAGATGATTTCCATTGTTCATATCAAAAATATAATTTCTTCATTTAAC
93392924 ACTAAAAATAGTCATGAAATTTCATAAACATACAAA
125 ACTAAAAATAGTCATGAAATTTCATAAACATACAAA
93392960 CCTTCCAAGA
Statistics
Matches: 157, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
160 29 0.18
161 2 0.01
162 1 0.01
166 125 0.80
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (160 bp):
GGGTCAGCTGAAGTGTTTTCTATCAGTAAGTTAGCATTGAAAGTGTTGTCATAGCAAGTGTGGGT
CTTGAGGTTTGTAGATGATTTCCATTGTTCATATCAAAAATATAATTTCTTCATTTAACACTAAA
AATAGTCATGAAATTTCATAAACATACAAA
Found at i:93393209 original size:15 final size:15
Alignment explanation
Indices: 93393189--93393253 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
93393179 TCCTCCAGCT
93393189 CTTCATCATCATCAA
1 CTTCATCATCATCAA
*
93393204 CTTCAT-ATACATCAT
1 CTTCATCAT-CATCAA
**
93393219 CACCATCATCAT-AA
1 CTTCATCATCATCAA
* *
93393233 TCTTCATCATCTTCGA
1 -CTTCATCATCATCAA
93393249 CTTCA
1 CTTCA
93393254 GCTTCATCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
14 3 0.08
15 32 0.84
16 3 0.08
ACGTcount: A:0.31, C:0.32, G:0.02, T:0.35
Consensus pattern (15 bp):
CTTCATCATCATCAA
Found at i:93407317 original size:43 final size:43
Alignment explanation
Indices: 93407269--93407409 Score: 149
Period size: 43 Copynumber: 3.3 Consensus size: 43
93407259 TCGGTATATC
**
93407269 CGATGATGCACTATGTGTGCCAGTACATTTCTTTCAGTTTATT
1 CGATGATGCACTATGTGTGCCAGTACATTTCTTTTGGTTTATT
* * * ** * * *
93407312 CGATGATGCATTGTGTGTGCCAGTATAAATGTTTTGGTATATC
1 CGATGATGCACTATGTGTGCCAGTACATTTCTTTTGGTTTATT
* * *
93407355 CGATGATGCACTATGTGTGTCAATACATTTTTTTTGGTTTA-T
1 CGATGATGCACTATGTGTGCCAGTACATTTCTTTTGGTTTATT
93407397 CTGATGATGCACT
1 C-GATGATGCACT
93407410 GTATGCCAGT
Statistics
Matches: 77, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 1 0.01
43 76 0.99
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (43 bp):
CGATGATGCACTATGTGTGCCAGTACATTTCTTTTGGTTTATT
Found at i:93407459 original size:84 final size:85
Alignment explanation
Indices: 93407257--93407460 Score: 250
Period size: 86 Copynumber: 2.4 Consensus size: 85
93407247 ACAAGTTATA
* *
93407257 CTTCGGTATATCCGATGATGCACTATGTGTGCCAGTACATTTCTTTCAGTTTATTCGATGATGCA
1 CTTCGGTATATCCGATGATGCACTATGTGTGTCAATACATTTCTTTCAGTTTATTCGATGATGCA
* *
93407322 TTGTGTGTGCCAGTATAAATG
66 -TCTGTATGCCAGTATAAATG
* * * **
93407343 TTTTGGTATATCCGATGATGCACTATGTGTGTCAATACATTTTTTTTGGTTTA-TCTGATGATGC
1 CTTCGGTATATCCGATGATGCACTATGTGTGTCAATACATTTCTTTCAGTTTATTC-GATGATGC
*
93407407 A-CTGTATGCCAGTGTAAATG
65 ATCTGTATGCCAGTATAAATG
** * *
93407427 CTTCGGTATATTTGAAGATGCACTATATGTGTCA
1 CTTCGGTATATCCGATGATGCACTATGTGTGTCA
93407461 TTATTCTTCG
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
84 44 0.44
85 2 0.02
86 55 0.54
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (85 bp):
CTTCGGTATATCCGATGATGCACTATGTGTGTCAATACATTTCTTTCAGTTTATTCGATGATGCA
TCTGTATGCCAGTATAAATG
Found at i:93416783 original size:46 final size:45
Alignment explanation
Indices: 93416716--93416888 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 45
93416706 TGTAACCCGC
*
93416716 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* * *
93416762 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGTAT
* * * **
93416808 ACATTTCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* *
93416855 CCATAAGTGAACTCGGACTCGACTCAACGAGCTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC
93416889 AGATGCCCAA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
45 3 0.03
46 63 0.61
47 34 0.33
48 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGTAT
Found at i:93416834 original size:93 final size:93
Alignment explanation
Indices: 93416723--93416895 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
93416713 CGCCCATAAG
* * * **
93416723 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
*
93416788 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCAGATGCCTAGTTACATTTCA
*
93416816 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCGACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
93416881 ACGAGCTCAGATGCC
66 ACGAGCTCAGATGCC
93416896 CAAATATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATTTCA
Found at i:93421202 original size:29 final size:30
Alignment explanation
Indices: 93421170--93421237 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 30
93421160 TTATTAATTT
*
93421170 TAAAAAAATTAGAAA-GTATTAAAA-CATTA
1 TAAAAAAATTAGAAATGTA-GAAAATCATTA
* *
93421199 TAAAAATA-TAGAAATGTAGAAAATTATTA
1 TAAAAAAATTAGAAATGTAGAAAATCATTA
93421228 -AAAAAAATTA
1 TAAAAAAATTA
93421238 AAAACACTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.28
Consensus pattern (30 bp):
TAAAAAAATTAGAAATGTAGAAAATCATTA
Found at i:93421359 original size:21 final size:20
Alignment explanation
Indices: 93421322--93421378 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
93421312 TCCTCAACTA
93421322 AAATTTTAATAATTTTTAAT
1 AAATTTTAATAATTTTTAAT
*
93421342 AAATTCTT-ATAATTTTTTAT
1 AAATT-TTAATAATTTTTAAT
* *
93421362 -CATTTGAATAATTTTTA
1 AAATTTTAATAATTTTTA
93421379 TGTAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 12 0.39
20 16 0.52
21 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
AAATTTTAATAATTTTTAAT
Found at i:93421500 original size:31 final size:31
Alignment explanation
Indices: 93421465--93421526 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
93421455 ATTTTGCAAT
*
93421465 AATTTTCTAT-ATTCTTATATAATTTTAAATA
1 AATTTTCTATAATT-TTATATAAATTTAAATA
*
93421496 AATTTTCTATAATTTTTTATAAATTTAAATA
1 AATTTTCTATAATTTTATATAAATTTAAATA
93421527 TTTTTTTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (31 bp):
AATTTTCTATAATTTTATATAAATTTAAATA
Found at i:93421508 original size:21 final size:21
Alignment explanation
Indices: 93421482--93421521 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
93421472 TATATTCTTA
93421482 TATAATTTTAAATAAATTTTC
1 TATAATTTTAAATAAATTTTC
**
93421503 TATAATTTTTTATAAATTT
1 TATAATTTTAAATAAATTT
93421522 AAATATTTTT
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:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TATAATTTTAAATAAATTTTC
Found at i:93428061 original size:17 final size:17
Alignment explanation
Indices: 93428039--93428071 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
93428029 TCAATTTGGA
93428039 TTTTAAATATTAATGGT
1 TTTTAAATATTAATGGT
*
93428056 TTTTAAATTTTAATGG
1 TTTTAAATATTAATGG
93428072 ATTTAAGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (17 bp):
TTTTAAATATTAATGGT
Found at i:93428076 original size:16 final size:16
Alignment explanation
Indices: 93428035--93428077 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
93428025 ATTATCAATT
93428035 TGGATTTTAAATATTAA
1 TGGA-TTTAAATATTAA
* *
93428052 TGGTTTTTAAATTTTAA
1 TGG-ATTTAAATATTAA
93428069 TGGATTTAA
1 TGGATTTAA
93428078 GCTTTTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
TGGATTTAAATATTAA
Found at i:93429557 original size:4 final size:4
Alignment explanation
Indices: 93429548--93429578 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
93429538 GTAAAAGAGA
93429548 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
93429579 ATTGCCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:93434389 original size:31 final size:30
Alignment explanation
Indices: 93434351--93434454 Score: 97
Period size: 31 Copynumber: 3.5 Consensus size: 30
93434341 AAAAAAAAGC
93434351 TTAGGTACCAAATAAGGAAAAAATGTCAAGT
1 TTAGGTACCAAATAAGGAAAAAAT-TCAAGT
** *
93434382 TTAGGTACCAAATTGGGGCAAAAA---AAGT
1 TTAGGTACCAAA-TAAGGAAAAAATTCAAGT
* * *
93434410 TTGGGTACCAAATTAGGAAAAAGTATCAAGT
1 TTAGGTACCAAATAAGGAAAAAAT-TCAAGT
*
93434441 TTAGATACCAAATA
1 TTAGGTACCAAATA
93434455 TTATATTAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
27 7 0.12
28 15 0.26
31 27 0.47
32 8 0.14
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (30 bp):
TTAGGTACCAAATAAGGAAAAAATTCAAGT
Found at i:93434428 original size:59 final size:59
Alignment explanation
Indices: 93434342--93434453 Score: 170
Period size: 59 Copynumber: 1.9 Consensus size: 59
93434332 ATTGAACCTA
* *
93434342 AAAAAAAGCTTAGGTACCAAATAAGGAAAAAATGTCAAGTTTAGGTACCAAATTGGGGC
1 AAAAAAAGCTTAGGTACCAAATAAGGAAAAAATATCAAGTTTAGATACCAAATTGGGGC
* * * *
93434401 AAAAAAAGTTTGGGTACCAAATTAGGAAAAAGTATCAAGTTTAGATACCAAAT
1 AAAAAAAGCTTAGGTACCAAATAAGGAAAAAATATCAAGTTTAGATACCAAAT
93434454 ATTATATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (59 bp):
AAAAAAAGCTTAGGTACCAAATAAGGAAAAAATATCAAGTTTAGATACCAAATTGGGGC
Found at i:93434953 original size:19 final size:19
Alignment explanation
Indices: 93434912--93434961 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
93434902 AAAAATATAA
*
93434912 ATTTTGAA-TTTTATAAAT
1 ATTTTGAATTTTTAAAAAT
93434930 ATTTT-AATTTTTAAAAATT
1 ATTTTGAATTTTTAAAAA-T
93434949 ATTTTGAATTTTT
1 ATTTTGAATTTTT
93434962 TTTTGAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 13 0.46
19 6 0.21
20 7 0.25
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAAAT
Found at i:93436140 original size:15 final size:16
Alignment explanation
Indices: 93436076--93436135 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
93436066 TTATTAATAC
93436076 AAATACAAA-AAATATA
1 AAATA-AAATAAATATA
* *
93436092 AATATAACACTAAAACATA
1 AA-ATAA-AAT-AAATATA
*
93436111 AAATTAAATAAATATA
1 AAATAAAATAAATATA
93436127 AAATAAAAT
1 AAATAAAAT
93436136 TATATTAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 17 0.50
17 6 0.18
18 3 0.09
19 8 0.24
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAATAAATATA
Found at i:93441852 original size:46 final size:45
Alignment explanation
Indices: 93441785--93441956 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 45
93441775 TGGTTGAGCA
93441785 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGT-GAATG
* *
93441831 TCCGAACTCGTTGAGTTGAGTCTGAGTT--C-GTGAGATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTG-GATGTGAA-T--G
* *
93441876 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT-TGGATGTGAATG
* * *
93441924 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
93441957 ATGGGCGGGT
Statistics
Matches: 106, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 6 0.06
45 1 0.01
46 57 0.54
47 27 0.25
48 1 0.01
49 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGTGAATG
Found at i:93441941 original size:93 final size:93
Alignment explanation
Indices: 93441782--93441952 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
93441772 GAATGGTTGA
* * *
93441782 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGTGGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGTCGAACGCCCGAACTCGTTGAGT
93441847 TGAG-TCTGAGTTCGTGAGATGTAACTAG
66 TGAGTTC-GAGTTCGTGAGATGTAACTAG
*
93441875 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT-TGGATGTCGAACGCCCGAACTCGTTGAG
93441939 TTGAGTTCGAGTTC
65 TTGAGTTCGAGTTC
93441953 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
93 64 0.89
94 8 0.11
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTGGATGTCGAACGCCCGAACTCGTTGAGT
TGAGTTCGAGTTCGTGAGATGTAACTAG
Found at i:93443670 original size:49 final size:49
Alignment explanation
Indices: 93443597--93443690 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
93443587 TGCTATGCAA
* *
93443597 TGCTAAACTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
*
93443646 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCATTATTTAT
1 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
93443691 CCCCTTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.44
Consensus pattern (49 bp):
TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
Found at i:93445245 original size:43 final size:45
Alignment explanation
Indices: 93445164--93445251 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 45
93445154 TCACATCTCA
* * * * * *
93445164 TTTCATCATTTGATATTTCTTTTCTCATCTTTTCCATTTTAATAT
1 TTTCATCATTTCATATTTCATTTCTAATATTTGCCATTTCAATAT
93445209 TTTC-TCATTTCATATTT-ATTTCTAATATTTGCCATTTCAATAT
1 TTTCATCATTTCATATTTCATTTCTAATATTTGCCATTTCAATAT
93445252 CAATCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
43 21 0.57
44 12 0.32
45 4 0.11
ACGTcount: A:0.23, C:0.17, G:0.02, T:0.58
Consensus pattern (45 bp):
TTTCATCATTTCATATTTCATTTCTAATATTTGCCATTTCAATAT
Found at i:93445964 original size:19 final size:18
Alignment explanation
Indices: 93445924--93445964 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
93445914 AATATTACAC
*
93445924 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
93445942 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
93445961 ATTT
1 ATTT
93445965 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:93446379 original size:13 final size:13
Alignment explanation
Indices: 93446361--93446385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93446351 CTTCTTCTCA
93446361 TTTTCTTTCTTTC
1 TTTTCTTTCTTTC
93446374 TTTTCTTTCTTT
1 TTTTCTTTCTTT
93446386 AATGTTTGCA
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTCTTTC
Found at i:93449906 original size:28 final size:27
Alignment explanation
Indices: 93449873--93449979 Score: 99
Period size: 28 Copynumber: 3.7 Consensus size: 27
93449863 AAAAAATGTC
*
93449873 AAGTTTAGGTACCAAATTCCGCCCAAAA
1 AAGTTTAGGTACCAAATT-AGCCCAAAA
* **
93449901 AAGTTTAGATACCAAATTAG-GAAAAA
1 AAGTTTAGGTACCAAATTAGCCCAAAA
*
93449927 GTGTCAAGTTTAGGTACCAAATTGGGCCCAAAA
1 -----AAGTTTAGGTACCAAATT-AGCCCAAAA
93449960 AAGTTTAGGTACCAAATTAG
1 AAGTTTAGGTACCAAATTAG
93449980 GAAAACGTGT
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
26 4 0.06
27 2 0.03
28 35 0.56
31 17 0.27
32 1 0.02
33 4 0.06
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (27 bp):
AAGTTTAGGTACCAAATTAGCCCAAAA
Found at i:93449909 original size:59 final size:59
Alignment explanation
Indices: 93449838--93450056 Score: 312
Period size: 59 Copynumber: 3.7 Consensus size: 59
93449828 TTGAACCTAA
* * **
93449838 AAAAAAGCTTAGATATCAAATTAGGAAAAAATGTCAAGTTTAGGTACCAAATTCCGCCC
1 AAAAAAGTTTAGATACCAAATTAGGAAAAAATGTCAAGTTTAGGTACCAAATTGGGCCC
*
93449897 AAAAAAGTTTAGATACCAAATTAGGAAAAAGTGTCAAGTTTAGGTACCAAATTGGGCCC
1 AAAAAAGTTTAGATACCAAATTAGGAAAAAATGTCAAGTTTAGGTACCAAATTGGGCCC
* ** * *
93449956 AAAAAAGTTTAGGTACCAAATTAGGAAAACGTGTCAAGTTTAGGTACTAAATTGGGCCAA
1 AAAAAAGTTTAGATACCAAATTAGGAAAAAATGTCAAGTTTAGGTACCAAATTGGGCC-C
* *
93450016 AAAAAAGTTTAGGTACCAAATTAAGAAAAAAATGTCAAGTT
1 AAAAAAGTTTAGATACCAAATT-AGGAAAAAATGTCAAGTT
93450057 CTGATACCAA
Statistics
Matches: 146, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
59 109 0.75
60 22 0.15
61 15 0.10
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (59 bp):
AAAAAAGTTTAGATACCAAATTAGGAAAAAATGTCAAGTTTAGGTACCAAATTGGGCCC
Found at i:93450561 original size:17 final size:17
Alignment explanation
Indices: 93450539--93450573 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
93450529 TTTGAGACAC
93450539 ATATTTAGACCATGTTA
1 ATATTTAGACCATGTTA
93450556 ATATTTAGACCATGTTA
1 ATATTTAGACCATGTTA
93450573 A
1 A
93450574 GTTTAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (17 bp):
ATATTTAGACCATGTTA
Found at i:93450733 original size:33 final size:35
Alignment explanation
Indices: 93450670--93450734 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
93450660 CATTATTTTT
* *
93450670 TTAATTTACAATTTTTAATTTTATATTTAATTCAA
1 TTAATTTACAATTTTAAATGTTATATTTAATTCAA
93450705 TTAA-TTAC-ATTTTAAATGTTAT-TCTTAATT
1 TTAATTTACAATTTTAAATGTTATAT-TTAATT
93450735 GCAAGGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.04
33 18 0.67
34 4 0.15
35 4 0.15
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (35 bp):
TTAATTTACAATTTTAAATGTTATATTTAATTCAA
Found at i:93451195 original size:15 final size:16
Alignment explanation
Indices: 93451131--93451190 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
93451121 TTATTAATAC
93451131 AAATACAAA-AAATATA
1 AAATA-AAATAAATATA
* *
93451147 AATATAACACTAAAACATA
1 AA-ATAA-AAT-AAATATA
*
93451166 AAATTAAATAAATATA
1 AAATAAAATAAATATA
93451182 AAATAAAAT
1 AAATAAAAT
93451191 TATATTAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 17 0.50
17 6 0.18
18 3 0.09
19 8 0.24
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAATAAATATA
Found at i:93454089 original size:24 final size:24
Alignment explanation
Indices: 93454037--93454089 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
93454027 ATTAGTAAGT
*
93454037 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATAC
* * *
93454061 TAAATATATTATACTAATAAATAC
1 CAAATAAACTATACTAATAAATAC
93454085 CAAAT
1 CAAAT
93454090 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATAC
Found at i:93456059 original size:24 final size:24
Alignment explanation
Indices: 93456007--93456059 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
93455997 ATTAGTAAGT
*
93456007 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATAC
* * *
93456031 TAAATATATTATACTAATAAATAC
1 CAAATAAACTATACTAATAAATAC
93456055 CAAAT
1 CAAAT
93456060 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATAC
Found at i:93457189 original size:21 final size:21
Alignment explanation
Indices: 93457163--93457204 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
93457153 CTTTATATTA
* *
93457163 ATTTTTGTTTGGGATGGGTTT
1 ATTTTTATTTAGGATGGGTTT
*
93457184 ATTTTTATTTAGGTTGGGTTT
1 ATTTTTATTTAGGATGGGTTT
93457205 TGAATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.60
Consensus pattern (21 bp):
ATTTTTATTTAGGATGGGTTT
Found at i:93473067 original size:65 final size:66
Alignment explanation
Indices: 93472961--93473087 Score: 211
Period size: 65 Copynumber: 1.9 Consensus size: 66
93472951 GCAACCAAAC
*
93472961 TTCTTACCCCTTAAACCAGCAAGCTCATTCTGATATGATTTGACTAGAAATAAAATA-AAGCTAA
1 TTCTTACCCCTTAAACCAGCAAGCTCATTCTGATATAATTTGACTAGAAATAAAATATAAGCTAA
93473025 A
66 A
* * *
93473026 TTCTTACCCCTTAAGCTAGCTAGCTCATTCTGATATAATTTGACTAGAAATAAAATATAAGC
1 TTCTTACCCCTTAAACCAGCAAGCTCATTCTGATATAATTTGACTAGAAATAAAATATAAGC
93473088 CAAACTGCCA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
65 53 0.93
66 4 0.07
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (66 bp):
TTCTTACCCCTTAAACCAGCAAGCTCATTCTGATATAATTTGACTAGAAATAAAATATAAGCTAA
A
Found at i:93475840 original size:47 final size:47
Alignment explanation
Indices: 93475789--93475886 Score: 135
Period size: 47 Copynumber: 2.1 Consensus size: 47
93475779 AGAAATAAAA
* *
93475789 AAAATATTATTTCATCATGTGTTTTGATC-CTAAAATGTAAGATCATT
1 AAAATATTATTTCATCACGTGTTTTGATCTC-AAAATGTAACATCATT
* * *
93475836 AAAATTTTATTTTATCACGTGTTTTGATTTCAAAATGTAACATCATT
1 AAAATATTATTTCATCACGTGTTTTGATCTCAAAATGTAACATCATT
93475883 AAAA
1 AAAA
93475887 AAAACTTACG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
47 44 0.98
48 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (47 bp):
AAAATATTATTTCATCACGTGTTTTGATCTCAAAATGTAACATCATT
Found at i:93485496 original size:14 final size:15
Alignment explanation
Indices: 93485467--93485496 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93485457 ATTTCTTTGG
93485467 CTAAAACAATTAAAA
1 CTAAAACAATTAAAA
93485482 CTAAAACAA-TAAAA
1 CTAAAACAATTAAAA
93485496 C
1 C
93485497 AACCTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (15 bp):
CTAAAACAATTAAAA
Found at i:93495828 original size:16 final size:17
Alignment explanation
Indices: 93495801--93495833 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
93495791 CTGTATAAAG
93495801 AACTTATATTTTAACAA
1 AACTTATATTTTAACAA
*
93495818 AACTT-TATTTTTACAA
1 AACTTATATTTTAACAA
93495834 TATTTCTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
AACTTATATTTTAACAA
Found at i:93506410 original size:46 final size:46
Alignment explanation
Indices: 93506352--93506527 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
93506342 TGTTTGGGCA
*
93506352 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
93506398 TCCGGACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
93506443 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
93506491 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93506528 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 2 0.02
46 60 0.56
47 27 0.25
48 2 0.02
49 2 0.02
50 6 0.06
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:93506507 original size:93 final size:93
Alignment explanation
Indices: 93506348--93506520 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
93506338 AGGATGTTTG
* * * *
93506348 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGGACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGGACTCGTTGAG
93506413 TTGAGTCCGAGTTCGTAAGATGTAACTA
66 TTGAGTCCGAGTTCGTAAGATGTAACTA
93506441 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCC-GAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGGA-CTCGTTGA
93506505 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
93506521 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGGACTCGTTGAG
TTGAGTCCGAGTTCGTAAGATGTAACTA
Found at i:93517428 original size:14 final size:14
Alignment explanation
Indices: 93517409--93517438 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93517399 GCTGAGGTAA
*
93517409 TTTCAATTTATGTT
1 TTTCAATTTATATT
93517423 TTTCAATTTATATT
1 TTTCAATTTATATT
93517437 TT
1 TT
93517439 GCAAAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTCAATTTATATT
Found at i:93517487 original size:89 final size:86
Alignment explanation
Indices: 93517334--93517692 Score: 384
Period size: 89 Copynumber: 4.1 Consensus size: 86
93517324 CGCTGAGGTA
* *
93517334 TTTTCAA-TTACTGATTGTCAAAAAGTCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTA-T-ATTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
93517398 CGCTGAGGTAATTTCAATTTATGT
63 CGCTGAGGTAATTTCAATTTATGT
*
93517422 TTTTCAATTTATATTTTGCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTATATTTT-C--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * *
93517487 CGCTGAGGTATTTTCAATTTCTAT
63 CGCTGAGGTAATTTCAATTTATGT
* * * * * * * * * * *
93517511 TCTT-AATGTCTGTTTT--TAAATCAACTCATATTACAAAAGGTGAGTTGAGCCTCAGGAAAAGT
1 TTTTCAATTTATATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
93517573 TGAGGTATTTTCAATTTATGTTTTT
66 TGAGGTAATTTCAATTTATG----T
* * *
93517598 TTTTCCAAATTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTT-CAATTTATA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
93517663 GCTGAGGTAATTTCAATTTCTGT
64 GCTGAGGTAATTTCAATTTATGT
93517686 TTTTCAA
1 TTTTCAA
93517693 AAAAGTCAAT
Statistics
Matches: 222, Mismatches: 36, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
83 56 0.25
87 11 0.05
88 23 0.10
89 68 0.31
90 9 0.04
92 55 0.25
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (86 bp):
TTTTCAATTTATATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTATGT
Found at i:93517679 original size:175 final size:171
Alignment explanation
Indices: 93517362--93517683 Score: 466
Period size: 175 Copynumber: 1.9 Consensus size: 171
93517352 CAAAAAGTCG
* * * * *
93517362 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTC
1 ACTCATATTACAAAAGGTGAGTTGAGCCTCAGGAAAAGCTGAGGTAATTTCAATTTATGTTTTTC
*
93517427 AATTTATATTTTGCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTG
66 AAATTATATTTTGC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTG
*
93517492 AGGTATTTTCAATTTCTATTCTTAATGTCTGTTTTTAAATCA
130 AGGTAATTTCAATTTCTATTCTTAATGTCTGTTTTTAAATCA
* *
93517534 ACTCATATTACAAAAGGTGAGTTGAGCCTCAGGAAAAGTTGAGGTATTTTCAATTTATGTTTTTT
1 ACTCATATTACAAAAGGTGAGTTGAGCCTCAGGAAAAGCTGAGGTAATTTCAATTTATG----TT
* ** *
93517599 TTTCCAAATTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
62 TTT-CAAATTATATTTTGCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
93517663 GCTGAGGTAATTTCAATTTCT
126 GCTGAGGTAATTTCAATTTCT
93517684 GTTTTTCAAA
Statistics
Matches: 132, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
172 52 0.39
175 62 0.47
176 5 0.04
177 13 0.10
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (171 bp):
ACTCATATTACAAAAGGTGAGTTGAGCCTCAGGAAAAGCTGAGGTAATTTCAATTTATGTTTTTC
AAATTATATTTTGCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
GGTAATTTCAATTTCTATTCTTAATGTCTGTTTTTAAATCA
Found at i:93517891 original size:54 final size:55
Alignment explanation
Indices: 93517683--93517888 Score: 330
Period size: 54 Copynumber: 3.8 Consensus size: 55
93517673 TTTCAATTTC
* *
93517683 TGTTTTTCAAAAAAGTCAATTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTCA
1 TGTTTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
93517739 TG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
1 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
*
93517793 TGTTTTTCAAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGTCTTTTAATTTC-
1 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA-TTCA
*
93517847 TGTTTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAG
1 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
93517889 TCTCGAGACA
Statistics
Matches: 143, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
53 5 0.03
54 111 0.78
55 25 0.17
56 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (55 bp):
TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
Done.