Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009237.1 Hibiscus syriacus cultivar Beakdansim tig00112863_pilon, whole genome shotgun sequence
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: 138245
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:2125 original size:20 final size:20
Alignment explanation
Indices: 2099--2140 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 20
2089 ATACAAGTTT
2099 AAAAAAATATAGTTACAATAC
1 AAAAAAA-ATAGTTACAATAC
2120 AAAAAAAATAGTTACAATAC
1 AAAAAAAATAGTTACAATAC
2140 A
1 A
2141 TAATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAAAAAATAGTTACAATAC
Found at i:3724 original size:23 final size:23
Alignment explanation
Indices: 3698--3764 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
3688 CCACAGCTCA
3698 TATAATTGCACCGAAGTGCCACG
1 TATAATTGCACCGAAGTGCCACG
* *
3721 TATAATTGCACCGGAGTGCCGCG
1 TATAATTGCACCGAAGTGCCACG
* *
3744 TAGAATTGCACCGTAGTGCCA
1 TATAATTGCACCGAAGTGCCA
3765 TATAATAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (23 bp):
TATAATTGCACCGAAGTGCCACG
Found at i:3951 original size:103 final size:103
Alignment explanation
Indices: 3780--3997 Score: 384
Period size: 103 Copynumber: 2.1 Consensus size: 103
3770 TAATGTCCAT
* * *
3780 AAGGACCACATATCATTCTTTAAGAATCATATACATATACTAGAGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACAAGAGATCAAGTATGCGTCTCACCA
3845 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
3883 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAG-GATCAAGTATGCGTCTCACC
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAT-ACAAGAGATCAAGTATGCGTCTCACC
3947 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
3986 AAGGACCACATA
1 AAGGACCACATA
3998 GACCCTCGAC
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
103 107 0.97
104 3 0.03
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACAAGAGATCAAGTATGCGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:5241 original size:32 final size:30
Alignment explanation
Indices: 5205--5268 Score: 101
Period size: 32 Copynumber: 2.1 Consensus size: 30
5195 TTGGTTAGAA
*
5205 GAAAGGAGTTTGTTGTGTAAGAGATTGAAGAT
1 GAAAGGAGTGTGTTGTGTAAGAGA-TGAA-AT
5237 GAAAGGAGTGTGTTGTGTAAGAGATGAAAT
1 GAAAGGAGTGTGTTGTGTAAGAGATGAAAT
5267 GA
1 GA
5269 GTGTGTTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 4 0.13
32 23 0.74
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (30 bp):
GAAAGGAGTGTGTTGTGTAAGAGATGAAAT
Found at i:5261 original size:25 final size:25
Alignment explanation
Indices: 5233--5280 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
5223 AAGAGATTGA
*
5233 AGATGAAAGGAGTGTGTTGTGTAAG
1 AGATGAAAGGAGTGTGTTATGTAAG
*
5258 AGATGAAATGAGTGTGTTATGTA
1 AGATGAAAGGAGTGTGTTATGTA
5281 CGAGTTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.31
Consensus pattern (25 bp):
AGATGAAAGGAGTGTGTTATGTAAG
Found at i:7400 original size:6 final size:6
Alignment explanation
Indices: 7384--7413 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
7374 ATCAAATTAA
7384 AAAACTT AAAATT AAAATT AAAATT AAAAT
1 AAAA-TT AAAATT AAAATT AAAATT AAAAT
7414 AATTAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:7772 original size:2 final size:2
Alignment explanation
Indices: 7760--7793 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
7750 GATTCAAATT
7760 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7794 ATAAAACGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8570 original size:2 final size:2
Alignment explanation
Indices: 8563--8608 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
8553 GAAAATTATG
8563 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
8605 TA TA
1 TA TA
8609 GAGAGAGAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8613 original size:2 final size:2
Alignment explanation
Indices: 8608--8651 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
8598 ATATATATAT
8608 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8650 AG
1 AG
8652 CAGTATCATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8713 original size:2 final size:2
Alignment explanation
Indices: 8708--8733 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8698 CTTTTTTTCT
8708 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
8734 AGCAAATGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11498 original size:31 final size:27
Alignment explanation
Indices: 11450--11547 Score: 79
Period size: 31 Copynumber: 3.4 Consensus size: 27
11440 AATTGGTCTA
* *
11450 TAAACTTTGAATATTCTAATTTCATCCT
1 TAAACTATGAACATTCTAATTT-ATCCT
*
11478 TAAACTATGATACCCATTCTAAATTAGTCCT
1 TAAACTATGA-A--CATTCTAATTTA-TCCT
* * *
11509 TAAACTTTTGAACATTCCAATTTTATTCT
1 TAAAC-TATGAACATTCTAA-TTTATCCT
11538 TAAACTATGA
1 TAAACTATGA
11548 CCCTTATTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
28 13 0.23
29 16 0.29
30 4 0.07
31 19 0.34
32 4 0.07
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (27 bp):
TAAACTATGAACATTCTAATTTATCCT
Found at i:11513 original size:59 final size:59
Alignment explanation
Indices: 11420--11595 Score: 162
Period size: 60 Copynumber: 2.9 Consensus size: 59
11410 GTATGCCCCC
** * * *
11420 AAACTATGACTTTAATTCTAAATTGGT-CTATAAAC-TTTGAATATTCTAATTTCATCCTT
1 AAACTATGACCCT-ATTCTAAATTAGTCCT-TAAACTTTTGAACATTCCAATTTCATCCTT
* *
11479 AAACTATGATACCC-ATTCTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTTATTCTT
1 AAACTATG--ACCCTATTCTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTCATCCTT
* * * * *
11539 AAACTATGACCCTTATTCTAAATGAGTCCCTAAA-TGCTTAAACCTTCCAATTTCATC
1 AAACTATGACCC-TATTCTAAATTAGTCCTTAAACT-TTTGAACATTCCAATTTCATC
11596 ATCAAATTCA
Statistics
Matches: 96, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
58 4 0.04
59 26 0.27
60 64 0.67
61 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (59 bp):
AAACTATGACCCTATTCTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTCATCCTT
Found at i:12027 original size:38 final size:35
Alignment explanation
Indices: 11952--12027 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 35
11942 TAATTTTATA
* *
11952 ATTTTTAAATTGATATTTTAATTTTTATTCATATT
1 ATTTTTAAATTAATATTTTAATTTTTAATCATATT
* *
11987 ATTTATTAAATTTAATATCTTTTATTTTTAATCATTTT
1 ATTT-TTAAA-TTAATAT-TTTAATTTTTAATCATATT
12025 ATT
1 ATT
12028 AATTTTACCG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 4 0.12
36 5 0.15
37 6 0.18
38 19 0.56
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (35 bp):
ATTTTTAAATTAATATTTTAATTTTTAATCATATT
Found at i:12936 original size:28 final size:26
Alignment explanation
Indices: 12863--12928 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 26
12853 TAAAAGATAT
*
12863 TAATATAAATTTTATTAAATTATTCA
1 TAATATATATTTTATTAAATTATTCA
12889 -AA-ATATATTTTATTAAATTATTCTTA
1 TAATATATATTTTATTAAATTATTC--A
12915 TAATATATATTTTA
1 TAATATATATTTTA
12929 AAAAATTAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
24 20 0.57
25 2 0.06
26 1 0.03
27 2 0.06
28 10 0.29
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (26 bp):
TAATATATATTTTATTAAATTATTCA
Found at i:13309 original size:23 final size:23
Alignment explanation
Indices: 13260--13310 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
13250 TATATTTTCA
*
13260 ATATTATAATAAAATAATCAATT
1 ATATTATAATAAAATAATCAATC
*
13283 ATATTATAATAATATAAT-ATATC
1 ATATTATAATAAAATAATCA-ATC
13306 ATATT
1 ATATT
13311 TTTATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATTATAATAAAATAATCAATC
Found at i:13666 original size:21 final size:19
Alignment explanation
Indices: 13619--13669 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
13609 TGTTATTAAT
*
13619 ATTAATATAATAAAATTTTA
1 ATTAATAT-TTAAAATTTTA
*
13639 ATAAATATTTAAAATATATTA
1 ATTAATATTTAAAAT-T-TTA
13660 ATTAATATTT
1 ATTAATATTT
13670 TTTCAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 6 0.23
20 8 0.31
21 12 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAATATTTAAAATTTTA
Found at i:13735 original size:23 final size:25
Alignment explanation
Indices: 13709--13800 Score: 61
Period size: 24 Copynumber: 3.8 Consensus size: 25
13699 TTAACTAAAA
*
13709 AATATAGAAATAATA-T-TTTTAAT
1 AATATAAAAATAATATTATTTTAAT
13732 AATA-AATAAATAA-ATTATTTTAAT
1 AATATAA-AAATAATATTATTTTAAT
* * *
13756 ATTTTAAAAATAATA--ATATTAAT
1 AATATAAAAATAATATTATTTTAAT
** *
13779 TTTATGATAAATAATATTATTT
1 AATAT-AAAAATAATATTATTT
13801 ATTGTATTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
22 2 0.04
23 21 0.40
24 24 0.45
25 3 0.06
26 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AATATAAAAATAATATTATTTTAAT
Found at i:13746 original size:27 final size:27
Alignment explanation
Indices: 13692--13754 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
13682 GTACTAATAT
*
13692 TAATATTTTAACTAAAAAATATAGAAA
1 TAATATTTTAACTAAAAAATAAAGAAA
* *
13719 TAATATTTTTAA-TAATAAATAAATAAA
1 TAATA-TTTTAACTAAAAAATAAAGAAA
13746 T--TATTTTAA
1 TAATATTTTAA
13755 TATTTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 6 0.19
25 2 0.06
27 18 0.56
28 6 0.19
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (27 bp):
TAATATTTTAACTAAAAAATAAAGAAA
Found at i:13910 original size:14 final size:14
Alignment explanation
Indices: 13893--13921 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13883 CTATAAAACG
13893 TTTTTCAGAAAATA
1 TTTTTCAGAAAATA
13907 TTTTTCAGAAAATA
1 TTTTTCAGAAAATA
13921 T
1 T
13922 AATTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (14 bp):
TTTTTCAGAAAATA
Found at i:18538 original size:12 final size:12
Alignment explanation
Indices: 18521--18568 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
18511 TTTCGATAAA
18521 AAAATAATATTT
1 AAAATAATATTT
18533 AAAATAATACTTT
1 AAAATAATA-TTT
18546 ACTAAA-AATATTT
1 A--AAATAATATTT
18559 AAAAT-ATATT
1 AAAATAATATT
18569 AATATTTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
11 8 0.25
12 9 0.28
13 8 0.25
14 4 0.12
15 3 0.09
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATAATATTT
Found at i:24564 original size:166 final size:164
Alignment explanation
Indices: 24293--24622 Score: 617
Period size: 166 Copynumber: 2.0 Consensus size: 164
24283 AATGTGGTTC
24293 GATCAAGGTCACCCTAAAGGCACAGTGGACACGAAGGCACCCAACCCTCAAGAACAACAGCAACA
1 GATCAAGGTCACCCTAAAGGCACAGTGGACACGAAGGCACCCAACCCTCAAGAACAACAGCAACA
24358 ACAACGGGCTCGTCCAGTTCTATAATCCTTCTTTCATTGCATTCGATCAAGGTGGCCAAAGCAGA
66 ACAACGGGCTCGTCCAGTTCTATAATCCTTCTTTCATTGCATTCGATCAAGGTGGCCAAAGCAGA
24423 GCCAACCATAGCCAGCTTCTT-CCCACTTTGCAG
131 GCCAACCATAGCCAGCTTCTTCCCCACTTTGCAG
24456 GATCAAGGTCACCCTAAAGGCACAGAGTGGACACGAAGGCACCCAACACCTCAAGAACAACAGCA
1 GATCAAGGTCACCCTAAAGGCAC--AGTGGACACGAAGGCACCCAAC-CCTCAAGAACAACAGCA
24521 ACAACAACGGGCTCGTCCAGTTCTATAATCCTTCTTTCATTGCATTCGATCAAGGTGGCCAAAGC
63 ACAACAACGGGCTCGTCCAGTTCTATAATCCTTCTTTCATTGCATTCGATCAAGGTGGCCAAAGC
*
24586 AGAGCCAACCCTAGCCAGCTTCTTCCCCACTTTGCAG
128 AGAGCCAACCATAGCCAGCTTCTTCCCCACTTTGCAG
24623 TCCATGATGG
Statistics
Matches: 162, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
163 23 0.14
165 22 0.14
166 105 0.65
167 12 0.07
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.19
Consensus pattern (164 bp):
GATCAAGGTCACCCTAAAGGCACAGTGGACACGAAGGCACCCAACCCTCAAGAACAACAGCAACA
ACAACGGGCTCGTCCAGTTCTATAATCCTTCTTTCATTGCATTCGATCAAGGTGGCCAAAGCAGA
GCCAACCATAGCCAGCTTCTTCCCCACTTTGCAG
Found at i:26805 original size:22 final size:22
Alignment explanation
Indices: 26777--26819 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
26767 CGAAGTTCCA
26777 CGTAGAATTGCACCATAGTGCT
1 CGTAGAATTGCACCATAGTGCT
*
26799 CGTAGAATTGCACCGTAGTGC
1 CGTAGAATTGCACCATAGTGC
26820 CATATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (22 bp):
CGTAGAATTGCACCATAGTGCT
Found at i:26951 original size:103 final size:103
Alignment explanation
Indices: 26837--27054 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
26827 TAATGTCCAT
26837 AAGGACCACATATCATTCCTTAAGAATCATATACATATAATAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATAATAGGGATCAAGTATGTGTCTCACCA
*
26902 GACTTCACACATGTTCCAAAGAATACATATATGTCACG
66 GACTTCACACATGTTCCAAAGAATACATATATATCACG
* *
26940 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACTA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATAATAGGGATCAAGTATGTGTCTCACCA
*
27005 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCACG
27043 AAGGACCACATA
1 AAGGACCACATA
27055 GACCCTCTAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATAATAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCACG
Found at i:28784 original size:64 final size:63
Alignment explanation
Indices: 28648--28785 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 63
28638 GCACCAAGTG
* * **
28648 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGAAGCATCGATGCATGGCTTG
1 TGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGAAGCATCGATGCATGGC-AA
** *
28712 TGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGG-AA
1 TGCATCGATGCATCAAATGCATTCGATG-TTTGAAAAATAGCCAGA-AGCATCGATGCATGGCAA
28775 TGCATTCGATG
1 TGCA-TCGATG
28786 TTCAATTAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
63 4 0.06
64 42 0.66
65 18 0.28
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (63 bp):
TGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGAAGCATCGATGCATGGCAA
Found at i:28826 original size:12 final size:12
Alignment explanation
Indices: 28809--28847 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
28799 TCGATGCATC
28809 GATGCATGTACT
1 GATGCATGTACT
28821 GATGCA--T-C-
1 GATGCATGTACT
28829 GATGCATGTACT
1 GATGCATGTACT
28841 GATGCAT
1 GATGCAT
28848 CGGTGCATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 6 0.26
9 1 0.04
10 2 0.09
11 1 0.04
12 13 0.57
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (12 bp):
GATGCATGTACT
Found at i:28826 original size:20 final size:20
Alignment explanation
Indices: 28801--28856 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
28791 TTAATTCATC
28801 GATGCATCGATGCATGTACT
1 GATGCATCGATGCATGTACT
28821 GATGCATCGATGCATGTACT
1 GATGCATCGATGCATGTACT
*
28841 GATGCATCGGTGCATG
1 GATGCATCGATGCATG
28857 CCTTTGAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (20 bp):
GATGCATCGATGCATGTACT
Found at i:35291 original size:55 final size:54
Alignment explanation
Indices: 35222--35593 Score: 520
Period size: 55 Copynumber: 6.8 Consensus size: 54
35212 TGGGTTCGCT
* *
35222 CCCTATTTCTTCAGAGGGTATAAGACTTGAATC-ATCTTCAACAAACTT-GTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAAC-AA-TTCGTCTGCC
*
35277 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT-CGTCTGCC
* *
35332 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGA-CCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTC--GTCTGCC
* * *
35387 CCCTATATCTTCAGAGAGTATAAGACCCGAACAATCTTCAACTATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT-CGTCTGCC
*
35442 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT-CGTCTGCC
* * *
35497 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT-TCGTCTGCC
35550 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
35594 ATGGGTTCGC
Statistics
Matches: 290, Mismatches: 17, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
53 50 0.17
54 4 0.01
55 235 0.81
57 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (54 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTCGTCTGCC
Found at i:35443 original size:165 final size:163
Alignment explanation
Indices: 35222--35594 Score: 590
Period size: 165 Copynumber: 2.3 Consensus size: 163
35212 TGGGTTCGCT
* *
35222 CCCTATTTCTTCAGAGGGTATAAGACTTGAATC-ATCTTCAACAAACTTGTCTGCCCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAACAAACTTGTCTGCCCCCTATTTC
35286 TTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGT
65 TTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGT
* *
35351 ATAAGACTCGAACAATCTTCAACGACCGTGTCTGCC
130 ATAAGAC-C-AACAATCTTCAACAACCGCGTCTGCC
* * *
35387 CCCTATATCTTCAGAGAGTATAAGACCCGAACAATCTTCAAC-TA-TTGCGTCTGCCCCCTATTT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACTT--GTCTGCCCCCTATTT
35450 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAG
64 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAG
* * *
35515 TATAAGACCCACAATCTTCATCAATCGCGTCTGCC
129 TATAAGACCAACAATCTTCAACAACCGCGTCTGCC
35550 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAA
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAA
35595 TGGGTTCGCT
Statistics
Matches: 191, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
163 63 0.33
164 4 0.02
165 124 0.65
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (163 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACTTGTCTGCCCCCTATTTCT
TCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTA
TAAGACCAACAATCTTCAACAACCGCGTCTGCC
Found at i:35611 original size:55 final size:54
Alignment explanation
Indices: 35199--36323 Score: 569
Period size: 51 Copynumber: 21.1 Consensus size: 54
35189 AATTTAATAA
* * *
35199 ATCTTCAGAAAAATGGGTTCGCTCCCTATTTCTTCAGAGGGTATA-AGACTTGAATC
1 ATCTTCA-ACAAATGGGTTCGCTCCCTATTTCTTCAGAGAGTATAGA-ACTCGAA-C
* *
35255 ATCTTCAACAAACT-TG-TCTGCCCCCTATTTCTTCAGAGAGTATA-AGACTCGAAC
1 ATCTTCAACAAA-TGGGTTC-GCTCCCTATTTCTTCAGAGAGTATAGA-ACTCGAAC
* * * *
35309 AATCTTCAACGATTGCG-TCTGCCCCCTATTTCTTCAGAGAGTATA-AGACTCGAAC
1 -ATCTTCAACAAATGGGTTC-GCTCCCTATTTCTTCAGAGAGTATAGA-ACTCGAAC
* ** * * * *
35364 AATCTTCAACGACCGTG-TCTGCCCCCTATATCTTCAGAGAGTATA-AGACCCGAAC
1 -ATCTTCAACAAATGGGTTC-GCTCCCTATTTCTTCAGAGAGTATAGA-ACTCGAAC
* * * *
35419 AATCTTCAACTATTGCG-TCTGCCCCCTATTTCTTCAGAGAGTATA-AGACTCGAAC
1 -ATCTTCAACAAATGGGTTC-GCTCCCTATTTCTTCAGAGAGTATAGA-ACTCGAAC
* * * * *
35474 AATCTTCAACGATTGCG-TCTGCCCCCTATTTCTTCAGAGAGTATA-AGAC-C-CAC
1 -ATCTTCAACAAATGGGTTC-GCTCCCTATTTCTTCAGAGAGTATAGA-ACTCGAAC
* * *
35527 AATCTTCATC-AATCGCG-TCTGCCCCCTATTTCTTCAGAGAGTATA-AGACTCGAAC
1 -ATCTTCAACAAAT-GGGTTC-GCTCCCTATTTCTTCAGAGAGTATAGA-ACTCGAAC
*
35582 AATCTTCAACAAATGGGTTCGCTCCCTATTTC-TCTAGGGAGTATAGAACTCGAAC
1 -ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTC-AGAGAGTATAGAACTCGAAC
** * * * *
35637 ATC-TCTTCAAACGGGTTCGCTCCTTCTTTCTTTA-AGGAGTATAGAACTCGAAC
1 ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTCAGA-GAGTATAGAACTCGAAC
* * * *
35690 ATCTT---CAAACGGGTTCGCTCCTTCTTTCTTTA-AGGAGTATAGAACTCGAAC
1 ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTCAGA-GAGTATAGAACTCGAAC
*
35741 ATCTTCAAC---TGGGTTCGCTCCCTATTTC-TCTAGGGAGTATAGAACTCGAAC
1 ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTC-AGAGAGTATAGAACTCGAAC
** * * * *
35792 ATC-TCTTCAAACGGGTTCGCTCCTTCTTTCTTTA-AGGAGTATAGAACTCGAAC
1 ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTCAGA-GAGTATAGAACTCGAAC
* * * *
35845 ATCTT---CAAACGGGTTCGCTCCTTCTTTCTTTA-AGGAGTATAGAACTCGAAC
1 ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTCAGA-GAGTATAGAACTCGAAC
* * *
35896 ATCTTCAAC---TGGGTTCGCTCCCTTCTTTCTTTA-AGGAGTATAGAACTTGAAC
1 ATCTTCAACAAATGGGTTCGCTCCC-TATTTCTTCAGA-GAGTATAGAACTCGAAC
* * * *
35948 ATCTTCAAC---TGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAA
1 ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTCAGAGAGTATAGAACTCGAAC
** ** * * * * * *
35999 ATCTTCTTCTTACGGGTTCGCTCCTTCTCTCTTTAAAGAGTATAGAACTCGAAC
1 ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTCAGAGAGTATAGAACTCGAAC
* * * * * * *
36053 ATCTT---CAAACGGGTTCGCTCCTTCTTTCATTAAG-GAGTATGGAACTCGGAT
1 ATCTTCAACAAATGGGTTCGCTCCCTATTTC-TTCAGAGAGTATAGAACTCGAAC
*** * * * * *
36104 ATCTTCACACGGGTTCGCTCCTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAC
1 ATCTTCA-AC-AAATGGGT--TCGCTCCCTATTTCTTCAGAGAGTATAGAACTCGAAC
** * * * * * *
36162 ATC-TCTTC--ACGGGTTCACTCCCTCTTTC-TCTAGGGAGTATGGAACT-TAGAC
1 ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTC-AGAGAGTATAGAACTCGA-AC
* ** * * * * *
36213 CTC-TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACTCGAAC
1 ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTCAGAGAGTATAGAACTCGAAC
* * * * * * *
36266 CTCTT---CAAACGGGTTCGCTCCTTCTTTCTTTA-AGGAGTATAGAACTCGCAT
1 ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTCAGA-GAGTATAGAACTCGAAC
36317 ATCTTCA
1 ATCTTCA
36324 TTTGCTTCAC
Statistics
Matches: 911, Mismatches: 106, Indels: 107
0.81 0.09 0.10
Matches are distributed among these distances:
50 6 0.01
51 300 0.33
52 55 0.06
53 165 0.18
54 58 0.06
55 274 0.30
56 17 0.02
57 6 0.01
58 30 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (54 bp):
ATCTTCAACAAATGGGTTCGCTCCCTATTTCTTCAGAGAGTATAGAACTCGAAC
Found at i:35716 original size:51 final size:51
Alignment explanation
Indices: 35565--36323 Score: 893
Period size: 51 Copynumber: 14.5 Consensus size: 51
35555 TTTCTTCAGA
* * * * *
35565 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATTTCTCTAGG
1 GAGTATAGA-ACTCGAAC-ATCTT---CAAACGGGTTCGCTCCTTCTTTCTTTAAG
35620 GAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
35673 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* * * *
35724 GAGTATAGAACTCGAACATCTTC-AACTGGGTTCGCTCCCTATTTCTCTAGG
1 GAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCTCCTTCTTTCTTTAAG
35775 GAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
35828 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
35879 GAGTATAGAACTCGAACATCTTC-AACTGGGTTCGCTCCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCT-CCTTCTTTCTTTAAG
* * *
35931 GAGTATAGAACTTGAACATCTTC-AACTGGGTTCGCTCCCTT-TTTCTTCAGG
1 GAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCT-CCTTCTTTCTTTAAG
* * ** * *
35982 GAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCTTCTCTCTTTAAA
1 GAGTATAGAACTC--GAA-CATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
*
36036 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCATTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* * * * *
36087 GAGTATGGAACTCGGATATCTTCACACGGGTTCGCTCCTCGCTCCCTCTTTCTTTAGG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCG---CTC-CT---TCTTTCTTTAAG
* * * *
36145 GAGTATAGAACTCGAACATCTCTTC--ACGGGTTCACTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* * * * *
36196 GAGTATGGAACTTAGACCTCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAGG
1 GAGTATAGAAC-TCGAAC-ATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
*
36249 GAGTATAGAACTCGAACCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* *
36300 GAGTATAGAACTCGCATATCTTCA
1 GAGTATAGAACTCGAACATCTTCA
36324 TTTGCTTCAC
Statistics
Matches: 620, Mismatches: 57, Indels: 58
0.84 0.08 0.08
Matches are distributed among these distances:
50 6 0.01
51 318 0.51
52 65 0.10
53 124 0.20
54 42 0.07
55 22 0.04
56 5 0.01
58 33 0.05
60 5 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (51 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
Found at i:35730 original size:104 final size:102
Alignment explanation
Indices: 35565--36323 Score: 893
Period size: 104 Copynumber: 7.2 Consensus size: 102
35555 TTTCTTCAGA
* * * * *
35565 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATTTCTCTAGGGAGTATAGA
1 GAGTATAGA-ACTCGAAC-ATCTT---CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGA
35629 ACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
61 ACTCGAACA--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
35673 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
* * * *
35738 AACATCTTC-AACTGGGTTCGCTCCCTATTTCTCTAGG
66 AACATCTTCAAAC-GGGTTCGCTCCTTCTTTCTTTAAG
35775 GAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACT
1 GAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACT
35840 CGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
64 CGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
35879 GAGTATAGAACTCGAACATCTTC-AACTGGGTTCGCTCCCTTCTTTCTTTAAGGAGTATAGAACT
1 GAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCT-CCTTCTTTCTTTAAGGAGTATAGAACT
* * *
35943 TGAACATCTTC-AACTGGGTTCGCTCCCTT-TTTCTTCAGG
64 CGAACATCTTCAAAC-GGGTTCGCT-CCTTCTTTCTTTAAG
* * ** * *
35982 GAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCTTCTCTCTTTAAAGAGTATAGAAC
1 GAGTATAGAACTC--GAA-CATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAAC
*
36047 TCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCATTAAG
63 TCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* * * * *
36087 GAGTATGGAACTCGGATATCTTCACACGGGTTCGCTCCTCGCTCCCTCTTTCTTTAGGGAGTATA
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCG---CTC-CT---TCTTTCTTTAAGGAGTATA
* * * *
36152 GAACTCGAACATCTCTTC--ACGGGTTCACTCCCTCTTTCTCTAGG
59 GAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* * * * *
36196 GAGTATGGAACTTAGACCTCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAACT
1 GAGTATAGAAC-TCGAAC-ATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACT
*
36261 CGAACCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
64 CGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* *
36300 GAGTATAGAACTCGCATATCTTCA
1 GAGTATAGAACTCGAACATCTTCA
36324 TTTGCTTCAC
Statistics
Matches: 566, Mismatches: 57, Indels: 62
0.83 0.08 0.09
Matches are distributed among these distances:
101 6 0.01
102 85 0.15
103 70 0.12
104 205 0.36
105 71 0.13
106 20 0.04
107 9 0.02
108 18 0.03
109 60 0.11
110 2 0.00
111 20 0.04
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (102 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
AACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
Found at i:35770 original size:155 final size:155
Alignment explanation
Indices: 35565--36323 Score: 907
Period size: 155 Copynumber: 4.8 Consensus size: 155
35555 TTTCTTCAGA
*
35565 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATTTCTCTAGGGAGTATAGA
1 GAGTATAGA-ACTCGAAC-ATCTTCAAC---TGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGA
35629 ACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCT
61 ACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCT
35694 TCAAACGGGTTCGCTCCTTCTTTCTTTAAG
126 TCAAACGGGTTCGCTCCTTCTTTCTTTAAG
*
35724 GAGTATAGAACTCGAACATCTTCAACTGGGTTCGCTCCCTATTTCTCTAGGGAGTATAGAACTCG
1 GAGTATAGAACTCGAACATCTTCAACTGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCG
35789 AACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAA
66 AACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAA
35854 CGGGTTCGCTCCTTCTTTCTTTAAG
131 CGGGTTCGCTCCTTCTTTCTTTAAG
* * *
35879 GAGTATAGAACTCGAACATCTTCAACTGGGTTCGCTCCCTTCTTTCTTTAAGGAGTATAGAACTT
1 GAGTATAGAACTCGAACATCTTCAACTGGGTTCGCTCCC-TCTTTCTCTAGGGAGTATAGAACTC
* * * *
35944 GAACA--TCTTC-AACTGGGTTCGCTCCCTT-TTTCTTCAGGGAGTATAGAACTCAAAAATCTTC
65 GAACATCTCTTCAAAC-GGGTTCGCT-CCTTCTTTCTTTAAGGAGTATAGAACTC--GAA-CATC
** * *
36005 TTCTTACGGGTTCGCTCCTTCTCTCTTTAAA
125 TTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* * *
36036 GAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCTCCTTCTTTCAT-TAAGGAGTATGGAACT
1 GAGTATAGAACTCGAACATCTTC-AACTGGGTTCGCTCCCTCTTTC-TCTAGGGAGTATAGAACT
* * * *
36099 CG--GATATCTTCACACGGGTTCGCTCCTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAC
64 CGAACATCTCTTCAAACGGGTTCG---CTC-CT---TCTTTCTTTAAGGAGTATAGAACTCGAAC
* * * *
36162 ATCTCTTC--ACGGGTTCACTCCCTCTTTCTCTAGG
122 A--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* * * * * *
36196 GAGTATGGAACTTAGACCTCTCTTCAAAC-GGGTTCGCTCCTTCTTTCTTTAGGGAGTATAGAAC
1 GAGTATAGAAC-TCGAAC-ATCTTC-AACTGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAAC
* *
36260 TCGAAC--CTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGCATATCTTC
63 TCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTC
36323 A
128 A
36324 TTTGCTTCAC
Statistics
Matches: 534, Mismatches: 38, Indels: 61
0.84 0.06 0.10
Matches are distributed among these distances:
153 8 0.01
154 36 0.07
155 199 0.37
156 62 0.12
157 67 0.13
158 15 0.03
159 22 0.04
160 32 0.06
161 7 0.01
162 64 0.12
163 22 0.04
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (155 bp):
GAGTATAGAACTCGAACATCTTCAACTGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCG
AACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAA
CGGGTTCGCTCCTTCTTTCTTTAAG
Found at i:36751 original size:36 final size:36
Alignment explanation
Indices: 36693--36958 Score: 338
Period size: 36 Copynumber: 7.4 Consensus size: 36
36683 ACTCTTCTGA
* * *
36693 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTCGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
36730 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
36766 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * * *
36802 GAAGGCTTCAGATTGATTGCTTCCCTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
36838 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
36874 GAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
36910 GAAGGCTTCAGATGGTTTGCTTCACT-TCTCTTCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTAT-TCTCCGGT
36946 GAAGGCTTAAGAT
1 GAAGGCTTAAGAT
36959 TGACTTTGCT
Statistics
Matches: 201, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
35 2 0.01
36 186 0.93
37 13 0.06
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:37861 original size:127 final size:127
Alignment explanation
Indices: 37677--37987 Score: 421
Period size: 127 Copynumber: 2.4 Consensus size: 127
37667 CTCAATAACT
* *
37677 TCTTGGTCTGAATCTTATT-TTCTCATCATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTAT
1 TCTTGGTCTGAATCTT-TTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTAT
* *
37741 ACTGGTACGGGCCTTTCAAAATGCCCCTATTACCTCAAATTGTAAGGCTCATTCTTCATGCC-TC
65 ACTGGTACGAGCC-TTCAAAATGCCCC-ATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
37805 -CTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
1 TCTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
* * *
37869 CTGGTACGAGCCTTCAAAATGTCCCATCACCTCAGATTGTAAGGCTTATTCTTCATGCCTTC
66 CTGGTACGAGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
** * * * * * * *
37931 TTCTTCTTCTGTATCTTGTCATCTCAACCTAATGTGGGTTCAGCCATGCCACAACAT
1 -TCTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACAT
37988 ATCGCAACTT
Statistics
Matches: 163, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
125 31 0.19
126 16 0.10
127 70 0.43
128 46 0.28
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (127 bp):
TCTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
CTGGTACGAGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
Found at i:39276 original size:16 final size:15
Alignment explanation
Indices: 39252--39281 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39242 TTTCATTCTT
39252 TTTTCATTTTTCTCA
1 TTTTCATTTTTCTCA
39267 TTTTCAATTTTTCTC
1 TTTTC-ATTTTTCTC
39282 TTTCTTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCATTTTTCTCA
Found at i:45157 original size:62 final size:65
Alignment explanation
Indices: 45045--45169 Score: 188
Period size: 62 Copynumber: 2.0 Consensus size: 65
45035 TGTTTGAGAA
45045 CCCAGAACCCCTGTGTTGATGAGCCCTTTTATTTTTGTCCCTATTCTATAGAAAAGCCGAACCTA
1 CCCAGAACCCCTGTGTT-ATGAGCCCTTTTATTTTTGTCCCTATTCTATAGAAAAGCCGAACCTA
45110 T
65 T
45111 CCCAGAACCCCCTGTG-T-TGA-CCCTTTTTATTTTT-T-CCTATTCTATAGAAAAGCCGAACC
1 CCCAGAA-CCCCTGTGTTATGAGCCC-TTTTATTTTTGTCCCTATTCTATAGAAAAGCCGAACC
45170 CTGTTGGTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
62 24 0.42
63 4 0.07
64 13 0.23
66 8 0.14
67 8 0.14
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.34
Consensus pattern (65 bp):
CCCAGAACCCCTGTGTTATGAGCCCTTTTATTTTTGTCCCTATTCTATAGAAAAGCCGAACCTAT
Found at i:51367 original size:64 final size:65
Alignment explanation
Indices: 51299--51421 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 65
51289 TTGGAACACT
* *
51299 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCC
1 TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAATAGCC
* *****
51363 TGATGCGTCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAA
1 TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAA
51422 TATTCAGAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
64 42 0.84
65 8 0.16
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (65 bp):
TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAATAGCC
Found at i:51457 original size:64 final size:63
Alignment explanation
Indices: 51321--51458 Score: 154
Period size: 64 Copynumber: 2.2 Consensus size: 63
51311 GCACCAAGTG
* * * **
51321 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCGTCGATGCATGGCTTG
1 TGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGATGCATCGATGCATGGC-AA
** *
51385 TGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGTATGG-AA
1 TGCATCGATGCATCAAATGCATTCGATG-TTTGAAAAATAGCCAGA-TGCATCGATGCATGGCAA
51448 TGCATTCGATG
1 TGCA-TCGATG
51459 TTCAATTAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
63 4 0.06
64 42 0.67
65 17 0.27
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (63 bp):
TGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGATGCATCGATGCATGGCAA
Found at i:52433 original size:76 final size:76
Alignment explanation
Indices: 52346--52496 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 76
52336 TCTATATAAT
*
52346 AAGAAGAGAGACTAAAGCATTTGCAGAAAGACAAATAATGTGGATGAGATACTATGTTCAAAGCC
1 AAGAAGAGAGACTAAAGCATTTGCAGAAAGACAAATAATGTGGATGAGAGACTATGTTCAAAGCC
*
52411 GTAATCTGACA
66 GCAATCTGACA
52422 AAGAAGAGAGACTAAAGCATTTGCAGAAAGACAAATAATGTGGATGAGAGACTATGTTCAAAGCC
1 AAGAAGAGAGACTAAAGCATTTGCAGAAAGACAAATAATGTGGATGAGAGACTATGTTCAAAGCC
52487 GCAATCTGAC
66 GCAATCTGAC
52497 CCTTTGATAG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (76 bp):
AAGAAGAGAGACTAAAGCATTTGCAGAAAGACAAATAATGTGGATGAGAGACTATGTTCAAAGCC
GCAATCTGACA
Found at i:52914 original size:15 final size:15
Alignment explanation
Indices: 52891--52925 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52881 TGGAAGATCT
* *
52891 GATTATGAAACTTCG
1 GATTGTGAAAATTCG
52906 GATTGTGAAAATTCG
1 GATTGTGAAAATTCG
52921 GATTG
1 GATTG
52926 AAGAAGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (15 bp):
GATTGTGAAAATTCG
Found at i:56893 original size:23 final size:23
Alignment explanation
Indices: 56859--56902 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
56849 TCTATTATAA
*
56859 AAAAATAATTAAGTCTTTTCATG
1 AAAAATAATTAAGTCATTTCATG
* *
56882 AAAAATAGTTAATTCATTTCA
1 AAAAATAATTAAGTCATTTCA
56903 CCCAAAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
AAAAATAATTAAGTCATTTCATG
Found at i:60775 original size:60 final size:60
Alignment explanation
Indices: 60670--60789 Score: 136
Period size: 60 Copynumber: 2.0 Consensus size: 60
60660 TAGAGTTTGA
* * * *
60670 GGATGAAATTAGAATGTTCAAAATTTTAAGGAATAATTTAGAATGAAAGTTATAGTTTAG
1 GGATGAAATTAGAATGTTCAAAAGTTTAAGGAACAATTTAAAATGAAAGTCATAGTTTAG
* * **
60730 GGATGAAATT-GAAATGTTGAAAAGTTTAA-GAACCAGTTTAAAATGAGGGTCATAGTTTAG
1 GGATGAAATTAG-AATGTTCAAAAGTTTAAGGAA-CAATTTAAAATGAAAGTCATAGTTTAG
60790 AGACATATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 4 0.08
60 46 0.92
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.33
Consensus pattern (60 bp):
GGATGAAATTAGAATGTTCAAAAGTTTAAGGAACAATTTAAAATGAAAGTCATAGTTTAG
Found at i:68854 original size:3 final size:3
Alignment explanation
Indices: 68846--68875 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
68836 GGGCGCCAAC
68846 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
68876 CTTGGTGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:72286 original size:2 final size:2
Alignment explanation
Indices: 72279--72311 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
72269 CCAAACTACC
72279 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72312 GAAAATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:76508 original size:30 final size:30
Alignment explanation
Indices: 76469--76525 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
76459 AAACTTAAAG
* *
76469 TTTTGCAATACTGAGATTTAAATAATTTTA
1 TTTTACAATACTGAAATTTAAATAATTTTA
76499 TTTTACAATACTGAAATTTAAATAATT
1 TTTTACAATACTGAAATTTAAATAATT
76526 CATACAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTTACAATACTGAAATTTAAATAATTTTA
Found at i:76564 original size:22 final size:22
Alignment explanation
Indices: 76539--76582 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
76529 ACAACTACAA
76539 TAATAAAT-TATTTAAAATAAAT
1 TAATAAATAT-TTTAAAATAAAT
**
76561 TAATCTATATTTTAAAATAAAT
1 TAATAAATATTTTAAAATAAAT
76583 CAATCTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATAAATATTTTAAAATAAAT
Found at i:76587 original size:22 final size:22
Alignment explanation
Indices: 76549--76593 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
76539 TAATAAATTA
*
76549 TTTAAAATAAATTAATCTATAT
1 TTTAAAATAAATCAATCTATAT
76571 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCTATAT
76593 T
1 T
76594 AATAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTAAAATAAATCAATCTATAT
Found at i:76598 original size:54 final size:54
Alignment explanation
Indices: 76539--77603 Score: 644
Period size: 54 Copynumber: 19.4 Consensus size: 54
76529 ACAACTACAA
* * *
76539 TAATAAATTATTTAAAATAAATTAATCTATATTTTAAAATAAATCAATCTATAT
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * **
76593 TAATAAATTATTTAAAATAAATCAATTTATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCTAT---ATTTTAA-AATAAATCAATCCATAC
** * *
76650 TTTTAAA--A--T-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATAC
** * *
76704 TTTTAAA--A--T-AAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATAC
* *
76759 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * ** *
76813 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAAT-C-TA-TATTTTAA-AATAAATCAATCCATA--C
* * * * * *
76873 TAAAATAAATCAATTCATACT-AAT-AA-AT-TA-TTTAAAATAAATCAATCTATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *
76925 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
76973 AAATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATC---A-AT-CT-AT--A-T-TTTAAAATAAATCAATCCATAC
* * **
77037 TAATAAATTATTTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAAT-C-TA-TATTTTAA-AATAAATCAATCCATAC
** *
77094 TTTTAAA--A--T-AAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATAC
* * * *
77149 -AACTACAA-TA-AT-AAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1 TAA-TA-AATTATTTAAAATAAATCAAT-C---TATA-T-TTTAAAATAAATCAATCCATAC
* *
77207 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *** * *
77261 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAAT-CA-A-
1 TAATAAATTATTTAAAATAAATCAATCTATA-TTTTAAAATAAATCAATCCATAC
* *
77312 T-TTATA-T-TTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAATCC--A-
1 TAATAAATTATTTAAAATAAATCAATC--T----AT--A-T-TTTAAAATAAATCAATCCATAC
* * * *
77370 T-A-AAACTA--CAATAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAA-AATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
77421 AAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT-CATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * *
77474 TAATAAATTATTTAAAATAAATCAATCCATGTTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
77528 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
77582 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
77604 TATTTTAAAA
Statistics
Matches: 822, Mismatches: 100, Indels: 178
0.75 0.09 0.16
Matches are distributed among these distances:
43 2 0.00
44 3 0.00
45 2 0.00
47 3 0.00
48 58 0.07
49 6 0.01
50 9 0.01
51 2 0.00
52 28 0.03
53 62 0.08
54 356 0.43
55 28 0.03
56 8 0.01
57 35 0.04
58 116 0.14
59 9 0.01
60 28 0.03
61 5 0.01
62 11 0.01
63 7 0.01
64 44 0.05
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
Found at i:76600 original size:22 final size:22
Alignment explanation
Indices: 76547--76599 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
76537 AATAATAAAT
*
76547 TATT-TAAAATAAATTAATCTA
1 TATTATAAAATAAATCAATCTA
*
76568 TATTTTAAAATAAATCAATCTA
1 TATTATAAAATAAATCAATCTA
76590 TATTAATAAA
1 TATT-ATAAA
76600 TTATTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 20 0.71
23 4 0.14
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
TATTATAAAATAAATCAATCTA
Found at i:76607 original size:32 final size:32
Alignment explanation
Indices: 76571--77603 Score: 514
Period size: 32 Copynumber: 36.4 Consensus size: 32
76561 TAATCTATAT
* *
76571 TTTAAAATAAATCAATCTATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
** *
76603 TTTAAAATAAATCAATTTATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
76633 --T--AATAAATCAATCCATA-T--T---TTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
76655 ---AAA-TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
76683 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
76705 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
76737 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
76769 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
76791 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
76823 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
76853 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
76871 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
76903 TTTAAAATAAATCAATCTATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
76933 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
76951 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
76983 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
77015 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
77047 TTTAAAATAAATCAATCCATAC-AACTAAA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
77077 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
77095 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
77127 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
*
77157 --T--AATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
77185 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
77217 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
77239 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
77271 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
** * *
77301 --T--AATAAATCAATTTATATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATA--CT--AATAAAT-TA
* * * *
77334 TCTATACAAATAAAT-TAT--TTA-AAATAAATCAA
1 T-T-TA-AAATAAATCAATCCATACTAATAAAT-TA
* ** **
77366 TCCATAAAACTACAAT-AATAAAT-C-AATCCATAT-
1 T--TTAAAA-TA-AATCAATCCATACTAATAAAT-TA
* *
77399 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
77431 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
77453 TTTAAAATAAATCAAT-CATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
77484 TTTAAAATAAATCAAT-C---C--AT---GT-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
77506 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
77538 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
77560 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
77592 TTTAAAATAAAT
1 TTTAAAATAAAT
77604 TATTTTAAAA
Statistics
Matches: 797, Mismatches: 47, Indels: 314
0.69 0.04 0.27
Matches are distributed among these distances:
20 3 0.00
22 148 0.19
23 17 0.02
24 11 0.01
25 5 0.01
26 111 0.14
27 5 0.01
28 27 0.03
29 4 0.01
30 22 0.03
31 54 0.07
32 364 0.46
33 8 0.01
34 5 0.01
35 1 0.00
37 3 0.00
39 2 0.00
40 7 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:76653 original size:80 final size:80
Alignment explanation
Indices: 76553--77603 Score: 668
Period size: 80 Copynumber: 12.8 Consensus size: 80
76543 AAATTATTTA
* * *
76553 AAATAAATTAATCTATATTTTAAAATAAATCAATCTATATTAATAAATTATTTAAAATAAATCAA
1 AAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAA
** *
76618 TTTATACAACTACAAT
66 TCCATACAA-TAAAAT
*
76634 -AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1 AAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAA
***
76698 TCCATATTTTAAAAT
66 TCCATACAATAAAAT
* * * *
76713 AAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
1 AAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATA
***
76778 AATCAATCCATATTTTAAAAT
60 AATCAATCCATACAATAAAAT
* * * *
76799 AAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AA
1 AAAT-AAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCTATACTAA-TAAATTATTTAAAA
***
76856 TAAATCAATCCATATTTTAAAAT
58 TAAATCAATCCATACAATAAAAT
* * *
76879 AAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAATCTATAC-AACTACA--A--T--AA
1 AAAT-AAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCTATACTAA-TAAATTATTTAAAA
***
76936 TAAATCAATCCATATTTTAAAAT
58 TAAATCAATCCATACAATAAAAT
* * *
76959 AAATCAATCCATACAAATAAATTATTTAAAATAAATCAATAC-ATACTAATAAATTATTTAAAAT
1 AAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAAT-CTATACTAATAAATTATTTAAAAT
77023 AAATCAATCCATACTAATAAATTATTT
59 AAATCAATCCATAC-AATAAA--A--T
*** * * *
77050 AAAATAAATCAATCCATACAACTAAAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATC
1 -AAATAAATCAATCCATA-TTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATC
*
77108 AATCAATACTAATAAATTATTT
64 AATCCATAC-AATAAA--A--T
* ** * *
77130 AAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATACAAATAAATTATTTAAAATAA
1 -AAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCTATACTAATAAATTATTTAAAATAA
77195 ATCAATCCATACTAATAAATTATTT
61 ATCAATCCATAC-AATAAA--A--T
77220 AAAATAAATCAATCCATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTAAAATAAATC
1 -AAATAAATCAATCCATATTTTAAAATAAATCAATCT-ATACTAATAAATTATTTAAAATAAATC
*
77284 AATCCATACAACTACAAT
64 AATCCATACAA-TAAAAT
** *
77302 -AATAAATCAATTTATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAA
1 AAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAA
* *
77366 TCCATAAAACTACAAT
66 TCCATACAA-TAAAAT
*
77382 -AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAA
1 AAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAA
* ***
77446 TCTATATTTTAAAAT
66 TCCATACAATAAAAT
* * *
77461 AAATCAATC-ATACTAATAAATTATTTAAAATAAATCAATC----C--AT---GT-TTTAAAATA
1 AAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATA
*
77515 AATCAATTCATACTAATAAATTATTT
60 AATCAATCCATAC-AATAAA--A--T
*
77541 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 -AAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAAT
77604 TATTTTAAAA
Statistics
Matches: 837, Mismatches: 70, Indels: 121
0.81 0.07 0.12
Matches are distributed among these distances:
75 19 0.02
76 22 0.03
77 1 0.00
78 2 0.00
79 17 0.02
80 421 0.50
81 18 0.02
82 12 0.01
83 5 0.01
84 16 0.02
85 26 0.03
86 192 0.23
87 17 0.02
88 2 0.00
89 2 0.00
90 53 0.06
91 2 0.00
92 10 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (80 bp):
AAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAA
TCCATACAATAAAAT
Found at i:76680 original size:22 final size:22
Alignment explanation
Indices: 76634--76679 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
76624 CAACTACAAT
**
76634 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATAATAA
76656 AATAAATCAATCCATACTAATAA
1 AATAAATCAATCCATA-TAATAA
76679 A
1 A
76680 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAATCAATCCATATAATAA
Found at i:76734 original size:22 final size:22
Alignment explanation
Indices: 76685--76733 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
76675 ATAAATTATT
**
76685 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
76707 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
76730 TAAA
1 TAAA
76734 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:76795 original size:22 final size:22
Alignment explanation
Indices: 76769--76811 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
76759 TAATAAATTA
76769 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
76791 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
76812 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:76820 original size:22 final size:22
Alignment explanation
Indices: 76771--76819 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
76761 ATAAATTATT
**
76771 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
76793 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
76816 TAAA
1 TAAA
76820 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:77082 original size:224 final size:219
Alignment explanation
Indices: 76540--77503 Score: 1416
Period size: 224 Copynumber: 4.4 Consensus size: 219
76530 CAACTACAAT
* * * *
76540 AATAAATTATTTAAAATAAATTAATCTATATTTTAAAATAAATCAATCTATATTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
** *
76605 TAAAATAAATCAATTTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCA
66 TAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAA
*** * * *
76670 TACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCTATACTA-ATAA
131 TACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAATAC-ACAT-A
*
76733 ATTATTTAAAATAAATCAATCCATACT
193 ATTATTTAAAATAAATCAATCCATACA
*
76760 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
76825 TAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC-
66 TAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAA-TCA
*
76889 ATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAATAAATCAAT-C-CAT-A-
130 ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATACACATAAT
76950 T-TTTAAAATAAATCAATCCATACA
195 TATTTAAAATAAATCAATCCATACA
76974 AATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACTA
1 AATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTA
*
77039 ATAAATTATTTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATATTTTAAAATA
56 ATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATA
77104 AATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAAT
121 AATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATC-A-
* *
77169 CCATACAAATAAATTATTTAAAATAAATCAATCCATACT
184 --ATACACAT-AATTATTTAAAATAAATCAATCCATACA
*
77208 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
** *
77273 TAAAATAAATCAATCCATACAACTACAATAATAAATCAATTTATATTTTAAAATAAATCAATCTA
66 TAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAA
* *
77338 TACAAATAAATTATTTAAAATAAATCAATCCATAAAACTACAATAATAAATCAAT-C-CAT-A-T
131 TACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATACACATAATT
*
77399 -TTTAAAATAAATCAATCTATACA
196 ATTTAAAATAAATCAATCCATACA
*
77422 AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT-CATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
77486 TAAAATAAATCAATCCAT
66 TAAAATAAATCAATCCAT
77504 GTTTTAAAAT
Statistics
Matches: 689, Mismatches: 31, Indels: 55
0.89 0.04 0.07
Matches are distributed among these distances:
213 35 0.05
214 114 0.17
215 3 0.00
216 2 0.00
218 5 0.01
219 2 0.00
220 166 0.24
221 7 0.01
222 1 0.00
223 4 0.01
224 289 0.42
225 2 0.00
226 1 0.00
228 4 0.01
229 1 0.00
230 3 0.00
232 1 0.00
233 2 0.00
234 47 0.07
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (219 bp):
AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
TAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAA
TACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATACACATAATT
ATTTAAAATAAATCAATCCATACA
Found at i:77165 original size:26 final size:26
Alignment explanation
Indices: 77054--77397 Score: 114
Period size: 26 Copynumber: 12.5 Consensus size: 26
77044 TTATTTAAAA
77054 TAAATCAATCCATACAACTAAAATAA
1 TAAATCAATCCATACAACTAAAATAA
***
77080 TAAATCAATCCATA-TTTTAAAATAAA
1 TAAATCAATCCATACAACTAAAAT-AA
* * * *
77106 TCAATCAATACTAATA-AATTATTTAA-AA
1 TAAATCAAT-C-CATACAACTA--AAATAA
*
77134 TAAATCAATCCATACAACTACAATAA
1 TAAATCAATCCATACAACTAAAATAA
*
77160 TAAATCAATCCATACAAATAAATTATTTAAAA
1 TAAATCAATCCATACAACTAAA--A--T--AA
* *
77192 TAAATCAATCCATACTAA-TAAATTATT
1 TAAATCAATCCATAC-AACTAAAATA-A
* * * * **
77219 TAAAATAAATCAATCCATATTTTAA-AA
1 T-AAATCAATCCATACA-ACTAAAATAA
*
77246 TAAATCAATTCATACTAA-TAAATTATTTAAAA
1 TAAATCAATCCATAC-AACTAAA--A--T--AA
*
77278 TAAATCAATCCATACAACTACAATAA
1 TAAATCAATCCATACAACTAAAATAA
* * * **
77304 TAAATCAAT--TTA-TATTTTAA-AA
1 TAAATCAATCCATACAACTAAAATAA
* *
77326 TAAATCAATCTATACAAATAAATTATTTAAAA
1 TAAATCAATCCATACAACTAAA--A--T--AA
* *
77358 TAAATCAATCCATAAAACTACAATAA
1 TAAATCAATCCATACAACTAAAATAA
77384 TAAATCAATCCATA
1 TAAATCAATCCATA
77398 TTTTAAAATA
Statistics
Matches: 236, Mismatches: 45, Indels: 74
0.66 0.13 0.21
Matches are distributed among these distances:
22 11 0.05
23 4 0.02
24 4 0.02
25 13 0.06
26 88 0.37
27 12 0.05
28 33 0.14
29 2 0.01
30 5 0.02
31 2 0.01
32 60 0.25
33 2 0.01
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (26 bp):
TAAATCAATCCATACAACTAAAATAA
Found at i:77243 original size:22 final size:22
Alignment explanation
Indices: 77217--77259 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
77207 TAATAAATTA
77217 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
77239 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
77260 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:77268 original size:22 final size:22
Alignment explanation
Indices: 77219--77267 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
77209 ATAAATTATT
**
77219 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
77241 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
77264 TAAA
1 TAAA
77268 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:77305 original size:40 final size:40
Alignment explanation
Indices: 77261--77388 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
77251 CAATTCATAC
77261 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAA
* ** * * *
77301 TAATAAATCAATTTATATTTTAAAATAAATCAAT-CTA-TAC-A
1 TAATAAAT-TATTTA-A-AAT-AAATCAATCCATACAACTACAA
*
77342 -AATAAATTATTTAAAATAAATCAATCCATAAAACTACAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAA
77381 TAATAAAT
1 TAATAAAT
77389 CAATCCATAT
Statistics
Matches: 67, Mismatches: 13, Indels: 16
0.70 0.14 0.17
Matches are distributed among these distances:
36 10 0.15
37 2 0.03
38 4 0.06
39 6 0.09
40 22 0.33
41 6 0.09
42 4 0.06
43 3 0.04
44 10 0.15
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (40 bp):
TAATAAATTATTTAAAATAAATCAATCCATACAACTACAA
Found at i:77480 original size:22 final size:22
Alignment explanation
Indices: 77433--77480 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
77423 ATAAATTATT
**
77433 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCTATATAA
77455 TAAAATAAATCAATC-ATACTAA
1 TAAAATAAATCAATCTATA-TAA
77477 TAAA
1 TAAA
77481 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCTATATAA
Found at i:77564 original size:22 final size:22
Alignment explanation
Indices: 77538--77630 Score: 87
Period size: 22 Copynumber: 4.1 Consensus size: 22
77528 TAATAAATTA
77538 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
77560 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
77583 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
77607 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
77629 TT
1 TT
77631 GATAATAATT
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
22 26 0.50
23 12 0.23
24 12 0.23
25 2 0.04
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:77612 original size:15 final size:15
Alignment explanation
Indices: 77583--77730 Score: 163
Period size: 15 Copynumber: 9.5 Consensus size: 15
77573 AATCCATACT
77583 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
77597 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
77612 AATAAATCAATCCATATTTGAT
1 AATAAAT---T--AT-TTT-AA
*
77634 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
77649 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
77664 AATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
77679 AATAATTTATTTTAT
1 AATAAATTATTTTAA
*
77694 AATAAATTATTTTAT
1 AATAAATTATTTTAA
77709 AATAAATTATTTTAA
1 AATAAATTATTTTAA
77724 AATAAAT
1 AATAAAT
77731 AACCTTATTA
Statistics
Matches: 116, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.08
15 88 0.76
16 3 0.03
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 3 0.03
22 7 0.06
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:78929 original size:60 final size:59
Alignment explanation
Indices: 78809--78957 Score: 158
Period size: 60 Copynumber: 2.5 Consensus size: 59
78799 TGTAGGGACC
* * * * **
78809 AATTTAGAATGAGATTCATAGTTTGGGATGAAATTAGAATATTCAAAAGTTTCAGGACT
1 AATTTAGAATGAGAGTCATAGTTTGGGATGAAATCAGAATACTAAAAAGTTTCAAAACT
* *
78868 AATTTAGAATGAGAGTCATAGTTTGAGGATGTAATCGGAATACTAAAAAG-TTCAAAAACT
1 AATTTAGAATGAGAGTCATAGTTTG-GGATGAAATCAGAATACTAAAAAGTTTC-AAAACT
* *
78928 AATTTAAAATGA-ATGTCATAATTTAGGGAT
1 AATTTAGAATGAGA-GTCATAGTTT-GGGAT
78958 ATATGATATA
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
59 28 0.37
60 47 0.62
61 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (59 bp):
AATTTAGAATGAGAGTCATAGTTTGGGATGAAATCAGAATACTAAAAAGTTTCAAAACT
Found at i:83643 original size:12 final size:12
Alignment explanation
Indices: 83628--83693 Score: 80
Period size: 12 Copynumber: 5.6 Consensus size: 12
83618 GTTATTTAAA
83628 CGGGTATTGGGC
1 CGGGTATTGGGC
*
83640 CGGGTATTGGGT
1 CGGGTATTGGGC
*
83652 CGGGTATTGGGT
1 CGGGTATTGGGC
*
83664 C-AGTATTGGGC
1 CGGGTATTGGGC
* *
83675 CGGGAATCGGGC
1 CGGGTATTGGGC
83687 CGGGTAT
1 CGGGTAT
83694 ATATATATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
11 9 0.20
12 37 0.80
ACGTcount: A:0.12, C:0.15, G:0.47, T:0.26
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:83698 original size:2 final size:2
Alignment explanation
Indices: 83691--83780 Score: 57
Period size: 2 Copynumber: 48.0 Consensus size: 2
83681 TCGGGCCGGG
* * *
83691 TA TA TA TA TA TA TA TA TA TA TA TA TT TA AA T- TA AA 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
* * * * * *
83732 T- TT TT TA TT TA AA T- TA AA TT TA T- TA -A TA T- 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
83769 TA TA TA TA TA TA
1 TA TA TA TA TA TA
83781 AATAATTATT
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
1 6 0.09
2 61 0.91
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:83763 original size:24 final size:25
Alignment explanation
Indices: 83698--83763 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 25
83688 GGGTATATAT
83698 ATATATATATATATATATTTAAATTAA
1 ATATATAT-TATAT-TATTTAAATTAA
*
83725 ATATATATT-TTTTATTTAAATTAA
1 ATATATATTATATTATTTAAATTAA
83749 AT-T-TATTAATATTAT
1 ATATATATT-ATATTAT
83764 ATATATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
22 4 0.11
23 1 0.03
24 19 0.54
25 2 0.06
26 1 0.03
27 8 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATATATTATATTATTTAAATTAA
Found at i:86617 original size:25 final size:25
Alignment explanation
Indices: 86589--86644 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
86579 TTTAGATACT
86589 TTAATTCTAAAACATCGGGGTGACA
1 TTAATTCTAAAACATCGGGGTGACA
**
86614 TTAATTCTAAAACATCTTGGTGACA
1 TTAATTCTAAAACATCGGGGTGACA
86639 TTAATT
1 TTAATT
86645 GCCTTCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (25 bp):
TTAATTCTAAAACATCGGGGTGACA
Found at i:87647 original size:21 final size:21
Alignment explanation
Indices: 87623--87686 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
87613 GCAAATTCGC
*
87623 GTTGCATTTCGCGTTGCGATA
1 GTTGCAATTCGCGTTGCGATA
* *
87644 GTTGAAAATCGCGTTGCGAT-
1 GTTGCAATTCGCGTTGCGATA
* * *
87664 TTTCCAGTTCGCGTTGCGATA
1 GTTGCAATTCGCGTTGCGATA
87685 GT
1 GT
87687 CTACGGTTGT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (21 bp):
GTTGCAATTCGCGTTGCGATA
Found at i:87836 original size:6 final size:6
Alignment explanation
Indices: 87818--87866 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
87808 AACACGTATT
* *
87818 ACCACG ACAACG ACCACG ACCACG ACCACG ACCCCG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
87864 ACC
1 ACC
87867 CGAGACGAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
5 10 0.25
6 30 0.75
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:88577 original size:21 final size:21
Alignment explanation
Indices: 88514--88577 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
88504 ACAACTATAG
88514 ACTATCGCAACGCGAAATG-A
1 ACTATCGCAACGCGAAATGCA
** ** *
88534 AAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
88555 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
88576 AC
1 AC
88578 GCGAATTTGC
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:90730 original size:44 final size:45
Alignment explanation
Indices: 90636--90752 Score: 200
Period size: 44 Copynumber: 2.6 Consensus size: 45
90626 ATACCACTAG
* *
90636 TGTTATTATGGTATTGGACTCAGTTGCAAGCCCTCTTGTGAATGT
1 TGTTATTGTGGTATTGGACTCAGTTGCAAGCCCTCTTGTGAATAT
*
90681 TGTTATTGTTGTATTGGACTCAGTTGCAAG-CCTCTTGTGAATAT
1 TGTTATTGTGGTATTGGACTCAGTTGCAAGCCCTCTTGTGAATAT
90725 TGTTATTGTGGTATTGGACTCAGTTGCA
1 TGTTATTGTGGTATTGGACTCAGTTGCA
90753 TTCCCTTAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
44 40 0.59
45 28 0.41
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.42
Consensus pattern (45 bp):
TGTTATTGTGGTATTGGACTCAGTTGCAAGCCCTCTTGTGAATAT
Found at i:93768 original size:27 final size:27
Alignment explanation
Indices: 93737--93804 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
93727 TTTATTTACA
*
93737 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATAGTAAC
93764 AAATCATATCTCTATAGGAATAGTAAC
1 AAATCATATCTCTATAGGAATAGTAAC
93791 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
93805 ATTCCTACAC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 9 0.22
27 31 0.77
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATAGTAAC
Found at i:97536 original size:27 final size:27
Alignment explanation
Indices: 97505--97599 Score: 176
Period size: 27 Copynumber: 3.6 Consensus size: 27
97495 TCTATTTACA
97505 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
97532 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
97559 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
97586 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
97600 ATTCCTAATT
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
25 9 0.13
27 59 0.87
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:107163 original size:17 final size:17
Alignment explanation
Indices: 107137--107175 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
107127 ATAAGAATCT
* * *
107137 TCTTCTGCCTTACTGTC
1 TCTTCCGCCTAACTGCC
107154 TCTTCCGCCTAACTGCC
1 TCTTCCGCCTAACTGCC
107171 TCTTC
1 TCTTC
107176 TAGCTCAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.08, C:0.41, G:0.10, T:0.41
Consensus pattern (17 bp):
TCTTCCGCCTAACTGCC
Found at i:107780 original size:23 final size:24
Alignment explanation
Indices: 107739--107785 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
107729 AATATTTTCA
*
107739 TTGTATAACTTTTAATATG-TAAT
1 TTGTATAAATTTTAATATGCTAAT
107762 TTGTATAAATTTTAATATGCTAAT
1 TTGTATAAATTTTAATATGCTAAT
107786 AATGTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (24 bp):
TTGTATAAATTTTAATATGCTAAT
Found at i:112904 original size:6 final size:6
Alignment explanation
Indices: 112893--112920 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
112883 CCCGTGTTAG
112893 AATAGA AATAGA AATAGA AATAGA AATA
1 AATAGA AATAGA AATAGA AATAGA AATA
112921 AAAAGGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.18
Consensus pattern (6 bp):
AATAGA
Found at i:113625 original size:15 final size:15
Alignment explanation
Indices: 113602--113639 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
113592 GGTCATCCAA
*
113602 TTATTATTCTTTTTT
1 TTATTATTCTTTTAT
*
113617 TTCTTATTCTTTTAT
1 TTATTATTCTTTTAT
113632 TTATTATT
1 TTATTATT
113640 TATGAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTATTCTTTTAT
Found at i:113732 original size:16 final size:16
Alignment explanation
Indices: 113711--113768 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
113701 TTTTTTTATG
113711 TTTTAATAACTTTTTA
1 TTTTAATAACTTTTTA
*
113727 TTTTAATAA-TATTTA
1 TTTTAATAACTTTTTA
**
113742 TTTTAATTATTTTTTTA
1 TTTTAA-TAACTTTTTA
*
113759 TTTTTATAAC
1 TTTTAATAAC
113769 GCGACGTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 11 0.32
16 13 0.38
17 10 0.29
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAATAACTTTTTA
Found at i:113743 original size:15 final size:16
Alignment explanation
Indices: 113711--113748 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
113701 TTTTTTTATG
*
113711 TTTTAATAACTTTTTA
1 TTTTAATAACTATTTA
113727 TTTTAATAA-TATTTA
1 TTTTAATAACTATTTA
113742 TTTTAAT
1 TTTTAAT
113749 TATTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTAATAACTATTTA
Found at i:114424 original size:2 final size:2
Alignment explanation
Indices: 114417--114487 Score: 135
Period size: 2 Copynumber: 36.0 Consensus size: 2
114407 AAGTTAAACA
114417 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
114459 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114488 TTAATAATAT
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 67 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:114881 original size:24 final size:24
Alignment explanation
Indices: 114854--114899 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
114844 TCGTGAACGA
114854 TCGGTTATGTTCGTTTATGTTCGT
1 TCGGTTATGTTCGTTTATGTTCGT
114878 TCGGTTATGTTCGTTTATGTTC
1 TCGGTTATGTTCGTTTATGTTC
114900 ATTCATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.13, G:0.24, T:0.54
Consensus pattern (24 bp):
TCGGTTATGTTCGTTTATGTTCGT
Found at i:114885 original size:14 final size:14
Alignment explanation
Indices: 114862--114892 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
114852 GATCGGTTAT
*
114862 GTTCGTTTATGTTC
1 GTTCGGTTATGTTC
114876 GTTCGGTTATGTTC
1 GTTCGGTTATGTTC
114890 GTT
1 GTT
114893 TATGTTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.13, G:0.26, T:0.55
Consensus pattern (14 bp):
GTTCGGTTATGTTC
Found at i:114909 original size:24 final size:24
Alignment explanation
Indices: 114857--114912 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
114847 TGAACGATCG
* *
114857 GTTATGTTCGTTTATGTTCGTTCG
1 GTTATGTTCGTTTATGTTCATTCA
114881 GTTATGTTCGTTTATGTTCATTCA
1 GTTATGTTCGTTTATGTTCATTCA
*
114905 TTTATGTT
1 GTTATGTT
114913 TAACCCAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.11, G:0.20, T:0.57
Consensus pattern (24 bp):
GTTATGTTCGTTTATGTTCATTCA
Found at i:115963 original size:16 final size:16
Alignment explanation
Indices: 115942--116008 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
115932 TTATGTTCGT
115942 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
115958 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
115974 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
115990 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
116004 TTTAT
1 TTTAT
116009 TAAATGAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 42 0.86
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:115982 original size:32 final size:33
Alignment explanation
Indices: 115935--116000 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
115925 CCAGCGTTTA
115935 TGTTCGTTTTATGTTCGTGTTCATTTATGTTCG
1 TGTTCGTTTTATGTTCGTGTTCATTTATGTTCG
*
115968 TGTTCG-TTTATGTTCGTGTTCGTTTATGTTCG
1 TGTTCGTTTTATGTTCGTGTTCATTTATGTTCG
116000 T
1 T
116001 TTATTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 26 0.81
33 6 0.19
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.58
Consensus pattern (33 bp):
TGTTCGTTTTATGTTCGTGTTCATTTATGTTCG
Found at i:116091 original size:16 final size:16
Alignment explanation
Indices: 116070--116100 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
116060 AAAAAAATTT
116070 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
116086 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
116101 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:119256 original size:16 final size:16
Alignment explanation
Indices: 119237--119274 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
119227 GATATTTTCG
119237 GTTCAAATTACTTTTA
1 GTTCAAATTACTTTTA
*
119253 GTTCAAATTATTTTTA
1 GTTCAAATTACTTTTA
*
119269 ATTCAA
1 GTTCAA
119275 GTTAATATCA
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:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (16 bp):
GTTCAAATTACTTTTA
Found at i:126608 original size:4 final size:4
Alignment explanation
Indices: 126599--126645 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
126589 ATGTCTATTC
*
126599 ATCT ATCT ATCT AT-T CATCT ATCT ATCT GAT-T ATCT ATCT ATTT ATC
1 ATCT ATCT ATCT ATCT -ATCT ATCT ATCT -ATCT ATCT ATCT ATCT ATC
126646 ATATAAGGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 3 0.08
4 31 0.84
5 3 0.08
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.51
Consensus pattern (4 bp):
ATCT
Found at i:126613 original size:16 final size:16
Alignment explanation
Indices: 126592--126640 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
126582 ATATTATATG
126592 TCTATTCATCTATCTA
1 TCTATTCATCTATCTA
126608 TCTATTCATCTATCTA
1 TCTATTCATCTATCTA
126624 TCTGATT-ATCTATCTA
1 TCT-ATTCATCTATCTA
126640 T
1 T
126641 TTATCATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 29 0.91
17 3 0.09
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.51
Consensus pattern (16 bp):
TCTATTCATCTATCTA
Found at i:128753 original size:39 final size:39
Alignment explanation
Indices: 128653--128763 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 39
128643 GTATTTATAA
* ** * *
128653 TTCTCAAATTATTTCACTCTAACATTTTTAATTCCTAAT
1 TTCTTAAATTATTTCACAATAACATTATAAATTCCTAAT
* * * *
128692 TTCTTAAATT-TTGCCACCATAACATTCTAAATTCTTAAT
1 TTCTTAAATTATT-TCACAATAACATTATAAATTCCTAAT
128731 TTCTTAAATTATTTCACAATAACATTATAAATT
1 TTCTTAAATTATTTCACAATAACATTATAAATT
128764 ATTTTTAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.03
39 56 0.93
40 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.01, T:0.46
Consensus pattern (39 bp):
TTCTTAAATTATTTCACAATAACATTATAAATTCCTAAT
Found at i:128860 original size:19 final size:17
Alignment explanation
Indices: 128803--128860 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
128793 ACATTTGAAA
128803 TTTAATTA-TAATTTTTGT
1 TTTAATTATTAA-TTTT-T
*
128821 TTTAATTTTTAATATTTT
1 TTTAATTATTAAT-TTTT
128839 TTTAATTATGTAATTTTAT
1 TTTAATTAT-TAATTTT-T
128858 TTT
1 TTT
128861 TTAAACTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 20 0.59
19 14 0.41
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTAATTATTAATTTTT
Found at i:128964 original size:16 final size:17
Alignment explanation
Indices: 128930--128969 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
128920 ATATATTATT
*
128930 TTTTAAAAATAATATAA
1 TTTTAAAAATAATAAAA
128947 TTTTAAAAATAA-AAAA
1 TTTTAAAAATAATAAAA
*
128963 TTATAAA
1 TTTTAAA
128970 TCAGGTACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTTAAAAATAATAAAA
Found at i:130430 original size:29 final size:29
Alignment explanation
Indices: 130392--130448 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
130382 GGGTTAAAAG
* *
130392 CTTGGCCGCCGGGCGTGCATGGCGACCTC
1 CTTGGCCGCCCGGAGTGCATGGCGACCTC
*
130421 CTTGGTCGCCCGGAGTGCATGGCGACCT
1 CTTGGCCGCCCGGAGTGCATGGCGACCT
130449 ATGGGTTGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.09, C:0.35, G:0.37, T:0.19
Consensus pattern (29 bp):
CTTGGCCGCCCGGAGTGCATGGCGACCTC
Found at i:133689 original size:60 final size:61
Alignment explanation
Indices: 133564--133711 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 61
133554 ATATGGTTTG
* * * * **
133564 GGATAAAAGTGAAATATTCAAAAAGTTTGAGGATCAATTTAGAATGAAAGTCATAGTTTTG
1 GGATGAAATTGAAATGTTCAAAAAGTTTGAGGATCAATTTAGAATGAAAGCCATAGTTTAA
* * *
133625 GGATGAAATTGAAATGTTCAAAAA-TTTGGGGA-CTGATTTAGAATGAAAGCCATTGTTTAA
1 GGATGAAATTGAAATGTTCAAAAAGTTTGAGGATC-AATTTAGAATGAAAGCCATAGTTTAA
*
133685 GGATGAAATT-AGAATGTT-TAAAAGTTT
1 GGATGAAATTGA-AATGTTCAAAAAGTTT
133712 AAAAACAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
59 6 0.08
60 47 0.64
61 21 0.28
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (61 bp):
GGATGAAATTGAAATGTTCAAAAAGTTTGAGGATCAATTTAGAATGAAAGCCATAGTTTAA
Done.