Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009274.1 Hibiscus syriacus cultivar Beakdansim tig00112957_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: 585551
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:2420 original size:63 final size:63
Alignment explanation
Indices: 2265--2421 Score: 167
Period size: 63 Copynumber: 2.5 Consensus size: 63
2255 TAAGAGCTGA
* * * * * * *
2265 TGTTCTAAAATAACAGTCACAACTATGTTCTCCCGTGGGACTATAAGTTGGCATCGGACCTAG
1 TGTTGTAAAAAAACAGTCACCACTTTGTTCTCCCATGGGACTATAACTTGGCATAGGACCTAG
* *
2328 TGTTGTAAAAAAACAGCCATCA-TTGTGTTCTCCCATGGGACTATAACTTGGCATAAGAGA-C-A
1 TGTTGTAAAAAAACAGTCACCACTT-TGTTCTCCCATGGGACTATAACTTGGCAT-AG-GACCTA
*
2390 T
63 G
*
2391 TGTTGTCAAAAAACAGTCACCACTTTGTTCT
1 TGTTGTAAAAAAACAGTCACCACTTTGTTCT
2422 TCCGTGGAAC
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
62 1 0.01
63 70 0.91
64 4 0.05
65 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (63 bp):
TGTTGTAAAAAAACAGTCACCACTTTGTTCTCCCATGGGACTATAACTTGGCATAGGACCTAG
Found at i:3145 original size:30 final size:30
Alignment explanation
Indices: 2991--3146 Score: 123
Period size: 30 Copynumber: 5.1 Consensus size: 30
2981 ATAATCGGAT
2991 TAGCACTATAGTGTGTAAGGACACTTAGTG
1 TAGCACTATAGTGTGTAAGGACACTTAGTG
* * * *
3021 CATATAGTACTATGGTGTGTAAGAACACTTAGTA
1 ----TAGCACTATAGTGTGTAAGGACACTTAGTG
* * * * *
3055 CATCACCATAGTGTGTAAAGACACTTAGTA
1 TAGCACTATAGTGTGTAAGGACACTTAGTG
* * * ** *
3085 CAACACTGTAGTGTGTAAGGATGCTCAGTG
1 TAGCACTATAGTGTGTAAGGACACTTAGTG
* *
3115 TAGCACTATGGTGTGTAAGGTCACTTAGTG
1 TAGCACTATAGTGTGTAAGGACACTTAGTG
3145 TA
1 TA
3147 TATTGTAAGC
Statistics
Matches: 95, Mismatches: 27, Indels: 4
0.75 0.21 0.03
Matches are distributed among these distances:
30 69 0.73
34 26 0.27
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (30 bp):
TAGCACTATAGTGTGTAAGGACACTTAGTG
Found at i:9457 original size:30 final size:30
Alignment explanation
Indices: 9421--9480 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
9411 AGTGCATATG
*
9421 GTACTATGGTGTGTAACAACACTTAGTACA
1 GTACTATAGTGTGTAACAACACTTAGTACA
**
9451 GTACTATAGTGTGTAAGGACACTTAGTACA
1 GTACTATAGTGTGTAACAACACTTAGTACA
9481 TCATTGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (30 bp):
GTACTATAGTGTGTAACAACACTTAGTACA
Found at i:15670 original size:154 final size:154
Alignment explanation
Indices: 15390--15696 Score: 580
Period size: 154 Copynumber: 2.0 Consensus size: 154
15380 TTGCACAAAG
15390 TTGGTGTTTGATGCTTTTTCTCTTGTTTCTCTATGATTTCTTATCTTTCAAAGGCTTCAGAACTT
1 TTGGTGTTTGATGCTTTTTCTCTTGTTTCTCTATGATTTCTTATCTTTCAAAGGCTTCAGAACTT
15455 GTTTAAATACACCTTGAATCACTTCTGAACGTTGGGGATGATTAGTGAAGATCATATAGCCGTTT
66 GTTTAAATACACCTTGAATCACTTCTGAACGTTGGGGATGATTAGTGAAGATCATATAGCCGTTT
15520 TAGTGTGAAAACAATTAATAAAAA
131 TAGTGTGAAAACAATTAATAAAAA
*
15544 TTGGTGTTTGATGCTTTCTT-TCTTGTTTCTCTATGATTTTTTATCTTTCAAAGGCTTCAGAACT
1 TTGGTGTTTGATGCTTT-TTCTCTTGTTTCTCTATGATTTCTTATCTTTCAAAGGCTTCAGAACT
*
15608 TGTTTAAATACACCTTGAATCACTTCTGAACGTTGTGGATGATTAGTGAAGATCATATAGCCGTT
65 TGTTTAAATACACCTTGAATCACTTCTGAACGTTGGGGATGATTAGTGAAGATCATATAGCCGTT
15673 TTAGTGTGAAAACAATTAATAAAA
130 TTAGTGTGAAAACAATTAATAAAA
15697 CAGCTTGGAG
Statistics
Matches: 150, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
154 148 0.99
155 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (154 bp):
TTGGTGTTTGATGCTTTTTCTCTTGTTTCTCTATGATTTCTTATCTTTCAAAGGCTTCAGAACTT
GTTTAAATACACCTTGAATCACTTCTGAACGTTGGGGATGATTAGTGAAGATCATATAGCCGTTT
TAGTGTGAAAACAATTAATAAAAA
Found at i:18328 original size:20 final size:20
Alignment explanation
Indices: 18291--18329 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18281 AGATTGAGTG
* * *
18291 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
18311 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
18330 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:25046 original size:22 final size:21
Alignment explanation
Indices: 25018--25074 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
25008 ACACCTAACA
*
25018 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCA-CCATGAAT
*
25040 GTGCATCGATACACCATGAAT
1 GTGCATCGATGCACCATGAAT
*
25061 GTACATCGATGCAC
1 GTGCATCGATGCAC
25075 AGGGCCATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (21 bp):
GTGCATCGATGCACCATGAAT
Found at i:25061 original size:21 final size:20
Alignment explanation
Indices: 24999--25070 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
24989 TTGTGCTTCA
*
24999 TGCATCGATACACCT-AACAG
1 TGCATCGATACACCTGAA-TG
*
25019 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CC-TGAATG
25041 TGCATCGATACACCATGAATG
1 TGCATCGATACACC-TGAATG
*
25062 TACATCGAT
1 TGCATCGAT
25071 GCACAGGGCC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
20 11 0.25
21 18 0.41
22 13 0.30
23 2 0.05
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (20 bp):
TGCATCGATACACCTGAATG
Found at i:26691 original size:21 final size:21
Alignment explanation
Indices: 26628--26692 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
26618 ACCCCGGGAG
*
26628 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCTCGAGCTGCTC
*
26649 CTAGCTCTTCTCGAGCAGCTC
1 CTAGCTCTTCTCGAGCTGCTC
* *
26670 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCTCGAGCTGCTC
26691 CT
1 CT
26693 CCTCCTCCGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.11, C:0.40, G:0.17, T:0.32
Consensus pattern (21 bp):
CTAGCTCTTCTCGAGCTGCTC
Found at i:27859 original size:65 final size:63
Alignment explanation
Indices: 27739--27948 Score: 230
Period size: 65 Copynumber: 3.3 Consensus size: 63
27729 TTTTTCAGAG
* * *
27739 TGATGCACCGATGTACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCA-CAA-CCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGC
27801 ATT
61 ATT
* *
27804 TCATGCATCGATGCACATACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
27868 T
63 T
* * * *
27869 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
27933 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
27949 TCTTAGTGCA
Statistics
Matches: 126, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 48 0.38
65 69 0.55
66 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:27948 original size:17 final size:19
Alignment explanation
Indices: 27920--27968 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
27910 TATTTTGAAA
27920 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
27938 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
27957 CACCGATGCACT
1 CATCGATGCACT
27969 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:32650 original size:14 final size:14
Alignment explanation
Indices: 32633--32666 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
32623 CATTGATTTA
32633 ATCTTCTACTTTT-C
1 ATCTTCTA-TTTTCC
32647 ATCTTCTATTTTCC
1 ATCTTCTATTTTCC
32661 ATCTTC
1 ATCTTC
32667 CTTTGTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.15, C:0.29, G:0.00, T:0.56
Consensus pattern (14 bp):
ATCTTCTATTTTCC
Found at i:33867 original size:60 final size:60
Alignment explanation
Indices: 33797--33957 Score: 189
Period size: 60 Copynumber: 2.7 Consensus size: 60
33787 TCCCTTCTTT
* * * *
33797 TAAATTAGTCCTTAAACTTTTAAATATTCCAATTTCATGCTCAAACTATGACTCTCATTC
1 TAAATCAGTCCTTAAACTTTTAAATATTCCAATTTCATCCCCAAACTATGAATCTCATTC
** * * * *
33857 TGTATCAGTCCTTAAACTTTTGAACATCCCAATCTT-ATCCCCAAATTATGAATCTCATTC
1 TAAATCAGTCCTTAAACTTTTAAATATTCCAAT-TTCATCCCCAAACTATGAATCTCATTC
* * *
33917 TAAATCAGTCCCTAAACTTTTAGATCTTCCAATTTCATCCC
1 TAAATCAGTCCTTAAACTTTTAAATATTCCAATTTCATCCC
33958 TAAATTCATC
Statistics
Matches: 81, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
59 2 0.02
60 77 0.95
61 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (60 bp):
TAAATCAGTCCTTAAACTTTTAAATATTCCAATTTCATCCCCAAACTATGAATCTCATTC
Found at i:36395 original size:31 final size:31
Alignment explanation
Indices: 36371--36432 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
36361 ATTTGATCTC
*
36371 TAAACTTTTGATAAAATATCAATTTAACCCT
1 TAAACTTTAGATAAAATATCAATTTAACCCT
*
36402 TAAACTTTAGGTAAAATATC-ATATTAACCCT
1 TAAACTTTAGATAAAATATCAAT-TTAACCCT
36433 AAAAATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (31 bp):
TAAACTTTAGATAAAATATCAATTTAACCCT
Found at i:37112 original size:28 final size:28
Alignment explanation
Indices: 37022--37115 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 28
37012 TAAGCGCATA
* * *
37022 GACTATTAAAAGTTACAAATAGTCATCT
1 GACTATTAAAAGTTACAAATTGTCACCC
****
37050 GACTATATAGAAAGTTATTTTTTTAGTC-CCC
1 GACTAT-TA-AAAGTTA-CAAATT-GTCACCC
37081 GACTATTAAAAGTTACAAATTGTCACCC
1 GACTATTAAAAGTTACAAATTGTCACCC
37109 GACTATT
1 GACTATT
37116 CATTATGTCC
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
27 3 0.06
28 18 0.36
29 9 0.18
30 9 0.18
31 8 0.16
32 3 0.06
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (28 bp):
GACTATTAAAAGTTACAAATTGTCACCC
Found at i:39998 original size:20 final size:21
Alignment explanation
Indices: 39973--40024 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
39963 TTTTCCCAAT
*
39973 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
39993 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
40014 TCGCAATGCGA
1 TCGCAATGCGA
40025 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:40038 original size:20 final size:20
Alignment explanation
Indices: 40013--40120 Score: 108
Period size: 20 Copynumber: 5.3 Consensus size: 20
40003 AATTGGGAAA
40013 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
40033 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* **
40053 ATCGCAATGCGATAATGCAAA
1 ATCGCAATGCGATACTG-ACT
* *
40074 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * * *
40094 TTCACAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
*
40114 TTCGCAA
1 ATCGCAA
40121 CGTGATTTAC
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
20 57 0.79
21 15 0.21
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:40057 original size:61 final size:61
Alignment explanation
Indices: 39992--40122 Score: 147
Period size: 61 Copynumber: 2.1 Consensus size: 61
39982 GAATAAGTAA
* * * * * * *
39992 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACT
1 ATCGCAACGCGATAAT-GCAAAATCGCAACGAGATACTGACTATCACAACGCGATACTGACT
* * *
40053 ATCGCAATGCGATAATGCAAAATCGCAACGAGATACTGACTTTCACAACGCGATTCTGACT
1 ATCGCAACGCGATAATGCAAAATCGCAACGAGATACTGACTATCACAACGCGATACTGACT
*
40114 TTCGCAACG
1 ATCGCAACG
40123 TGATTTACAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 55 0.96
62 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (61 bp):
ATCGCAACGCGATAATGCAAAATCGCAACGAGATACTGACTATCACAACGCGATACTGACT
Found at i:40121 original size:20 final size:20
Alignment explanation
Indices: 40075--40127 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
40065 TAATGCAAAA
*
40075 TCGCAACGAGATACTGACTT
1 TCGCAACGAGATTCTGACTT
* *
40095 TCACAACGCGATTCTGACTT
1 TCGCAACGAGATTCTGACTT
*
40115 TCGCAACGTGATT
1 TCGCAACGAGATT
40128 TACATAGCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (20 bp):
TCGCAACGAGATTCTGACTT
Found at i:40392 original size:27 final size:27
Alignment explanation
Indices: 40336--40395 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
40326 ATCGCCGGCG
* *
40336 AAATCCCTTACAACCATTCACAGTCAA
1 AAATCCCTCACAACCATTCAAAGTCAA
* *
40363 AAATCCCTCACAATCATTCAGAAGTGAA
1 AAATCCCTCACAACCATTCA-AAGTCAA
40391 AAATC
1 AAATC
40396 AACCTCCGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.22
Consensus pattern (27 bp):
AAATCCCTCACAACCATTCAAAGTCAA
Found at i:40682 original size:19 final size:19
Alignment explanation
Indices: 40644--40710 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
40634 TTCGAGAATG
40644 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
40664 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
40683 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
40702 AAAATCGCA
1 AAAATCGCA
40711 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:40728 original size:19 final size:19
Alignment explanation
Indices: 40706--40890 Score: 147
Period size: 19 Copynumber: 10.1 Consensus size: 19
40696 GAAACCAAAA
*
40706 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
40725 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
40744 TCGCGTTACGATTTTTATT
1 TCGCGTTGCGATTTTCATT
40763 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
40783 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
40799 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
40816 TCGTGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
40830 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
40849 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
* *
40869 ATCTCGTTGCGATTTTTATT
1 -TCGCGTTGCGATTTTCATT
40889 TC
1 TC
40891 AACCAAAAGA
Statistics
Matches: 134, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
14 19 0.14
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 59 0.44
20 47 0.35
21 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:40782 original size:39 final size:38
Alignment explanation
Indices: 40714--40795 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 38
40704 AATCGCATTG
40714 CGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTA
1 CGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTA
* *
40752 CGATTTTTATTTCGCGGTTGCGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGC-GTTGCGATTTTCATTTCGCGTTA
40791 CGATT
1 CGATT
40796 GTCTGGTCGC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 14 0.34
39 27 0.66
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.48
Consensus pattern (38 bp):
CGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTA
Found at i:40806 original size:39 final size:39
Alignment explanation
Indices: 40725--40806 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
40715 GATTTTCATT
* **
40725 TCGC-GTTGCGATTTTCATTTCGCGTTACGATTTTTATT
1 TCGCGGTTGCGATTTTCATTTCGCGTTACGATTTCTAGG
*
40763 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTGTCT-GG
1 TCGCGGTTGCGATTTTCATTTCGCGTTACGATT-TCTAGG
40802 TCGCG
1 TCGCG
40807 ATAGTCATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 4 0.11
39 32 0.84
40 2 0.05
ACGTcount: A:0.10, C:0.21, G:0.26, T:0.44
Consensus pattern (39 bp):
TCGCGGTTGCGATTTTCATTTCGCGTTACGATTTCTAGG
Found at i:40815 original size:33 final size:33
Alignment explanation
Indices: 40778--40865 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
40768 GTTGCGATTT
* *
40778 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
* *
40811 TCATTTCGTGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
40844 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
40866 ATTATCTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 35 0.71
34 14 0.29
ACGTcount: A:0.11, C:0.24, G:0.25, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:40867 original size:20 final size:20
Alignment explanation
Indices: 40833--40882 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
40823 GCGATTCTCT
**
40833 CGTTGCGATAGTCATT-TCCG
1 CGTTGCGATTCTCATTAT-CG
*
40853 CGTTGCGATTCTCATTATCT
1 CGTTGCGATTCTCATTATCG
40873 CGTTGCGATT
1 CGTTGCGATT
40883 TTTATTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTCTCATTATCG
Found at i:42949 original size:42 final size:42
Alignment explanation
Indices: 42889--43011 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
42879 GCCCGACTCG
* * *
42889 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
42931 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
42973 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
43012 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:42969 original size:21 final size:21
Alignment explanation
Indices: 42945--43011 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
42935 TCATTCCTCG
42945 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
42966 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
42987 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
43008 AGAG
1 AGAG
43012 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:44379 original size:14 final size:14
Alignment explanation
Indices: 44360--44395 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
44350 ATTGTTTAAT
44360 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
44374 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
44388 TGATTTGT
1 TGATTTGT
44396 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:44604 original size:19 final size:19
Alignment explanation
Indices: 44573--44723 Score: 89
Period size: 19 Copynumber: 8.7 Consensus size: 19
44563 CGAAATTAAA
44573 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
44592 TTCGCGTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
44607 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
44625 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
44639 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
44658 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
44673 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
44691 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
44710 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
44724 GGACATTAAG
Statistics
Matches: 97, Mismatches: 19, Indels: 31
0.66 0.13 0.21
Matches are distributed among these distances:
14 29 0.30
16 6 0.06
17 6 0.06
19 46 0.47
20 10 0.10
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:44619 original size:33 final size:32
Alignment explanation
Indices: 44577--44703 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
44567 ATTAAATTCG
*
44577 CGTTGCGATTTTCATTTCGCGTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
44610 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
44643 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
44676 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
44704 AGTAATTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
33 79 0.93
35 3 0.04
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:44668 original size:66 final size:66
Alignment explanation
Indices: 44570--44702 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
44560 ACGCGAAATT
* *
44570 AAATTCGCGTTGCGATTTTCATTTCGCGTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
44635 G
66 G
*
44636 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
44701 G
66 G
44702 A
1 A
44703 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:48289 original size:20 final size:20
Alignment explanation
Indices: 48264--48319 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
48254 ATTCATTTGA
48264 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
48284 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
48304 TTATCGCAACGAGAAA
1 CTATCGCAACGCGAAA
48320 TCGCAATGCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:48384 original size:33 final size:33
Alignment explanation
Indices: 48342--48416 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
48332 ATGAAAATCA
* ***
48342 CATTGCGATTTTCTCGTTGTGATTTTCATTTCG
1 CATTGCGATTTTCTCGTTGCGATAGCCATTTCG
48375 CATTGCGATTTTCTCGTTGCGATAGCCATTTCG
1 CATTGCGATTTTCTCGTTGCGATAGCCATTTCG
*
48408 CGTTGCGAT
1 CATTGCGAT
48417 AGTCTGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.44
Consensus pattern (33 bp):
CATTGCGATTTTCTCGTTGCGATAGCCATTTCG
Found at i:48523 original size:14 final size:14
Alignment explanation
Indices: 48504--48540 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
48494 CATCAATTAA
48504 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
48518 ACAAATCATCTTTT
1 ACAAATCAACATTT
48532 ACAAATCAA
1 ACAAATCAA
48541 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:52284 original size:21 final size:21
Alignment explanation
Indices: 52258--52340 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 21
52248 CAGATCCCCA
*
52258 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
52279 GGGGGGAATCGGTTCCCCT-T
1 GGGGGGAATCGATTCCCCTGT
* * *
52299 CAAAGGGGGAATCGGTTCCCTCAG-
1 ---GGGGGGAATCGATTCCC-CTGT
52323 GGGGAGGAATCGATTCCC
1 GGGG-GGAATCGATTCCC
52341 TCTGCACCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
20 1 0.02
21 20 0.40
22 12 0.24
23 16 0.32
24 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.37, T:0.22
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:52319 original size:22 final size:22
Alignment explanation
Indices: 52280--52341 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
52270 TTCCCCTGTG
52280 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCCTTCAAA
**
52303 GGGGGAATCGGTTCCC-TCAGG
1 GGGGGAATCGGTTCCCTTCAAA
*
52324 GGGAGGAATCGATTCCCT
1 GGG-GGAATCGGTTCCCT
52342 CTGCACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.18
22 15 0.44
23 13 0.38
ACGTcount: A:0.19, C:0.24, G:0.35, T:0.21
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCTTCAAA
Found at i:59997 original size:19 final size:19
Alignment explanation
Indices: 59973--60039 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
59963 GAAACTTAAA
59973 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
* *
59992 ATCGCAATGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
60012 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
60031 ATCGCAACG
1 ATCGCAACG
60040 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 23 0.56
20 18 0.44
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:60008 original size:20 final size:19
Alignment explanation
Indices: 59973--60028 Score: 85
Period size: 20 Copynumber: 2.9 Consensus size: 19
59963 GAAACTTAAA
*
59973 ATCGCAACGCGAAATGACT
1 ATCGCAATGCGAAATGACT
*
59992 ATCGCAATGCGGAAATGGCT
1 ATCGCAATGC-GAAATGACT
60012 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
60029 AAATCGCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (19 bp):
ATCGCAATGCGAAATGACT
Found at i:60047 original size:14 final size:14
Alignment explanation
Indices: 60028--60085 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
60018 ATGCGAAATG
60028 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
60042 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
60058 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
60074 AAAATCGCAACG
1 AAAATCGCAACG
60086 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:60070 original size:32 final size:33
Alignment explanation
Indices: 60012--60090 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
60002 GGAAATGGCT
*
60012 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
60045 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
60077 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
60091 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:60119 original size:19 final size:19
Alignment explanation
Indices: 60097--60178 Score: 104
Period size: 18 Copynumber: 4.6 Consensus size: 19
60087 GAAACACAAA
60097 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
60116 TCGCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
60134 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
60150 T--CATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
60167 TCGCATTGCGAT
1 TCGCATTGCGAT
60179 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
14 8 0.15
15 3 0.06
16 2 0.04
17 2 0.04
18 20 0.37
19 19 0.35
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:60197 original size:20 final size:19
Alignment explanation
Indices: 60163--60217 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
60153 TTGCGATTTT
*
60163 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
60182 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
60202 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
60218 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:60204 original size:51 final size:50
Alignment explanation
Indices: 60100--60205 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 50
60090 ACACAAATCG
* ** *
60100 CATTGCGATTTTCATTTCGCGTTGCGATTTCATTTCGCATTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATGCCATTTCGCATTGCGA-TTAGT
*
60151 CATTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCGCGTTGCGA-TAGT
1 CATTGCGATTTTCATTTCGCATTGCGAT-GCCATTT-CGCATTGCGATTAGT
60202 CATT
1 CATT
60206 TTCGTGTTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 34 0.71
52 5 0.10
53 9 0.19
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (50 bp):
CATTGCGATTTTCATTTCGCATTGCGATGCCATTTCGCATTGCGATTAGT
Found at i:60725 original size:18 final size:18
Alignment explanation
Indices: 60699--60743 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
60689 GTCGATCAGA
*
60699 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
60717 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
60735 TGATGGCTC
1 TGATGGCTC
60744 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:62087 original size:20 final size:20
Alignment explanation
Indices: 62062--62099 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62052 AATAGTTTCT
62062 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
62082 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
62100 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:62390 original size:22 final size:22
Alignment explanation
Indices: 62363--62406 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
62353 GATGGAGATA
62363 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
62385 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
62407 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:62619 original size:20 final size:20
Alignment explanation
Indices: 62594--62646 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
62584 GATTATGTAT
*
62594 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
62614 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
62634 TATCTCGTTGCGA
1 TATCGCGTTGCGA
62647 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:62701 original size:20 final size:20
Alignment explanation
Indices: 62657--62749 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
62647 TTTTTTATTA
* **
62657 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
62678 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
62698 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
62719 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
62739 TCGCATTGCGA
1 TCGCATTGCGA
62750 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:62702 original size:41 final size:41
Alignment explanation
Indices: 62639--62749 Score: 188
Period size: 41 Copynumber: 2.7 Consensus size: 41
62629 GTAAGTATCT
*
62639 CGTTGCGATTT-TTTATTATCGCATTGCGATTTTCCCAATTCG
1 CGTTGCGATTTACTTA-T-TCGCATTGCGATTTTCCCAATTCG
62681 CGTTGCGATTTACTTATTCGCATTGCGATTTTCCCAATTCG
1 CGTTGCGATTTACTTATTCGCATTGCGATTTTCCCAATTCG
62722 CGTTGCGATTTACTTATTCGCATTGCGA
1 CGTTGCGATTTACTTATTCGCATTGCGA
62750 ATTGGGAAAA
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
41 52 0.78
42 12 0.18
43 3 0.04
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (41 bp):
CGTTGCGATTTACTTATTCGCATTGCGATTTTCCCAATTCG
Found at i:63595 original size:28 final size:28
Alignment explanation
Indices: 63541--63598 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
63531 ACAATTGTTG
* *
63541 ATTTCAAGCACTGACTTGACGATATAAT
1 ATTTCAAGCACTGACTCGACGACATAAT
*
63569 ATTTCAAGCACT-AGCTCGATGACATAAT
1 ATTTCAAGCACTGA-CTCGACGACATAAT
63597 AT
1 AT
63599 AAGTAGAGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (28 bp):
ATTTCAAGCACTGACTCGACGACATAAT
Found at i:64988 original size:2 final size:2
Alignment explanation
Indices: 64977--65022 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
64967 CTCAAGGAAA
*
64977 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT 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
65018 -T AT AT
1 AT AT AT
65023 CAATAAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:67910 original size:30 final size:30
Alignment explanation
Indices: 67876--67958 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
67866 GCATCGACCG
67876 CAGGGACAAACCAAGGAAAAGCACTGATAC
1 CAGGGACAAACCAAGGAAAAGCACTGATAC
*
67906 CAGGGACAAACCTAGGAAAAGCACTGATAC
1 CAGGGACAAACCAAGGAAAAGCACTGATAC
* *
67936 CCGGGACAAGCCAAGGAAAAGCA
1 CAGGGACAAACCAAGGAAAAGCA
67959 TAGATAGGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.45, C:0.24, G:0.25, T:0.06
Consensus pattern (30 bp):
CAGGGACAAACCAAGGAAAAGCACTGATAC
Found at i:68589 original size:32 final size:33
Alignment explanation
Indices: 68521--68588 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 33
68511 CAGATAAAAT
*
68521 AAAATATTATATATAAAAATGCATGTCTGTATA
1 AAAATATTATATATAAAAATGCATGTATGTATA
* *
68554 AAAATATT-TATAT-AAAATTCATGTATTTATA
1 AAAATATTATATATAAAAATGCATGTATGTATA
68585 AAAA
1 AAAA
68589 AAATGAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 19 0.59
32 5 0.16
33 8 0.25
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (33 bp):
AAAATATTATATATAAAAATGCATGTATGTATA
Found at i:69034 original size:31 final size:31
Alignment explanation
Indices: 68989--69063 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
68979 CTTTTAAAAC
* * * *
68989 TTGCTATATAGTCCCCTAACATTTAGTCCGT
1 TTGCAATATGGTCCCCCAACATTTAGTCCAT
*
69020 TTGCAATATGGTCCCCCAACATTTAGTCTAT
1 TTGCAATATGGTCCCCCAACATTTAGTCCAT
69051 TTGCAATATGGTC
1 TTGCAATATGGTC
69064 ACCGGTCGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (31 bp):
TTGCAATATGGTCCCCCAACATTTAGTCCAT
Found at i:76791 original size:27 final size:27
Alignment explanation
Indices: 76753--76813 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
76743 TTATCGGATT
76753 TGAGTGTGTCAGATACGAGTATGAACC
1 TGAGTGTGTCAGATACGAGTATGAACC
*
76780 TGAGTGTGTCAGATACGAGTATGCACC
1 TGAGTGTGTCAGATACGAGTATGAACC
76807 TGAGTGT
1 TGAGTGT
76814 TTCATATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (27 bp):
TGAGTGTGTCAGATACGAGTATGAACC
Found at i:79600 original size:31 final size:32
Alignment explanation
Indices: 79541--79603 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
79531 CTAATGCACG
* * *
79541 TATGATATGTGCCATATTATCATGTACATACA
1 TATGATATATGCCACATCATCATGTACATACA
*
79573 TATGATATATGCCACA-CATCATTTACATACA
1 TATGATATATGCCACATCATCATGTACATACA
79604 CGTAAACATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (32 bp):
TATGATATATGCCACATCATCATGTACATACA
Found at i:89266 original size:29 final size:32
Alignment explanation
Indices: 89223--89283 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
89213 TTGACGACAG
89223 ATGAATTG-TTGTTTT-TTT-CTTTTTTAATT
1 ATGAATTGTTTGTTTTCTTTCCTTTTTTAATT
*
89252 ATGAATTGTTTTTTTTCTTTCCTTTTTTAATT
1 ATGAATTGTTTGTTTTCTTTCCTTTTTTAATT
89284 TTGTTCAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 8 0.29
30 6 0.21
31 3 0.11
32 11 0.39
ACGTcount: A:0.16, C:0.07, G:0.08, T:0.69
Consensus pattern (32 bp):
ATGAATTGTTTGTTTTCTTTCCTTTTTTAATT
Found at i:94171 original size:51 final size:51
Alignment explanation
Indices: 94111--94240 Score: 224
Period size: 51 Copynumber: 2.5 Consensus size: 51
94101 GAATGGTAGT
* *
94111 TCATTTTCTATACTTGAATATTAGGTAAATGTTCTTGATTTAGATCGCAAA
1 TCATTTTCTATACTTGAATAGTAGGTAAATGTTCTTGATTTAGATCACAAA
*
94162 TCATTTTCTATACTTGAATAGAAGGTAAATGTTCTTGATTTAGATCACAAA
1 TCATTTTCTATACTTGAATAGTAGGTAAATGTTCTTGATTTAGATCACAAA
*
94213 TCATTTTCTATGCTTGAATAGTAGGTAA
1 TCATTTTCTATACTTGAATAGTAGGTAA
94241 CCTTTTATCA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.42
Consensus pattern (51 bp):
TCATTTTCTATACTTGAATAGTAGGTAAATGTTCTTGATTTAGATCACAAA
Found at i:95063 original size:148 final size:148
Alignment explanation
Indices: 94795--95091 Score: 594
Period size: 148 Copynumber: 2.0 Consensus size: 148
94785 GGTTGGGGTA
94795 ATCCTCACTATACCTATATATCTTTTAGAATCTTTCAAACTCATTTATGTTAAATTTGTTTCGTT
1 ATCCTCACTATACCTATATATCTTTTAGAATCTTTCAAACTCATTTATGTTAAATTTGTTTCGTT
94860 CGCTTAATGAAATCAGAGCCACTCTTCTGCTATAACCGATGATGAAGCGAGGGGTGCTGGTTTTT
66 CGCTTAATGAAATCAGAGCCACTCTTCTGCTATAACCGATGATGAAGCGAGGGGTGCTGGTTTTT
94925 CCAATAAAAGTGGGATGG
131 CCAATAAAAGTGGGATGG
94943 ATCCTCACTATACCTATATATCTTTTAGAATCTTTCAAACTCATTTATGTTAAATTTGTTTCGTT
1 ATCCTCACTATACCTATATATCTTTTAGAATCTTTCAAACTCATTTATGTTAAATTTGTTTCGTT
95008 CGCTTAATGAAATCAGAGCCACTCTTCTGCTATAACCGATGATGAAGCGAGGGGTGCTGGTTTTT
66 CGCTTAATGAAATCAGAGCCACTCTTCTGCTATAACCGATGATGAAGCGAGGGGTGCTGGTTTTT
95073 CCAATAAAAGTGGGATGG
131 CCAATAAAAGTGGGATGG
95091 A
1 A
95092 GAAGACTATA
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 149 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (148 bp):
ATCCTCACTATACCTATATATCTTTTAGAATCTTTCAAACTCATTTATGTTAAATTTGTTTCGTT
CGCTTAATGAAATCAGAGCCACTCTTCTGCTATAACCGATGATGAAGCGAGGGGTGCTGGTTTTT
CCAATAAAAGTGGGATGG
Found at i:104246 original size:21 final size:21
Alignment explanation
Indices: 104175--104256 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
104165 CAGAACCCCA
* * *
104175 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCTTAT
* * *
104196 GGGGGGAATCGGTTCCTATTCAA
1 GGGGGGAATCGATTCC-CTT-AT
* *
104219 AGGGGGAATCGGTTCCCTTAT
1 GGGGGGAATCGATTCCCTTAT
104240 GGGGGG-ATCGATTCCCT
1 GGGGGGAATCGATTCCCT
104257 CTGCACCAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
20 10 0.21
21 20 0.42
22 3 0.06
23 15 0.31
ACGTcount: A:0.16, C:0.21, G:0.37, T:0.27
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTTAT
Found at i:113033 original size:20 final size:21
Alignment explanation
Indices: 113005--113045 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
112995 TTTGATATTA
*
113005 AATTTTTAAAATTA-TAAAAT
1 AATTATTAAAATTATTAAAAT
*
113025 AATTATTAAATTTATTAAAAT
1 AATTATTAAAATTATTAAAAT
113046 TATATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTATTAAAATTATTAAAAT
Found at i:113061 original size:29 final size:28
Alignment explanation
Indices: 113001--113061 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
112991 TGTTTTTGAT
*
113001 ATTAAATTTTTAAAATTATAAAATAATT
1 ATTAAATTTTTAAAATTATAAAATAATA
* *
113029 ATTAAATTTATTAAAATTATATAATTATA
1 ATTAAATTT-TTAAAATTATAAAATAATA
113058 ATTA
1 ATTA
113062 GGGATGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTAAATTTTTAAAATTATAAAATAATA
Found at i:113682 original size:59 final size:58
Alignment explanation
Indices: 113555--113701 Score: 140
Period size: 59 Copynumber: 2.5 Consensus size: 58
113545 ACAATGTTCT
* * *
113555 TAAACTTTTG-AATATTCTAATTTCA-TCCTCAAATTATGATTCATTTTAAATTAATCCT
1 TAAACTTTTGAAAT-TTC-AATTTCATTCCTCAAACTATAATTCATTTTAAATTAATCCA
* **
113613 TAAAATTTTGAACATTTCAATTTCATTCCT-AAACTATAACTT-ATTTCTAAATTGGTCCA
1 TAAACTTTTGAA-ATTTCAATTTCATTCCTCAAACTATAA-TTCATTT-TAAATTAATCCA
*
113672 TAAACTTTTGAAATATACCAATTTCATTCC
1 TAAACTTTTGAAAT-T-TCAATTTCATTCC
113702 AAATTTATCC
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
58 29 0.39
59 31 0.42
60 14 0.19
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (58 bp):
TAAACTTTTGAAATTTCAATTTCATTCCTCAAACTATAATTCATTTTAAATTAATCCA
Found at i:116625 original size:27 final size:29
Alignment explanation
Indices: 116597--116652 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
116587 GCATATACAA
* *
116597 TTTTGAATATTTA-AAATATATATTAAAT
1 TTTTCAATATATATAAATATATATTAAAT
*
116625 TTTTCAATATATATATATATATATTAAA
1 TTTTCAATATATATAAATATATATTAAA
116653 GGTTTAGTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
TTTTCAATATATATAAATATATATTAAAT
Found at i:119765 original size:40 final size:40
Alignment explanation
Indices: 119721--119800 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
119711 GGCAGGAAGT
119721 TAATATATACACGTTTATTT-ATTAAATAAACGAACATGAA
1 TAATAT-TACACGTTTATTTAATTAAATAAACGAACATGAA
** * * *
119761 TAATATTTTATGTTTGTTTAATTAAATGAACGAACATGAA
1 TAATATTACACGTTTATTTAATTAAATAAACGAACATGAA
119801 CAATTTGTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 9 0.26
40 25 0.74
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (40 bp):
TAATATTACACGTTTATTTAATTAAATAAACGAACATGAA
Found at i:120115 original size:23 final size:23
Alignment explanation
Indices: 120077--120130 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
120067 TCATTTATGT
* *
120077 TTGTTTATGTTCGTTCCTTTGTA
1 TTGTTTACGTTCGTTCATTTGTA
* *
120100 TTGTTTACGTTTGTTCATTTGTG
1 TTGTTTACGTTCGTTCATTTGTA
120123 TTCGTTTA
1 TT-GTTTA
120131 TCATTTTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.09, C:0.11, G:0.19, T:0.61
Consensus pattern (23 bp):
TTGTTTACGTTCGTTCATTTGTA
Found at i:120909 original size:48 final size:48
Alignment explanation
Indices: 120816--120910 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
120806 ACTTTACAAG
* * *
120816 TTTTATACTTTTGACTCTAATTTATTGAATCTTTTCAATTTGGCCTAA
1 TTTTATACTTTTGACTCTAATTTATTGAATCTTTACAACTCGGCCTAA
120864 TTTTATACTTTTGACTCTAATTTATTGAATCTTTACAACTCGGCCTA
1 TTTTATACTTTTGACTCTAATTTATTGAATCTTTACAACTCGGCCTA
120911 TTAAATTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.49
Consensus pattern (48 bp):
TTTTATACTTTTGACTCTAATTTATTGAATCTTTACAACTCGGCCTAA
Found at i:126313 original size:18 final size:17
Alignment explanation
Indices: 126290--126323 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
126280 CAGTCTGTAT
126290 TATTTTAATGATTTTATA
1 TATTTTAAT-ATTTTATA
*
126308 TATTTTGATATTTTAT
1 TATTTTAATATTTTAT
126324 TTAATTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTAATATTTTATA
Found at i:129289 original size:2 final size:2
Alignment explanation
Indices: 129284--129314 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
129274 GCACACACAT
129284 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
129315 TGTATTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:129445 original size:23 final size:23
Alignment explanation
Indices: 129414--129504 Score: 137
Period size: 23 Copynumber: 4.0 Consensus size: 23
129404 CACCACAGCT
*
129414 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
129437 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCG
*
129460 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
*
129483 CGTAGAAATGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
129505 ATAAAATGTC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.29, C:0.26, G:0.27, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:134646 original size:23 final size:23
Alignment explanation
Indices: 134615--134659 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
134605 CACCACAGCT
*
134615 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
*
134638 CGTAGAAATGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
134660 ATATAATGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:136878 original size:2 final size:2
Alignment explanation
Indices: 136871--136931 Score: 67
Period size: 2 Copynumber: 32.5 Consensus size: 2
136861 TCGGGCCAGG
* * *
136871 TA TA TA TA TA TA TA TA TA T- TA -A AA T- TA AA TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
136910 T- TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
136932 TAATTTAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
1 4 0.08
2 46 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:136942 original size:46 final size:44
Alignment explanation
Indices: 136871--136972 Score: 150
Period size: 46 Copynumber: 2.3 Consensus size: 44
136861 TCGGGCCAGG
136871 TATATATATATATATATATTAAAATTAAATATATAAATATTATA
1 TATATATATATATATATATTAAAATTAAATATATAAATATTATA
* * *
136915 TATATATATATATATATTAATTTAAATTAAATTTATTAATATTATA
1 TATATATATATATATA-T-ATTAAAATTAAATATATAAATATTATA
*
136961 TAAATATATATA
1 TATATATATATA
136973 AAATAATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 16 0.31
45 1 0.02
46 35 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (44 bp):
TATATATATATATATATATTAAAATTAAATATATAAATATTATA
Found at i:137085 original size:36 final size:35
Alignment explanation
Indices: 137036--137117 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 35
137026 GATTACCAAA
*
137036 CCCGTCCCCGTCCCCATTTAGCATAAACTATTTTT
1 CCCGTCCCCGTCCCCATTTAGCATAAACGATTTTT
* *
137071 CCCCGTCCCTGTCCCCGTTTAGCATAAACGATTTTT
1 -CCCGTCCCCGTCCCCATTTAGCATAAACGATTTTT
137107 CCCGTCCCCGT
1 CCCGTCCCCGT
137118 TTAATTCGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 10 0.24
36 32 0.76
ACGTcount: A:0.16, C:0.40, G:0.12, T:0.32
Consensus pattern (35 bp):
CCCGTCCCCGTCCCCATTTAGCATAAACGATTTTT
Found at i:144598 original size:12 final size:12
Alignment explanation
Indices: 144581--144606 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
144571 GCCTACATAC
144581 CCTGCATTCACA
1 CCTGCATTCACA
144593 CCTGCATTCACA
1 CCTGCATTCACA
144605 CC
1 CC
144607 ATAGAGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.46, G:0.08, T:0.23
Consensus pattern (12 bp):
CCTGCATTCACA
Found at i:145787 original size:18 final size:20
Alignment explanation
Indices: 145764--145804 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
145754 CTTATGAAAA
145764 TTTAAAAT-TA-CTATATAT
1 TTTAAAATATATCTATATAT
*
145782 TTTAAAATATATCTATGTAT
1 TTTAAAATATATCTATATAT
145802 TTT
1 TTT
145805 CTATTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 10 0.50
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTAAAATATATCTATATAT
Found at i:146595 original size:21 final size:20
Alignment explanation
Indices: 146569--146666 Score: 79
Period size: 21 Copynumber: 4.8 Consensus size: 20
146559 ATCAGTTTCC
146569 AAAATCGCAACGCGATTCTTA
1 AAAATCGCAACGCGATT-TTA
* **
146590 AAAATCGCAATGCGATAGTA
1 AAAATCGCAACGCGATTTTA
* ** *
146610 CAAATTCGCATTGCGATTTTCC
1 -AAAATCGCAACGCGATTTT-A
* * *
146632 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTA
146652 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
146667 ACACATAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
20 17 0.28
21 44 0.72
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTA
Found at i:146667 original size:20 final size:20
Alignment explanation
Indices: 146633--146862 Score: 223
Period size: 20 Copynumber: 11.5 Consensus size: 20
146623 CGATTTTCCA
* ** *
146633 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
146653 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
146673 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
146693 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
146713 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
146733 AAATCGCAATGCGTATCTGT
1 AAATCGCAACGCGTATCCGT
*
146753 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
146773 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
146793 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
146813 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
146833 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
146853 AAATCACAAC
1 AAATCGCAAC
146863 ACTGAAATTT
Statistics
Matches: 175, Mismatches: 29, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 171 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:147565 original size:24 final size:24
Alignment explanation
Indices: 147545--147591 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
147535 AAATTTGGTC
147545 TTGGTCAATATC-CGGACTTTGATA
1 TTGGTCAATA-CACGGACTTTGATA
147569 TTGGTCAATACACGGACTTTGAT
1 TTGGTCAATACACGGACTTTGAT
147592 GATGTTTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:147783 original size:12 final size:12
Alignment explanation
Indices: 147766--147790 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
147756 ATATAATCCT
147766 GAAGAAGAAAAA
1 GAAGAAGAAAAA
147778 GAAGAAGAAAAA
1 GAAGAAGAAAAA
147790 G
1 G
147791 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:150159 original size:67 final size:67
Alignment explanation
Indices: 150051--150278 Score: 227
Period size: 67 Copynumber: 3.4 Consensus size: 67
150041 GCATTTGACT
** * * *
150051 ATCGCAACACGGAAATTACAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCCCAACATGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACATGA
150116 AA
66 AA
*
150118 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGC-A-ATGC
1 ATCGCAATGCGGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACATG-
*
150181 GAA
65 AAA
* * *
150184 AT-GAAAT-CGCAACGA-GAGAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCA
1 ATCGCAATGCGGAA--ATGAAAATCGCAA--CGAAA-G-AATCGCAATGCGAAATGAAAATCGCA
*
150246 ACGA-GAGA
60 AC-ATGAAA
*
150254 ATCGCAATGC-GAAATTAAAATCGCA
1 ATCGCAATGCGGAAATGAAAATCGCA
150279 TTGCGATTCT
Statistics
Matches: 131, Mismatches: 17, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
64 4 0.03
65 17 0.13
66 6 0.05
67 56 0.43
68 1 0.01
69 26 0.20
70 12 0.09
71 7 0.05
72 2 0.02
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (67 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACATGA
AA
Found at i:150203 original size:51 final size:52
Alignment explanation
Indices: 150112--150284 Score: 305
Period size: 51 Copynumber: 3.3 Consensus size: 52
150102 AAATCCCAAC
150112 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
150165 ATGAAAATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
150216 ATG-AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
150267 ATTAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
150285 TTCTCTCGTT
Statistics
Matches: 116, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
50 18 0.16
51 63 0.54
52 19 0.16
53 16 0.14
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:150276 original size:33 final size:33
Alignment explanation
Indices: 150070--150278 Score: 228
Period size: 33 Copynumber: 6.2 Consensus size: 33
150060 CGGAAATTAC
*
150070 AATCGCAACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
150103 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
150137 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* * * * *
150170 AATCGCAATGCGA-AAT-GAAAT-CGCAACGAGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGA-A
*
150201 GAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAA
1 -AATCGCAA--CGAGA-G-AATCGCAATGCGAAATGAA
*
150239 AATCGCAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
150272 AATCGCA
1 AATCGCA
150279 TTGCGATTCT
Statistics
Matches: 146, Mismatches: 18, Indels: 24
0.78 0.10 0.13
Matches are distributed among these distances:
30 6 0.04
31 5 0.03
32 12 0.08
33 64 0.44
34 32 0.22
35 5 0.03
37 11 0.08
38 5 0.03
39 6 0.04
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:150332 original size:53 final size:52
Alignment explanation
Indices: 150274--150386 Score: 217
Period size: 53 Copynumber: 2.2 Consensus size: 52
150264 GAAATTAAAA
150274 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
150327 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
150379 TCGCATTG
1 TCGCATTG
150387 TGATAGTCAT
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 26 0.43
53 34 0.57
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:150333 original size:19 final size:19
Alignment explanation
Indices: 150293--150386 Score: 135
Period size: 19 Copynumber: 5.2 Consensus size: 19
150283 GATTCTCTCG
150293 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
150313 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
150332 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
150346 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
150365 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
150384 TTG
1 TTG
150387 TGATAGTCAT
Statistics
Matches: 67, Mismatches: 2, Indels: 11
0.84 0.03 0.14
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 32 0.48
20 15 0.22
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:150396 original size:19 final size:19
Alignment explanation
Indices: 150302--150398 Score: 78
Period size: 19 Copynumber: 5.3 Consensus size: 19
150292 GTTGCGATTT
**
150302 TCATTTCCGCATTGCGATTT
1 TCATTT-CGCATTGCGATAG
150322 TCATTTCGCATTGCGAT--
1 TCATTTCGCATTGCGATAG
* **
150339 TC-TCTCG--TTGCGATTT
1 TCATTTCGCATTGCGATAG
**
150355 TCATTTCGCATTGCGATTT
1 TCATTTCGCATTGCGATAG
*
150374 TCATTTCGCATTGTGATAG
1 TCATTTCGCATTGCGATAG
150393 TCATTT
1 TCATTT
150399 TTGCCTTCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.10
16 6 0.09
17 6 0.09
19 42 0.63
20 6 0.09
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.46
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:150516 original size:14 final size:14
Alignment explanation
Indices: 150497--150533 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
150487 CATCAATTAC
150497 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
150511 ACAAATCATCTTTT
1 ACAAATCAACTTTT
150525 ACAAATCAA
1 ACAAATCAA
150534 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:152497 original size:19 final size:19
Alignment explanation
Indices: 152471--152627 Score: 163
Period size: 19 Copynumber: 8.8 Consensus size: 19
152461 CACGAAACTT
152471 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
* * **
152490 ATAATCGCAACGAGAAACC
1 AAAATCGCAACGCGAAATG
**
152509 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATG
152528 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
152547 AAAATCGCAA--CGACA-G
1 AAAATCGCAACGCGAAATG
*
152563 --AATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
152580 AAAATCGCAA--CGAAA-G
1 AAAATCGCAACGCGAAATG
152596 --AATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
152613 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
152628 TTTTGGTTTC
Statistics
Matches: 117, Mismatches: 11, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
14 16 0.14
16 11 0.09
17 11 0.09
19 79 0.68
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:152568 original size:14 final size:14
Alignment explanation
Indices: 152549--152605 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
152539 GCGAAATGAA
*
152549 AATCGCAACGACAG
1 AATCGCAACGAAAG
152563 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
152580 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
152596 AATCGCAACG
1 AATCGCAACG
152606 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:152576 original size:33 final size:33
Alignment explanation
Indices: 152530--152622 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
152520 GCGAAACCAA
*
152530 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
152563 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
152596 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
152623 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:152645 original size:19 final size:19
Alignment explanation
Indices: 152623--152751 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
152613 AAAATCGCAA
*
152623 TGCGATTTTGGTTTCGTGT
1 TGCGATTTTGGTTTCGCGT
*
152642 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
152656 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
152675 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
152689 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
152708 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
152727 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
152747 TGCGA
1 TGCGA
152752 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 21 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.54
20 13 0.15
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:152665 original size:33 final size:32
Alignment explanation
Indices: 152623--152715 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
152613 AAAATCGCAA
*
152623 TGCGATTTTGGTTTCGTGTTGCGATCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGAT-TTGTCGT
152656 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TGTCGT
**
152689 TGCGATTTTCATTTCGCGTTGCGATTT
1 TGCGATTTTGGTTTCGCGTTGCGATTT
152716 TGGTTTCGCG
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (32 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTGTCGT
Found at i:152915 original size:93 final size:93
Alignment explanation
Indices: 152799--153359 Score: 1090
Period size: 93 Copynumber: 6.1 Consensus size: 93
152789 ATGGATTGCA
152799 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
152863 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
152891 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
152956 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
152984 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
153049 TAGCAGAATTGGCAGCAACCGAAC-AAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
153076 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
153141 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
153169 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAAAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
153234 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
153262 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
153327 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
153355 TTACT
1 TTACT
153360 AAGCAATCTA
Statistics
Matches: 464, Mismatches: 3, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
92 96 0.21
93 368 0.79
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:153158 original size:185 final size:186
Alignment explanation
Indices: 152799--153359 Score: 1090
Period size: 185 Copynumber: 3.0 Consensus size: 186
152789 ATGGATTGCA
152799 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
152863 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
152928 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
152984 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
153049 TAGCAGAATTGGCAGCAACCGAAC-AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
153113 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
*
153169 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAAAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
153234 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
153299 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
153355 TTACT
1 TTACT
153360 AAGCAATCTA
Statistics
Matches: 372, Mismatches: 2, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
185 188 0.51
186 184 0.49
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:153300 original size:278 final size:279
Alignment explanation
Indices: 152799--153359 Score: 1090
Period size: 278 Copynumber: 2.0 Consensus size: 279
152789 ATGGATTGCA
152799 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
152863 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
152928 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
131 ATTTCACAGTGTTAAAAAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
152993 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
196 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
*
153058 TGGCAGCAACCGAA-CAAT
261 TGGCAGCAACCGAATAAAT
153076 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
153141 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
153206 ATTTCACAGTGTTAAAAAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
131 ATTTCACAGTGTTAAAAAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
153271 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
196 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
153336 TGGCAGCAACCGAATAAAT
261 TGGCAGCAACCGAATAAAT
153355 TTACT
1 TTACT
153360 AAGCAATCTA
Statistics
Matches: 280, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
277 4 0.01
278 268 0.96
279 8 0.03
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (279 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAAAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
TGGCAGCAACCGAATAAAT
Found at i:155090 original size:20 final size:20
Alignment explanation
Indices: 155056--155152 Score: 91
Period size: 20 Copynumber: 5.2 Consensus size: 20
155046 TTTTGGTTGA
*
155056 AATGAAAATCACAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
155076 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
155096 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
155115 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
155130 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
155150 AAT
1 AAT
155153 CGCAACGCGA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.07
17 2 0.03
19 15 0.25
20 19 0.31
21 12 0.20
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:155108 original size:21 final size:21
Alignment explanation
Indices: 155054--155118 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
155044 TCTTTTGGTT
*
155054 GAAATGAAAATCACAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
155075 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
155095 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
155116 GAA
1 GAA
155119 TCGCAACGCG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.49, C:0.15, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:155122 original size:14 final size:14
Alignment explanation
Indices: 155103--155159 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
155093 GAGAAATGAA
155103 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
155117 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
155136 AATCGCAACGAGAG
1 AATCGCAACGAGAG
155150 AATCGCAACG
1 AATCGCAACG
155160 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:155135 original size:33 final size:33
Alignment explanation
Indices: 155095--155175 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
155085 CGCAACGAGA
155095 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
155128 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
155161 GAAATG-AAATCGCAA
1 GAAATGAAAATCGCAA
155176 TGCGATTTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 9 0.19
33 39 0.81
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:155211 original size:14 final size:14
Alignment explanation
Indices: 155192--155248 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
155182 TTTGGTTTCG
155192 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
155206 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
155225 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
155239 CGTTGCGATT
1 CGTTGCGATT
155249 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:155224 original size:33 final size:33
Alignment explanation
Indices: 155176--155256 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
155166 GAAATCGCAA
**
155176 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
155209 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
155242 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
155257 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:155279 original size:20 final size:20
Alignment explanation
Indices: 155232--155287 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
155222 TCGCGTTGCG
***
155232 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACAGTC
155252 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGACAGTC
155273 ATTCTCTCGTTGCGA
1 ATTCTCTCGTTGCGA
155288 TTTCATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.43
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACAGTC
Found at i:155300 original size:20 final size:21
Alignment explanation
Indices: 155233--155309 Score: 104
Period size: 20 Copynumber: 3.8 Consensus size: 21
155223 CGCGTTGCGA
*
155233 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGACTTTCAT
**
155254 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGACTTTCAT
155274 TTCTCTCGTTGCGA-TTTCAT
1 TTCTCTCGTTGCGACTTTCAT
*
155294 TTATCTCGTTGCGACT
1 TTCTCTCGTTGCGACT
155310 CTTCTGCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.06
20 27 0.56
21 18 0.38
ACGTcount: A:0.12, C:0.26, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTCTCGTTGCGACTTTCAT
Found at i:155303 original size:40 final size:41
Alignment explanation
Indices: 155232--155308 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 41
155222 TCGCGTTGCG
*
155232 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
155273 ATTCTCTCGTTGCGA-TTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
155309 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 20 0.57
41 15 0.43
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.44
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:155429 original size:33 final size:33
Alignment explanation
Indices: 155387--155457 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
155377 AATACTAACT
*
155387 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
155420 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
155453 TGAAA
1 TGAAA
155458 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:155691 original size:22 final size:22
Alignment explanation
Indices: 155639--155693 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
155629 TGGTTGTGAG
**
155639 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
155661 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
155683 GGATTTCTTCG
1 GGATTTCTTCG
155694 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:155865 original size:20 final size:20
Alignment explanation
Indices: 155840--156033 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
155830 CTTTAAATAT
155840 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
155860 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
155882 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
155901 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
155921 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
155941 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
155961 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
155981 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
156001 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
156021 CGCGTTGCGATTT
1 CGCGTTGCGATTT
156034 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:156027 original size:60 final size:60
Alignment explanation
Indices: 155840--156033 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
155830 CTTTAAATAT
**
155840 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
155901 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
155961 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
156021 CGCGTTGCGATTT
1 CGCGTTGCGATTT
156034 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:156050 original size:21 final size:21
Alignment explanation
Indices: 156020--156102 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
156010 ATTTTCATAT
*
156020 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
156041 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
156062 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
* *
156083 TCACGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
156103 CTGATTTGCG
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 1 0.02
21 43 0.93
22 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:170064 original size:15 final size:15
Alignment explanation
Indices: 170027--170064 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
170017 AATAATTCTA
*
170027 AAAATAATTTATTAT
1 AAAATAATTTATTAC
*
170042 AAACTAATTTATTAC
1 AAAATAATTTATTAC
170057 AAAATAAT
1 AAAATAAT
170065 AATAAAAGTT
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:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATAATTTATTAC
Found at i:174278 original size:30 final size:30
Alignment explanation
Indices: 174237--174333 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
174227 TTCAAGTATC
*
174237 AAATTAATATTTTATATAAAATTTAGGGTT
1 AAATTAGTATTTTATATAAAATTTAGGGTT
* * *
174267 AAATTAGTATTTTATATAAAGTTTAAGATT
1 AAATTAGTATTTTATATAAAATTTAGGGTT
* * * *
174297 AAAAT-GACATTTTATCTGAAATTTAGGGGTT
1 AAATTAG-TATTTTATATAAAATTTA-GGGTT
174328 AAATTA
1 AAATTA
174334 AAATTTAATC
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
29 1 0.02
30 44 0.85
31 7 0.13
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.43
Consensus pattern (30 bp):
AAATTAGTATTTTATATAAAATTTAGGGTT
Found at i:177313 original size:37 final size:37
Alignment explanation
Indices: 177260--177334 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
177250 AGAAATTCAG
* *
177260 TTACATATTTGTTAGTTGAAATTACGTG-G-TTCAACTA
1 TTACATATTTGCTAGTTCAAA-T-CGTGTGATTCAACTA
177297 TTACATATTTGCTAGTTCAAATCGTGTGATTCAACTA
1 TTACATATTTGCTAGTTCAAATCGTGTGATTCAACTA
177334 T
1 T
177335 CTGTATGTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 4 0.12
36 2 0.06
37 28 0.82
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (37 bp):
TTACATATTTGCTAGTTCAAATCGTGTGATTCAACTA
Found at i:180203 original size:32 final size:32
Alignment explanation
Indices: 180162--180224 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
180152 ATTGTATGAT
180162 TACAATAACATTTATTATGTTTCCAATCACAA
1 TACAATAACATTTATTATGTTTCCAATCACAA
180194 TACAATAACATTTATTATGTTTCCAATCACA
1 TACAATAACATTTATTATGTTTCCAATCACA
180225 TTAAACGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (32 bp):
TACAATAACATTTATTATGTTTCCAATCACAA
Found at i:184669 original size:31 final size:30
Alignment explanation
Indices: 184618--184675 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
184608 ATATATGACC
184618 TTTCAAATATTATAAAATAATTATTAATTT
1 TTTCAAATATTATAAAATAATTATTAATTT
*
184648 TTTCAAATAATTATAATATAATTATTAA
1 TTTCAAAT-ATTATAAAATAATTATTAA
184676 AATTGATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTCAAATATTATAAAATAATTATTAATTT
Found at i:187918 original size:16 final size:16
Alignment explanation
Indices: 187897--187931 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
187887 AAAATACTTT
187897 ATATATATT-TAATTAA
1 ATATATATTCT-ATTAA
187913 ATATATATTCTATTAA
1 ATATATATTCTATTAA
187929 ATA
1 ATA
187932 AAAATTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATATTCTATTAA
Found at i:188753 original size:29 final size:29
Alignment explanation
Indices: 188677--188753 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
188667 ATTCAATCTA
*
188677 TAAAGTTCAGTGAGCAAAATAGAAAAAAAT
1 TAAAGTTCAGTGAG-AAAATAGAAAAAAAG
*
188707 TAAAAG-T-AATGAGTAAAATAAGAAAAAAAG
1 T-AAAGTTCAGTGAG-AAAAT-AGAAAAAAAG
188737 TAAAGTTCAGTGA-AAAA
1 TAAAGTTCAGTGAGAAAA
188754 CGATGTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
29 18 0.46
30 13 0.33
31 8 0.21
ACGTcount: A:0.60, C:0.04, G:0.17, T:0.19
Consensus pattern (29 bp):
TAAAGTTCAGTGAGAAAATAGAAAAAAAG
Found at i:191235 original size:31 final size:32
Alignment explanation
Indices: 191177--191236 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
191167 TCTAAAATTT
* *
191177 AAAAATCATAATTTAGACCCTTGAAAATTAAA
1 AAAAATAATAATTTAGACCCTTCAAAATTAAA
* *
191209 AAAAATAATAATTT-GGCCTTTCAAAATT
1 AAAAATAATAATTTAGACCCTTCAAAATT
191237 TTAGAAATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 11 0.46
32 13 0.54
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.32
Consensus pattern (32 bp):
AAAAATAATAATTTAGACCCTTCAAAATTAAA
Found at i:199853 original size:23 final size:23
Alignment explanation
Indices: 199827--199879 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
199817 CTGCGAGATA
199827 TACATATAAATAAATCAAAATAT
1 TACATATAAATAAATCAAAATAT
*
199850 TACATATAAATAAATTAAAATAT
1 TACATATAAATAAATCAAAATAT
*
199873 TATATAT
1 TACATAT
199880 TATGTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (23 bp):
TACATATAAATAAATCAAAATAT
Found at i:201050 original size:18 final size:18
Alignment explanation
Indices: 201027--201069 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
201017 CTAGAGAAAT
201027 GAAAATAGATTATCAATA
1 GAAAATAGATTATCAATA
201045 GAAAATAGATTATCAATA
1 GAAAATAGATTATCAATA
201063 GAAAATA
1 GAAAATA
201070 TAAATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.58, C:0.05, G:0.12, T:0.26
Consensus pattern (18 bp):
GAAAATAGATTATCAATA
Found at i:201549 original size:14 final size:13
Alignment explanation
Indices: 201524--201561 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
201514 AGGAAAGATT
201524 AAATATAACAAAG
1 AAATATAACAAAG
201537 AAATATGAACAAAG
1 AAATAT-AACAAAG
*
201551 ATATAT-ACAAA
1 AAATATAACAAA
201562 CATATCTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 5 0.22
13 6 0.26
14 12 0.52
ACGTcount: A:0.66, C:0.08, G:0.08, T:0.18
Consensus pattern (13 bp):
AAATATAACAAAG
Done.