Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold19
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: 2266706
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17655 characters in sequence are not A, C, G, or T
File 7 of 15
Found at i:928097 original size:15 final size:15
Alignment explanation
Indices: 928077--928110 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
928067 TTATTACTAA
928077 GTTTGTTTAAGCTTG
1 GTTTGTTTAAGCTTG
*
928092 GTTTGTTTAAGTTTG
1 GTTTGTTTAAGCTTG
928107 GTTT
1 GTTT
928111 AAGCTCGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.03, G:0.26, T:0.59
Consensus pattern (15 bp):
GTTTGTTTAAGCTTG
Found at i:928564 original size:19 final size:20
Alignment explanation
Indices: 928537--928576 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
928527 TAATTTTTGT
* *
928537 TTTTGTTTTCATTTTTAATA
1 TTTTGTTTTAATTTTAAATA
928557 TTTT-TTTTAATTTTAAATA
1 TTTTGTTTTAATTTTAAATA
928576 T
1 T
928577 AAAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTGTTTTAATTTTAAATA
Found at i:928594 original size:14 final size:15
Alignment explanation
Indices: 928571--928626 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
928561 TTTTAATTTT
928571 AAATATAAAATAATA
1 AAATATAAAATAATA
928586 AAATA-AAAAT-AT-
1 AAATATAAAATAATA
* *
928598 TATTAT-AAATAA-A
1 AAATATAAAATAATA
928611 TAAATATAAAATAATA
1 -AAATATAAAATAATA
928627 TTACTAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 9 0.29
15 11 0.35
16 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATATAAAATAATA
Found at i:928605 original size:27 final size:28
Alignment explanation
Indices: 928574--928634 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
928564 TAATTTTAAA
*
928574 TATAAAAT-AATAAA-ATAAAAATATTAT
1 TATAAAATAAATAAATAT-AAAATAATAT
928601 TAT-AAATAAATAAATATAAAATAATAT
1 TATAAAATAAATAAATATAAAATAATAT
928628 TACTAAA
1 TA-TAAA
928635 TTATAATCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
26 4 0.14
27 20 0.69
28 3 0.10
29 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
TATAAAATAAATAAATATAAAATAATAT
Found at i:928729 original size:21 final size:22
Alignment explanation
Indices: 928689--928731 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
928679 AATGAAAAAA
* *
928689 ATTTAAATTTGATTTGTTTAAT
1 ATTTAAAATTGATTTATTTAAT
928711 ATTTAAAATT-ATTTATTTAAT
1 ATTTAAAATTGATTTATTTAAT
928732 TAAACAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
ATTTAAAATTGATTTATTTAAT
Found at i:929634 original size:22 final size:22
Alignment explanation
Indices: 929603--929663 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
929593 CGTTGCTACA
929603 AATTTGTTAATTTTTTTAAT-TT
1 AATTT-TTAATTTTTTTAATATT
*
929625 AATTATTTAA-TTATTTAATATT
1 AATT-TTTAATTTTTTTAATATT
* *
929647 AATTTCTATTTTTTTTA
1 AATTTTTAATTTTTTTA
929664 GTTTGCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 11 0.34
22 20 0.62
23 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
AATTTTTAATTTTTTTAATATT
Found at i:932100 original size:2 final size:2
Alignment explanation
Indices: 932093--932120 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
932083 CTAAACATGC
932093 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
932121 TATTGATAAT
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:932626 original size:22 final size:19
Alignment explanation
Indices: 932606--932676 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 19
932596 TAAATTATTA
932606 TTTAATAATAAAAATAATAT
1 TTTAAT-ATAAAAATAATAT
* *
932626 TTTTATTTAAAATTTATAATAT
1 TTTAATATAAAA---ATAATAT
932648 ATATTAATATAAAAAATAATAT
1 -T-TTAATAT-AAAAATAATAT
932670 TTTAATA
1 TTTAATA
932677 ATATAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
19 5 0.12
20 11 0.27
21 1 0.02
22 14 0.34
23 1 0.02
24 5 0.12
25 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAATATAAAAATAATAT
Found at i:932877 original size:3 final size:3
Alignment explanation
Indices: 932869--932893 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
932859 TATGTTCCCA
932869 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
932894 CAAGGTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:937140 original size:15 final size:15
Alignment explanation
Indices: 937120--937149 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
937110 TTGAAAGTTA
937120 AAATTCTCTTTATTT
1 AAATTCTCTTTATTT
*
937135 AAATTCTTTTTATTT
1 AAATTCTCTTTATTT
937150 TCTCCTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (15 bp):
AAATTCTCTTTATTT
Found at i:938853 original size:16 final size:16
Alignment explanation
Indices: 938832--938869 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
938822 TGATTTTCCT
938832 ACATAATATAACTATA
1 ACATAATATAACTATA
**
938848 ACATAATATGGCTATA
1 ACATAATATAACTATA
938864 ACATAA
1 ACATAA
938870 CGTTAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (16 bp):
ACATAATATAACTATA
Found at i:942649 original size:15 final size:15
Alignment explanation
Indices: 942618--942673 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
942608 AAGTTATTTT
942618 TTAATTTAAA--A-A
1 TTAATTTAAATTATA
942630 TTAATTTAAATTATA
1 TTAATTTAAATTATA
*
942645 TTAATTTAAATTATT
1 TTAATTTAAATTATA
942660 TTGAA-TTAAATTAT
1 TT-AATTTAAATTAT
942674 CGAAATTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
12 10 0.26
14 1 0.03
15 26 0.67
16 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TTAATTTAAATTATA
Found at i:942734 original size:15 final size:15
Alignment explanation
Indices: 942630--942735 Score: 66
Period size: 15 Copynumber: 7.3 Consensus size: 15
942620 AATTTAAAAA
942630 TTAAT-TTAAATTAT
1 TTAATATTAAATTAT
942644 ATTAAT-TTAAATTATT
1 -TTAATATTAAATTA-T
*
942660 TTGA-ATTAAATTAT
1 TTAATATTAAATTAT
**
942674 CGAA-ATTAAATTAT
1 TTAATATTAAATTAT
*
942688 TTAA-ATTTAGA-TAT
1 TTAATA-TTAAATTAT
*
942702 CTCTAATA--AAATTTT
1 -T-TAATATTAAATTAT
942717 TTAATATTAAATTAT
1 TTAATATTAAATTAT
942732 TTAA
1 TTAA
942736 ATCAAATTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
13 5 0.07
14 21 0.29
15 41 0.57
16 4 0.06
17 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAATATTAAATTAT
Found at i:943671 original size:17 final size:17
Alignment explanation
Indices: 943637--943669 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
943627 ATTAAAATTT
943637 TTATTTTATAATATAAA
1 TTATTTTATAATATAAA
*
943654 TTATTTT-TAATGTAAA
1 TTATTTTATAATATAAA
943670 ATAGATTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTATTTTATAATATAAA
Found at i:943814 original size:2 final size:2
Alignment explanation
Indices: 943807--943858 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
943797 TCTATTAGTT
943807 TA 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 TA
943849 TA TA TA TA TA
1 TA TA TA TA TA
943859 CACTCATACG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:946099 original size:18 final size:18
Alignment explanation
Indices: 946076--946110 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
946066 GCAAACTATT
946076 CTAAATGATCTTAAAATG
1 CTAAATGATCTTAAAATG
* *
946094 CTAAATGGTCTTTAAAT
1 CTAAATGATCTTAAAAT
946111 CATGAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
CTAAATGATCTTAAAATG
Found at i:947488 original size:4 final size:4
Alignment explanation
Indices: 947479--947505 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
947469 GTCACCAAAA
947479 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
947506 CTCTTTTTAC
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:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:947839 original size:2 final size:2
Alignment explanation
Indices: 947834--947863 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
947824 TTTTTTTTAC
*
947834 AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
947864 CACTTAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:947979 original size:18 final size:17
Alignment explanation
Indices: 947933--947979 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
947923 TTTTTATATA
*
947933 TTTC-CTTTTTTTATTT
1 TTTCTCTTTCTTTATTT
*
947949 TTTCTCCTTCTTTATTT
1 TTTCTCTTTCTTTATTT
*
947966 ATTTTTCTTTCTTT
1 -TTTCTCTTTCTTT
947980 GTAAGAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 4 0.16
17 10 0.40
18 11 0.44
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTCTCTTTCTTTATTT
Found at i:950780 original size:57 final size:58
Alignment explanation
Indices: 950655--950783 Score: 147
Period size: 57 Copynumber: 2.2 Consensus size: 58
950645 AAGTGTACAA
950655 CATGAAGAAAGAAAACATGCAACAAAGGAAAATCCAAAAAAAATGAAAACAAGTTCACGG
1 CATGAAGAAA-AAAACATGCAACAAAGGAAAATCC-AAAAAAATGAAAACAAGTTCACGG
* * * ** *
950715 AATAAAGAAAAAAACATGCAGCAAAAGGAAAAT-C-AAGCAATGAAAACAAGCTT-TCGG
1 CATGAAGAAAAAAACATGCAAC-AAAGGAAAATCCAAAAAAATGAAAACAAG-TTCACGG
950772 CATGAAGAAAAA
1 CATGAAGAAAAA
950784 CAATGGAGGA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
57 27 0.46
58 2 0.03
59 12 0.20
60 18 0.31
ACGTcount: A:0.58, C:0.14, G:0.17, T:0.11
Consensus pattern (58 bp):
CATGAAGAAAAAAACATGCAACAAAGGAAAATCCAAAAAAATGAAAACAAGTTCACGG
Found at i:950990 original size:18 final size:20
Alignment explanation
Indices: 950943--950990 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
950933 GTTTGCTGGT
950943 GATGGTTGCTTGCTTTGCTTC
1 GATGGTTGCTTGC-TTGCTTC
**
950964 GATCATTGC-TGC-TGCTTC
1 GATGGTTGCTTGCTTGCTTC
950982 GATGGTTGC
1 GATGGTTGC
950991 GGCTTGTTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 13 0.57
20 3 0.13
21 7 0.30
ACGTcount: A:0.08, C:0.21, G:0.29, T:0.42
Consensus pattern (20 bp):
GATGGTTGCTTGCTTGCTTC
Found at i:951165 original size:12 final size:12
Alignment explanation
Indices: 951148--951176 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
951138 TCTCCTTTTT
951148 TTTTTTTTTCTA
1 TTTTTTTTTCTA
951160 TTTTTTTTTCTA
1 TTTTTTTTTCTA
951172 TTTTT
1 TTTTT
951177 GATGTTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTCTA
Found at i:951894 original size:13 final size:13
Alignment explanation
Indices: 951876--951928 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
951866 TCATCATGTT
951876 CATGCATGAAATG
1 CATGCATGAAATG
951889 CATGCATG-AA-G
1 CATGCATGAAATG
*
951900 CAGTGCAATGAAATA
1 CA-TGC-ATGAAATG
951915 CAATGCATGAAATG
1 C-ATGCATGAAATG
951929 AACTTATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
11 3 0.09
12 5 0.15
13 11 0.33
14 9 0.27
15 4 0.12
16 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (13 bp):
CATGCATGAAATG
Found at i:952000 original size:17 final size:17
Alignment explanation
Indices: 951959--952008 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
951949 AAAAAAAAAC
951959 ATGCATGAAATGCAAGGCA
1 ATGCATGAAATG-AA-GCA
951978 ATGCATGAAATGAA-CA
1 ATGCATGAAATGAAGCA
*
951994 TATGCATGTAATGAA
1 -ATGCATGAAATGAA
952009 ATGAATGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 2 0.07
17 13 0.45
18 2 0.07
19 12 0.41
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (17 bp):
ATGCATGAAATGAAGCA
Found at i:952185 original size:17 final size:18
Alignment explanation
Indices: 952158--952210 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
952148 TATTTTTATG
952158 TATATATTTTTTTATATTT
1 TATATA-TTTTTTATATTT
* *
952177 TCT-TATTTTATATTATTT
1 TATATATTTTTTA-TATTT
952195 TATATATTTTTT-TATT
1 TATATATTTTTTATATT
952211 AATATCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 10 0.36
18 9 0.32
19 9 0.32
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
TATATATTTTTTATATTT
Found at i:952200 original size:27 final size:25
Alignment explanation
Indices: 952160--952210 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
952150 TTTTTATGTA
952160 TATATTTTTTTATATTTTCTTATTT
1 TATATTTTTTTATATTTTCTTATTT
*
952185 TATATTATTTTATATATTTTTTTATT
1 TATATT-TTTT-TATATTTTCTTATT
952211 AATATCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.26
26 4 0.17
27 13 0.57
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (25 bp):
TATATTTTTTTATATTTTCTTATTT
Found at i:952610 original size:3 final size:3
Alignment explanation
Indices: 952604--952637 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
952594 ATAAAAAAAA
952604 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
952638 TAAGATACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:955085 original size:16 final size:16
Alignment explanation
Indices: 955045--955085 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
955035 TCCTTTCTTA
*
955045 TTTAAATTTTTTTAAT
1 TTTAAATTTTTTAAAT
* *
955061 TTCACATTTTTTAAAT
1 TTTAAATTTTTTAAAT
955077 TTTAAATTT
1 TTTAAATTT
955086 CTCAAATTTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTAAATTTTTTAAAT
Found at i:955758 original size:61 final size:61
Alignment explanation
Indices: 955663--955777 Score: 203
Period size: 61 Copynumber: 1.9 Consensus size: 61
955653 AATGCCCTGT
*
955663 GCCAATTGCCATGTCAATTGTCAAACTCAGGTTTTCCTTTCGAAACAATTTCCTACCTTAC
1 GCCAATTGCCATGTCAATTGTCAAACTCAGGTTTTCCTTTCAAAACAATTTCCTACCTTAC
* *
955724 GCCAATTGTCATGTCACTTGTCAAACTCAGGTTTTCCTTTCAAAACAATTTCCT
1 GCCAATTGCCATGTCAATTGTCAAACTCAGGTTTTCCTTTCAAAACAATTTCCT
955778 TTTATTAATC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (61 bp):
GCCAATTGCCATGTCAATTGTCAAACTCAGGTTTTCCTTTCAAAACAATTTCCTACCTTAC
Found at i:958470 original size:7 final size:8
Alignment explanation
Indices: 958449--958475 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
958439 TTTATTAAAT
958449 TTAAAAAA
1 TTAAAAAA
958457 TTAAAAAA
1 TTAAAAAA
958465 TTAAAAAA
1 TTAAAAAA
958473 TTA
1 TTA
958476 CATATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TTAAAAAA
Found at i:958957 original size:20 final size:22
Alignment explanation
Indices: 958916--958960 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
958906 AATGGATTAA
*
958916 TATATTATTATTATTATTATTG
1 TATACTATTATTATTATTATTG
958938 TATACTATTATT-TT-TTATTG
1 TATACTATTATTATTATTATTG
958958 TAT
1 TAT
958961 TTTAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 2 0.09
22 11 0.50
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (22 bp):
TATACTATTATTATTATTATTG
Found at i:959174 original size:17 final size:18
Alignment explanation
Indices: 959152--959185 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
959142 GTTAATTTTC
*
959152 TATATT-TATATAAATTT
1 TATATTATAAATAAATTT
959169 TATATTATAAATAAATT
1 TATATTATAAATAAATT
959186 AAATAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATTATAAATAAATTT
Found at i:959769 original size:35 final size:35
Alignment explanation
Indices: 959718--959854 Score: 120
Period size: 35 Copynumber: 3.9 Consensus size: 35
959708 ATTTGAATAA
* *
959718 AATAATTATTTTATAAAATAAAATAAAATAATTAT
1 AATAATAATTTAATAAAATAAAATAAAATAATTAT
* *
959753 AATAATAATTTAATAAAATATAATATTATAAA-ATTTAA
1 AATAATAATTTAATAAAATA-AA-A-TA-AAATAATTAT
* * *
959791 AATAATTATTTAAT-AAA-AATATTAAATAATTAT
1 AATAATAATTTAATAAAATAAAATAAAATAATTAT
* *
959824 TATAAAAATTT-ATAAAATAAAATAATAATAA
1 AATAATAATTTAATAAAATAAAATAA-AATAA
959855 ATTAATACAT
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
32 5 0.06
33 16 0.20
34 6 0.08
35 24 0.30
36 3 0.04
37 4 0.05
38 19 0.24
39 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (35 bp):
AATAATAATTTAATAAAATAAAATAAAATAATTAT
Found at i:959817 original size:24 final size:22
Alignment explanation
Indices: 959741--959835 Score: 86
Period size: 24 Copynumber: 4.1 Consensus size: 22
959731 TAAAATAAAA
* *
959741 TAAAATAATTATAATAATAATT
1 TAAAATAATTATTATAAAAATT
*
959763 TAATAA-AATATAATATTATAAAATT
1 TAA-AATAAT-TATTA-TA-AAAATT
959788 TAAAATAATTATTTAATAAAAATAT
1 TAAAATAATTA-TT-ATAAAAAT-T
959813 T-AAATAATTATTATAAAAATT
1 TAAAATAATTATTATAAAAATT
959834 TA
1 TA
959836 TAAAATAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
21 2 0.03
22 14 0.23
23 7 0.12
24 20 0.33
25 16 0.27
26 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATAATTATTATAAAAATT
Found at i:959850 original size:73 final size:73
Alignment explanation
Indices: 959715--959847 Score: 191
Period size: 71 Copynumber: 1.9 Consensus size: 73
959705 AAAATTTGAA
* *
959715 TAAAATAATTATTTTATAAAATAAAATAAAATAATTATAATAATAATTTAATAAAATATAATATT
1 TAAAATAATTATTTAATAAAATAAAATAAAATAATTATAATAAAAATTTAATAAAATATAATATT
959780 ATAAAATT
66 ATAAAATT
* * * *
959788 TAAAATAATTATTTAAT-AAA-AATATTAAATAATTATTATAAAAATTT-ATAAAATAAAATA
1 TAAAATAATTATTTAATAAAATAAAATAAAATAATTATAATAAAAATTTAATAAAATATAATA
959848 ATAATAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
70 12 0.22
71 23 0.43
72 3 0.06
73 16 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (73 bp):
TAAAATAATTATTTAATAAAATAAAATAAAATAATTATAATAAAAATTTAATAAAATATAATATT
ATAAAATT
Found at i:959851 original size:23 final size:23
Alignment explanation
Indices: 959740--959871 Score: 72
Period size: 24 Copynumber: 5.6 Consensus size: 23
959730 ATAAAATAAA
* *
959740 ATAAAATAATTATAATAATAATTT
1 ATAAAATAA-AATAATAAAAATTT
* *
959764 AATAAAATATAATATTATAAAATTT
1 -ATAAAATAAAATAATA-AAAATTT
* * **
959789 AAAATAATTATTTAATAAAAA--T
1 ATAA-AATAAAATAATAAAAATTT
* * *
959811 ATTAAATAATTATTATAAAAATTT
1 ATAAAATAA-AATAATAAAAATTT
*
959835 ATAAAATAAAATAATAATAAATTA
1 ATAAAATAAAATAATAA-AAATTT
*
959859 AT-ACATAAAATAA
1 ATAAAATAAAATAA
959872 ATTACATAAT
Statistics
Matches: 81, Mismatches: 20, Indels: 14
0.70 0.17 0.12
Matches are distributed among these distances:
21 4 0.05
22 12 0.15
23 16 0.20
24 28 0.35
25 21 0.26
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAAATAAAATAATAAAAATTT
Found at i:959894 original size:28 final size:27
Alignment explanation
Indices: 959730--959894 Score: 67
Period size: 28 Copynumber: 6.0 Consensus size: 27
959720 TAATTATTTT
*
959730 ATAAAATAA-AATAAAATAATTATAATA
1 ATAAAATAATAATAAATTAATTATAA-A
** *
959757 ATAATTTAATAA-AATATAATATTATAAA
1 ATAAAATAATAATAA-ATTA-ATTATAAA
** * *
959785 ATTTAA-AATAATTATTTAA-TA-AAA
1 ATAAAATAATAATAAATTAATTATAAA
959809 ATATTAAATAATTATTATAAA--AATTTATAAA
1 ATA--AAATAA-TA--ATAAATTAA-TTATAAA
*
959840 ATAAAATAATAATAAATTAATACATAAA
1 ATAAAATAATAATAAATTAAT-TATAAA
* *
959868 ATAAATTACATAATTATATT-ATTATAA
1 ATAAAATA-ATAA-TAAATTAATTATAA
959895 TACATTAAAT
Statistics
Matches: 101, Mismatches: 19, Indels: 35
0.65 0.12 0.23
Matches are distributed among these distances:
24 5 0.05
25 2 0.02
26 8 0.08
27 19 0.19
28 32 0.32
29 19 0.19
30 10 0.10
31 6 0.06
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (27 bp):
ATAAAATAATAATAAATTAATTATAAA
Found at i:962431 original size:117 final size:117
Alignment explanation
Indices: 962225--962455 Score: 401
Period size: 117 Copynumber: 2.0 Consensus size: 117
962215 CGCATCGCCT
* ** *
962225 TTTTTTAAGCTAATAGTTGGGTAACTTCCGGTGGAGAGTGAATGTTTTTGCGATGGCAGAGGATT
1 TTTTTTAAGCTAATAGTTGGGTAACTTCCAGTGGAGAGTGAATGTTCCTGCAATGGCAGAGGATT
*
962290 GTCATGTCAGGCTGCCAACAAATTTATTATTGTGTAAAATTTTAATCTTTGA
66 ATCATGTCAGGCTGCCAACAAATTTATTATTGTGTAAAATTTTAATCTTTGA
962342 TTTTTTAAGCT-ATAAGTTGGGTAACTTCCAGTGGAGAGTGAATGTTCCTGCAATGGCAGAGGAT
1 TTTTTTAAGCTAAT-AGTTGGGTAACTTCCAGTGGAGAGTGAATGTTCCTGCAATGGCAGAGGAT
962406 TATCATGTCAGGCTGCCAACAAATTTATTATTGTGTAAAATTTTAATCTT
65 TATCATGTCAGGCTGCCAACAAATTTATTATTGTGTAAAATTTTAATCTT
962456 GATACTTTGC
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
116 2 0.02
117 106 0.98
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.38
Consensus pattern (117 bp):
TTTTTTAAGCTAATAGTTGGGTAACTTCCAGTGGAGAGTGAATGTTCCTGCAATGGCAGAGGATT
ATCATGTCAGGCTGCCAACAAATTTATTATTGTGTAAAATTTTAATCTTTGA
Found at i:963709 original size:22 final size:21
Alignment explanation
Indices: 963653--963710 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 21
963643 ATATATTATT
963653 ATAATTAAAATTAAA-TAAAA
1 ATAATTAAAATTAAATTAAAA
***
963673 AT-ATTTTTATT--ATTAAATA
1 ATAATTAAAATTAAATTAAA-A
963692 ATAATTAAAATTAAATTAA
1 ATAATTAAAATTAAATTAA
963711 CTTCAATTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 8
0.66 0.15 0.20
Matches are distributed among these distances:
17 1 0.04
18 4 0.15
19 9 0.33
20 8 0.30
22 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATTAAAATTAAATTAAAA
Found at i:966124 original size:40 final size:40
Alignment explanation
Indices: 966068--966145 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
966058 ATTATTATTA
* * * *
966068 TTATTATTGTTCTTTATTATCTATTTATCTATATTTATAT
1 TTATTATTATTATTTATTATCTATCTATCTATACTTATAT
966108 TTATTATTATTATTTATTATCTATCTATCTATACTTAT
1 TTATTATTATTATTTATTATCTATCTATCTATACTTAT
966146 CGTGTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (40 bp):
TTATTATTATTATTTATTATCTATCTATCTATACTTATAT
Found at i:966567 original size:2 final size:2
Alignment explanation
Indices: 966560--966594 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
966550 CATATAGATT
966560 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
966595 GCAAAAGGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:967274 original size:23 final size:23
Alignment explanation
Indices: 967239--967283 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
967229 AAAACATACA
* *
967239 TATTTATATTTTTTATTATTTAT
1 TATTCATAATTTTTATTATTTAT
967262 TATTCATAATTTTTATTATTTA
1 TATTCATAATTTTTATTATTTA
967284 AAATATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTCATAATTTTTATTATTTAT
Found at i:967351 original size:23 final size:22
Alignment explanation
Indices: 967324--967382 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
967314 ATTTTTTTTA
967324 TATTTTTATGTTTATGTTATATT
1 TATTTTTATGTTTATGTTA-ATT
* *
967347 TATTTTTATATTTTATTTTAATT
1 TATTTTTAT-GTTTATGTTAATT
*
967370 AATTTTTAATGTT
1 TATTTTT-ATGTT
967383 ATAGGCGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TATTTTTATGTTTATGTTAATT
Found at i:968294 original size:19 final size:19
Alignment explanation
Indices: 968259--968310 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
968249 TCAATTACAT
*
968259 AAAAT-TTTAAAT-TATAA
1 AAAATATTTAAATAAATAA
968276 AAAATATTTAAATAAATAA
1 AAAATATTTAAATAAATAA
* *
968295 TAATTATTTAATATAA
1 AAAATATTTAA-ATAA
968311 TTTAACTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 5 0.17
18 7 0.24
19 13 0.45
20 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATATTTAAATAAATAA
Found at i:968361 original size:26 final size:27
Alignment explanation
Indices: 968304--968363 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
968294 ATAATTATTT
*
968304 AATA-TAATTTAACTTAAATTTATATG
1 AATATTAATTTAACTTAAATTTATATA
*
968330 ATTATTAATTTAA-TTAAATGTT-TATA
1 AATATTAATTTAACTTAAAT-TTATATA
968356 AATATTAA
1 AATATTAA
968364 AAATCTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (27 bp):
AATATTAATTTAACTTAAATTTATATA
Found at i:968522 original size:6 final size:6
Alignment explanation
Indices: 968513--968566 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
968503 TATTTGTATT
* * *
968513 TTTTAA TTTTTAA TTTTAA TTTTAT TTTTAAA TTATATA TTTTAA TGTTAA
1 TTTTAA -TTTTAA TTTTAA TTTTAA TTTT-AA TTTTA-A TTTTAA TTTTAA
968564 TTT
1 TTT
968567 GCATTGTCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
6 24 0.62
7 15 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:968554 original size:26 final size:27
Alignment explanation
Indices: 968495--968558 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
968485 TAAAAACTTC
* *
968495 ATAT-TTTTTATTTGTATTTTTTAATT
1 ATATATTTTAATTTGTATTTTTAAATT
*
968521 -TTTAATTTTAATTT-TATTTTTAAATT
1 ATAT-ATTTTAATTTGTATTTTTAAATT
968547 ATATATTTTAAT
1 ATATATTTTAAT
968559 GTTAATTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
25 2 0.06
26 19 0.61
27 10 0.32
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (27 bp):
ATATATTTTAATTTGTATTTTTAAATT
Found at i:968930 original size:17 final size:17
Alignment explanation
Indices: 968890--968937 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
968880 TTCTACAAAA
* *
968890 TTTATTTTAGATTT-TT
1 TTTATTTAAGTTTTATT
*
968906 TATATTTAAGTTTTATT
1 TTTATTTAAGTTTTATT
*
968923 TTTATTTAATTTTTA
1 TTTATTTAAGTTTTA
968938 AATGGTGTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (17 bp):
TTTATTTAAGTTTTATT
Found at i:969517 original size:38 final size:39
Alignment explanation
Indices: 969453--969526 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 39
969443 ATTTAATTAA
*
969453 AAATTATTAATATATATTATATATAATAAGACTGATGGT
1 AAATTATTAATATATATTATACATAATAAGACTGATGGT
* * *
969492 AAATTA-TAATTTATATTGA-ACATAATGAGAGTGAT
1 AAATTATTAATATATATT-ATACATAATAAGACTGAT
969527 TTAGTTGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
38 23 0.77
39 7 0.23
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (39 bp):
AAATTATTAATATATATTATACATAATAAGACTGATGGT
Found at i:970823 original size:29 final size:29
Alignment explanation
Indices: 970771--970864 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 29
970761 ACTTTTAAAT
970771 ATTAAATTAAATTTATATAAATTTAAAATTTA
1 ATTAAATT-AATTTATAT--ATTTAAAATTTA
**
970803 ATTAAATTAATTTATATATTT-ATTTTTA
1 ATTAAATTAATTTATATATTTAAAATTTA
** *
970831 AAAAATATTAATTTATAAATTTAAAATTTTA
1 ATTAA-ATTAATTTATATATTTAAAA-TTTA
970862 ATT
1 ATT
970865 TTAATGACTA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
28 8 0.16
29 19 0.38
30 1 0.02
31 14 0.28
32 8 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTAAATTAATTTATATATTTAAAATTTA
Found at i:971815 original size:14 final size:15
Alignment explanation
Indices: 971795--971838 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
971785 ATTTATATTA
971795 AATAAAAATATTTAT
1 AATAAAAATATTTAT
971810 -ATAAAAATATAATTAT
1 AATAAAAATAT--TTAT
971826 AATAAAAA-ATTTA
1 AATAAAAATATTTA
971839 AAAAAACCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 13 0.50
16 6 0.23
17 7 0.27
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAAAAATATTTAT
Found at i:971830 original size:31 final size:30
Alignment explanation
Indices: 971777--971838 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
971767 ATATATAAAA
* *
971777 ATATTAAAATTTATATTAAATAAAAATATTT
1 ATATAAAAATATATATTAAATAAAAA-ATTT
971808 ATATAAAAATATA-ATTATAATAAAAAATTT
1 ATATAAAAATATATATTA-AATAAAAAATTT
971838 A
1 A
971839 AAAAAACCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
ATATAAAAATATATATTAAATAAAAAATTT
Found at i:972402 original size:54 final size:54
Alignment explanation
Indices: 972304--972408 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
972294 AATAATTATT
* * *
972304 TAATAATATTTTTTTTATTTTAATTTAATTATAAAAGTATATTAAT-ATCACTA
1 TAATAATATTTTTTTTATTTTAAGTTAATTATAAAAATAAATTAATCATCACTA
972357 TAATAATAATTTTTTTTATTTTAAGTT-ATT-TAAACAATAAAATTAATCATCA
1 TAATAAT-ATTTTTTTTATTTTAAGTTAATTATAAA-AAT-AAATTAATCATCA
972409 ATCGGCCCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
52 4 0.09
53 12 0.27
54 25 0.56
55 4 0.09
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (54 bp):
TAATAATATTTTTTTTATTTTAAGTTAATTATAAAAATAAATTAATCATCACTA
Found at i:973058 original size:9 final size:9
Alignment explanation
Indices: 973044--973082 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
973034 CTATTTAAAT
973044 TTATTTTTA
1 TTATTTTTA
973053 TTATTTTTA
1 TTATTTTTA
973062 TTA-TTTTA
1 TTATTTTTA
* *
973070 ATATTTATA
1 TTATTTTTA
973079 TTAT
1 TTAT
973083 AATATTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTATTTTTA
Found at i:973074 original size:17 final size:17
Alignment explanation
Indices: 973048--973082 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
973038 TTAAATTTAT
* *
973048 TTTTATTATTTTTATTA
1 TTTTAATATTTATATTA
973065 TTTTAATATTTATATTA
1 TTTTAATATTTATATTA
973082 T
1 T
973083 AATATTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTAATATTTATATTA
Found at i:973085 original size:14 final size:15
Alignment explanation
Indices: 973042--973088 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
973032 GTCTATTTAA
* *
973042 ATTTATTTTTATTAT
1 ATTTATTATTATAAT
* *
973057 TTTTATTATTTTAAT
1 ATTTATTATTATAAT
973072 ATTTA-TATTATAAT
1 ATTTATTATTATAAT
973086 ATT
1 ATT
973089 ATAAATATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTATTATTATAAT
Found at i:973107 original size:22 final size:21
Alignment explanation
Indices: 973072--973131 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
973062 TTATTTTAAT
973072 ATTTATATTATAATAT-TATAA
1 ATTT-TATTATAATATATATAA
973093 ATATTTATTATTAATATAATATAA
1 AT-TTTATTA-TAATAT-ATATAA
*
973117 ATTTTATAAT-ATATA
1 ATTTTATTATAATATA
973132 ATTAAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
20 1 0.03
21 11 0.32
22 9 0.26
23 6 0.18
24 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTATTATAATATATATAA
Found at i:973113 original size:41 final size:39
Alignment explanation
Indices: 973054--973132 Score: 95
Period size: 41 Copynumber: 2.0 Consensus size: 39
973044 TTATTTTTAT
* * **
973054 TATTTTTATTATTTTAATATTTATATTATAATATTATAAA
1 TATTTTTATTAATATAATATAAATATTATAATA-TATAAA
*
973094 TATTTATTATTAATATAATATAAATTTTATAATATATAA
1 TATTT-TTATTAATATAATATAAATATTATAATATATAA
973133 TTAAAAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
40 10 0.30
41 23 0.70
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (39 bp):
TATTTTTATTAATATAATATAAATATTATAATATATAAA
Found at i:973115 original size:24 final size:24
Alignment explanation
Indices: 973069--973133 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
973059 TTATTATTTT
*
973069 AATATTTA-TATTATAATATTATA
1 AATATTTATTATTATAATAATATA
973092 AATATTTATTATTA-ATATAATATA
1 AATATTTATTATTATA-ATAATATA
*
973116 AAT-TTTATAATATATAAT
1 AATATTTATTAT-TATAAT
973134 TAAAAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
23 16 0.44
24 19 0.53
25 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AATATTTATTATTATAATAATATA
Found at i:974469 original size:32 final size:32
Alignment explanation
Indices: 974409--974469 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
974399 ATAATTTTTC
*
974409 ATTTTATTTATACATTTATGTTATTAAAATTG
1 ATTTTATTTATACATTTATGTTAATAAAATTG
974441 ATTTTA-TTATA-ATTATATGTTAAATAAAA
1 ATTTTATTTATACATT-TATGTT-AATAAAA
974470 ATATAATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 3 0.12
31 11 0.42
32 12 0.46
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (32 bp):
ATTTTATTTATACATTTATGTTAATAAAATTG
Found at i:975775 original size:21 final size:21
Alignment explanation
Indices: 975745--975842 Score: 69
Period size: 21 Copynumber: 4.8 Consensus size: 21
975735 TATGATAAGT
* *
975745 TATATATTTATATTTTGATTA
1 TATATATTTATATTATAATTA
*
975766 TATATTTTTATATTATAATTA
1 TATATATTTATATTATAATTA
* ** * *
975787 TATTTAAAATATTTTATATTTA
1 TATAT-ATTTATATTATAATTA
* *
975809 TATAAATTTTTA-TAT-ATTA
1 TATATATTTATATTATAATTA
975828 -ATA-ATTTATATTATA
1 TATATATTTATATTATA
975843 TAAATTTTAA
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
17 6 0.11
18 6 0.11
19 3 0.05
20 3 0.05
21 25 0.44
22 14 0.25
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (21 bp):
TATATATTTATATTATAATTA
Found at i:975821 original size:18 final size:18
Alignment explanation
Indices: 975793--975850 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
975783 ATTATATTTA
975793 AAATATTTTATATTTATAT
1 AAAT-TTTTATATTTATAT
975812 AAATTTTTATATATTA-AT
1 AAATTTTTATAT-TTATAT
975830 -AA--TTTATA-TTATAT
1 AAATTTTTATATTTATAT
975844 AAATTTT
1 AAATTTT
975851 AAAATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 3 0.09
14 2 0.06
15 8 0.24
17 4 0.12
18 10 0.29
19 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AAATTTTTATATTTATAT
Found at i:976316 original size:22 final size:21
Alignment explanation
Indices: 976278--976324 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
976268 GATAGGGTGA
* *
976278 AAAAGTGAAAGGATGAATAAGG
1 AAAAGTGAAAAGATGAA-AAAG
976300 AAAAGTGAAAA-AGTGAAAAAG
1 AAAAGTGAAAAGA-TGAAAAAG
976321 AAAA
1 AAAA
976325 TTAATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.11
Consensus pattern (21 bp):
AAAAGTGAAAAGATGAAAAAG
Found at i:977741 original size:2 final size:2
Alignment explanation
Indices: 977734--977774 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
977724 GGTAAAATTG
977734 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
977775 TACCATATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:977892 original size:6 final size:6
Alignment explanation
Indices: 977879--977924 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
977869 AAAAAAAAAA
* *
977879 AAATAT AAAGAT AAACAT AAATAT AAATAT AAATAT AGAATA- AAAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT A-AATAT AAAT
977925 TGAAGCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
5 3 0.08
6 29 0.81
7 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (6 bp):
AAATAT
Found at i:982656 original size:20 final size:21
Alignment explanation
Indices: 982633--982679 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
982623 ATAATTTTAG
982633 TTATATAAATTT-TAACATAT
1 TTATATAAATTTATAACATAT
*
982653 TTATATAAATTTATATCATAT
1 TTATATAAATTTATAACATAT
982674 TTATAT
1 TTATAT
982680 CGTGTAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATATAAATTTATAACATAT
Found at i:982677 original size:11 final size:11
Alignment explanation
Indices: 982648--982680 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
982638 TAAATTTTAA
982648 CATATTTATAT
1 CATATTTATAT
*
982659 -AAATTTATAT
1 CATATTTATAT
982669 CATATTTATAT
1 CATATTTATAT
982680 C
1 C
982681 GTGTAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (11 bp):
CATATTTATAT
Found at i:985645 original size:22 final size:23
Alignment explanation
Indices: 985614--985659 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
985604 TTAATGAATA
985614 AAAATATTAATGT-A-ACTTTTTC
1 AAAATATTAA-GTAATACTTTTTC
*
985636 AAAATTTTAAGTAATACTTTTTC
1 AAAATATTAAGTAATACTTTTTC
985659 A
1 A
985660 TATATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 10 0.48
23 9 0.43
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (23 bp):
AAAATATTAAGTAATACTTTTTC
Found at i:986771 original size:2 final size:2
Alignment explanation
Indices: 986764--986794 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
986754 ATGACAATGA
986764 AT AT AT 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 AT AT AT A
986795 AAATTAGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:987228 original size:3 final size:3
Alignment explanation
Indices: 987220--987263 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
987210 TATAAACGAA
987220 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
987264 CTAAAGGGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:987415 original size:3 final size:3
Alignment explanation
Indices: 987407--987431 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
987397 TTCAAAAGTT
987407 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
987432 AAACAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:988221 original size:1 final size:1
Alignment explanation
Indices: 988215--988254 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
988205 GCATGTTAAA
988215 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
988255 AAAAAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:996781 original size:21 final size:21
Alignment explanation
Indices: 996755--996801 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
996745 CGAGTCTATA
996755 ATATA-TAT-TAATTTTGTATTT
1 ATATATTATATAATTTT-TA-TT
996776 ATATATTATATAATTTTTATT
1 ATATATTATATAATTTTTATT
996797 ATATA
1 ATATA
996802 AAAATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.50
22 5 0.21
23 7 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATATTATATAATTTTTATT
Found at i:996925 original size:15 final size:13
Alignment explanation
Indices: 996905--996953 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
996895 AAAGAAATTT
996905 ATTAAATTCTTAAA
1 ATTAAATT-TTAAA
996919 GATTAAATTTTAAA
1 -ATTAAATTTTAAA
**
996933 ATTATTTTTTAAA
1 ATTAAATTTTAAA
*
996946 AATAAATT
1 ATTAAATT
996954 AAAAATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 16 0.55
14 5 0.17
15 8 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (13 bp):
ATTAAATTTTAAA
Found at i:997163 original size:24 final size:25
Alignment explanation
Indices: 997135--997239 Score: 67
Period size: 25 Copynumber: 4.2 Consensus size: 25
997125 ATATATAAAA
997135 TAAATT-TTAAAATTATAATTATAT
1 TAAATTATTAAAATTATAATTATAT
*
997159 TAAA-TAATAAAA-TATATATTATAAT
1 TAAATTATTAAAATTATA-ATTAT-AT
* * *
997184 TATATATTCTTTAAATAATAATTAT-T
1 TA-A-ATTATTAAAATTATAATTATAT
* *
997210 AGAAATTATTAAATTTAT-ATTCATAT
1 -TAAATTATTAAAATTATAATT-ATAT
997236 TAAA
1 TAAA
997240 AAATAATAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 19
0.67 0.12 0.21
Matches are distributed among these distances:
23 5 0.08
24 17 0.28
25 19 0.32
26 4 0.07
27 2 0.03
28 10 0.17
29 3 0.05
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (25 bp):
TAAATTATTAAAATTATAATTATAT
Found at i:997178 original size:19 final size:19
Alignment explanation
Indices: 997124--997179 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 19
997114 ACATTTCTAG
* *
997124 AATATATAAAATAAATTTTA
1 AATA-ATAAAATATATATTA
* *
997144 AA-ATTATAAT-TATATTA
1 AATAATAAAATATATATTA
997161 AATAATAAAATATATATTA
1 AATAATAAAATATATATTA
997180 TAATTATATA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
17 7 0.25
18 11 0.39
19 8 0.29
20 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATAATAAAATATATATTA
Found at i:997185 original size:36 final size:36
Alignment explanation
Indices: 997124--997204 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
997114 ACATTTCTAG
*
997124 AATATATAAAATAAATTTTAAAATTATA-ATTATATTA
1 AATA-ATAAAATAAATATTAAAATTATATATTAT-TTA
* * *
997161 AATAATAAAATATATATTATAATTATATATTCTTTA
1 AATAATAAAATAAATATTAAAATTATATATTATTTA
997197 AATAATAA
1 AATAATAA
997205 TTATTAGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
36 31 0.79
37 8 0.21
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (36 bp):
AATAATAAAATAAATATTAAAATTATATATTATTTA
Found at i:997609 original size:19 final size:19
Alignment explanation
Indices: 997585--997647 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
997575 ACAAATCGGG
997585 TATTTATATTTTTTTATAA
1 TATTTATATTTTTTTATAA
* *
997604 TATTTAAATTTTAATTA-AA
1 TATTTATATTTT-TTTATAA
997623 TA-TTATTATTTTTTTATAA
1 TATTTA-TATTTTTTTATAA
997642 TATTTA
1 TATTTA
997648 AATCAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 6 0.17
19 24 0.67
20 6 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTATATTTTTTTATAA
Found at i:998351 original size:21 final size:21
Alignment explanation
Indices: 998326--998382 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
998316 ATTTTTATCC
998326 AAATGTATCGATACATTGTTA
1 AAATGTATCGATACATTGTTA
998347 AAATGTATCGATACATTGTTA
1 AAATGTATCGATACATTGTTA
*
998368 GAATGTATCGATACA
1 AAATGTATCGATACA
998383 AGATCCCAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (21 bp):
AAATGTATCGATACATTGTTA
Found at i:998458 original size:13 final size:13
Alignment explanation
Indices: 998440--998496 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
998430 AATAAAGTGT
998440 TGTATCGATACAA
1 TGTATCGATACAA
998453 TGTATCGATACATAA
1 TGTATCGATAC--AA
998468 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
998485 TGTATCGATACA
1 TGTATCGATACA
998497 TAAGCTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:998475 original size:32 final size:32
Alignment explanation
Indices: 998420--998522 Score: 172
Period size: 32 Copynumber: 3.2 Consensus size: 32
998410 TTCAACGATT
*
998420 TGTATCGATAAATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
998453 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
998485 TGTATCGATACATAAGCT-TTGTATCGATACAA
1 TGTATCGATACATAAG-TGTTGTATCGATACAA
998517 TGTATC
1 TGTATC
998523 ATTACGAAAC
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
32 55 0.81
33 13 0.19
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:998477 original size:19 final size:18
Alignment explanation
Indices: 998418--998515 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
998408 ATTTCAACGA
*
998418 TTTGTATCGATAAATAAAG
1 TTTGTATCGATACAT-AAG
998437 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
998453 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
998469 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
998485 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
998501 CTTTGTATCGATACA
1 -TTTGTATCGATACA
998516 ATGTATCATT
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 24 0.37
20 11 0.17
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:998624 original size:52 final size:51
Alignment explanation
Indices: 998560--998708 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 51
998550 ATCGATATAT
***
998560 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
**
998612 TGTATCGATACACTATAAAATGTATCGATACATATAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-AAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
998664 TGTATCGATACACTAAGAAATGTATCGATACATGCAGACAAATTT
1 TGTATCGATACACT-ATAAATGTATCGATACATGCAGGCAAATTT
998709 TCATATTTCG
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.97
53 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (51 bp):
TGTATCGATACACTATAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:1005924 original size:10 final size:10
Alignment explanation
Indices: 1005909--1005942 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1005899 GTTCTTTTCC
1005909 CAAAAAAAAA
1 CAAAAAAAAA
1005919 CAAAAAAAAA
1 CAAAAAAAAA
*
1005929 CAACAAACAAA
1 CAA-AAAAAAA
1005940 CAA
1 CAA
1005943 TCAAAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:1007046 original size:27 final size:28
Alignment explanation
Indices: 1006967--1007055 Score: 99
Period size: 27 Copynumber: 3.1 Consensus size: 28
1006957 CACCTTTTTC
* *
1006967 TTTTCAAAGTCCACAACTCCATGGCACTCT
1 TTTT-AAAGTCCACAACTCCGTGGCAC-CA
* *
1006997 TTTTAAAGCCCACAACTCTGTGGCACCA
1 TTTTAAAGTCCACAACTCCGTGGCACCA
* *
1007025 TTTT-AAGTCCACGACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCA
1007052 TTTT
1 TTTT
1007056 TTCCTTTTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 23 0.45
28 5 0.10
29 19 0.37
30 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (28 bp):
TTTTAAAGTCCACAACTCCGTGGCACCA
Found at i:1007198 original size:30 final size:30
Alignment explanation
Indices: 1007097--1007433 Score: 243
Period size: 30 Copynumber: 10.7 Consensus size: 30
1007087 TGTTCCTTTT
* *
1007097 AAGTCCACAACTCT-GTGGCATCTTTTTCCTTTA
1 AAGTCCACGACT-TAGTGGCATC-TTTT-C-TCA
* * *
1007130 AAGCCCACGACTCAGTGGCATCTTTCCTTCTTA
1 AAGTCCACGACTTAGTGGCATC-TT--TTCTCA
* *
1007163 AAGTCCATGACTTAGTGGCATCTTGTCTCA
1 AAGTCCACGACTTAGTGGCATCTTTTCTCA
*
1007193 AAGTCCAC-AATTCAGTGGCATCTCTTTC-CA
1 AAGTCCACGACTT-AGTGGCATCT-TTTCTCA
* *
1007223 AAGTCCACGACTCAGTGGCATCTTTCCTTCTTA
1 AAGTCCACGACTTAGTGGCATC-TT--TTCTCA
** *
1007256 AAGTCCATAACTTAGTGGCATCTTGTCTCA
1 AAGTCCACGACTTAGTGGCATCTTTTCTCA
* *
1007286 AAGTCCAC-AATTCAATGGCATCTATTTC-CA
1 AAGTCCACGACTT-AGTGGCATCT-TTTCTCA
*
1007316 AAGTCCACGACTCAGTGGCATCTTTTCTTCA
1 AAGTCCACGACTTAGTGGCATCTTTTC-TCA
** *
1007347 AAGTCCACGACTCCGTGGCACCTTTTTCTTTTCA
1 AAGTCCACGACTTAGTGGCATC-TTTTC---TCA
** * *
1007381 AAGTCCACGACTCCGTGGCACCTTCTTTTCA
1 AAGTCCACGACTTAGTGGCATCTT-TTCTCA
*
1007412 AAATCCACGACTTAGTGGCATC
1 AAGTCCACGACTTAGTGGCATC
1007434 AAAGTCCACG
Statistics
Matches: 252, Mismatches: 33, Indels: 40
0.78 0.10 0.12
Matches are distributed among these distances:
29 10 0.04
30 80 0.32
31 54 0.21
32 12 0.05
33 65 0.26
34 29 0.12
35 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (30 bp):
AAGTCCACGACTTAGTGGCATCTTTTCTCA
Found at i:1007240 original size:60 final size:61
Alignment explanation
Indices: 1006899--1007433 Score: 320
Period size: 63 Copynumber: 8.5 Consensus size: 61
1006889 CTTCAAATAC
* * * *
1006899 TTTCTTAAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCCGTGGCACCTT
1 TTTCTCAAAGTCCACGACTCAGTGGCA--TCTTTTCTTCAAAGTCCACAACTCAGTGGCATC-T
* * * *
1006963 TTTCTTTTCAAAGTCCACAACTCCA-TGGCA-CTCTTT-TT-AAAGCCCACAACTCTGTGGCACC
1 TTTC---TCAAAGTCCACGACT-CAGTGGCATCT-TTTCTTCAAAGTCCACAACTCAGTGGCATC
*
1007024 A
61 T
* * * * * * *
1007025 TTT-T--AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTTAAA-CCCACACCTCCGTGGCACC
1 TTTCTCAAAGTCCACGACTCAGTGGCA---TCTTTT-C-TTCAAAGTCCACAACTCAGTGGCATC
1007086 T
61 T
** * * * * *
1007087 TGTTCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTTTAAAGCCCACGACTCAGTGGCATC
1 T-TT-C-TCAAAGTCCACGACTCAGTGGCATC-TTTT-CTTCAAAGTCCACAACTCAGTGGCATC
1007152 TT
61 -T
* * * * *
1007154 TCCTTCTTAAAGTCCATGACTTAGTGGCATCTTGTC-TCAAAGTCCACAATTCAGTGGCATCT
1 T--TTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCT
* * *
1007216 CTTTC-CAAAGTCCACGACTCAGTGGCATCTTTCCTTCTTAAAGTCCATAACTTAGTGGCATCT
1 -TTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTC--AAAGTCCACAACTCAGTGGCATCT
* * * * *
1007279 TGTCTCAAAGTCCACAATTCAATGGCATCTATTTC--CAAAGTCCACGACTCAGTGGCATCT
1 TTTCTCAAAGTCCACGACTCAGTGGCATCT-TTTCTTCAAAGTCCACAACTCAGTGGCATCT
* * * * *
1007339 TTTCTTCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACGACTCCGTGGCACCT
1 TTTC-TCAAAGTCCACGACTCAGTGGCATC-TTTTC--TTCAAAGTCCACAACTCAGTGGCATCT
* * *
1007404 TCTTTTCAAAATCCACGACTTAGTGGCATC
1 T-TTCTCAAAGTCCACGACTCAGTGGCATC
1007434 AAAGTCCACG
Statistics
Matches: 375, Mismatches: 59, Indels: 73
0.74 0.12 0.14
Matches are distributed among these distances:
55 1 0.00
56 16 0.04
58 1 0.00
59 3 0.01
60 49 0.13
61 29 0.08
62 29 0.08
63 90 0.24
64 12 0.03
65 58 0.15
66 44 0.12
67 21 0.06
68 22 0.06
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.33
Consensus pattern (61 bp):
TTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCT
Found at i:1007250 original size:93 final size:93
Alignment explanation
Indices: 1007097--1007433 Score: 408
Period size: 93 Copynumber: 3.6 Consensus size: 93
1007087 TGTTCCTTTT
* * *
1007097 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTAAAGCCCACGACTCAGTGGCATCTTTCCTTCTT
1 AAGTCCACAACTCAGTGGCATCTCTTTCC---AAAGTCCACGACTCAGTGGCATCTTTCCTTCTT
1007162 AAAGTCCATGACTTAGTGGCATCTTGTCTCA
63 AAAGTCCATGACTTAGTGGCATCTTGTCTCA
*
1007193 AAGTCCACAATTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTCCTTCTTAAA
1 AAGTCCACAACTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTCCTTCTTAAA
*
1007258 GTCCATAACTTAGTGGCATCTTGTCTCA
66 GTCCATGACTTAGTGGCATCTTGTCTCA
* * * *
1007286 AAGTCCACAATTCAATGGCATCTATTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTC--AAA
1 AAGTCCACAACTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTCCTTCTTAAA
* ** * *
1007349 GTCCACGACTCCGTGGCACCTTTTTCTTTTCA
66 GTCCATGACTTAGTGGCATC-TTGTC---TCA
* * * * * *
1007381 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAATCCACGACTTAGTGGCATC
1 AAGTCCACAACTCAGTGGCATC-TCTTTCCAAAGTCCACGACTCAGTGGCATC
1007434 AAAGTCCACG
Statistics
Matches: 213, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
91 18 0.08
92 4 0.02
93 119 0.56
95 20 0.09
96 52 0.24
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (93 bp):
AAGTCCACAACTCAGTGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTCCTTCTTAAA
GTCCATGACTTAGTGGCATCTTGTCTCA
Found at i:1007352 original size:31 final size:31
Alignment explanation
Indices: 1006899--1007926 Score: 457
Period size: 33 Copynumber: 32.1 Consensus size: 31
1006889 CTTCAAATAC
* *
1006899 TTTCTT-AAAGTCCACGACTCAGTGGCATCTCT
1 TTTCTTCAAAGTCCACAACTCCGTGGCA--TCT
* *
1006931 TTTCTTCAAAGTCCACGACTCCGTGGCACCTT
1 TTTCTTCAAAGTCCACAACTCCGTGGCATC-T
*
1006963 TTTCTTTTCAAAGTCCACAACTCCATGGCA-CT
1 TTTC--TTCAAAGTCCACAACTCCGTGGCATCT
* * *
1006995 CTTT-TT-AAAGCCCACAACTCTGTGGCA-CC
1 -TTTCTTCAAAGTCCACAACTCCGTGGCATCT
* * *
1007024 ATT-TT--AAGTCCACGACTCCGTGGCACCCTTT
1 TTTCTTCAAAGTCCACAACTCCGTGGCA---TCT
* * * *
1007055 TTTCCTTTTAAA-CCCACACCTCCGTGGCACCT
1 TTT-C-TTCAAAGTCCACAACTCCGTGGCATCT
** *
1007087 TGTTCCTTTTAAGTCCACAACTCTGTGGCATCTT
1 T-TT-CTTCAAAGTCCACAACTCCGTGGCATC-T
* * * *
1007121 TTTCCTTTAAAGCCCACGACTCAGTGGCATCT
1 TTT-CTTCAAAGTCCACAACTCCGTGGCATCT
* ** **
1007153 TTCCTTCTTAAAGTCCATGACTTAGTGGCATCT
1 TTTCTTC--AAAGTCCACAACTCCGTGGCATCT
* * *
1007186 TGTC-TCAAAGTCCACAATTCAGTGGCATCT
1 TTTCTTCAAAGTCCACAACTCCGTGGCATCT
* *
1007216 CTTTC--CAAAGTCCACGACTCAGTGGCATCT
1 -TTTCTTCAAAGTCCACAACTCCGTGGCATCT
* * **
1007246 TTCCTTCTTAAAGTCCATAACTTAGTGGCATCT
1 TTTCTTC--AAAGTCCACAACTCCGTGGCATCT
* * **
1007279 TGTC-TCAAAGTCCACAATTCAATGGCATCT
1 TTTCTTCAAAGTCCACAACTCCGTGGCATCT
* *
1007309 ATTTC--CAAAGTCCACGACTCAGTGGCATCT
1 -TTTCTTCAAAGTCCACAACTCCGTGGCATCT
* *
1007339 TTTCTTCAAAGTCCACGACTCCGTGGCACCTT
1 TTTCTTCAAAGTCCACAACTCCGTGGCATC-T
* *
1007371 TTTCTTTTCAAAGTCCACGACTCCGTGGCACCT
1 TTTC--TTCAAAGTCCACAACTCCGTGGCATCT
* * **
1007404 TCTT-TTCAAAATCCACGACTTAGTGGCA---
1 T-TTCTTCAAAGTCCACAACTCCGTGGCATCT
* *
1007432 -----TCAAAGTCCACGACTCCGTGGCACCTT
1 TTTCTTCAAAGTCCACAACTCCGTGGCATC-T
** * *
1007459 TTTCTTTTCAAAGTCCATGACGCCGTGGCACCT
1 TTTC--TTCAAAGTCCACAACTCCGTGGCATCT
*
1007492 TCTT-TTCAAAGCCCACAACTCCGTGGCACTCTT
1 T-TTCTTCAAAGTCCACAACTCCGTGGCA-TC-T
*
1007525 TTTCCCTTTTAAAGTCCACAAC-CTCGTGGCA-CTT
1 TTT--C-TTCAAAGTCCACAACTC-CGTGGCATC-T
** * *
1007559 TGTTCTTTTTAAGTCCACGACTCCGTGGCACCT
1 T-TTC-TTCAAAGTCCACAACTCCGTGGCATCT
* * *
1007592 TCTT-TTCAAAGCCCACAACTCCATGGCACTTTTT
1 T-TTCTTCAAAGTCCACAACTCCGTGGCA---TCT
*
1007626 TTTCCCTTTCAAAGTCCACAACCCCGTGGC-T-T
1 TTT--C-TTCAAAGTCCACAACTCCGTGGCATCT
* ** *
1007658 GTTCCTTTTAAGTCCACAACTCCGTGGCACCT
1 -TTTCTTCAAAGTCCACAACTCCGTGGCATCT
*
1007690 TCTT-TTCAAAGCCCACAACTCCGTGGCACTCTT
1 T-TTCTTCAAAGTCCACAACTCCGTGGCA-TC-T
* * *
1007723 TTTCCCTTTTAAAAGTCCACAACCCCGTGGCACCT
1 TTT--C--TTCAAAGTCCACAACTCCGTGGCATCT
** * * *
1007758 TGTTCCTTTTAAGTCCACGACTCCGTGACACCT
1 T-TT-CTTCAAAGTCCACAACTCCGTGGCATCT
1007791 TCTT-TTCAAAGTCCACAACTCCGTGGCACTCTT
1 T-TTCTTCAAAGTCCACAACTCCGTGGCA-TC-T
* *
1007824 TTTCCCTTTTAAAGTCCACAACTCCGTGGCACCT
1 TTT--C-TTCAAAGTCCACAACTCCGTGGCATCT
** * *
1007858 TGTTCCTTTTAAGTCCTACGACTCCGTGGCACCT
1 T-TT-CTTCAAAGTCC-ACAACTCCGTGGCATCT
*
1007892 TCTT-TTCAAAGCCCACAACTCCGTGGCACTCT
1 T-TTCTTCAAAGTCCACAACTCCGTGGCA-TCT
1007924 TTT
1 TTT
1007927 TCCCTTTTAA
Statistics
Matches: 793, Mismatches: 122, Indels: 163
0.74 0.11 0.15
Matches are distributed among these distances:
23 20 0.03
27 17 0.02
28 4 0.01
29 26 0.03
30 107 0.13
31 153 0.19
32 53 0.07
33 190 0.24
34 110 0.14
35 24 0.03
36 48 0.06
37 41 0.05
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.32
Consensus pattern (31 bp):
TTTCTTCAAAGTCCACAACTCCGTGGCATCT
Found at i:1007391 original size:158 final size:159
Alignment explanation
Indices: 1006905--1007955 Score: 443
Period size: 168 Copynumber: 6.5 Consensus size: 159
1006895 ATACTTTCTT
* ** *
1006905 AAAGTCCACGACTCAGTGGCATCTCTT-TTCTTCAAAGTCCACGACTCCGTGGCACCTTTTTCTT
1 AAAGTCCACGACTCAGTGGCATCTCTTCTT-TTCAAAGTCCACAACTTAGTGGCATCTTTTTC--
* * * * **
1006969 TTCAAAGTCCACAACTCCATGGCACTCTTTT-TAAAGCCCACAACTCTGTGGCA-CCATT-TT--
63 TTCAAAGTCCACAACTCAATGGCA-TCTTTTCTAAAGTCCACGACTCAGTGGCATCTTTTCTTCA
1007029 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTT-
127 AAGTCCACGACTCCGTGGCA-CC-TTTTT-CTTTTC
* * * *
1007064 AAA-CCCAC-ACCTCCGTGGCACCTTGTTCCTTTT--AAGTCCACAACTCT-GTGGCATCTTTTT
1 AAAGTCCACGA-CTCAGTGGCATC-TCTT-CTTTTCAAAGTCCACAACT-TAGTGGCATCTTTTT
* * * * * * *
1007124 CCTTTAAAGCCCACGACTCAGTGGCATCTTTCCTTCTTAAAGTCCATGACTTAGTGGCATCTTGT
62 -CTTCAAAGTCCACAACTCAATGGCATC-TT--TTC-TAAAGTCCACGACTCAGTGGCATCTTTT
* * * * *
1007189 C-TCAAAGTCCACAATTCAGTGGCA----TCTCTTTCC
122 CTTCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTC
* *
1007222 AAAGTCCACGACTCAGTGGCATCT-TTCCTTCTT-AAAGTCCATAACTTAGTGGCATC-TTGTC-
1 AAAGTCCACGACTCAGTGGCATCTCTT-CTT-TTCAAAGTCCACAACTTAGTGGCATCTTTTTCT
* *
1007283 TCAAAGTCCACAATTCAATGGCATCTATTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAA
64 TCAAAGTCCACAACTCAATGGCATCT-TTTCTAAAGTCCACGACTCAGTGGCATCTTTTCTTCAA
1007348 AGTCCACGACTCCGTGGCACCTTTTTCTTTTC
128 AGTCCACGACTCCGTGGCACCTTTTTCTTTTC
* * *
1007380 AAAGTCCACGACTCCGTGGCA-C-CTTCTTTTCAAAATCCACGACTTAGTGGCA---------TC
1 AAAGTCCACGACTCAGTGGCATCTCTTCTTTTCAAAGTCCACAACTTAGTGGCATCTTTTTCTTC
* ** * * * * *
1007434 AAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCATGACGCCGTGGCACCTTCTT-TT
66 AAAGTCCACAACTCAATGGCATC-TTTTC---T-AAAGTCCACGACTCAGTGGCATCTT-TTCTT
* *
1007498 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-
125 CAAAGTCCACGACTCCGTGGCAC-CTTTTT--CTTTTC
* * * * * ** * *
1007535 AAAGTCCACAACCTC-GTGGCACTTTGTTCTTTT-TAAGTCCACGACTCCGTGGCACCTTCTT-T
1 AAAGTCCACGA-CTCAGTGGCA-TCTCTTCTTTTCAAAGTCCACAACTTAGTGGCATCTTTTTCT
* * * * * *
1007597 TCAAAGCCCACAACTCCATGGCACTTTTTTTTCCCTTTCAAAGTCCACAACCCCGTGGC-T-TGT
64 TCAAAGTCCACAACTCAATGGCA---TCTTTT--C--T-AAAGTCCACGACTCAGTGGCATCT-T
* ** *
1007660 TCCTTTTAAGTCCACAACTCCGTGGCACC---TTCTTTTC
120 TTCTTCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTC
* * * * * *** *
1007697 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAAGTCCACAACCCCGTGGCACCTTGTT
1 AAAGTCCACGACTCAGTGGCA-TC-TCTT--CTTTTCAAAGTCCACAACTTAGTGGCATCTT-TT
* ** * ** * * *
1007762 CCTTTTAAGTCCACGACTCCGTGACACCTTCTTTTC-AAAGTCCACAACTCCGTGGCACTCTTTT
61 TCTTCAAAGTCCACAACTCAATGGCA---TCTTTTCTAAAGTCCACGACTCAGTGGCA-TC-TTT
* * *
1007826 TCCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT-
121 T--C-TTCAAAGTCCACGACTCCGTGGCACCTT-TTTCTTTTC
* * **
1007868 -AAGTCCTACGACTCCGTGGCA-C-CTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGTCC-ACGACTCAGTGGCATCTCTTCTTTTCAAAGTCCACAACTTAGTGGCA-TCTTTTT--
*
1007930 CTTTTAAAGTCCACAACTTC-ATGGCA
62 C-TTCAAAGTCCACAAC-TCAATGGCA
1007956 CCTTGTTCCT
Statistics
Matches: 698, Mismatches: 112, Indels: 155
0.72 0.12 0.16
Matches are distributed among these distances:
149 24 0.03
150 1 0.00
153 69 0.10
154 31 0.04
155 19 0.03
156 52 0.07
157 53 0.08
158 83 0.12
159 42 0.06
160 3 0.00
161 27 0.04
162 40 0.06
163 5 0.01
164 18 0.03
165 53 0.08
166 30 0.04
167 32 0.05
168 88 0.13
169 4 0.01
170 5 0.01
171 13 0.02
172 6 0.01
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (159 bp):
AAAGTCCACGACTCAGTGGCATCTCTTCTTTTCAAAGTCCACAACTTAGTGGCATCTTTTTCTTC
AAAGTCCACAACTCAATGGCATCTTTTCTAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGT
CCACGACTCCGTGGCACCTTTTTCTTTTC
Found at i:1007452 original size:23 final size:23
Alignment explanation
Indices: 1007409--1007454 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1007399 CACCTTCTTT
*
1007409 TCAAAATCCACGACTTAGTGGCA
1 TCAAAATCCACGACTCAGTGGCA
* *
1007432 TCAAAGTCCACGACTCCGTGGCA
1 TCAAAATCCACGACTCAGTGGCA
1007455 CCTTTTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (23 bp):
TCAAAATCCACGACTCAGTGGCA
Found at i:1007518 original size:88 final size:88
Alignment explanation
Indices: 1007344--1007519 Score: 289
Period size: 88 Copynumber: 2.0 Consensus size: 88
1007334 CATCTTTTCT
*
1007344 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACGACTCCGTGGCACCTTCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACGACGCCGTGGCACCTTCTTT
* * *
1007409 TCAAAATCCACGACTTAGTGGCA
66 TCAAAACCCACAACTCAGTGGCA
*
1007432 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCATGACGCCGTGGCACCTTCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACGACGCCGTGGCACCTTCTTT
* *
1007497 TCAAAGCCCACAACTCCGTGGCA
66 TCAAAACCCACAACTCAGTGGCA
1007520 CTCTTTTTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.22, C:0.33, G:0.16, T:0.28
Consensus pattern (88 bp):
TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACGACGCCGTGGCACCTTCTTT
TCAAAACCCACAACTCAGTGGCA
Found at i:1007640 original size:101 final size:100
Alignment explanation
Indices: 1007434--1007973 Score: 831
Period size: 101 Copynumber: 5.4 Consensus size: 100
1007424 TAGTGGCATC
* * * *
1007434 AAAGTCCACGA-CTCCGTGGCACCTT-TTTCTTTTCAAAGTCCATGACGCCGTGGCACCTTCTTT
1 AAAGTCCACAACCT-CGTGGCACCTTGTTCCTTTT--AAGTCCACGACTCCGTGGCACCTTCTTT
1007497 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
63 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* *
1007535 AAAGTCCACAACCTCGTGGCACTTTGTTCTTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCA
1 AAAGTCCACAACCTCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCA
* * *
1007600 AAGCCCACAACTCCATGGCACTTTTTTTTCCCTTTC
66 AAGCCCACAACTCCGTGGCAC-TCTTTTTCCCTTTT
* *
1007636 AAAGTCCACAACCCCGTGG---CTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCA
1 AAAGTCCACAACCTCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCA
1007698 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
66 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* *
1007733 AAAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGACACCTTCTTTTC
1 -AAAGTCCACAACCTCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTC
*
1007798 AAAGTCCACAACTCCGTGGCACTCTTTTTCCCTTTT
65 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1007834 AAAGTCCACAA-CTCCGTGGCACCTTGTTCCTTTTAAGTCCTACGACTCCGTGGCACCTTCTTTT
1 AAAGTCCACAACCT-CGTGGCACCTTGTTCCTTTTAAGTCC-ACGACTCCGTGGCACCTTCTTTT
1007898 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
64 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* *
1007935 AAAGTCCACAACTTCATGGCACCTTGTTCCTTTTAAGTC
1 AAAGTCCACAACCTCGTGGCACCTTGTTCCTTTTAAGTC
1007974 TACAACTTCA
Statistics
Matches: 405, Mismatches: 24, Indels: 20
0.90 0.05 0.04
Matches are distributed among these distances:
97 12 0.03
98 79 0.20
99 1 0.00
100 86 0.21
101 218 0.54
102 9 0.02
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.33
Consensus pattern (100 bp):
AAAGTCCACAACCTCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCA
AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
Found at i:1008043 original size:32 final size:32
Alignment explanation
Indices: 1008002--1008283 Score: 379
Period size: 32 Copynumber: 8.8 Consensus size: 32
1007992 TTCACCATTC
*
1008002 TTCAAAGCCCACACAAGTCGGTGGCAACCCTT
1 TTCAAAGCCCACACAAGTTGGTGGCAACCCTT
**
1008034 TTCAAAGCCCACACAAGTTGGTGGCAACCCCC
1 TTCAAAGCCCACACAAGTTGGTGGCAACCCTT
*
1008066 TTCAAAGCCCACACAAGTCGGTGGCAACCCTT
1 TTCAAAGCCCACACAAGTTGGTGGCAACCCTT
* * * *
1008098 TCCAAAGCCGACACAAGTCGATGGCAACCCTT
1 TTCAAAGCCCACACAAGTTGGTGGCAACCCTT
*
1008130 TCCAAAGCCCACACAAGTTGGTGGCAACCCTT
1 TTCAAAGCCCACACAAGTTGGTGGCAACCCTT
* * *
1008162 CTCAAAGCCCACACAAGTCGGTGTCAACCCTT
1 TTCAAAGCCCACACAAGTTGGTGGCAACCCTT
* *
1008194 CTCAAAGCCCACACAAGTTGGTGGCAACCTTT
1 TTCAAAGCCCACACAAGTTGGTGGCAACCCTT
* *
1008226 TTCTAAAGCCCACACAAGTTGGTGCCATCCC--
1 TTC-AAAGCCCACACAAGTTGGTGGCAACCCTT
*
1008257 CTCAAAAGCCCACACAAGTTGGTGGCA
1 TTC-AAAGCCCACACAAGTTGGTGGCA
1008284 TCTTCTTTTA
Statistics
Matches: 223, Mismatches: 26, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
31 24 0.11
32 175 0.78
33 24 0.11
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (32 bp):
TTCAAAGCCCACACAAGTTGGTGGCAACCCTT
Found at i:1008405 original size:43 final size:43
Alignment explanation
Indices: 1008343--1009583 Score: 1118
Period size: 43 Copynumber: 27.1 Consensus size: 43
1008333 TTTGTCATCT
* *
1008343 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
*
1008386 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* *
1008435 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
*
1008478 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* * *
1008521 TTTATCTTTAGGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
1 TTTA-----A-GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* *
1008570 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1008613 TTTAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCA-C-----C
*
1008662 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCATCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-----C
* * *
1008711 TTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
*
1008754 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG---CA-C--C
* *
1008803 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
** * *
1008846 TCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT---G-----G-CA-CC
* *
1008899 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* *
1008942 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* **
1008991 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACGTTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
*
1009034 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* *
1009083 TTTAAGTCCAATGTAGCTGGCCTTGAATC-GACACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACC
*
1009126 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
1009175 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
** * * *
1009218 TCCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT---G-----G-CA-CC
* * *
1009271 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* *
1009314 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
*
1009363 TTTAAGTCCAATGTAGCTGGCCTTGAAT-----TA---GCA-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* * *
1009397 ATTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* *
1009446 TTTAAGTCCAATATAGCTAGCCTTGAATCAGCAAATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* * *
1009489 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* * *
1009538 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1009581 TTT
1 TTT
1009584 GTCATCTTTT
Statistics
Matches: 1008, Mismatches: 97, Indels: 186
0.78 0.08 0.14
Matches are distributed among these distances:
34 25 0.02
39 2 0.00
41 3 0.00
42 3 0.00
43 452 0.45
44 10 0.01
45 9 0.01
46 6 0.01
47 7 0.01
48 4 0.00
49 415 0.41
50 2 0.00
51 2 0.00
52 4 0.00
53 64 0.06
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
Found at i:1008470 original size:92 final size:92
Alignment explanation
Indices: 1008290--1009583 Score: 1893
Period size: 92 Copynumber: 14.0 Consensus size: 92
1008280 GGCATCTTCT
* * *
1008290 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTTAAGTCCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATC-TTTAAGTCCAAT
1008355 GTAGCTGGCCTTGAATCAGCACATTGGCACC
62 GTAGCTGGCCTTGAATCAGCACATTGGCACC
*
1008386 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1008451 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
1008478 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAGGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
1008543 CTGGCCTTGAATCAGCACATTGGCATC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * * *
1008570 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT-A
*
1008629 -CTGGCCTTGAATCAGCATATTGGCACCTTTATC
65 GCTGGCCTTGAATCAGCACATTGGCA-C-----C
* * * * *
1008662 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTTAAGTCTAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1008727 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
*
1008754 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1008819 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
** *
1008846 TCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATC-TTTAAGTCCAAT
1008911 GTAGCTGGCCTTGAATCAGCACATTGGCACC
62 GTAGCTGGCCTTGAATCAGCACATTGGCACC
*
1008942 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
1009007 CTGGCCTTGAATCAGCACGTTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
1009034 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1009099 CTGGCCTTGAATC-GACACATTGGCACC
66 CTGGCCTTGAATCAG-CACATTGGCACC
*
1009126 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
1009191 CTGGCCTTGAATCAGCATATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
** * * * *
1009218 TCCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTTAAGTTCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATC-TTTAAGTCCAAT
1009283 GTAGCTGGCCTTGAATCAGCACATTGGCACC
62 GTAGCTGGCCTTGAATCAGCACATTGGCACC
*
1009314 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
1009379 CTGGCCTTGAATTAG--CA----CA--
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
1009398 -TTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
* *
1009462 CTAGCCTTGAATCAGCAAATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * * * *
1009489 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
* *
1009554 CTGGCCTTGAATCAGCATATTGGCGCC
66 CTGGCCTTGAATCAGCACATTGGCACC
1009581 TTT
1 TTT
1009584 GTCATCTTTT
Statistics
Matches: 1098, Mismatches: 67, Indels: 70
0.89 0.05 0.06
Matches are distributed among these distances:
83 74 0.07
85 1 0.00
86 39 0.04
87 1 0.00
89 2 0.00
90 2 0.00
91 1 0.00
92 710 0.65
93 16 0.01
94 4 0.00
95 10 0.01
96 199 0.18
97 2 0.00
98 37 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:1008614 original size:21 final size:21
Alignment explanation
Indices: 1008590--1008657 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
1008580 ATGTAGCTGG
1008590 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* ** *
1008611 CCTTTAAGTCCAATATCACTGG--
1 CCTTGAA-T-CAGCA-CATTGGCA
*
1008633 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCACATTGGCA
1008654 CCTT
1 CCTT
1008658 TATCTTTAAG
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 11 0.33
22 7 0.21
23 3 0.09
24 5 0.15
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:1009069 original size:372 final size:370
Alignment explanation
Indices: 1008290--1009577 Score: 1966
Period size: 372 Copynumber: 3.5 Consensus size: 370
1008280 GGCATCTTCT
* *
1008290 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTTAAGTCCAAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATC-TTTAAGTCCAAT
*
1008355 GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCAT
62 GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* **
1008420 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
127 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCAAGT
* *
1008485 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATC-TTTAGGTCCAATGTAGCTG
192 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAATGTAGCTG
* * * *
1008546 GCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
257 GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
*
1008611 ----C--CTTTAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCACCTTTATC
322 CCTTCATCTTTAAGTCCAATGT-AGCTGGCCTTGAATCAGC--ATTGGCA-C-----C
* * * *
1008662 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTTAAGTCTAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1008727 CTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
66 CTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
* *
1008792 GCACCATCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCAAGTCCAA
131 GCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCAAGTCCAA
1008857 TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAATGTAGCTGGCCT
196 TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAATGTAGCTGGCCT
*
1008922 TGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTT
261 TGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1008987 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACGTTGGCACC
326 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA--TTGGCACC
*
1009034 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1009099 CTGGCCTTGAATC-GACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
66 CTGGCCTTGAATCAG-CACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
* *
1009163 GGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCCAAGCCCA
130 GGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCAAGTCCA
* *
1009228 ATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTTAAGTTCAATGTAGCTGGCC
195 ATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAATGTAGCTGGCC
*
1009293 TTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCT
260 TTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
*
1009358 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCA----CA--
325 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATTGGCACC
* * *
1009398 -TTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
* * * *
1009462 CTAGCCTTGAATCAGCAAATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTG
66 CTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
* * *
1009527 GCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGC
131 GCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC
1009578 GCCTTTGTCA
Statistics
Matches: 861, Mismatches: 40, Indels: 39
0.92 0.04 0.04
Matches are distributed among these distances:
363 170 0.20
364 1 0.00
366 2 0.00
368 172 0.20
369 6 0.01
370 2 0.00
371 4 0.00
372 464 0.54
376 2 0.00
377 2 0.00
378 36 0.04
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (370 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
GCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCAAGTCCAA
TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAATGTAGCTGGCCT
TGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATTGGCACC
Found at i:1009315 original size:21 final size:20
Alignment explanation
Indices: 1009291--1009358 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
1009281 ATGTAGCTGG
1009291 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
1009312 CCTTTAAGTC--CAATATCGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
1009333 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
1009355 CCTT
1 CCTT
1009359 CATCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:1009407 original size:34 final size:34
Alignment explanation
Indices: 1009364--1009429 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
1009354 ACCTTCATCT
* *
1009364 TTAAGTCCAATGTAGCTGGCCTTGAATTAGCACA
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
* *
1009398 TTAAGTCCAATATCGTTGGCCTTGAATCAGCA
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCA
1009430 TATTGGCACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (34 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
Found at i:1009470 original size:49 final size:49
Alignment explanation
Indices: 1009398--1009675 Score: 266
Period size: 49 Copynumber: 5.8 Consensus size: 49
1009388 AATTAGCACA
* *
1009398 TTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
* * *
1009447 TTAAGTCCAATATAGCTAGCCTTGAATCAGCAAATTGGCA----C--CT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
*
1009490 TTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
* * *
1009539 TTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC-T
** * * * * *
1009592 TTAAACCCAATGTTGTTGGCCTTGAATCAGCGCATTGGCA--TTCTTCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
* * * ** *
1009639 TTAAGTCTAATGTTGCTAACCGTGAATCAGCACATTG
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
1009676 ACATCCTTTT
Statistics
Matches: 189, Mismatches: 30, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
43 38 0.20
45 1 0.01
47 31 0.16
48 4 0.02
49 77 0.41
51 1 0.01
52 5 0.03
53 32 0.17
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (49 bp):
TTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
Found at i:1009618 original size:53 final size:49
Alignment explanation
Indices: 1009404--1009724 Score: 226
Period size: 49 Copynumber: 6.5 Consensus size: 49
1009394 CACATTAAGT
* **
1009404 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAC
* * * * **
1009453 CCAATATAGCTAGCCTTGAATCAGCAAATTGGCA----C--CTTTAAGT
1 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAC
**
1009496 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAC
* * * *
1009545 CTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAAC
1 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACC--T-TCATC-TTTAAAC
* * * * **
1009598 CCAATGTTGTTGGCCTTGAATCAGCGCATTGGCA--TTCTTCTTTAAGT
1 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAC
* * * * ** * *
1009645 CTAATGTTGCTAACCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAAC
1 CCAATATCGTTGGCCTTGAATCAGCACATTGGCA-CC----T-TCATCTTTAAAC
*
1009700 CCAATATCGTTGGCCGTGAATCAGC
1 CCAATATCGTTGGCCTTGAATCAGC
1009725 GTATTGGTCC
Statistics
Matches: 214, Mismatches: 40, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
43 38 0.18
45 1 0.00
47 33 0.15
48 4 0.02
49 71 0.33
51 1 0.00
52 5 0.02
53 32 0.15
54 1 0.00
55 28 0.13
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (49 bp):
CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAC
Found at i:1009697 original size:102 final size:101
Alignment explanation
Indices: 1009496--1009731 Score: 287
Period size: 102 Copynumber: 2.3 Consensus size: 101
1009486 ACCTTTAAGT
* ** *
1009496 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCT
1 CCAATATCGTTGGCCTTGAATCAGCGCATTGGCA-CTTCATCTTTAAGTCTAATATCGCTAACCG
* * *
1009561 TGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAAC
65 TGAATCAGCACATTGACGCCTTTCTCATCTTTTAAAC
* * * * *
1009598 CCAATGTTGTTGGCCTTGAATCAGCGCATTGGCA-TTCTTCTTTAAGTCTAATGTTGCTAACCGT
1 CCAATATCGTTGGCCTTGAATCAGCGCATTGGCACTTCATCTTTAAGTCTAATATCGCTAACCGT
*
1009662 GAATCAGCACATTGACATCCTTTTTCTCATC-TTTAAAC
66 GAATCAGCACATTGAC-GCC--TTTCTCATCTTTTAAAC
* *
1009700 CCAATATCGTTGGCCGTGAATCAGCGTATTGG
1 CCAATATCGTTGGCCTTGAATCAGCGCATTGG
1009732 TCCCTTTATC
Statistics
Matches: 114, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
100 38 0.33
101 2 0.02
102 66 0.58
103 8 0.07
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (101 bp):
CCAATATCGTTGGCCTTGAATCAGCGCATTGGCACTTCATCTTTAAGTCTAATATCGCTAACCGT
GAATCAGCACATTGACGCCTTTCTCATCTTTTAAAC
Found at i:1010414 original size:13 final size:13
Alignment explanation
Indices: 1010396--1010420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1010386 CATAAAGTGT
1010396 TGTATCGATACAA
1 TGTATCGATACAA
1010409 TGTATCGATACA
1 TGTATCGATACA
1010421 TAAGCTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1010436 original size:32 final size:33
Alignment explanation
Indices: 1010379--1010447 Score: 115
Period size: 32 Copynumber: 2.1 Consensus size: 33
1010369 AACGATTTGC
1010379 ATCGATACATAAAGTGTTGTATCGATACAATGT
1 ATCGATACATAAAGTGTTGTATCGATACAATGT
1010412 ATCGATACAT-AAGCT-TTGTATCGATACAATGT
1 ATCGATACATAAAG-TGTTGTATCGATACAATGT
1010444 ATCG
1 ATCG
1010448 TTACGAAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 24 0.69
33 11 0.31
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (33 bp):
ATCGATACATAAAGTGTTGTATCGATACAATGT
Found at i:1010510 original size:13 final size:13
Alignment explanation
Indices: 1010492--1010516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1010482 ATTACTTAAA
1010492 TGTATCGATACAT
1 TGTATCGATACAT
1010505 TGTATCGATACA
1 TGTATCGATACA
1010517 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1010566 original size:52 final size:52
Alignment explanation
Indices: 1010525--1010653 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
1010515 CACTGATCTT
1010525 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
1010577 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1010629 TGTATCGATACATGC-AGACAAATTT
1 TGTATCGATACATGCAAG-CAAATTT
1010654 TCATATTTCG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 1 0.01
52 70 0.99
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1014725 original size:71 final size:71
Alignment explanation
Indices: 1014641--1014785 Score: 204
Period size: 71 Copynumber: 2.0 Consensus size: 71
1014631 ATGTAACTAT
* * * * *
1014641 TTAGCAGGATTGATCTATTCGCTTTGTGGA-GACTAGAGCATGCATGATGTAATGAGCCTTTAAC
1 TTAGCAAGATTGATCTAGTAGCTTTGTGAATG-CTAGAGCATGCATGATGTAATAAGCCTTTAAC
1014705 CACTT-AA
65 CA-TTGAA
*
1014712 TTAGCAAGATTGATCTCGTAGCTTTGTGAATGCTAGAGCATGCATGATGTAATAAGCCTTTAACC
1 TTAGCAAGATTGATCTAGTAGCTTTGTGAATGCTAGAGCATGCATGATGTAATAAGCCTTTAACC
1014777 ATTGAA
66 ATTGAA
1014783 TTA
1 TTA
1014786 AAAATTACAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
70 2 0.03
71 63 0.95
72 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (71 bp):
TTAGCAAGATTGATCTAGTAGCTTTGTGAATGCTAGAGCATGCATGATGTAATAAGCCTTTAACC
ATTGAA
Found at i:1014801 original size:17 final size:17
Alignment explanation
Indices: 1014776--1014822 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
1014766 AGCCTTTAAC
*
1014776 CATTGAATTAAAAATTA
1 CATTTAATTAAAAATTA
1014793 CATTTAATTAATAAAATTA
1 CATTTAATT-A-AAAATTA
*
1014812 -ATTTGATTAAA
1 CATTTAATTAAA
1014823 TCGAAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.08
17 9 0.35
18 8 0.31
19 7 0.27
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (17 bp):
CATTTAATTAAAAATTA
Found at i:1014820 original size:18 final size:19
Alignment explanation
Indices: 1014786--1014821 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1014776 CATTGAATTA
1014786 AAAATTACATTTAATTAAT
1 AAAATTACATTTAATTAAT
*
1014805 AAAATTA-ATTTGATTAA
1 AAAATTACATTTAATTAA
1014822 ATCGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
AAAATTACATTTAATTAAT
Found at i:1015208 original size:12 final size:13
Alignment explanation
Indices: 1015191--1015220 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1015181 CTATATATTT
1015191 TTTAAC-ACTTCC
1 TTTAACAACTTCC
1015203 TTTAACAACTTCC
1 TTTAACAACTTCC
1015216 TTTAA
1 TTTAA
1015221 TAGTCTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTAACAACTTCC
Found at i:1015788 original size:18 final size:17
Alignment explanation
Indices: 1015756--1015789 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1015746 TTTTCTTTTA
*
1015756 ATTTTTTACATTTCTAT
1 ATTTTTTAAATTTCTAT
1015773 ATTTTGTTAAATTTCTA
1 ATTTT-TTAAATTTCTA
1015790 CATGTTCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTTTTTAAATTTCTAT
Found at i:1015879 original size:18 final size:19
Alignment explanation
Indices: 1015856--1015893 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1015846 GAGTCAAATT
1015856 ATTTATTT-AAATTTAAAA
1 ATTTATTTCAAATTTAAAA
*
1015874 ATTTATTTCATATTTAAAA
1 ATTTATTTCAAATTTAAAA
1015893 A
1 A
1015894 AATATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTATTTCAAATTTAAAA
Found at i:1015929 original size:13 final size:13
Alignment explanation
Indices: 1015892--1015933 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
1015882 CATATTTAAA
*
1015892 AAAATATAAA-TA
1 AAAATATAAATTT
1015904 AAAATATTAAATTT
1 AAAATA-TAAATTT
1015918 AAAATATAAATTT
1 AAAATATAAATTT
1015931 AAA
1 AAA
1015934 TAAAAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 6 0.22
13 14 0.52
14 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATATAAATTT
Found at i:1015968 original size:21 final size:21
Alignment explanation
Indices: 1015927--1015968 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1015917 TAAAATATAA
* *
1015927 ATTTAAATAAAAATTAGATTT
1 ATTTAAATAAAAATCAAATTT
1015948 ATTTAAA-AAATAATCAAATTT
1 ATTTAAATAAA-AATCAAATTT
1015969 TAGCTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTTAAATAAAAATCAAATTT
Found at i:1016218 original size:33 final size:33
Alignment explanation
Indices: 1016174--1016258 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
1016164 AAAATATATT
*
1016174 TTTAAAAAAATTTAAATAAATAATATA-AAATAA
1 TTTAAATAAATTTAAATAAATAATATATAAAT-A
* * *
1016207 TTTAAATAAATTTAAATTAATTATTTATAAATA
1 TTTAAATAAATTTAAATAAATAATATATAAATA
*
1016240 -TT-AGTAAATTTAAATAAAT
1 TTTAAATAAATTTAAATAAAT
1016259 TTTAATATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
31 15 0.33
32 2 0.04
33 24 0.53
34 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (33 bp):
TTTAAATAAATTTAAATAAATAATATATAAATA
Found at i:1016223 original size:10 final size:10
Alignment explanation
Indices: 1016174--1016265 Score: 62
Period size: 10 Copynumber: 8.8 Consensus size: 10
1016164 AAAATATATT
*
1016174 TTTAAAAAAA
1 TTTAAATAAA
1016184 TTTAAATAAA
1 TTTAAATAAA
1016194 TAATATAAA-ATAA
1 T--T-TAAATA-AA
1016207 TTTAAATAAA
1 TTTAAATAAA
*
1016217 TTTAAATTAA
1 TTTAAATAAA
**
1016227 TTATTTATAAA
1 TT-TAAATAAA
*
1016238 TATT-AGTAAA
1 T-TTAAATAAA
1016248 TTTAAATAAA
1 TTTAAATAAA
*
1016258 TTTTAATA
1 TTTAAATA
1016266 TTATATTTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
9 2 0.03
10 44 0.68
11 9 0.14
12 3 0.05
13 7 0.11
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (10 bp):
TTTAAATAAA
Found at i:1016272 original size:31 final size:28
Alignment explanation
Indices: 1016213--1016292 Score: 72
Period size: 31 Copynumber: 2.8 Consensus size: 28
1016203 ATAATTTAAA
* *
1016213 TAAATTTAAATTAATTATTTATAAATATT
1 TAAATTTAAATAAATT-TTAATAAATATT
*
1016242 AGTAAATTTAAATAAATTTTAATATTATATT
1 --TAAATTTAAATAAATTTTAATA-AATATT
* *
1016273 TAAATAT-AATAAAATTTAAT
1 TAAATTTAAATAAATTTTAAT
1016293 TTAATTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 12 0.28
29 6 0.14
30 5 0.12
31 20 0.47
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (28 bp):
TAAATTTAAATAAATTTTAATAAATATT
Found at i:1017378 original size:16 final size:16
Alignment explanation
Indices: 1017336--1017385 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
1017326 ATATGATATA
*
1017336 AATA-TAATAAAAAAT
1 AATATTAATATAAAAT
*
1017351 AAT-TAAATTATAAAAT
1 AATATTAA-TATAAAAT
*
1017367 AATATTAATATAATAT
1 AATATTAATATAAAAT
1017383 AAT
1 AAT
1017386 GAATGTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 5 0.18
16 20 0.71
17 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATTAATATAAAAT
Found at i:1017436 original size:32 final size:33
Alignment explanation
Indices: 1017337--1017438 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 33
1017327 TATGATATAA
* *
1017337 ATATAATAAAAAATAATTAA-AT-TATAAAA-TA
1 ATATAATATAAAATAATTAATATAT-TAAAATTT
* * * *
1017368 ATATTAATATAATATAATGAATGTATAAAAATTT
1 ATA-TAATATAAAATAATTAATATATTAAAATTT
1017402 ATATAATATAAAAT-ATTAATATATTAAAATTT
1 ATATAATATAAAATAATTAATATATTAAAATTT
1017434 ATATA
1 ATATA
1017439 TAATATTTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
31 3 0.05
32 34 0.60
33 15 0.26
34 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (33 bp):
ATATAATATAAAATAATTAATATATTAAAATTT
Done.