Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 132 of 136
Found at i:45627657 original size:22 final size:23
Alignment explanation
Indices: 45627615--45627657 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
45627605 AGTGGGGGCA
45627615 TAAATCAAAATAACATTTGGAAT
1 TAAATCAAAATAACATTTGGAAT
45627638 TAAATCAAAATAA-ATTTGGA
1 TAAATCAAAATAACATTTGGA
45627658 TATATAGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.30
Consensus pattern (23 bp):
TAAATCAAAATAACATTTGGAAT
Found at i:45630492 original size:24 final size:24
Alignment explanation
Indices: 45630464--45630518 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
45630454 TAATATTGAT
*
45630464 CTTTTATAAATAATAAATACTTTTA
1 CTTTTA-AAATAATAAATAATTTTA
* *
45630489 -TTTTGAACATAATAATTAATTTTA
1 CTTTT-AAAATAATAAATAATTTTA
45630513 CTTTTA
1 CTTTTA
45630519 CATATGATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (24 bp):
CTTTTAAAATAATAAATAATTTTA
Found at i:45631870 original size:7 final size:7
Alignment explanation
Indices: 45631858--45631884 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
45631848 AAATTCTAAA
45631858 AAATATT
1 AAATATT
45631865 AAATATT
1 AAATATT
45631872 AAATATT
1 AAATATT
45631879 AAATAT
1 AAATAT
45631885 GATTTAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATATT
Found at i:45641539 original size:19 final size:19
Alignment explanation
Indices: 45641515--45641569 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
45641505 AAATTTTCAG
*
45641515 AAATTTAAAATAATTT-TTA
1 AAATTTAAAAT-ATTTATAA
45641534 AAATTTAAAATATTTATAA
1 AAATTTAAAATATTTATAA
*
45641553 AAATTTCAAA-ATTTATA
1 AAATTTAAAATATTTATA
45641570 TTTCTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 11 0.33
19 22 0.67
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTAAAATATTTATAA
Found at i:45643680 original size:118 final size:119
Alignment explanation
Indices: 45643461--45643697 Score: 458
Period size: 118 Copynumber: 2.0 Consensus size: 119
45643451 TATTATGGCT
45643461 CAGCCATTGATCAAGGCATCTGAGCCACTCTTGACTCTTGGCACATAAGCAAAAATTTAATAAAA
1 CAGCCATTGATCAAGGCATCTGAGCCACTCTTGACTCTTGGCACATAAGCAAAAATTTAATAAAA
45643526 AACTTACCTTATGAAATCCATCATTCCTGAAATTATAGAAATTTAATGATACAA
66 AACTTACCTTATGAAATCCATCATTCCTGAAATTATAGAAATTTAATGATACAA
45643580 CAGCCATTGA-CAAGGCATCTGAGCCACTCTTGACTCTTGGCACATAAGCAAAAATTTAATAAAA
1 CAGCCATTGATCAAGGCATCTGAGCCACTCTTGACTCTTGGCACATAAGCAAAAATTTAATAAAA
*
45643644 AACTTACCTTGTGAAATCCATCATTCCTGAAATTATAGAAATTTAATGATACAA
66 AACTTACCTTATGAAATCCATCATTCCTGAAATTATAGAAATTTAATGATACAA
45643698 AAGAACATCA
Statistics
Matches: 117, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
118 107 0.91
119 10 0.09
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (119 bp):
CAGCCATTGATCAAGGCATCTGAGCCACTCTTGACTCTTGGCACATAAGCAAAAATTTAATAAAA
AACTTACCTTATGAAATCCATCATTCCTGAAATTATAGAAATTTAATGATACAA
Found at i:45648304 original size:4 final size:4
Alignment explanation
Indices: 45648295--45648342 Score: 80
Period size: 4 Copynumber: 12.0 Consensus size: 4
45648285 TTCCAAGGTA
45648295 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- ATTGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT
45648343 GCTTGATTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 1 0.02
4 40 0.95
5 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:45649822 original size:26 final size:28
Alignment explanation
Indices: 45649769--45649822 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
45649759 ATTTTCAATG
*
45649769 ATCATTTCAATTTTTATGAAATTATAAT
1 ATCATTTCAATTTTTATGAAAATATAAT
*
45649797 ATCATTTTAA-TTTTA-GAAAATATAAT
1 ATCATTTCAATTTTTATGAAAATATAAT
45649823 TTAATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.42
27 5 0.21
28 9 0.38
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.48
Consensus pattern (28 bp):
ATCATTTCAATTTTTATGAAAATATAAT
Found at i:45649995 original size:14 final size:14
Alignment explanation
Indices: 45649951--45649999 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
45649941 AAATCTCAAC
*
45649951 AAATATTAAATATT
1 AAATATTAAATATA
*
45649965 AAATAATTAAGTA-A
1 AAAT-ATTAAATATA
*
45649979 AAATATAAAATATA
1 AAATATTAAATATA
45649993 AAATATT
1 AAATATT
45650000 TATTTTTCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 6 0.21
14 15 0.54
15 7 0.25
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
AAATATTAAATATA
Found at i:45657806 original size:3 final size:3
Alignment explanation
Indices: 45657798--45657831 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
45657788 AACTTAACAC
*
45657798 AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
45657832 ATAACTGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:45658623 original size:3 final size:3
Alignment explanation
Indices: 45658615--45658653 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
45658605 TGATTCACCG
* * *
45658615 TCA TCA TCA CCA TCA TCA TCG TCA TCG TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
45658654 CTTTCTCGAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.28, C:0.36, G:0.05, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:45673531 original size:4 final size:4
Alignment explanation
Indices: 45673522--45673574 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
45673512 TATCTAGTGG
45673522 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
45673570 TGTA T
1 TGTA T
45673575 ATTCAAGTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:45676802 original size:29 final size:31
Alignment explanation
Indices: 45676755--45676823 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
45676745 ATGGGAAAAG
*
45676755 TTTGATTTAATGTGTAATTTTATACAT-AAAT
1 TTTGATTT-ATGTGCAATTTTATACATGAAAT
*
45676786 TTTGATTT-TGTGCAATTTTATATATGAAAT
1 TTTGATTTATGTGCAATTTTATACATGAAAT
*
45676816 TTTAATTT
1 TTTGATTT
45676824 GATCTAATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 15 0.44
30 11 0.32
31 8 0.24
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (31 bp):
TTTGATTTATGTGCAATTTTATACATGAAAT
Found at i:45679421 original size:23 final size:24
Alignment explanation
Indices: 45679395--45679439 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
45679385 TAGGAATACC
*
45679395 TCATCTAA-ATATT-TTAGTATTTA
1 TCATATAACATATTGTTA-TATTTA
45679418 TCATATAACATATTGTTATATT
1 TCATATAACATATTGTTATATT
45679440 CTTCTATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 9 0.47
25 3 0.16
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (24 bp):
TCATATAACATATTGTTATATTTA
Found at i:45680421 original size:3 final size:3
Alignment explanation
Indices: 45680410--45680447 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
45680400 AATTAAATAA
*
45680410 TAT TA- TAT TAT TAT TAT ATAT TGT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA
45680448 ACTAATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:45680484 original size:9 final size:9
Alignment explanation
Indices: 45680472--45680507 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
45680462 GAAATAAAAT
45680472 AAAAGAAAC
1 AAAAGAAAC
45680481 AAAAGAAAC
1 AAAAGAAAC
*
45680490 AAAAG-AAG
1 AAAAGAAAC
45680498 AAAAGAAAC
1 AAAAGAAAC
45680507 A
1 A
45680508 GAGACCATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAGAAAC
Found at i:45682140 original size:57 final size:57
Alignment explanation
Indices: 45682052--45682207 Score: 267
Period size: 57 Copynumber: 2.7 Consensus size: 57
45682042 TATGGTCTTA
* *
45682052 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCATTTATCTCTTGT
1 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCAATTATCACTTGT
*
45682109 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCAATTGTCACTTGT
1 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCAATTATCACTTGT
*
45682166 CACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTT
1 CACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTT
45682208 GTCACTGATC
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
57 76 0.81
58 18 0.19
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (57 bp):
CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCAATTATCACTTGT
Found at i:45683910 original size:16 final size:16
Alignment explanation
Indices: 45683889--45683927 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
45683879 TTATGTGTAT
45683889 GGTAAG-CAAATAATAA
1 GGTAAGTCAAAT-ATAA
*
45683905 GGTAAGTGAAATATAA
1 GGTAAGTCAAATATAA
45683921 GGTAAGT
1 GGTAAGT
45683928 ATTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.03, G:0.26, T:0.23
Consensus pattern (16 bp):
GGTAAGTCAAATATAA
Found at i:45684220 original size:21 final size:21
Alignment explanation
Indices: 45684147--45684256 Score: 141
Period size: 23 Copynumber: 5.1 Consensus size: 21
45684137 GGCTTTGCCG
45684147 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
45684168 ACATCAGGCACTTTATGTGTCGT
1 --ATCAGGCACTTTATGTGTCGT
45684191 ATCTCAGGCACTTTATGTGTCGT
1 A--TCAGGCACTTTATGTGTCGT
* *
45684214 ATCAGGCACCTCATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
* *
45684235 TTCAGGCAC-TTATGTATCGT
1 ATCAGGCACTTTATGTGTCGT
45684255 AT
1 AT
45684257 ACTGATCAGG
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
20 10 0.13
21 27 0.34
23 42 0.53
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:45699922 original size:6 final size:6
Alignment explanation
Indices: 45699913--45699940 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45699903 ATTCTTAATC
45699913 TATTAA TATTAA TATTAA TATTAA TATT
1 TATTAA TATTAA TATTAA TATTAA TATT
45699941 TATCTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TATTAA
Found at i:45700477 original size:22 final size:23
Alignment explanation
Indices: 45700439--45700482 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
45700429 ATAATTTGTC
*
45700439 ATTATTTTGTATAATGTGAATTA
1 ATTAGTTTGTATAATGTGAATTA
45700462 ATTAGTTTG-ATAATGTGAATT
1 ATTAGTTTGTATAATGTGAATT
45700483 TGTCAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (23 bp):
ATTAGTTTGTATAATGTGAATTA
Found at i:45703420 original size:27 final size:27
Alignment explanation
Indices: 45703389--45703452 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
45703379 AGTGGTCTAT
* *
45703389 ATATAATTTTTTAATAAATTAAAAGGC
1 ATATAATTTTTTAATAAATTAAAAAGA
* * *
45703416 ATATAA--ATTTATTAAATTAAAAATA
1 ATATAATTTTTTAATAAATTAAAAAGA
45703441 ATATAATTTTTT
1 ATATAATTTTTT
45703453 TTCAAAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
25 20 0.69
27 9 0.31
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATAATTTTTTAATAAATTAAAAAGA
Found at i:45708903 original size:16 final size:16
Alignment explanation
Indices: 45708884--45708928 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
45708874 CTATTATGCC
45708884 TCTATTCCATTACGTA
1 TCTATTCCATTACGTA
45708900 TCTATTCCATTACGTA
1 TCTATTCCATTACGTA
45708916 TCTATTCCATTAC
1 TCTATTCCATTAC
45708929 AGCGACCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.24, C:0.27, G:0.04, T:0.44
Consensus pattern (16 bp):
TCTATTCCATTACGTA
Found at i:45716805 original size:6 final size:6
Alignment explanation
Indices: 45716791--45716820 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
45716781 TTCAAATAAA
*
45716791 TAAATT TAAAGT TAAATT TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT
45716821 ATATAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (6 bp):
TAAATT
Found at i:45721770 original size:51 final size:51
Alignment explanation
Indices: 45721715--45721981 Score: 313
Period size: 51 Copynumber: 5.2 Consensus size: 51
45721705 GTGAAAGTGT
*
45721715 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
** * * * * * * *
45721766 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-T
1 TGGTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAA-ATAA
*
45721817 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
** * * * * * * *
45721868 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-T
1 TGGTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAA-ATAA
*
45721919 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
45721970 TGGTCACATGTG
1 TGGTCACATGTG
45721982 NNNNNNNNNN
Statistics
Matches: 171, Mismatches: 41, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
50 2 0.01
51 167 0.98
52 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (51 bp):
TGGTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
Found at i:45721890 original size:102 final size:102
Alignment explanation
Indices: 45721714--45721981 Score: 536
Period size: 102 Copynumber: 2.6 Consensus size: 102
45721704 AGTGAAAGTG
45721714 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
45721779 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
45721816 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
45721881 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
45721918 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTG
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTG
45721982 NNNNNNNNNN
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 166 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
Found at i:45728125 original size:13 final size:13
Alignment explanation
Indices: 45728107--45728137 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
45728097 AAATACTGTG
45728107 GAAAAGTGCTTTT
1 GAAAAGTGCTTTT
*
45728120 GAAAAGTGTTTTT
1 GAAAAGTGCTTTT
45728133 GAAAA
1 GAAAA
45728138 TTTTGAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (13 bp):
GAAAAGTGCTTTT
Found at i:45733856 original size:15 final size:15
Alignment explanation
Indices: 45733836--45733908 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
45733826 TATTTGATAA
45733836 ATTAAAAAATTAAGT
1 ATTAAAAAATTAAGT
*
45733851 ATTAAAAATTTAAG-
1 ATTAAAAAATTAAGT
* *
45733865 -TTATGAAAATTAATT
1 ATTA-AAAAATTAAGT
*
45733880 ATT-AAAATTTAAGTT
1 ATTAAAAAATTAAG-T
*
45733895 ATAAAAAAAATTAA
1 AT-TAAAAAATTAA
45733909 AATAAAATAG
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
13 3 0.07
14 14 0.33
15 16 0.37
16 2 0.05
17 8 0.19
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (15 bp):
ATTAAAAAATTAAGT
Found at i:45733859 original size:14 final size:14
Alignment explanation
Indices: 45733840--45733893 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
45733830 TGATAAATTA
45733840 AAAAATTAAGTATT
1 AAAAATTAAGTATT
45733854 AAAAATTTAAGT-TAT
1 AAAAA-TTAAGTAT-T
* *
45733869 GAAAATTAATTATT
1 AAAAATTAAGTATT
*
45733883 AAAATTTAAGT
1 AAAAATTAAGT
45733894 TATAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (14 bp):
AAAAATTAAGTATT
Found at i:45733886 original size:13 final size:13
Alignment explanation
Indices: 45733841--45733888 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
45733831 GATAAATTAA
*
45733841 AAAATTAAGTATT
1 AAAATTAATTATT
*
45733854 AAAAATTTAAGTTATG
1 -AAAA-TTAA-TTATT
45733870 AAAATTAATTATT
1 AAAATTAATTATT
45733883 AAAATT
1 AAAATT
45733889 TAAGTTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 10 0.34
14 8 0.28
15 8 0.28
16 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (13 bp):
AAAATTAATTATT
Found at i:45733895 original size:28 final size:29
Alignment explanation
Indices: 45733840--45733901 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
45733830 TGATAAATTA
45733840 AAAAATTAAGTATTAAAAATTTAAGTTAT
1 AAAAATTAAGTATTAAAAATTTAAGTTAT
* *
45733869 GAAAATTAATTATT-AAAATTTAAGTTAT
1 AAAAATTAAGTATTAAAAATTTAAGTTAT
45733897 AAAAA
1 AAAAA
45733902 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.37
Consensus pattern (29 bp):
AAAAATTAAGTATTAAAAATTTAAGTTAT
Found at i:45733899 original size:14 final size:14
Alignment explanation
Indices: 45733855--45733900 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
45733845 TTAAGTATTA
45733855 AAAATTTAAGTTAT
1 AAAATTTAAGTTAT
45733869 GAAAA-TTAA-TTATT
1 -AAAATTTAAGTTA-T
45733883 AAAATTTAAGTTAT
1 AAAATTTAAGTTAT
45733897 AAAA
1 AAAA
45733901 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.25
14 14 0.50
15 7 0.25
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (14 bp):
AAAATTTAAGTTAT
Found at i:45733902 original size:29 final size:30
Alignment explanation
Indices: 45733838--45733902 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
45733828 TTTGATAAAT
45733838 TAAAAAATTAAGTATTAAAAATTTAAGTTA
1 TAAAAAATTAAGTATTAAAAATTTAAGTTA
* *
45733868 T-GAAAATTAATTATT-AAAATTTAAGTTA
1 TAAAAAATTAAGTATTAAAAATTTAAGTTA
45733896 TAAAAAA
1 TAAAAAA
45733903 AATTAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 14 0.45
29 16 0.52
30 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (30 bp):
TAAAAAATTAAGTATTAAAAATTTAAGTTA
Found at i:45741267 original size:30 final size:30
Alignment explanation
Indices: 45741231--45741312 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
45741221 AATATCTCGG
45741231 TACCCATATCTTTGACTTTCCAATATTTCA
1 TACCCATATCTTTGACTTTCCAATATTTCA
* * *
45741261 TACCCATATCTTTGACTTTCTATTATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTCA
*
45741291 TACCCATATCTTTGATTTTCCA
1 TACCCATATCTTTGACTTTCCA
45741313 TAAATATGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.46
Consensus pattern (30 bp):
TACCCATATCTTTGACTTTCCAATATTTCA
Found at i:45747907 original size:25 final size:26
Alignment explanation
Indices: 45747857--45747907 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
45747847 TAATACAAGC
* *
45747857 AAAATGGATGGGACTTTTTAATAGAA
1 AAAATGGATGGGAATTTTTAACAGAA
*
45747883 AAAATGGAT-GGAATTTTTTACAGAA
1 AAAATGGATGGGAATTTTTAACAGAA
45747908 CGACTAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.31
Consensus pattern (26 bp):
AAAATGGATGGGAATTTTTAACAGAA
Found at i:45756644 original size:24 final size:23
Alignment explanation
Indices: 45756617--45756661 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
45756607 TATTTTGATT
45756617 ATTTTTAGTGTTT-ATATTTTTAAA
1 ATTTTTAGT-TTTGA-ATTTTTAAA
45756641 ATTTTTAGTTTTGAATTTTTA
1 ATTTTTAGTTTTGAATTTTTA
45756662 GTCATGACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (23 bp):
ATTTTTAGTTTTGAATTTTTAAA
Found at i:45758206 original size:3 final size:3
Alignment explanation
Indices: 45758200--45758229 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
45758190 ATCATTGTCG
45758200 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
45758230 AGTAATCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:45758497 original size:117 final size:118
Alignment explanation
Indices: 45758224--45759020 Score: 1008
Period size: 117 Copynumber: 6.7 Consensus size: 118
45758214 TTCTTCTTCT
* * * * *
45758224 TCTTCTAGTAATCTTGCTGGTGGATTGTTTCCTTCGTCGTCACTAGGTGGTTTCTCTCCGGCGAA
1 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCC-T--TCGTCACTAGGTGGTTTCTCGCCGGCGAA
* * *
45758289 TGGACTCTCTTCCTCGACGTCTGCTTGTAGTAATCGTTTCTCGCCGATGACCCCAATG
63 TGGACTCTCTTCCTCAACG--TGCTTGTAGTAATCGTTTCTCACCGATGACCTCAATG
* ** * *
45758347 CCTGCTAGTAATCTTTCTGGAGGACTATCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
1 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
* * *
45758412 ACTCTCTTCCTCAACGT-CTTGTAGTAATCGTTCCTCACGGATGAGCTCAATG
66 ACTCTCTTCCTCAACGTGCTTGTAGTAATCGTTTCTCACCGATGACCTCAATG
* * *
45758464 TCTTTTAGTAATCTTTCTGGGGGATTATCTCCTTCATCACTAGGTGGTTTCTCGCCGGCGAATGG
1 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
* * * * *
45758529 ACTTTCTTCCTCGACGTCTGCTTGTAGTAACCGTTTTTCACCGATCACCTCAATG
66 ACTCTCTTCCTCAACG--TGCTTGTAGTAATCGTTTCTCACCGATGACCTCAATG
* *
45758584 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTTGCCGGCAAATGG
1 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
* ** *
45758649 ACTCTTTTCCTCAACGT-CTTGTAGTTTTCGTTTCTCACCGATGACCTTAATG
66 ACTCTCTTCCTCAACGTGCTTGTAGTAATCGTTTCTCACCGATGACCTCAATG
45758701 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
1 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
* * **
45758766 ACTTTCTTCCTCAACAT-CTTGTAGTTTTCGTTTCTCACCGATGACCTCAATG
66 ACTCTCTTCCTCAACGTGCTTGTAGTAATCGTTTCTCACCGATGACCTCAATG
*
45758818 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGCGGTTTCTCGCCGGCGAATGG
1 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
** *
45758883 ACTCTCTTCCTCGACATC-TGCTTGTAGTTTTCGTTTTCGTTTCTCACCGATGACCTCAATT
66 ACTCTCTTCCTC-A-A-CGTGCTTGTA------GTAATCGTTTCTCACCGATGACCTCAATG
* * * * * * *
45758944 TCTTTTAGTAATCTTTCTGGGGGCTTATCTCCTTCGTCACTAGGTGGTTTCTCACCAGCAAACGG
1 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
*
45759009 ACTTTCTTCCTC
66 ACTCTCTTCCTC
45759021 GACATTCTCT
Statistics
Matches: 601, Mismatches: 60, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
117 318 0.53
118 3 0.00
119 3 0.00
120 155 0.26
122 1 0.00
123 25 0.04
126 96 0.16
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (118 bp):
TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
ACTCTCTTCCTCAACGTGCTTGTAGTAATCGTTTCTCACCGATGACCTCAATG
Found at i:45758556 original size:237 final size:237
Alignment explanation
Indices: 45758224--45759023 Score: 1095
Period size: 237 Copynumber: 3.3 Consensus size: 237
45758214 TTCTTCTTCT
* * * * * *
45758224 TCTTCTAGTAATCTTGCTGGTGGATTGTTTCCTTCGTCGTCACTAGGTGGTTTCTCTCCGGCGAA
1 TCTTTTAGTAATCTTTCTGGGGGATTATCTCC-T--TCGTCACTAGGTGGTTTCTCGCCGGCGAA
* * * * **
45758289 TGGACTCTCTTCCTCGACGTCTGCTTGTAGTAATCGTTTCTCGCCGATGACCCCAATGCCTGCTA
63 TGGACTTTCTTCCTCGACGTCTGCTTGTAGTAATCGTTTCTCACCGATGACCTCAATGTCTTTTA
* *
45758354 GTAATCTTTCTGGAGGACTATCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTCTCT
128 GTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTCTCT
** * *
45758419 TCCTCAACGTCTTGTAGTAATCGTTCCTCACGGATGAGCTCAATG
193 TCCTCAACGTCTTGTAGTTTTCGTTCCTCACCGATGACCTCAATG
*
45758464 TCTTTTAGTAATCTTTCTGGGGGATTATCTCCTTCATCACTAGGTGGTTTCTCGCCGGCGAATGG
1 TCTTTTAGTAATCTTTCTGGGGGATTATCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
* * *
45758529 ACTTTCTTCCTCGACGTCTGCTTGTAGTAACCGTTTTTCACCGATCACCTCAATGTCTTTTAGTA
66 ACTTTCTTCCTCGACGTCTGCTTGTAGTAATCGTTTCTCACCGATGACCTCAATGTCTTTTAGTA
* * *
45758594 ATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTTGCCGGCAAATGGACTCTTTTCC
131 ATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTCTCTTCC
* *
45758659 TCAACGTCTTGTAGTTTTCGTTTCTCACCGATGACCTTAATG
196 TCAACGTCTTGTAGTTTTCGTTCCTCACCGATGACCTCAATG
* *
45758701 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
1 TCTTTTAGTAATCTTTCTGGGGGATTATCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
* * **
45758766 ACTTTCTTCCTCAAC--AT-CTTGTAGTTTTCGTTTCTCACCGATGACCTCAATGTCTTTTAGTA
66 ACTTTCTTCCTCGACGTCTGCTTGTAGTAATCGTTTCTCACCGATGACCTCAATGTCTTTTAGTA
*
45758828 ATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGCGGTTTCTCGCCGGCGAATGGACTCTCTTCC
131 ATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTCTCTTCC
*
45758893 TCGACATC-TGCTTGTAGTTTTCGTTTTCGTTTCTCACCGATGACCTCAATT
196 TC-A-A-CGT-CTTGTAGTTTTCG--TTC----CTCACCGATGACCTCAATG
* * * * *
45758944 TCTTTTAGTAATCTTTCTGGGGGCTTATCTCCTTCGTCACTAGGTGGTTTCTCACCAGCAAACGG
1 TCTTTTAGTAATCTTTCTGGGGGATTATCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
45759009 ACTTTCTTCCTCGAC
66 ACTTTCTTCCTCGAC
45759024 ATTCTCTTCC
Statistics
Matches: 498, Mismatches: 52, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
234 103 0.21
235 2 0.00
236 2 0.00
237 272 0.55
239 3 0.01
240 27 0.05
243 89 0.18
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (237 bp):
TCTTTTAGTAATCTTTCTGGGGGATTATCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGG
ACTTTCTTCCTCGACGTCTGCTTGTAGTAATCGTTTCTCACCGATGACCTCAATGTCTTTTAGTA
ATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTCTCTTCC
TCAACGTCTTGTAGTTTTCGTTCCTCACCGATGACCTCAATG
Found at i:45758734 original size:354 final size:358
Alignment explanation
Indices: 45758224--45759020 Score: 1100
Period size: 354 Copynumber: 2.2 Consensus size: 358
45758214 TTCTTCTTCT
* * * * *
45758224 TCTTCTAGTAATCTTGCTGGTGGATTGTTTCCTTCGTCGTCACTAGGTGGTTTCTCTCCGGCGAA
1 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCC-T--TCGTCACTAGGTGGTTTCTCTCCGGCAAA
* *
45758289 TGGACTCTCTTCCTCGACGTCTGCTTGTAGTAATCGTTTCTCGCCGATGACCCCAATGCCTGCTA
63 TGGACTCTCTTCCTCAACG-CTGCTTGTAGTAATCGTTTCTCACCGATGACCCCAATGCCTGCTA
45758354 GTAATCTTTCTGGAGGACTATCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTCTCT
127 GTAATCTTTCTGGAGGACTATCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTCTCT
* * *
45758419 TCCTCAACGTCTTGTAGTAATCGTTCCTCACGGATGAGCTCAATGTCTTTTAGTAATCTTTCTGG
192 TCCTCAACATCTTGTAGTAATCGTTCCTCACCGATGACCTCAATGTCTTTTAGTAATCTTTCTGG
* * * *
45758484 GGGATTATCTCCTTCATCACTAGGTGGTTTCTCGCCGGCGAATGGACTTTCTTCCTCGACGTCTG
257 AGGATTATCTCCTTCATCACTAGGCGGTTTCTCGCCGGCGAATGGACTCTCTTCCTCGACATCTG
*
45758549 CTTGTAG-TAAC-CGTTTTTCACCGATCACCTCAATG
322 CTTGTAGTTAACTCGTTTCTCACCGATCACCTCAATG
45758584 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCT-TGCCGGCAAATG
1 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCT-CCGGCAAATG
* ** ** * **
45758648 GACTCTTTTCCTCAACG-T-CTTGTAGTTTTCGTTTCTCACCGATGACCTTAATGTCTTTTAGTA
65 GACTCTCTTCCTCAACGCTGCTTGTAGTAATCGTTTCTCACCGATGACCCCAATGCCTGCTAGTA
* * *
45758711 ATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTTTCTTCC
130 ATCTTTCTGGAGGACTATCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTCTCTTCC
** *
45758776 TCAACATCTTGTAGTTTTCGTTTCTCACCGATGACCTCAATGTCTTTTAGTAATCTTTCTGGAGG
195 TCAACATCTTGTAGTAATCGTTCCTCACCGATGACCTCAATGTCTTTTAGTAATCTTTCTGGAGG
* *
45758841 ATTGTCTCCTTCGTCACTAGGCGGTTTCTCGCCGGCGAATGGACTCTCTTCCTCGACATCTGCTT
260 ATTATCTCCTTCATCACTAGGCGGTTTCTCGCCGGCGAATGGACTCTCTTCCTCGACATCTGCTT
** * *
45758906 GTAGTTTTCGTTTTCGTTTCTCACCGATGACCTCAATT
325 GTAGTTAAC----TCGTTTCTCACCGATCACCTCAATG
* * * * * *
45758944 TCTTTTAGTAATCTTTCTGGGGGCTTATCTCCTTCGTCACTAGGTGGTTTCTCACCAGCAAACGG
1 TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCTCCGGCAAATGG
*
45759009 ACTTTCTTCCTC
66 ACTCTCTTCCTC
45759021 GACATTCTCT
Statistics
Matches: 386, Mismatches: 43, Indels: 16
0.87 0.10 0.04
Matches are distributed among these distances:
354 221 0.57
355 3 0.01
356 1 0.00
357 43 0.11
359 1 0.00
360 117 0.30
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (358 bp):
TCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCGTCACTAGGTGGTTTCTCTCCGGCAAATGG
ACTCTCTTCCTCAACGCTGCTTGTAGTAATCGTTTCTCACCGATGACCCCAATGCCTGCTAGTAA
TCTTTCTGGAGGACTATCTCCTTCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTCTCTTCCT
CAACATCTTGTAGTAATCGTTCCTCACCGATGACCTCAATGTCTTTTAGTAATCTTTCTGGAGGA
TTATCTCCTTCATCACTAGGCGGTTTCTCGCCGGCGAATGGACTCTCTTCCTCGACATCTGCTTG
TAGTTAACTCGTTTCTCACCGATCACCTCAATG
Found at i:45759017 original size:126 final size:126
Alignment explanation
Indices: 45758789--45759025 Score: 384
Period size: 126 Copynumber: 1.9 Consensus size: 126
45758779 ACATCTTGTA
*
45758789 GTTTTCGTTTCTCACCGATGACCTCAATGTCTTTTAGTAATCTTTCTGGAGGATTGTCTCCTTCG
1 GTTTTCGTTTCTCACCGATGACCTCAATGTCTTTTAGTAATCTTTCTGGAGGATTATCTCCTTCG
* * * *
45758854 TCACTAGGCGGTTTCTCGCCGGCGAATGGACTCTCTTCCTCGACATCTGCTTGTAGTTTTC
66 TCACTAGGCGGTTTCTCACCAGCAAACGGACTCTCTTCCTCGACATCTGCTTGTAGTTTTC
* * *
45758915 GTTTTCGTTTCTCACCGATGACCTCAATTTCTTTTAGTAATCTTTCTGGGGGCTTATCTCCTTCG
1 GTTTTCGTTTCTCACCGATGACCTCAATGTCTTTTAGTAATCTTTCTGGAGGATTATCTCCTTCG
* *
45758980 TCACTAGGTGGTTTCTCACCAGCAAACGGACTTTCTTCCTCGACAT
66 TCACTAGGCGGTTTCTCACCAGCAAACGGACTCTCTTCCTCGACAT
45759026 TCTCTTCCAA
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 101 1.00
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.39
Consensus pattern (126 bp):
GTTTTCGTTTCTCACCGATGACCTCAATGTCTTTTAGTAATCTTTCTGGAGGATTATCTCCTTCG
TCACTAGGCGGTTTCTCACCAGCAAACGGACTCTCTTCCTCGACATCTGCTTGTAGTTTTC
Found at i:45759725 original size:20 final size:22
Alignment explanation
Indices: 45759685--45759725 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45759675 CATTTTAATT
*
45759685 TTTTTTATATTTTAATTAGATA
1 TTTTTTATATTTTAATAAGATA
45759707 TTTTTTAT-TTTT-ATAAGAT
1 TTTTTTATATTTTAATAAGAT
45759726 TTTATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTTTTATATTTTAATAAGATA
Found at i:45761278 original size:31 final size:31
Alignment explanation
Indices: 45761224--45761283 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
45761214 GTCACTAAAT
* *
45761224 TATTCGAAAGTTTTCATTTAAGTCATTGAAG
1 TATTCAAAAGTTTTCATTGAAGTCATTGAAG
* *
45761255 TATTCAAAATTTTTTATTGAAGTCATTGA
1 TATTCAAAAGTTTTCATTGAAGTCATTGA
45761284 GCTATAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.45
Consensus pattern (31 bp):
TATTCAAAAGTTTTCATTGAAGTCATTGAAG
Found at i:45764502 original size:27 final size:27
Alignment explanation
Indices: 45764461--45764523 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
45764451 GAGAGTCTAC
* * *
45764461 CACAGGCAGCACCAAAGGTGCCAATGG
1 CACAGGCGGTACCAAAAGTGCCAATGG
* **
45764488 CAGAGGCGGTACCAAAAGTGCCGTTGG
1 CACAGGCGGTACCAAAAGTGCCAATGG
45764515 CACAGGCGG
1 CACAGGCGG
45764524 CACCCCAACC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.35, T:0.10
Consensus pattern (27 bp):
CACAGGCGGTACCAAAAGTGCCAATGG
Found at i:45769899 original size:51 final size:51
Alignment explanation
Indices: 45769822--45770121 Score: 474
Period size: 51 Copynumber: 5.9 Consensus size: 51
45769812 ACTCCCTTAC
* * * * *
45769822 TTCCCTTGCTGCTGCTGATGGCTCCCCTGTTTCAGCCATTGAAGATGATTCT
1 TTCCCTT-TTGCTGATGATGACTCCCCTGTTTCAGCCATAGAAGATGGTTCT
*
45769874 TTCCCTTTTGTTGATGATGACTCCCCTGTTTCAGCCATAGAAGATGGTTCT
1 TTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATAGAAGATGGTTCT
45769925 TTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATAGAAGATGGTTCT
1 TTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATAGAAGATGGTTCT
45769976 TTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATAGAAGATGGTTCT
1 TTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATAGAAGATGGTTCT
* * *
45770027 TTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATTGAAGATAGTTTT
1 TTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATAGAAGATGGTTCT
* * * *
45770078 TTCCCTTTTGCTGAAGATGACTCCCCTTTTTTAGCCATTGAAGA
1 TTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATAGAAGA
45770122 AAGAAAAAGA
Statistics
Matches: 235, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
51 228 0.97
52 7 0.03
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.38
Consensus pattern (51 bp):
TTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATAGAAGATGGTTCT
Found at i:45769919 original size:27 final size:27
Alignment explanation
Indices: 45769889--45770021 Score: 74
Period size: 27 Copynumber: 5.1 Consensus size: 27
45769879 TTTTGTTGAT
45769889 GATGACTCCCCTGTTTCAGCCATAGAA
1 GATGACTCCCCTGTTTCAGCCATAGAA
* * *
45769916 GATGGTTCTTTCCCT-TTT--G-C-T-GAT
1 GAT-G-AC-TCCCCTGTTTCAGCCATAGAA
45769940 GATGACTCCCCTGTTTCAGCCATAGAA
1 GATGACTCCCCTGTTTCAGCCATAGAA
* * *
45769967 GATGGTTCTTTCCCT-TTT--G-C-T-GAT
1 GAT-G-AC-TCCCCTGTTTCAGCCATAGAA
45769991 GATGACTCCCCTGTTTCAGCCATAGAA
1 GATGACTCCCCTGTTTCAGCCATAGAA
45770018 GATG
1 GATG
45770022 GTTCTTTCCC
Statistics
Matches: 76, Mismatches: 12, Indels: 36
0.61 0.10 0.29
Matches are distributed among these distances:
21 10 0.13
22 8 0.11
23 2 0.03
24 12 0.16
25 4 0.05
26 4 0.05
27 16 0.21
28 2 0.03
29 8 0.11
30 10 0.13
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (27 bp):
GATGACTCCCCTGTTTCAGCCATAGAA
Found at i:45770045 original size:24 final size:24
Alignment explanation
Indices: 45769916--45770045 Score: 56
Period size: 24 Copynumber: 5.2 Consensus size: 24
45769906 AGCCATAGAA
45769916 GATGGTTCTTTCCCTTTTGCTGAT
1 GATGGTTCTTTCCCTTTTGCTGAT
* * *
45769940 GAT-G-AC-TCCCCTGTTTCAGCCATAGAA
1 GATGGTTCTTTCCCT-TTT--G-C-T-GAT
45769967 GATGGTTCTTTCCCTTTTGCTGAT
1 GATGGTTCTTTCCCTTTTGCTGAT
* * *
45769991 GAT-G-AC-TCCCCTGTTTCAGCCATAGAA
1 GATGGTTCTTTCCCT-TTT--G-C-T-GAT
45770018 GATGGTTCTTTCCCTTTTGCTGAT
1 GATGGTTCTTTCCCTTTTGCTGAT
45770042 GATG
1 GATG
45770046 ACTCCCCTGT
Statistics
Matches: 76, Mismatches: 12, Indels: 36
0.61 0.10 0.29
Matches are distributed among these distances:
21 10 0.13
22 8 0.11
23 2 0.03
24 16 0.21
25 4 0.05
26 4 0.05
27 12 0.16
28 2 0.03
29 8 0.11
30 10 0.13
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (24 bp):
GATGGTTCTTTCCCTTTTGCTGAT
Found at i:45781961 original size:51 final size:51
Alignment explanation
Indices: 45781896--45782699 Score: 871
Period size: 51 Copynumber: 15.8 Consensus size: 51
45781886 GTTAATGATG
* *
45781896 ATGATGAATCCCCTGTTTCAGCCATTGAAGATGGATCTTTCCCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* *
45781947 ATGATGACTTCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * *** *
45781998 ATGATGACTCCCCTGTTTCAGTCATTGAAGATGGTTCTTCCCCTGCCGCTG
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
** * *
45782049 CCGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * * * *** *
45782100 ATGATGACTCCCCTATTTCATCTATTGAAGATGGTTCTTCCCCTGAAGCTG
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
** * * * *
45782151 CCGGTGATTCCCCTGTTTCAGCCATTGAAGAGGGTTCTTTCTCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * * *** *
45782202 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGC
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCT-A
* * *
45782254 CTG-TGGCTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * * *** *
45782304 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGAAGCTG
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
** * * *
45782355 CCGGTGA---CCCTGTTTCAGCCATTGAAGAGGGTTCTTTCTCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * * * *** *
45782403 ATGATGACTCCCCTGTTTCATCTATTGAGGATGGTTCTTCCCCTGACGCTGC
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCT-A
* *
45782455 CTG-TGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * *** *
45782505 ATGATGGCTCCCCTGTTTCAGCCATTGAAGATGGTTCTTCCCCTGACGCTG
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * *
45782556 CTGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
* * *** *
45782607 ATGATGACTCCCCTGTTTCAACCATTGAAGATGGTTCTTCCCCTGACGCTG
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
*
45782658 CTGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCC
1 ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCC
45782700 TTTCTGCCGA
Statistics
Matches: 601, Mismatches: 145, Indels: 14
0.79 0.19 0.02
Matches are distributed among these distances:
48 36 0.06
50 4 0.01
51 557 0.93
52 4 0.01
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (51 bp):
ATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTA
Found at i:45782072 original size:102 final size:102
Alignment explanation
Indices: 45781896--45782702 Score: 1282
Period size: 102 Copynumber: 8.0 Consensus size: 102
45781886 GTTAATGATG
* * * * * *** *** * *
45781896 ATGATGAATCCCCTGTTTCAGCCATTGAAGATGGATCTTTCCCTTTTGCTAATGATGACTTCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
45781961 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
*
45781998 ATGATGACTCCCCTGTTTCAGTC-ATTGAAGATGGTTCTTCCCCTGCCGCTGCCGGTGACTCCCC
1 ATGATGACTCCCCTGTTTCA-TCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCC
45782062 TGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
65 TGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
* * *
45782100 ATGATGACTCCCCTATTTCATCTATTGAAGATGGTTCTTCCCCTGAAGCTGCCGGTGATTCCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
*
45782165 GTTTCAGCCATTGAAGAGGGTTCTTTCTCTTTTGCTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
* *
45782202 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCTGTGGCTCCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
45782267 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
*
45782304 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGAAGCTGCCGGTGA---CCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
*
45782366 GTTTCAGCCATTGAAGAGGGTTCTTTCTCTTTTGCTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
* *
45782403 ATGATGACTCCCCTGTTTCATCTATTGAGGATGGTTCTTCCCCTGACGCTGCCTGTGACTCCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
45782468 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
* * * *
45782505 ATGATGGCTCCCCTGTTTCAGCCATTGAAGATGGTTCTTCCCCTGACGCTGCTGGTGACTCCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
45782570 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
* * * *
45782607 ATGATGACTCCCCTGTTTCAACCATTGAAGATGGTTCTTCCCCTGACGCTGCTGATGACTCCCCT
1 ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
45782672 GTTTCAGCCATTGAAGATGGTTCTTTC-CTTT
66 GTTTCAGCCATTGAAGATGGTTCTTTCTCTTT
45782703 CTGCCGATAC
Statistics
Matches: 660, Mismatches: 40, Indels: 11
0.93 0.06 0.02
Matches are distributed among these distances:
99 95 0.14
101 6 0.01
102 558 0.85
103 1 0.00
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (102 bp):
ATGATGACTCCCCTGTTTCATCTATTGAAGATGGTTCTTCCCCTGACGCTGCCGGTGACTCCCCT
GTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTA
Found at i:45782547 original size:30 final size:30
Alignment explanation
Indices: 45782462--45782549 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
45782452 TGCCTGTGAC
45782462 TCCCCTGTTTCAGCCATTGAAGATGGTTCT
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCT
* *
45782492 TTCTCT-TTT--G-C--T-AATGATGG--C-
1 TCCCCTGTTTCAGCCATTGAA-GATGGTTCT
45782513 TCCCCTGTTTCAGCCATTGAAGATGGTTCT
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCT
45782543 TCCCCTG
1 TCCCCTG
45782550 ACGCTGCTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 22
0.62 0.06 0.32
Matches are distributed among these distances:
21 4 0.09
22 4 0.09
23 2 0.05
24 7 0.16
25 1 0.02
26 1 0.02
27 7 0.16
28 2 0.05
29 4 0.09
30 11 0.26
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (30 bp):
TCCCCTGTTTCAGCCATTGAAGATGGTTCT
Found at i:45788598 original size:14 final size:14
Alignment explanation
Indices: 45788579--45788606 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45788569 AGCAGAAATC
45788579 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
45788593 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
45788607 CAAATGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
TGGAGAAAAGAAAA
Found at i:45789293 original size:34 final size:34
Alignment explanation
Indices: 45789254--45789321 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
45789244 TCAAAAAGAA
45789254 AAAAGGTTTTCCTAATTTTATTTGAAAATTCCAG
1 AAAAGGTTTTCCTAATTTTATTTGAAAATTCCAG
45789288 AAAAGGTTTTCCTAATTTTATTTGAAAATTCCAG
1 AAAAGGTTTTCCTAATTTTATTTGAAAATTCCAG
45789322 TCCCTGACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (34 bp):
AAAAGGTTTTCCTAATTTTATTTGAAAATTCCAG
Found at i:45790098 original size:70 final size:70
Alignment explanation
Indices: 45789972--45790103 Score: 178
Period size: 70 Copynumber: 1.9 Consensus size: 70
45789962 CTGTACGAAC
* * * * *
45789972 TAATTAGACCACGATCCGGGATATGGGACGGGGTTATGGATGTTAGGATCTGAGCTTAAACTGCA
1 TAATTAGACCAAGATCCAGGATATGGGAAGGGGTTACGGATGTTAGGATCTAAGCTTAAACTGCA
45790037 GGAAT
66 GGAAT
*
45790042 TAATTAGACCATAG-TCCAGGATATGGGAAGGGGTTACGGATGTTAGGGT-TCAAGCTTAAACT
1 TAATTAGACCA-AGATCCAGGATATGGGAAGGGGTTACGGATGTTAGGATCT-AAGCTTAAACT
45790104 TGTCAGATGC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
69 1 0.02
70 52 0.96
71 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (70 bp):
TAATTAGACCAAGATCCAGGATATGGGAAGGGGTTACGGATGTTAGGATCTAAGCTTAAACTGCA
GGAAT
Found at i:45804315 original size:21 final size:21
Alignment explanation
Indices: 45804290--45804334 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
45804280 TAATAATAAA
45804290 TTTAGTTATT-TGTTTTGTAAT
1 TTTAGTT-TTATGTTTTGTAAT
* *
45804311 TTTAGTTTTATTTTTTGTTAT
1 TTTAGTTTTATGTTTTGTAAT
45804332 TTT
1 TTT
45804335 TTATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (21 bp):
TTTAGTTTTATGTTTTGTAAT
Found at i:45805896 original size:271 final size:272
Alignment explanation
Indices: 45805592--45806134 Score: 1079
Period size: 271 Copynumber: 2.0 Consensus size: 272
45805582 AAAATACATA
45805592 AAATGTATTTTTTTATTTTTTTTATTTTAAGGATATGTGTTATCATATAATAATATTGGACCAGG
1 AAATGTATTTTTTTATTTTTTTTATTTTAAGGATATGTGTTATCATATAATAATATTGGACCAGG
45805657 TAATCTTTTTCTCTTTGAATTATATTTGTTTAGTACTTACCTTTATTTTCTTTAATATATAATTT
66 TAATCTTTTTCTCTTTGAATTATATTTGTTTAGTACTTACCTTTATTTTCTTTAATATATAATTT
45805722 AAATTTACATGAGAAATAATTATTCAGTTTTTCCTCATAATTTTACTTTATTTCTAAATTAAATA
131 AAATTTACATGAGAAATAATTATTCAGTTTTTCCTCATAATTTTACTTTATTTCTAAATTAAATA
45805787 TTTATAATGTTTAGAAGGTTCCATGGTACACATCATGTGTTATAATTAATATGGACAATTTACCT
196 TTTATAATGTTTAGAAGGTTCCATGGTACACATCATGTGTTATAATTAATATGGACAATTTACCT
45805852 TTTGAAGAAGTC
261 TTTGAAGAAGTC
45805864 AAATGTA-TTTTTTATTTTTTTTATTTTAAGGATATGTGTTATCATATAATAATATTGGACCAGG
1 AAATGTATTTTTTTATTTTTTTTATTTTAAGGATATGTGTTATCATATAATAATATTGGACCAGG
45805928 TAATCTTTTTCTCTTTGAATTATATTTGTTTAGTACTTACCTTTATTTTCTTTAATATATAATTT
66 TAATCTTTTTCTCTTTGAATTATATTTGTTTAGTACTTACCTTTATTTTCTTTAATATATAATTT
45805993 AAATTTACATGAGAAATAATTATTCAGTTTTTCCTCATAATTTTACTTTATTTCTAAATTAAATA
131 AAATTTACATGAGAAATAATTATTCAGTTTTTCCTCATAATTTTACTTTATTTCTAAATTAAATA
45806058 TTTATAATGTTTAGAAGGTTCCATGGTACACATCATGTGTTATAATTAATATGGACAATTTACCT
196 TTTATAATGTTTAGAAGGTTCCATGGTACACATCATGTGTTATAATTAATATGGACAATTTACCT
45806123 TTTGAAGAAGTC
261 TTTGAAGAAGTC
45806135 TCCTATATGG
Statistics
Matches: 271, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
271 264 0.97
272 7 0.03
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (272 bp):
AAATGTATTTTTTTATTTTTTTTATTTTAAGGATATGTGTTATCATATAATAATATTGGACCAGG
TAATCTTTTTCTCTTTGAATTATATTTGTTTAGTACTTACCTTTATTTTCTTTAATATATAATTT
AAATTTACATGAGAAATAATTATTCAGTTTTTCCTCATAATTTTACTTTATTTCTAAATTAAATA
TTTATAATGTTTAGAAGGTTCCATGGTACACATCATGTGTTATAATTAATATGGACAATTTACCT
TTTGAAGAAGTC
Found at i:45806608 original size:18 final size:17
Alignment explanation
Indices: 45806574--45806622 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
45806564 TATTAAAAAT
*
45806574 ATATAATTTTAT-ATTA
1 ATATATTTTTATAATTA
45806590 ATATATTTTTATAATTTA
1 ATATATTTTTATAA-TTA
*
45806608 ATTTAATTTTTATAA
1 ATAT-ATTTTTATAA
45806623 AAAATAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 11 0.39
17 1 0.04
18 6 0.21
19 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATATTTTTATAATTA
Found at i:45808430 original size:23 final size:23
Alignment explanation
Indices: 45808387--45808430 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
45808377 TTAACATTTT
*
45808387 ATAATTTTAATTATTTTTTAAAA
1 ATAATTTTAATTATTTCTTAAAA
*
45808410 ATAATTTTTATT-TTTGCTTAA
1 ATAATTTTAATTATTT-CTTAA
45808431 GCGGTAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
ATAATTTTAATTATTTCTTAAAA
Found at i:45809928 original size:57 final size:54
Alignment explanation
Indices: 45809826--45809991 Score: 174
Period size: 57 Copynumber: 3.0 Consensus size: 54
45809816 TGACCATTGA
* *
45809826 TGCCATTTTTTCCGGTATCCTCAAATCC--AACAATCGAACTTGATTTTCCCTTTTT
1 TGCCA-TTTTCCCGG-ATCCTCAAATCCTTAACAACCGAACTTGA-TTTCCCTTTTT
* *
45809881 TGCCATTTTCCCCGGATCCTCAAATCCATTAACAACCGAGCTTGATTTCCCCTTTT
1 TGCCATTTT-CCCGGATCCTCAAATCC-TTAACAACCGAACTTGATTTCCCTTTTT
** * *
45809937 TGACCCATTTTCTTGGATCCTCCAACCCGTTAACAACCGAACTTGATTTCCCTTT
1 TG--CCATTTTCCCGGATCCTCAAATCC-TTAACAACCGAACTTGATTTCCCTTT
45809992 GTTAGTATTA
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
54 16 0.17
55 9 0.10
56 12 0.13
57 50 0.53
58 7 0.07
ACGTcount: A:0.22, C:0.31, G:0.10, T:0.37
Consensus pattern (54 bp):
TGCCATTTTCCCGGATCCTCAAATCCTTAACAACCGAACTTGATTTCCCTTTTT
Found at i:45812304 original size:32 final size:30
Alignment explanation
Indices: 45812234--45812309 Score: 73
Period size: 32 Copynumber: 2.4 Consensus size: 30
45812224 GAGAGTTAGA
* * *
45812234 TTTGTATTTTTTTGTAATTTTTTTATAAAT
1 TTTGAATTTTTTTGTAATCTATTTATAAAT
*
45812264 TTAT-AATTTTTTATGATAATCTATTTATATAT
1 TT-TGAATTTTTT-TG-TAATCTATTTATAAAT
45812296 TTTGAATTTCTTTT
1 TTTGAATTT-TTTT
45812310 AGATTTGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
30 9 0.24
31 4 0.11
32 21 0.57
33 3 0.08
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (30 bp):
TTTGAATTTTTTTGTAATCTATTTATAAAT
Found at i:45814257 original size:20 final size:20
Alignment explanation
Indices: 45814214--45814259 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
45814204 TTCGGGCTCA
45814214 AAACCCTCAAAAGATTCAAAG
1 AAACCCTCAAAAGA-TCAAAG
*
45814235 AAACACCTCAAAAG-TCCAAG
1 AAAC-CCTCAAAAGATCAAAG
45814255 AAACC
1 AAACC
45814260 TTTCGATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.04
20 9 0.39
21 4 0.17
22 9 0.39
ACGTcount: A:0.52, C:0.28, G:0.09, T:0.11
Consensus pattern (20 bp):
AAACCCTCAAAAGATCAAAG
Found at i:45818706 original size:10 final size:9
Alignment explanation
Indices: 45818688--45818730 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
45818678 CTTTTATACA
45818688 TTTTAATTT
1 TTTTAATTT
45818697 TTTATAATTT
1 TTT-TAATTT
*
45818707 TTTTGATTT
1 TTTTAATTT
*
45818716 TTTGAATTT
1 TTTTAATTT
45818725 TTTTAA
1 TTTTAA
45818731 AAATAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 20 0.69
10 9 0.31
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (9 bp):
TTTTAATTT
Found at i:45823319 original size:24 final size:24
Alignment explanation
Indices: 45823287--45823333 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
45823277 TTGGGGATAA
45823287 AGCCACATGAACTCAGAACTCGGT
1 AGCCACATGAACTCAGAACTCGGT
*
45823311 AGCCACATGAACTCGGAACTCGG
1 AGCCACATGAACTCAGAACTCGG
45823334 CAACTTCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (24 bp):
AGCCACATGAACTCAGAACTCGGT
Found at i:45831158 original size:11 final size:11
Alignment explanation
Indices: 45831126--45831163 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
45831116 TTTTTTACAT
45831126 AAATAATA-TA
1 AAATAATATTA
45831136 AAA-AAT-TTA
1 AAATAATATTA
45831145 AAATAATATTA
1 AAATAATATTA
45831156 AAATAATA
1 AAATAATA
45831164 CAACTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.32
10 6 0.24
11 11 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATAATATTA
Found at i:45831308 original size:27 final size:27
Alignment explanation
Indices: 45831248--45831314 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
45831238 GAGGGTCTGT
* *
45831248 CACAGGCGACACCAAAGGTGTCAATGG
1 CACAGGCGACACCAAAGGTGCCAATGC
* * *
45831275 CAGAGGCGGCACCAAAGGTGCCACTGC
1 CACAGGCGACACCAAAGGTGCCAATGC
45831302 CACAGGCGACACC
1 CACAGGCGACACC
45831315 TGTGCCATGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.33, G:0.30, T:0.07
Consensus pattern (27 bp):
CACAGGCGACACCAAAGGTGCCAATGC
Found at i:45831502 original size:24 final size:23
Alignment explanation
Indices: 45831439--45831503 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
45831429 GTGCCGGAAA
*
45831439 AAGAAAAGAAAAAGAGAGAAAGAG
1 AAGAAAA-AAAAAGAAAGAAAGAG
* * **
45831463 AATAGAGAAAGGAGAAAGAAAGAG
1 AAGA-AAAAAAAAGAAAGAAAGAG
45831487 AAGAAAAAAAATAGAAA
1 AAGAAAAAAAA-AGAAA
45831504 AATAAGGTAT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
23 4 0.13
24 24 0.80
25 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (23 bp):
AAGAAAAAAAAAGAAAGAAAGAG
Found at i:45831862 original size:76 final size:77
Alignment explanation
Indices: 45831703--45831884 Score: 212
Period size: 76 Copynumber: 2.4 Consensus size: 77
45831693 AAACTAATAT
* *
45831703 TATTATTATGGTTAGTTATTAGGATTAGTAAAACCCCTAATTATTATTTTAGTTAGTATGATTGT
1 TATTATTATTGTTAGTTATTATGATTAGTAAAACCCCTAATTATTATTTTAGTTAGTATGATTGT
* * * *
45831768 TAGGTTTTACAT
66 TAGGTATAAAAC
** *
45831780 TA-TATTATTGTTAGTTATTATTTTTAGTAAAA-CCCTAATTATTATTGTTAGTTAGTATTATT-
1 TATTATTATTGTTAGTTATTATGATTAGTAAAACCCCTAATTATTATT-TTAGTTAGTATGATTG
45831842 TT-GAGTATAAAAC
65 TTAG-GTATAAAAC
45831855 TATTATTATTGTTATTGTTATTATG-TTAGT
1 TATTATTATTGTTA--GTTATTATGATTAGT
45831885 TATTAGGATT
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
74 1 0.01
75 23 0.26
76 51 0.57
77 7 0.08
78 8 0.09
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (77 bp):
TATTATTATTGTTAGTTATTATGATTAGTAAAACCCCTAATTATTATTTTAGTTAGTATGATTGT
TAGGTATAAAAC
Found at i:45835264 original size:17 final size:17
Alignment explanation
Indices: 45835227--45835265 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
45835217 ATTTCAATGT
*
45835227 ATTTTTCTTATTTTCGG
1 ATTTTTCTTATTTTCGA
*
45835244 ATTTTTCTTATTTTTGA
1 ATTTTTCTTATTTTCGA
45835261 ATTTT
1 ATTTT
45835266 ATTACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (17 bp):
ATTTTTCTTATTTTCGA
Found at i:45835533 original size:158 final size:158
Alignment explanation
Indices: 45835239--45836022 Score: 1101
Period size: 158 Copynumber: 5.1 Consensus size: 158
45835229 TTTTCTTATT
* * *
45835239 TTCGGATTTTTCTTATTTTTGAATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTA
1 TTCGTATTTTTCTTATTTTCGAATTTTATTACTTT-AAAAAAAATATTATTTTCGTATTTTATTA
*
45835304 TTTTATATTATTTTAGTACATAATGTTTGAAATATATTATTTTAGTGTATTTTTTATATAAAATT
65 TTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTATTTTTTATATAAAATT
* *
45835369 AGTAAAAAAACCCTTATTTTGGTCATTTG
130 AGTAAAAAAACCCTTATTTTGGCCCTTTG
*
45835398 TTCGTATTTTTCTTATTTTCAAATTTTATTACTTTAAAAAAAATATTATTTTCGTATTTTATTAT
1 TTCGTATTTTTCTTATTTTCGAATTTTATTACTTTAAAAAAAATATTATTTTCGTATTTTATTAT
*
45835463 TTTATATTATTTTAGTACATAATGTTTGAAATATATTATTTTAGTGTATTTTTTATATAAAATTA
66 TTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTATTTTTTATATAAAATTA
* *
45835528 GTAAAAAAACCCTTATTTTGGTCATTTG
131 GTAAAAAAACCCTTATTTTGGCCCTTTG
*
45835556 TTCGTATTTTTCTTATTTTCAAATTTTATTACTTTAAAAAAAATATTATTTTCGTATTTTATTAT
1 TTCGTATTTTTCTTATTTTCGAATTTTATTACTTTAAAAAAAATATTATTTTCGTATTTTATTAT
* *
45835621 TTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTTTGTTTTTTATAT-AAATCT
66 TTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTATTTTTTATATAAAAT-T
* * *
45835685 AGCAAAAAAATCCTTATTTTGGCCCTTTA
130 AGTAAAAAAACCCTTATTTTGGCCCTTTG
* **
45835714 TTCGTATTTTTCTTATTTTCGAATTTTATTACTTT-CAAAAAATA-TA----C-TATTTTCGTA-
1 TTCGTATTTTTCTTATTTTCGAATTTTATTACTTTAAAAAAAATATTATTTTCGTATTTTATTAT
* *
45835771 -TT-TATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTTTGTTTTTTATAT-AAATCT
66 TTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTATTTTTTATATAAAAT-T
* * *
45835833 AGCAAAAAAATCCTTATTTTGGCCCTTTA
130 AGTAAAAAAACCCTTATTTTGGCCCTTTG
* **
45835862 TTCGTATTTTTCTTATTTTCGAATTTTATTACTTT-CAAAAAATA-TA----C-TATTTTCGTA-
1 TTCGTATTTTTCTTATTTTCGAATTTTATTACTTTAAAAAAAATATTATTTTCGTATTTTATTAT
**
45835919 -TT-TATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTATTTTTTATATAATTTTA
66 TTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTATTTTTTATATAAAATTA
* *
45835982 AT-AAAAAACACTTATTTTGGCCCTTTG
131 GTAAAAAAACCCTTATTTTGGCCCTTTG
45836009 TTCGTATTTTTCTT
1 TTCGTATTTTTCTT
45836023 TTTCTTTTTT
Statistics
Matches: 598, Mismatches: 25, Indels: 16
0.94 0.04 0.03
Matches are distributed among these distances:
147 36 0.06
148 202 0.34
149 4 0.01
151 8 0.01
152 1 0.00
156 2 0.00
157 12 0.02
158 301 0.50
159 32 0.05
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (158 bp):
TTCGTATTTTTCTTATTTTCGAATTTTATTACTTTAAAAAAAATATTATTTTCGTATTTTATTAT
TTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTATTTTTTATATAAAATTA
GTAAAAAAACCCTTATTTTGGCCCTTTG
Found at i:45836258 original size:22 final size:23
Alignment explanation
Indices: 45836224--45836267 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
45836214 CAACCAATAA
45836224 ATTTCAACATATTC-TCAAGATAG
1 ATTTCAACATATTCAT-AAGATAG
*
45836247 ATTT-AACGTATTCATAAGATA
1 ATTTCAACATATTCATAAGATA
45836268 ACCTCATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTTCAACATATTCATAAGATAG
Found at i:45839261 original size:30 final size:30
Alignment explanation
Indices: 45839227--45839347 Score: 129
Period size: 30 Copynumber: 4.4 Consensus size: 30
45839217 AAATAAAATA
*
45839227 AAATAATAAAACATAGAATGTGCATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
45839257 AAATAAT--AACATA-AA--TA-AT---A-
1 AAATAATAAAACATAGAATGTACATAACAT
* *
45839277 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
45839307 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
45839337 AAA-AATTAAAA
1 AAATAA-TAAAA
45839348 TTAAATTATG
Statistics
Matches: 75, Mismatches: 5, Indels: 22
0.74 0.05 0.22
Matches are distributed among these distances:
20 7 0.09
21 1 0.01
22 5 0.07
23 1 0.01
24 2 0.03
25 3 0.04
26 2 0.03
27 2 0.03
28 6 0.08
29 3 0.04
30 43 0.57
ACGTcount: A:0.61, C:0.08, G:0.07, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:45839267 original size:12 final size:12
Alignment explanation
Indices: 45839250--45839282 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
45839240 TAGAATGTGC
45839250 ATAACATAAATA
1 ATAACATAAATA
45839262 ATAACATAAATA
1 ATAACATAAATA
*
45839274 ATAAAATAA
1 ATAACATAA
45839283 TAAGACATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:45839337 original size:16 final size:16
Alignment explanation
Indices: 45839287--45839337 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
45839277 AAATAATAAG
*
45839287 ACATAGTATGTACATA
1 ACATAGAATGTACATA
*
45839303 ACATA-AATAATA-A-A
1 ACATAGAAT-GTACATA
45839317 ACATAGAATGTACATA
1 ACATAGAATGTACATA
45839333 ACATA
1 ACATA
45839338 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (16 bp):
ACATAGAATGTACATA
Found at i:45850663 original size:19 final size:18
Alignment explanation
Indices: 45850641--45850677 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
45850631 TTATTATCAA
45850641 AAATAATTATAATTATAAT
1 AAATAATTA-AATTATAAT
*
45850660 AAATAATTAAATTTTAAT
1 AAATAATTAAATTATAAT
45850678 GTCAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATAATTAAATTATAAT
Found at i:45855015 original size:4 final size:4
Alignment explanation
Indices: 45855006--45855067 Score: 124
Period size: 4 Copynumber: 15.5 Consensus size: 4
45854996 TACAAATGAA
45855006 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45855054 ATAC ATAC ATAC AT
1 ATAC ATAC ATAC AT
45855068 GTAAGTATTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 58 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:45855394 original size:189 final size:185
Alignment explanation
Indices: 45855072--45855445 Score: 563
Period size: 189 Copynumber: 2.0 Consensus size: 185
45855062 ATACATGTAA
*
45855072 GTATTTAGTTATAATAAGCACTGAAATTTCATGGAATTGTTATTGCAGTGAATAGATAGCCATGT
1 GTATATAGTTATAATAAGCACTGAAATTTCATGGAATTGTTATTGCAGTGAATAGATAGCCATGT
* * * * *
45855137 TTATCTCTTACATGCCTTCAATTGAATACATTCAAGCAAAGACTTGTTAAATGGTCTAATTACAC
66 TTAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAAATGGTCCAATTACAC
45855202 TTTTAG-CATCTCCTAAACCTTAATAATTCAATTTAATCCATTTTAGCTCCTTTAT
131 TTTTAGCCA-CTCCTAAACCTTAATAATTCAATTTAATCCATTTTAGCTCCTTTAT
* * *
45855257 GTATATAGTTATAATAAGCCCTGAAATTTCTTGGAAAGTAT-TACTATTGCAGTGAATGGATAGC
1 GTATATAGTTATAATAAGCACTGAAATTTCATGG-AA-T-TGT--TATTGCAGTGAATAGATAGC
*
45855321 CATGTTTAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAGATGGTCCAAT
61 CATGTTTAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAAATGGTCCAAT
* * *
45855386 TGCACTTTTAGCCACTCCTAAACCTTAATAATTCAATTTGATCCCTTTTAGCTCCTTTAT
126 TACACTTTTAGCCACTCCTAAACCTTAATAATTCAATTTAATCCATTTTAGCTCCTTTAT
45855446 TAAATGGAAA
Statistics
Matches: 170, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
185 31 0.18
186 2 0.01
187 2 0.01
188 1 0.01
189 132 0.78
190 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (185 bp):
GTATATAGTTATAATAAGCACTGAAATTTCATGGAATTGTTATTGCAGTGAATAGATAGCCATGT
TTAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAAATGGTCCAATTACAC
TTTTAGCCACTCCTAAACCTTAATAATTCAATTTAATCCATTTTAGCTCCTTTAT
Found at i:45869039 original size:16 final size:15
Alignment explanation
Indices: 45869009--45869050 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
45868999 AAAAATATAA
45869009 ATATTAAAATTAAAAT
1 ATATT-AAATTAAAAT
45869025 -TAGTTAAATTAAAAAT
1 ATA-TTAAATT-AAAAT
45869041 ATATTAAATT
1 ATATTAAATT
45869051 TAGAATTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 14 0.61
17 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
ATATTAAATTAAAAT
Found at i:45880855 original size:6 final size:6
Alignment explanation
Indices: 45880844--45880912 Score: 66
Period size: 6 Copynumber: 11.5 Consensus size: 6
45880834 CACCGCCAAA
* ** * **
45880844 TCCACC TCCACC TCCAGC TCCACC TCCACC TCCAAA TCCACC ACCGGC
1 TCCACC TCCACC TCCACC TCCACC TCCACC TCCACC TCCACC TCCACC
* *
45880892 TCCACC TCCAGC ACCACC TCC
1 TCCACC TCCACC TCCACC TCC
45880913 GAATCCTCCA
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.20, C:0.59, G:0.06, T:0.14
Consensus pattern (6 bp):
TCCACC
Found at i:45880883 original size:18 final size:18
Alignment explanation
Indices: 45880833--45880885 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
45880823 ACCTCCTGCA
*
45880833 CCACCGCCAAATCCACCT
1 CCACCTCCAAATCCACCT
**
45880851 CCACCTCCAGCTCCACCT
1 CCACCTCCAAATCCACCT
45880869 CCACCTCCAAATCCACC
1 CCACCTCCAAATCCACC
45880886 ACCGGCTCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.25, C:0.58, G:0.04, T:0.13
Consensus pattern (18 bp):
CCACCTCCAAATCCACCT
Found at i:45880930 original size:24 final size:26
Alignment explanation
Indices: 45880903--45880966 Score: 69
Period size: 30 Copynumber: 2.4 Consensus size: 26
45880893 CCACCTCCAG
*
45880903 CACCACCTCCGAATCCTCCACCGCCACCA
1 CACCACCTCCGAATCCTCCA---CCAGCA
45880932 GCACCACCTCCGAATCCTCCACCAG--
1 -CACCACCTCCGAATCCTCCACCAGCA
45880957 CACCACCTCC
1 CACCACCTCC
45880967 AACACCGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 10 0.30
27 3 0.09
30 20 0.61
ACGTcount: A:0.23, C:0.58, G:0.08, T:0.11
Consensus pattern (26 bp):
CACCACCTCCGAATCCTCCACCAGCA
Found at i:45880977 original size:24 final size:25
Alignment explanation
Indices: 45880921--45880978 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
45880911 CCGAATCCTC
45880921 CACCGCCACCAGCACCACCTCCGAA
1 CACCGCCACCAGCACCACCTCCGAA
* *
45880946 -TCCTCCACCAGCACCACCTCC-AA
1 CACCGCCACCAGCACCACCTCCGAA
45880969 CACCGCCACC
1 CACCGCCACC
45880979 GAAACCACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.26, C:0.59, G:0.09, T:0.07
Consensus pattern (25 bp):
CACCGCCACCAGCACCACCTCCGAA
Found at i:45881074 original size:30 final size:30
Alignment explanation
Indices: 45881037--45881332 Score: 228
Period size: 30 Copynumber: 10.3 Consensus size: 30
45881027 CTTTCCAGTT
* *
45881037 CCACCTCCAAGGCCTCCTCCTTTGCCAATA
1 CCACCTCCAAGTCCACCTCCTTTGCCAATA
* * *
45881067 CCGCCTCCAAGTCCACCACC-ATG----T-
1 CCACCTCCAAGTCCACCTCCTTTGCCAATA
* * *
45881091 CCTCCTCCAAGTCCACCACCCTTT-CCAATT
1 CCACCTCCAAGTCCACC-TCCTTTGCCAATA
* *
45881121 CCACCTCCAAGGCCTCCTCCTTTGCCAATA
1 CCACCTCCAAGTCCACCTCCTTTGCCAATA
* * *
45881151 CCGCCTCCAAGTCCACCACC-ATG----T-
1 CCACCTCCAAGTCCACCTCCTTTGCCAATA
* * *
45881175 CCTCCTCCAAGTCCACCACCTTT-CCAATT
1 CCACCTCCAAGTCCACCTCCTTTGCCAATA
* *
45881204 CCACCTCCAAGGCCCTCCTCCTTTGCCAATA
1 CCACCTCCAA-GTCCACCTCCTTTGCCAATA
* *
45881235 CCACCTCCAAGTCCACCACCCTTT-CCAATT
1 CCACCTCCAAGTCCACC-TCCTTTGCCAATA
* *
45881265 CCACCTCCAAGGCCTCCTCCTTTGCCAATA
1 CCACCTCCAAGTCCACCTCCTTTGCCAATA
* *
45881295 CCACCTCCAAGTCCACCACCCTTT-CCAATT
1 CCACCTCCAAGTCCACC-TCCTTTGCCAATA
45881325 CCACCTCC
1 CCACCTCC
45881333 TTTTCCTATT
Statistics
Matches: 210, Mismatches: 37, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
24 35 0.17
25 5 0.02
26 1 0.00
28 1 0.00
29 24 0.11
30 119 0.57
31 25 0.12
ACGTcount: A:0.21, C:0.49, G:0.07, T:0.23
Consensus pattern (30 bp):
CCACCTCCAAGTCCACCTCCTTTGCCAATA
Found at i:45881083 original size:42 final size:41
Alignment explanation
Indices: 45881036--45881251 Score: 184
Period size: 42 Copynumber: 5.1 Consensus size: 41
45881026 CCTTTCCAGT
45881036 TCCACCTCCAAGGCCTCCTCCTTTGCCAATACCGCCTCCAAG
1 TCCACCTCCAAGGCCTCCTCCTTTGCCAATACC-CCTCCAAG
* * * ** ** * *
45881078 TCCACCACCATGTCCTCCTCC-AAGTCCACCACCCTTTCCAAT
1 TCCACCTCCAAGGCCTCCTCCTTTG-CCAATACCC-CTCCAAG
45881120 TCCACCTCCAAGGCCTCCTCCTTTGCCAATACCGCCTCCAAG
1 TCCACCTCCAAGGCCTCCTCCTTTGCCAATACC-CCTCCAAG
* * * ** ** ** *
45881162 TCCACCACCATGTCCTCCTCC-AAGTCCACCACCTTTCCAAT
1 TCCACCTCCAAGGCCTCCTCCTTTG-CCAATACCCCTCCAAG
45881203 TCCACCTCCAAGGCCCTCCTCCTTTGCCAATACCACCTCCAAG
1 TCCACCTCCAAGG-CCTCCTCCTTTGCCAATACC-CCTCCAAG
45881246 TCCACC
1 TCCACC
45881252 ACCCTTTCCA
Statistics
Matches: 128, Mismatches: 38, Indels: 15
0.71 0.21 0.08
Matches are distributed among these distances:
41 18 0.14
42 96 0.75
43 14 0.11
ACGTcount: A:0.20, C:0.49, G:0.08, T:0.22
Consensus pattern (41 bp):
TCCACCTCCAAGGCCTCCTCCTTTGCCAATACCCCTCCAAG
Found at i:45881123 original size:84 final size:84
Alignment explanation
Indices: 45881019--45881254 Score: 438
Period size: 84 Copynumber: 2.8 Consensus size: 84
45881009 ACCGCCAATG
*
45881019 CCACCACCCTTTCCAGTTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCGCCTCCAAGTCCACC
1 CCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCGCCTCCAAGTCCACC
45881084 ACCATGTCCTCCTCCAAGT
66 ACCATGTCCTCCTCCAAGT
45881103 CCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCGCCTCCAAGTCCACC
1 CCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCGCCTCCAAGTCCACC
45881168 ACCATGTCCTCCTCCAAGT
66 ACCATGTCCTCCTCCAAGT
*
45881187 CCACCA-CCTTTCCAATTCCACCTCCAAGGCCCTCCTCCTTTGCCAATACCACCTCCAAGTCCAC
1 CCACCACCCTTTCCAATTCCACCTCCAAGG-CCTCCTCCTTTGCCAATACCGCCTCCAAGTCCAC
45881251 CACC
65 CACC
45881255 CTTTCCAATT
Statistics
Matches: 149, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
83 23 0.15
84 126 0.85
ACGTcount: A:0.20, C:0.50, G:0.08, T:0.22
Consensus pattern (84 bp):
CCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCGCCTCCAAGTCCACC
ACCATGTCCTCCTCCAAGT
Found at i:45881167 original size:144 final size:147
Alignment explanation
Indices: 45881019--45881332 Score: 396
Period size: 144 Copynumber: 2.2 Consensus size: 147
45881009 ACCGCCAATG
* * * *
45881019 CCACCACCCTTTCCAGTTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCGCCTCCAA-GTCCAC
1 CCACCACCCTTTCCAGTTCCACCTCCAAGGCCACCACCTTT-CCAATACCACCTCCAAGGCCCAC
*
45881083 CACC-ATG-T-CCTCCTCCAAGTCCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTG
65 CACCTATGATACCACCTCCAAGTCCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTG
*
45881145 CCAATACCGCCTCCAAGT
130 CCAATACCACCTCCAAGT
* * * * *
45881163 CCACCA-CC-AT---G-TCCTCCTCCAAGTCCACCACCTTTCCAATTCCACCTCCAAGGCCCTCC
1 CCACCACCCTTTCCAGTTCCACCTCCAAGGCCACCACCTTTCCAATACCACCTCCAAGGCCCACC
* *
45881222 TCCTTTGCCAATACCACCTCCAAGTCCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTT
66 ACCTATG---ATACCACCTCCAAGTCCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTT
45881287 TGCCAATACCACCTCCAAGT
128 TGCCAATACCACCTCCAAGT
*
45881307 CCACCACCCTTTCCAATTCCACCTCC
1 CCACCACCCTTTCCAGTTCCACCTCC
45881333 TTTTCCTATT
Statistics
Matches: 141, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
137 14 0.10
138 27 0.19
139 3 0.02
142 1 0.01
143 3 0.02
144 82 0.58
145 2 0.01
146 1 0.01
150 8 0.06
ACGTcount: A:0.20, C:0.49, G:0.07, T:0.23
Consensus pattern (147 bp):
CCACCACCCTTTCCAGTTCCACCTCCAAGGCCACCACCTTTCCAATACCACCTCCAAGGCCCACC
ACCTATGATACCACCTCCAAGTCCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGC
CAATACCACCTCCAAGT
Found at i:45881250 original size:60 final size:60
Alignment explanation
Indices: 45881019--45881332 Score: 334
Period size: 60 Copynumber: 5.4 Consensus size: 60
45881009 ACCGCCAATG
* *
45881019 CCACCACCCTTTCCAGTTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCGCCTCCAAGT
1 CCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGT
* * * * * * *
45881079 CCACCACCATGTCC---T---CCTCCAAGTCCACCACCCTTT-CCAATTCCACCTCCAAGG
1 CCACCACCCTTTCCAATTCCACCTCCAAGGCCTCC-TCCTTTGCCAATACCACCTCCAAGT
* * * * * * * * *
45881133 CCTCC-TCCTTTGCCAATACCGCCTCCAAGTCCACCACC-ATG----T-CCTCCTCCAAGT
1 CCACCACCCTTT-CCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGT
45881187 CCACCA-CCTTTCCAATTCCACCTCCAAGGCCCTCCTCCTTTGCCAATACCACCTCCAAGT
1 CCACCACCCTTTCCAATTCCACCTCCAAGG-CCTCCTCCTTTGCCAATACCACCTCCAAGT
45881247 CCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGT
1 CCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGT
45881307 CCACCACCCTTTCCAATTCCACCTCC
1 CCACCACCCTTTCCAATTCCACCTCC
45881333 TTTTCCTATT
Statistics
Matches: 211, Mismatches: 25, Indels: 36
0.78 0.09 0.13
Matches are distributed among these distances:
53 18 0.09
54 58 0.27
55 8 0.04
57 1 0.00
58 1 0.00
59 3 0.01
60 99 0.47
61 23 0.11
ACGTcount: A:0.20, C:0.49, G:0.07, T:0.23
Consensus pattern (60 bp):
CCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGT
Found at i:45881321 original size:18 final size:18
Alignment explanation
Indices: 45881300--45881350 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
45881290 CAATACCACC
*
45881300 TCCAAGTCCACCACCCTT
1 TCCAATTCCACCACCCTT
* *
45881318 TCCAATTCCACCTCCTTT
1 TCCAATTCCACCACCCTT
*
45881336 TCCTATTCCACCACC
1 TCCAATTCCACCACC
45881351 AGGGCCTCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.20, C:0.49, G:0.02, T:0.29
Consensus pattern (18 bp):
TCCAATTCCACCACCCTT
Found at i:45881322 original size:78 final size:78
Alignment explanation
Indices: 45881240--45881440 Score: 303
Period size: 78 Copynumber: 2.6 Consensus size: 78
45881230 CAATACCACC
* * * * *
45881240 TCCAAGTCCACCACCCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAA
1 TCCAATTCCACCTCCTTTTCCTATTCCACCACCAAGGCCTCCTCCTTTGCCAATACCACCTCCAA
*
45881305 GTCCACCACCCTT
66 GGCCACCACCCTT
*
45881318 TCCAATTCCACCTCCTTTTCCTATTCCACCACCAGGGCCTCCTCCTTTGCCAATACCACCTCCAA
1 TCCAATTCCACCTCCTTTTCCTATTCCACCACCAAGGCCTCCTCCTTTGCCAATACCACCTCCAA
*
45881383 GGCCCCCACCCTT
66 GGCCACCACCCTT
* * *
45881396 TCCAATTCCCCCTCCTTTTCCTATTCCACCACCATGTCCTCCTCC
1 TCCAATTCCACCTCCTTTTCCTATTCCACCACCAAGGCCTCCTCC
45881441 AAGTCCACCT
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 112 1.00
ACGTcount: A:0.18, C:0.49, G:0.06, T:0.26
Consensus pattern (78 bp):
TCCAATTCCACCTCCTTTTCCTATTCCACCACCAAGGCCTCCTCCTTTGCCAATACCACCTCCAA
GGCCACCACCCTT
Found at i:45881377 original size:30 final size:30
Alignment explanation
Indices: 45881328--45881386 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
45881318 TCCAATTCCA
* * * *
45881328 CCTCCTTTTCCTATTCCACCACCAGGGCCT
1 CCTCCTTTGCCAATACCACCACCAAGGCCT
*
45881358 CCTCCTTTGCCAATACCACCTCCAAGGCC
1 CCTCCTTTGCCAATACCACCACCAAGGCC
45881387 CCCACCCTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.47, G:0.10, T:0.25
Consensus pattern (30 bp):
CCTCCTTTGCCAATACCACCACCAAGGCCT
Found at i:45881406 original size:18 final size:18
Alignment explanation
Indices: 45881385--45881428 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
45881375 ACCTCCAAGG
45881385 CCCCCACCCTTTCCAATT
1 CCCCCACCCTTTCCAATT
* * *
45881403 CCCCCTCCTTTTCCTATT
1 CCCCCACCCTTTCCAATT
*
45881421 CCACCACC
1 CCCCCACC
45881429 ATGTCCTCCT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.14, C:0.57, G:0.00, T:0.30
Consensus pattern (18 bp):
CCCCCACCCTTTCCAATT
Found at i:45881491 original size:30 final size:30
Alignment explanation
Indices: 45881439--45881719 Score: 356
Period size: 30 Copynumber: 9.5 Consensus size: 30
45881429 ATGTCCTCCT
* * * *
45881439 CCAAGTCCACCTCCCTTGCCAATCCCACCG
1 CCAAGTCCACCACCCTTTCCAATGCCACCA
* * * *
45881469 CCAAGGCCTCCACCTTTTCCAATCCCACCA
1 CCAAGTCCACCACCCTTTCCAATGCCACCA
*
45881499 CCAAGTCCACCACCCTTGCCAATGCCACCA
1 CCAAGTCCACCACCCTTTCCAATGCCACCA
45881529 CCAAGTCCACCACCCTTTCCAATGCCACCA
1 CCAAGTCCACCACCCTTTCCAATGCCACCA
* *
45881559 CCAAG-CCACCACCC-TCCCAATGCCACCC
1 CCAAGTCCACCACCCTTTCCAATGCCACCA
45881587 CCAAGTCCACCACCCTTTCCAATGCCACCA
1 CCAAGTCCACCACCCTTTCCAATGCCACCA
* *
45881617 CCAAGTCCACCA-CCTGCTCCACCT-CCACCA
1 CCAAGTCCACCACCCT-TTCCA-ATGCCACCA
* * * *
45881647 CCAAG-CCCCCCCCCTTCCCAATCCCACCA
1 CCAAGTCCACCACCCTTTCCAATGCCACCA
45881676 CCAAGTCCACCACCCTTTCCAATGCCACCA
1 CCAAGTCCACCACCCTTTCCAATGCCACCA
45881706 CCAAGTCCACCACC
1 CCAAGTCCACCACC
45881720 TGCTCCACCT
Statistics
Matches: 217, Mismatches: 27, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
28 18 0.08
29 39 0.18
30 159 0.73
31 1 0.00
ACGTcount: A:0.25, C:0.54, G:0.07, T:0.14
Consensus pattern (30 bp):
CCAAGTCCACCACCCTTTCCAATGCCACCA
Found at i:45881702 original size:89 final size:88
Alignment explanation
Indices: 45881487--45881749 Score: 413
Period size: 89 Copynumber: 3.0 Consensus size: 88
45881477 TCCACCTTTT
* *
45881487 CCAATCCCACCACCAAGTCCACCACCCTTGCCAATGCCACCACCAAGTCCACCACCCT-TTCCA-
1 CCAATCCCACCACCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCA-CCTGCTCCAC
* *
45881550 ATGCCACCACCAAGCCACCACCCTC
65 CT-CCACCACCAAGCCCCCACCCTC
* *
45881575 CCAATGCCACCCCCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTGCTCCACC
1 CCAATCCCACCACCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTGCTCCACC
*
45881640 TCCACCACCAAGCCCCCCCCCTTC
66 TCCACCACCAAGCCCCCACCC-TC
45881664 CCAATCCCACCACCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTGCTCCACC
1 CCAATCCCACCACCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTGCTCCACC
45881729 TCCACCACCAAGCCCTCCACC
66 TCCACCACCAAGCCC-CCACC
45881750 TGCTCCACCT
Statistics
Matches: 161, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
87 3 0.02
88 73 0.45
89 81 0.50
90 4 0.02
ACGTcount: A:0.25, C:0.56, G:0.06, T:0.13
Consensus pattern (88 bp):
CCAATCCCACCACCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTGCTCCACC
TCCACCACCAAGCCCCCACCCTC
Found at i:45881732 original size:18 final size:18
Alignment explanation
Indices: 45881711--45881834 Score: 81
Period size: 18 Copynumber: 6.6 Consensus size: 18
45881701 CACCACCAAG
*
45881711 TCCACCACCTGCTCCACC
1 TCCACCACCAGCTCCACC
45881729 TCCACCACCAAGCCCTCCACCTGC
1 TCCACCACC-AG--CTCCA-C--C
* * * *
45881753 TCCACCTCCACCACCAAGC
1 TCCACCACCAGCTCC-ACC
*
45881772 -CCTCCACCAGCTCCACC
1 TCCACCACCAGCTCCACC
*
45881789 TCCACCTCCAAG-TCCACC
1 TCCACCACC-AGCTCCACC
*
45881807 ACCACCACCAGCTCCACC
1 TCCACCACCAGCTCCACC
*
45881825 TCCAACACCA
1 TCCACCACCA
45881835 CCACCAAAAC
Statistics
Matches: 80, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
17 4 0.05
18 52 0.65
19 4 0.05
21 8 0.10
22 2 0.03
23 1 0.01
24 9 0.11
ACGTcount: A:0.23, C:0.59, G:0.06, T:0.12
Consensus pattern (18 bp):
TCCACCACCAGCTCCACC
Found at i:45881733 original size:15 final size:15
Alignment explanation
Indices: 45881715--45881795 Score: 53
Period size: 15 Copynumber: 5.4 Consensus size: 15
45881705 ACCAAGTCCA
45881715 CCACCTGCTCCACCT
1 CCACCTGCTCCACCT
* *
45881730 CCACC-AC-CAAGCCCT
1 CCACCTGCTCCA--CCT
45881745 CCACCTGCTCCACCT
1 CCACCTGCTCCACCT
* *
45881760 CCACC-AC-CAAGCCCT
1 CCACCTGCTCCA--CCT
*
45881775 CCACCAGCTCCACCT
1 CCACCTGCTCCACCT
45881790 CCACCT
1 CCACCT
45881796 CCAAGTCCAC
Statistics
Matches: 49, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
13 4 0.08
14 2 0.04
15 37 0.76
16 2 0.04
17 4 0.08
ACGTcount: A:0.20, C:0.60, G:0.06, T:0.14
Consensus pattern (15 bp):
CCACCTGCTCCACCT
Found at i:45881734 original size:30 final size:29
Alignment explanation
Indices: 45881439--45881809 Score: 292
Period size: 30 Copynumber: 12.5 Consensus size: 29
45881429 ATGTCCTCCT
* * *
45881439 CCAAGTCCACCTCC-CTTGCCAATCCCACCG
1 CCAAGTCCACCACCTC-T-CCAATGCCACCA
* * * *
45881469 CCAAGGCCTCCACCTTTTCCAATCCCACCA
1 CCAAGTCCACCACC-TCTCCAATGCCACCA
45881499 CCAAGTCCACCACC-CTTGCCAATGCCACCA
1 CCAAGTCCACCACCTC-T-CCAATGCCACCA
*
45881529 CCAAGTCCACCACCCTTTCCAATGCCACCA
1 CCAAGTCCACCA-CCTCTCCAATGCCACCA
*
45881559 CCAAG-CCACCACC-CTCCCAATGCCACCC
1 CCAAGTCCACCACCTCT-CCAATGCCACCA
*
45881587 CCAAGTCCACCACCCTTTCCAATGCCACCA
1 CCAAGTCCACCA-CCTCTCCAATGCCACCA
*
45881617 CCAAGTCCACCACCTGCTCCACCT-CCACCA
1 CCAAGTCCACCACCT-CTCCA-ATGCCACCA
* * * *
45881647 CCAAGCCCCCCCCCT-TCCCAATCCCACCA
1 CCAAGTCCACCACCTCT-CCAATGCCACCA
*
45881676 CCAAGTCCACCACCCTTTCCAATGCCACCA
1 CCAAGTCCACCA-CCTCTCCAATGCCACCA
*
45881706 CCAAGTCCACCACCTGCTCCACCT-CCACCA
1 CCAAGTCCACCACCT-CTCCA-ATGCCACCA
* * *
45881736 CCAAGCCCTCCACCTGCTCCACCT-CCACCA
1 CCAAGTCCACCACCT-CTCCA-ATGCCACCA
* * * * *
45881766 CCAAGCCCTCCACCAGCTCCACCT-CCACCT
1 CCAAGTCCACCACC-TCTCCA-ATGCCACCA
45881796 CCAAGTCCACCACC
1 CCAAGTCCACCACC
45881810 ACCACCAGCT
Statistics
Matches: 290, Mismatches: 32, Indels: 38
0.81 0.09 0.11
Matches are distributed among these distances:
27 1 0.00
28 20 0.07
29 37 0.13
30 224 0.77
31 8 0.03
ACGTcount: A:0.24, C:0.55, G:0.07, T:0.14
Consensus pattern (29 bp):
CCAAGTCCACCACCTCTCCAATGCCACCA
Found at i:45881793 original size:6 final size:6
Alignment explanation
Indices: 45881782--45881869 Score: 50
Period size: 6 Copynumber: 14.2 Consensus size: 6
45881772 CCTCCACCAG
* * * * * *
45881782 CTCCAC CTCCAC CTCCAA GTCCAC CACCAC CACCAG CTCCAC CTCCAA
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC
* * * **
45881830 CACCAC CACCAA AACCAC CTCCAAGAC CTCCAC CTCCAC C
1 CTCCAC CTCCAC CTCCAC CTCC---AC CTCCAC CTCCAC C
45881870 AAAACCACCC
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
6 57 0.90
9 6 0.10
ACGTcount: A:0.28, C:0.58, G:0.03, T:0.10
Consensus pattern (6 bp):
CTCCAC
Found at i:45881822 original size:30 final size:30
Alignment explanation
Indices: 45881611--45881840 Score: 198
Period size: 30 Copynumber: 7.7 Consensus size: 30
45881601 CTTTCCAATG
* *
45881611 CCACCACCAAGTCCACCACCTGCTCCACCT
1 CCACCACCAAGCCCACCACCAGCTCCACCT
* * ** *
45881641 CCACCACCAAGCCCCCCCCCTTC-CCA-AT
1 CCACCACCAAGCCCACCACCAGCTCCACCT
* *** *
45881669 CCCACCACCAAGTCCACCACCCTTTCCA-AT
1 -CCACCACCAAGCCCACCACCAGCTCCACCT
* *
45881699 GCCACCACCAAGTCCACCACCTGCTCCACCT
1 -CCACCACCAAGCCCACCACCAGCTCCACCT
* *
45881730 CCACCACCAAGCCCTCCACCTGCTCCACCT
1 CCACCACCAAGCCCACCACCAGCTCCACCT
*
45881760 CCACCACCAAGCCCTCCACCAGCTCCACCT
1 CCACCACCAAGCCCACCACCAGCTCCACCT
* * * * *
45881790 CCACCTCCAAGTCCACCACCACCACCAGCT
1 CCACCACCAAGCCCACCACCAGCTCCACCT
*
45881820 CCACCTCCAA-CACCACCACCA
1 CCACCACCAAGC-CCACCACCA
45881841 AAACCACCTC
Statistics
Matches: 171, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
28 1 0.01
29 21 0.12
30 148 0.87
31 1 0.01
ACGTcount: A:0.24, C:0.58, G:0.06, T:0.12
Consensus pattern (30 bp):
CCACCACCAAGCCCACCACCAGCTCCACCT
Found at i:45881848 original size:15 final size:15
Alignment explanation
Indices: 45881830--45881899 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
45881820 CCACCTCCAA
*
45881830 CACCACCACCAAAAC
1 CACCTCCACCAAAAC
** ***
45881845 CACCTCCAAGACCTC
1 CACCTCCACCAAAAC
45881860 CACCTCCACCAAAAC
1 CACCTCCACCAAAAC
*
45881875 CACCCCCACCACCAAACC
1 CACCTCCACCA--AAA-C
45881893 CACCTCC
1 CACCTCC
45881900 CTTAGTCAAA
Statistics
Matches: 39, Mismatches: 13, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
15 29 0.74
17 3 0.08
18 7 0.18
ACGTcount: A:0.34, C:0.59, G:0.01, T:0.06
Consensus pattern (15 bp):
CACCTCCACCAAAAC
Found at i:45881852 original size:30 final size:30
Alignment explanation
Indices: 45881754--45881889 Score: 103
Period size: 30 Copynumber: 4.5 Consensus size: 30
45881744 TCCACCTGCT
* ***
45881754 CCACCTCCACCACCAAGC-CCTCCACCAGCT
1 CCACCTCCACCACCAA-CACCACCACCAAAA
* ** **
45881784 CCACCTCCACCTCCAAGTCCACCACCACCA
1 CCACCTCCACCACCAACACCACCACCAAAA
* *
45881814 CCAGCTCCACCTCCAACACCACCACCAAAA
1 CCACCTCCACCACCAACACCACCACCAAAA
** ** *
45881844 CCACCTCCAAGACCTCCACCTCCACCAAAA
1 CCACCTCCACCACCAACACCACCACCAAAA
*
45881874 CCACCCCCACCACCAA
1 CCACCTCCACCACCAA
45881890 ACCCACCTCC
Statistics
Matches: 83, Mismatches: 22, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.30, C:0.58, G:0.04, T:0.08
Consensus pattern (30 bp):
CCACCTCCACCACCAACACCACCACCAAAA
Found at i:45881870 original size:24 final size:24
Alignment explanation
Indices: 45881801--45881863 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
45881791 CACCTCCAAG
* ***
45881801 TCCACCACCACCACCAGCTCCACC
1 TCCAACACCACCACCAAAACCACC
45881825 TCCAACACCACCACCAAAACCACC
1 TCCAACACCACCACCAAAACCACC
* *
45881849 TCCAAGACCTCCACC
1 TCCAACACCACCACC
45881864 TCCACCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.32, C:0.57, G:0.03, T:0.08
Consensus pattern (24 bp):
TCCAACACCACCACCAAAACCACC
Found at i:45889777 original size:18 final size:18
Alignment explanation
Indices: 45889732--45889777 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
45889722 TGCACGTTTA
45889732 TAAAA-AATAAATTTATT
1 TAAAATAATAAATTTATT
* *
45889749 AAAAAT-TTAAATTTATT
1 TAAAATAATAAATTTATT
45889766 TAAAATAATAAA
1 TAAAATAATAAA
45889778 GTTAAAGCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATAATAAATTTATT
Found at i:45892705 original size:13 final size:13
Alignment explanation
Indices: 45892689--45892713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45892679 ATCACCCCCC
45892689 AAAAAAATCAAAT
1 AAAAAAATCAAAT
45892702 AAAAAAATCAAA
1 AAAAAAATCAAA
45892714 CAAACACCCA
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:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAATCAAAT
Found at i:45895085 original size:14 final size:14
Alignment explanation
Indices: 45895066--45895093 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45895056 AAACAAAAAT
45895066 AACCAAATAAATAA
1 AACCAAATAAATAA
45895080 AACCAAATAAATAA
1 AACCAAATAAATAA
45895094 GAGTCCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (14 bp):
AACCAAATAAATAA
Found at i:45903012 original size:22 final size:20
Alignment explanation
Indices: 45902969--45903013 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
45902959 TAATTTCACT
* *
45902969 ATTTTAATATAAAATTTTAA
1 ATTTTAATATAAAAATTAAA
45902989 ATTTTAAATCATAAAAATTAAA
1 ATTTT-AAT-ATAAAAATTAAA
45903011 ATT
1 ATT
45903014 AATTATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 3 0.14
22 13 0.62
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTTAATATAAAAATTAAA
Found at i:45908396 original size:17 final size:17
Alignment explanation
Indices: 45908358--45908400 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
45908348 AAAAGTCAGA
*
45908358 AATATAATT-TTATTTT
1 AATATATTTATTATTTT
45908374 ATATATATTTATTATTTT
1 A-ATATATTTATTATTTT
45908392 AATAT-TTTA
1 AATATATTTA
45908401 AAAAGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
17 11 0.46
18 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
AATATATTTATTATTTT
Found at i:45909544 original size:28 final size:29
Alignment explanation
Indices: 45909508--45909566 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
45909498 AATTAATAGT
* *
45909508 TTTAGGTGTCAAAATGAGA-AAAAGAAAG
1 TTTAGGTGTCAAAATGAAACAAAAAAAAG
*
45909536 TTTAGGTGTCAAATTGAAACAAAAAAAAG
1 TTTAGGTGTCAAAATGAAACAAAAAAAAG
45909565 TT
1 TT
45909567 CAAGGGCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.25
Consensus pattern (29 bp):
TTTAGGTGTCAAAATGAAACAAAAAAAAG
Found at i:45917185 original size:21 final size:21
Alignment explanation
Indices: 45917152--45917199 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
45917142 TGGGTGGATC
*
45917152 AGCTCTTACGAGCTTCTGTTA
1 AGCTTTTACGAGCTTCTGTTA
* * *
45917173 AGCTTTTATGAGCTTCTTTTC
1 AGCTTTTACGAGCTTCTGTTA
45917194 AGCTTT
1 AGCTTT
45917200 CAATCTTCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.46
Consensus pattern (21 bp):
AGCTTTTACGAGCTTCTGTTA
Found at i:45918211 original size:30 final size:31
Alignment explanation
Indices: 45918177--45918245 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
45918167 ACTTAACAAC
*
45918177 TCAATGACTT-AATAAAAACTTTTGAATAGT
1 TCAATGACTTAAATAAAAACTTTTGAATAAT
*
45918207 TCAATGACTTAAATGAAAACTTTTGAATAAT
1 TCAATGACTTAAATAAAAACTTTTGAATAAT
*
45918238 TTAATGAC
1 TCAATGAC
45918246 CAAATTGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 10 0.29
31 25 0.71
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (31 bp):
TCAATGACTTAAATAAAAACTTTTGAATAAT
Found at i:45920267 original size:10 final size:9
Alignment explanation
Indices: 45920239--45920282 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
45920229 TTTATTTTTA
45920239 TTTTATATT
1 TTTTATATT
45920248 TTTTATATT
1 TTTTATATT
* *
45920257 TTTTGTAAT
1 TTTTATATT
45920266 TTTT-TATT
1 TTTTATATT
*
45920274 TTATATATT
1 TTTTATATT
45920283 CTTGAATTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 6 0.20
9 24 0.80
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTATATT
Found at i:45920267 original size:19 final size:20
Alignment explanation
Indices: 45920227--45920275 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
45920217 TCCACGTGAA
*
45920227 TTTTTATTTTTATTTTATAT
1 TTTTTATTTTTATTGTATAT
45920247 TTTTTATATTTT-TTGTA-AT
1 TTTTTAT-TTTTATTGTATAT
45920266 TTTTTATTTT
1 TTTTTATTTT
45920276 ATATATTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 9 0.33
20 11 0.41
21 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTTATTTTTATTGTATAT
Found at i:45921095 original size:34 final size:34
Alignment explanation
Indices: 45921057--45921156 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 34
45921047 TTAGGGCTTA
*
45921057 GGGTTTTAAAAAAATTAATTAAATTAGGTTTTTG
1 GGGTTTTAAAAAAATTAATTAAATTAGGTTTTAG
* **
45921091 GGGTTTTAAATAAATTAATTAAATTAGGGCTTAG
1 GGGTTTTAAAAAAATTAATTAAATTAGGTTTTAG
* * *
45921125 TGTTTTTAAGAAAATTAATTAAATTATGGTTT
1 GGGTTTTAAAAAAATTAATTAAATTA-GGTTT
45921157 AGTTTTCTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 52 0.95
35 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.44
Consensus pattern (34 bp):
GGGTTTTAAAAAAATTAATTAAATTAGGTTTTAG
Found at i:45921159 original size:34 final size:32
Alignment explanation
Indices: 45921054--45921175 Score: 122
Period size: 34 Copynumber: 3.7 Consensus size: 32
45921044 GGTTTAGGGC
* *
45921054 TTAGGGTTTTAAAAAAATTAATTAAATTAGGTT
1 TTAGTGTTTTTAAAAAATTAATTAAATTAGG-T
* * * *
45921087 TTTGGGGTTTTAAATAAATTAATTAAATTAGGGC
1 TTAGTGTTTTTAAA-AAATTAATTAAATTA-GGT
45921121 TTAGTGTTTTTAAGAAAATTAATTAAATTATGGT
1 TTAGTGTTTTTAA-AAAATTAATTAAATTA-GGT
*
45921155 TTAGT-TTTCTAAAAAA-TAATT
1 TTAGTGTTTTTAAAAAATTAATT
45921176 TTGTGTTTAG
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
31 5 0.07
32 4 0.05
33 17 0.22
34 47 0.62
35 3 0.04
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (32 bp):
TTAGTGTTTTTAAAAAATTAATTAAATTAGGT
Found at i:45921447 original size:125 final size:123
Alignment explanation
Indices: 45921225--45921620 Score: 560
Period size: 125 Copynumber: 3.2 Consensus size: 123
45921215 CTTTTGTTTT
* * ** *
45921225 TTTTTCTATATTAGTTTTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAGATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAA-ATAGTGT-AAAA
* * * *
45921290 ACGCTTCAAGCAGGATACACTGTCAGCAAAATTACTGAAAAAACTCTCATGTGGACGCCC
64 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAACTCCCACGTGGACGCTC
*
45921350 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGGGAAGACGGTTCTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAA-AAATAGTGTAAAAA
* *
45921415 TTGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAACAAACTCCCACGTTGACGCTC
65 -CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAA-AAACTCCCACGTGGACGCTC
* *
45921476 TTTTTCTACAGTAGTCCCTG-AAAAATAATTTTGAGAAGACAGTTCTGAATAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAA-AAATAGTGT-AAAA
* *
45921540 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
64 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAA-CTCCCACGTGGACGCTC
*
45921601 TTTTTTTACAGTAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
45921621 TTTAGCCTTA
Statistics
Matches: 244, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
124 8 0.03
125 194 0.80
126 42 0.17
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (123 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATAGTGTAAAAAC
GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAACTCCCACGTGGACGCTC
Found at i:45924701 original size:24 final size:24
Alignment explanation
Indices: 45924645--45924701 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
45924635 CATTATTTCT
45924645 ATTTTATTAAAAATATAAAAATAA
1 ATTTTATTAAAAATATAAAAATAA
*
45924669 ATTACTATT-AAAATATTAAAAATAA
1 ATT-TTATTAAAAATA-TAAAAATAA
*
45924694 CTTTTATT
1 ATTTTATT
45924702 TTTTTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTTATTAAAAATATAAAAATAA
Found at i:45924759 original size:91 final size:91
Alignment explanation
Indices: 45924649--45924839 Score: 328
Period size: 91 Copynumber: 2.1 Consensus size: 91
45924639 ATTTCTATTT
*
45924649 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTTTTAAATGAA
1 TATT-AAAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAA
* *
45924714 ATAATATAAAAATAGTTTGTACAAATA
65 ACAATATAAAAACAGTTTGTACAAATA
* *
45924741 TATTAAAATATAAAAATAAATTACTATTAAATTATTTAAAATAACTTTTATTTTATTAAATGAAA
1 TATTAAAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAAA
45924806 CAATATAAAAACAGTTTGTACAAATA
66 CAATATAAAAACAGTTTGTACAAATA
45924832 TATTAAAA
1 TATTAAAA
45924840 AATCAATGTT
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 90 0.96
92 4 0.04
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (91 bp):
TATTAAAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAAA
CAATATAAAAACAGTTTGTACAAATA
Found at i:45925207 original size:18 final size:18
Alignment explanation
Indices: 45925181--45925223 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
45925171 GACTGGGAAA
* *
45925181 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
45925199 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
45925217 AGGATAC
1 AGGATAC
45925224 GCATCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:45931315 original size:55 final size:55
Alignment explanation
Indices: 45931231--45931351 Score: 242
Period size: 55 Copynumber: 2.2 Consensus size: 55
45931221 AATATAATGG
45931231 GGGTTTGGGGTAAAATTTTGTGATTAATGGGAGGAAATGAAGTTCAACGTGGTAA
1 GGGTTTGGGGTAAAATTTTGTGATTAATGGGAGGAAATGAAGTTCAACGTGGTAA
45931286 GGGTTTGGGGTAAAATTTTGTGATTAATGGGAGGAAATGAAGTTCAACGTGGTAA
1 GGGTTTGGGGTAAAATTTTGTGATTAATGGGAGGAAATGAAGTTCAACGTGGTAA
45931341 GGGTTTGGGGT
1 GGGTTTGGGGT
45931352 TTTTATGTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.28, C:0.03, G:0.37, T:0.31
Consensus pattern (55 bp):
GGGTTTGGGGTAAAATTTTGTGATTAATGGGAGGAAATGAAGTTCAACGTGGTAA
Found at i:45935273 original size:7 final size:7
Alignment explanation
Indices: 45935261--45935289 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
45935251 TCTCCTCCTG
45935261 TTTTAAT
1 TTTTAAT
45935268 TTTTAAT
1 TTTTAAT
45935275 TTTTAAT
1 TTTTAAT
45935282 TTTTAAT
1 TTTTAAT
45935289 T
1 T
45935290 AGAGAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTAAT
Found at i:45936652 original size:4 final size:4
Alignment explanation
Indices: 45936643--45936870 Score: 456
Period size: 4 Copynumber: 57.0 Consensus size: 4
45936633 ACTTAAAACC
45936643 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45936691 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45936739 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45936787 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45936835 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45936871 GTTAGTGTAT
Statistics
Matches: 224, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 224 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:45937475 original size:64 final size:64
Alignment explanation
Indices: 45937369--45937499 Score: 174
Period size: 64 Copynumber: 2.0 Consensus size: 64
45937359 TTTAATTCAC
* *** *
45937369 TTTTAATCGGTTTAATTTGCATCTTAGTATGATCTCAACTCAATTGGTCAGATTAATATGATCT
1 TTTTAATCGGTTTAATTTGCATCTTAGTATAATCTCAACTCAATCCATCAGATTAATATGATAT
* * *
45937433 TTTTGATCGGTTTAATTTTCATCTTAGTATAATCT-AGGCTCAATCCATCAGATTAATATGATAT
1 TTTTAATCGGTTTAATTTGCATCTTAGTATAATCTCA-ACTCAATCCATCAGATTAATATGATAT
45937497 TTT
1 TTT
45937500 ATTCCATGGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 1 0.02
64 57 0.98
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (64 bp):
TTTTAATCGGTTTAATTTGCATCTTAGTATAATCTCAACTCAATCCATCAGATTAATATGATAT
Found at i:45956650 original size:29 final size:29
Alignment explanation
Indices: 45956612--45956677 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
45956602 TTTTTTGTCA
* *
45956612 CCAATTATGAAAAGTTACAAAATGATCAC
1 CCAACTATGAAAAGTTACAAAATAATCAC
*
45956641 CCAACTATGAAAAGTTAGAAAATAATCAC
1 CCAACTATGAAAAGTTACAAAATAATCAC
*
45956670 TCAACTAT
1 CCAACTAT
45956678 TCAATTTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.24
Consensus pattern (29 bp):
CCAACTATGAAAAGTTACAAAATAATCAC
Found at i:45970678 original size:31 final size:31
Alignment explanation
Indices: 45970640--45970706 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
45970630 TAAACATACC
* *
45970640 ATTTGGTATTTGAATTTCGTTTTGATGTTCA
1 ATTTGGTATTTGAATTTCGCTTTAATGTTCA
*
45970671 ATTTGGTATTTGAATTTGGCTTTAATGTTCA
1 ATTTGGTATTTGAATTTCGCTTTAATGTTCA
*
45970702 CTTTG
1 ATTTG
45970707 ATATCCAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.54
Consensus pattern (31 bp):
ATTTGGTATTTGAATTTCGCTTTAATGTTCA
Done.