Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2535
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: 111972
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:9101 original size:29 final size:30
Alignment explanation
Indices: 9042--9099 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9032 TCCGAGCCTT
*
9042 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
9072 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
9100 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:9329 original size:13 final size:13
Alignment explanation
Indices: 9311--9342 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9301 TTTCCAGCAA
9311 TTATGAATTTATT
1 TTATGAATTTATT
9324 TTATGAATTTATT
1 TTATGAATTTATT
*
9337 TGATGA
1 TTATGA
9343 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:9550 original size:50 final size:50
Alignment explanation
Indices: 9437--9678 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
9427 ATTTGGGTAA
* * *
9437 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
9493 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
9543 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
9593 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
9643 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
9679 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:9626 original size:100 final size:103
Alignment explanation
Indices: 9437--9686 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
9427 ATTTGGGTAA
9437 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
9502 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
9543 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
9605 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
9643 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
9687 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:13079 original size:108 final size:108
Alignment explanation
Indices: 12886--13102 Score: 398
Period size: 108 Copynumber: 2.0 Consensus size: 108
12876 ATATTGATTC
12886 ACCTATTATCTAACATTTAACTAATATTAAGTTGCATAAAATGGACGAATTAAGCAAAATAAGCA
1 ACCTATTATCTAACATTTAACTAATATTAAGTTGCATAAAATGGACGAATTAAGCAAAATAAGCA
* *
12951 AATTGATTCAAGGGACTATTATGTCGTCTATCAAGTCTAATTA
66 AATCGATTCAAGGGAATATTATGTCGTCTATCAAGTCTAATTA
*
12994 ACCTATTATCTAACATTTAACTAATATTAAGTTGCATAAAGTGGACGAATTAAGCAAAATAAGCA
1 ACCTATTATCTAACATTTAACTAATATTAAGTTGCATAAAATGGACGAATTAAGCAAAATAAGCA
*
13059 AATCGATTCAAGGGAATATTATGTTGTCTATCAAGTCTAATTA
66 AATCGATTCAAGGGAATATTATGTCGTCTATCAAGTCTAATTA
13102 A
1 A
13103 AGAGATACCT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (108 bp):
ACCTATTATCTAACATTTAACTAATATTAAGTTGCATAAAATGGACGAATTAAGCAAAATAAGCA
AATCGATTCAAGGGAATATTATGTCGTCTATCAAGTCTAATTA
Found at i:17777 original size:2 final size:2
Alignment explanation
Indices: 17770--17795 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17760 CCAAAGAAAA
17770 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
17796 TAGCTTTCAT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22481 original size:21 final size:22
Alignment explanation
Indices: 22452--22498 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
22442 CAGAAGGAGT
*
22452 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
22474 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
22495 GAGT
1 GAGT
22499 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:25342 original size:130 final size:130
Alignment explanation
Indices: 25148--25476 Score: 444
Period size: 130 Copynumber: 2.5 Consensus size: 130
25138 AAACAATCGA
* * * * * * * *
25148 GAAATTGCTACCCAACACGTTAGGGCACGATCCCACGAATTGCCAAATACCAGATATCGCCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATCTCGTCTTCG
* * * * *
25213 TTTTAGGGACTTTAAAAGACACGAGCGAAATTTTAAAGTGATATTCGATTATTTTGAGCAAATGC
66 TTTTAGGGACTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCAATTATTTTGAGCAAATGC
* *
25278 GAAATCGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATCTCATCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATCTCGTCTTCG
* * * * * * *
25343 TTTAAGGGATTTTAAAAGATATGAATGGAATTTCGAAGGGAAATTCAATTATTTTGAGCAAATGC
66 TTTTAGGGACTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCAATTATTTTGAGCAAATGC
25408 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAA-CTTCGTCTTC
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATC-TCGTCTTC
25472 GTTTT
65 GTTTT
25477 GAAGAATTTT
Statistics
Matches: 173, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
129 1 0.01
130 172 0.99
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (130 bp):
GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATCTCGTCTTCG
TTTTAGGGACTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCAATTATTTTGAGCAAATGC
Found at i:25855 original size:17 final size:17
Alignment explanation
Indices: 25833--25870 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
25823 GAAAAGTATT
* *
25833 TTAAGATAAGAAATCTA
1 TTAAGATAAAAAATATA
25850 TTAAGATAAAAAATATA
1 TTAAGATAAAAAATATA
25867 TTAA
1 TTAA
25871 TATATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (17 bp):
TTAAGATAAAAAATATA
Found at i:33395 original size:47 final size:47
Alignment explanation
Indices: 33286--33396 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
33276 CCGGGATAAG
* * * *
33286 CACATAGTGCTTCATCAGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
33333 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
33380 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
33397 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:36571 original size:9 final size:9
Alignment explanation
Indices: 36514--36571 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
36504 AATGAAAATG
36514 ATAATGATA
1 ATAATGATA
*
36523 ATAATAATA
1 ATAATGATA
*
36532 ATAATAATA
1 ATAATGATA
36541 ATAAT-ATA
1 ATAATGATA
*
36549 ACGT-A-GAAA
1 A--TAATGATA
36558 ATAATGATA
1 ATAATGATA
36567 ATAAT
1 ATAAT
36572 ATATGAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
7 1 0.02
8 5 0.12
9 34 0.83
10 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (9 bp):
ATAATGATA
Found at i:36572 original size:3 final size:3
Alignment explanation
Indices: 36514--36546 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
36504 AATGAAAATG
*
36514 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36547 TAACGTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:36572 original size:12 final size:12
Alignment explanation
Indices: 36504--36542 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
36494 TGGCAATGAC
* *
36504 AATGAAAATGAT
1 AATGATAATAAT
36516 AATGATAATAAT
1 AATGATAATAAT
*
36528 AATAATAATAAT
1 AATGATAATAAT
36540 AAT
1 AAT
36543 AATATAACGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATGATAATAAT
Found at i:36785 original size:18 final size:18
Alignment explanation
Indices: 36762--36822 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
36752 TATACATAAA
36762 AATATAATAAATATATAT
1 AATATAATAAATATATAT
*
36780 AATATAATATATACATAATAT
1 AATATAATA-A-ATAT-ATAT
*
36801 AGTATTAA-AAATATATAT
1 AATA-TAATAAATATATAT
36819 AATA
1 AATA
36823 CATACACATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 16 0.46
19 4 0.11
20 4 0.11
21 8 0.23
22 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATAATAAATATATAT
Found at i:36791 original size:37 final size:39
Alignment explanation
Indices: 36748--36822 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
36738 TGATATTAAA
36748 AATATATACATAA-A-AATA-TAATAAATATATATAATAT
1 AATATATACATAATATAATATTAA-AAATATATATAATAT
*
36785 AATATATACATAATATAGTATTAAAAATATATATAATA
1 AATATATACATAATATAATATTAAAAATATATATAATA
36823 CATACACATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 13 0.38
38 1 0.03
39 17 0.50
40 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (39 bp):
AATATATACATAATATAATATTAAAAATATATATAATAT
Found at i:36799 original size:25 final size:24
Alignment explanation
Indices: 36744--36817 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
36734 AGTGTGATAT
* *
36744 TAAAAATATATACATAAAAATATAA
1 TAAATATATATA-ATAAATATATAA
36769 TAAATATATATAATATAATATATACA
1 TAAATATATATAATA-AATATATA-A
36795 T-AATATAGTATTAA-AAATATATA
1 TAAATATA-TA-TAATAAATATATA
36818 TAATACATAC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 3 0.07
25 32 0.74
26 5 0.12
27 3 0.07
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (24 bp):
TAAATATATATAATAAATATATAA
Found at i:36821 original size:23 final size:23
Alignment explanation
Indices: 36748--36822 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 23
36738 TGATATTAAA
*
36748 AATATATACATAAAAATATA-AT
1 AATATATATATAAAAATATATAT
36770 AA-ATATATATAATATAATATATACAT
1 AATATATATATAA-A-AATATAT--AT
36796 AATATAGTAT-TAAAAATATATAT
1 AATATA-TATATAAAAATATATAT
36819 AATA
1 AATA
36823 CATACACATT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
21 9 0.20
22 3 0.07
23 12 0.27
25 7 0.16
26 5 0.11
27 6 0.13
28 3 0.07
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (23 bp):
AATATATATATAAAAATATATAT
Found at i:37076 original size:24 final size:24
Alignment explanation
Indices: 37009--37065 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
36999 TAGTAATTAT
* * * *
37009 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
37033 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
37057 AATAATAAT
1 AATAATAAT
37066 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:42448 original size:29 final size:30
Alignment explanation
Indices: 42389--42446 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
42379 TCCGAGCCTT
*
42389 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
42419 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
42447 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:42676 original size:13 final size:13
Alignment explanation
Indices: 42658--42689 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
42648 TTTCCAGCAA
42658 TTATGAATTTATT
1 TTATGAATTTATT
42671 TTATGAATTTATT
1 TTATGAATTTATT
*
42684 TGATGA
1 TTATGA
42690 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:42897 original size:50 final size:50
Alignment explanation
Indices: 42784--43025 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
42774 ATTTGGGTAA
* * *
42784 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
42840 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
42890 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
42940 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
42990 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
43026 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:42973 original size:100 final size:103
Alignment explanation
Indices: 42784--43033 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
42774 ATTTGGGTAA
42784 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
42849 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
42890 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
42952 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
42990 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
43034 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:50657 original size:16 final size:16
Alignment explanation
Indices: 50638--50668 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50628 CAAAGAGTAC
*
50638 AACAGAAGAAGAATAT
1 AACAGAAGAAAAATAT
50654 AACAGAAGAAAAATA
1 AACAGAAGAAAAATA
50669 ATAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.16, T:0.10
Consensus pattern (16 bp):
AACAGAAGAAAAATAT
Found at i:52915 original size:31 final size:30
Alignment explanation
Indices: 52835--52917 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 30
52825 CCAAAAAATT
*
52835 GAGTACTAAATTAGACCAAAAAGTCAAGTTC
1 GAGTACT-AATTAGACCAAAAAGTCAAGCTC
* * * *
52866 AAGTATCGAGTT-GAACCAAGAAGTCAAGCTC
1 GAGTA-CTAATTAG-ACCAAAAAGTCAAGCTC
52897 GAGTACCTAATTAGACCAAAA
1 GAGTA-CTAATTAGACCAAAA
52918 TAAACTTTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
30 1 0.03
31 36 0.92
32 2 0.05
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (30 bp):
GAGTACTAATTAGACCAAAAAGTCAAGCTC
Found at i:61041 original size:45 final size:44
Alignment explanation
Indices: 60967--61056 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 44
60957 CTGTTAATTC
* * *
60967 AAAATAATGCTCCTAAGTATGAACCTAAACTGTTCATCCGAAAAA
1 AAAATAATACTCCTAAGCATGAACCTAAACTATTCATCC-AAAAA
* * *
61012 AAAATTATACTCCTAAGCATGAGCTTAAACTATTCATCCAAAAA
1 AAAATAATACTCCTAAGCATGAACCTAAACTATTCATCCAAAAA
61056 A
1 A
61057 TGAAGCTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 6 0.15
45 33 0.85
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.26
Consensus pattern (44 bp):
AAAATAATACTCCTAAGCATGAACCTAAACTATTCATCCAAAAA
Found at i:62364 original size:19 final size:19
Alignment explanation
Indices: 62314--62369 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
62304 TTTTTTAAAA
*
62314 TTTAT-ATATATTTTTAGTT
1 TTTATAATATATATTTA-TT
*
62333 TTTTTAA-A-A-ATTTATT
1 TTTATAATATATATTTATT
62349 TTTATAATATATATTTATT
1 TTTATAATATATATTTATT
62368 TT
1 TT
62370 ATTTTCTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
16 8 0.27
17 5 0.17
18 2 0.07
19 14 0.47
20 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATAATATATATTTATT
Found at i:62458 original size:20 final size:20
Alignment explanation
Indices: 62415--62459 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
62405 ATTTTAAATT
* * * *
62415 TTTTATTTTTCAATATATAT
1 TTTTATTTTTAAAAAAATAA
62435 TTTTATTTTTAAAAAAATAA
1 TTTTATTTTTAAAAAAATAA
62455 TTTTA
1 TTTTA
62460 AAATAATTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTATTTTTAAAAAAATAA
Found at i:69108 original size:59 final size:59
Alignment explanation
Indices: 69043--69230 Score: 150
Period size: 59 Copynumber: 3.2 Consensus size: 59
69033 ATTTTATTAA
69043 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
* * ** * * * ** * * * *
69102 ATCATATATTATGATTTTAGTA-AATTCATA-TAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCA-AATTA-TATTTTA-TAGT
* * * *
69162 ATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTTTATAGT
69221 ATCATATATT
1 ATCATATATT
69231 ATGATTTGAG
Statistics
Matches: 91, Mismatches: 30, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
57 5 0.05
58 10 0.11
59 36 0.40
60 25 0.27
61 10 0.11
62 4 0.04
63 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
Found at i:69157 original size:119 final size:120
Alignment explanation
Indices: 69032--69320 Score: 492
Period size: 119 Copynumber: 2.4 Consensus size: 120
69022 AATTATTTTA
*
69032 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
* * *
69097 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
69151 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTT
69215 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
69271 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
69321 GTTTAAATAT
Statistics
Matches: 160, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
119 109 0.68
120 51 0.32
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:69178 original size:18 final size:18
Alignment explanation
Indices: 69152--69207 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
69142 GATTATTAGA
69152 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
69169 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
69185 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
69199 ATTTTAATT
1 ATTTTAATT
69208 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:69288 original size:59 final size:58
Alignment explanation
Indices: 69106--69288 Score: 146
Period size: 56 Copynumber: 3.1 Consensus size: 58
69096 TATAGTATCA
*
69106 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
69164 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAA-TATTATTATTAA--GA-ATTTTATTA-AAT
*
69223 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
69284 TATAT
1 TATAT
69289 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
55 7 0.07
56 15 0.16
57 8 0.09
58 6 0.06
59 13 0.14
61 12 0.13
62 10 0.11
63 14 0.15
64 9 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:69300 original size:18 final size:17
Alignment explanation
Indices: 69272--69306 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
69262 ATTATTAAGA
*
69272 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
69289 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
69307 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:69414 original size:147 final size:149
Alignment explanation
Indices: 69260--69534 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
69250 ATAAGAATAT
*
69260 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
69325 AAATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
69388 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
69407 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
69472 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
69535 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:69447 original size:18 final size:17
Alignment explanation
Indices: 69419--69453 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
69409 ATTATTAAGA
*
69419 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
69436 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
69454 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:69664 original size:44 final size:45
Alignment explanation
Indices: 69615--69709 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
69605 TTACACCTCT
* * *
69615 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
69659 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
69704 ATTACA
1 ATTACA
69710 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:69709 original size:16 final size:16
Alignment explanation
Indices: 69690--69741 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
69680 GATTTGCTAT
* * *
69690 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
69706 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
69722 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
69738 TACA
1 TACA
69742 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:71033 original size:3 final size:3
Alignment explanation
Indices: 71025--71055 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
71015 TGTATTTCAA
*
71025 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
71056 GTACATTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:71541 original size:11 final size:11
Alignment explanation
Indices: 71525--71551 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
71515 CTAAGGTATG
71525 TATGTATTGTA
1 TATGTATTGTA
71536 TATGTATTGTA
1 TATGTATTGTA
71547 TATGT
1 TATGT
71552 TCTATATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (11 bp):
TATGTATTGTA
Found at i:72618 original size:16 final size:15
Alignment explanation
Indices: 72597--72644 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
72587 GATGTGAATA
72597 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
72613 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
72628 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
72644 A
1 A
72645 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:72620 original size:24 final size:24
Alignment explanation
Indices: 72593--72648 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
72583 TAATGATGTG
*
72593 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
72617 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
72641 AATAATAA
1 AATAATAA
72649 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:72627 original size:8 final size:8
Alignment explanation
Indices: 72593--72644 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
72583 TAATGATGTG
*
72593 AATAATAA
1 AATATTAA
72601 AATATATAA
1 AATAT-TAA
72610 AATA-TAA
1 AATATTAA
72617 AATATTAA
1 AATATTAA
*
72625 AATATCAA
1 AATATTAA
*
72633 AATATTAG
1 AATATTAA
72641 AATA
1 AATA
72645 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:72903 original size:25 final size:25
Alignment explanation
Indices: 72791--73007 Score: 125
Period size: 25 Copynumber: 9.0 Consensus size: 25
72781 TAAATACGTG
* *
72791 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
72816 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* * *
72841 AT-A-GTT-AAGATATATACATGAG
1 ATAATATTAAAGATATATACATAAT
* * *
72863 ATAACATGT-AATATATATATATAAT
1 ATAATAT-TAAAGATATATACATAAT
*
72888 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * * *
72913 ATAGTATAAATATATATATACGTAAT
1 ATAATATTAA-AGATATATACATAAT
* *
72939 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
72962 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
72984 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
73007 A
1 A
73008 ACAAAAAAGG
Statistics
Matches: 149, Mismatches: 32, Indels: 24
0.73 0.16 0.12
Matches are distributed among these distances:
21 4 0.03
22 26 0.17
23 28 0.19
24 9 0.06
25 64 0.43
26 18 0.12
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:73589 original size:60 final size:58
Alignment explanation
Indices: 73499--73638 Score: 228
Period size: 60 Copynumber: 2.4 Consensus size: 58
73489 GTACAAGTGA
*
73499 TGGTGGAGAAA-GTGTGGCTATTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTAGAGTTGG
1 TGGTGGA-AAAGGTGTGGCTAGTGGAGTTGGTGGTGG-AAAAGAGTGGCTAGTAGAGTT-G
*
73559 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGTTG
1 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTAGAGTTG
73617 TGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGAAAAGGTGTGGCTAGT
73639 TGAGAAAAGT
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
58 23 0.30
59 23 0.30
60 31 0.40
ACGTcount: A:0.24, C:0.04, G:0.46, T:0.26
Consensus pattern (58 bp):
TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTAGAGTTG
Found at i:73614 original size:29 final size:29
Alignment explanation
Indices: 73499--73638 Score: 201
Period size: 30 Copynumber: 4.7 Consensus size: 29
73489 GTACAAGTGA
*
73499 TGGTGGAGAAAGTGTGGCTATTGGAGTTGG
1 TGGTGGA-AAAGTGTGGCTAGTGGAGTTGG
* *
73529 TGGTGGAAAAAGAGTGGCTAGTAGAGTTGG
1 TGGTGG-AAAAGTGTGGCTAGTGGAGTTGG
73559 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGG
1 TGGTGGAAAA-GTGTGGCTAGTGGAGTTGG
*
73589 TGGTGGAAAAGAGTGGCTAGTGGAGTT-G
1 TGGTGGAAAAGTGTGGCTAGTGGAGTTGG
73617 TGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGAAAA-GTGTGGCTAGT
73639 TGAGAAAAGT
Statistics
Matches: 100, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
28 11 0.11
29 30 0.30
30 58 0.58
31 1 0.01
ACGTcount: A:0.24, C:0.04, G:0.46, T:0.26
Consensus pattern (29 bp):
TGGTGGAAAAGTGTGGCTAGTGGAGTTGG
Found at i:74582 original size:14 final size:14
Alignment explanation
Indices: 74559--74593 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
74549 GTTGATTTTT
74559 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
74573 TTGAAGAACAGAAA
1 TTGAAAAACAGAAA
74587 TTGAAAA
1 TTGAAAA
74594 GACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:74659 original size:89 final size:89
Alignment explanation
Indices: 74493--74666 Score: 253
Period size: 89 Copynumber: 2.0 Consensus size: 89
74483 TTTTGACAAA
** * * *
74493 AGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
74558 TTTGAAAAACAGAAATTGAAGAAC
66 TTTGAAAAACAGAAATTGAAGAAC
*
74582 AGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-A
1 AGAAATTGAAAAGACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATA
*
74645 TTTTTGACAAACAGAAATTGAA
64 TTTTTGAAAAACAGAAATTGAA
74667 ATTACCTCAG
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
89 40 0.53
90 1 0.01
91 35 0.46
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (89 bp):
AGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
TTTGAAAAACAGAAATTGAAGAAC
Found at i:74956 original size:217 final size:218
Alignment explanation
Indices: 74580--75407 Score: 1228
Period size: 217 Copynumber: 3.7 Consensus size: 218
74570 AAATTGAAGA
74580 ACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
1 ACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
74645 TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATAT
66 -TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATAT
*
74710 GAGTTGATTTTTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
130 GAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
74775 TCGCAATATGAGTTGATTTTTT-G
195 TCGCAATATGAGTTGATTTTTTAG
74798 ACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
1 ACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
74863 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATG
66 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATG
74928 AGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
131 AGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
74993 CGCAATATGAGTTGATTTTTTTTACG
196 CGCAATATGAGTTGA--TTTTTTA-G
75019 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 -ACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-
* * *
75084 ATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
64 AATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC-CGAGGCTCAACTCACCTCTCGCAAT
* * * * *
75149 ATTAGTTGATTTTTGACAAACAGAAA-TTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACC
128 ATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
*
75213 TCTCGCAATATGAGTTGATTTTAAAAACAGAAATTAAAA
193 TCTCGCAATATGAGTTGATTTT-----------TT--AG
* ** * * *
75252 ACAGAAATTGAAAATACCTCAGTGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAA
1 ACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
** * * ** *
75317 TTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATG
66 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATG
*
75382 AGTTGATTTTTTTGAAAATCAGAAAT
131 AGTTGA--TTTTTGAAAAACAGAAAT
75408 AAAAACATCA
Statistics
Matches: 561, Mismatches: 26, Indels: 31
0.91 0.04 0.05
Matches are distributed among these distances:
217 144 0.26
218 65 0.12
219 6 0.01
221 5 0.01
222 63 0.11
223 90 0.16
224 48 0.09
230 33 0.06
231 32 0.06
232 74 0.13
234 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (218 bp):
ACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTAG
Found at i:75163 original size:73 final size:72
Alignment explanation
Indices: 74579--75252 Score: 912
Period size: 73 Copynumber: 9.2 Consensus size: 72
74569 GAAATTGAAG
* * *
74579 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAATACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
74644 ATTTTTGACA
63 ATTTTTGACA
*
74654 AACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
74719 TTTGAAA
66 TTTGACA
* *
74726 AATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAA-TTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA
74791 TTTTTTG---
64 -TTTTTGACA
* *
74798 -ACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-
1 AACAGAAATTGAAAATACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
74861 AATTTTGACA
63 ATTTTTGACA
*
74871 AACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
74936 TTTGAAA
66 TTTGACA
*
74943 AACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAA-TTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
75008 TTTTTTTTACG
64 --TTTTTGACA
* *
75019 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAATACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
75084 ATTTTTGACA
63 ATTTTTGACA
* * * *
75094 AACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATTAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
75159 TTTTGACA
65 TTTTGACA
* *
75167 AACAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
75231 TTTT-AAA
65 TTTTGACA
*
75238 AACAGAAATTAAAAA
1 AACAGAAATTGAAAA
75253 CAGAAATTGA
Statistics
Matches: 540, Mismatches: 39, Indels: 44
0.87 0.06 0.07
Matches are distributed among these distances:
70 19 0.04
71 55 0.10
72 107 0.20
73 148 0.27
74 89 0.16
75 70 0.13
76 14 0.03
77 36 0.07
78 2 0.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (72 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTGACA
Found at i:75251 original size:13 final size:13
Alignment explanation
Indices: 75233--75265 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
75223 TGAGTTGATT
75233 TTAAAAACAGAAA
1 TTAAAAACAGAAA
75246 TTAAAAACAGAAA
1 TTAAAAACAGAAA
*
75259 TTGAAAA
1 TTAAAAA
75266 TACCTCAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.67, C:0.06, G:0.09, T:0.18
Consensus pattern (13 bp):
TTAAAAACAGAAA
Found at i:75320 original size:86 final size:85
Alignment explanation
Indices: 75166--75338 Score: 222
Period size: 86 Copynumber: 2.0 Consensus size: 85
75156 GATTTTTGAC
* * ** * *
75166 AAACAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAA
75231 TTTT-AAAAACAGAAATTAA
66 TTTTGAAAAACAGAAATTAA
* *
75250 AAACAGAAATTGAAAATACCTCAGTGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCT
1 AAACAGAAATTGAAAATACCTCAGCGTGT--GCCAAGGCTCAACTCACCTCTCGCAATATGAGCT
** *
75315 AATTTTGATGAACATAAATTAA
64 AATTTTGAAAAACAGAAATTAA
75337 AA
1 AA
75339 CCACCTCAGC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
84 27 0.36
86 34 0.45
87 14 0.19
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (85 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAA
TTTTGAAAAACAGAAATTAA
Found at i:75364 original size:454 final size:443
Alignment explanation
Indices: 74411--75407 Score: 1342
Period size: 454 Copynumber: 2.2 Consensus size: 443
74401 AAAACAGAAA
* ** * *
74411 TTGA-AAAGAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATAT
1 TTGACAAACAGAAATTAAAACCACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATAT
* * * * *
74475 GAGTTAATTTTTGACAAA-AGAAA-TTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTT
63 GAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTC
74538 TCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGC
128 TCGCAATATGAGTTGATTTTTTT-----------ATTGAAGAACAGAAATTGAAAAGACCTCAGC
*
74603 ATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAA
182 ATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAAAAATTGAAA
*
74668 TTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAA
247 TTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAA
*
74733 ATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
312 ATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTA
* *
74798 ACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
377 ACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAA
74863 TT
442 TT
* **
74865 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
74930 TTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
66 TTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCG
*
74995 CAATATGAGTTGA-TTTTTT-TT-ACGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGC
131 CAATATGAGTTGATTTTTTTATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGC
*
75057 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGT
196 TCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGT
* * * * *
75122 CTTGAGGCTCAACTCACCTCTCGCAATATTAGTTGATTTTTGACAAACAGAAA-TTGAAATTACC
261 C-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACC
*
75186 TCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAACAGAAATTAAA
325 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-----------TT---
* ** *
75251 AACAGAAATTGAAAATACCTCAGTGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTA
376 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTA
75316 ATT
441 ATT
** * *
75319 TTGATGAACATAAATTAAAACCACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
75384 TTGATTTTTTTGAAAATCAGAAAT
66 TTGA--TTTTTGAAAAACAGAAAT
75408 AAAAACATCA
Statistics
Matches: 486, Mismatches: 37, Indels: 38
0.87 0.07 0.07
Matches are distributed among these distances:
440 161 0.33
441 49 0.10
451 2 0.00
452 43 0.09
453 14 0.03
454 179 0.37
455 21 0.04
456 17 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (443 bp):
TTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTTATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGC
TCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGT
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCT
CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAACAGAAATTGAAAA
GACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAATT
Found at i:85319 original size:16 final size:15
Alignment explanation
Indices: 85298--85345 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
85288 GATGTGAATA
85298 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
85314 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
85329 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
85345 A
1 A
85346 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:85321 original size:24 final size:24
Alignment explanation
Indices: 85294--85349 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
85284 TAATGATGTG
*
85294 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
85318 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
85342 AATAATAA
1 AATAATAA
85350 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:85328 original size:8 final size:8
Alignment explanation
Indices: 85294--85345 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
85284 TAATGATGTG
*
85294 AATAATAA
1 AATATTAA
85302 AATATATAA
1 AATAT-TAA
85311 AATA-TAA
1 AATATTAA
85318 AATATTAA
1 AATATTAA
*
85326 AATATCAA
1 AATATTAA
*
85334 AATATTAG
1 AATATTAA
85342 AATA
1 AATA
85346 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:85563 original size:22 final size:24
Alignment explanation
Indices: 85500--85564 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
85490 CGTGATAATA
*
85500 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
85525 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
85548 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
85565 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:85625 original size:25 final size:25
Alignment explanation
Indices: 85589--85724 Score: 72
Period size: 25 Copynumber: 5.6 Consensus size: 25
85579 AAATATATAT
*
85589 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAATATTAAAG
* * * *
85614 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAATAT-TAA-AG
*
85641 ATATATACACGTAATATAGA-ATTTAA-
1 ATATATACA--TAATATA-ATATTAAAG
* * *
85667 A-ATGTACCTAATAT-AT-TAAAAG
1 ATATATACATAATATAATATTAAAG
*
85689 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAATATTAAAG
*
85712 AAATATA-ATAATA
1 ATATATACATAATA
85725 ACAAAAAAGG
Statistics
Matches: 84, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
21 4 0.05
22 11 0.13
23 18 0.21
24 6 0.07
25 22 0.26
26 3 0.04
27 11 0.13
28 1 0.01
29 8 0.10
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATATACATAATATAATATTAAAG
Found at i:85644 original size:27 final size:27
Alignment explanation
Indices: 85576--85649 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 27
85566 ATAACATGTA
* *
85576 AAAAAATATATATATATATAAATAATAT
1 AAAAAATATATATACATA-AAATAGTAT
*
85604 AATATTAAAGATATATACATAAAATAGTAT
1 AA-A--AAATATATATACATAAAATAGTAT
*
85634 AAAATATATATATACA
1 AAAAAATATATATACA
85650 CGTAATATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 11 0.29
28 2 0.05
29 2 0.05
30 10 0.26
31 13 0.34
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAAAATATATATACATAAAATAGTAT
Found at i:86251 original size:30 final size:30
Alignment explanation
Indices: 86216--86387 Score: 272
Period size: 30 Copynumber: 5.7 Consensus size: 30
86206 GTACAAGTGA
* *
86216 TGGTGGAGAAGGTGTGGCTAGTGGAGTTGG
1 TGGTGGAAAAGGAGTGGCTAGTGGAGTTGG
*
86246 TGGTGGAAAAAGAGTGGCTAGTGGAGTTGG
1 TGGTGGAAAAGGAGTGGCTAGTGGAGTTGG
*
86276 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGG
1 TGGTGGAAAAGGAGTGGCTAGTGGAGTTGG
* * *
86306 TGGTGAAAAAAGAGTGGCTAGTGGAGTTAG
1 TGGTGGAAAAGGAGTGGCTAGTGGAGTTGG
*
86336 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGG
1 TGGTGGAAAAGGAGTGGCTAGTGGAGTTGG
86366 TGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGAAAAGGAGTGGCTAGT
86388 TGAGAAAAGT
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 128 1.00
ACGTcount: A:0.24, C:0.03, G:0.48, T:0.25
Consensus pattern (30 bp):
TGGTGGAAAAGGAGTGGCTAGTGGAGTTGG
Found at i:86306 original size:60 final size:60
Alignment explanation
Indices: 86216--86387 Score: 308
Period size: 60 Copynumber: 2.9 Consensus size: 60
86206 GTACAAGTGA
* *
86216 TGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGG
1 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTAG
*
86276 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGAAAAAAGAGTGGCTAGTGGAGTTAG
1 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTAG
*
86336 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
86388 TGAGAAAAGT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 107 1.00
ACGTcount: A:0.24, C:0.03, G:0.48, T:0.25
Consensus pattern (60 bp):
TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTAG
Found at i:87774 original size:5 final size:5
Alignment explanation
Indices: 87748--87805 Score: 71
Period size: 5 Copynumber: 10.8 Consensus size: 5
87738 ATGTGTTAAA
*
87748 ATATAT ATATT AAATT ATTATT ATATT ATATT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
87797 ATATT ATAT
1 ATATT ATAT
87806 AAATAAGTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
5 33 0.70
6 10 0.21
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:87796 original size:12 final size:12
Alignment explanation
Indices: 87751--87806 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
87741 TGTTAAAATA
*
87751 TATATATTAAAT
1 TATATATTATAT
87763 TAT-TATTATATT
1 TATATATTATA-T
87775 ATATTATATTATAT
1 -TA-TATATTATAT
87789 TATATATTATAT
1 TATATATTATAT
87801 TATATA
1 TATATA
87807 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATATTATAT
Found at i:89144 original size:18 final size:19
Alignment explanation
Indices: 89121--89159 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
89111 ATATATAGAT
89121 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
89139 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
89158 AT
1 AT
89160 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:89445 original size:41 final size:41
Alignment explanation
Indices: 89397--89497 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 41
89387 TCGACCTCGA
*
89397 GTCGATGAGACACTGGGTGTCACTATA-TTT-CTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCA-ACTTTACTTCGGATAG
* **
89437 ATTCGATGAGGTACT-GG-GT-ACCAACTTTACTTCGGATAG
1 -GTCGATGAGACACTGGGTGTCACCAACTTTACTTCGGATAG
*
89476 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
89498 AATATTGCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
37 1 0.02
38 16 0.34
39 14 0.30
40 4 0.09
41 12 0.26
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
GTCGATGAGACACTGGGTGTCACCAACTTTACTTCGGATAG
Found at i:89509 original size:39 final size:39
Alignment explanation
Indices: 89399--89533 Score: 121
Period size: 39 Copynumber: 3.4 Consensus size: 39
89389 GACCTCGAGT
* * *
89399 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGATAG-TC
** ** * *
89440 CGATGAGGTACTGGGTACCAACT-TTACTTCGGATAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGTC
* *
89478 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGA-TAGTC
*
89517 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
89534 CCATATTGGT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
38 18 0.24
39 37 0.50
40 3 0.04
41 16 0.22
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGTC
Found at i:89677 original size:18 final size:19
Alignment explanation
Indices: 89656--89696 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
89646 AATGAAATGA
89656 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
89674 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
89693 GAAA
1 GAAA
89697 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:96642 original size:32 final size:34
Alignment explanation
Indices: 96606--96687 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
96596 ATGATTCTTA
*
96606 AAAATTAATCTATATTT-G-AGTTGTTAAAAGAG
1 AAAATTAAACTATATTTCGTAGTTGTTAAAAGAG
* * *
96638 AAAATAAAAGTATATTTGCGTTGTTGTTAAAAGAG
1 AAAATTAAACTATATTT-CGTAGTTGTTAAAAGAG
96673 AAAATTATAA-TATAT
1 AAAATTA-AACTATAT
96688 ATTATAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 14 0.34
34 1 0.02
35 24 0.59
36 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (34 bp):
AAAATTAAACTATATTTCGTAGTTGTTAAAAGAG
Found at i:97518 original size:14 final size:14
Alignment explanation
Indices: 97484--97533 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
97474 ATATGTCTCG
*
97484 AATTTAAAATTTTG
1 AATTTAAAATTTTA
* *
97498 GACTTAAAATTTTA
1 AATTTAAAATTTTA
97512 AATTTAAAAATTTTA
1 AATTT-AAAATTTTA
97527 ATATTTA
1 A-ATTTA
97534 TTTATAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 14 0.48
15 11 0.38
16 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (14 bp):
AATTTAAAATTTTA
Found at i:97523 original size:15 final size:16
Alignment explanation
Indices: 97503--97533 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
97493 TTTTGGACTT
97503 AAAATTTTAA-ATTTA
1 AAAATTTTAATATTTA
97518 AAAATTTTAATATTTA
1 AAAATTTTAATATTTA
97534 TTTATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAATTTTAATATTTA
Done.