Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 197 of 250
Found at i:61562069 original size:9 final size:9
Alignment explanation
Indices: 61562055--61562221 Score: 163
Period size: 9 Copynumber: 17.6 Consensus size: 9
61562045 ATGTATTTGT
61562055 TAAGTTATG
1 TAAGTTATG
61562064 TAAGTTGTTATG
1 TAA---GTTATG
*
61562076 TACGTTATG
1 TAAGTTATG
*
61562085 TGAGTTATG
1 TAAGTTATG
*
61562094 TAAATTATG
1 TAAGTTATG
61562103 TAAGTTATG
1 TAAGTTATG
*
61562112 TGAGTTATG
1 TAAGTTATG
61562121 TAAGTTGTTATG
1 TAA---GTTATG
*
61562133 TAAATTATG
1 TAAGTTATG
61562142 TAAGTTATG
1 TAAGTTATG
*
61562151 TGAGTTATG
1 TAAGTTATG
61562160 TAAGTTGGTATG
1 TAAG-T--TATG
*
61562172 TAAATTATG
1 TAAGTTATG
*
61562181 TAAGTTATA
1 TAAGTTATG
61562190 TAAGTTATG
1 TAAGTTATG
61562199 TAAGTTATG
1 TAAGTTATG
* *
61562208 TAATTTATT
1 TAAGTTATG
61562217 TAAGT
1 TAAGT
61562222 AATGATCAAA
Statistics
Matches: 130, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
9 104 0.80
10 1 0.01
11 1 0.01
12 24 0.18
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:61562131 original size:39 final size:39
Alignment explanation
Indices: 61562088--61562204 Score: 207
Period size: 39 Copynumber: 3.0 Consensus size: 39
61562078 CGTTATGTGA
61562088 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
61562127 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
* * *
61562166 GGTATGTAAATTATGTAAGTTATATAAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
61562205 ATGTAATTTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.45
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
Found at i:61562131 original size:48 final size:43
Alignment explanation
Indices: 61562070--61562209 Score: 170
Period size: 39 Copynumber: 3.4 Consensus size: 43
61562060 TATGTAAGTT
*
61562070 GTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAG-TATGT-AGTTATGTAAATTATGTAAGTTATGTGA
61562115 GTTATGTAAG--T-T-GTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTATGTAGTTATGTAAATTATGTAAGTTATGTGA
* *
61562154 GTTATGTAAGT-TG--G-TATGTAAATTATGTAAGTTATATAA
1 GTTATGTAAGTATGTAGTTATGTAAATTATGTAAGTTATGTGA
61562193 GTTATGTAAGTTATGTA
1 GTTATGTAAG-TATGTA
61562210 ATTTATTTAA
Statistics
Matches: 86, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
39 70 0.81
40 3 0.03
41 3 0.03
42 1 0.01
45 9 0.10
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (43 bp):
GTTATGTAAGTATGTAGTTATGTAAATTATGTAAGTTATGTGA
Found at i:61562148 original size:57 final size:58
Alignment explanation
Indices: 61562055--61562221 Score: 198
Period size: 57 Copynumber: 2.9 Consensus size: 58
61562045 ATGTATTTGT
* *
61562055 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGT-TATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTGTATG
* * * *
61562112 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGGTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAG-T-GTATG
* * * *
61562172 TAAATTATGTAA---GTTATATAAGTTATGTAAGTTATGTAATTTATTTAAGT
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGT
61562222 AATGATCAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
56 1 0.01
57 78 0.83
58 1 0.01
60 14 0.15
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (58 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTGTATG
Found at i:61562210 original size:48 final size:48
Alignment explanation
Indices: 61562055--61562210 Score: 188
Period size: 48 Copynumber: 3.2 Consensus size: 48
61562045 ATGTATTTGT
* * * *
61562055 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGGTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * * *
61562103 TAAGTTATGTGAGTTATGTAAGT-TGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTT-GGTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * *
61562151 TGAGTTATGTAAGTTGGTATGTAAATTATGTAAGTTATATAAGTTATG
1 TAAGTTATGTAAGTTGGTATGTAAGTTATGTAAGTTATGTAAGTTATG
61562199 TAAGTTATGTAA
1 TAAGTTATGTAA
61562211 TTTATTTAAG
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 5 0.06
48 80 0.90
49 4 0.04
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGGTATGTAAGTTATGTAAGTTATGTAAGTTATG
Found at i:61562824 original size:241 final size:241
Alignment explanation
Indices: 61562401--61562887 Score: 902
Period size: 241 Copynumber: 2.0 Consensus size: 241
61562391 TTAAGGTTAT
*
61562401 ATAAATATTCCATAGTAAATGAGCTCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
* *
61562466 TCATCATACGTGGCGTTGTTGCACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGACGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
* *
61562531 ACCTGTCAGGTTTCCAGTCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
61562596 GGTCAGGTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGGTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
* * *
61562642 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTTAATTTTTTATGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
61562707 TCATCATACGTGACGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGACGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
61562772 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
61562837 GGTCAGGTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGGTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
61562883 ATAAA
1 ATAAA
61562888 ATTAATTCAT
Statistics
Matches: 238, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 238 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGACGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGGTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:61563372 original size:14 final size:13
Alignment explanation
Indices: 61563353--61563382 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
61563343 CAATATAATT
61563353 TTACTTCATATATA
1 TTACTTCATATA-A
61563367 TTACTTCATATAA
1 TTACTTCATATAA
61563380 TTA
1 TTA
61563383 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:61566521 original size:37 final size:37
Alignment explanation
Indices: 61566440--61566555 Score: 128
Period size: 37 Copynumber: 3.1 Consensus size: 37
61566430 TGCACGGGGC
*
61566440 GAAGGCGATGGAGGCCGAGATGGGTTGCGATGA-AC-GGTGC
1 GAAGGCGATGGAGG--G-GATGGGTTGCGAT-ACACAGG-GA
*
61566480 GAAGGCGATGGAGGGGATGGTTTGCGATACACAGGGA
1 GAAGGCGATGGAGGGGATGGGTTGCGATACACAGGGA
* * *
61566517 GAAGGCGATGGAGGAGATGGGTTGCAATGCACAGGGA
1 GAAGGCGATGGAGGGGATGGGTTGCGATACACAGGGA
61566554 GA
1 GA
61566556 TTATGGGGGA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
36 1 0.01
37 50 0.74
38 3 0.04
40 14 0.21
ACGTcount: A:0.27, C:0.12, G:0.47, T:0.15
Consensus pattern (37 bp):
GAAGGCGATGGAGGGGATGGGTTGCGATACACAGGGA
Found at i:61567399 original size:15 final size:15
Alignment explanation
Indices: 61567376--61567407 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
61567366 AAATAATAAT
61567376 TTATATATATTTATC
1 TTATATATATTTATC
*
61567391 TTATTTATATTTATC
1 TTATATATATTTATC
61567406 TT
1 TT
61567408 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:61567885 original size:13 final size:13
Alignment explanation
Indices: 61567867--61567891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61567857 TATTTTAATA
61567867 TTATTTTGTGTGT
1 TTATTTTGTGTGT
61567880 TTATTTTGTGTG
1 TTATTTTGTGTG
61567892 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:61569461 original size:41 final size:41
Alignment explanation
Indices: 61569416--61569685 Score: 370
Period size: 41 Copynumber: 6.6 Consensus size: 41
61569406 CGGACGTTAC
61569416 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTG-A-TACATTTCAGACTTTAA
*
61569457 GTCTAGCAGGCTTAATACCGGTGATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTTTAA
61569498 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTTTAA
* *
61569539 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
1 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTTTAA
* *
61569580 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
1 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTTTAA
* *
61569621 GTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAATCAGGCTTTAA
1 GTCTAGCAGGCTTAA-TGCCGGTGATACAT--TTCAGACTTTAA
* **
61569662 GCCTAGCAGGCAAAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGA
61569686 ATCTGTTTAA
Statistics
Matches: 212, Mismatches: 10, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
39 3 0.01
40 8 0.04
41 199 0.94
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTTTAA
Found at i:61570903 original size:14 final size:14
Alignment explanation
Indices: 61570846--61570906 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
61570836 ACATTAGTAT
61570846 TAAAACCATAAACCC
1 TAAAA-CATAAACCC
61570861 TAAAACCATAATAAACCC
1 TAAAA-C---ATAAACCC
** *
61570879 TAAAATTTAAACTC
1 TAAAACATAAACCC
61570893 TAAAACATAAACCC
1 TAAAACATAAACCC
61570907 AACCCCCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
14 17 0.46
15 7 0.19
18 13 0.35
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAAACATAAACCC
Found at i:61571405 original size:40 final size:38
Alignment explanation
Indices: 61571341--61571444 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 38
61571331 CTGAACACTG
*
61571341 TTGCGGCGTTTTCTTAAAAACGCCGCT-AATGTTTGAT-TAT
1 TTGCGGCGTTTT-TTAAAAACGCCGCTAAAAG-TT-ATCT-T
* *
61571381 TTGCGGCGTTTTTTCATAAGCGCCGCTAAAAGTTATCTT
1 TTGCGGCGTTTTTT-AAAAACGCCGCTAAAAGTTATCTT
61571420 TTGCGGCGTTTTTTTAACAAACGCC
1 TTGCGGCG-TTTTTTAA-AAACGCC
61571445 ACTATATCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
39 14 0.26
40 37 0.69
41 3 0.06
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (38 bp):
TTGCGGCGTTTTTTAAAAACGCCGCTAAAAGTTATCTT
Found at i:61572018 original size:25 final size:25
Alignment explanation
Indices: 61571984--61572032 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
61571974 TGAAGGTGAC
61571984 AGATACATGATATATATAAAGTAAT
1 AGATACATGATATATATAAAGTAAT
61572009 AGATACATGATATATATAAAGTAA
1 AGATACATGATATATATAAAGTAA
61572033 GCATAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.31
Consensus pattern (25 bp):
AGATACATGATATATATAAAGTAAT
Found at i:61574683 original size:7 final size:7
Alignment explanation
Indices: 61574671--61574700 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
61574661 GGAGGACTAG
61574671 TTTTTGT
1 TTTTTGT
61574678 TTTTTGT
1 TTTTTGT
61574685 TTTTTGT
1 TTTTTGT
*
61574692 TTATTGT
1 TTTTTGT
61574699 TT
1 TT
61574701 ATTTTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.83
Consensus pattern (7 bp):
TTTTTGT
Found at i:61579690 original size:33 final size:33
Alignment explanation
Indices: 61579647--61579737 Score: 137
Period size: 33 Copynumber: 2.8 Consensus size: 33
61579637 TTTCTTCTTG
**
61579647 ACATTCCAGCTAATGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
* *
61579680 ACATTTCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
61579713 ACATTCCAGCTCCTGTCCAACAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
61579738 TGAAATAGAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.32, C:0.41, G:0.09, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:61582668 original size:15 final size:15
Alignment explanation
Indices: 61582650--61582701 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
61582640 ATTTAATATT
*
61582650 AATATATTGATAATA
1 AATATATTAATAATA
*
61582665 AATATTTATTACAATTATA
1 AATA--TATT--AATAATA
61582684 AATATATTAATAATA
1 AATATATTAATAATA
61582699 AAT
1 AAT
61582702 GTTATAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
17 8 0.27
19 9 0.30
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:61583097 original size:26 final size:24
Alignment explanation
Indices: 61583060--61583113 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 24
61583050 TACAAGGACT
61583060 TATGACATATTTTAACTTAGTATAAAA
1 TATGACATATTTTAA-TTA-TAT-AAA
61583087 TATGA-ATATTTTAATTATATAAA
1 TATGACATATTTTAATTATATAAA
61583110 TATG
1 TATG
61583114 CAGTATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.26
24 3 0.11
25 3 0.11
26 9 0.33
27 5 0.19
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (24 bp):
TATGACATATTTTAATTATATAAA
Found at i:61583128 original size:37 final size:37
Alignment explanation
Indices: 61583078--61583150 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
61583068 ATTTTAACTT
61583078 AGTATAAAATATGAATATTTTAATTATATAAATATGC
1 AGTATAAAATATGAATATTTTAATTATATAAATATGC
61583115 AGTATAAAATATGAATATTTTAATTATATAAATATG
1 AGTATAAAATATGAATATTTTAATTATATAAATATG
61583151 TATATTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.41
Consensus pattern (37 bp):
AGTATAAAATATGAATATTTTAATTATATAAATATGC
Found at i:61589649 original size:22 final size:22
Alignment explanation
Indices: 61589599--61589649 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
61589589 CCTCGTCTTT
*
61589599 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
61589621 -TCATTTTCTTTCTTTCTTC-AAC
1 TTC-TTTTCTTTCTTT-TTCTAAC
61589643 TTCTTTT
1 TTCTTTT
61589650 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.08
22 18 0.72
23 5 0.20
ACGTcount: A:0.10, C:0.22, G:0.02, T:0.67
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:61589663 original size:17 final size:18
Alignment explanation
Indices: 61589643--61589680 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
61589633 TTTCTTCAAC
* *
61589643 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
61589660 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
61589678 TTC
1 TTC
61589681 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:61617991 original size:18 final size:17
Alignment explanation
Indices: 61617965--61617998 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61617955 TTTAAAATTT
61617965 GTAAATAAAAAGTTATAA
1 GTAAAT-AAAAGTTATAA
*
61617983 GTAATTAAAAGTTATA
1 GTAAATAAAAGTTATA
61617999 TCACTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
GTAAATAAAAGTTATAA
Found at i:61622057 original size:31 final size:30
Alignment explanation
Indices: 61622000--61622057 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
61621990 TAGCAAAATT
* *
61622000 AACAATAAAACAAAAGTTATATAATATTCA
1 AACAATAAAACAAAAGTGATACAATATTCA
61622030 AACAATAACAACAAAA-TGATAGCAATAT
1 AACAATAA-AACAAAAGTGATA-CAATAT
61622058 AATAGCGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.22
Consensus pattern (30 bp):
AACAATAAAACAAAAGTGATACAATATTCA
Found at i:61631250 original size:25 final size:25
Alignment explanation
Indices: 61631198--61631251 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
61631188 AAATATTTTC
* ** *
61631198 TAAAATTAAATATTTTAATTAATGA
1 TAAAATTAAAAATAATAATTAATAA
*
61631223 TAAAATTAAAAATAATAATTACTAA
1 TAAAATTAAAAATAATAATTAATAA
61631248 TAAA
1 TAAA
61631252 TGTAATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
TAAAATTAAAAATAATAATTAATAA
Found at i:61633289 original size:17 final size:16
Alignment explanation
Indices: 61633235--61633296 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
61633225 TAAATTTACC
* *
61633235 AAATATTAATCCATTT
1 AAATTTTAATACATTT
*
61633251 AAATTTATAATAAATCTT
1 AAATTT-TAATACAT-TT
61633269 AAATTTTAATACATTT
1 AAATTTTAATACATTT
*
61633285 CAAATTATAATA
1 -AAATTTTAATA
61633297 TGGGTTTTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
16 7 0.18
17 23 0.61
18 8 0.21
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTTTAATACATTT
Found at i:61634294 original size:56 final size:54
Alignment explanation
Indices: 61634227--61634335 Score: 200
Period size: 56 Copynumber: 2.0 Consensus size: 54
61634217 TTTTGGAAGA
61634227 TAGCTAAGCTTACTTGTCTCTTTGTCTTAATATACATGTAATAGAAAGGAGATTAT
1 TAGCTAAGCTTACTTGTCTCTTTGTCTTAATAT--ATGTAATAGAAAGGAGATTAT
61634283 TAGCTAAGCTTACTTGTCTCTTTGTCTTAATATATGTAATAGAAAGGAGATTA
1 TAGCTAAGCTTACTTGTCTCTTTGTCTTAATATATGTAATAGAAAGGAGATTA
61634336 GTTAATACAA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
54 20 0.38
56 33 0.62
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (54 bp):
TAGCTAAGCTTACTTGTCTCTTTGTCTTAATATATGTAATAGAAAGGAGATTAT
Found at i:61644014 original size:83 final size:81
Alignment explanation
Indices: 61643871--61644047 Score: 246
Period size: 83 Copynumber: 2.2 Consensus size: 81
61643861 CCTTGGCCTA
* ** * * *
61643871 CAAAAATAAAAATTTGTTATTTCAGTCCCCTCATAAATAATAAAATTGTAAATTAATATATGGTG
1 CAAAAATAAAAAATTACTATTTCAGACCCCTCATAAATAATAAAATTATAAATTAATATATAGTG
61643936 AAATTGCACTTTGACC
66 AAATTGCACTTTGACC
* * *
61643952 ATCAAAAATAAAAAATTACTATTTTAGACCCCTCATAAATAATGAAATTATAAATTACTATATAG
1 --CAAAAATAAAAAATTACTATTTCAGACCCCTCATAAATAATAAAATTATAAATTAATATATAG
61644017 TGAAATTGCACTTTGACC
64 TGAAATTGCACTTTGACC
*
61644035 CTAAAATAAAAAA
1 CAAAAATAAAAAA
61644048 ATCTTTTTAG
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 12 0.14
83 72 0.86
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (81 bp):
CAAAAATAAAAAATTACTATTTCAGACCCCTCATAAATAATAAAATTATAAATTAATATATAGTG
AAATTGCACTTTGACC
Found at i:61646570 original size:29 final size:30
Alignment explanation
Indices: 61646507--61646572 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
61646497 TACACTACTA
61646507 GTCACCCAATTATCAGCAAATTTCTTTTTTG
1 GTCACCCAATTAT-AGCAAATTTCTTTTTTG
*
61646538 GTCACCCAATTAT-TC-AATTGTCTTTTTTG
1 GTCACCCAATTATAGCAAATT-TCTTTTTTG
61646567 GTCACC
1 GTCACC
61646573 AAAGGGCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
28 4 0.12
29 16 0.48
31 13 0.39
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (30 bp):
GTCACCCAATTATAGCAAATTTCTTTTTTG
Found at i:61654010 original size:30 final size:30
Alignment explanation
Indices: 61653976--61654034 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
61653966 AAAGACGAAT
*
61653976 TCCACACAGGCTGAG-CACACGCCCGTGTGA
1 TCCACACAGGCTG-GCCACACGCCCATGTGA
61654006 TCCACACAGGCTGGCCACACGCCCATGTG
1 TCCACACAGGCTGGCCACACGCCCATGTG
61654035 GCATCCCGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.22, C:0.39, G:0.25, T:0.14
Consensus pattern (30 bp):
TCCACACAGGCTGGCCACACGCCCATGTGA
Found at i:61678634 original size:171 final size:171
Alignment explanation
Indices: 61678348--61678687 Score: 617
Period size: 171 Copynumber: 2.0 Consensus size: 171
61678338 AAGTTGGTTT
61678348 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
1 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
* * * *
61678413 ATGAAAGAGAAAAAACGTAAAAGATCAAAGATGATGCCAAGGTTTTGCTGGCCAAAGGGAGAATG
66 ATAAAAGAGAAAAAACGTAAAAGATCAAAGATGACGCCAAGGTATTGCTGGCCAAAGGAAGAATG
61678478 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAACTA
131 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAACTA
*
61678519 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTGAGCTACTTCATATGAGCCAATTCAAAG
1 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
* *
61678584 ATAAAAGAGAAAAAACGTAAAAGATCAGAGATGACGCCAGGGTATTGCTGGCCAAAGGAAGAATG
66 ATAAAAGAGAAAAAACGTAAAAGATCAAAGATGACGCCAAGGTATTGCTGGCCAAAGGAAGAATG
61678649 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAAC
131 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAAC
61678688 CATGAATTAA
Statistics
Matches: 162, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
171 162 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (171 bp):
AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
ATAAAAGAGAAAAAACGTAAAAGATCAAAGATGACGCCAAGGTATTGCTGGCCAAAGGAAGAATG
TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAACTA
Found at i:61689725 original size:196 final size:196
Alignment explanation
Indices: 61689384--61689736 Score: 413
Period size: 196 Copynumber: 1.8 Consensus size: 196
61689374 AAATCGAATC
*
61689384 ACACAAAATGTTTTAATTTTTCTCTTCTTTAACATAATTTGTCATAAACTCTTACTAATCAATTT
1 ACACAAAATGTTATAATTTTTCTCTTCTTTAACATAATTTGTCATAAACTCTTACTAATCAATTT
* * *** * * * ** * *
61689449 GACCTTTAATTCATTTGCTTACAAATCGGGGTCTACCCCAATGGTTAAGGGTGTTTATTACCCCA
66 AACCTTTAATTCATTTACTTACAAATCGAACTCTACCCCAATAGTCAAAGGCATTCACTACCCCA
** * *
61689514 GGTGTAGTCTGAGTTCAAGTCACACTAGTCGCATTGGTTATTCAGGCTTTGCCCTATTATTGCAA
131 AATATACTCTGAGTTCAAGTCACACTAGTCGCATTGGTTATTCAGGCTTTGCCCTATTATTGCAA
61689579 A
196 A
* * * *
61689580 ACACAAAATGTTATAATTTTTCTCTTCTTTTACATATTTTTTCTTAAACTCTTACTAATCAATTT
1 ACACAAAATGTTATAATTTTTCTCTTCTTTAACATAATTTGTCATAAACTCTTACTAATCAATTT
* * * * * *
61689645 AACCTTTAATTTATTTACTTACAAGAT-TAACTTTACCTCGATAGTCAAAGGCATTCACTGCCCC
66 AACCTTTAATTCATTTACTTACAA-ATCGAACTCTACCCCAATAGTCAAAGGCATTCACTACCCC
* *
61689709 AAATATGACT-TGAGTTCGAGTCGCACTA
130 AAATAT-ACTCTGAGTTCAAGTCACACTA
61689737 AACTTAGTTG
Statistics
Matches: 126, Mismatches: 29, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
196 122 0.97
197 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (196 bp):
ACACAAAATGTTATAATTTTTCTCTTCTTTAACATAATTTGTCATAAACTCTTACTAATCAATTT
AACCTTTAATTCATTTACTTACAAATCGAACTCTACCCCAATAGTCAAAGGCATTCACTACCCCA
AATATACTCTGAGTTCAAGTCACACTAGTCGCATTGGTTATTCAGGCTTTGCCCTATTATTGCAA
A
Found at i:61689886 original size:35 final size:35
Alignment explanation
Indices: 61689836--61689911 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
61689826 AACTCTTACC
61689836 TTTA-ATTTATTTGCTTACGAATCAGATTATAACA
1 TTTACATTTATTTGCTTACGAATCAGATTATAACA
61689870 TTTACATTTATTTGCTTACGAATCAGATTATAACA
1 TTTACATTTATTTGCTTACGAATCAGATTATAACA
61689905 TTTACAT
1 TTTACAT
61689912 AAAAGAGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 4 0.10
35 37 0.90
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (35 bp):
TTTACATTTATTTGCTTACGAATCAGATTATAACA
Found at i:61696820 original size:19 final size:21
Alignment explanation
Indices: 61696798--61696843 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
61696788 AAAATATAAA
*
61696798 AAAATTCTTAAT-T-TTTTTG
1 AAAATTCGTAATCTATTTTTG
*
61696817 AAAATTCGTAATCTATTTTTT
1 AAAATTCGTAATCTATTTTTG
61696838 AAAATT
1 AAAATT
61696844 ATATAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 1 0.04
21 11 0.48
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (21 bp):
AAAATTCGTAATCTATTTTTG
Found at i:61696873 original size:21 final size:21
Alignment explanation
Indices: 61696809--61696873 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 21
61696799 AAATTCTTAA
* *
61696809 TTTTTTTGAAAATTCGTAATCT
1 TTTTTTTG-AAATTTGTAATAT
* * *
61696831 ATTTTTTAAAATTATATAAATAT
1 TTTTTTTGAAATT-TGT-AATAT
61696854 TTTTTTTGAAATTTGTAATA
1 TTTTTTTGAAATTTGTAATA
61696874 ATATGAAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
21 9 0.27
22 9 0.27
23 15 0.45
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (21 bp):
TTTTTTTGAAATTTGTAATAT
Found at i:61704140 original size:22 final size:22
Alignment explanation
Indices: 61704114--61704157 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
61704104 TAAACATTTA
*
61704114 TTTA-TTTTAGTAGAAAACTTAC
1 TTTATTTTTAG-AAAAAACTTAC
61704136 TTTATTTTTAGAAAAAACTTAC
1 TTTATTTTTAGAAAAAACTTAC
61704158 GAGTTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (22 bp):
TTTATTTTTAGAAAAAACTTAC
Found at i:61704215 original size:52 final size:53
Alignment explanation
Indices: 61704136--61704239 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 53
61704126 GAAAACTTAC
61704136 TTTATTTTTAGAAAAAACTTACGAGTTATCAAAACCGACTTAGATTAACTAAG
1 TTTATTTTTAGAAAAAACTTACGAGTTATCAAAACCGACTTAGATTAACTAAG
61704189 TTTATTTTTAG-AAAAACTTACGAGTTATCAAAACCGACTTAGATTAACTAA
1 TTTATTTTTAGAAAAAACTTACGAGTTATCAAAACCGACTTAGATTAACTAA
61704240 CCTATGTAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 40 0.78
53 11 0.22
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (53 bp):
TTTATTTTTAGAAAAAACTTACGAGTTATCAAAACCGACTTAGATTAACTAAG
Found at i:61708182 original size:30 final size:30
Alignment explanation
Indices: 61708148--61708207 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
61708138 TATTTTATTA
61708148 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* * *
61708178 TTAATTTTTTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
61708208 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:61710674 original size:23 final size:21
Alignment explanation
Indices: 61710627--61710762 Score: 83
Period size: 23 Copynumber: 5.9 Consensus size: 21
61710617 GATATGTTGA
*
61710627 AGGGTATATTGGTTGTGTTTTG
1 AGGGTATATTGGTTGTG-TTAG
61710649 AGGGTATACTTGGTTGTGTTAGG
1 AGGGTATA-TTGGTTGTGTTA-G
* *
61710672 AGGTTATATGCATGGTTATGATTAG
1 AGGGTATAT---TGGTTGTG-TTAG
* ** *
61710697 AGGGTAGATTTGGTTGCATTCGG
1 AGGGTATA-TTGGTTGTGTT-AG
*
61710720 AGGGTACATATGGTTGTGTTTAG
1 AGGGTATAT-TGGTTGTG-TTAG
*
61710743 AGGCTATGATTGGTTGTGTT
1 AGGGTAT-ATTGGTTGTGTT
61710763 TGGTGGGTGA
Statistics
Matches: 88, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
22 16 0.18
23 50 0.57
24 4 0.05
25 14 0.16
26 4 0.05
ACGTcount: A:0.19, C:0.04, G:0.35, T:0.41
Consensus pattern (21 bp):
AGGGTATATTGGTTGTGTTAG
Found at i:61713152 original size:40 final size:40
Alignment explanation
Indices: 61713097--61713317 Score: 406
Period size: 40 Copynumber: 5.5 Consensus size: 40
61713087 TTGGCTCGGA
*
61713097 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
*
61713137 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
61713177 TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
61713217 TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
*
61713257 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
*
61713297 TATAATAACCCGCACGAATGC
1 TATAATAACCAGCACGAATGC
61713318 TATGCACATA
Statistics
Matches: 177, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
Found at i:61719960 original size:29 final size:29
Alignment explanation
Indices: 61719928--61719995 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
61719918 TTTAAATTAG
*
61719928 TCCTCAAACTTTAAAATATTCTAATTACA
1 TCCTCAAACTTTAAAACATTCTAATTACA
61719957 TCCTCAAACTTTAAAACATTCTAATTACA
1 TCCTCAAACTTTAAAACATTCTAATTACA
61719986 TCCTCAAACT
1 TCCTCAAACT
61719996 ATCAATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (29 bp):
TCCTCAAACTTTAAAACATTCTAATTACA
Found at i:61720235 original size:56 final size:56
Alignment explanation
Indices: 61720169--61720282 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
61720159 AGTTTTTTTT
61720169 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
1 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
*
61720225 ATAGAAATTATCGTTTACTCTCTCTTTTTTTATTTTTACTTATTTTTGGTTTTAAA
1 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
61720281 AT
1 AT
61720283 TTAAAAGTTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.58
Consensus pattern (56 bp):
ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
Found at i:61720386 original size:21 final size:20
Alignment explanation
Indices: 61720372--61720410 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
61720362 TTTAATGATT
61720372 AAATTAATGATTTTAATTTAA
1 AAATTAATGATTTTAATTT-A
*
61720393 AAATTAATGGTTTTAATT
1 AAATTAATGATTTTAATT
61720411 ATGGAAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (20 bp):
AAATTAATGATTTTAATTTA
Found at i:61727829 original size:3 final size:3
Alignment explanation
Indices: 61727823--61727854 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
61727813 ATTATTGAGT
*
61727823 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
61727855 GCATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:61727869 original size:9 final size:10
Alignment explanation
Indices: 61727807--61727868 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 10
61727797 TCCTATCATT
61727807 TTATTTATTA
1 TTATTTATTA
61727817 TTGAGTTTATTA
1 TT-A-TTTATTA
61727829 TTA-TTATTA
1 TTATTTATTA
61727838 TTATTATCATTA
1 TTATT-T-ATTA
*
61727850 TTATTGCATT-
1 TTATT-TATTA
61727860 TTATTTATT
1 TTATTTATT
61727869 TATTTGTACC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
9 12 0.27
10 8 0.18
11 6 0.14
12 18 0.41
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (10 bp):
TTATTTATTA
Found at i:61736351 original size:40 final size:40
Alignment explanation
Indices: 61736236--61736452 Score: 312
Period size: 40 Copynumber: 5.2 Consensus size: 40
61736226 ATAAAACAGC
61736236 CACGAATGCCTTCGGGAACTTAACCCCGGTTATAATAACCCG
1 CACGAATGCCTTCGGG-ACTTAA-CCCGGTTATAATAACCCG
*
61736278 CACGAATGGCCTTCGGGGGACCTTGAACCCGGTTATAATAACCAG
1 CACGAAT-GCCTTC--GGGA-CTT-AACCCGGTTATAATAACCCG
*
61736323 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAG
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
61736363 CACGAATGCCTTCGGGACTTAACCCGGTTATAAATAAACCCG
1 CACGAATGCCTTCGGGACTTAACCCGGTTAT-AAT-AACCCG
61736405 CACG-ATGCCTTCGGGACTTAACCCCGGTTATAATAACCCG
1 CACGAATGCCTTCGGGACTTAA-CCCGGTTATAATAACCCG
61736445 -ACGAATGC
1 CACGAATGC
61736453 TATGCACAAT
Statistics
Matches: 164, Mismatches: 2, Indels: 20
0.88 0.01 0.11
Matches are distributed among these distances:
39 3 0.02
40 61 0.37
41 26 0.16
42 29 0.18
43 6 0.04
44 7 0.04
45 30 0.18
46 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (40 bp):
CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
Found at i:61736428 original size:81 final size:84
Alignment explanation
Indices: 61736236--61736452 Score: 329
Period size: 81 Copynumber: 2.6 Consensus size: 84
61736226 ATAAAACAGC
61736236 CACGAATGCCTTCGGGAACTTAACCCCGGTTATAATAACCCGCACGAATGGCCTTCGGGGGACCT
1 CACGAATGCCTTCGGG-ACTTAACCCCGGTTATAATAACCCGCACGAAT-GCCTTC-GGGGACCT
61736301 TGAACCCGGTTATAATAACCAG
63 TGAACCCGGTTATAATAACCAG
*
61736323 CACGAATGCCTTCGGGACTTAA-CCCGGTTATAATAACCAGCACGAATGCCTTC-GGGA-CTT-A
1 CACGAATGCCTTCGGGACTTAACCCCGGTTATAATAACCCGCACGAATGCCTTCGGGGACCTTGA
*
61736384 ACCCGGTTATAAATAAACCCG
66 ACCCGGTTAT-AAT-AACCAG
61736405 CACG-ATGCCTTCGGGACTTAACCCCGGTTATAATAACCCG-ACGAATGC
1 CACGAATGCCTTCGGGACTTAACCCCGGTTATAATAACCCGCACGAATGC
61736453 TATGCACAAT
Statistics
Matches: 124, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
80 11 0.09
81 31 0.25
82 30 0.24
84 6 0.05
85 24 0.19
86 6 0.05
87 16 0.13
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (84 bp):
CACGAATGCCTTCGGGACTTAACCCCGGTTATAATAACCCGCACGAATGCCTTCGGGGACCTTGA
ACCCGGTTATAATAACCAG
Found at i:61743050 original size:27 final size:28
Alignment explanation
Indices: 61743020--61743091 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
61743010 ATTTATTTTA
* *
61743020 AATTAGTCCTCAAACTTT-AAATATTCT
1 AATTAATCCTCAAACTTTAAAACATTCT
61743047 AATTACA-CCTCAAACTTTAAAACATTCT
1 AATTA-ATCCTCAAACTTTAAAACATTCT
61743075 AATTACATCCTCAAACT
1 AATTA-ATCCTCAAACT
61743092 ATCAATGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 16 0.40
28 15 0.38
29 9 0.22
ACGTcount: A:0.40, C:0.24, G:0.01, T:0.35
Consensus pattern (28 bp):
AATTAATCCTCAAACTTTAAAACATTCT
Found at i:61743489 original size:20 final size:20
Alignment explanation
Indices: 61743466--61743503 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
61743456 TTTAATGATT
61743466 AAATTAATGATTTTAATTTA
1 AAATTAATGATTTTAATTTA
*
61743486 AAATTAATGGTTTTAATT
1 AAATTAATGATTTTAATT
61743504 ATGGAAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (20 bp):
AAATTAATGATTTTAATTTA
Found at i:61749099 original size:84 final size:85
Alignment explanation
Indices: 61748955--61749121 Score: 275
Period size: 84 Copynumber: 2.0 Consensus size: 85
61748945 GATGAGAGCG
* *
61748955 TTATTCTACTTAAATAAATGATACAGATAGGTCATAATTCAAAACTGATAACATTGATTAGTCCA
1 TTATTCTACTTAAATAAATGATACAGATAAGTCATAATTCAAAACTGATAACATTGATTAGTCAA
61749020 ACCTTTGACTGTTGAGATCT
66 ACCTTTGACTGTTGAGATCT
* *
61749040 TTATTCTACTT-AATAAATGATACAGATAAGTCCTAATTC-AAACTGATAACTTTGAATTAGTCA
1 TTATTCTACTTAAATAAATGATACAGATAAGTCATAATTCAAAACTGATAACATTG-ATTAGTCA
61749103 AACCTTTGACTGTTGAGAT
65 AACCTTTGACTGTTGAGAT
61749122 TGGAGGATCT
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
83 14 0.18
84 52 0.68
85 11 0.14
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.36
Consensus pattern (85 bp):
TTATTCTACTTAAATAAATGATACAGATAAGTCATAATTCAAAACTGATAACATTGATTAGTCAA
ACCTTTGACTGTTGAGATCT
Found at i:61749644 original size:89 final size:89
Alignment explanation
Indices: 61749485--61749659 Score: 194
Period size: 89 Copynumber: 2.0 Consensus size: 89
61749475 TGTTGTCTTT
* * * * ** *
61749485 TTTTTTTTCACTCATTTGGATACTTGAATTTTCAAAAAATGCATCAAAAGGCCCTGGACCTTT-A
1 TTTTTTTTCACTCAATTGGATACTTAAACTTTCAAAAAATGCATCAAAAGACCCTCAAACTTTAA
61749549 AAAAAAAA-GCAAATTAAGCCCTAC
66 AAAAAAAAGGC-AATTAAGCCCTAC
* *
61749573 TTTTTTTTCTACTCAATTGGGTACTTAAACTTTC-AAAAATGCATCAAAAAGATCCTCAAACTTT
1 TTTTTTTTC-ACTCAATTGGATACTTAAACTTTCAAAAAATGCATC-AAAAGACCCTCAAACTTT
***
61749637 TTCAAAAAAAGGCAATTAAGCCC
64 AAAAAAAAAAGGCAATTAAGCCC
61749660 ATGCTTTTAT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
88 20 0.28
89 33 0.46
90 17 0.24
91 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (89 bp):
TTTTTTTTCACTCAATTGGATACTTAAACTTTCAAAAAATGCATCAAAAGACCCTCAAACTTTAA
AAAAAAAAGGCAATTAAGCCCTAC
Found at i:61749782 original size:18 final size:18
Alignment explanation
Indices: 61749759--61749818 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
61749749 AAAATTTTAT
61749759 TAAAAA-TGAGAAAAAATA
1 TAAAAATTGA-AAAAAATA
*
61749777 TAAAAATTGTAAAAAATA
1 TAAAAATTGAAAAAAATA
61749795 TAAAAATTGTAAAAAAATA
1 TAAAAATTG-AAAAAAATA
61749814 TAAAA
1 TAAAA
61749819 TATATAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 23 0.61
19 15 0.39
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
TAAAAATTGAAAAAAATA
Found at i:61749819 original size:18 final size:18
Alignment explanation
Indices: 61749769--61749818 Score: 91
Period size: 18 Copynumber: 2.7 Consensus size: 18
61749759 TAAAAATGAG
61749769 AAAAAATATAAAAATTGT
1 AAAAAATATAAAAATTGT
61749787 AAAAAATATAAAAATTGT
1 AAAAAATATAAAAATTGT
61749805 AAAAAAATATAAAA
1 -AAAAAATATAAAA
61749819 TATATAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 18 0.58
19 13 0.42
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (18 bp):
AAAAAATATAAAAATTGT
Found at i:61749839 original size:10 final size:10
Alignment explanation
Indices: 61749769--61749839 Score: 62
Period size: 9 Copynumber: 7.6 Consensus size: 10
61749759 TAAAAATGAG
61749769 AAAAA-ATAT
1 AAAAATATAT
*
61749778 AAAAAT-TGT
1 AAAAATATAT
61749787 AAAAA-ATAT
1 AAAAATATAT
*
61749796 AAAAAT-TGT
1 AAAAATATAT
*
61749805 AAAAAAATAT
1 AAAAATATAT
61749815 -AAAATATAT
1 AAAAATATAT
* *
61749824 AGAAATATTT
1 AAAAATATAT
61749834 AAAAAT
1 AAAAAT
61749840 CATAATTTGT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
9 34 0.71
10 14 0.29
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (10 bp):
AAAAATATAT
Found at i:61750176 original size:56 final size:55
Alignment explanation
Indices: 61750098--61750203 Score: 126
Period size: 56 Copynumber: 1.9 Consensus size: 55
61750088 TTTTGATGCA
* *
61750098 TTTATAATTTTTGTTATGATTTTT-ATAGAAGTTTACAATTTTTATTTTTTACGATT
1 TTTATAATTTTTGTTATAATTTTTAATA-AAGTTTA-AATTTTTATATTTTACGATT
* * *
61750154 TTTATAAATTTTT-TTCTAATTTTTAATAAATTTTAACTTTTTATATTTTA
1 TTTAT-AATTTTTGTTATAATTTTTAATAAAGTTTAAATTTTTATATTTTA
61750204 TTAAATTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
55 13 0.30
56 20 0.47
57 10 0.23
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (55 bp):
TTTATAATTTTTGTTATAATTTTTAATAAAGTTTAAATTTTTATATTTTACGATT
Found at i:61750214 original size:16 final size:16
Alignment explanation
Indices: 61750193--61750237 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
61750183 ATTTTAACTT
61750193 TTTATATTTTATTAAA
1 TTTATATTTTATTAAA
*
61750209 TTTATAATTTTACTAAA
1 TTTAT-ATTTTATTAAA
*
61750226 TTTATTTTTTAT
1 TTTATATTTTAT
61750238 AATTTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATATTTTATTAAA
Found at i:61754270 original size:20 final size:20
Alignment explanation
Indices: 61754242--61754279 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61754232 TTTTTATGAA
*
61754242 ATAATATTAAAAAAATTTCT
1 ATAACATTAAAAAAATTTCT
*
61754262 ATAACATTAAAGAAATTT
1 ATAACATTAAAAAAATTT
61754280 ATTAAATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
ATAACATTAAAAAAATTTCT
Found at i:61757338 original size:89 final size:89
Alignment explanation
Indices: 61757225--61757400 Score: 268
Period size: 89 Copynumber: 2.0 Consensus size: 89
61757215 GATGAGAGCG
*
61757225 TTATTCTACTGGAATAAATGATACAGAT-AGGTTCATAATTC-AAAACTGATAACATTGAATTAG
1 TTATTCTACTGGAATAAATGATACAGATAAAG-TC-TAATTCAAAAACTGATAACATTGAATTAG
*
61757288 TCCACACCTTTGACTTGTTGAGATTCT
64 TCCAAACCTTTGAC-TGTTGAGATTCT
* *
61757315 TTATTCTACT-TAATAAATGATACAGATAAAGTCTAATTCAAAAACTGATAACTTTGAATTAGTC
1 TTATTCTACTGGAATAAATGATACAGATAAAGTCTAATTCAAAAACTGATAACATTGAATTAGTC
61757379 CAAACCTTTGACTGTTGAGATT
66 CAAACCTTTGACTGTTGAGATT
61757401 GGAGGATCTA
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
88 16 0.20
89 52 0.65
90 12 0.15
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (89 bp):
TTATTCTACTGGAATAAATGATACAGATAAAGTCTAATTCAAAAACTGATAACATTGAATTAGTC
CAAACCTTTGACTGTTGAGATTCT
Found at i:61758103 original size:19 final size:18
Alignment explanation
Indices: 61758058--61758099 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
61758048 TAAATTTGAG
61758058 AAAAAATATAAAAATTGT
1 AAAAAATATAAAAATTGT
61758076 AAAAAATATAAAAATTGT
1 AAAAAATATAAAAATTGT
61758094 AAAAAA
1 AAAAAA
61758100 ATATTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAAAATATAAAAATTGT
Found at i:61758131 original size:10 final size:10
Alignment explanation
Indices: 61758058--61758131 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 10
61758048 TAAATTTGAG
61758058 AAAAA-ATAT
1 AAAAATATAT
*
61758067 AAAAAT-TGT
1 AAAAATATAT
61758076 AAAAA-ATAT
1 AAAAATATAT
*
61758085 AAAAAT-TGT
1 AAAAATATAT
*
61758094 AAAAAAATATT
1 AAAAATATA-T
61758105 ACAAAATATAT
1 A-AAAATATAT
* *
61758116 AGAAATATTT
1 AAAAATATAT
61758126 AAAAAT
1 AAAAAT
61758132 CATAATTTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
9 26 0.52
10 13 0.26
11 4 0.08
12 7 0.14
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (10 bp):
AAAAATATAT
Found at i:61759515 original size:29 final size:29
Alignment explanation
Indices: 61759472--61759540 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 29
61759462 TTTAAATTAG
* *
61759472 TCCTCAAACTTTAAAATATTCTAATTACA
1 TCCTCAAACTTAAAAACATTCTAATTACA
61759501 TCTCTCAAACTTAAAAACATTCTAATTACA
1 TC-CTCAAACTTAAAAACATTCTAATTACA
61759531 TCCTCAAACT
1 TCCTCAAACT
61759541 ATCAATGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 10 0.27
30 27 0.73
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.35
Consensus pattern (29 bp):
TCCTCAAACTTAAAAACATTCTAATTACA
Found at i:61759766 original size:56 final size:55
Alignment explanation
Indices: 61759714--61759825 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 55
61759704 AAGTTTTTTT
61759714 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
1 ATAGAAATTATCGTTTACTCTCTCTTTTTT-ATTTTTACTTATTTTTGGTTTTAAA
*
61759770 ATAGAAATTATCGTTTACTCTCTCTTTTTTATTTTTACTTATTTTTTG-TTTAAA
1 ATAGAAATTATCGTTTACTCTCTCTTTTTTATTTTTACTTATTTTTGGTTTTAAA
61759824 AT
1 AT
61759826 TTAAAAGTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
54 8 0.15
55 17 0.31
56 30 0.55
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.58
Consensus pattern (55 bp):
ATAGAAATTATCGTTTACTCTCTCTTTTTTATTTTTACTTATTTTTGGTTTTAAA
Found at i:61759937 original size:20 final size:20
Alignment explanation
Indices: 61759914--61759951 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
61759904 TTTAATGATT
61759914 AAATTAATGATTTTAATTTA
1 AAATTAATGATTTTAATTTA
*
61759934 AAATTAATGGTTTTAATT
1 AAATTAATGATTTTAATT
61759952 ATGGAAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (20 bp):
AAATTAATGATTTTAATTTA
Found at i:61767616 original size:20 final size:20
Alignment explanation
Indices: 61767593--61767635 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
61767583 TTATTATTCA
*
61767593 TTTATTGAA-GCGTAGTTATT
1 TTTATGGAATGCGTAG-TATT
*
61767613 TTTATGGAATGCTTAGTATT
1 TTTATGGAATGCGTAGTATT
61767633 TTT
1 TTT
61767636 TTAGATTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.23, C:0.05, G:0.19, T:0.53
Consensus pattern (20 bp):
TTTATGGAATGCGTAGTATT
Found at i:61782113 original size:29 final size:29
Alignment explanation
Indices: 61782081--61782148 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
61782071 TTTAAATTAG
*
61782081 TCCTCAAACTTTAAAATATTCTAATTACA
1 TCCTCAAACTTTAAAACATTCTAATTACA
61782110 TCCTCAAACTTTAAAACATTCTAATTACA
1 TCCTCAAACTTTAAAACATTCTAATTACA
61782139 TCCTCAAACT
1 TCCTCAAACT
61782149 ATCAATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (29 bp):
TCCTCAAACTTTAAAACATTCTAATTACA
Found at i:61782389 original size:56 final size:54
Alignment explanation
Indices: 61782323--61782434 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 54
61782313 GTTTTTTTTT
61782323 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
1 ATAGAAATTATCGTTTACTCTCTCTTTTTTCA-TTTTACTTATTTTT-GTTTTAAA
*
61782379 ATAGAAATTATCGTTTACTCTCTCTTTTTTTATTTTACTTATTTTTGTTTTAAA
1 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTACTTATTTTTGTTTTAAA
61782433 AT
1 AT
61782435 TTAAAAGTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
54 10 0.18
55 14 0.25
56 31 0.56
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.58
Consensus pattern (54 bp):
ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTACTTATTTTTGTTTTAAA
Found at i:61782537 original size:21 final size:20
Alignment explanation
Indices: 61782523--61782561 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
61782513 TTTAATGATT
61782523 AAATTAATGATTTTAATTTAA
1 AAATTAATGATTTTAATTT-A
*
61782544 AAATTAATGGTTTTAATT
1 AAATTAATGATTTTAATT
61782562 ATGGAAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (20 bp):
AAATTAATGATTTTAATTTA
Found at i:61786299 original size:27 final size:26
Alignment explanation
Indices: 61786260--61786310 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
61786250 TACAAAGACT
61786260 TATGACATATTTTAATCTAGTATAAAAA
1 TATGACATATTTTAAT-TA-TATAAAAA
61786288 TATGA-ATATTTTAATTATATAAA
1 TATGACATATTTTAATTATATAAA
61786311 TGTGAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 2 0.09
27 10 0.43
28 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
TATGACATATTTTAATTATATAAAAA
Found at i:61788203 original size:85 final size:85
Alignment explanation
Indices: 61788063--61788230 Score: 309
Period size: 85 Copynumber: 2.0 Consensus size: 85
61788053 GATGAGAGCG
*
61788063 TTATTCTACTTAATAAATGATACAGATAGGTCATAATTCAAACTGATAACATTGAATTAGTCCAA
1 TTATTCTACTTAATAAATGATACAGATAAGTCATAATTCAAACTGATAACATTGAATTAGTCCAA
61788128 ACCTTTGACTGTTGAGATCT
66 ACCTTTGACTGTTGAGATCT
* *
61788148 TTATTCTACTTAATAAATGATACAGATAAGTCCTAATTCAAACTGATAACTTTGAATTAGTCCAA
1 TTATTCTACTTAATAAATGATACAGATAAGTCATAATTCAAACTGATAACATTGAATTAGTCCAA
61788213 ACCTTTGACTGTTGAGAT
66 ACCTTTGACTGTTGAGAT
61788231 TGGAGGATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (85 bp):
TTATTCTACTTAATAAATGATACAGATAAGTCATAATTCAAACTGATAACATTGAATTAGTCCAA
ACCTTTGACTGTTGAGATCT
Found at i:61788672 original size:91 final size:89
Alignment explanation
Indices: 61788595--61788767 Score: 240
Period size: 89 Copynumber: 2.0 Consensus size: 89
61788585 CTGTTGTCTT
* * * * **
61788595 TTTTTTTTC-ACTCATTTGGATACTTGAATTTTCAAAATGCATCAAAAAGGCCCTGGAACCTTTA
1 TTTTTTTTCTACTCAATTGGATACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAACCTTTA
61788659 AAAAAAAAGCAATTAAGCCCCTAC
66 AAAAAAAAGCAATTAAGCCCCTAC
* * * *
61788683 TTTTTTTTCTACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGATCCTCAAACTTTTT
1 TTTTTTTTCTACTCAATTGGATACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAACCTTTA
*
61788748 CAAAAAAAGCAATTAAGCCC
66 AAAAAAAAGCAATTAAGCCC
61788768 ATGCTTTTAT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
88 9 0.12
89 64 0.88
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (89 bp):
TTTTTTTTCTACTCAATTGGATACTTAAACTTTCAAAATGCATCAAAAAGACCCTCAAACCTTTA
AAAAAAAAGCAATTAAGCCCCTAC
Found at i:61788897 original size:19 final size:19
Alignment explanation
Indices: 61788873--61788933 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
61788863 AAATTTTATT
61788873 AAAAA-TGAGAAAAAATATA
1 AAAAATTGA-AAAAAATATA
*
61788892 AAAAATTGTAAAAAATATA
1 AAAAATTGAAAAAAATATA
61788911 AAAAATTGTAAAAAAATATA
1 AAAAATTG-AAAAAAATATA
61788931 AAA
1 AAA
61788934 TATATAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 23 0.61
20 15 0.39
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (19 bp):
AAAAATTGAAAAAAATATA
Found at i:61788932 original size:10 final size:10
Alignment explanation
Indices: 61788882--61788933 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
61788872 TAAAAATGAG
61788882 AAAAAATATA
1 AAAAAATATA
* *
61788892 AAAAATTGT-
1 AAAAAATATA
61788901 AAAAAATATA
1 AAAAAATATA
* *
61788911 AAAAATTGTA
1 AAAAAATATA
61788921 AAAAAATATA
1 AAAAAATATA
61788931 AAA
1 AAA
61788934 TATATAGAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
9 7 0.21
10 26 0.79
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (10 bp):
AAAAAATATA
Found at i:61788954 original size:10 final size:9
Alignment explanation
Indices: 61788882--61788953 Score: 63
Period size: 9 Copynumber: 7.6 Consensus size: 9
61788872 TAAAAATGAG
61788882 AAAAAATAT
1 AAAAAATAT
*
61788891 AAAAAATTGT
1 AAAAAA-TAT
61788901 AAAAAATAT
1 AAAAAATAT
*
61788910 AAAAAATTGT
1 AAAAAA-TAT
61788920 AAAAAAATAT
1 -AAAAAATAT
*
61788930 AAAATATAT
1 AAAAAATAT
* *
61788939 AGAAATATTT
1 A-AAAAATAT
61788949 AAAAA
1 AAAAA
61788954 TCATAATTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
9 26 0.50
10 20 0.38
11 6 0.12
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.26
Consensus pattern (9 bp):
AAAAAATAT
Found at i:61789296 original size:57 final size:56
Alignment explanation
Indices: 61789217--61789323 Score: 128
Period size: 57 Copynumber: 1.9 Consensus size: 56
61789207 TTTTGATGCA
*
61789217 TTTTATAATTTTGTTATGATTTTT-ATAGAAGTTTACAATTTTT-TATTTTTTACGAT
1 TTTTATAATTTTGTTATAATTTTTAATA-AAGTTTA-AATTTTTATATTTTTTACGAT
* * * *
61789273 TTTTATAAATTTTTTTCTAATTTTTAATAAATTTTAACTTTTTATATTTTT
1 TTTTAT-AATTTTGTTATAATTTTTAATAAAGTTTAAATTTTTATATTTTT
61789324 ATTAAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
56 12 0.28
57 28 0.65
58 3 0.07
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.64
Consensus pattern (56 bp):
TTTTATAATTTTGTTATAATTTTTAATAAAGTTTAAATTTTTATATTTTTTACGAT
Found at i:61789334 original size:18 final size:18
Alignment explanation
Indices: 61789313--61789361 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
61789303 ATTTTAACTT
61789313 TTTATATTTTTATTAAAA
1 TTTATATTTTTATTAAAA
* *
61789331 TTTAATAATTTTACTAAAA
1 TTT-ATATTTTTATTAAAA
61789350 TTTAT-TTTTTAT
1 TTTATATTTTTAT
61789362 AATTTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 16 0.62
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATTTTTATTAAAA
Found at i:61790966 original size:8 final size:9
Alignment explanation
Indices: 61790943--61790967 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
61790933 GTTTTTTTTT
61790943 AATTTTTAA
1 AATTTTTAA
61790952 AATTTTTAA
1 AATTTTTAA
61790961 AATTTTT
1 AATTTTT
61790968 TAGAATTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
AATTTTTAA
Found at i:61796927 original size:18 final size:18
Alignment explanation
Indices: 61796906--61796945 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
61796896 ATAATTTTAA
*
61796906 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
61796924 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
61796942 AAAA
1 AAAA
61796946 TAAATAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:61797805 original size:26 final size:26
Alignment explanation
Indices: 61797769--61797827 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
61797759 CTTAAACTAA
61797769 ACTTTTCTAAAGTATTTCTCAAGTTC
1 ACTTTTCTAAAGTATTTCTCAAGTTC
61797795 ACTTTTCTAAAGTATTTCTCAAGTTC
1 ACTTTTCTAAAGTATTTCTCAAGTTC
61797821 ACTTTTC
1 ACTTTTC
61797828 CACAATACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (26 bp):
ACTTTTCTAAAGTATTTCTCAAGTTC
Found at i:61797807 original size:15 final size:15
Alignment explanation
Indices: 61797783--61797827 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
61797773 TTCTAAAGTA
61797783 TTTCTCAAGTTCACT
1 TTTCTCAAGTTCACT
*
61797798 TTTCTAAAG-T-A--
1 TTTCTCAAGTTCACT
61797809 TTTCTCAAGTTCACT
1 TTTCTCAAGTTCACT
61797824 TTTC
1 TTTC
61797828 CACAATACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
11 8 0.33
12 1 0.04
13 2 0.08
14 1 0.04
15 12 0.50
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.49
Consensus pattern (15 bp):
TTTCTCAAGTTCACT
Found at i:61799787 original size:12 final size:12
Alignment explanation
Indices: 61799770--61799796 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61799760 TGTTTAAAAA
61799770 AAAAAAAGAAAG
1 AAAAAAAGAAAG
61799782 AAAAAAAGAAAG
1 AAAAAAAGAAAG
61799794 AAA
1 AAA
61799797 GAGAAATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:61799787 original size:16 final size:16
Alignment explanation
Indices: 61799766--61799798 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
61799756 TTGGTGTTTA
61799766 AAAAAAAAAAAGAAAG
1 AAAAAAAAAAAGAAAG
*
61799782 AAAAAAAGAAAGAAAG
1 AAAAAAAAAAAGAAAG
61799798 A
1 A
61799799 GAAATTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAG
Found at i:61806940 original size:17 final size:18
Alignment explanation
Indices: 61806913--61806958 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
61806903 AAGCCAGTAT
61806913 TATAT-TATTATAAT-TG
1 TATATATATTATAATGTG
* *
61806929 TGTATATATTAT-GTGTG
1 TATATATATTATAATGTG
61806946 TATATATATTATA
1 TATATATATTATA
61806959 TGCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATGTG
Found at i:61812222 original size:27 final size:27
Alignment explanation
Indices: 61812184--61812237 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
61812174 CTTAGATCAT
61812184 TATTTTTAAGGAGGAATTGAATTTTAA
1 TATTTTTAAGGAGGAATTGAATTTTAA
61812211 TATTTTTAAGGAGGAATTGAATTTTAA
1 TATTTTTAAGGAGGAATTGAATTTTAA
61812238 CTCAGTTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (27 bp):
TATTTTTAAGGAGGAATTGAATTTTAA
Found at i:61814639 original size:24 final size:26
Alignment explanation
Indices: 61814622--61814673 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
61814612 TATAATTTAT
61814622 TTATT-TTAAAAA-ACTATACATATA
1 TTATTATTAAAAATACTATACATATA
**
61814646 TTATTATTAAAAATACTATTTATATA
1 TTATTATTAAAAATACTATACATATA
61814672 TT
1 TT
61814674 TATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATTAAAAATACTATACATATA
Found at i:61814753 original size:24 final size:24
Alignment explanation
Indices: 61814721--61814788 Score: 91
Period size: 25 Copynumber: 2.8 Consensus size: 24
61814711 TATATATTTA
*
61814721 TATTATATTTTATTATATAACATT
1 TATTATATTTTATTATATAACACT
**
61814745 TATTATATTTTTATTATATATTACT
1 TATTATA-TTTTATTATATAACACT
*
61814770 TATTATTTTTTATTATATA
1 TATTATATTTTATTATATA
61814789 TTATGTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATATTTTATTATATAACACT
Found at i:61814782 original size:35 final size:34
Alignment explanation
Indices: 61814698--61814852 Score: 91
Period size: 35 Copynumber: 4.4 Consensus size: 34
61814688 ATTTATCATA
* *
61814698 TATTATTTTCCTATATATATTTATATTATATTTTAT
1 TATTATTTT-TTAT-TATATTTATATTATATATTAT
*** *
61814734 TATATAACATTTATTATATTTTTATTATATATTACT
1 TAT-TATTTTTTATTATATTTATATTATATATTA-T
* **
61814770 TATTATTTTTTATTATATATTAT-GTATATCGTA-
1 TATTATTTTTTATTATAT-TTATATTATATATTAT
* * * *
61814803 TATTATCTATTA-TATTATTTATGTTTTATATTAT
1 TATTATTTTTTATTA-TATTTATATTATATATTAT
61814837 TCATTATATTATTTAT
1 T-ATTAT-TT-TTTAT
61814853 AATTTTAAAA
Statistics
Matches: 88, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
32 6 0.07
33 19 0.22
34 1 0.01
35 42 0.48
36 14 0.16
37 6 0.07
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (34 bp):
TATTATTTTTTATTATATTTATATTATATATTAT
Found at i:61814789 original size:24 final size:24
Alignment explanation
Indices: 61814721--61814791 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
61814711 TATATATTTA
* ** *
61814721 TATTATATTTTATTATATAACATT
1 TATTATTTTTTATTATATATTACT
61814745 TATTATATTTTTATTATATATTACT
1 TATTAT-TTTTTATTATATATTACT
61814770 TATTATTTTTTATTATATATTA
1 TATTATTTTTTATTATATATTA
61814792 TGTATATCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 22 0.52
25 20 0.48
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTTTTTATTATATATTACT
Found at i:61814790 original size:7 final size:7
Alignment explanation
Indices: 61814711--61814845 Score: 56
Period size: 7 Copynumber: 19.7 Consensus size: 7
61814701 TATTTTCCTA
61814711 TATATAT
1 TATATAT
61814718 T-TATAT
1 TATATAT
*
61814724 TATATTT
1 TATATAT
61814731 TATTATAT
1 TA-TATAT
* *
61814739 AACAT-T
1 TATATAT
61814745 TATTATAT
1 TA-TATAT
*
61814753 T-TTTAT
1 TATATAT
61814759 TATATAT
1 TATATAT
61814766 TACT-TAT
1 TA-TATAT
61814773 TAT-T-T
1 TATATAT
61814778 T-T-TAT
1 TATATAT
61814783 TATATAT
1 TATATAT
61814790 TATGTATAT
1 TA--TATAT
**
61814799 CGTATAT
1 TATATAT
*
61814806 TATCTAT
1 TATATAT
61814813 TATATTAT
1 TATA-TAT
*
61814821 T-TATGT
1 TATATAT
*
61814827 TTTATAT
1 TATATAT
61814834 TAT-TCAT
1 TATAT-AT
61814841 TATAT
1 TATAT
61814846 TATTTATAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
4 2 0.02
5 4 0.04
6 20 0.21
7 52 0.54
8 13 0.14
9 5 0.05
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (7 bp):
TATATAT
Found at i:61814820 original size:28 final size:28
Alignment explanation
Indices: 61814785--61814853 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
61814775 TTTTTTATTA
*
61814785 TATATTATGTATATCGTATATTA-TCTAT
1 TATATTATTTATATCGTATATTATTC-AT
* **
61814813 TATATTATTTATGTTTTATATTATTCAT
1 TATATTATTTATATCGTATATTATTCAT
61814841 TATATTATTTATA
1 TATATTATTTATA
61814854 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (28 bp):
TATATTATTTATATCGTATATTATTCAT
Found at i:61815004 original size:12 final size:13
Alignment explanation
Indices: 61814973--61815031 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 13
61814963 CTGATATTTT
*
61814973 TTATATTATATAA
1 TTATTTTATATAA
61814986 TTATTTTATA-AA
1 TTATTTTATATAA
* * *
61814998 TTCTTTTACATACTT
1 TTATTTTATATA--A
61815013 TTATTTTATAT-A
1 TTATTTTATATAA
61815025 TTATTTT
1 TTATTTT
61815032 TTTTAAAACC
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
12 17 0.47
13 10 0.28
15 9 0.25
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTTTATATAA
Found at i:61817862 original size:21 final size:20
Alignment explanation
Indices: 61817836--61817890 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
61817826 ATGTATCTAT
*
61817836 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
61817857 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
61817877 -TA-ATATTAATAACA
1 ATATATATTAA-AACA
61817891 ATAATAAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 6 0.20
19 6 0.20
20 7 0.23
21 11 0.37
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:61817985 original size:24 final size:24
Alignment explanation
Indices: 61817909--61817989 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
61817899 GATAATATAA
* * **
61817909 AAAAATACATACATGAAATAGTAT
1 AAAAATATATATATGAAATAAAAT
*
61817933 AAAAA-ATATATAT-AACTAATAAT
1 AAAAATATATATATGAAATAA-AAT
* *
61817956 ATAAATATATATATGAAATAACAT
1 AAAAATATATATATGAAATAAAAT
61817980 AAAAATATAT
1 AAAAATATAT
61817990 GAATAGTATG
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
22 4 0.09
23 12 0.27
24 24 0.53
25 5 0.11
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAATATATATATGAAATAAAAT
Found at i:61818053 original size:18 final size:18
Alignment explanation
Indices: 61818032--61818095 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 18
61818022 TATAATTATT
*
61818032 TAAAAAAACATAATATAC
1 TAAAAAAACATAATATAA
*
61818050 TAAAATATACGAATAATATAA
1 TAAAA-AAAC--ATAATATAA
61818071 TATATAAAAACATAATATAA
1 TA-A-AAAAACATAATATAA
61818091 TAAAA
1 TAAAA
61818096 TATAATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
18 7 0.18
19 4 0.11
20 11 0.29
21 10 0.26
22 4 0.11
23 2 0.05
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAAAAACATAATATAA
Found at i:61818058 original size:44 final size:41
Alignment explanation
Indices: 61818018--61818099 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 41
61818008 AAATATATAC
*
61818018 ATAATATAATTATTTAAAAAAACATAATATACTAAAATATACGA
1 ATAATATAA-TA--TAAAAAAACATAATATAATAAAATATACGA
*
61818062 ATAATATAATATATAAAAACATAATATAATAAAATATA
1 ATAATATAATATAAAAAAACATAATATAATAAAATATA
61818100 ATATTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 25 0.69
43 2 0.06
44 9 0.25
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (41 bp):
ATAATATAATATAAAAAAACATAATATAATAAAATATACGA
Found at i:61818109 original size:15 final size:15
Alignment explanation
Indices: 61818064--61818110 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
61818054 ATATACGAAT
*
61818064 AATATAATATATAAA
1 AATATAATATATTAA
* *
61818079 AACATAATATAATAA
1 AATATAATATATTAA
*
61818094 AATATAATATTTTAA
1 AATATAATATATTAA
61818109 AA
1 AA
61818111 AAAATACCTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (15 bp):
AATATAATATATTAA
Found at i:61818269 original size:12 final size:12
Alignment explanation
Indices: 61818252--61818279 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
61818242 GAAAGTAAAT
61818252 AATATAATAATA
1 AATATAATAATA
61818264 AATATAATAATA
1 AATATAATAATA
61818276 AATA
1 AATA
61818280 CATATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATATAATAATA
Found at i:61818468 original size:24 final size:25
Alignment explanation
Indices: 61818427--61818482 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
61818417 ACATACATAT
*
61818427 ATAATAA-AACATACACTAAG-ATTA
1 ATAATAATAACATACACT-AGCAATA
*
61818451 ATAATAATAACA-ATACTAGCAATA
1 ATAATAATAACATACACTAGCAATA
61818475 ATAATAAT
1 ATAATAAT
61818483 TAGTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 22 0.79
25 4 0.14
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.27
Consensus pattern (25 bp):
ATAATAATAACATACACTAGCAATA
Found at i:61822749 original size:31 final size:30
Alignment explanation
Indices: 61822705--61822797 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 30
61822695 TATTTAAATG
61822705 TATATAAT-TGAACCAAAATCAAAATTTCA
1 TATATAATATGAACCAAAATCAAAATTTCA
* **
61822734 TATATACATATGAACCACAATTC-ATGTTTCA
1 TATATA-ATATGAACCA-AAATCAAAATTTCA
*
61822765 TATAT-ATAATTACACC-AAATCAAAA-TTCA
1 TATATAAT-ATGA-ACCAAAATCAAAATTTCA
61822794 TATA
1 TATA
61822798 GTAAATTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
29 20 0.39
30 6 0.12
31 21 0.41
32 4 0.08
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.33
Consensus pattern (30 bp):
TATATAATATGAACCAAAATCAAAATTTCA
Found at i:61825678 original size:21 final size:20
Alignment explanation
Indices: 61825654--61825693 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
61825644 ATTTAATATA
*
61825654 TGAATTTTGAATTAGTAAATT
1 TGAATTGTGAATTA-TAAATT
*
61825675 TGAATTGTGATTTATAAAT
1 TGAATTGTGAATTATAAAT
61825694 GTGTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (20 bp):
TGAATTGTGAATTATAAATT
Found at i:61828707 original size:20 final size:20
Alignment explanation
Indices: 61828682--61828719 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
61828672 TTTACACATT
61828682 ATTTA-TATATATATATTTAA
1 ATTTATTAT-TATATATTTAA
61828702 ATTTATTATTATATATTT
1 ATTTATTATTATATATTT
61828720 TGGAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTATTATTATATATTTAA
Found at i:61828819 original size:51 final size:51
Alignment explanation
Indices: 61828746--61828845 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
61828736 TTTATTTAAT
* * *
61828746 TTTTTTAAAATTAGGATCAAATTGAGA-ACATTTGTAAATTTTGAGGGCTAA
1 TTTTTTAAAATCAGGATCAAATTGAGATA-ATATGTAAAATTTGAGGGCTAA
* *
61828797 TTTTTTAAAATCATGA-CTAAATTGATATAATATGTAAAATTTGAGGGCT
1 TTTTTTAAAATCAGGATC-AAATTGAGATAATATGTAAAATTTGAGGGCT
61828846 GTATTTGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 1 0.02
51 40 0.95
52 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (51 bp):
TTTTTTAAAATCAGGATCAAATTGAGATAATATGTAAAATTTGAGGGCTAA
Found at i:61829158 original size:13 final size:13
Alignment explanation
Indices: 61829140--61829202 Score: 83
Period size: 13 Copynumber: 4.8 Consensus size: 13
61829130 TTGGTAATGT
61829140 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
61829153 TTTTGAAAAGTG-
1 TTTTGAAAAGTGC
* *
61829165 TTGTGAAAAAGTAC
1 TTTTG-AAAAGTGC
61829179 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
61829192 TTTTTAAAAGT
1 TTTTGAAAAGT
61829203 TTAGTTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
12 4 0.09
13 35 0.81
14 4 0.09
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:61829363 original size:97 final size:97
Alignment explanation
Indices: 61829197--61829388 Score: 384
Period size: 97 Copynumber: 2.0 Consensus size: 97
61829187 AGTGCTTTTT
61829197 AAAAGTTTAGTTTAAAATTTTAATGTTCAGCATTGTTGACAAAAATTGATTTTGAGAAATAAAAT
1 AAAAGTTTAGTTTAAAATTTTAATGTTCAGCATTGTTGACAAAAATTGATTTTGAGAAATAAAAT
61829262 GTCCATTTTAGACATATTATTATCAAGTAATA
66 GTCCATTTTAGACATATTATTATCAAGTAATA
61829294 AAAAGTTTAGTTTAAAATTTTAATGTTCAGCATTGTTGACAAAAATTGATTTTGAGAAATAAAAT
1 AAAAGTTTAGTTTAAAATTTTAATGTTCAGCATTGTTGACAAAAATTGATTTTGAGAAATAAAAT
61829359 GTCCATTTTAGACATATTATTATCAAGTAA
66 GTCCATTTTAGACATATTATTATCAAGTAA
61829389 CAAATATGCA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (97 bp):
AAAAGTTTAGTTTAAAATTTTAATGTTCAGCATTGTTGACAAAAATTGATTTTGAGAAATAAAAT
GTCCATTTTAGACATATTATTATCAAGTAATA
Found at i:61829577 original size:33 final size:34
Alignment explanation
Indices: 61829482--61829578 Score: 87
Period size: 33 Copynumber: 2.9 Consensus size: 34
61829472 TTAATATTTT
*
61829482 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAA-C
* *
61829517 AATAAATATTAATTAT-TTATAAA-ATTTAATTAA-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAC
61829550 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
61829579 ATATAACCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 6 0.12
35 9 0.18
36 3 0.06
37 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (34 bp):
AATATATAAATTATATTTTAAATATTTAATTAAC
Found at i:61830096 original size:21 final size:22
Alignment explanation
Indices: 61830070--61830124 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
61830060 AATAGCGGTG
61830070 GCGGTGAGATTAGG-TACTGTA
1 GCGGTGAGATTAGGATACTGTA
61830091 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAGGATACTGTA
*
61830112 GCAGTGAGATTAG
1 GCGGTGAGATTAG
61830125 AAACAGCGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.27
Consensus pattern (22 bp):
GCGGTGAGATTAGGATACTGTA
Found at i:61830311 original size:18 final size:18
Alignment explanation
Indices: 61830288--61830421 Score: 90
Period size: 18 Copynumber: 7.9 Consensus size: 18
61830278 TTATTATTAA
61830288 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
61830306 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
61830323 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * *
61830341 -TATAATAT-ATAATATT
1 ATATAATTTAATAAAAAT
* * *
61830357 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
61830376 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
*
61830388 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
61830406 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
61830422 TTCTTAGTAT
Statistics
Matches: 88, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 3 0.03
16 8 0.09
17 22 0.25
18 42 0.48
19 5 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:61830359 original size:15 final size:15
Alignment explanation
Indices: 61830339--61830394 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
61830329 ATTTACTAAA
*
61830339 ATTATAATATATAAT
1 ATTATAAAATATAAT
61830354 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
61830367 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
61830380 ATTATTAAATATAAT
1 ATTATAAAATATAAT
61830395 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:61830407 original size:59 final size:58
Alignment explanation
Indices: 61830344--61830542 Score: 199
Period size: 59 Copynumber: 3.3 Consensus size: 58
61830334 CTAAAATTAT
61830344 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTT-AAATAATTATTATTAAATATAATTTAACAAA
* * * * * * ** *
61830403 AATATATAATTTAATAAAATTCTTAGTATTAAAT-ATTCTTATATGAATTTACTAAAATC-AT
1 AATATATAATTTAATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATAATTTAA-CAAA
*
61830464 AATATATAATACT-ATAAAATATAATTTTAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAA-TTTAAATAATTATTATTAAATATAATTTAACAAA
61830523 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
61830543 TCTTAGTATT
Statistics
Matches: 109, Mismatches: 20, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
58 4 0.04
59 51 0.47
60 17 0.16
61 33 0.30
62 4 0.04
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (58 bp):
AATATATAATTTAATAAAATATAATTTAAATAATTATTATTAAATATAATTTAACAAA
Found at i:61830455 original size:120 final size:120
Alignment explanation
Indices: 61830322--61830564 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
61830312 TTTAATAAAA
* *
61830322 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
61830387 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
*
61830442 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTTAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
61830507 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
61830562 TAT
1 TAT
61830565 GATTGTATCA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:61830471 original size:61 final size:60
Alignment explanation
Indices: 61830372--61830564 Score: 187
Period size: 61 Copynumber: 3.2 Consensus size: 60
61830362 ATATAATTTA
* **
61830372 AAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 AAAT-ATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
* * * * * * * *
61830433 AAATATTCTTATATGAATTTACTAAAATC-ATAATATATAATACT-ATAAAA-T-ATAATTTT
1 AAATATTCTTAT-TAAATATAATAAAA-CAAAAATATATAAT-TTAATAAAATTCTTAGTATT
* **
61830492 AAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 AAAT-ATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
61830553 AAATATTCTTAT
1 AAATATTCTTAT
61830565 GATTGTATCA
Statistics
Matches: 101, Mismatches: 23, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
58 2 0.02
59 35 0.35
60 23 0.23
61 39 0.39
62 2 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (60 bp):
AAATATTCTTATTAAATATAATAAAACAAAAATATATAATTTAATAAAATTCTTAGTATT
Found at i:61833639 original size:6 final size:6
Alignment explanation
Indices: 61833628--61833665 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
61833618 TTTACAAACC
*
61833628 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
61833666 GAAGAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:61833651 original size:18 final size:18
Alignment explanation
Indices: 61833628--61833663 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
61833618 TTTACAAACC
61833628 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
61833646 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
61833664 GAGAAGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGG
Found at i:61833672 original size:18 final size:18
Alignment explanation
Indices: 61833633--61833674 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
61833623 AAACCAAGGG
**
61833633 GAAGGGGAAAGGGAAGGG
1 GAAGGGGAAAGGGAAGAA
*
61833651 GAAGGGGAAAGGGGAGAA
1 GAAGGGGAAAGGGAAGAA
61833669 GAAGGG
1 GAAGGG
61833675 TAACCAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
GAAGGGGAAAGGGAAGAA
Found at i:61838054 original size:6 final size:7
Alignment explanation
Indices: 61838009--61838040 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
61837999 TAAACACAAG
*
61838009 AAAACGT
1 AAAAAGT
61838016 AAAAAGT
1 AAAAAGT
61838023 AAAAAGT
1 AAAAAGT
61838030 AAAAAGT
1 AAAAAGT
61838037 AAAA
1 AAAA
61838041 GATGAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.72, C:0.03, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAAGT
Found at i:61838948 original size:16 final size:16
Alignment explanation
Indices: 61838918--61838965 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
61838908 GAAAATTAAT
61838918 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
61838933 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
61838950 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
61838965 A
1 A
61838966 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:61838964 original size:11 final size:11
Alignment explanation
Indices: 61838909--61838979 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
61838899 ATAGCTTAAG
*
61838909 AAAATTAATAT
1 AAAATTAAAAT
61838920 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
61838932 AATAA-T-AATT
1 AA-AATTAAAAT
*
61838942 AAAAAT-AAAT
1 AAAATTAAAAT
61838952 AAAATTAAAAT
1 AAAATTAAAAT
*
61838963 AAACTTAAAAT
1 AAAATTAAAAT
*
61838974 AGAATT
1 AAAATT
61838980 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:61849259 original size:16 final size:16
Alignment explanation
Indices: 61849229--61849276 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
61849219 GAAAATTAAT
61849229 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
61849244 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
61849261 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
61849276 A
1 A
61849277 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:61849275 original size:11 final size:11
Alignment explanation
Indices: 61849220--61849290 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
61849210 ATAGCTTAAG
*
61849220 AAAATTAATAT
1 AAAATTAAAAT
61849231 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
61849243 AATAA-T-AATT
1 AA-AATTAAAAT
*
61849253 AAAAAT-AAAT
1 AAAATTAAAAT
61849263 AAAATTAAAAT
1 AAAATTAAAAT
*
61849274 AAACTTAAAAT
1 AAAATTAAAAT
*
61849285 AGAATT
1 AAAATT
61849291 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:61855274 original size:37 final size:39
Alignment explanation
Indices: 61855200--61855283 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 39
61855190 TTACAGCCTT
*
61855200 TTGTTGAAACCTTAGTCTAAGAAAACTTATCAACCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
* **
61855239 TTGTTGAAACCTTAGT-TCA-AAAACCTATCTTCCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
*
61855276 TTGCTGAA
1 TTGTTGAA
61855284 TATCACCTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 22 0.55
38 2 0.05
39 16 0.40
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (39 bp):
TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
Found at i:61855768 original size:18 final size:18
Alignment explanation
Indices: 61855719--61855758 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
61855709 AATTGTTCCA
* *
61855719 GATTTGTAGGGATAGACT
1 GATTTCTAGGGATAAACT
61855737 GATTTCTAGGGATAAACT
1 GATTTCTAGGGATAAACT
61855755 GATT
1 GATT
61855759 CTTTGGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (18 bp):
GATTTCTAGGGATAAACT
Found at i:61861441 original size:13 final size:13
Alignment explanation
Indices: 61861423--61861448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61861413 TTTGTCATAT
61861423 TTAAAATAAAATA
1 TTAAAATAAAATA
61861436 TTAAAATAAAATA
1 TTAAAATAAAATA
61861449 GAATTCATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAATAAAATA
Done.