Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 40 of 153
Found at i:13583531 original size:23 final size:23
Alignment explanation
Indices: 13583488--13583532 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13583478 TGCTTTTATA
*
13583488 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
13583511 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
13583533 AATTAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:13584579 original size:40 final size:39
Alignment explanation
Indices: 13584502--13584620 Score: 121
Period size: 40 Copynumber: 3.0 Consensus size: 39
13584492 GCGCTTTTTG
* * * *
13584502 TAAAACGCCGCTAATGCTTGGTTTTAGCGGCGTTTTTTTA
1 TAAAACGCCGCTAATGCTCGATTTTAGTGGCG-TTTTTCA
** * *
13584542 TGTAACGCCGCTAATGCTCGATATTTTGTGGCGTTTTTCG
1 TAAAACGCCGCTAATGCTCGAT-TTTAGTGGCGTTTTTCA
**
13584582 TAAAATACCGCTAATGCTCGATTGTTAGTGGCGTTTTTC
1 TAAAACGCCGCTAATGCTCGATT-TTAGTGGCGTTTTTC
13584621 GCCCAAACGC
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.02
40 55 0.86
41 8 0.12
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.39
Consensus pattern (39 bp):
TAAAACGCCGCTAATGCTCGATTTTAGTGGCGTTTTTCA
Found at i:13590028 original size:3 final size:3
Alignment explanation
Indices: 13590020--13590044 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13590010 ACCTCAAAAA
13590020 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
13590045 TATTCCTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13591161 original size:13 final size:13
Alignment explanation
Indices: 13591143--13591168 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13591133 AGGAATAATA
13591143 GCAGTTAACAGTT
1 GCAGTTAACAGTT
13591156 GCAGTTAACAGTT
1 GCAGTTAACAGTT
13591169 AAGGAAGTTA
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:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GCAGTTAACAGTT
Found at i:13594825 original size:21 final size:21
Alignment explanation
Indices: 13594799--13594839 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13594789 AGACGAGCAA
* *
13594799 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
13594820 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
13594840 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:13607364 original size:14 final size:14
Alignment explanation
Indices: 13607345--13607392 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
13607335 TAGGAAAGTC
13607345 ATTTTTGCAGTGAA
1 ATTTTTGCAGTGAA
* *
13607359 ATTTTTGTCGGTCAA
1 ATTTTTG-CAGTGAA
*
13607374 TATTTTTGAAGTGAA
1 -ATTTTTGCAGTGAA
13607389 ATTT
1 ATTT
13607393 GGTCATATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 11 0.41
15 9 0.33
16 7 0.26
ACGTcount: A:0.27, C:0.06, G:0.19, T:0.48
Consensus pattern (14 bp):
ATTTTTGCAGTGAA
Found at i:13608387 original size:75 final size:75
Alignment explanation
Indices: 13608277--13608570 Score: 369
Period size: 75 Copynumber: 3.9 Consensus size: 75
13608267 ACGCCTGCTG
* * * *
13608277 ATTTCTAAGATCTTCTAGGAGCCAGCTGTTGGTAAAAGAGACACCATTGGCTCCATTTTGAGAAG
1 ATTTCTAAGATCTTCTTGAAACCAACTGTTGGTAAAAGAGACACCATTGGCTCCATTTTGAGAAG
*
13608342 CTTGCTGATG
66 CTTGCTGATC
* * * * * *
13608352 ATTTCTAACATCTTCTTGCAACCAATTGTTTGTAAAAGAGGCACCATTGGCTCCTTTTTGAGAAG
1 ATTTCTAAGATCTTCTTGAAACCAACTGTTGGTAAAAGAGACACCATTGGCTCCATTTTGAGAAG
*
13608417 CTTGGTGATC
66 CTTGCTGATC
* *
13608427 ATTT-TGATGATCTTCTTGAAACCAACTGTTGGTAAAAGAGGA-ACCATTGGCTCCATTTCGAGA
1 ATTTCT-AAGATCTTCTTGAAACCAACTGTTGGTAAAAGA-GACACCATTGGCTCCATTTTGAGA
13608490 AGCTTGCTGATC
64 AGCTTGCTGATC
* * * * *
13608502 ATTTCTATGATCTTCTTGAAACCAATTGTAAGG-AAAAGAGGCACCATTAGCTCCATTTTGAGAA
1 ATTTCTAAGATCTTCTTGAAACCAACTGT-TGGTAAAAGAGACACCATTGGCTCCATTTTGAGAA
13608566 GCTTG
65 GCTTG
13608571 GTCTTGCTGA
Statistics
Matches: 189, Mismatches: 25, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
74 2 0.01
75 183 0.97
76 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (75 bp):
ATTTCTAAGATCTTCTTGAAACCAACTGTTGGTAAAAGAGACACCATTGGCTCCATTTTGAGAAG
CTTGCTGATC
Found at i:13608474 original size:150 final size:150
Alignment explanation
Indices: 13608302--13608572 Score: 436
Period size: 150 Copynumber: 1.8 Consensus size: 150
13608292 TAGGAGCCAG
* *
13608302 CTGTTGGTAAAAGAGACACCATTGGCTCCATTTTGAGAAGCTTGCTGATGATTTCTAACATCTTC
1 CTGTTGGTAAAAGAGACACCATTGGCTCCATTTCGAGAAGCTTGCTGATCATTTCTAACATCTTC
* ** * * *
13608367 TTGCAACCAATTGTTTGTAAAAGAGGCACCATTGGCTCCTTTTTGAGAAGCTTGGTGATCATTTT
66 TTGAAACCAATTGTAAGGAAAAGAGGCACCATTAGCTCCATTTTGAGAAGCTTGGTGATCATTTT
13608432 GATGATCTTCTTGAAACCAA
131 GATGATCTTCTTGAAACCAA
**
13608452 CTGTTGGTAAAAGAGGA-ACCATTGGCTCCATTTCGAGAAGCTTGCTGATCATTTCTATGATCTT
1 CTGTTGGTAAAAGA-GACACCATTGGCTCCATTTCGAGAAGCTTGCTGATCATTTCTAACATCTT
13608516 CTTGAAACCAATTGTAAGGAAAAGAGGCACCATTAGCTCCATTTTGAGAAGCTTGGT
65 CTTGAAACCAATTGTAAGGAAAAGAGGCACCATTAGCTCCATTTTGAGAAGCTTGGT
13608573 CTTGCTGAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
150 108 0.98
151 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (150 bp):
CTGTTGGTAAAAGAGACACCATTGGCTCCATTTCGAGAAGCTTGCTGATCATTTCTAACATCTTC
TTGAAACCAATTGTAAGGAAAAGAGGCACCATTAGCTCCATTTTGAGAAGCTTGGTGATCATTTT
GATGATCTTCTTGAAACCAA
Found at i:13612108 original size:25 final size:24
Alignment explanation
Indices: 13612080--13612132 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
13612070 ATACCATAGG
* *
13612080 TAAAAATTATGTAAAAATATATTAA
1 TAAAAATCATGT-AAAATATATAAA
*
13612105 TAAAAAATCATGTAATATATATAAA
1 T-AAAAATCATGTAAAATATATAAA
13612130 TAA
1 TAA
13612133 GTGGTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
24 2 0.08
25 12 0.50
26 10 0.42
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (24 bp):
TAAAAATCATGTAAAATATATAAA
Found at i:13623563 original size:19 final size:19
Alignment explanation
Indices: 13623539--13623576 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13623529 TGCACTTTAC
13623539 AATCAGTAATTCAATGTAT
1 AATCAGTAATTCAATGTAT
13623558 AATCAGTAATTCAATGTAT
1 AATCAGTAATTCAATGTAT
13623577 CTTGACAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (19 bp):
AATCAGTAATTCAATGTAT
Found at i:13628469 original size:43 final size:43
Alignment explanation
Indices: 13628371--13628481 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 43
13628361 ATCTACGTGT
* * * * *
13628371 AAGACCATGTCTGGGACATTGGCATCGTATATGATTTACGTGT
1 AAGACCCTGTCTGGGACAGTGGCATCGGATATGATTTACATGC
*
13628414 AAGACCCTGTCTGGGACAGTGGCATCGAGATTTGA-TTACATGC
1 AAGACCCTGTCTGGGACAGTGGCATCG-GATATGATTTACATGC
*
13628457 AATA-CCTCGTCTGGGAC-GTAGGCAT
1 AAGACCCT-GTCTGGGACAGT-GGCAT
13628482 TGTACGATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 5 0.09
43 48 0.83
44 5 0.09
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (43 bp):
AAGACCCTGTCTGGGACAGTGGCATCGGATATGATTTACATGC
Found at i:13632925 original size:44 final size:44
Alignment explanation
Indices: 13632862--13632950 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
13632852 TTTTTTAAAA
*
13632862 TGTTTAATTTGCCAGCAAGTTAAAGCTGAGCATCAAGTACCGTC
1 TGTTTAATTTGCCAGCAAGTTAAAGCCGAGCATCAAGTACCGTC
13632906 TGTTTAATTTGCCAGCAAGTTAAAGCCGAGCATCAAGTACCGTC
1 TGTTTAATTTGCCAGCAAGTTAAAGCCGAGCATCAAGTACCGTC
13632950 T
1 T
13632951 AGATTACTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
TGTTTAATTTGCCAGCAAGTTAAAGCCGAGCATCAAGTACCGTC
Found at i:13636092 original size:43 final size:43
Alignment explanation
Indices: 13636032--13636184 Score: 220
Period size: 43 Copynumber: 3.6 Consensus size: 43
13636022 ATTTGAGATC
13636032 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
1 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
*
13636075 TATGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
1 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
* * *
13636118 TACGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA-T
1 TACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATT
* *
13636161 TACATGCAAGACC-TCGTCTGGGAC
1 TACGTGTAAGACCAT-GTCTGGGAC
13636185 GTAGGCATTG
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
42 1 0.01
43 94 0.93
44 6 0.06
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
Found at i:13652164 original size:8 final size:8
Alignment explanation
Indices: 13652141--13652188 Score: 60
Period size: 8 Copynumber: 6.0 Consensus size: 8
13652131 TCACCTCTCA
*
13652141 CTCACTCA
1 CTCACTCT
13652149 CTCACTCT
1 CTCACTCT
13652157 CTCACTCT
1 CTCACTCT
*
13652165 CTCTCTCT
1 CTCACTCT
*
13652173 CTCTCTCT
1 CTCACTCT
*
13652181 CTCTCTCT
1 CTCACTCT
13652189 TTTCATTTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.08, C:0.50, G:0.00, T:0.42
Consensus pattern (8 bp):
CTCACTCT
Found at i:13652166 original size:2 final size:2
Alignment explanation
Indices: 13652153--13652188 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
13652143 CACTCACTCA
*
13652153 CT CT CT CA CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13652189 TTTCATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:13652168 original size:12 final size:12
Alignment explanation
Indices: 13652135--13652187 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
13652125 CCCCCTTCAC
*
13652135 CTCTCACTCACT
1 CTCTCACTCTCT
*
13652147 CACTCACTCTCT
1 CTCTCACTCTCT
* *
13652159 CACTCTCTCTCT
1 CTCTCACTCTCT
*
13652171 CTCTCTCTCTCT
1 CTCTCACTCTCT
13652183 CTCTC
1 CTCTC
13652188 TTTTCATTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.09, C:0.51, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCTCACTCTCT
Found at i:13659739 original size:25 final size:24
Alignment explanation
Indices: 13659711--13659763 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
13659701 ACATATCGCA
13659711 GCTCTTTATGAGCATCCCGATATAG
1 GCTCTTTATGAGCATCCCGATAT-G
* *
13659736 GCTCTTTATGAGCTTCCTGATATG
1 GCTCTTTATGAGCATCCCGATATG
13659760 GCTC
1 GCTC
13659764 GCTTGAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (24 bp):
GCTCTTTATGAGCATCCCGATATG
Found at i:13664974 original size:24 final size:24
Alignment explanation
Indices: 13664934--13664993 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
13664924 AATTTTTTTA
*
13664934 AAAAATT-TAAAAGAAAA-ATATAT
1 AAAAATTATAAAAGAAAAGAAAT-T
* *
13664957 AAAAATTATAATATAAAAGAAATT
1 AAAAATTATAAAAGAAAAGAAATT
*
13664981 ATAAATTATAAAA
1 AAAAATTATAAAA
13664994 ATAAATGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 7 0.23
24 20 0.67
25 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (24 bp):
AAAAATTATAAAAGAAAAGAAATT
Found at i:13664981 original size:17 final size:16
Alignment explanation
Indices: 13664950--13665035 Score: 59
Period size: 16 Copynumber: 5.1 Consensus size: 16
13664940 TTAAAAGAAA
*
13664950 AATATATAAAAATTAT
1 AATATAAAAAAATTAT
13664966 AATATAAAAGAAATTAT
1 AATATAAAA-AAATTAT
* *
13664983 AAATTATAAAAATAAATGT
1 -AA-TATAAAAA-AATTAT
* *
13665002 -ATGTAAAAAAATTTAA
1 AATATAAAAAAA-TTAT
13665018 AATATTAAAAAAA-TAT
1 AATA-TAAAAAAATTAT
13665034 AA
1 AA
13665036 AATTCAAGTT
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
15 2 0.04
16 20 0.37
17 10 0.19
18 11 0.20
19 11 0.20
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AATATAAAAAAATTAT
Found at i:13671656 original size:6 final size:6
Alignment explanation
Indices: 13671645--13671670 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13671635 CGCTTTTAAC
13671645 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
13671671 TCTTTACGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:13675445 original size:34 final size:34
Alignment explanation
Indices: 13675407--13675484 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
13675397 CTATAGTGTT
*
13675407 ATTTGGTGTGATGGATGGATTCATTCATACGAAC
1 ATTTGGTGTGATGGATGGATTCACTCATACGAAC
* * * *
13675441 ATTTGATGTGTTGGATGGATTGACTCATACGAGC
1 ATTTGGTGTGATGGATGGATTCACTCATACGAAC
13675475 ATTTGGTGTG
1 ATTTGGTGTG
13675485 CTAGATAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.37
Consensus pattern (34 bp):
ATTTGGTGTGATGGATGGATTCACTCATACGAAC
Found at i:13677449 original size:18 final size:17
Alignment explanation
Indices: 13677406--13677450 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
13677396 GTAATTTTAA
13677406 ATTTTATATGCAAAAGT
1 ATTTTATATGCAAAAGT
* *
13677423 ATTTGTATAGTGTAAATGT
1 ATTT-TATA-TGCAAAAGT
13677442 ATTTTATAT
1 ATTTTATAT
13677451 AATATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 8 0.33
19 11 0.46
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (17 bp):
ATTTTATATGCAAAAGT
Found at i:13678500 original size:17 final size:18
Alignment explanation
Indices: 13678459--13678492 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13678449 TAAAAGGTGT
13678459 AATAATTATACATTTAAA
1 AATAATTATACATTTAAA
13678477 AATAATTATA-ATTTAA
1 AATAATTATACATTTAA
13678493 TAAAAATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AATAATTATACATTTAAA
Found at i:13678959 original size:59 final size:59
Alignment explanation
Indices: 13678887--13679023 Score: 199
Period size: 59 Copynumber: 2.3 Consensus size: 59
13678877 TTGTTATTAA
13678887 ATTTTAATATAATAATTATTAAAAATAATTTAATAATAAAT-AATAAATAATTTAATAAT
1 ATTTTAATATAATAATTATTAAAAATAATTTAATAA-AAATAAATAAATAATTTAATAAT
* * *
13678946 ATTTTAATATAATAATTATTAAATATAATTTGATAAAAATAAAAATATATAATTTAATAAT
1 ATTTTAATATAATAATTATTAAAAATAATTTAATAAAAAT--AAATAAATAATTTAATAAT
13679007 ATTTTAA-AT-ATAATTAT
1 ATTTTAATATAATAATTAT
13679024 ATCTAAAATA
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
58 4 0.06
59 42 0.58
60 2 0.03
61 24 0.33
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (59 bp):
ATTTTAATATAATAATTATTAAAAATAATTTAATAAAAATAAATAAATAATTTAATAAT
Found at i:13678981 original size:24 final size:24
Alignment explanation
Indices: 13678954--13679021 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
13678944 ATATTTTAAT
*
13678954 ATAATAATTATTAAATATAATTTG
1 ATAATAATTATTAAATATAATTTA
* **
13678978 ATAA-AAATAAAAATATATAATTTA
1 ATAATAATTATTAA-ATATAATTTA
13679002 ATAAT-ATT-TTAAATATAATT
1 ATAATAATTATTAAATATAATT
13679022 ATATCTAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
22 8 0.23
23 8 0.23
24 19 0.54
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (24 bp):
ATAATAATTATTAAATATAATTTA
Found at i:13679772 original size:29 final size:29
Alignment explanation
Indices: 13679727--13679786 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
13679717 ATATATTTTA
13679727 ATTATATTTAATAATTCAAGTAA-TAAAT
1 ATTATATTTAATAATTCAAGTAATTAAAT
**
13679755 ATTAT-TTTAAGTCAATTCCTGTAATTAAAT
1 ATTATATTTAA-T-AATTCAAGTAATTAAAT
13679785 AT
1 AT
13679787 ATAATACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 6 0.22
29 9 0.33
30 7 0.26
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (29 bp):
ATTATATTTAATAATTCAAGTAATTAAAT
Found at i:13681857 original size:16 final size:16
Alignment explanation
Indices: 13681836--13681869 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13681826 AATTTTCATT
13681836 ATTTTCTACCTCTTTC
1 ATTTTCTACCTCTTTC
*
13681852 ATTTTCTACCTTTTTC
1 ATTTTCTACCTCTTTC
13681868 AT
1 AT
13681870 CAGTTCATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTCTACCTCTTTC
Found at i:13698111 original size:18 final size:17
Alignment explanation
Indices: 13698065--13698107 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
13698055 TAATATCAAT
13698065 TAATAAAATATTATTAC
1 TAATAAAATATTATTAC
* *
13698082 TTATTAAAATATTATTAG
1 -TAATAAAATATTATTAC
13698100 TAATAAAA
1 TAATAAAA
13698108 ATATCATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TAATAAAATATTATTAC
Found at i:13703622 original size:10 final size:11
Alignment explanation
Indices: 13703590--13703616 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13703580 AATTTGAAAT
13703590 TGAAAAAGGAG
1 TGAAAAAGGAG
13703601 TGAAAAAGGAG
1 TGAAAAAGGAG
13703612 TGAAA
1 TGAAA
13703617 TAGAGTAGAA
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:0.56, C:0.00, G:0.33, T:0.11
Consensus pattern (11 bp):
TGAAAAAGGAG
Found at i:13705239 original size:26 final size:26
Alignment explanation
Indices: 13705203--13705256 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
13705193 CTTGAGGGAT
*
13705203 TTCTTGGAACACTTTTATGAAGTCAC
1 TTCTTAGAACACTTTTATGAAGTCAC
13705229 TTCTTAGAACACTTTTATGAAGTCAC
1 TTCTTAGAACACTTTTATGAAGTCAC
13705255 TT
1 TT
13705257 TGTGTATATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.41
Consensus pattern (26 bp):
TTCTTAGAACACTTTTATGAAGTCAC
Found at i:13705257 original size:14 final size:14
Alignment explanation
Indices: 13705212--13705257 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
13705202 TTTCTTGGAA
13705212 CACTTTTATGAAGT
1 CACTTTTATGAAGT
13705226 CACTTCTTA-GAA--
1 CACTT-TTATGAAGT
13705238 CACTTTTATGAAGT
1 CACTTTTATGAAGT
13705252 CACTTT
1 CACTTT
13705258 GTGTATATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 3 0.11
12 8 0.29
14 14 0.50
15 3 0.11
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (14 bp):
CACTTTTATGAAGT
Found at i:13706185 original size:114 final size:111
Alignment explanation
Indices: 13706015--13706441 Score: 445
Period size: 114 Copynumber: 3.8 Consensus size: 111
13706005 GCGTTTTTGA
* * * *
13706015 GAAAGCGCCGCAAAAAACCT-AGCGCAACGACGCCGTTTCCCCAGCATTC-GGTGATTTAGCGGC
1 GAAAGCGCCGCAAAAAAACTAAGCCCAACGACGCCGTTTCCCGAGCTTTCAGG-GATTTAGCGGC
* * *
13706078 GTTTTTCAGTAAGCGCCGCTAATTCTCAAGGCTTTAGCGGCGATTCTAT
65 GTTTTT-AGAAAGCGCCGCTAATTCTCAAGTCTTTAGCGGCG-TTTTAT
* *
13706127 GAAAGCGCCGCAAAAATAACTAAGCCCAACGATGTCGTTTCCCGAGCTTTCAGGGATTTAGCGGC
1 GAAAGCGCCGCAAAAA-AACTAAGCCCAACGACGCCGTTTCCCGAGCTTTCAGGGATTTAGCGGC
* * *
13706192 GCTTTTACAGAAAGCGCCGCTAATGCTGAAGTCTTTAGCGGCGTTTT-T
65 G-TTTT-TAGAAAGCGCCGCTAATTCTCAAGTCTTTAGCGGCGTTTTAT
* * * *
13706240 GTTAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTG-GCTTTCGGGGATTTTAGCG
1 G--AAAGCGCCGCAAAAAAACTAAGCCCAACGACGCCGTTTCCCGAGCTTTCAGGGA-TTTAGCG
*
13706304 GCGTTTTT-GTAAAGCGCCGCTAATGT-TC-AGTCTTTAGCGGCGTTTTTT
63 GCGTTTTTAG-AAAGCGCCGCTAAT-TCTCAAGTCTTTAGCGGCGTTTTAT
* * * * * * * *
13706352 GGAAAGCGCCGCAAAAAAAACTAAGCGCAATGTCGTCGTTTTCTGTGCTTTTGAGGGATTTAGCG
1 -GAAAGCGCCGC-AAAAAAACTAAGCCCAACGACGCCGTTTCCCGAGC-TTTCAGGGATTTAGCG
13706417 GCGTTTTTAGAAAAGCGCCGCTAAT
63 GCGTTTTTAG-AAAGCGCCGCTAAT
13706442 GATCAGGGAT
Statistics
Matches: 270, Mismatches: 29, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
111 29 0.11
112 59 0.22
113 37 0.14
114 93 0.34
115 52 0.19
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (111 bp):
GAAAGCGCCGCAAAAAAACTAAGCCCAACGACGCCGTTTCCCGAGCTTTCAGGGATTTAGCGGCG
TTTTTAGAAAGCGCCGCTAATTCTCAAGTCTTTAGCGGCGTTTTAT
Found at i:13706442 original size:226 final size:226
Alignment explanation
Indices: 13706005--13706442 Score: 575
Period size: 227 Copynumber: 1.9 Consensus size: 226
13705995 ATCATTCCCA
* *
13706005 GCGTTTTTGAGAAAGCGCCGCAAAAAACCTAGCGCAACGACGCCGTTTCCCCAGCATTCGGTGAT
1 GCGTTTTTGAGAAAGCGCCGCAAAAAACCTAGCCCAACGACGCCGTTTCCCCAGCATTCGGGGAT
13706070 TTAGCGGCGTTTTTCAGTAAGCGCCGCTAATTCTCAAGGCTTTAGCGGCGATTCTATGAAAGCGC
66 TTAGCGGCGTTTTT-AGTAAGCGCCGCTAATTCTCAAGGCTTTAGCGGCGATTCTATGAAAGCGC
*
13706135 CGCAAAAATAACTAAGCCCAACGATGTCGTTTCCCGAGCTTTCAGGGATTTAGCGGCGCTTTTAC
130 CGCAAAAAAAACTAAGCCCAACGATGTCGTTTCCCGAGCTTTCAGGGATTTAGCGGCGCTTTTAC
13706200 AGAAAGCGCCGCTAATGCTGAAGTCTTTAGCG
195 AGAAAGCGCCGCTAATGCTGAAGTCTTTAGCG
** * ** *
13706232 GCGTTTTTGTTAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTT-TCTGGCTTTCGGGGA
1 GCGTTTTTGAGAAAGCGCCGCAAAAAACCT-AGCCCAACGACGCCGTTTCCCCAGCATTCGGGGA
* * *
13706296 TTTTAGCGGCGTTTTT-GTAAAGCGCCGCTAATGT-TC-AGTCTTTAGCGGCG-TTTTTTGGAAA
65 -TTTAGCGGCGTTTTTAGT-AAGCGCCGCTAAT-TCTCAAGGCTTTAGCGGCGATTCTAT-GAAA
* * * * * * *
13706357 GCGCCGCAAAAAAAACTAAGCGCAATG-TCGTCGTTTTCTGTGCTTTTGAGGGATTTAGCGGCGT
126 GCGCCGCAAAAAAAACTAAGCCCAACGAT-GTCGTTTCCCGAGC-TTTCAGGGATTTAGCGGCGC
*
13706421 TTTTAGA-AAAGCGCCGCTAATG
189 TTTTACAGAAAGCGCCGCTAATG
13706443 ATCAGGGATT
Statistics
Matches: 184, Mismatches: 20, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
225 5 0.03
226 69 0.38
227 77 0.42
228 33 0.18
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (226 bp):
GCGTTTTTGAGAAAGCGCCGCAAAAAACCTAGCCCAACGACGCCGTTTCCCCAGCATTCGGGGAT
TTAGCGGCGTTTTTAGTAAGCGCCGCTAATTCTCAAGGCTTTAGCGGCGATTCTATGAAAGCGCC
GCAAAAAAAACTAAGCCCAACGATGTCGTTTCCCGAGCTTTCAGGGATTTAGCGGCGCTTTTACA
GAAAGCGCCGCTAATGCTGAAGTCTTTAGCG
Found at i:13706738 original size:7 final size:7
Alignment explanation
Indices: 13706728--13706781 Score: 72
Period size: 7 Copynumber: 7.4 Consensus size: 7
13706718 AGAGTTAAGA
13706728 TTTAGGG
1 TTTAGGG
13706735 TTTAGGGG
1 TTTA-GGG
13706743 TTTAGGG
1 TTTAGGG
13706750 TTTAGGG
1 TTTAGGG
13706757 TTTAGGG
1 TTTAGGG
**
13706764 ATTTCTGG
1 -TTTAGGG
13706772 TTTAGGG
1 TTTAGGG
13706779 TTT
1 TTT
13706782 GAACGGTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
7 29 0.71
8 12 0.29
ACGTcount: A:0.13, C:0.02, G:0.39, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:13706741 original size:31 final size:30
Alignment explanation
Indices: 13706667--13706742 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 30
13706657 TCGGGGTATG
* * *
13706667 GATTTAGGGTTTA--GGGATTAGGTGTTAT
1 GATTTAGGGTTTAGGGGGATTAAGAGTTAA
* * *
13706695 GCTTTTGGGGTTAGGGGGAGTTAAGAGTTAA
1 GATTTAGGGTTTAGGGGGA-TTAAGAGTTAA
13706726 GATTTAGGGTTTAGGGG
1 GATTTAGGGTTTAGGGG
13706743 TTTAGGGTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
28 10 0.28
30 4 0.11
31 22 0.61
ACGTcount: A:0.21, C:0.01, G:0.41, T:0.37
Consensus pattern (30 bp):
GATTTAGGGTTTAGGGGGATTAAGAGTTAA
Found at i:13706748 original size:15 final size:14
Alignment explanation
Indices: 13706728--13706781 Score: 72
Period size: 15 Copynumber: 3.7 Consensus size: 14
13706718 AGAGTTAAGA
13706728 TTTAGGGTTTAGGGG
1 TTTAGGGTTTA-GGG
13706743 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
**
13706757 TTTAGGGATTTCTGG
1 TTTAGGG-TTTAGGG
13706772 TTTAGGGTTT
1 TTTAGGGTTT
13706782 GAACGGTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 13 0.36
15 23 0.64
ACGTcount: A:0.13, C:0.02, G:0.39, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTAGGG
Found at i:13706755 original size:22 final size:22
Alignment explanation
Indices: 13706728--13706781 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
13706718 AGAGTTAAGA
*
13706728 TTTAGGGTTTAGGGGTTTAGGG
1 TTTAGGGTTTAGGGATTTAGGG
**
13706750 TTTAGGGTTTAGGGATTTCTGG
1 TTTAGGGTTTAGGGATTTAGGG
13706772 TTTAGGGTTT
1 TTTAGGGTTT
13706782 GAACGGTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.02, G:0.39, T:0.46
Consensus pattern (22 bp):
TTTAGGGTTTAGGGATTTAGGG
Found at i:13707096 original size:31 final size:30
Alignment explanation
Indices: 13707053--13707134 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
13707043 AATAAAATTT
13707053 TTTAGGGGTTATGGTTTAGGGGTT-AGAGGA
1 TTTAGGGGTTATGGTTTAGGGGTTAAG-GGA
* * *
13707083 GTTTAGGGTTTATGCTTTAAGGGTTTAAGGGA
1 -TTTAGGGGTTATGGTTT-AGGGGTTAAGGGA
*
13707115 TTTAGGGGTTATGGGTTAGG
1 TTTAGGGGTTATGGTTTAGG
13707135 AATTTGGGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 3 0.07
31 29 0.67
32 9 0.21
33 2 0.05
ACGTcount: A:0.20, C:0.01, G:0.40, T:0.39
Consensus pattern (30 bp):
TTTAGGGGTTATGGTTTAGGGGTTAAGGGA
Found at i:13710209 original size:22 final size:23
Alignment explanation
Indices: 13710184--13710246 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
13710174 AATAAAATTA
13710184 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
13710206 TATTAATAATTA-TATTAGTAATGT
1 TATTAA-AATTATTATTAG-AATAT
13710230 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
13710247 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 16 0.46
23 6 0.17
24 13 0.37
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:13710245 original size:12 final size:11
Alignment explanation
Indices: 13710178--13710258 Score: 50
Period size: 12 Copynumber: 7.5 Consensus size: 11
13710168 CTTAATAATA
13710178 AAATTA-TATT
1 AAATTATTATT
13710188 AAAATTATTATT
1 -AAATTATTATT
13710200 AAA-TATTATT
1 AAATTATTATT
13710210 AATAATTA-TATT
1 -A-AATTATTATT
*
13710222 AGTAA-TGTTATT
1 A--AATTATTATT
13710234 AAATTATATATT
1 AAATTAT-TATT
13710246 --ATT-TTATT
1 AAATTATTATT
13710254 AAATT
1 AAATT
13710259 GTACTTAACA
Statistics
Matches: 58, Mismatches: 2, Indels: 21
0.72 0.02 0.26
Matches are distributed among these distances:
8 4 0.07
9 1 0.02
10 15 0.26
11 14 0.24
12 22 0.38
13 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
AAATTATTATT
Found at i:13710415 original size:9 final size:9
Alignment explanation
Indices: 13710381--13710808 Score: 203
Period size: 9 Copynumber: 49.8 Consensus size: 9
13710371 AACAACTCAA
13710381 AACTTACAT
1 AACTTACAT
* *
13710390 AACCTAAAT
1 AACTTACAT
*
13710399 AACCTACAT
1 AACTTACAT
13710408 AACTTACAT
1 AACTTACAT
*
13710417 AA--TACAA
1 AACTTACAT
*
13710424 AACTCACAT
1 AACTTACAT
*
13710433 AACTTAAAT
1 AACTTACAT
** *
13710442 CTCTTACAC
1 AACTTACAT
13710451 AACTTACAT
1 AACTTACAT
13710460 AACCTT-CAT
1 AA-CTTACAT
13710469 AA--TACATTT
1 AACTTACA--T
13710478 AACTTACAT
1 AACTTACAT
13710487 AACTTACAT
1 AACTTACAT
*
13710496 AATACATA-AT
1 -A-ACTTACAT
13710506 AACTTAC--
1 AACTTACAT
13710513 AACTTACAT
1 AACTTACAT
13710522 AA--TACATCT
1 AACTTACA--T
13710531 AACTTAC--
1 AACTTACAT
13710538 AACTTACAT
1 AACTTACAT
13710547 AA--TACATCT
1 AACTTACA--T
13710556 AACTTAC--
1 AACTTACAT
13710563 AACTTACAT
1 AACTTACAT
13710572 AA--TACATTT
1 AACTTACA--T
13710581 AACTTACAT
1 AACTTACAT
*
13710590 AACTTACGT
1 AACTTACAT
* *
13710599 AA-TCCATCTT
1 AACT-TA-CAT
13710609 AACTTACAT
1 AACTTACAT
*
13710618 AATACATA-AT
1 -A-ACTTACAT
13710628 AACTTAC--
1 AACTTACAT
13710635 AACTTACAT
1 AACTTACAT
*
13710644 AACATACAT
1 AACTTACAT
* **
13710653 TACTTTGAT
1 AACTTACAT
13710662 AACTTACAT
1 AACTTACAT
13710671 AAC-T---T
1 AACTTACAT
13710676 -ACTTACAT
1 AACTTACAT
13710684 AACTTACAT
1 AACTTACAT
13710693 AACTTACAT
1 AACTTACAT
*
13710702 AACTAACAT
1 AACTTACAT
* *
13710711 TA--TACAC
1 AACTTACAT
13710718 AACTTACAT
1 AACTTACAT
13710727 AA--TACAT
1 AACTTACAT
*
13710734 TACTTACAT
1 AACTTACAT
13710743 AACTTAAAGCAT
1 AACTT--A-CAT
13710755 AA--TA-AT
1 AACTTACAT
13710761 AACTTACAT
1 AACTTACAT
*
13710770 AA--TACAC
1 AACTTACAT
13710777 AACTTACAT
1 AACTTACAT
* *
13710786 AGCTTACAC
1 AACTTACAT
13710795 AA--TACAT
1 AACTTACAT
13710802 AACTTAC
1 AACTTAC
13710809 CCGTGCAATT
Statistics
Matches: 316, Mismatches: 47, Indels: 112
0.67 0.10 0.24
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 5 0.02
7 70 0.22
8 14 0.04
9 179 0.57
10 15 0.05
11 24 0.08
12 5 0.02
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:13710433 original size:43 final size:43
Alignment explanation
Indices: 13710378--13710461 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
13710368 CTGAACAACT
* *
13710378 CAAAACTTACATAACCTAAATAACCTACATAACTTACATAATA
1 CAAAACTCACATAACCTAAATAACCTACACAACTTACATAATA
* ** *
13710421 CAAAACTCACATAACTTAAATCTCTTACACAACTTACATAA
1 CAAAACTCACATAACCTAAATAACCTACACAACTTACATAA
13710462 CCTTCATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (43 bp):
CAAAACTCACATAACCTAAATAACCTACACAACTTACATAATA
Found at i:13710509 original size:19 final size:19
Alignment explanation
Indices: 13710485--13710635 Score: 62
Period size: 19 Copynumber: 8.5 Consensus size: 19
13710475 TTTAACTTAC
13710485 ATAACTTACATAATACATA
1 ATAACTTACATAATACATA
*
13710504 ATAACTTACA-ACTTACATA
1 ATAACTTACATA-ATACATA
* *
13710523 AT-ACAT-C-T-A-AC-TT
1 ATAACTTACATAATACATA
*
13710536 ACAACTTACATAATACAT-
1 ATAACTTACATAATACATA
* *
13710554 CTAACTTACA-ACTTACATA
1 ATAACTTACATA-ATACATA
*
13710573 AT-ACATT---T-A-ACTTA
1 ATAAC-TTACATAATACATA
* * *
13710587 CATAACTTACGTAATCCATC
1 -ATAACTTACATAATACATA
*
13710607 TTAACTTACATAATACATA
1 ATAACTTACATAATACATA
13710626 ATAACTTACA
1 ATAACTTACA
13710636 ACTTACATAA
Statistics
Matches: 93, Mismatches: 20, Indels: 38
0.62 0.13 0.25
Matches are distributed among these distances:
13 2 0.02
14 9 0.10
15 5 0.05
16 3 0.03
17 3 0.03
18 22 0.24
19 47 0.51
20 2 0.02
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:13710612 original size:103 final size:104
Alignment explanation
Indices: 13710466--13710741 Score: 285
Period size: 103 Copynumber: 2.7 Consensus size: 104
13710456 ACATAACCTT
* **
13710466 CATAATACATTTAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATCT
1 CATAATACATTTAACTTACATAACTTACATAATCCATCTTAACTTACAACTTACATAATACAT-T
13710531 AACTTACAACTTACAT-A-ATACATCTAAC-TT-ACAACTTA
65 AACTTACAACTTACATAACATACAT-T-ACTTTGACAACTTA
*
13710569 CATAATACATTTAACTTACATAACTTACGTAATCCATCTTAACTTAC-A--TA-ATACATA-A-T
1 CATAATACATTTAACTTACATAACTTACATAATCCATCTTAACTTACAACTTACATA-ATACATT
*
13710628 AACTTACAACTTACATAACATACATTACTTTGATAACTTA
65 AACTTACAACTTACATAACATACATTACTTTGACAACTTA
* *
13710668 CATAACTTAC-TTACATAACTTACATAACTTACATAA-CTAACATTATAC--ACAACTTACATAA
1 CATAA--TACATT---TAACTTACATAACTTACATAATCCATC-TTA-ACTTACAACTTACATAA
13710729 TACATT-ACTTACA
59 TACATTAACTTACA
13710742 TAACTTAAAG
Statistics
Matches: 147, Mismatches: 8, Indels: 33
0.78 0.04 0.18
Matches are distributed among these distances:
97 19 0.13
98 4 0.03
99 22 0.15
100 7 0.05
101 3 0.02
102 6 0.04
103 67 0.46
104 2 0.01
105 5 0.03
106 11 0.07
107 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.34
Consensus pattern (104 bp):
CATAATACATTTAACTTACATAACTTACATAATCCATCTTAACTTACAACTTACATAATACATTA
ACTTACAACTTACATAACATACATTACTTTGACAACTTA
Found at i:13710679 original size:13 final size:13
Alignment explanation
Indices: 13710663--13710690 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13710653 TACTTTGATA
13710663 ACTTACATAACTT
1 ACTTACATAACTT
13710676 ACTTACATAACTT
1 ACTTACATAACTT
13710689 AC
1 AC
13710691 ATAACTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (13 bp):
ACTTACATAACTT
Found at i:13710746 original size:25 final size:26
Alignment explanation
Indices: 13710451--13710771 Score: 263
Period size: 25 Copynumber: 12.4 Consensus size: 26
13710441 TCTCTTACAC
13710451 AACTTACATAACCTT-CATAATACATTT
1 AACTTACATAA-CTTACATAATACA-TT
13710478 AACTTACATAACTTACATAATACATAAT
1 AACTTACATAACTTACATAATACAT--T
13710506 AACTTAC--AACTTACATAATACATCT
1 AACTTACATAACTTACATAATACAT-T
13710531 AACTTAC--AACTTACATAATACATCT
1 AACTTACATAACTTACATAATACAT-T
13710556 AACTTAC--AACTTACATAATACATTT
1 AACTTACATAACTTACATAATACA-TT
* *
13710581 AACTTACATAACTTACGTAATCCATCTT
1 AACTTACATAACTTACATAATACA--TT
13710609 AACTTACATAA--TACATAATA-ACTT
1 AACTTACATAACTTACATAATACA-TT
* *
13710633 ACAACTTACATAACATACAT--TACTTTGAT
1 --AACTTACATAACTTACATAATAC-AT--T
13710662 AACTTACATAACTTAC-T--TACA-T
1 AACTTACATAACTTACATAATACATT
13710684 AACTTACATAACTTACATAACTAACATT
1 AACTTACATAACTTACATAA-T-ACATT
*
13710712 -A--TACACAACTTACATAATACATT
1 AACTTACATAACTTACATAATACATT
13710735 -ACTTACATAACTTAAAGCATAATA-A-T
1 AACTTACATAACTT--A-CATAATACATT
13710761 AACTTACATAA
1 AACTTACATAA
13710772 TACACAACTT
Statistics
Matches: 256, Mismatches: 11, Indels: 54
0.80 0.03 0.17
Matches are distributed among these distances:
22 17 0.07
23 7 0.03
24 4 0.02
25 81 0.32
26 47 0.18
27 65 0.25
28 34 0.13
29 1 0.00
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (26 bp):
AACTTACATAACTTACATAATACATT
Found at i:13710763 original size:59 final size:56
Alignment explanation
Indices: 13710662--13710786 Score: 157
Period size: 59 Copynumber: 2.2 Consensus size: 56
13710652 TTACTTTGAT
*
13710662 AACTTACAT-AACTTACTTACATAACTTACATAACTTACATAACTAACATTATACAC
1 AACTTACATAAACTTACTTACATAACTTACATAAC-TACATAACTAACATAATACAC
*
13710718 AACTTACATAATACATTACTTACATAACTTAAAGCATAA-TA-ATAACTTACATAATACAC
1 AACTTACATAA-AC-TTACTTACATAACTT--A-CATAACTACATAACTAACATAATACAC
13710777 AACTTACATA
1 AACTTACATA
13710787 GCTTACACAA
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
56 9 0.15
57 1 0.02
58 2 0.03
59 41 0.67
60 2 0.03
61 1 0.02
62 5 0.08
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (56 bp):
AACTTACATAAACTTACTTACATAACTTACATAACTACATAACTAACATAATACAC
Found at i:13710765 original size:43 final size:43
Alignment explanation
Indices: 13710676--13710808 Score: 141
Period size: 43 Copynumber: 3.1 Consensus size: 43
13710666 TACATAACTT
*
13710676 ACTTACATAACTTACATAACTTACATAAC-T-AACATTATACACA
1 ACTTACATAA--TACATAACTTACATAACTTAAACATAATACACA
* *
13710719 ACTTACATAATACATTACTTACATAACTTAAAGCATAATA-ATA
1 ACTTACATAATACATAACTTACATAACTTAAA-CATAATACACA
* * * *
13710762 ACTTACATAATACACAACTTACATAGCTT--ACACAATACATA
1 ACTTACATAATACATAACTTACATAACTTAAACATAATACACA
13710803 ACTTAC
1 ACTTAC
13710809 CCGTGCAATT
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
40 6 0.08
41 26 0.33
42 1 0.01
43 40 0.51
44 6 0.08
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.30
Consensus pattern (43 bp):
ACTTACATAATACATAACTTACATAACTTAAACATAATACACA
Found at i:13715732 original size:66 final size:65
Alignment explanation
Indices: 13715612--13715776 Score: 215
Period size: 66 Copynumber: 2.5 Consensus size: 65
13715602 GAGCAAATTA
* * * *
13715612 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAG
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAG
*
13715677 CTACAATTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCC
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCC
13715741 AG
64 AG
* * * *
13715743 CAGCAGCTTAGAGCAGATGCGGCAGCAAGAGAAG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAG
13715777 TAGAGGCGGC
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 80 0.92
67 5 0.06
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAG
Found at i:13715787 original size:21 final size:21
Alignment explanation
Indices: 13715761--13715804 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
13715751 TAGAGCAGAT
13715761 GCGGCAGCAAGAGAAGTAGAG
1 GCGGCAGCAAGAGAAGTAGAG
** *
13715782 GCGGCAGGGAGAGAAGTATAG
1 GCGGCAGCAAGAGAAGTAGAG
13715803 GC
1 GC
13715805 TGCTAAGAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.45, T:0.07
Consensus pattern (21 bp):
GCGGCAGCAAGAGAAGTAGAG
Found at i:13715825 original size:21 final size:20
Alignment explanation
Indices: 13715801--13715865 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
13715791 AGAGAAGTAT
13715801 AGGCTGCTAAGAGGGAAGCAG
1 AGGCTGC-AAGAGGGAAGCAG
* *
13715822 AGGCT-AAAGCGAGGGAAGTAG
1 AGGCTGCAA--GAGGGAAGCAG
*
13715843 AGGCTGCAGCGAGGGAAGCAG
1 AGGCTGCA-AGAGGGAAGCAG
13715864 AG
1 AG
13715866 CAGCGTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
19 2 0.06
21 32 0.91
22 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.45, T:0.08
Consensus pattern (20 bp):
AGGCTGCAAGAGGGAAGCAG
Found at i:13716336 original size:43 final size:43
Alignment explanation
Indices: 13716289--13716380 Score: 141
Period size: 43 Copynumber: 2.1 Consensus size: 43
13716279 ACAAATGCCA
*
13716289 CTAAAGACCCT-GATCTATAGCGGCGCTTTTACCAAAAACGCCG
1 CTAAAGACCCTAG-TCTATAGCGGCGCTTATACCAAAAACGCCG
* *
13716332 CTAAAGACCCTAGTTTATAGCGGCGCTTATACCAAAAATGCCG
1 CTAAAGACCCTAGTCTATAGCGGCGCTTATACCAAAAACGCCG
13716375 CTAAAG
1 CTAAAG
13716381 GTATTACTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (43 bp):
CTAAAGACCCTAGTCTATAGCGGCGCTTATACCAAAAACGCCG
Found at i:13716397 original size:43 final size:42
Alignment explanation
Indices: 13716307--13716441 Score: 103
Period size: 43 Copynumber: 3.2 Consensus size: 42
13716297 CCTGATCTAT
* ** * *
13716307 AGCGGCGCTTTTACCAAAAACGCCGCTAAAGAC-CCTAGT-TTAT
1 AGCGGCGCTTATA-CAAAAACGCCGCTAAAG-CTATTACTCTT-C
* *
13716350 AGCGGCGCTTATACCAAAAATGCCGCTAAAGGTATTACTCTTC
1 AGCGGCGCTTATA-CAAAAACGCCGCTAAAGCTATTACTCTTC
* * * * * *
13716393 AGCGGTGCTTCTACTAAAGCGCCGGTAAAGCTCTTACTCTTC
1 AGCGGCGCTTATACAAAAACGCCGCTAAAGCTATTACTCTTC
13716435 AGCGGCG
1 AGCGGCG
13716442 TTTGTGATAT
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 29 0.39
43 43 0.58
44 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (42 bp):
AGCGGCGCTTATACAAAAACGCCGCTAAAGCTATTACTCTTC
Found at i:13716564 original size:22 final size:22
Alignment explanation
Indices: 13716536--13716579 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13716526 CTGCGGCGCT
*
13716536 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
13716558 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
13716580 TTTTAGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.27, G:0.20, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:13718009 original size:16 final size:18
Alignment explanation
Indices: 13717983--13718015 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13717973 TAAAAAAAAT
13717983 GTATAAAATATA-TACAG
1 GTATAAAATATACTACAG
13718000 GTAT-AAATATACTACA
1 GTATAAAATATACTACA
13718016 TAAAAAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (18 bp):
GTATAAAATATACTACAG
Found at i:13718117 original size:25 final size:24
Alignment explanation
Indices: 13718038--13718117 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 24
13718028 TATATATAGA
* * *
13718038 TATATTACAAAAAAAACCCATGCGAG
1 TATATTATATAAAAAA--CATGCGTG
* *
13718064 TATATTATAT-AAAAACATGCATATA
1 TATATTATATAAAAAACATGC--GTG
13718089 TATATTATATAAAAAACAATGCGTG
1 TATATTATATAAAAAAC-ATGCGTG
13718114 TATA
1 TATA
13718118 AATATAGAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
23 5 0.12
25 20 0.47
26 14 0.33
27 4 0.09
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (24 bp):
TATATTATATAAAAAACATGCGTG
Found at i:13719288 original size:17 final size:18
Alignment explanation
Indices: 13719261--13719294 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13719251 ATTATGTAGT
13719261 GATTCAATACTTTAATTC
1 GATTCAATACTTTAATTC
13719279 GATT-AATACTTTAATT
1 GATTCAATACTTTAATT
13719295 TAGGTAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (18 bp):
GATTCAATACTTTAATTC
Found at i:13721277 original size:25 final size:25
Alignment explanation
Indices: 13721176--13721292 Score: 92
Period size: 25 Copynumber: 4.7 Consensus size: 25
13721166 CCATTATTTA
* * * *
13721176 GCTCTTATGAGCATCCCGTTAAATG
1 GCTCTCATGAGCTTCCCGATAATTG
*
13721201 GCTCTCATGAGCTTCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATAATTG
* * ** *
13721226 GATTTCATGAGCTTTTCAATTAA-TG
1 GCTCTCATGAGCTTCCCGA-TAATTG
*
13721251 GCTCTCTTGAGCTTCCCGATAATTG
1 GCTCTCATGAGCTTCCCGATAATTG
** *
13721276 GCTAGCAAGAGCTTCCC
1 GCTCTCATGAGCTTCCC
13721293 TTTATACAAC
Statistics
Matches: 69, Mismatches: 21, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
24 3 0.04
25 64 0.93
26 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATAATTG
Found at i:13723171 original size:24 final size:24
Alignment explanation
Indices: 13723144--13723202 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
13723134 CGAAAGAGCG
*
13723144 TCCTGTTA-ATAGCTCTCATGAGT
1 TCCTGTTATATAGCTCTCACGAGT
* *
13723167 ATCCTGATATTTAGCTCTCACGAGT
1 -TCCTGTTATATAGCTCTCACGAGT
*
13723192 TCCCGTTATAT
1 TCCTGTTATAT
13723203 GGTTGTTGCG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (24 bp):
TCCTGTTATATAGCTCTCACGAGT
Found at i:13723325 original size:25 final size:25
Alignment explanation
Indices: 13723297--13723361 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
13723287 CTTATGAGTG
13723297 TCCCGA-TATATGGCTCTACGAAGCT
1 TCCCGATTA-ATGGCTCTACGAAGCT
* * *
13723322 TCCCAATTAATGGCTCTCCGGAGCT
1 TCCCGATTAATGGCTCTACGAAGCT
*
13723347 TCCCGATTAACGGCT
1 TCCCGATTAATGGCT
13723362 TGCTTGAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 32 0.94
26 2 0.06
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTACGAAGCT
Found at i:13723395 original size:49 final size:50
Alignment explanation
Indices: 13723342--13723450 Score: 125
Period size: 49 Copynumber: 2.2 Consensus size: 50
13723332 TGGCTCTCCG
** * **
13723342 GAGCTTCCCGATTA-ACGGCTTGCTTGAACTTTCCGATTACA-GCTCTTAT
1 GAGCTTCCCGATTACACGGCTCACATGAACTTTCC-ATTACAGGCTCACAT
*
13723391 GAGCTTCCC-ATTACACGGCTCACATGAGCTTTCCATTACATGGCTCACAT
1 GAGCTTCCCGATTACACGGCTCACATGAACTTTCCATTACA-GGCTCACAT
13723441 GAGCTTCCCG
1 GAGCTTCCCG
13723451 TGATATGGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
48 10 0.20
49 25 0.50
50 15 0.30
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (50 bp):
GAGCTTCCCGATTACACGGCTCACATGAACTTTCCATTACAGGCTCACAT
Found at i:13723403 original size:23 final size:24
Alignment explanation
Indices: 13723372--13723449 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 24
13723362 TGCTTGAACT
* **
13723372 TTCCGATTACA-GCTCTTATGAGC
1 TTCCCATTACAGGCTCACATGAGC
13723395 TTCCCATTACACGGCTCACATGAGC
1 TTCCCATTACA-GGCTCACATGAGC
*
13723420 TTTCCATTACATGGCTCACATGAGC
1 TTCCCATTACA-GGCTCACATGAGC
13723445 TTCCC
1 TTCCC
13723450 GTGATATGGC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 10 0.21
25 37 0.79
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.31
Consensus pattern (24 bp):
TTCCCATTACAGGCTCACATGAGC
Found at i:13723461 original size:25 final size:25
Alignment explanation
Indices: 13723389--13723449 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
13723379 TACAGCTCTT
*
13723389 ATGAGCTTCCCATTACACGGCTCAC
1 ATGAGCTTCCCATTACATGGCTCAC
*
13723414 ATGAGCTTTCCATTACATGGCTCAC
1 ATGAGCTTCCCATTACATGGCTCAC
13723439 ATGAGCTTCCC
1 ATGAGCTTCCC
13723450 GTGATATGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (25 bp):
ATGAGCTTCCCATTACATGGCTCAC
Found at i:13727379 original size:129 final size:130
Alignment explanation
Indices: 13727136--13727389 Score: 431
Period size: 129 Copynumber: 2.0 Consensus size: 130
13727126 TAAAATATTA
*
13727136 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATATTTTCTAAGCAAAAAATATAAAAA
1 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATATTTTCTAAACAAAAAATATAAAAA
* *
13727201 CAATAAGATTTAAATTTAAAACACTGTATTTTGATGATTTGTACTTTACCATTTCAACTAAATTT
66 CAATAAGATTTAAATTTAAAACACTGTATTTTGAAGATATGTACTTTACCATTTCAACTAAATTT
13727266 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATAATTTT-TAAACAAAAAATA-AAAA
1 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTAT-ATTTTCTAAACAAAAAATATAAAA
* * *
13727329 ATAATTAGATTTAAATTTAAAACACTGTATTTTGAAGATATGTACTTTACCCTTTCAACTA
65 ACAATAAGATTTAAATTTAAAACACTGTATTTTGAAGATATGTACTTTACCATTTCAACTA
13727390 GATTCTTACT
Statistics
Matches: 117, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
129 60 0.51
130 52 0.44
131 5 0.04
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (130 bp):
TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATATTTTCTAAACAAAAAATATAAAAA
CAATAAGATTTAAATTTAAAACACTGTATTTTGAAGATATGTACTTTACCATTTCAACTAAATTT
Found at i:13745116 original size:24 final size:25
Alignment explanation
Indices: 13745068--13745129 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
13745058 TTCAAATACA
*
13745068 ATTTTAGAATTTAGATTTTATTATT
1 ATTTTAGAATTTAGAATTTATTATT
*
13745093 ATTTTGGAATTT-GAATTTATTATTT
1 ATTTTAGAATTTAGAATTTATTA-TT
13745118 ATATTTA-AATTT
1 AT-TTTAGAATTT
13745130 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.28
25 20 0.62
26 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (25 bp):
ATTTTAGAATTTAGAATTTATTATT
Found at i:13746799 original size:22 final size:22
Alignment explanation
Indices: 13746774--13746825 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
13746764 AAATAATAGC
13746774 ATATTAGA-AATTATATAATCTT
1 ATATTA-ATAATTATATAATCTT
* *
13746796 ATATTAATATTTATATAATTTT
1 ATATTAATAATTATATAATCTT
13746818 A-ATTAATA
1 ATATTAATA
13746826 TTTGAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
ATATTAATAATTATATAATCTT
Found at i:13746834 original size:21 final size:22
Alignment explanation
Indices: 13746784--13746828 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
13746774 ATATTAGAAA
13746784 TTATATAATCTTATATTAATAT
1 TTATATAATCTTATATTAATAT
*
13746806 TTATATAATTTTA-ATTAATAT
1 TTATATAATCTTATATTAATAT
13746827 TT
1 TT
13746829 GAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATATAATCTTATATTAATAT
Found at i:13750233 original size:20 final size:20
Alignment explanation
Indices: 13750208--13750252 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13750198 TGAATTTATA
13750208 TTTTTTAGAATCATT-AATAT
1 TTTTTTAGAAT-ATTAAATAT
* *
13750228 TTTTTTATAATTTTAAATAT
1 TTTTTTAGAATATTAAATAT
13750248 TTTTT
1 TTTTT
13750253 ATAGTTTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTTAGAATATTAAATAT
Found at i:13750253 original size:19 final size:18
Alignment explanation
Indices: 13750205--13750260 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
13750195 AAATGAATTT
* *
13750205 ATATTTTTTAGAATCATTA
1 ATATTTTTTATAAT-TTTA
13750224 ATATTTTTTTATAATTTTAA
1 ATA-TTTTTTATAATTTT-A
*
13750244 ATATTTTTTATAGTTTT
1 ATATTTTTTATAATTTT
13750261 GCACTCATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (18 bp):
ATATTTTTTATAATTTTA
Found at i:13750417 original size:15 final size:16
Alignment explanation
Indices: 13750380--13750418 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
13750370 ATATTAATAC
*
13750380 TTTTTTA-ATTTTTAA
1 TTTTTTATATTTTGAA
13750395 TTTTTTATA-TTTGAA
1 TTTTTTATATTTTGAA
13750410 TTTTTTATA
1 TTTTTTATA
13750419 ACTTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTTTATATTTTGAA
Found at i:13751948 original size:12 final size:12
Alignment explanation
Indices: 13751933--13751978 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
13751923 TAGCAACAAT
13751933 AACAGCAAAAAC
1 AACAGCAAAAAC
* *
13751945 AACAACAAAATC
1 AACAGCAAAAAC
*
13751957 AATAGCAAAAAC
1 AACAGCAAAAAC
*
13751969 AACACCAAAA
1 AACAGCAAAA
13751979 TATCAGGAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.67, C:0.24, G:0.04, T:0.04
Consensus pattern (12 bp):
AACAGCAAAAAC
Found at i:13751963 original size:36 final size:36
Alignment explanation
Indices: 13751909--13751978 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
13751899 AAAAAACCCA
* * * * *
13751909 AACAACAAAAAGAGTAGCAACAATAACAGCAAAAAC
1 AACAACAAAAACAATAGCAAAAACAACACCAAAAAC
*
13751945 AACAACAAAATCAATAGCAAAAACAACACCAAAA
1 AACAACAAAAACAATAGCAAAAACAACACCAAAA
13751979 TATCAGGAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.66, C:0.21, G:0.07, T:0.06
Consensus pattern (36 bp):
AACAACAAAAACAATAGCAAAAACAACACCAAAAAC
Found at i:13752302 original size:14 final size:14
Alignment explanation
Indices: 13752260--13752302 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
13752250 AGTAGTAAAA
*
13752260 ATAAATATATTATTT
1 ATAAA-ATATTATAT
*
13752275 ATAAAATGTTATAT
1 ATAAAATATTATAT
*
13752289 ATAAAATATCATAT
1 ATAAAATATTATAT
13752303 CACTTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (14 bp):
ATAAAATATTATAT
Found at i:13755533 original size:26 final size:27
Alignment explanation
Indices: 13755485--13755538 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
13755475 TTTGGTTTTC
*
13755485 TTTTCCTTTCATTTTTAGATTAGGTTT
1 TTTTCCTTTCATTTTTAGATTAGATTT
*
13755512 TTTTCTTTTC-TTTTTA-AGTTAGATTT
1 TTTTCCTTTCATTTTTAGA-TTAGATTT
13755538 T
1 T
13755539 AGTTTTGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 14 0.58
27 9 0.38
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.67
Consensus pattern (27 bp):
TTTTCCTTTCATTTTTAGATTAGATTT
Found at i:13765666 original size:166 final size:166
Alignment explanation
Indices: 13765392--13765717 Score: 598
Period size: 166 Copynumber: 2.0 Consensus size: 166
13765382 CCAACAGCAG
*
13765392 ACAATTTTAGCTTTTTGCCGAATCCCATTTTCTGCGTTTCAGATACACACCTGGTTTTGTTTGAT
1 ACAATTTTAGCTTTTCGCCGAATCCCATTTTCTGCGTTTCAGATACACACCTGGTTTTGTTTGAT
*
13765457 GCTAAAACAGTCCCCGAGCACTCCAAAGCCTATAATTGAACAAATAACACTAATTTAATCTCACA
66 GCTAAAACAGTCCCCGAGCACTCCAAAGCCTATAATTGAACAAAGAACACTAATTTAATCTCACA
13765522 TAACGTGATCCCAAATCGAACTCGTATCAATAGAAA
131 TAACGTGATCCCAAATCGAACTCGTATCAATAGAAA
*
13765558 ACAATTTTAGCTTTTCGTCGAATCCCATTTTCTGCGTTTCAGATACACACCTGGTTTTGTTTGAT
1 ACAATTTTAGCTTTTCGCCGAATCCCATTTTCTGCGTTTCAGATACACACCTGGTTTTGTTTGAT
**
13765623 GCTAAAACAGTCTTCGAGCACTCCAAAGCCTATAATTGAACAAAGAACACTAATTTAATCTCACA
66 GCTAAAACAGTCCCCGAGCACTCCAAAGCCTATAATTGAACAAAGAACACTAATTTAATCTCACA
*
13765688 TAATGTGATCCCAAATCGAACTCGTATCAA
131 TAACGTGATCCCAAATCGAACTCGTATCAA
13765718 GGTTTTAACC
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 154 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.31
Consensus pattern (166 bp):
ACAATTTTAGCTTTTCGCCGAATCCCATTTTCTGCGTTTCAGATACACACCTGGTTTTGTTTGAT
GCTAAAACAGTCCCCGAGCACTCCAAAGCCTATAATTGAACAAAGAACACTAATTTAATCTCACA
TAACGTGATCCCAAATCGAACTCGTATCAATAGAAA
Found at i:13769837 original size:27 final size:25
Alignment explanation
Indices: 13769807--13769884 Score: 95
Period size: 25 Copynumber: 3.0 Consensus size: 25
13769797 CACATAAACA
13769807 GGAAGCTCACTCTCGAGCCGTATAACG
1 GGAAGCTCA-T-TCGAGCCGTATAACG
* *
13769834 GGAAGCTCATGT-GAGCCATGTAACG
1 GGAAGCTCAT-TCGAGCCGTATAACG
*
13769859 GGAAGCTCATTCGAGCTGTATAACG
1 GGAAGCTCATTCGAGCCGTATAACG
13769884 G
1 G
13769885 AAAGTTCAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.02
25 32 0.73
26 2 0.05
27 9 0.20
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (25 bp):
GGAAGCTCATTCGAGCCGTATAACG
Found at i:13769843 original size:52 final size:51
Alignment explanation
Indices: 13769779--13769884 Score: 135
Period size: 52 Copynumber: 2.1 Consensus size: 51
13769769 AATTCATATC
13769779 CGGGAATGCTCATATGAGCACAT-AAACAGGAAGCTCACTCTCGAGCCGTATAA
1 CGGGAATGCTCATATGAGC-CATGAAACAGGAAGCTCA-T-TCGAGCCGTATAA
* * * *
13769832 CGGGAA-GCTCATGTGAGCCATGTAACGGGAAGCTCATTCGAGCTGTATAA
1 CGGGAATGCTCATATGAGCCATGAAACAGGAAGCTCATTCGAGCCGTATAA
13769882 CGG
1 CGG
13769885 AAAGTTCAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
50 15 0.31
51 4 0.08
52 23 0.48
53 6 0.12
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (51 bp):
CGGGAATGCTCATATGAGCCATGAAACAGGAAGCTCATTCGAGCCGTATAA
Found at i:13769874 original size:25 final size:26
Alignment explanation
Indices: 13769779--13769884 Score: 94
Period size: 25 Copynumber: 4.1 Consensus size: 26
13769769 AATTCATATC
*
13769779 CGGGAATGCTCATAT-GAGCACATA-AA
1 CGGGAA-GCTCATCTCGAGC-CATATAA
* *
13769805 CAGGAAGCTCACTCTCGAGCCGTATAA
1 CGGGAAGCTCA-TCTCGAGCCATATAA
* *
13769832 CGGGAAGCTCATGT-GAGCCATGTAA
1 CGGGAAGCTCATCTCGAGCCATATAA
**
13769857 CGGGAAGCTCAT-TCGAGCTGTATAA
1 CGGGAAGCTCATCTCGAGCCATATAA
13769882 CGG
1 CGG
13769885 AAAGTTCAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
24 1 0.02
25 37 0.56
26 12 0.18
27 16 0.24
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (26 bp):
CGGGAAGCTCATCTCGAGCCATATAA
Found at i:13771000 original size:27 final size:26
Alignment explanation
Indices: 13770969--13771190 Score: 146
Period size: 27 Copynumber: 8.3 Consensus size: 26
13770959 TCCCAAAATA
*
13770969 AGTAAAATAACCAAAATAACCCCATAG
1 AGTAAAATGACCAAAAT-ACCCCATAG
* *
13770996 AGTAAAATGACCGAAATACCCTATAG
1 AGTAAAATGACCAAAATACCCCATAG
* *
13771022 GGTAAAATGACCAAAATACCCCCGTA-
1 AGTAAAATGACCAAAATA-CCCCATAG
* * *
13771048 AGGTAAAAT-AACAGAAATACCCTAACAG
1 A-GTAAAATGACCA-AAATACCC-CATAG
* * * *
13771076 GGGAAAATGATCGAAATACCCCTATA-
1 AGTAAAATGACCAAAATACCCC-ATAG
* ** * *
13771102 AGGTAAAATAACTGAAATGCCCCCTAG
1 A-GTAAAATGACCAAAATACCCCATAG
13771129 -GATAAAATGACCAAAATACCCCCATAG
1 AG-TAAAATGACCAAAATA-CCCCATAG
* *
13771156 GGTAAAATGACCGAAATACCCCCATAG
1 AGTAAAATGACCAAAATA-CCCCATAG
*
13771183 GGTAAAAT
1 AGTAAAAT
13771191 AACTGTTATG
Statistics
Matches: 152, Mismatches: 31, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
25 1 0.01
26 44 0.29
27 104 0.68
28 3 0.02
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (26 bp):
AGTAAAATGACCAAAATACCCCATAG
Found at i:13771054 original size:53 final size:53
Alignment explanation
Indices: 13770970--13771190 Score: 246
Period size: 53 Copynumber: 4.1 Consensus size: 53
13770960 CCCAAAATAA
* * * *
13770970 GTAAAATAACCAAAATAACCCCAT-AGAGTAAAATGACCGAAATACCCTATAGG
1 GTAAAATGACCAAAATACCCCCATAAG-GTAAAATAACCGAAATACCCCATAGG
* * * *
13771023 GTAAAATGACCAAAATACCCCCGTAAGGTAAAATAACAGAAATACCCTAACAGG
1 GTAAAATGACCAAAATACCCCCATAAGGTAAAATAACCGAAATACCC-CATAGG
* * * * * * *
13771077 GGAAAATGATCGAAATACCCCTATAAGGTAAAATAACTGAAATGCCCCCTAGG
1 GTAAAATGACCAAAATACCCCCATAAGGTAAAATAACCGAAATACCCCATAGG
* * *
13771130 ATAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAAGGTAAAATAACCGAAATA-CCCCATAGG
13771184 GTAAAAT
1 GTAAAAT
13771191 AACTGTTATG
Statistics
Matches: 137, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
53 77 0.56
54 60 0.44
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (53 bp):
GTAAAATGACCAAAATACCCCCATAAGGTAAAATAACCGAAATACCCCATAGG
Found at i:13771135 original size:80 final size:81
Alignment explanation
Indices: 13770999--13771195 Score: 240
Period size: 80 Copynumber: 2.5 Consensus size: 81
13770989 CCCATAGAGT
* **
13770999 AAAATGACCGAAATA-CCCTATAGGGTAAAATGACCAAAATACCCCCGTAAGGTAAAAT-AACAG
1 AAAATGACCGAAATACCCCTATAGGGTAAAATAACTGAAATACCCCCGTAAGGTAAAATGAACA-
*
13771062 AAATACCCTAACAGGGG
65 AAATACCCCAACAGGGG
* * * *
13771079 AAAATGATCGAAATACCCCTATAAGGTAAAATAACTGAAATGCCCCC-T-AGGATAAAATGACCA
1 AAAATGACCGAAATACCCCTATAGGGTAAAATAACTGAAATACCCCCGTAAGG-TAAAATGAACA
* * *
13771142 AAATACCCCCATAGGGT
65 AAATACCCCAACAGGGG
*
13771159 AAAATGACCGAAATACCCCCATAGGGTAAAATAACTG
1 AAAATGACCGAAATACCCCTATAGGGTAAAATAACTG
13771196 TTATGGCCCT
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 3 0.03
80 68 0.68
81 29 0.29
ACGTcount: A:0.45, C:0.22, G:0.16, T:0.17
Consensus pattern (81 bp):
AAAATGACCGAAATACCCCTATAGGGTAAAATAACTGAAATACCCCCGTAAGGTAAAATGAACAA
AATACCCCAACAGGGG
Found at i:13774650 original size:27 final size:27
Alignment explanation
Indices: 13774620--13774948 Score: 385
Period size: 27 Copynumber: 12.3 Consensus size: 27
13774610 CCTAAAATAA
*
13774620 GTAAAATAACCAAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
*
13774647 GTAAAATGACC-AAATA-TCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* **
13774672 GTAAAATAACCAAAATACCCTTATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* *
13774699 GTAAAAT-AACAGAAATACGCCCATAGG
1 GTAAAATGACCA-AAATACCCCCATAGG
* * * *
13774726 GTAAAATGATCGAAATGCCCTCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* *
13774753 GTAAAATGACAAAAATACCCCCATAAG
1 GTAAAATGACCAAAATACCCCCATAGG
* * *
13774780 GAAAAATGACCAAAATATCGCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* * *
13774807 GTAAAATGACTAAAATACCCCTATAGA
1 GTAAAATGACCAAAATACCCCCATAGG
* * *
13774834 ATAAAATGACTAAAATACCCTCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* *
13774861 GTAAAATGATCGAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* *
13774888 GTAAAATGACCAAAATACCTCTATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
*
13774915 GTAAAATGACCGAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
13774942 GTAAAAT
1 GTAAAAT
13774949 AATTGTTATA
Statistics
Matches: 250, Mismatches: 48, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
25 18 0.07
26 13 0.05
27 217 0.87
28 2 0.01
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (27 bp):
GTAAAATGACCAAAATACCCCCATAGG
Found at i:13783142 original size:21 final size:22
Alignment explanation
Indices: 13783102--13783143 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
13783092 TATATAATTC
*
13783102 ACATATACAACATTCAATTTAA
1 ACATATACAACATACAATTTAA
*
13783124 ACATATA-AATATACAATTTA
1 ACATATACAACATACAATTTA
13783144 GTTACACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
ACATATACAACATACAATTTAA
Found at i:13788522 original size:23 final size:23
Alignment explanation
Indices: 13788495--13788570 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
13788485 AATGTTATTG
13788495 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
13788518 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13788541 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13788564 ATCAGTG
1 ATCAGTG
13788571 TGGTACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13800631 original size:99 final size:98
Alignment explanation
Indices: 13800527--13800708 Score: 355
Period size: 99 Copynumber: 1.8 Consensus size: 98
13800517 GGAATAAATT
13800527 AAATTAAAGACAAGTGTATGGTGATTAAATTAAACATGTGTAAAATATATAAAAACACACTTGTA
1 AAATTAAAGACAAGTGTATGGTGATTAAATTAAACATGTGTAAAATATATAAAAACACACTTGTA
13800592 ATAAAATAAAATATTTTCTTATAATTTAAGTAAA
66 ATAAAAT-AAATATTTTCTTATAATTTAAGTAAA
13800626 AAATTAAAGACAAGTGTATGGTGATTAAATTAAACATGTGTAAAATATATAAAAACACACTTGTA
1 AAATTAAAGACAAGTGTATGGTGATTAAATTAAACATGTGTAAAATATATAAAAACACACTTGTA
13800691 ATAAAATAAATATTTTCT
66 ATAAAATAAATATTTTCT
13800709 AAGTAAAAGA
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 11 0.13
99 72 0.87
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (98 bp):
AAATTAAAGACAAGTGTATGGTGATTAAATTAAACATGTGTAAAATATATAAAAACACACTTGTA
ATAAAATAAATATTTTCTTATAATTTAAGTAAA
Found at i:13815620 original size:36 final size:33
Alignment explanation
Indices: 13815544--13815653 Score: 98
Period size: 33 Copynumber: 3.2 Consensus size: 33
13815534 ATTTTGTTCC
*
13815544 AAGTTTGTTGCAATAAATCTAATTTAAATTACA
1 AAGTTTGTTCCAATAAATCTAATTTAAATTACA
13815577 ACA-TTTGTTCCAATAAATCTCAA-TTAAATAAATACA
1 A-AGTTTGTTCCAATAAATCT-AATTTAAAT---TACA
* * * * *
13815613 AAGTTTGTTCAAACATATGTCATTTAAAATTACA
1 AAGTTTGTTCCAATAAATCTAATTT-AAATTACA
13815647 AAGTTTG
1 AAGTTTG
13815654 AATTTTCGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
33 23 0.37
34 14 0.22
35 2 0.03
36 20 0.32
37 4 0.06
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (33 bp):
AAGTTTGTTCCAATAAATCTAATTTAAATTACA
Found at i:13817467 original size:22 final size:22
Alignment explanation
Indices: 13817442--13817492 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
13817432 AAATAAATTA
*
13817442 AAAATAACATAAA-AATGAC-AAT
1 AAAATAAC-TAAATAAT-ACTAAC
*
13817464 AAAAAAACTAAATAATACTAAC
1 AAAATAACTAAATAATACTAAC
13817486 AAAATAA
1 AAAATAA
13817493 TTTATAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.71, C:0.10, G:0.02, T:0.18
Consensus pattern (22 bp):
AAAATAACTAAATAATACTAAC
Found at i:13825873 original size:43 final size:43
Alignment explanation
Indices: 13825825--13825912 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
13825815 AATGTTTTAG
13825825 AAAAAGACACTTATCCTTGTTGAATTGATAAAATCTCAATTAT
1 AAAAAGACACTTATCCTTGTTGAATTGATAAAATCTCAATTAT
*
13825868 AAAAAGACATTTATCCTTGTTGAATTGATAAAATCTCAATTAT
1 AAAAAGACACTTATCCTTGTTGAATTGATAAAATCTCAATTAT
13825911 AA
1 AA
13825913 TCATAAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (43 bp):
AAAAAGACACTTATCCTTGTTGAATTGATAAAATCTCAATTAT
Found at i:13826702 original size:37 final size:38
Alignment explanation
Indices: 13826651--13826722 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
13826641 TTTTTCTCTC
**
13826651 CCATCAACTTTTTTTTTC-TTCTTCTTCTCATTCATTA
1 CCATCAACCCTTTTTTTCTTTCTTCTTCTCATTCATTA
*
13826688 CCATCAACCCTTTTTTTCTTTCTTTTTCTCATTCA
1 CCATCAACCCTTTTTTTCTTTCTTCTTCTCATTCA
13826723 CTACATATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.15, C:0.29, G:0.00, T:0.56
Consensus pattern (38 bp):
CCATCAACCCTTTTTTTCTTTCTTCTTCTCATTCATTA
Found at i:13835486 original size:10 final size:10
Alignment explanation
Indices: 13835437--13835484 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
13835427 TAAATTCCTA
13835437 AAAGATAAAT
1 AAAGATAAAT
** *
13835447 AAATTTAATT
1 AAAGATAAAT
*
13835457 GAAGATAAAT
1 AAAGATAAAT
13835467 AAAGATAAAT
1 AAAGATAAAT
13835477 AAA-ATAAA
1 AAAGATAAA
13835485 ATCCTAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:13837984 original size:33 final size:31
Alignment explanation
Indices: 13837934--13838014 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 31
13837924 CATAATTTGA
* *
13837934 ATATA-TTTAAAACTTTTAAATATATCTTTTT
1 ATATATTTTAATA-TTTTAAACATATCTTTTT
* * *
13837965 ATAATTTTTTGAATATTTTATACATATTTTTTT
1 AT-ATATTTT-AATATTTTAAACATATCTTTTT
13837998 ATATATTTTAATATTTT
1 ATATATTTTAATATTTT
13838015 TAATTTTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
31 10 0.24
32 8 0.20
33 20 0.49
34 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (31 bp):
ATATATTTTAATATTTTAAACATATCTTTTT
Found at i:13838003 original size:12 final size:12
Alignment explanation
Indices: 13837953--13838006 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
13837943 AAACTTTTAA
*
13837953 ATATATCTTTTT
1 ATATATTTTTTT
*
13837965 ATA-ATTTTTTG
1 ATATATTTTTTT
*
13837976 A-ATA-TTTTAT
1 ATATATTTTTTT
*
13837986 ACATATTTTTTT
1 ATATATTTTTTT
13837998 ATATATTTT
1 ATATATTTT
13838007 AATATTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
10 6 0.18
11 11 0.33
12 16 0.48
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (12 bp):
ATATATTTTTTT
Found at i:13841599 original size:13 final size:14
Alignment explanation
Indices: 13841576--13841604 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13841566 CTAATTTTAA
13841576 TATTATTAATATTT
1 TATTATTAATATTT
13841590 TATT-TTAATATTT
1 TATTATTAATATTT
13841603 TA
1 TA
13841605 AAAATACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTAATATTT
Found at i:13844554 original size:24 final size:24
Alignment explanation
Indices: 13844517--13844572 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
13844507 TATACAGAAT
* * *
13844517 CAAATGTATTTTCATAACCAGATA
1 CAAATGCATATTCAGAACCAGATA
* **
13844541 CAGATGCATATTCAGATTCAGATA
1 CAAATGCATATTCAGAACCAGATA
13844565 CAAATGCA
1 CAAATGCA
13844573 GACACAGGTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (24 bp):
CAAATGCATATTCAGAACCAGATA
Found at i:13849914 original size:21 final size:21
Alignment explanation
Indices: 13849888--13849931 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
13849878 CATACATCTG
13849888 AAATATCATAAGCATACACAC
1 AAATATCATAAGCATACACAC
13849909 AAATATCATAAGCATACACAC
1 AAATATCATAAGCATACACAC
13849930 AA
1 AA
13849932 CTAGGGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.23, G:0.05, T:0.18
Consensus pattern (21 bp):
AAATATCATAAGCATACACAC
Found at i:13850631 original size:17 final size:17
Alignment explanation
Indices: 13850587--13850649 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 17
13850577 AGTAAAGGGT
*
13850587 GAGAAGTAAAAGTTTAG
1 GAGAAATAAAAGTTTAG
*
13850604 GAGAAAATAAAAAGTTTTG
1 GAG-AAAT-AAAAGTTTAG
13850623 GAG-AATAAAAGTTTGAG
1 GAGAAATAAAAGTTT-AG
13850640 G-GAAAGTAAA
1 GAGAAA-TAAA
13850650 TAGGGGGAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 9 0.24
17 10 0.26
18 7 0.18
19 12 0.32
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (17 bp):
GAGAAATAAAAGTTTAG
Found at i:13850868 original size:58 final size:58
Alignment explanation
Indices: 13850790--13850920 Score: 219
Period size: 58 Copynumber: 2.3 Consensus size: 58
13850780 AGGGTTTTTG
* *
13850790 GGAGTAAAA-TTTTGGTGGGAAATAGATTTTGGGTAGATTGGGGGGTTGGGAGGGGAGA
1 GGAGTAAAAGTTTT-GAGGGAAAAAGATTTTGGGTAGATTGGGGGGTTGGGAGGGGAGA
*
13850848 GGAGTAAAAGTTTTGAGGGAAAAAGATTTTGGGTAGATTGGGGGGTTGGGAGGGGAGG
1 GGAGTAAAAGTTTTGAGGGAAAAAGATTTTGGGTAGATTGGGGGGTTGGGAGGGGAGA
13850906 GGAGTAAAAGTTTTG
1 GGAGTAAAAGTTTTG
13850921 GGGGGAAAGT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
58 65 0.94
59 4 0.06
ACGTcount: A:0.27, C:0.00, G:0.46, T:0.27
Consensus pattern (58 bp):
GGAGTAAAAGTTTTGAGGGAAAAAGATTTTGGGTAGATTGGGGGGTTGGGAGGGGAGA
Found at i:13851106 original size:9 final size:9
Alignment explanation
Indices: 13851089--13851119 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13851079 TCGAGTTGAT
13851089 TCGAATAAC
1 TCGAATAAC
*
13851098 TCGATTAAC
1 TCGAATAAC
13851107 TCGAATAAC
1 TCGAATAAC
13851116 TCGA
1 TCGA
13851120 TTCGTTTAAC
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:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:13851745 original size:14 final size:13
Alignment explanation
Indices: 13851713--13851754 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13851703 AACTTTAATA
13851713 TATTTTTATATTATT
1 TATTTTTA-A-TATT
*
13851728 T-TTTTAAATATT
1 TATTTTTAATATT
13851740 TATTTTTAATATT
1 TATTTTTAATATT
13851753 TA
1 TA
13851755 CGGACTCAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 5 0.21
13 13 0.54
14 5 0.21
15 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTTTAATATT
Found at i:13851917 original size:46 final size:46
Alignment explanation
Indices: 13851867--13851955 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
13851857 CATAGAATGA
13851867 GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGAGAG
1 GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGAGAG
*
13851913 GTTTGGCATAGAGAGAGACTCAAACCTAAGATTTAAGAGTTGA
1 GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGA
13851956 CTGACCTCTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (46 bp):
GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGAGAG
Found at i:13853936 original size:4 final size:4
Alignment explanation
Indices: 13853923--13853952 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
13853913 CAAAGAATAA
13853923 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
13853953 AACTAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:13856111 original size:21 final size:22
Alignment explanation
Indices: 13856085--13856125 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
13856075 ACTATTTTTA
13856085 TTAAAAA-TTAATTTTAATCCC
1 TTAAAAATTTAATTTTAATCCC
13856106 TTAAAAATTTAATTTTAATC
1 TTAAAAATTTAATTTTAATC
13856126 TCACATTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAAAAATTTAATTTTAATCCC
Found at i:13856425 original size:69 final size:69
Alignment explanation
Indices: 13856266--13856435 Score: 179
Period size: 69 Copynumber: 2.5 Consensus size: 69
13856256 TATAAATATT
* *
13856266 TTTTCCCTATTTTCA-TAAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACTCATATAGC
1 TTTTCACTAATTTCATTAAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACTCATATAGC
*
13856330 TCAC
66 TCAA
* * * * * * *
13856334 TTTTTACTATTTTTATTGAAAAAAATT-ATTTTAATCTCTCATTGACTAGAGAATACT-TTCATA
1 TTTTCACTAATTTCATT-AAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACTCAT-ATA
*
13856397 GTTCAA
64 GCTCAA
13856403 TTCTTCACTAATTTCATT--AAAAATTAATTTTAA
1 TT-TTCACTAATTTCATTAAAAAAATTAATTTTAA
13856436 CTAGAGAATA
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
67 7 0.08
68 20 0.24
69 37 0.44
70 21 0.25
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.43
Consensus pattern (69 bp):
TTTTCACTAATTTCATTAAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACTCATATAGC
TCAA
Found at i:13859031 original size:67 final size:67
Alignment explanation
Indices: 13858945--13859113 Score: 184
Period size: 67 Copynumber: 2.5 Consensus size: 67
13858935 AGTGATAATT
* * * * * * *
13858945 TCTTCACCATTTTTCTTAAAAAAGTTAATTTTAATCT-CATATTGACTAGATAATACTCTTATAA
1 TCTTCACTATTTTTATTAAAAAA-TTAATTTTAATCTCCACACTGACTAAAGAATACTC-GATAA
13859009 CTCA
64 CTCA
*
13859013 -CTTCACTATTTTTATTAAAAAATTAATTTTAAT-TCCACACTGATTAAAGAATACTCGATAACT
1 TCTTCACTATTTTTATTAAAAAATTAATTTTAATCTCCACACTGACTAAAGAATACTCGATAACT
13859076 CA
66 CA
* *
13859078 CTTCTTCACTAGTTTCATTAAAAAA-TAATTTTAATC
1 --TCTTCACTATTTTTATTAAAAAATTAATTTTAATC
13859114 CCTCATTGGC
Statistics
Matches: 86, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
65 9 0.10
66 27 0.31
67 30 0.35
68 20 0.23
ACGTcount: A:0.37, C:0.17, G:0.04, T:0.41
Consensus pattern (67 bp):
TCTTCACTATTTTTATTAAAAAATTAATTTTAATCTCCACACTGACTAAAGAATACTCGATAACT
CA
Found at i:13861229 original size:18 final size:19
Alignment explanation
Indices: 13861208--13861247 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
13861198 ACTAATAAAT
13861208 TTTAATATAAGAT-ATTTA
1 TTTAATATAAGATAATTTA
* *
13861226 TTTAATATTATATAATTTA
1 TTTAATATAAGATAATTTA
13861245 TTT
1 TTT
13861248 TTATTATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTAATATAAGATAATTTA
Found at i:13866952 original size:35 final size:35
Alignment explanation
Indices: 13866903--13866973 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
13866893 GTCAATCTAG
*
13866903 AGGTAAAGATAGATGCCGAGACAAATGGCGGAGAT
1 AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
* *
13866938 AGGTAAAGACAGATGCCGAGGCAAATGGTGGAGAT
1 AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
13866973 A
1 A
13866974 CCGACCTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.35, T:0.14
Consensus pattern (35 bp):
AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
Found at i:13868627 original size:25 final size:24
Alignment explanation
Indices: 13868575--13868626 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
13868565 TTGAATATTA
*
13868575 TTTAATATTTTTTATTTTATGTAAT
1 TTTAATAATTTTTATTTTA-GTAAT
13868600 TTTAATTAATTTTTATTTTA-TAAT
1 TTTAA-TAATTTTTATTTTAGTAAT
13868624 TTT
1 TTT
13868627 TTATAACAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 13 0.52
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTAATAATTTTTATTTTAGTAAT
Found at i:13868628 original size:26 final size:26
Alignment explanation
Indices: 13868551--13868629 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 26
13868541 AATGGTATGG
*
13868551 ATTAATTTTAATTTT-TGAATATTATTTA
1 ATTAATTTTTATTTTAT-AAT-TT-TTTA
*
13868579 A-TATTTTTTATTTTATGTAA--TTTTA
1 ATTAATTTTTATTTTA--TAATTTTTTA
13868604 ATTAATTTTTATTTTATAATTTTTTA
1 ATTAATTTTTATTTTATAATTTTTTA
13868630 TAACAGTTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
24 3 0.07
25 5 0.12
26 19 0.45
27 11 0.26
28 1 0.02
29 2 0.05
30 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (26 bp):
ATTAATTTTTATTTTATAATTTTTTA
Found at i:13870188 original size:18 final size:18
Alignment explanation
Indices: 13870165--13870199 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13870155 GTCAGGTGCG
*
13870165 TATCCTAGCCCTTATATA
1 TATCCTAACCCTTATATA
13870183 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
13870200 GTTTCTTTTT
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:0.29, C:0.29, G:0.03, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:13870656 original size:29 final size:28
Alignment explanation
Indices: 13870623--13870707 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 28
13870613 GTACAAACTT
13870623 ATTTATATTGTTTTATTTAATAAAATAAA
1 ATTTATATT-TTTTATTTAATAAAATAAA
* * *
13870652 ATTTAT-TTTTAATATTTTAATAGTAAATTAT
1 ATTTATATTTT-TTA-TTTAATA--AAATAAA
*
13870683 TTTTATA-TTTTTATTTAATAAAATA
1 ATTTATATTTTTTATTTAATAAAATA
13870708 GAAGTTCTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
27 6 0.13
28 4 0.09
29 20 0.44
30 2 0.04
31 13 0.29
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTTATATTTTTTATTTAATAAAATAAA
Found at i:13870673 original size:24 final size:23
Alignment explanation
Indices: 13870646--13870693 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
13870636 TATTTAATAA
13870646 AATA-AAATTTATTTTTAATATTTT
1 AATAGAAA-TTATTTTT-ATATTTT
13870670 AATAGTAAATTATTTTTATATTTT
1 AATAG-AAATTATTTTTATATTTT
13870694 TATTTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.50
25 8 0.36
26 3 0.14
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
AATAGAAATTATTTTTATATTTT
Found at i:13870732 original size:58 final size:59
Alignment explanation
Indices: 13870624--13870736 Score: 131
Period size: 58 Copynumber: 1.9 Consensus size: 59
13870614 TACAAACTTA
* * ****
13870624 TTTATATTGTTTTATTTAATAAAATAAAATTTATTTTTAATATTTTAATAGTAAATTATT
1 TTTATATTGTTTTATTTAATAAAATAAAAGTTATTTTGAATAAGGCAATAG-AAATTATT
* *
13870684 TTTATA-T-TTTTATTTAATAAAATAGAAGTTCTTTTGAATAAGGCAATAGAAAT
1 TTTATATTGTTTTATTTAATAAAATAAAAGTTATTTTGAATAAGGCAATAGAAAT
13870737 AATGCAACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
57 4 0.09
58 34 0.76
59 1 0.02
60 6 0.13
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (59 bp):
TTTATATTGTTTTATTTAATAAAATAAAAGTTATTTTGAATAAGGCAATAGAAATTATT
Found at i:13873726 original size:126 final size:126
Alignment explanation
Indices: 13873558--13874080 Score: 859
Period size: 126 Copynumber: 4.2 Consensus size: 126
13873548 TAACGCCAAA
* * * *
13873558 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGTTGTCAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
* * * *
13873623 ATCTTGCTTGAAGTGTTTTTGACACTATTTGTTTAGAAGCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *
13873684 CAGGAGCTACTGTAGAAAAAGAATGTCCACGTATGAGCTTTTTTCATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
* * * *
13873749 ATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
13873810 CAGGAACTACTGTAGAAAAAGAGCGTCCACATAGGAGC-TTTTTCATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
13873874 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
13873935 CAGGAACTACTGTAGAAAAAGAACGTCCATGTAGGAGTTTTTTTCATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
*
13874000 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
13874061 CAGGAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
13874081 AAAATCCTTA
Statistics
Matches: 367, Mismatches: 29, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
125 117 0.32
126 250 0.68
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:13874002 original size:251 final size:252
Alignment explanation
Indices: 13873558--13874080 Score: 877
Period size: 251 Copynumber: 2.1 Consensus size: 252
13873548 TAACGCCAAA
* * * *
13873558 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGTTGTCAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
* * * *
13873623 ATCTTGCTTGAAGTGTTTTTGACACTATTTGTTTAGAAGCGTCTTCTCAAAATTATTTTTTCAGG
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGG
* * *
13873688 AGCTACTGTAGAAAAAGAATGTCCACGTATGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
131 AACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
* **
13873753 TGCTTGAAGCATTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTT
196 TGCTTGAAGCATTTTTGACACTATTTGTTCAAAACCATCTTCTCAAAATTATTTTTT
13873810 CAGGAACTACTGTAGAAAAAGAGCGTCCACATAGGAGC-TTTTTCATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
13873874 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGG
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGG
* *
13873939 AACTACTGTAGAAAAAGAACGTCCATGTAGGAGTTTTTTTCATCAATTTTGCTGACAGTGCATCC
131 AACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
* *
13874004 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTT
196 TGCTTGAAGCATTTTTGACACTATTTGTTCAAAACCATCTTCTCAAAATTATTTTTT
13874061 CAGGAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
13874081 AAAATCCTTA
Statistics
Matches: 253, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
251 217 0.86
252 36 0.14
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (252 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACATAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGG
AACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
TGCTTGAAGCATTTTTGACACTATTTGTTCAAAACCATCTTCTCAAAATTATTTTTT
Found at i:13874179 original size:34 final size:33
Alignment explanation
Indices: 13874137--13874239 Score: 134
Period size: 34 Copynumber: 3.1 Consensus size: 33
13874127 CACAAAGTTA
13874137 TTTTAAAAACTCTAAACCCTAATTTAATTAATT
1 TTTTAAAAACTCTAAACCCTAATTTAATTAATT
* * *
13874170 TTCTTAAAAACTCTACACCTTAATTTAATTTATT
1 TT-TTAAAAACTCTAAACCCTAATTTAATTAATT
* * *
13874204 TATTTAAAACCCCTAAAACCTAATTTAATTAATT
1 T-TTTAAAAACTCTAAACCCTAATTTAATTAATT
13874238 TT
1 TT
13874240 AAAAAAACAC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.05
34 55 0.93
35 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.44
Consensus pattern (33 bp):
TTTTAAAAACTCTAAACCCTAATTTAATTAATT
Found at i:13880705 original size:6 final size:6
Alignment explanation
Indices: 13880686--13880719 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
13880676 AATCTGCGGA
*
13880686 TGAGAG TGATAG TGAGAG TGAGAG TGAGAG TGAG
1 TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAG
13880720 TGGGAGCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.47, T:0.21
Consensus pattern (6 bp):
TGAGAG
Found at i:13882791 original size:5 final size:5
Alignment explanation
Indices: 13882776--13882806 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
13882766 TTTGATTCTG
13882776 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
13882807 CATTCATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:13885799 original size:32 final size:33
Alignment explanation
Indices: 13885763--13885943 Score: 178
Period size: 32 Copynumber: 5.5 Consensus size: 33
13885753 ATTATAAATT
*
13885763 TAATTTGAAT-AAATTTTTTTATTAGTAAACAA
1 TAATTCGAATCAAATTTTTTTATTAGTAAACAA
**
13885795 TAATTCGAATCAAATTAATTTTTAAATTA-TAAA-TT
1 TAATTCGAATCAAATT--TTTTT--ATTAGTAAACAA
*
13885830 TAATTTGAAT-AAATTTTTTTATTAGTAAACAA
1 TAATTCGAATCAAATTTTTTTATTAGTAAACAA
**
13885862 TAATTCGAATCAAATTAATTTTTAAATTA-TAAA-TT
1 TAATTCGAATCAAATT--TTTTT--ATTAGTAAACAA
*
13885897 TAATTTGAAT-AAATTTTTTTATTAGTAAACAA
1 TAATTCGAATCAAATTTTTTTATTAGTAAACAA
13885929 TAATTCGAATCAAAT
1 TAATTCGAATCAAAT
13885944 CAATTTTATT
Statistics
Matches: 121, Mismatches: 13, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
30 8 0.07
31 8 0.07
32 37 0.31
33 14 0.12
34 10 0.08
35 28 0.23
36 8 0.07
37 8 0.07
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (33 bp):
TAATTCGAATCAAATTTTTTTATTAGTAAACAA
Found at i:13885818 original size:67 final size:67
Alignment explanation
Indices: 13885747--13885950 Score: 399
Period size: 67 Copynumber: 3.0 Consensus size: 67
13885737 TATCAACCTA
13885747 TTTTAAATTATAAATTTAATTTGAATAAATTTTTTTATTAGTAAACAATAATTCGAATCAAATTA
1 TTTTAAATTATAAATTTAATTTGAATAAATTTTTTTATTAGTAAACAATAATTCGAATCAAATTA
13885812 AT
66 AT
13885814 TTTTAAATTATAAATTTAATTTGAATAAATTTTTTTATTAGTAAACAATAATTCGAATCAAATTA
1 TTTTAAATTATAAATTTAATTTGAATAAATTTTTTTATTAGTAAACAATAATTCGAATCAAATTA
13885879 AT
66 AT
*
13885881 TTTTAAATTATAAATTTAATTTGAATAAATTTTTTTATTAGTAAACAATAATTCGAATCAAATCA
1 TTTTAAATTATAAATTTAATTTGAATAAATTTTTTTATTAGTAAACAATAATTCGAATCAAATTA
13885946 AT
66 AT
13885948 TTT
1 TTT
13885951 ATTTGAAATT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 136 1.00
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (67 bp):
TTTTAAATTATAAATTTAATTTGAATAAATTTTTTTATTAGTAAACAATAATTCGAATCAAATTA
AT
Found at i:13885847 original size:30 final size:30
Alignment explanation
Indices: 13885811--13885914 Score: 100
Period size: 30 Copynumber: 3.2 Consensus size: 30
13885801 GAATCAAATT
13885811 AATTTTTAAATTATAAATTTAATTTGAATA
1 AATTTTTAAATTATAAATTTAATTTGAATA
** ** *
13885841 AATTTTTTTATTAGTAAACAATAATTCGAATCAAA
1 AATTTTTAAATTA-TAAA-TTTAATTTGAAT---A
13885876 TTAATTTTTAAATTATAAATTTAATTTGAATA
1 --AATTTTTAAATTATAAATTTAATTTGAATA
13885908 AATTTTT
1 AATTTTT
13885915 TTATTAGTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
30 18 0.32
31 4 0.07
32 10 0.18
35 10 0.18
36 4 0.07
37 11 0.19
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (30 bp):
AATTTTTAAATTATAAATTTAATTTGAATA
Done.