Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold43
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: 2559314
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 13088 characters in sequence are not A, C, G, or T
File 12 of 19
Found at i:1389037 original size:23 final size:23
Alignment explanation
Indices: 1389011--1389061 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
1389001 TATAATTATT
1389011 TTTAAAATATAAAATAT-AATAAA
1 TTTAAAATATAAAAT-TCAATAAA
* *
1389034 TTTAAAATTTAAAATTCAATAAT
1 TTTAAAATATAAAATTCAATAAA
1389057 TTTAA
1 TTTAA
1389062 TTTCTTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTAAAATATAAAATTCAATAAA
Found at i:1389460 original size:3 final size:3
Alignment explanation
Indices: 1389452--1389487 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1389442 CTTAACCTCT
*
1389452 TCA TCA TCA TCA TCA TCA TAA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1389488 AAGTTTCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:1390388 original size:22 final size:23
Alignment explanation
Indices: 1390354--1390409 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
1390344 TTAAATATAA
*
1390354 AAATAATTAAAA-TATATGATAT
1 AAATAATTAAAATTATATAATAT
* *
1390376 AAATATTTTAAATTTATATAATAT
1 AAATA-ATTAAAATTATATAATAT
*
1390400 AAATTATTAA
1 AAATAATTAA
1390410 TATATTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 5 0.19
23 9 0.33
24 13 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATAATTAAAATTATATAATAT
Found at i:1390432 original size:33 final size:31
Alignment explanation
Indices: 1390377--1390438 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 31
1390367 ATATGATATA
*
1390377 AATATTTTAAATTTATATAATATAAATTATT
1 AATATTTTAAATTTAAATAATATAAATTATT
*
1390408 AATATATTTAAATTTAAATAAATATATATTA
1 AATAT-TTTAAATTTAAAT-AATATAAATTA
1390439 AATATAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 5 0.19
32 12 0.44
33 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
AATATTTTAAATTTAAATAATATAAATTATT
Found at i:1390453 original size:20 final size:22
Alignment explanation
Indices: 1390395--1390455 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 22
1390385 AAATTTATAT
1390395 AATATAAATTATTAATATATTTA
1 AATATAAATTATT-ATATATTTA
* * *
1390418 AATTTAAATAAATATATA-TTA
1 AATATAAATTATTATATATTTA
1390439 AATAT-AATTATTATATA
1 AATATAAATTATTATATA
1390456 AAATAATACC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 10 0.31
21 7 0.22
22 5 0.16
23 10 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATATAAATTATTATATATTTA
Found at i:1390454 original size:22 final size:23
Alignment explanation
Indices: 1390395--1390455 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
1390385 AAATTTATAT
1390395 AATATAAATTATTA-ATATATTTA
1 AATAT-AATTATTATATATATTTA
* * *
1390418 AATTTAAATA-AATATATA-TTA
1 AATATAATTATTATATATATTTA
1390439 AATATAATTATTATATA
1 AATATAATTATTATATA
1390456 AAATAATACC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
21 12 0.40
22 14 0.47
23 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AATATAATTATTATATATATTTA
Found at i:1390943 original size:21 final size:21
Alignment explanation
Indices: 1390917--1390983 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
1390907 GTTTTTTAAT
*
1390917 TATATAAAATATAAATTTTTA
1 TATATAAAATATAAATTTATA
**
1390938 TATATATTATAT-AATTTATA
1 TATATAAAATATAAATTTATA
*
1390958 TAATATAAAGAT-TAAATATATA
1 T-ATATAAA-ATATAAATTTATA
1390980 -ATAT
1 TATAT
1390984 TATAATACAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
20 12 0.32
21 16 0.43
22 9 0.24
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (21 bp):
TATATAAAATATAAATTTATA
Found at i:1391011 original size:28 final size:28
Alignment explanation
Indices: 1390946--1391013 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
1390936 TATATATATT
* * *
1390946 ATATAATTTATATAATATAAAGATTAAAT
1 ATATAATAT-TATAATACAAAGATTAAAA
*
1390975 ATATAATATTATAATACAAATATTTAAAA
1 ATATAATATTATAATACAAAGA-TTAAAA
1391004 ATAT-ATATTA
1 ATATAATATTA
1391014 AGTTACTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.50
29 17 0.50
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (28 bp):
ATATAATATTATAATACAAAGATTAAAA
Found at i:1391806 original size:2 final size:2
Alignment explanation
Indices: 1391799--1391828 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1391789 TACAAAAGTT
1391799 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1391829 AAATCAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1392673 original size:2 final size:2
Alignment explanation
Indices: 1392666--1392690 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1392656 TGGCCTTGCA
1392666 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1392691 GAAGTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1394041 original size:18 final size:19
Alignment explanation
Indices: 1394018--1394143 Score: 71
Period size: 18 Copynumber: 6.5 Consensus size: 19
1394008 ATTTTGAGTT
*
1394018 AATTAAAA-AATATTTTTA
1 AATTAAAATAATATATTTA
1394036 AATTAAAATAATATATTTA
1 AATTAAAATAATATATTTA
* * * *
1394055 TATTTAAATTTAATTATAAATAA
1 -AATTAAA-ATAA-TAT-ATTTA
* *
1394078 ATATTAATAAAAATATTTTTTA
1 A-ATTAA-AATAATA-TATTTA
*
1394100 AAAT-AAATAAT-TATTTA
1 AATTAAAATAATATATTTA
*
1394117 AATTTAAATAA-ATATTTA
1 AATTAAAATAATATATTTA
*
1394135 AATTTAAAT
1 AATTAAAAT
1394144 TTAAAATTTA
Statistics
Matches: 83, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
17 8 0.10
18 29 0.35
19 14 0.17
20 7 0.08
21 5 0.06
22 9 0.11
23 10 0.12
24 1 0.01
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTAAAATAATATATTTA
Found at i:1394123 original size:6 final size:6
Alignment explanation
Indices: 1394112--1394154 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
1394102 ATAAATAATT
*
1394112 ATTTAA ATTTAA A-TAAA TATTTAA ATTTAA ATTTAAA ATTTAA
1 ATTTAA ATTTAA ATTTAA -ATTTAA ATTTAA ATTT-AA ATTTAA
1394155 TATTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 3 0.09
6 20 0.62
7 9 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTTAA
Found at i:1394706 original size:14 final size:14
Alignment explanation
Indices: 1394689--1394754 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
1394679 TTATTTTGGA
*
1394689 TAATTTATTTAATT
1 TAATTTATTTAAAT
*
1394703 TAATTTTTATTAAAT
1 TAATTTAT-TTAAAT
* *
1394718 TAATTTTTTTAAAA
1 TAATTTATTTAAAT
* * *
1394732 AAATTAATTTAATT
1 TAATTTATTTAAAT
1394746 TAATTTATT
1 TAATTTATT
1394755 ATCTAAATAA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
14 28 0.68
15 13 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTTATTTAAAT
Found at i:1394720 original size:15 final size:15
Alignment explanation
Indices: 1394692--1394730 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1394682 TTTTGGATAA
*
1394692 TTTATTTAATTTAATT
1 TTTA-TTAAATTAATT
1394708 TTTATTAAATTAATT
1 TTTATTAAATTAATT
1394723 TTT-TTAAA
1 TTTATTAAA
1394731 AAAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 13 0.59
16 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTATTAAATTAATT
Found at i:1394798 original size:36 final size:34
Alignment explanation
Indices: 1394730--1394814 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 34
1394720 ATTTTTTTAA
*
1394730 AAAAATTAATTTAATTTAATTTATTATCTAAATAAT
1 AAAAATTATTTTAATTTAATTTATTA-CTAAAT-AT
*
1394766 AAAAATTATTTTTATTTAAATTTAATTA-TAAATAT
1 AAAAATTATTTTAATTT-AATTT-ATTACTAAATAT
* *
1394801 TAATATTATTTTAA
1 AAAAATTATTTTAA
1394815 ATAATGAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
35 13 0.31
36 20 0.48
37 5 0.12
38 4 0.10
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (34 bp):
AAAAATTATTTTAATTTAATTTATTACTAAATAT
Found at i:1394932 original size:7 final size:7
Alignment explanation
Indices: 1394913--1394951 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
1394903 AAATTTTCTT
1394913 AATTATAA
1 AATTAT-A
1394921 AATTATA
1 AATTATA
1394928 AATTATA
1 AATTATA
1394935 AATTATA
1 AATTATA
1394942 AATTATA
1 AATTATA
1394949 AAT
1 AAT
1394952 ATATTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AATTATA
Found at i:1395553 original size:16 final size:17
Alignment explanation
Indices: 1395520--1395567 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
1395510 ATTAATTTAC
* *
1395520 TAAAATTTTTATTTATT
1 TAAAATATTTATTAATT
1395537 TAAAATATTT-TTAATT
1 TAAAATATTTATTAATT
* *
1395553 TTAAATATGTATTAA
1 TAAAATATTTATTAA
1395568 ACCCTCATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TAAAATATTTATTAATT
Found at i:1396639 original size:22 final size:22
Alignment explanation
Indices: 1396606--1396648 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1396596 CATTGTATTA
1396606 TTATATATTATATAA-TATATAT
1 TTATATATTATA-AATTATATAT
1396628 TTATAT-TGTATAAATTATATA
1 TTATATAT-TATAAATTATATA
1396649 GATATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATATATTATAAATTATATAT
Found at i:1397551 original size:17 final size:18
Alignment explanation
Indices: 1397513--1397552 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
1397503 AATAAAATTT
1397513 TTAATAATTTTATATTAAA
1 TTAATAATTTTATA-TAAA
*
1397532 TTAATTATTTTATA-AAA
1 TTAATAATTTTATATAAA
1397549 TTAA
1 TTAA
1397553 AAAAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
19 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATAATTTTATATAAA
Found at i:1397999 original size:22 final size:22
Alignment explanation
Indices: 1397956--1397999 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1397946 ATAATTCTTT
* * *
1397956 AAATTTAAATAATATTTTTTTA
1 AAATTTAAATAAAATATATTTA
*
1397978 AAATTTATATAAAATATATTTA
1 AAATTTAAATAAAATATATTTA
1398000 CTCATAAAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATTTAAATAAAATATATTTA
Found at i:1401255 original size:19 final size:20
Alignment explanation
Indices: 1401213--1401255 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
1401203 CATTTGATGG
*
1401213 TATAATTTAGAGTTTAAGTG
1 TATAATTTAGAGTTTAAGTA
* *
1401233 TATAATTTTGA-TTTAATTA
1 TATAATTTAGAGTTTAAGTA
1401252 TATA
1 TATA
1401256 TAAATTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (20 bp):
TATAATTTAGAGTTTAAGTA
Found at i:1404851 original size:18 final size:18
Alignment explanation
Indices: 1404797--1404865 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
1404787 TTATTATTTA
1404797 TTATTTAAATTTAAATAT
1 TTATTTAAATTTAAATAT
** *
1404815 GAATGTAAA-TTAAATTAT
1 TTATTTAAATTTAAA-TAT
*
1404833 TTATATAAATTTAAATAT
1 TTATTTAAATTTAAATAT
1404851 TTATTTAATATTTAA
1 TTATTTAA-ATTTAA
1404866 TAAAAATATT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
17 5 0.12
18 25 0.61
19 11 0.27
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATTTAAATTTAAATAT
Found at i:1406807 original size:22 final size:22
Alignment explanation
Indices: 1406734--1406825 Score: 75
Period size: 22 Copynumber: 4.2 Consensus size: 22
1406724 AATTAAAATA
1406734 AATAT-AAAA-ATAATATATATAT
1 AATATAAAAATATAATA-ATA-AT
* *
1406756 AGATATATAAAATTTTATAATAA-
1 A-ATATA-AAAATATAATAATAAT
* * *
1406779 AA-ATAAATATATAATATTTAT
1 AATATAAAAATATAATAATAAT
1406800 AATATAAAAATATAATAATAAT
1 AATATAAAAATATAATAATAAT
1406822 AATA
1 AATA
1406826 ATATAAAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
20 10 0.19
21 5 0.09
22 22 0.41
23 5 0.09
24 1 0.02
25 7 0.13
26 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (22 bp):
AATATAAAAATATAATAATAAT
Found at i:1406811 original size:8 final size:8
Alignment explanation
Indices: 1406800--1406838 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
1406790 TAATATTTAT
1406800 AATATAAA
1 AATATAAA
*
1406808 AATATAAT
1 AATATAAA
*
1406816 AATAATAAT
1 AAT-ATAAA
1406825 AATATAAA
1 AATATAAA
1406833 AATATA
1 AATATA
1406839 CTAAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
AATATAAA
Found at i:1406814 original size:39 final size:37
Alignment explanation
Indices: 1406728--1406831 Score: 102
Period size: 39 Copynumber: 2.7 Consensus size: 37
1406718 TTAAAAAATT
*
1406728 AAAATAAATATAAAAATAATATAT-ATATAGATATATA
1 AAAATATA-ATAAAAATAATATATAATATAGATATATA
* **
1406765 AAATTTTATAATAAAAATAAATATATAATATTTATAATATA
1 AAA--ATATAATAAAAAT-AATATATAATATAGAT-ATATA
*
1406806 AAAATATAATAATAATAATAATATAA
1 AAAATATAATAAAAATAAT-ATATAA
1406832 AAATATACTA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
37 3 0.05
38 11 0.20
39 27 0.49
40 6 0.11
41 8 0.15
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (37 bp):
AAAATATAATAAAAATAATATATAATATAGATATATA
Found at i:1406826 original size:25 final size:25
Alignment explanation
Indices: 1406733--1406838 Score: 87
Period size: 25 Copynumber: 4.3 Consensus size: 25
1406723 AAATTAAAAT
* *
1406733 AAATATAAAAATAATATAT-ATATAG
1 AAATATAATAATAATA-ATAATATAA
* *
1406758 ATATATAA-AATTTTATAATAA-A-AA
1 AAATATAATAA--TAATAATAATATAA
* *
1406782 TAAATAT-ATAATATTTATAATATAA
1 -AAATATAATAATAATAATAATATAA
1406807 AAATATAATAATAATAATAATATAA
1 AAATATAATAATAATAATAATATAA
1406832 AAATATA
1 AAATATA
1406839 CTAAATATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
23 6 0.09
24 11 0.17
25 42 0.66
26 5 0.08
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (25 bp):
AAATATAATAATAATAATAATATAA
Found at i:1406831 original size:17 final size:17
Alignment explanation
Indices: 1406772--1406836 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
1406762 ATAAAATTTT
1406772 ATAATA-AA-AATAAATA
1 ATAATATAATAAT-AATA
*
1406788 TATAATATTTATAAT-ATA
1 -ATAATA-TAATAATAATA
*
1406806 AAAATATAATAATAATA
1 ATAATATAATAATAATA
*
1406823 ATAATATAAAAATA
1 ATAATATAATAATA
1406837 TACTAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
16 6 0.15
17 26 0.67
18 3 0.08
19 1 0.03
20 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATATAATAATAATA
Found at i:1406845 original size:17 final size:18
Alignment explanation
Indices: 1406721--1406846 Score: 52
Period size: 17 Copynumber: 7.0 Consensus size: 18
1406711 ATACAATTTA
1406721 AAAAATTAA-AATAAATAT
1 AAAAA-TAATAATAAATAT
*
1406739 AAAAATAAT-ATATATAT
1 AAAAATAATAATAAATAT
* **
1406756 AGATATATAA-AATTTTATAAT
1 A-A-AAATAATAA-TAAAT-AT
1406777 AAAAATAA-ATATATAATATT
1 AAAAATAATA-ATA-AATA-T
* *
1406797 TATAAT-ATAA-AAATAT
1 AAAAATAATAATAAATAT
*
1406813 AATAATAATAAT-AATAT
1 AAAAATAATAATAAATAT
*
1406830 AAAAAT-ATACTAAATAT
1 AAAAATAATAATAAATAT
1406847 TTAATTTAAC
Statistics
Matches: 84, Mismatches: 11, Indels: 27
0.69 0.09 0.22
Matches are distributed among these distances:
16 10 0.12
17 34 0.40
18 7 0.08
19 16 0.19
20 14 0.17
21 3 0.04
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (18 bp):
AAAAATAATAATAAATAT
Found at i:1407250 original size:16 final size:17
Alignment explanation
Indices: 1407221--1407252 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1407211 CGAATTGCGT
1407221 AATTAAATTTATTTATG
1 AATTAAATTTATTTATG
1407238 AATTAAA-TTATTTAT
1 AATTAAATTTATTTAT
1407253 TAAATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTAAATTTATTTATG
Found at i:1407258 original size:17 final size:17
Alignment explanation
Indices: 1407221--1407258 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1407211 CGAATTGCGT
*
1407221 AATTAAATTTATTTATG
1 AATTAAATTTATTTATA
1407238 AATTAAA-TTATTTATTA
1 AATTAAATTTATTTA-TA
1407255 AATT
1 AATT
1407259 TTAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTAAATTTATTTATA
Found at i:1407288 original size:20 final size:20
Alignment explanation
Indices: 1407263--1407301 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1407253 TAAATTTTAA
1407263 TATTTAATAATTAA-TATAAT
1 TATTTAA-AATTAATTATAAT
1407283 TATTTAAAATTAATTATAA
1 TATTTAAAATTAATTATAA
1407302 AAATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTTAAAATTAATTATAAT
Found at i:1407310 original size:20 final size:20
Alignment explanation
Indices: 1407272--1407326 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1407262 ATATTTAATA
** *
1407272 ATTAATATAATTATTTAAA-
1 ATTAATATAAAAATATAAAT
1407291 ATTAATTATAAAAATATAAAT
1 ATTAA-TATAAAAATATAAAT
1407312 ATTAATATAAAAATA
1 ATTAATATAAAAATA
1407327 ATTTTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 21 0.68
21 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTAATATAAAAATATAAAT
Found at i:1408155 original size:6 final size:6
Alignment explanation
Indices: 1408144--1408188 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
1408134 AGGAATATAC
* * * *
1408144 ATACAT ATACAT ATACAT ATATAT ATATAT ATATAT ATAAAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATA
1408189 TATTCTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (6 bp):
ATACAT
Found at i:1408161 original size:12 final size:12
Alignment explanation
Indices: 1408138--1408191 Score: 72
Period size: 12 Copynumber: 4.5 Consensus size: 12
1408128 TCATATAGGA
*
1408138 ATATACATACAT
1 ATATATATACAT
*
1408150 ATACATATACAT
1 ATATATATACAT
*
1408162 ATATATATATAT
1 ATATATATACAT
*
1408174 ATATATATAAAT
1 ATATATATACAT
1408186 ATATAT
1 ATATAT
1408192 TCTTGTTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATACAT
Found at i:1408167 original size:10 final size:10
Alignment explanation
Indices: 1408138--1408191 Score: 63
Period size: 10 Copynumber: 5.4 Consensus size: 10
1408128 TCATATAGGA
*
1408138 ATATACATAC
1 ATATACATAT
1408148 ATATACATAT
1 ATATACATAT
* *
1408158 ACATATATAT
1 ATATACATAT
*
1408168 ATATATATAT
1 ATATACATAT
*
1408178 ATATAAATAT
1 ATATACATAT
1408188 ATAT
1 ATAT
1408192 TCTTGTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 39 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATACATAT
Found at i:1408552 original size:18 final size:18
Alignment explanation
Indices: 1408531--1408618 Score: 72
Period size: 18 Copynumber: 4.7 Consensus size: 18
1408521 TAATTTCACG
*
1408531 TATTAAATATATTTAAAA
1 TATTTAATATATTTAAAA
* *
1408549 TATTTTATATTTTTATAAA
1 TATTTAATATATTTA-AAA
*
1408568 T-TTTAATATATTAAAAA
1 TATTTAATATATTTAAAA
*
1408585 TTATTTTATATAAATTTTAAAA
1 -TA-TTTA-ATATA-TTTAAAA
1408607 TATTT-ATATATT
1 TATTTAATATATT
1408619 AATATTATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
17 5 0.09
18 27 0.49
19 4 0.07
20 7 0.13
21 6 0.11
22 6 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTAATATATTTAAAA
Found at i:1408644 original size:41 final size:41
Alignment explanation
Indices: 1408554--1408646 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 41
1408544 TAAAATATTT
1408554 TATATTTTTATAAATTTTAATATATTAAAAATTATTTTATA
1 TATATTTTTATAAATTTTAATATATTAAAAATTATTTTATA
* *
1408595 TA-AATTTTA-AAATATTT-ATATATT-AATATTATTTTATTA
1 TATATTTTTATAAAT-TTTAATATATTAAAAATTATTTTA-TA
1408634 TATTATTTTTATA
1 TA-TATTTTTATA
1408647 TTATATTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
38 11 0.25
39 15 0.34
40 9 0.20
41 8 0.18
42 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (41 bp):
TATATTTTTATAAATTTTAATATATTAAAAATTATTTTATA
Found at i:1408647 original size:11 final size:11
Alignment explanation
Indices: 1408620--1408668 Score: 64
Period size: 11 Copynumber: 4.3 Consensus size: 11
1408610 TTATATATTA
1408620 ATATTATTTTATT
1 ATATTA-TTT-TT
1408633 ATATTATTTTT
1 ATATTATTTTT
1408644 ATATTATATTTT
1 ATATTAT-TTTT
1408656 A-ATTATTTTT
1 ATATTATTTTT
1408666 ATA
1 ATA
1408669 AAAATAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 5 0.15
11 15 0.44
12 8 0.24
13 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:1408648 original size:16 final size:16
Alignment explanation
Indices: 1408607--1408653 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
1408597 AATTTTAAAA
*
1408607 TATTTATATATTA-A-
1 TATTTTTATATTATAT
1408621 TATTATTT-TATTATAT
1 TATT-TTTATATTATAT
1408637 TATTTTTATATTATAT
1 TATTTTTATATTATAT
1408653 T
1 T
1408654 TTAATTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTTTATATTATAT
Found at i:1409066 original size:15 final size:15
Alignment explanation
Indices: 1409037--1409074 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1409027 TATAATATTT
*
1409037 AAAAATT-TAATATA
1 AAAAATTATAAAATA
1409051 AAAAATTATAAAATA
1 AAAAATTATAAAATA
*
1409066 ATAAATTAT
1 AAAAATTAT
1409075 TAGAGAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAATTATAAAATA
Found at i:1411794 original size:29 final size:28
Alignment explanation
Indices: 1411742--1411812 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
1411732 GATTTATCTA
* *
1411742 ATTTATATATTT-TTATTATATTT-ATAT
1 ATTT-TATATTTATAATTATATTTAAAAT
1411769 ATTTTATCATGTTATAATTATATTTAAAAT
1 ATTTTAT-AT-TTATAATTATATTTAAAAT
1411799 ATTTTATATTTATA
1 ATTTTATATTTATA
1411813 TAAATTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 3 0.08
27 6 0.16
28 7 0.18
29 12 0.32
30 10 0.26
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (28 bp):
ATTTTATATTTATAATTATATTTAAAAT
Found at i:1413262 original size:16 final size:18
Alignment explanation
Indices: 1413232--1413266 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
1413222 TAATTCAATT
1413232 AAAATTAAATCAATCTAA
1 AAAATTAAATCAATCTAA
1413250 AAAATT-AAT-AATCTAA
1 AAAATTAAATCAATCTAA
1413266 A
1 A
1413267 GTCTCGACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTAAATCAATCTAA
Found at i:1413359 original size:11 final size:11
Alignment explanation
Indices: 1413340--1413457 Score: 50
Period size: 11 Copynumber: 10.7 Consensus size: 11
1413330 AAATATTATT
1413340 ATATAAATATA
1 ATATAAATATA
1413351 ATATGAATATATA
1 ATAT-AA-ATATA
*
1413364 AT-TAAA-ATT
1 ATATAAATATA
*
1413373 TTATATAATATAA
1 ATATA-AATAT-A
*
1413386 ATTATTAATATA
1 A-TATAAATATA
*
1413398 TTA-AAAT-TA
1 ATATAAATATA
1413407 ATATAAATATA
1 ATATAAATATA
* * *
1413418 AAAT-ATTTTAA
1 ATATAAATAT-A
*
1413429 ATATAATTATA
1 ATATAAATATA
* *
1413440 ATAT-TATAAA
1 ATATAAATATA
1413450 ATATAAAT
1 ATATAAAT
1413458 CTTTCCACAG
Statistics
Matches: 78, Mismatches: 17, Indels: 24
0.66 0.14 0.20
Matches are distributed among these distances:
9 7 0.09
10 20 0.26
11 26 0.33
12 10 0.13
13 12 0.15
14 3 0.04
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (11 bp):
ATATAAATATA
Found at i:1413379 original size:16 final size:17
Alignment explanation
Indices: 1413327--1413421 Score: 72
Period size: 17 Copynumber: 5.5 Consensus size: 17
1413317 ACTAAATAAT
1413327 ATTAAATATTATTATATAA
1 ATTAAA-ATTATTATAT-A
* * *
1413346 ATATAATATGAATATATA
1 AT-TAAAATTATTATATA
1413364 ATTAAAATT-TTATATA
1 ATTAAAATTATTATATA
1413380 A-TATAAATTATTA-ATA
1 ATTA-AAATTATTATATA
*
1413396 TATTAAAATTAATATA-A
1 -ATTAAAATTATTATATA
1413413 ATATAAAAT
1 AT-TAAAAT
1413422 ATTTTAAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
15 2 0.03
16 17 0.27
17 24 0.39
18 6 0.10
19 10 0.16
20 3 0.05
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (17 bp):
ATTAAAATTATTATATA
Found at i:1413416 original size:33 final size:32
Alignment explanation
Indices: 1413325--1413424 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 32
1413315 GAACTAAATA
* *
1413325 ATATTAAATATTATTATATAAATATAATATGAATAT
1 ATATTAAA-ATTA--ATATAAATATAA-ATTATTAT
*
1413361 ATAATTAAAATT-TTATATAATATAAATTATTAAT
1 AT-ATTAAAATTAATATA-AATATAAATTATT-AT
*
1413395 ATATTAAAATTAATATAAATATAAAATATT
1 ATATTAAAATTAATATAAATATAAATTATT
1413425 TTAAATATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
33 29 0.53
34 15 0.27
36 5 0.09
37 6 0.11
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (32 bp):
ATATTAAAATTAATATAAATATAAATTATTAT
Found at i:1413422 original size:27 final size:28
Alignment explanation
Indices: 1413375--1413454 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 28
1413365 TTAAAATTTT
*
1413375 ATATAATATAAAT-TATTAATATATTAAA
1 ATATAATATAAATATA-AAATATATTAAA
*
1413403 AT-TAATATAAATATAAAATAT-TTTAA
1 ATATAATATAAATATAAAATATATTAAA
1413429 ATATAATTATAATATTATAAAATATA
1 ATATAA-TATAA-A-TATAAAATATA
1413455 AATCTTTCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
26 6 0.14
27 18 0.41
28 9 0.20
29 1 0.02
30 10 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
ATATAATATAAATATAAAATATATTAAA
Found at i:1413433 original size:22 final size:22
Alignment explanation
Indices: 1413356--1413457 Score: 82
Period size: 22 Copynumber: 4.4 Consensus size: 22
1413346 ATATAATATG
* *
1413356 AATATATAATTAAAATTTTATAT
1 AATATA-AATTAAAATATTATAA
*
1413379 AATATAAATTATTAATATATTAAAA
1 AATATAAATTA--AA-ATATTATAA
*
1413404 TTAATATAAATATAAAATATT-TTA
1 --AATATAAAT-TAAAATATTATAA
*
1413428 AATAT-AATTATAATATTATAA
1 AATATAAATTAAAATATTATAA
1413449 AATATAAAT
1 AATATAAAT
1413458 CTTTCCACAG
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
20 8 0.12
21 10 0.16
22 13 0.20
23 6 0.09
24 3 0.05
25 11 0.17
26 2 0.03
27 9 0.14
28 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATAAATTAAAATATTATAA
Found at i:1413726 original size:4 final size:4
Alignment explanation
Indices: 1413717--1413743 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1413707 AAAAGAAACA
1413717 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1413744 AAAAATAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:1413873 original size:27 final size:30
Alignment explanation
Indices: 1413814--1413873 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
1413804 TAAATATTAA
* **
1413814 TTAATAATATTTTATAAATATATTTAATTT
1 TTAATAATATTTTAAAAATATATTTAAAAT
1413844 TTAA-AAT-TTTTAAAAATATA-TTAAAAT
1 TTAATAATATTTTAAAAATATATTTAAAAT
1413871 TTA
1 TTA
1413874 TATTTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 12 0.44
29 3 0.11
30 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TTAATAATATTTTAAAAATATATTTAAAAT
Found at i:1414098 original size:20 final size:19
Alignment explanation
Indices: 1414070--1414128 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
1414060 ATAATTCGTG
1414070 AAAAA-TTAATTTTTTTAA
1 AAAAATTTAATTTTTTTAA
* *
1414088 TAAAAATTTAACTATTTTAA
1 -AAAAATTTAATTTTTTTAA
1414108 AAAATATTT--TTTTTTTAA
1 AAAA-ATTTAATTTTTTTAA
1414126 AAA
1 AAA
1414129 GAAAGATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.29
19 9 0.26
20 15 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAAATTTAATTTTTTTAA
Found at i:1415998 original size:22 final size:23
Alignment explanation
Indices: 1415934--1416002 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
1415924 AAATAATCTC
* * *
1415934 AAATGTCAAAATTTAAAAATTATT
1 AAAT-TCACAATTTTAATATTATT
1415958 AAATTCACAATTTTAATATTATT
1 AAATTCACAATTTTAATATTATT
*
1415981 AACATT-AC-ATTTTTATATTATT
1 AA-ATTCACAATTTTAATATTATT
1416003 CTAGATACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.32
23 20 0.50
24 7 0.17
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.46
Consensus pattern (23 bp):
AAATTCACAATTTTAATATTATT
Found at i:1416753 original size:28 final size:27
Alignment explanation
Indices: 1416716--1416813 Score: 74
Period size: 28 Copynumber: 3.4 Consensus size: 27
1416706 TATGGGTAAA
*
1416716 ATATGATATAAAAATAATAT-AAATATT
1 ATATAATATAAAAATAATATAAAAT-TT
*
1416743 ATATAATTATATAAAT-ATATTAAAATTT
1 ATATAA-TATAAAAATAATA-TAAAATTT
*
1416771 ATATAACATAAATAATTAATATATTAAATTTT
1 ATATAATATAAA-AA-TAATATA--AAA-TTT
1416803 ATATAAATATA
1 ATAT-AATATA
1416814 TAATACTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
27 12 0.21
28 19 0.34
29 7 0.12
30 3 0.05
31 3 0.05
32 7 0.12
33 5 0.09
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (27 bp):
ATATAATATAAAAATAATATAAAATTT
Found at i:1416795 original size:32 final size:31
Alignment explanation
Indices: 1416756--1416817 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
1416746 TAATTATATA
1416756 AATATATTAAAATTTATATAACATAAATAATT
1 AATATATTAAAATTTATATAA-ATAAATAATT
* *
1416788 AATATATTAAATTTTATATAAATATATAAT
1 AATATATTAAAATTTATATAAATAAATAAT
1416818 ACTTTTAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 8 0.29
32 20 0.71
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
AATATATTAAAATTTATATAAATAAATAATT
Found at i:1417624 original size:14 final size:14
Alignment explanation
Indices: 1417607--1417639 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1417597 ATTTTTATTT
1417607 AAAT-TTAATTATAA
1 AAATATTAA-TATAA
1417621 AAATATTAATATAA
1 AAATATTAATATAA
1417635 AAATA
1 AAATA
1417640 AATTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATATTAATATAA
Found at i:1417991 original size:22 final size:23
Alignment explanation
Indices: 1417952--1417997 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
1417942 TTATGTTACG
1417952 TTATATTTGATATCATATTTTAA
1 TTATATTTGATATCATATTTTAA
* *
1417975 TTAT-TTTTATATTATATTTTAA
1 TTATATTTGATATCATATTTTAA
1417997 T
1 T
1417998 AATTGTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TTATATTTGATATCATATTTTAA
Found at i:1418150 original size:23 final size:23
Alignment explanation
Indices: 1418112--1418156 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1418102 CGTGTTTAAC
*
1418112 AAAATATATTTAAATAAATAAAT
1 AAAATATATGTAAATAAATAAAT
* *
1418135 AAAATATATGTCAATATATAAA
1 AAAATATATGTAAATAAATAAA
1418157 ATAATTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAATATATGTAAATAAATAAAT
Found at i:1418335 original size:2 final size:2
Alignment explanation
Indices: 1418328--1418371 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
1418318 TGTAGGGATG
1418328 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1418369 AT A
1 AT A
1418372 GGGTATCGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1421363 original size:13 final size:13
Alignment explanation
Indices: 1421345--1421383 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1421335 TTTGAAATTT
1421345 ATAAATAAAAATA
1 ATAAATAAAAATA
*
1421358 ATAAATAATAATA
1 ATAAATAAAAATA
1421371 ATAAA-AAAAATA
1 ATAAATAAAAATA
1421383 A
1 A
1421384 GTAATAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAATAAAAATA
Found at i:1421374 original size:22 final size:22
Alignment explanation
Indices: 1421348--1421390 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1421338 GAAATTTATA
*
1421348 AATAAAAATAATAAATAATAAT
1 AATAAAAAAAATAAATAATAAT
*
1421370 AATAAAAAAAATAAGTAATAA
1 AATAAAAAAAATAAATAATAA
1421391 ACTGGTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (22 bp):
AATAAAAAAAATAAATAATAAT
Found at i:1421388 original size:16 final size:15
Alignment explanation
Indices: 1421347--1421391 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
1421337 TGAAATTTAT
*
1421347 AAATAAAAATAATAAA
1 AAATAATAATAA-AAA
*
1421363 TAATAATAATAAAAA
1 AAATAATAATAAAAA
1421378 AAATAAGTAATAAA
1 AAATAA-TAATAAA
1421392 CTGGTCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (15 bp):
AAATAATAATAAAAA
Found at i:1425423 original size:20 final size:20
Alignment explanation
Indices: 1425389--1425426 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1425379 TTTTTTAAAA
**
1425389 TTTAATTTTTTAAAATTATT
1 TTTAATTTTAAAAAATTATT
1425409 TTTAATTTTAAAAAATTA
1 TTTAATTTTAAAAAATTA
1425427 AAAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTAATTTTAAAAAATTATT
Found at i:1426064 original size:26 final size:25
Alignment explanation
Indices: 1426035--1426090 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
1426025 AGCATATTAG
1426035 TATATATTCAATAAAAATTTATTT-TT
1 TATATATTCAA-AAAAATTT-TTTATT
* *
1426061 TATATATTTAAAAATATTTTTTATT
1 TATATATTCAAAAAAATTTTTTATT
1426086 TATAT
1 TATAT
1426091 TTAAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 3 0.11
25 14 0.52
26 10 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TATATATTCAAAAAAATTTTTTATT
Found at i:1426082 original size:23 final size:24
Alignment explanation
Indices: 1426046--1426100 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
1426036 ATATATTCAA
1426046 TAAAAAT-TTATTTT-TTATATATT
1 TAAAAATATTATTTTATT-TATATT
1426069 TAAAAATATT-TTTTATTTATATT
1 TAAAAATATTATTTTATTTATATT
*
1426092 TAAATATAT
1 TAAAAATAT
1426101 GAAATATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TAAAAATATTATTTTATTTATATT
Found at i:1426392 original size:20 final size:19
Alignment explanation
Indices: 1426367--1426405 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1426357 TAATTTTTAT
*
1426367 ATTATTAAGATTTAAATATA
1 ATTATTAA-ATATAAATATA
1426387 ATTATTAAATATAAATATA
1 ATTATTAAATATAAATATA
1426406 TTTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATTATTAAATATAAATATA
Found at i:1426830 original size:15 final size:17
Alignment explanation
Indices: 1426794--1426830 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1426784 TATTAAAAAT
*
1426794 TATATAATTTAATTAAA
1 TATATATTTTAATTAAA
1426811 TATATATTTTAATTAAA
1 TATATATTTTAATTAAA
1426828 TAT
1 TAT
1426831 TTTTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATATTTTAATTAAA
Found at i:1427331 original size:29 final size:27
Alignment explanation
Indices: 1427293--1427356 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
1427283 TTTATATATT
* **
1427293 TAAAGATTTAAAAAAATAATATTTTTATA
1 TAAATATTTAAAAAAAT-ATA-TTAAATA
*
1427322 TAAATATTTAAAAATATATATTAAATA
1 TAAATATTTAAAAAAATATATTAAATA
1427349 TAAATATT
1 TAAATATT
1427357 AAACTTACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 13 0.42
28 3 0.10
29 15 0.48
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
TAAATATTTAAAAAAATATATTAAATA
Found at i:1427368 original size:26 final size:27
Alignment explanation
Indices: 1427319--1427369 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
1427309 TAATATTTTT
*
1427319 ATATAAATATTTAAAAATATATATTAA
1 ATATAAATATTTAAAAATACATATTAA
**
1427346 ATATAAATA-TTAAACTTACATATT
1 ATATAAATATTTAAAAATACATATT
1427370 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (27 bp):
ATATAAATATTTAAAAATACATATTAA
Found at i:1427369 original size:13 final size:13
Alignment explanation
Indices: 1427319--1427359 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
1427309 TAATATTTTT
1427319 ATATAAATATTTAA
1 ATATAAATA-TTAA
* *
1427333 AAATATATATTAA
1 ATATAAATATTAA
1427346 ATATAAATATTAA
1 ATATAAATATTAA
1427359 A
1 A
1427360 CTTACATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATAAATATTAA
Found at i:1429277 original size:28 final size:28
Alignment explanation
Indices: 1429242--1429312 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
1429232 TTCTAATTTT
* *
1429242 TTTTTTAAAT-TATTTATATTTG-ATAA
1 TTTTTTAAATATATTTAGATATGTATAA
1429268 TTATATTTAATATATATTTAGATATGTATAA
1 TT-T-TTTAA-ATATATTTAGATATGTATAA
1429299 TTTTTTAAATATAT
1 TTTTTTAAATATAT
1429313 AAAAAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 11 0.29
29 7 0.18
30 11 0.29
31 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTTTTAAATATATTTAGATATGTATAA
Found at i:1429286 original size:30 final size:29
Alignment explanation
Indices: 1429242--1429313 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
1429232 TTCTAATTTT
* *
1429242 TTTTTTAA-AT-TATTTATATTTG-ATAA
1 TTTTTTAATATATATTTAGATATGTATAA
1429268 TTATATTTAATATATATTTAGATATGTATAA
1 TT-T-TTTAATATATATTTAGATATGTATAA
1429299 TTTTTTAAATATATA
1 TTTTTT-AATATATA
1429314 AAAAAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 5 0.13
29 5 0.13
30 19 0.50
31 6 0.16
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (29 bp):
TTTTTTAATATATATTTAGATATGTATAA
Found at i:1436216 original size:23 final size:22
Alignment explanation
Indices: 1436185--1436229 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
1436175 AAAATAAAAA
* *
1436185 TTTACATATTTTCTTTCTTTTTT
1 TTTACATATATT-TTTCTATTTT
*
1436208 TTTATATATATTTTTCTATTTT
1 TTTACATATATTTTTCTATTTT
1436230 AATTTTACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTACATATATTTTTCTATTTT
Found at i:1436713 original size:3 final size:3
Alignment explanation
Indices: 1436705--1436734 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1436695 ACATGGTAAA
1436705 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1436735 GATAAGTATG
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1446194 original size:24 final size:25
Alignment explanation
Indices: 1446156--1446206 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
1446146 TTATTCATAT
*
1446156 AAAATTGATATTTAAAAATTAAAAA
1 AAAATTGATAATTAAAAATTAAAAA
* *
1446181 AAAATTGA-AATTAAATATTAATAA
1 AAAATTGATAATTAAAAATTAAAAA
1446205 AA
1 AA
1446207 TATAAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (25 bp):
AAAATTGATAATTAAAAATTAAAAA
Found at i:1448388 original size:23 final size:23
Alignment explanation
Indices: 1448340--1448405 Score: 55
Period size: 23 Copynumber: 2.8 Consensus size: 23
1448330 ATATGTCGAT
* *
1448340 AATATATTCGTTTAATATTTAAA
1 AATATATTCATTTAATATTAAAA
*
1448363 AATATATTTATTTAAT-TTAAACA
1 AATATATTCATTTAATATTAAA-A
*
1448386 AATTAAATCTCATTT-ATATT
1 AA-TATAT-TCATTTAATATT
1448406 TAATTTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 4 0.12
23 17 0.50
24 6 0.18
25 7 0.21
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (23 bp):
AATATATTCATTTAATATTAAAA
Found at i:1448484 original size:19 final size:18
Alignment explanation
Indices: 1448453--1448501 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
1448443 ATTCTATTGA
1448453 TAAAAACAAAAAACAAAC
1 TAAAAACAAAAAACAAAC
*
1448471 TAAAAATAATAAAACAAA-
1 TAAAAACAA-AAAACAAAC
*
1448489 TATAAACAAAAAA
1 TAAAAACAAAAAA
1448502 ATTTTATTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 15 0.56
19 8 0.30
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (18 bp):
TAAAAACAAAAAACAAAC
Found at i:1450440 original size:13 final size:13
Alignment explanation
Indices: 1450421--1450451 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1450411 AAATTTTTTA
1450421 AATATTTATATAT
1 AATATTTATATAT
*
1450434 TATATTTATATAT
1 AATATTTATATAT
1450447 AATAT
1 AATAT
1450452 ATATTCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATATTTATATAT
Found at i:1451008 original size:29 final size:29
Alignment explanation
Indices: 1450940--1451022 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
1450930 TATAGTATTT
* **
1450940 TATTAATTT-AAATTAAAAAATTTATTTTA
1 TATTAATTTAAAATT-AAAAATTAATTAGA
* *
1450969 TATT-ATATAAAATTAAAAATAAATTAGA
1 TATTAATTTAAAATTAAAAATTAATTAGA
*
1450997 TATTAATTTAAAAATAAAAATTAATT
1 TATTAATTTAAAATTAAAAATTAATT
1451023 CAATTTTGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
28 17 0.39
29 27 0.61
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
TATTAATTTAAAATTAAAAATTAATTAGA
Found at i:1453838 original size:18 final size:17
Alignment explanation
Indices: 1453805--1453848 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 17
1453795 TTTAATTGAT
1453805 ATTAAATTTATATTTAA
1 ATTAAATTTATATTTAA
*
1453822 ATTAAATTATTTATTTAA
1 ATTAAATT-TATATTTAA
1453840 ATTAAATTT
1 ATTAAATTT
1453849 TAAATATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTAAATTTATATTTAA
Found at i:1455135 original size:34 final size:32
Alignment explanation
Indices: 1455106--1455168 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
1455096 TATTAATATT
1455106 TTAATAATTT-TAAATTTATATTTAAATTAAAA
1 TTAA-AATTTATAAATTTATATTTAAATTAAAA
*
1455138 TTAAAATTTAATAAATTTTATATTAAAATTA
1 TTAAAATTT-ATAAA-TTTATATTTAAATTA
1455169 TTTTCACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 5 0.19
32 4 0.15
33 4 0.15
34 14 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
TTAAAATTTATAAATTTATATTTAAATTAAAA
Found at i:1457491 original size:17 final size:17
Alignment explanation
Indices: 1457469--1457504 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1457459 ATTTAATAAG
* *
1457469 AATTTATTTAATTTTTA
1 AATTTAATTAATATTTA
1457486 AATTTAATTAATATTTA
1 AATTTAATTAATATTTA
1457503 AA
1 AA
1457505 AAAATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTAATTAATATTTA
Found at i:1457951 original size:14 final size:13
Alignment explanation
Indices: 1457924--1457970 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
1457914 ATTTTTATTT
1457924 AAAT-TTAATTAAA
1 AAATATTAA-TAAA
1457937 AAATATTAATAAA
1 AAATATTAATAAA
*
1457950 AAATATTGAACAATA
1 AAATATT-AATAA-A
1457965 AAATAT
1 AAATAT
1457971 ACTTTCGTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 15 0.50
14 8 0.27
15 7 0.23
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (13 bp):
AAATATTAATAAA
Found at i:1458157 original size:19 final size:19
Alignment explanation
Indices: 1458133--1458185 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
1458123 ATTATTAATT
1458133 TTATTATTTTAAATATTTA
1 TTATTATTTTAAATATTTA
*
1458152 TTATTATTAATAAA-ATTTA
1 TTATTATT-TTAAATATTTA
*
1458171 TCA-TATTTATAAATA
1 TTATTATTT-TAAATA
1458186 AAAATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 8 0.29
19 16 0.57
20 4 0.14
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATTATTTTAAATATTTA
Found at i:1458250 original size:74 final size:75
Alignment explanation
Indices: 1458159--1458315 Score: 226
Period size: 74 Copynumber: 2.1 Consensus size: 75
1458149 TTATTATTAT
* * * * * *
1458159 TAATAAAATTTATCATATTTATAAATAAAAATTTAAATTTTATTGAAAGATTTTAAT-TAAATAA
1 TAATAAAATTTACCATATTTATAAATAAAAATTCAAATTATATTGAAAGACTTTAATCAAAAGAA
*
1458223 TTTTTTTTGA
66 TTTTATTTGA
* *
1458233 TAATAAAATTTACCATATTTATAAATAAAAATTCCAATTATATTGAAAGACTTTGATCAAAAGAA
1 TAATAAAATTTACCATATTTATAAATAAAAATTCAAATTATATTGAAAGACTTTAATCAAAAGAA
1458298 TTTTATTTGA
66 TTTTATTTGA
1458308 TAATAAAA
1 TAATAAAA
1458316 AATTAAAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
74 51 0.70
75 22 0.30
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (75 bp):
TAATAAAATTTACCATATTTATAAATAAAAATTCAAATTATATTGAAAGACTTTAATCAAAAGAA
TTTTATTTGA
Found at i:1458482 original size:17 final size:18
Alignment explanation
Indices: 1458459--1458500 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
1458449 ACTTTATATT
1458459 TAATATATAAAATTTATA
1 TAATATATAAAATTTATA
* *
1458477 -AATATATAAATTTTTTA
1 TAATATATAAAATTTATA
1458494 TAATATA
1 TAATATA
1458501 AATATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATATATAAAATTTATA
Found at i:1458499 original size:16 final size:16
Alignment explanation
Indices: 1458454--1458511 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
1458444 ATGTAACTTT
*
1458454 ATATTTAAT-ATATAA
1 ATATTTTATAATATAA
*
1458469 A-ATTTATAAATATATAA
1 ATATTT-TATA-ATATAA
*
1458486 ATTTTTTATAATATAA
1 ATATTTTATAATATAA
1458502 ATATTTTATA
1 ATATTTTATA
1458512 TTAAAGTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 4 0.12
15 2 0.06
16 15 0.44
17 10 0.29
18 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATTTTATAATATAA
Found at i:1459197 original size:23 final size:24
Alignment explanation
Indices: 1459155--1459201 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
1459145 TCAATTAATT
1459155 TATTATTTACATAAAATAAAAATA
1 TATTATTTACATAAAATAAAAATA
*
1459179 TATTATTTA-ATAAATTAAAAATA
1 TATTATTTACATAAAATAAAAATA
1459202 AATATGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TATTATTTACATAAAATAAAAATA
Found at i:1460049 original size:13 final size:14
Alignment explanation
Indices: 1460018--1460046 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1460008 ATTTAATTTG
1460018 ATTAA-TTTATAAA
1 ATTAATTTTATAAA
1460031 ATTAATTTTATAAA
1 ATTAATTTTATAAA
1460045 AT
1 AT
1460047 AATATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTAATTTTATAAA
Found at i:1460340 original size:2 final size:2
Alignment explanation
Indices: 1460333--1460372 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1460323 ATAATAAAAT
1460333 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1460373 CGGATTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1461215 original size:25 final size:24
Alignment explanation
Indices: 1461170--1461222 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 24
1461160 ACTAAATTTA
1461170 ATTTTTAATTATATAATATATATT
1 ATTTTTAATTATATAATATATATT
*
1461194 ATTTTTATATTTATATTGATATATATT
1 ATTTTTA-A-TTATA-TAATATATATT
1461221 AT
1 AT
1461223 GTCATTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 1 0.04
26 5 0.20
27 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTTAATTATATAATATATATT
Found at i:1461767 original size:32 final size:32
Alignment explanation
Indices: 1461707--1461768 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
1461697 AATTTTTTTA
***
1461707 AAAATTTATATAATATAATTTATTAATATATT
1 AAAATTTATATAATATAAAAAATTAATATATT
1461739 AAAATTTATATAA-ATAAAAAATTAAATATA
1 AAAATTTATATAATATAAAAAATT-AATATA
1461769 ATTACGATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
AAAATTTATATAATATAAAAAATTAATATATT
Found at i:1463667 original size:16 final size:16
Alignment explanation
Indices: 1463587--1463668 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 16
1463577 ATTATACTTG
* *
1463587 AAATGATTTAAATTTA
1 AAATGATCTAAAATTA
1463603 AAATGATCTAAAATT-
1 AAATGATCTAAAATTA
* * * * *
1463618 -GATTAACTCAAACTTG
1 AAATGATCT-AAAATTA
* *
1463634 AAATAATCTAAAACTA
1 AAATGATCTAAAATTA
*
1463650 AAATGATCTAAATTTA
1 AAATGATCTAAAATTA
1463666 AAA
1 AAA
1463669 ATAACTTAAA
Statistics
Matches: 48, Mismatches: 15, Indels: 6
0.70 0.22 0.09
Matches are distributed among these distances:
14 5 0.10
15 5 0.10
16 33 0.69
17 5 0.10
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (16 bp):
AAATGATCTAAAATTA
Found at i:1467360 original size:2 final size:2
Alignment explanation
Indices: 1467353--1467380 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1467343 CCACATTTTA
1467353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1467381 GTCTTATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1470229 original size:22 final size:22
Alignment explanation
Indices: 1470185--1470226 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1470175 ATAAGTGTAA
*
1470185 AATATAATTATTTAAAAATAAT
1 AATAAAATTATTTAAAAATAAT
1470207 AATAAAATT-TTTAAAAATAA
1 AATAAAATTATTTAAAAATAA
1470227 ATATATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAAATTATTTAAAAATAAT
Found at i:1472464 original size:14 final size:13
Alignment explanation
Indices: 1472447--1472479 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1472437 AAACAATATT
1472447 TAAAAAATAAAAAA
1 TAAAAAAT-AAAAA
1472461 TAAAAAATAAAAA
1 TAAAAAATAAAAA
1472474 TAAAAA
1 TAAAAA
1472480 GCCACACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:1472465 original size:6 final size:7
Alignment explanation
Indices: 1472447--1472479 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
1472437 AAACAATATT
1472447 TAAAAAA
1 TAAAAAA
1472454 TAAAAAA
1 TAAAAAA
1472461 TAAAAAA
1 TAAAAAA
1472468 T-AAAAA
1 TAAAAAA
1472474 TAAAAA
1 TAAAAA
1472480 GCCACACCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:1476101 original size:6 final size:6
Alignment explanation
Indices: 1476092--1476147 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
1476082 TTTTATTACT
*
1476092 AATATA AATATA AATA-A AATATA AAT-T- AATA-A AATTTTA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AA-TATA AATATA
1476137 AATAT- AATATA
1 AATATA AATATA
1476148 GATTTTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
4 3 0.07
5 13 0.31
6 23 0.55
7 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AATATA
Found at i:1476124 original size:15 final size:17
Alignment explanation
Indices: 1476092--1476147 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
1476082 TTTTATTACT
1476092 AATATAAATATAAATAA
1 AATATAAATATAAATAA
1476109 AATATAAAT-T-AATAA
1 AATATAAATATAAATAA
* *
1476124 AATTTTAAATATAAATAT
1 AA-TATAAATATAAATAA
1476142 AATATA
1 AATATA
1476148 GATTTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 7 0.21
16 7 0.21
17 13 0.39
18 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATAAATATAAATAA
Found at i:1476134 original size:22 final size:24
Alignment explanation
Indices: 1476092--1476160 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
1476082 TTTTATTACT
*
1476092 AATATAAATATAAA--TAAAATATA
1 AATAT-AATATAAATTTTAAATATA
1476115 AAT-TAATA-AAATTTTAAATATA
1 AATATAATATAAATTTTAAATATA
*
1476137 AATATAATATAGATTTTAAATATA
1 AATATAATATAAATTTTAAATATA
1476161 TTATATTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
20 3 0.08
21 4 0.10
22 12 0.30
23 8 0.20
24 13 0.32
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (24 bp):
AATATAATATAAATTTTAAATATA
Found at i:1477327 original size:22 final size:24
Alignment explanation
Indices: 1477263--1477329 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 24
1477253 ATCTTTTATA
*
1477263 ATTATATTAAAAAATAATTTATATT
1 ATTAT-TTAAATAATAATTTATATT
* *
1477288 AATATTTATAATTA-AATTT-T-TT
1 ATTATTTA-AATAATAATTTATATT
1477310 ATTATTTAAATAATAATTTA
1 ATTATTTAAATAATAATTTA
1477330 AAATAATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 4 0.12
22 14 0.41
23 1 0.03
24 8 0.24
25 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTATTTAAATAATAATTTATATT
Found at i:1477582 original size:42 final size:39
Alignment explanation
Indices: 1477528--1477634 Score: 98
Period size: 37 Copynumber: 2.7 Consensus size: 39
1477518 ATAAACATAA
1477528 TAAAAT-TAAAAATTTAATTTAATTAATTCAAA-CTAAATTAAT
1 TAAAATAT-AAAATTTAATTTAATTAA---AAATC-AAATTAAT
* *
1477570 TTAAATATAAAATCTAATTTAA--AAAAATCAAATTAAT
1 TAAAATATAAAATTTAATTTAATTAAAAATCAAATTAAT
* *
1477607 TAAAATATTAAATTTAA-TTAATTTAAAA
1 TAAAATATAAAATTTAATTTAATTAAAAA
1477635 CTAAAACAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
36 4 0.07
37 25 0.45
38 5 0.09
40 2 0.04
42 18 0.33
43 1 0.02
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (39 bp):
TAAAATATAAAATTTAATTTAATTAAAAATCAAATTAAT
Found at i:1477588 original size:37 final size:37
Alignment explanation
Indices: 1477547--1477657 Score: 109
Period size: 37 Copynumber: 3.0 Consensus size: 37
1477537 AAATTTAATT
*
1477547 TAATTAATTCAAACTAAATTAATTTAAATATAAAATC
1 TAATTAATTAAAACTAAATTAATTTAAATATAAAATC
* * * *
1477584 TAATTTAA--AAAAATCAAATTAATTAAAATATTAAATT
1 TAA-TTAATTAAAACT-AAATTAATTTAAATATAAAATC
** *
1477621 TAATTAATTTAAAACTAAAACAATTTAAATTTAAAAT
1 TAATTAA-TTAAAACTAAATTAATTTAAATATAAAAT
1477658 AACTTCAAAC
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
36 8 0.14
37 25 0.43
38 20 0.34
39 5 0.09
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (37 bp):
TAATTAATTAAAACTAAATTAATTTAAATATAAAATC
Found at i:1477684 original size:17 final size:19
Alignment explanation
Indices: 1477664--1477702 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
1477654 AAATAACTTC
1477664 AAACTCAAAATA-AACA-A
1 AAACTCAAAATATAACATA
*
1477681 AAACTTAAAATATAACATA
1 AAACTCAAAATATAACATA
1477700 AAA
1 AAA
1477703 ATTTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (19 bp):
AAACTCAAAATATAACATA
Found at i:1479141 original size:29 final size:29
Alignment explanation
Indices: 1479092--1479159 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
1479082 AAAATAAATT
* * *
1479092 TATATAAATTATAATTAAATTTAAATTAA
1 TATAAAAATTATAATTAAATTAAAAATAA
1479121 T-TAAAAATTAATAA-TATAATTAAAAATAA
1 TATAAAAATT-ATAATTA-AATTAAAAATAA
*
1479150 TATTAAAATT
1 TATAAAAATT
1479160 TTTATTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
28 9 0.28
29 16 0.50
30 7 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
TATAAAAATTATAATTAAATTAAAAATAA
Found at i:1479159 original size:18 final size:19
Alignment explanation
Indices: 1479119--1479159 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
1479109 AATTTAAATT
*
1479119 AATTAAAAATTAATAATAT
1 AATTAAAAATTAATAATAA
*
1479138 AATTAAAAA-TAATATTAA
1 AATTAAAAATTAATAATAA
1479156 AATT
1 AATT
1479160 TTTATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTAAAAATTAATAATAA
Found at i:1480674 original size:16 final size:16
Alignment explanation
Indices: 1480637--1480668 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1480627 ATTCAAATTT
1480637 TAAATTTTAAATTAAA
1 TAAATTTTAAATTAAA
1480653 TAAATTATTAAATTAA
1 TAAATT-TTAAATTAA
1480669 TCAATTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATTTTAAATTAAA
Found at i:1481844 original size:17 final size:16
Alignment explanation
Indices: 1481805--1481868 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
1481795 AAAGAAATGG
1481805 TTTATT-TTTATTATA
1 TTTATTATTTATTATA
*
1481820 TTTGATTATTTATGTATC
1 TTT-ATTATTTAT-TATA
*
1481838 TTTATTATTTTTATATAA
1 TTTATTATTTAT-TAT-A
1481856 TTTATTATATTAT
1 TTTATTAT-TTAT
1481869 AATCTATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 3 0.08
16 3 0.08
17 16 0.41
18 14 0.36
19 3 0.08
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATTATTTATTATA
Found at i:1481989 original size:20 final size:21
Alignment explanation
Indices: 1481951--1481989 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1481941 TTTTAATTAT
*
1481951 TTTTTATATAGTATTAAATCA
1 TTTTTATATAGTATCAAATCA
*
1481972 TTTTTA-ATATTATCAAAT
1 TTTTTATATAGTATCAAAT
1481990 TTAATTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTTATATAGTATCAAATCA
Found at i:1484962 original size:13 final size:13
Alignment explanation
Indices: 1484944--1484971 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1484934 TTTTTTTAAA
1484944 AATATTTATATTT
1 AATATTTATATTT
1484957 AATATTTATATTT
1 AATATTTATATTT
1484970 AA
1 AA
1484972 CACATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:1487363 original size:68 final size:68
Alignment explanation
Indices: 1487290--1487426 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
1487280 TTTTATATTA
1487290 TAACTTATAAGTATTATTTTATTAACTTAATATTTTTTAAATAAAATAATACTCAATTTAAGTTC
1 TAACTTATAAGTATTATTTTATTAACTTAATATTTTTTAAATAAAATAATACTCAATTTAAGTTC
1487355 GGG
66 GGG
* * *
1487358 TAACTTATAAGTATTATTTTATTAACTTGATATTTTTTAAATAAAATAATACTTAATTTAATTTC
1 TAACTTATAAGTATTATTTTATTAACTTAATATTTTTTAAATAAAATAATACTCAATTTAAGTTC
1487423 GGG
66 GGG
1487426 T
1 T
1487427 CATTTTAGGT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (68 bp):
TAACTTATAAGTATTATTTTATTAACTTAATATTTTTTAAATAAAATAATACTCAATTTAAGTTC
GGG
Found at i:1487464 original size:16 final size:16
Alignment explanation
Indices: 1487443--1487548 Score: 106
Period size: 16 Copynumber: 6.7 Consensus size: 16
1487433 AGGTTAATTA
1487443 TTCGGGTCATTTCGGG
1 TTCGGGTCATTTCGGG
*
1487459 TTCGGGTCATTTTGGG
1 TTCGGGTCATTTCGGG
* * *
1487475 TTCGGATCATTTCAGA
1 TTCGGGTCATTTCGGG
***
1487491 TTTATGTC-TTTCGGG
1 TTCGGGTCATTTCGGG
* *
1487506 TTCAGGTCATTTCGGA
1 TTCGGGTCATTTCGGG
* *
1487522 TTCGAGTCATTTCGAG
1 TTCGGGTCATTTCGGG
1487538 TTCGGGTCATT
1 TTCGGGTCATT
1487549 CTAGATTCGG
Statistics
Matches: 70, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
15 11 0.16
16 59 0.84
ACGTcount: A:0.13, C:0.17, G:0.28, T:0.42
Consensus pattern (16 bp):
TTCGGGTCATTTCGGG
Found at i:1487571 original size:16 final size:16
Alignment explanation
Indices: 1487552--1487587 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1487542 GGTCATTCTA
* *
1487552 GATTCGGATTATTTCG
1 GATTCGAATCATTTCG
1487568 GATTCGAATCATTTCG
1 GATTCGAATCATTTCG
1487584 GATT
1 GATT
1487588 TGGGTTGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (16 bp):
GATTCGAATCATTTCG
Found at i:1487814 original size:14 final size:14
Alignment explanation
Indices: 1487789--1487828 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
1487779 TAAAAATAAT
1487789 ATTTTATAATTTTTA
1 ATTTT-TAATTTTTA
1487804 ATTTTTAATTTTTA
1 ATTTTTAATTTTTA
1487818 ATTTTTTAATT
1 A-TTTTTAATT
1487829 ATGATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTAATTTTTA
Found at i:1487815 original size:6 final size:7
Alignment explanation
Indices: 1487789--1487828 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
1487779 TAAAAATAAT
1487789 ATTTTATA
1 ATTTT-TA
1487797 ATTTTTA
1 ATTTTTA
1487804 ATTTTTA
1 ATTTTTA
1487811 ATTTTTA
1 ATTTTTA
1487818 ATTTTTTA
1 A-TTTTTA
1487826 ATT
1 ATT
1487829 ATGATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 19 0.61
8 12 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTTA
Found at i:1490678 original size:16 final size:16
Alignment explanation
Indices: 1490645--1490693 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1490635 GACACTCAAA
* *
1490645 TTATTAAAAATGTAAT
1 TTATTAAAAATATTAT
*
1490661 TTTTTAAAAATATTAT
1 TTATTAAAAATATTAT
*
1490677 TTAATAAAAATTATTAT
1 TTATTAAAAA-TATTAT
1490694 ATATATTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 21 0.78
17 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TTATTAAAAATATTAT
Found at i:1491727 original size:15 final size:17
Alignment explanation
Indices: 1491707--1491741 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
1491697 TTTAAATAGT
1491707 AATTTATAT-TTAAA-A
1 AATTTATATATTAAATA
1491722 AATTTATATATTAAATA
1 AATTTATATATTAAATA
1491739 AAT
1 AAT
1491742 AATTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 5 0.28
17 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTATATATTAAATA
Found at i:1491745 original size:20 final size:19
Alignment explanation
Indices: 1491717--1491758 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
1491707 AATTTATATT
1491717 TAAAAAA-TTTATATATTAAA
1 TAAAAAATTTTA-ATA-TAAA
*
1491737 TAAATAATTTTAATATAAA
1 TAAAAAATTTTAATATAAA
1491756 TAA
1 TAA
1491759 TATTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAAAATTTTAATATAAA
Found at i:1491756 original size:15 final size:16
Alignment explanation
Indices: 1491727--1491781 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
1491717 TAAAAAATTT
1491727 ATATATTAA-ATAAATA
1 ATAT-TTAATATAAATA
1491743 AT-TTTAATATAAATA
1 ATATTTAATATAAATA
*
1491758 ATATTAAATAT-AATAA
1 ATATTTAATATAAAT-A
1491774 ATATTTAA
1 ATATTTAA
1491782 CAAAAAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 4 0.12
15 13 0.38
16 17 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATTTAATATAAATA
Found at i:1491769 original size:16 final size:15
Alignment explanation
Indices: 1491736--1491770 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1491726 TATATATTAA
*
1491736 ATAAATAATTTTAAT
1 ATAAATAATTTAAAT
1491751 ATAAATAATATTAAAT
1 ATAAATAAT-TTAAAT
1491767 ATAA
1 ATAA
1491771 TAAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATAATTTAAAT
Found at i:1492693 original size:12 final size:12
Alignment explanation
Indices: 1492670--1492701 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
1492660 AAAAATAATT
1492670 TAATTAATTTATA
1 TAATT-ATTTATA
1492683 TAATTATTTATA
1 TAATTATTTATA
1492695 TAATTAT
1 TAATTAT
1492702 ATGTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAATTATTTATA
Found at i:1494212 original size:14 final size:15
Alignment explanation
Indices: 1494193--1494221 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1494183 CCCAACTAAT
1494193 AAGG-AAAAAAGAAA
1 AAGGAAAAAAAGAAA
1494207 AAGGAAAAAAAGAAA
1 AAGGAAAAAAAGAAA
1494222 GCAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGGAAAAAAAGAAA
Done.