Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003777.1 Hibiscus syriacus cultivar Beakdansim tig00008086_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: 97791
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:1658 original size:88 final size:90
Alignment explanation
Indices: 1532--1713 Score: 262
Period size: 88 Copynumber: 2.0 Consensus size: 90
1522 GTTTCCTGCC
* * * *
1532 TTTTTTATTTAGTTTTCATATTTTTTGCTTTTGTTTCTGTTAAAGAAAACCTTTGATTCTTCTCC
1 TTTTTTATTTAGTTTT-ATATTTTGTGCTTTCGTTTCTGTCAAAGAAAACCTTTGATTATTCTCC
1597 TAATGGTG-GTTTGAATGCTTTTGTT
65 TAATGGTGCGTTTGAATGCTTTTGTT
1622 TTTTTTATTTTAGTTTT-T-TTTTGTGCTTTCGTTTCTGTCAAAGAAAACCTTTGATTATTCTCC
1 TTTTTTA-TTTAGTTTTATATTTTGTGCTTTCGTTTCTGTCAAAGAAAACCTTTGATTATTCTCC
* * *
1685 TGATGGTGCTTTTGATTGCTTTTGTT
65 TAATGGTGCGTTTGAATGCTTTTGTT
1711 TTT
1 TTT
1714 ATTCTCCTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
88 48 0.58
89 19 0.23
90 7 0.08
91 9 0.11
ACGTcount: A:0.16, C:0.12, G:0.15, T:0.58
Consensus pattern (90 bp):
TTTTTTATTTAGTTTTATATTTTGTGCTTTCGTTTCTGTCAAAGAAAACCTTTGATTATTCTCCT
AATGGTGCGTTTGAATGCTTTTGTT
Found at i:2591 original size:14 final size:14
Alignment explanation
Indices: 2574--2601 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2564 ATAGACAAGT
2574 GTTGATAATTGTCG
1 GTTGATAATTGTCG
2588 GTTGATAATTGTCG
1 GTTGATAATTGTCG
2602 AATGGATAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
GTTGATAATTGTCG
Found at i:3233 original size:2 final size:2
Alignment explanation
Indices: 3226--3256 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3216 TGCTTAGGTA
3226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3257 AAGAATGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7483 original size:32 final size:31
Alignment explanation
Indices: 7377--7497 Score: 125
Period size: 32 Copynumber: 3.8 Consensus size: 31
7367 TAAGGTGACA
* * *
7377 CTTGGGTAGGCTTTGAGGCCCCAAGGTATTT
1 CTTGGGTAGGCTCTAAGGCCCCAAGGTATCT
* * *
7408 CATTGGGTAGGCTCTAAGGCCCTAATGTATTCC
1 C-TTGGGTAGGCTCTAAGGCCCCAAGGTA-TCT
* * *
7441 CTTAGGTAGGCTCTTAGGCCCCAAGGTACACT
1 CTTGGGTAGGCTCTAAGGCCCCAAGGTA-TCT
*
7473 CTTGGATAGGCTCTAAGGCCCCAAG
1 CTTGGGTAGGCTCTAAGGCCCCAAG
7498 ATAATCCCTT
Statistics
Matches: 72, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
31 1 0.01
32 69 0.96
33 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (31 bp):
CTTGGGTAGGCTCTAAGGCCCCAAGGTATCT
Found at i:7483 original size:64 final size:64
Alignment explanation
Indices: 7381--7517 Score: 172
Period size: 64 Copynumber: 2.1 Consensus size: 64
7371 GTGACACTTG
** * * *
7381 GGTAGGCTTTGAGGCCCCAAGGTATTTCATTGGGTAGGCTCTAAGGCCCTAATG-TATTCCCTTA
1 GGTAGGCTTTGAGGCCCCAAGGTAACTCATTGGATAGGCTCTAAGGCCCCAA-GATAATCCCTTA
7445 GGTAGGCTCTT-AGGCCCCAAGGTACACTC-TTGGATAGGCTCTAAGGCCCCAAGATAATCCCTT
1 GGTAGGCT-TTGAGGCCCCAAGGTA-ACTCATTGGATAGGCTCTAAGGCCCCAAGATAATCCCTT
7508 A
64 A
*
7509 GGTTGGCTT
1 GGTAGGCTT
7518 CTACGCCTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
63 2 0.03
64 58 0.91
65 4 0.06
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.28
Consensus pattern (64 bp):
GGTAGGCTTTGAGGCCCCAAGGTAACTCATTGGATAGGCTCTAAGGCCCCAAGATAATCCCTTA
Found at i:8810 original size:3 final size:3
Alignment explanation
Indices: 8802--8849 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
8792 TATCTAATTG
8802 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8849 T
1 T
8850 GCTTATTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10900 original size:22 final size:22
Alignment explanation
Indices: 10875--10918 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
10865 TCAAACGATG
*
10875 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
10897 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
10919 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:14559 original size:21 final size:20
Alignment explanation
Indices: 14532--14578 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
14522 TATTAAAGCG
14532 AAAAGAAAAA-AAAAGCAACA
1 AAAAGAAAAAGAAAAG-AACA
*
14552 ACAAAGAAAAAGCAAAGAACA
1 A-AAAGAAAAAGAAAAGAACA
14573 AAAAGA
1 AAAAGA
14579 GGACAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 14 0.58
22 4 0.17
ACGTcount: A:0.77, C:0.11, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAGAAAAGAACA
Found at i:15747 original size:4 final size:4
Alignment explanation
Indices: 15738--15780 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
15728 AAAAGTATAC
15738 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
15781 AAATTTGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
4 35 0.95
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:16371 original size:105 final size:102
Alignment explanation
Indices: 16242--16480 Score: 297
Period size: 105 Copynumber: 2.3 Consensus size: 102
16232 TGAGAATTTT
* * *
16242 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
16306 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
16347 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
16412 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
16449 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
16481 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 78 0.66
106 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:16471 original size:36 final size:36
Alignment explanation
Indices: 16426--16510 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
16416 ACAAAGTTGA
**
16426 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
16462 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
*
16498 TCTCATTTGAGAC
1 TCTCACTTGAGAC
16511 TATATCTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:16869 original size:29 final size:28
Alignment explanation
Indices: 16801--16896 Score: 113
Period size: 33 Copynumber: 3.2 Consensus size: 28
16791 TGAAATTTTT
16801 TTTGAGTTTGTTCCTTTTGAACAAAAAAAAATC
1 TTTGAGTTTGTTCCTTTTG-----AAAAAAATC
*
16834 TTGGAGTTTGTTCCTTTTGAATAAAAATC
1 TTTGAGTTTGTTCCTTTTGAA-AAAAATC
*
16863 TTTGAG-TTGTTTCTTTTGAAAAAAATC
1 TTTGAGTTTGTTCCTTTTGAAAAAAATC
16890 TTTGAGT
1 TTTGAGT
16897 CTATTTATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
27 13 0.22
28 15 0.26
29 12 0.21
33 18 0.31
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (28 bp):
TTTGAGTTTGTTCCTTTTGAAAAAAATC
Found at i:16907 original size:28 final size:27
Alignment explanation
Indices: 16825--16911 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 27
16815 TTTTGAACAA
* *
16825 AAAAAAATCTTGGAGTTTGTTCCTTTTG
1 AAAAAAATCTTTGAG-TTGTTTCTTTTG
16853 AATAAAAATCTTTGAGTTGTTTCTTTTG
1 AA-AAAAATCTTTGAGTTGTTTCTTTTG
* *
16881 AAAAAAATCTTTGAGTCTATTTATTTTG
1 AAAAAAATCTTTGAGT-TGTTTCTTTTG
16909 AAA
1 AAA
16912 CAAAGTTTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
27 14 0.26
28 27 0.51
29 12 0.23
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (27 bp):
AAAAAAATCTTTGAGTTGTTTCTTTTG
Found at i:16997 original size:50 final size:52
Alignment explanation
Indices: 16907--17008 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
16897 CTATTTATTT
*
16907 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTTTTG-CTCTCTTGAGACAATTTCGCGAAAAAATCTTTGAGTC
*
16959 TGAAACAAAGTTTTG-TCTCTTGAGACAATTTTGCGAAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGCTCTCTTGAGACAATTTCGCG-AAAAAATCTTTGAG
17009 ATTGTTTCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 18 0.39
52 28 0.61
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (52 bp):
TGAAACAAAGTTTTGCTCTCTTGAGACAATTTCGCGAAAAAATCTTTGAGTC
Found at i:17033 original size:31 final size:31
Alignment explanation
Indices: 16995--17090 Score: 126
Period size: 31 Copynumber: 3.1 Consensus size: 31
16985 AATTTTGCGA
*
16995 AAAAAATCTTTGAGATTGTTTCATTTGATAC
1 AAAAAATCTTTGAGATTGTTTCATTTGAAAC
*
17026 AAAAAATCTTTGAGATTGTTTCTTTTGAAAC
1 AAAAAATCTTTGAGATTGTTTCATTTGAAAC
*
17057 -AAAAATCTTTGAG-TCTGTTT-TTTTGGAAAC
1 AAAAAATCTTTGAGAT-TGTTTCATTT-GAAAC
17087 AAAA
1 AAAA
17091 TTTTGTCTCT
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
29 5 0.08
30 23 0.38
31 32 0.53
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (31 bp):
AAAAAATCTTTGAGATTGTTTCATTTGAAAC
Found at i:17063 original size:30 final size:30
Alignment explanation
Indices: 16996--17157 Score: 141
Period size: 30 Copynumber: 5.1 Consensus size: 30
16986 ATTTTGCGAA
* *
16996 AAAAATCTTTGAGATTGTTTCATTTGATAC
1 AAAAATCTTTGAGATTGTTTCTTTTGAAAC
17026 AAAAAATCTTTGAGATTGTTTCTTTTGAAAC
1 -AAAAATCTTTGAGATTGTTTCTTTTGAAAC
17057 AAAAATCTTTGAG-TCTGTTT-TTTTGGAAAC
1 AAAAATCTTTGAGAT-TGTTTCTTTT-GAAAC
* * **
17087 AAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
1 AAAA------ATCT-TTGAGATTGTTTCTTTTGAAAC
*
17124 AAAAATCTTTGAG-TCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGAT-TGTTTCTTTTGAAAC
17154 AAAA
1 AAAA
17158 TTTTGTCTCT
Statistics
Matches: 108, Mismatches: 11, Indels: 25
0.75 0.08 0.17
Matches are distributed among these distances:
29 6 0.06
30 47 0.44
31 31 0.29
36 3 0.03
37 16 0.15
38 5 0.05
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (30 bp):
AAAAATCTTTGAGATTGTTTCTTTTGAAAC
Found at i:17206 original size:65 final size:67
Alignment explanation
Indices: 17044--17210 Score: 293
Period size: 67 Copynumber: 2.5 Consensus size: 67
17034 TTTGAGATTG
*
17044 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTTTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
17109 AA
66 AA
17111 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
17176 AA
66 AA
* *
17178 TTTCTTTTG-GA-AAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCT
17211 CTTAAAATGA
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
65 21 0.22
66 1 0.01
67 75 0.77
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.46
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:17246 original size:64 final size:64
Alignment explanation
Indices: 17057--17271 Score: 238
Period size: 67 Copynumber: 3.3 Consensus size: 64
17047 CTTTTGAAAC
* * *
17057 AAAAATCTTTGAGTCTGTTTTTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
1 AAAAATCTTTGAATCTGTTTCTTT-GAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTG-G
17122 A
64 A
*
17123 CAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGG
1 -AAAAATCTTTGAATCTGTTTCTTT-GAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGG
17188 A
64 A
* * * * * *
17189 AAAAATCTTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTATCTCTTGAGACAGTTTCTCTT-G
1 AAAAATCTTTGAATCTGTTTCT-TTGAAACA-AAATTTTGTCTCTCTTAAGATAATTTCTTTTGG
17251 A
64 A
* *
17252 AGTAAATCTTTGAATATGTT
1 A-AAAATCTTTGAATCTGTT
17272 CATTTTGAAA
Statistics
Matches: 134, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
63 4 0.03
64 44 0.33
65 21 0.16
66 3 0.02
67 62 0.46
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (64 bp):
AAAAATCTTTGAATCTGTTTCTTTGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGGA
Found at i:18191 original size:28 final size:28
Alignment explanation
Indices: 18120--18201 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
18110 TAAAAATATC
* * *
18120 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
18148 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
18176 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
18202 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:18318 original size:43 final size:44
Alignment explanation
Indices: 18259--18462 Score: 188
Period size: 43 Copynumber: 4.7 Consensus size: 44
18249 TCATCCCCAG
*
18259 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCA-ACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCATAGATA
* * * *
18302 ACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTGTCAT-ACC-ATAGATA
* * * * * **
18348 GCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAG---
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCATAGATA
* *
18389 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCA-ACCGTAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCATAGATA
*
18432 ACCAG-CCGTCCTCATCACGTAGGAACCGTGT
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTGT
18463 TATCACCTTA
Statistics
Matches: 129, Mismatches: 23, Indels: 18
0.76 0.14 0.11
Matches are distributed among these distances:
40 4 0.03
41 29 0.22
42 2 0.02
43 55 0.43
44 2 0.02
45 5 0.04
46 31 0.24
47 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (44 bp):
ACCAGACCTCCTCATCACGTAGGAGCCGTGTCATACCATAGATA
Found at i:18582 original size:130 final size:129
Alignment explanation
Indices: 18213--18551 Score: 529
Period size: 130 Copynumber: 2.6 Consensus size: 129
18203 ATAACTCCTA
* * * *
18213 AAGATGGCCAG-CCGTCTTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCCTCATCAC
1 AAGATGGCCAGAAC-TCTTCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCAC
18277 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
65 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
*
18342 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCATCAC
1 AAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCCTCATCAC
*
18407 GTAGGAGCCGTGTCAACCGTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
65 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
* * *
18472 AAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCAACCCTC-GACCAGATTTCCTCATCA
1 AAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTGTCATCCC-CAGACCAGATCTCCTCATCA
* *
18536 CGTAGGAACCATGTCA
64 CGTAGGAGCCGTGTCA
18552 CCCTTAGACG
Statistics
Matches: 194, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
129 32 0.16
130 132 0.68
131 30 0.15
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (129 bp):
AAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACG
TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
Found at i:18765 original size:3 final size:3
Alignment explanation
Indices: 18757--18833 Score: 140
Period size: 3 Copynumber: 26.3 Consensus size: 3
18747 TATCTAATTG
18757 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18804 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18834 GCTTATTTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 4 0.06
3 68 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:20898 original size:22 final size:22
Alignment explanation
Indices: 20873--20916 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
20863 TCAAACGATG
*
20873 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
20895 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
20917 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:25589 original size:3 final size:3
Alignment explanation
Indices: 25581--25651 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
25571 TTTTTACCCA
* *
25581 TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT TTT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
25629 TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
25652 AATATATATT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:27695 original size:24 final size:25
Alignment explanation
Indices: 27663--27718 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 25
27653 TATTTAATTT
27663 ATATT-TTTTTTATA-TATATATAC
1 ATATTATTTTTTATAGTATATATAC
* *
27686 ATATTA-TTTTTATAGTATTTATAT
1 ATATTATTTTTTATAGTATATATAC
27710 ATATTATTT
1 ATATTATTT
27719 CATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 13 0.46
24 13 0.46
25 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
ATATTATTTTTTATAGTATATATAC
Found at i:38363 original size:19 final size:18
Alignment explanation
Indices: 38339--38409 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 18
38329 ATGCTTGAAG
38339 AAAAAAGAAAAAAAAAAGA
1 AAAAAAGAAAAAAAAAA-A
38358 AAAAAAGAAAAAAAAAAA
1 AAAAAAGAAAAAAAAAAA
38376 AGAAAATAGAAAATGAAAAAAA
1 A-AAAA-AGAAAA--AAAAAAA
* *
38398 AGAGAAGAAAAA
1 AAAAAAGAAAAA
38410 GAAAGGGGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
18 3 0.07
19 21 0.46
20 12 0.26
21 2 0.04
22 8 0.17
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAAAAAAAA
Found at i:38366 original size:26 final size:27
Alignment explanation
Indices: 38336--38413 Score: 88
Period size: 26 Copynumber: 2.9 Consensus size: 27
38326 ATTATGCTTG
38336 AAGAAAAAAGAAAAAAAAAAGAAAA-A
1 AAGAAAAAAGAAAAAAAAAAGAAAATA
* *
38362 AAGAAAAAAAAAAAAGAAAATAGAAAATG
1 AAGAAAAAAGAAAAA-AAAA-AGAAAATA
* *
38391 AA-AAAAAAGAGAAGAAAAAGAAA
1 AAGAAAAAAGAAAAAAAAAAGAAA
38414 GGGGGTCAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 15 0.34
29 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (27 bp):
AAGAAAAAAGAAAAAAAAAAGAAAATA
Found at i:38369 original size:20 final size:20
Alignment explanation
Indices: 38339--38413 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 20
38329 ATGCTTGAAG
38339 AAAAAAG-AAAAAAAAAAGA
1 AAAAAAGAAAAAAAAAAAGA
38358 AAAAAAGAAAAAAAAAAAAGA
1 AAAAAAG-AAAAAAAAAAAGA
38379 AAATAGAA-AATGAAAAAAAAGAGA
1 AAA-A-AAGAA--AAAAAAAA-AGA
38403 AGAAAAAGAAA
1 A-AAAAAGAAA
38414 GGGGGTCAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 15
0.76 0.00 0.24
Matches are distributed among these distances:
19 7 0.15
21 17 0.36
22 2 0.04
23 12 0.26
24 7 0.15
25 2 0.04
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (20 bp):
AAAAAAGAAAAAAAAAAAGA
Found at i:38398 original size:1 final size:1
Alignment explanation
Indices: 38339--38381 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
38329 ATGCTTGAAG
* * * *
38339 AAAAAAGAAAAAAAAAAGAAAAAAAGAAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
38382 TAGAAAATGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:38752 original size:16 final size:16
Alignment explanation
Indices: 38726--38770 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
38716 TTTGAATACA
*
38726 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
38743 A-TCAATTTATTTGAG
1 ATTCAATTTATTTAAG
38758 ATTCAATTTATTT
1 ATTCAATTTATTT
38771 TTGAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 21 0.84
17 1 0.04
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:40045 original size:83 final size:83
Alignment explanation
Indices: 39406--40046 Score: 1081
Period size: 83 Copynumber: 7.7 Consensus size: 83
39396 CATTAAATGA
* *
39406 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGA
*
39471 ACCAATCATTGTATTTAG
66 ACCAATCATTGAATTTAG
* *
39489 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGA
39554 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
*
39572 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT-AGCAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGA-CAG
**
39636 AACCAATCATTGAATTGGG
65 AACCAATCATTGAATTTAG
* * *
39655 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGA
39720 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
*
39738 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT-AGCAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGA-CAG
39802 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTAG
*
39821 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT-AGCAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGA-CAG
*
39885 AACCAATCATTGAATTTGG
65 AACCAATCATTGAATTTAG
* *
39904 AAGATGAATTTGCTAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGA
*
39969 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTAG
39987 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
40047 GTAAGAACTA
Statistics
Matches: 532, Mismatches: 22, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
82 2 0.00
83 528 0.99
84 2 0.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (83 bp):
AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGA
ACCAATCATTGAATTTAG
Found at i:41405 original size:112 final size:113
Alignment explanation
Indices: 40772--41407 Score: 812
Period size: 114 Copynumber: 5.6 Consensus size: 113
40762 ATTCAAATCT
*
40772 ATCATTTGATGGATTATCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
40836 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACTTGAATTC
* * *
40884 ATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATC-ATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* ** *
40949 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCCGAATCC
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACTTGAATTC
*
40998 ATCATTTGATGGATCAGTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
1 ATCATTTGATGGATCA-TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
41063 AGAAGAAGTTCATAATGAGAAGAA-TT-TTCAACCTTTTTC-TGAATTC
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACTTGAATTC
* * * *
41109 ATCAAGTTGATGGATTATCTTTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 ATC-ATTTGATGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGA
* *
41173 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
61 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACTTGAATTC
* * * *
41226 ATCA-TT--T-GATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* *
41286 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATC-TTTGCTTGAATTC
62 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACTTGAATTC
* * * *
41337 ATCATTTGATGGATCATC-ATCCCAGCAGAAAGTTTCATAATGAGAAGAACTCATTTGAAGAAAG
1 ATCATTTGATGGATCATCTTTTCCAG-AGAAAG-TTCATAATGAGAAGAACTCATCTGAAGAAGG
41401 -AGAAGAA
64 AAGAAGAA
41408 TTTATTCAAT
Statistics
Matches: 479, Mismatches: 27, Indels: 36
0.88 0.05 0.07
Matches are distributed among these distances:
110 1 0.00
111 53 0.11
112 123 0.26
113 51 0.11
114 199 0.42
115 13 0.03
116 29 0.06
117 10 0.02
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACTTGAATTC
Found at i:41550 original size:3 final size:3
Alignment explanation
Indices: 41542--41607 Score: 93
Period size: 3 Copynumber: 23.0 Consensus size: 3
41532 TTTTTACCCA
*
41542 TAT TAT TAT TAT TA- TAT T-T TTT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
41588 TAT CAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
41608 AAATATTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
2 6 0.11
3 51 0.89
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:44036 original size:20 final size:20
Alignment explanation
Indices: 43991--44036 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
43981 GATCAACAAA
*
43991 ATCGCAATGCGATCGCTAAT
1 ATCGCAACGCGATCGCTAAT
* *
44011 -TCGCAACGCGATCTCTATT
1 ATCGCAACGCGATCGCTAAT
44030 ATCGCAA
1 ATCGCAA
44037 ATCAGTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATCGCTAAT
Found at i:44103 original size:21 final size:21
Alignment explanation
Indices: 44079--44135 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
44069 TATCGCAATG
*
44079 CGATTTTT-CAATTTCGCATTA
1 CGATTTTTCCAA-TTCCCATTA
*
44100 CGATTTTTCCAATTCCCATTG
1 CGATTTTTCCAATTCCCATTA
*
44121 CGATTTTCCCAATTC
1 CGATTTTTCCAATTC
44136 GCAATATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 29 0.91
22 3 0.09
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (21 bp):
CGATTTTTCCAATTCCCATTA
Found at i:44261 original size:20 final size:20
Alignment explanation
Indices: 44236--44329 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
44226 TTTTCATAAT
44236 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
44256 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
44276 TCGCAATACGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
44297 TCGCAATGCAAATACGTAAA
1 TCGCAATGCGAATACGTAAA
44317 TCGCAATGCGAAT
1 TCGCAATGCGAAT
44330 CTGACTATCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 44 0.73
21 16 0.27
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:44297 original size:21 final size:21
Alignment explanation
Indices: 44151--44329 Score: 95
Period size: 20 Copynumber: 8.8 Consensus size: 21
44141 ATGAATAAGT
44151 AAATCGCAATGCG-A-TACTGA
1 AAATCGCAATGCGAATTAC-GA
** * *
44171 CTATCGCAACGCGATAATAC-A
1 AAATCGCAATGCGA-ATTACGA
*
44192 AAATCGCAATGCGATTTACG-
1 AAATCGCAATGCGAATTACGA
* * ** * *
44212 TATTCGCGTTGCGATTTTC-A
1 AAATCGCAATGCGAATTACGA
* *
44232 TAATTCGCAATGCGAA-TACGT
1 -AAATCGCAATGCGAATTACGA
* * *
44253 AAATCGCAACGCG-ATTAAGT
1 AAATCGCAATGCGAATTACGA
* *
44273 AAATCGCAATACGAATTAGGA
1 AAATCGCAATGCGAATTACGA
* *
44294 AAATCGCAATGC-AAATACGT
1 AAATCGCAATGCGAATTACGA
44314 AAATCGCAATGCGAAT
1 AAATCGCAATGCGAAT
44330 CTGACTATCG
Statistics
Matches: 118, Mismatches: 31, Indels: 19
0.70 0.18 0.11
Matches are distributed among these distances:
19 1 0.01
20 72 0.61
21 41 0.35
22 1 0.01
23 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (21 bp):
AAATCGCAATGCGAATTACGA
Found at i:44298 original size:41 final size:41
Alignment explanation
Indices: 44236--44329 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
44226 TTTTCATAAT
* * *
44236 TCGCAATGCGAA-TACGTAAATCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCAAATAAGTAAA
* * * *
44276 TCGCAATACGAATTAGGAAAATCGCAATGCAAATACGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCAAATAAGTAAA
44317 TCGCAATGCGAAT
1 TCGCAATGCGAAT
44330 CTGACTATCG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 11 0.24
41 34 0.76
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.20
Consensus pattern (41 bp):
TCGCAATGCGAATTACGAAAATCGCAACGCAAATAAGTAAA
Found at i:44898 original size:20 final size:19
Alignment explanation
Indices: 44873--44941 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 19
44863 TAGTTTCGAG
44873 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGC-GA
*
44893 AATGAAAATCGCAA--TG-
1 AATGAAAATCGCAACGCGA
*
44909 -A-GAGAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
44926 AATGAAAATCGCAACG
1 AATGAAAATCGCAACG
44942 AGAGAATCGC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 12 0.30
20 14 0.35
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
AATGAAAATCGCAACGCGA
Found at i:44933 original size:33 final size:33
Alignment explanation
Indices: 44879--44971 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
44869 CGAGAATGAA
*
44879 AATCGCAACGCGGAAATGAAAATCGCAATGAGAG
1 AATCGCAACGC-GAAATGAAAATCGCAACGAGAG
44913 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
* **
44946 AATCGCAACTCGAAACCAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
44972 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
33 44 0.80
34 11 0.20
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:45049 original size:20 final size:19
Alignment explanation
Indices: 44967--45075 Score: 129
Period size: 20 Copynumber: 5.9 Consensus size: 19
44957 GAAACCAAAA
*
44967 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
44986 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
45005 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
45019 TCTCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
45038 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
45058 CTCTCGTTGCGATTTTCA
1 -TCGCGTTGCGATTTTCA
45076 GTTCAACCAA
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
14 9 0.12
16 3 0.04
17 3 0.04
19 30 0.39
20 31 0.40
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:47351 original size:21 final size:21
Alignment explanation
Indices: 47327--47393 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
47317 TCATTCCTCG
47327 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
47348 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
47369 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
47390 AGAG
1 AGAG
47394 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:47351 original size:42 final size:42
Alignment explanation
Indices: 47300--47393 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
47290 CAACTCCTAT
* *
47300 CGTTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCAC
* * *
47342 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
*
47384 CATTCAAGAG
1 CGTTCAAGAG
47394 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 4 0.09
42 38 0.86
43 2 0.05
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:48763 original size:14 final size:14
Alignment explanation
Indices: 48744--48793 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
48734 ATTGTTTAAT
48744 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
48758 TGATTTGTAAAATA
1 TGATTTGTAAAAGA
*
48772 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
48786 TGATTTGT
1 TGATTTGT
48794 TTAATTGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:48922 original size:19 final size:19
Alignment explanation
Indices: 48900--48994 Score: 96
Period size: 19 Copynumber: 5.3 Consensus size: 19
48890 AAAAATGACT
*
48900 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
48919 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
48933 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
48952 ATCGCAACGTGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
48971 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
48990 ATCGC
1 ATCGC
48995 GTTGCGATTT
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
14 10 0.15
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 49 0.74
20 1 0.02
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:48984 original size:38 final size:33
Alignment explanation
Indices: 48900--48965 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
48890 AAAAATGACT
* *
48900 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
*
48933 ATCGCAACGCGAAATGAAAATCGCAACGTGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
48966 CTAAAATCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
Found at i:49001 original size:19 final size:19
Alignment explanation
Indices: 48932--48994 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
48922 GCAACGAGAG
48932 AATCGCAACGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
*
48951 AATCGCAACGTGAAACTAA
1 AATCGCAACGCGAAACTAA
48970 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
48989 AATCGC
1 AATCGC
48995 GTTGCGATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 40 0.98
20 1 0.02
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:49013 original size:19 final size:19
Alignment explanation
Indices: 48991--49088 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
48981 GAAACTAAAA
48991 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
49010 TCGCTTTGCGA-TTTC---
1 TCGCGTTGCGATTTTCATT
* *
49025 -CTCGTTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
49043 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
49057 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
49076 TTGCATTGCGATT
1 TCGCGTTGCGATT
49089 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 10, Indels: 20
0.66 0.11 0.22
Matches are distributed among these distances:
14 17 0.29
15 4 0.07
16 3 0.05
17 3 0.05
18 4 0.07
19 28 0.47
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:49038 original size:33 final size:33
Alignment explanation
Indices: 48994--49120 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
48984 ACTAAAATCG
* *
48994 CGTTGCGATTTTCATTTCGCTTTGCGATT-TCCT
1 CGTTGCAATTTTCATTTCGCATTGCGATTCT-CT
*
49027 CGTTGCAATTTTCATTTCGCATTGCGATTCTCG
1 CGTTGCAATTTTCATTTCGCATTGCGATTCTCT
* *
49060 CGTTGCGATTTTCATTTTGCATTGCGATTCTCT
1 CGTTGCAATTTTCATTTCGCATTGCGATTCTCT
*
49093 CGTTGCAATTTTTATTTCGCATTGCGAT
1 CGTTGCAATTTTCATTTCGCATTGCGAT
49121 AGTCATTTCC
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
33 83 0.99
34 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
CGTTGCAATTTTCATTTCGCATTGCGATTCTCT
Found at i:49097 original size:66 final size:66
Alignment explanation
Indices: 48991--49120 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
48981 GAAACTAAAA
*
48991 TCGCGTTGCGATTTTCATTTCGCTTTGCGATTTCCTCGTTGCAATTTTCATTTCGCATTGCGATT
1 TCGCGTTGCGATTTTCATTTCGCATTGCGATTTCCTCGTTGCAATTTTCATTTCGCATTGCGATT
49056 C
66 C
* *
49057 TCGCGTTGCGATTTTCATTTTGCATTGCGA-TTCTCTCGTTGCAATTTTTATTTCGCATTGCGAT
1 TCGCGTTGCGATTTTCATTTCGCATTGCGATTTC-CTCGTTGCAATTTTCATTTCGCATTGCGAT
49121 AGTCATTTCC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 3 0.05
66 57 0.95
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (66 bp):
TCGCGTTGCGATTTTCATTTCGCATTGCGATTTCCTCGTTGCAATTTTCATTTCGCATTGCGATT
C
Found at i:49128 original size:19 final size:20
Alignment explanation
Indices: 49106--49147 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
49096 TGCAATTTTT
*
49106 ATTT-CGCATTGCGATAGTC
1 ATTTCCGCATTGCGATAGAC
49125 ATTTCCGCATTGCGATAGAC
1 ATTTCCGCATTGCGATAGAC
49145 ATT
1 ATT
49148 AAGATGATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (20 bp):
ATTTCCGCATTGCGATAGAC
Found at i:49186 original size:20 final size:20
Alignment explanation
Indices: 49114--49186 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
49104 TTATTTCGCA
* **
49114 TTGCGATAGTCATTTCCGCA
1 TTGCGATAGTCATTTACGTG
* *
49134 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTACG-TG
*
49154 ATTGCGA-ACGTCATTTTCGTG
1 -TTGCGATA-GTCATTTACGTG
49175 TTGCGATAGTCA
1 TTGCGATAGTCA
49187 AATAAATGTC
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.55
21 12 0.30
22 3 0.08
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTACGTG
Found at i:51665 original size:24 final size:24
Alignment explanation
Indices: 51631--51684 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
51621 CTAAAACATC
*
51631 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
51655 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
51679 ATCAAA
1 ATCAAA
51685 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:52390 original size:20 final size:20
Alignment explanation
Indices: 52365--52446 Score: 137
Period size: 20 Copynumber: 4.1 Consensus size: 20
52355 ACACAAAAAT
52365 CGCGATTCTGACTTTCGCAA
1 CGCGATTCTGACTTTCGCAA
*
52385 CGCGATTTTGACTTTCGCAA
1 CGCGATTCTGACTTTCGCAA
52405 CGCGATTCTGACTTTCGCAA
1 CGCGATTCTGACTTTCGCAA
* *
52425 CGAGATTCTGACTATCGCAA
1 CGCGATTCTGACTTTCGCAA
52445 CG
1 CG
52447 AGATAATACA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (20 bp):
CGCGATTCTGACTTTCGCAA
Found at i:52846 original size:20 final size:20
Alignment explanation
Indices: 52793--52848 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
52783 CAACGGGGAA
52793 ATCGCAACGCA-AAAATGACT
1 ATCGCAACG-AGAAAATGACT
*
52813 ATCGCAACGTGAAAATGACT
1 ATCGCAACGAGAAAATGACT
52833 ATCGCAACGAGAAAAT
1 ATCGCAACGAGAAAAT
52849 CGCAACGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (20 bp):
ATCGCAACGAGAAAATGACT
Found at i:52910 original size:19 final size:19
Alignment explanation
Indices: 52867--52931 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
52857 GAAATGAAAA
52867 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
52883 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
52900 TTGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
52919 TCGCATTGCGATT
1 TCGCATTGCGATT
52932 CTCTCGTTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 11 0.26
16 3 0.07
17 2 0.05
19 26 0.62
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:54603 original size:42 final size:43
Alignment explanation
Indices: 54523--54603 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
54513 CAATGACAGT
* *
54523 GGCCTCTTGAACGGTGGGGGGGAGACTCTTGAGGGATGATAGG
1 GGCCTCTTGAACGATGGGAGGGAGACTCTTGAGGGATGATAGG
* *
54566 GGCCTCTTGAACGATTGGAGGG-GATTCTTGAGGGATGA
1 GGCCTCTTGAACGATGGGAGGGAGACTCTTGAGGGATGA
54604 CATGTGAGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 15 0.44
43 19 0.56
ACGTcount: A:0.20, C:0.14, G:0.43, T:0.23
Consensus pattern (43 bp):
GGCCTCTTGAACGATGGGAGGGAGACTCTTGAGGGATGATAGG
Found at i:54998 original size:20 final size:20
Alignment explanation
Indices: 54951--55062 Score: 120
Period size: 20 Copynumber: 5.7 Consensus size: 20
54941 TAGTTTACTT
* *
54951 TCGCAACACGAAACAT-ACTT
1 TCGCAACGCGAAA-ATGACTA
54971 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
54991 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* *
55011 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
55031 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
55050 TCGCAACGCGAAA
1 TCGCAACGCGAAA
55063 CATAAATCGC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
19 17 0.21
20 64 0.79
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:55168 original size:20 final size:20
Alignment explanation
Indices: 55119--55171 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
55109 GCGATTTTCA
*
55119 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
55139 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGCCAT
*
55159 TTTCGTGTTGCGA
1 TTTCGCGTTGCGA
55172 AAGTAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.40
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:55729 original size:18 final size:18
Alignment explanation
Indices: 55706--55754 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
55696 TGGGTCGATT
55706 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
* *
55724 AGGTGATAGCTCGGGGTG
1 AGGTGATGGCTCTGGGTG
55742 AGGTGATGGCTCT
1 AGGTGATGGCTCT
55755 CGAAGTGGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.14, C:0.12, G:0.47, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:57097 original size:20 final size:20
Alignment explanation
Indices: 57072--57114 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
57062 AATAGTTTCT
57072 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
* *
57092 GAAAATGACAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
57112 GAA
1 GAA
57115 TTTGATTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.21, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:57646 original size:20 final size:20
Alignment explanation
Indices: 57621--57666 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
57611 ACGATTATGT
*
57621 ATTATCTCGTTGCGAAAGTC
1 ATTATCTAGTTGCGAAAGTC
57641 ATTATCTAGTTGCGAAAGTC
1 ATTATCTAGTTGCGAAAGTC
*
57661 AGTATC
1 ATTATC
57667 GCATTGCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (20 bp):
ATTATCTAGTTGCGAAAGTC
Found at i:57673 original size:20 final size:20
Alignment explanation
Indices: 57630--57716 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
57620 TATTATCTCG
* *
57630 TTGCGAAAGTCATTATC-TA
1 TTGCGAAAGTCAGTATCGCA
57649 GTTGCGAAAGTCAGTATCGCA
1 -TTGCGAAAGTCAGTATCGCA
** * *
57670 TTGCGATTTTGT-ATTATCGCG
1 TTGCGA--AAGTCAGTATCGCA
*
57691 TTGCGATAGTCAGTATCGCA
1 TTGCGAAAGTCAGTATCGCA
57711 TTGCGA
1 TTGCGA
57717 TTTTCCAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
19 3 0.06
20 35 0.65
21 14 0.26
22 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
TTGCGAAAGTCAGTATCGCA
Found at i:57687 original size:41 final size:41
Alignment explanation
Indices: 57641--57720 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
57631 TGCGAAAGTC
*
57641 ATTATCTAGTTGCGAAAGTCAGTATCGCATTGCGATTTTGT
1 ATTATCGAGTTGCGAAAGTCAGTATCGCATTGCGATTTTGT
* *
57682 ATTATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATTATCGAGTTGCGAAAGTCAGTATCGCATTGCGATTTT
57721 CCAAATTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (41 bp):
ATTATCGAGTTGCGAAAGTCAGTATCGCATTGCGATTTTGT
Found at i:57689 original size:21 final size:22
Alignment explanation
Indices: 57658--57720 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 22
57648 AGTTGCGAAA
57658 GTCAGTATCGCATTGCGATTTT
1 GTCAGTATCGCATTGCGATTTT
* * *
57680 GT-ATTATCGCGTTGCGA--TA
1 GTCAGTATCGCATTGCGATTTT
57699 GTCAGTATCGCATTGCGATTTT
1 GTCAGTATCGCATTGCGATTTT
57721 CCAAATTTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
21 13 0.41
22 3 0.09
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (22 bp):
GTCAGTATCGCATTGCGATTTT
Found at i:57717 original size:20 final size:20
Alignment explanation
Indices: 57650--57717 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
57640 CATTATCTAG
*
57650 TTGCGAAAGTCAGTATCGCA
1 TTGCGATAGTCAGTATCGCA
* * *
57670 TTGCGATTTTGT-ATTATCGCG
1 TTGCGA--TAGTCAGTATCGCA
57691 TTGCGATAGTCAGTATCGCA
1 TTGCGATAGTCAGTATCGCA
57711 TTGCGAT
1 TTGCGAT
57718 TTTCCAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 3 0.08
20 20 0.53
21 13 0.34
22 2 0.05
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCAGTATCGCA
Found at i:57736 original size:41 final size:41
Alignment explanation
Indices: 57650--57738 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
57640 CATTATCTAG
* ** *
57650 TTGCGAAAGTCAGTATCGCATTGCGATTTTGTATTATCGCG
1 TTGCGATAGTCAGTATCGCATTGCGATTTTAAATTATCGCA
57691 TTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATT-T-GCA
1 TTGCGATAGTCAGTATCGCATTGCGATTTT--AAATTATCGCA
57732 TTGCGAT
1 TTGCGAT
57739 TTACTTAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 38 0.90
42 1 0.02
43 3 0.07
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (41 bp):
TTGCGATAGTCAGTATCGCATTGCGATTTTAAATTATCGCA
Found at i:57799 original size:21 final size:22
Alignment explanation
Indices: 57745--57799 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
57735 CGATTTACTT
57745 AATCGCAATGCG-AATTGGGAA
1 AATCGCAATGCGAAATTGGGAA
* *
57766 AATCACAACGCGAAATT-GGAA
1 AATCGCAATGCGAAATTGGGAA
*
57787 AATCGCATTGCGA
1 AATCGCAATGCGA
57800 TAGTAATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (22 bp):
AATCGCAATGCGAAATTGGGAA
Found at i:64885 original size:15 final size:16
Alignment explanation
Indices: 64865--64899 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
64855 TACATGATTA
64865 TGAACATGTG-ACATG
1 TGAACATGTGTACATG
*
64880 TGAACATGTGTAGATG
1 TGAACATGTGTACATG
64896 TGAA
1 TGAA
64900 AGTGCCTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (16 bp):
TGAACATGTGTACATG
Found at i:65010 original size:21 final size:22
Alignment explanation
Indices: 64984--65032 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
64974 TCGAGGGTTC
64984 TATGTGGTC-CTTCGG-GACAAA-
1 TATGTGG-CACTTCGGTG-CAAAT
65005 TATGTGGCACTTCGGTGCAAAT
1 TATGTGGCACTTCGGTGCAAAT
65027 TATGTG
1 TATGTG
65033 AGTTGTGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (22 bp):
TATGTGGCACTTCGGTGCAAAT
Found at i:67491 original size:18 final size:16
Alignment explanation
Indices: 67468--67513 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
67458 AGTTTATGAG
67468 GGAATTAGAATCTGTGAA
1 GGAATTAGAATCTGT--A
* *
67486 GGAATTGGAATATGTA
1 GGAATTAGAATCTGTA
67502 GGAATTAGAATC
1 GGAATTAGAATC
67514 CAATTCCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 11 0.46
18 13 0.54
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.28
Consensus pattern (16 bp):
GGAATTAGAATCTGTA
Found at i:68120 original size:32 final size:32
Alignment explanation
Indices: 68068--68150 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 32
68058 TTTTCACTCT
68068 AAACCCGAACCCGACCCGAATATCACACTTAAA
1 AAACCCG-ACCCGACCCGAATATCACACTTAAA
*
68101 AAACCCGACCCGACTCGAATATCACACTTAAA
1 AAACCCGACCCGACCCGAATATCACACTTAAA
*
68133 AAACCCGA-CCAACCCGAA
1 AAACCCGACCCGACCCGAA
68151 CAAAATAAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 8 0.17
32 32 0.68
33 7 0.15
ACGTcount: A:0.42, C:0.37, G:0.10, T:0.11
Consensus pattern (32 bp):
AAACCCGACCCGACCCGAATATCACACTTAAA
Found at i:68437 original size:287 final size:288
Alignment explanation
Indices: 67887--68445 Score: 762
Period size: 287 Copynumber: 1.9 Consensus size: 288
67877 ATTTTTATTC
67887 AATATATGAATTAGAAACCCGACCCGACACGACTCAAAATAATAAAAAAATTATTTTTATTCAAT
1 AATATATGAATTAGAAACCCGACCCGA-AC-ACTCAAAATAATAAAAAAATTATTTTTATTCAAT
* *
67952 AAAAACATTGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTATAATTATTCCTAAATA
64 AAAAACAGTGACTTAATTGAAAAAAATTATATAGAGAGGGGTATTATTATAATTATTCCTAAATA
* *
68017 TATAAGGTAAAATTATATATTTTTTCGGGTCGGTCCGGTTTTTTTCACTCTAAACCCGAACCCGA
129 TATAAGGTAAAATTATATATTTTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGA
*
68082 CCCGAATATCACACTTAAAAAACCCGACCCGACTCGAATATCACACTTAAAAAACCCGACCAACC
194 CCCGAATATCACACTTAAAAAACCCGACCCGAAT--AATATCACACTTAAAAAACCCGACCAACC
68147 CGAACAAAATAAAGTTTCACCCGACCCAACCCG
257 CGAA-AAAATAAAGTTTCACCCGACCCAACCCG
* * *
68180 AATATATGAATTAGAAATCCGACCCG-AC-C-CGAAATAAT-AAAAAATTATTTTTATTTAATAA
1 AATATATGAATTAGAAACCCGACCCGAACACTCAAAATAATAAAAAAATTATTTTTATTCAATAA
* * **
68241 AAATAGTGACTTAATTG-AAAAAATATATATAGAGAGGGGTATTATTGTAATTATTTTTAAATAT
66 AAACAGTGACTTAATTGAAAAAAAT-TATATAGAGAGGGGTATTATTATAATTATTCCTAAATAT
68305 ATAAGGTAAAATTATATATATTTTT-GGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGA
130 ATAAGGTAAAATTATATAT-TTTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGA
* * *
68369 CCCGACCCAAATATCACACTTAATTAAACCCGGCCCGAAT-ATAT-A-A-TT-AGAAACCCGACC
194 CCCG-----AATATCACACTTAA-AAAACCCGACCCGAATAATATCACACTTAAAAAACCCGA-C
* *
68429 CGACCCGAAATAATAAA
252 CAACCCGAAAAAATAAA
68446 AAAATATTTT
Statistics
Matches: 240, Mismatches: 17, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
286 23 0.10
287 143 0.60
288 14 0.06
289 2 0.01
290 4 0.02
291 2 0.01
292 14 0.06
293 38 0.16
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.28
Consensus pattern (288 bp):
AATATATGAATTAGAAACCCGACCCGAACACTCAAAATAATAAAAAAATTATTTTTATTCAATAA
AAACAGTGACTTAATTGAAAAAAATTATATAGAGAGGGGTATTATTATAATTATTCCTAAATATA
TAAGGTAAAATTATATATTTTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGACC
CGAATATCACACTTAAAAAACCCGACCCGAATAATATCACACTTAAAAAACCCGACCAACCCGAA
AAAATAAAGTTTCACCCGACCCAACCCG
Found at i:72489 original size:21 final size:21
Alignment explanation
Indices: 72463--72536 Score: 130
Period size: 21 Copynumber: 3.5 Consensus size: 21
72453 GTTTCCAGAT
72463 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
72484 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
72505 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
72526 TCGCAATGCGA
1 TCGCAACGCGA
72537 TTTTCCAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.16
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:72636 original size:63 final size:61
Alignment explanation
Indices: 72540--72682 Score: 189
Period size: 63 Copynumber: 2.3 Consensus size: 61
72530 AATGCGATTT
* *
72540 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTTCAAA-TTCGCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTA-TTCAAAGTT--CGTTGCGATAG
* *
72603 TCCAAGTTCGTTTCGATAGTCGAAGTTCACGTTGCGATTTATTCAAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTATTCAAAGTTCGTTGCGATAG
*
72664 TCGAAGTTCGCGTTGCGAT
1 TCCAAGTT--CGTTGCGAT
72683 TTATTCCAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
61 18 0.25
62 6 0.08
63 47 0.66
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (61 bp):
TCCAAGTTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTATTCAAAGTTCGTTGCGATAG
Found at i:72656 original size:42 final size:43
Alignment explanation
Indices: 72606--72707 Score: 172
Period size: 42 Copynumber: 2.4 Consensus size: 43
72596 GCGATAGTCC
*
72606 AAGTTCGTTTCGATAGTCGAAGTTCACGTTGCGATTTATT-CA
1 AAGTTCGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCA
*
72648 AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCA
1 AAGTTCGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCA
72691 AA-TTCGTTGCGATAGTC
1 AAGTTCGTTGCGATAGTC
72708 CAAAATCGCA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
42 53 0.93
43 4 0.07
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.36
Consensus pattern (43 bp):
AAGTTCGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCA
Found at i:72700 original size:63 final size:61
Alignment explanation
Indices: 72540--72703 Score: 163
Period size: 63 Copynumber: 2.6 Consensus size: 61
72530 AATGCGATTT
* * *
72540 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTTCAAATTCGCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAATT-ACGTTGCGATTTATTTCAAATTC-CGTTGCGATAG
* * *
72603 TCCAAGTTCGTTTCGATAGTCGAAGTTCACGTTGCGATTTA-TTCAAAGTT-CGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAATT-ACGTTGCGATTTATTTCAAA-TTCCGTTGCGATAG
* *
72664 TCGAAGTTCGCGTTGCGATTTATTCCAAATT-CGTTGCGAT
1 TCCAAGTT--CGTTGCGA--TAGTCCAAATTACGTTGCGAT
72704 AGTCCAAAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
61 18 0.21
62 6 0.07
63 55 0.63
65 8 0.09
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (61 bp):
TCCAAGTTCGTTGCGATAGTCCAAATTACGTTGCGATTTATTTCAAATTCCGTTGCGATAG
Found at i:72811 original size:6 final size:6
Alignment explanation
Indices: 72800--72846 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
72790 GACACTTATT
72800 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCAC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCAC
72847 TACCCGAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.34, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:73509 original size:6 final size:6
Alignment explanation
Indices: 73492--73523 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
73482 TATCATCTCA
73492 GGTCGT -GTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
73524 AATACGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
GGTCGT
Found at i:73646 original size:21 final size:21
Alignment explanation
Indices: 73620--73752 Score: 130
Period size: 21 Copynumber: 6.4 Consensus size: 21
73610 ATTTTGGACT
*
73620 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
73641 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
73662 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
* * *
73683 ATCTCAACGAATTTGAAATAA
1 ATCGCAACGAACTTGGAATAA
* * *
73704 ATCGCAATGAACTTCGACT--
1 ATCGCAACGAACTTGGAATAA
*
73723 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
73744 ATCGCAACG
1 ATCGCAACG
73753 TGAACTTCGA
Statistics
Matches: 88, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
19 23 0.26
21 55 0.62
23 10 0.11
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:73773 original size:42 final size:42
Alignment explanation
Indices: 73645--73809 Score: 235
Period size: 42 Copynumber: 4.0 Consensus size: 42
73635 GAATAAATCG
* * *
73645 CAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCT
1 CAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCA
* *
73687 CAACGAATTTGAAATAAATCGCAA--TGAACTTCGACTATCG
1 CAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCA
* *
73727 CAACGAATTTGGAATAAATCGCAACGTGAACTTCGACTATCA
1 CAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCA
* *
73769 CAACGAATTTAAAATAAATCGCAACGCGAACTTCAACTATC
1 CAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATC
73810 GCAAATCAGT
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 37 0.33
42 74 0.67
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (42 bp):
CAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCA
Found at i:73778 original size:82 final size:83
Alignment explanation
Indices: 73641--73813 Score: 276
Period size: 82 Copynumber: 2.1 Consensus size: 83
73631 TTTGGAATAA
* *
73641 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCTCAACGAATTTGAAATAAAT
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAATTTAAAATAAAT
* *
73706 CGCAA-TGAACTTCGACT
66 CGCAACCGAACTTCAACT
* *
73723 ATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTCGACTATCACAACGAATTTAAAATAAAT
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAATTTAAAATAAAT
73788 CGCAACGCGAACTTCAACT
66 CGCAAC-CGAACTTCAACT
73807 ATCGCAA
1 ATCGCAA
73814 ATCAGTTTCC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
82 66 0.80
84 17 0.20
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (83 bp):
ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAATTTAAAATAAAT
CGCAACCGAACTTCAACT
Found at i:73810 original size:21 final size:21
Alignment explanation
Indices: 73786--73881 Score: 81
Period size: 21 Copynumber: 4.6 Consensus size: 21
73776 TTTAAAATAA
73786 ATCGCAACGCGAACTTCAACT
1 ATCGCAACGCGAACTTCAACT
** **
73807 ATCGCAAATC-AGTTTCCAGA-T
1 ATCGCAACGCGAACTT-CA-ACT
*
73828 -TCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCAACT
**
73848 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCAACT
*
73869 ATCGCAATGCGAA
1 ATCGCAACGCGAA
73882 TATGTAAATC
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
19 1 0.02
20 12 0.20
21 45 0.76
22 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCAACT
Found at i:74880 original size:22 final size:22
Alignment explanation
Indices: 74850--74903 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
74840 TCGGTAATTT
* *
74850 AGTTACGAAATTGGCGAATTCT
1 AGTTGCGAAATTGGCGAATTCG
* *
74872 TGTTGCGAAATTGGCGATTTCG
1 AGTTGCGAAATTGGCGAATTCG
74894 AGTTGCGAAA
1 AGTTGCGAAA
74904 ACGAAATACG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (22 bp):
AGTTGCGAAATTGGCGAATTCG
Found at i:77212 original size:18 final size:19
Alignment explanation
Indices: 77189--77232 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
77179 CCAGTAATCC
* *
77189 TATTCC-CTGGTAATCTTT
1 TATTCCACTGATAATCTTA
77207 TATTCCTACTGATAATCTTA
1 TATTCC-ACTGATAATCTTA
77227 TATTCC
1 TATTCC
77233 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.48
Consensus pattern (19 bp):
TATTCCACTGATAATCTTA
Found at i:88378 original size:83 final size:82
Alignment explanation
Indices: 88106--88381 Score: 327
Period size: 85 Copynumber: 3.3 Consensus size: 82
88096 ACCAAATGGT
* * * *
88106 AACTTTAGCAGCATTTCTTTACAAACGCCGCAATAGGTTCATCTATAGTGGCAGTTTTTCAATAA
1 AACTTTAGCGGCATTTCTATACAAACGCCGCAATAGGTTCACCTATAGTGGCATTTTTTCAATAA
* *
88171 GCGCCGCAACAGATTAG
66 ACGCCGCAACAAATTAG
* * * * **
88188 TACTTTAGCGGCGTTTTTATACAAACGCCGCAGTAGGGTTCACCTATAGTGACGTTTTTTTTCAA
1 AACTTTAGCGGCATTTCTATACAAACGCCGCAATA-GGTTCACCTATAGTG--GCATTTTTTCAA
* *
88253 TAAACACCGCAAAAAATTAG
63 TAAACGCCGCAACAAATTAG
* * * * *
88273 AACTTTAGTGGCGTTTTTATACAAACGCAGTAATAGGATTCACCTATAGTGGCATTTTTTCAATA
1 AACTTTAGCGGCATTTCTATACAAACGCCGCAATAGG-TTCACCTATAGTGGCATTTTTTCAATA
*
88338 AACGCCGCAACATATTAG
65 AACGCCGCAACAAATTAG
*
88356 GACTTTAGCGGCATTTCTATACAAAC
1 AACTTTAGCGGCATTTCTATACAAAC
88382 ACAACTAAAG
Statistics
Matches: 162, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
82 29 0.18
83 63 0.39
84 2 0.01
85 68 0.42
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (82 bp):
AACTTTAGCGGCATTTCTATACAAACGCCGCAATAGGTTCACCTATAGTGGCATTTTTTCAATAA
ACGCCGCAACAAATTAG
Found at i:88406 original size:83 final size:83
Alignment explanation
Indices: 88106--88445 Score: 235
Period size: 83 Copynumber: 4.1 Consensus size: 83
88096 ACCAAATGGT
* * * * * * *
88106 AACTTTAGCAGCATTTCTTTACAAACGC-CGCAATAGG-TTCATCTATAGTGGCAGTTTTTCAAT
1 AACTTTAGCGGCATTTCTATACAAACACAC-TAATAGGACTCAACTATAGTGGCATTTTTTCAAT
* * *
88169 AAGCGCCGCAACAGATTAG
65 AAACGCCGCAAAATATTAG
* * * * * * ** * **
88188 TACTTTAGCGGCGTTTTTATACAAACGC-CGCAGTAGGGTTCACCTATAGTGACGTTTTTTTTCA
1 AACTTTAGCGGCATTTCTATACAAACACAC-TAATAGGACTCAACTATAGTG--GCATTTTTTCA
* *
88252 ATAAACACCGCAAAAAATTAG
63 ATAAACGCCGCAAAATATTAG
* * * * * * *
88273 AACTTTAGTGGCGTTTTTATACAAACGCAGTAATAGGATTCACCTATAGTGGCATTTTTTCAATA
1 AACTTTAGCGGCATTTCTATACAAACACACTAATAGGACTCAACTATAGTGGCATTTTTTCAATA
*
88338 AACGCCGCAACATATTAG
66 AACGCCGCAAAATATTAG
* *
88356 GACTTTAGCGGCATTTCTATACAAACACAACTAA-A-GACTCATACTTTAGTGGCA-TTTTT-AT
1 AACTTTAGCGGCATTTCTATACAAACAC-ACTAATAGGACTCA-ACTATAGTGGCATTTTTTCA-
* * *
88417 ACAAACGCCGCAATATATCAG
63 ATAAACGCCGCAAAATATTAG
*
88438 TACTTTAG
1 AACTTTAG
88446 TAGCGTTTGT
Statistics
Matches: 213, Mismatches: 38, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
81 1 0.00
82 66 0.31
83 73 0.34
84 4 0.02
85 69 0.32
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (83 bp):
AACTTTAGCGGCATTTCTATACAAACACACTAATAGGACTCAACTATAGTGGCATTTTTTCAATA
AACGCCGCAAAATATTAG
Found at i:88442 original size:41 final size:41
Alignment explanation
Indices: 88274--88472 Score: 111
Period size: 41 Copynumber: 4.8 Consensus size: 41
88264 AAAAATTAGA
* * * *
88274 ACTTTAGTGGCGTTTTTATACAAACGCAGTAATAGGATTCA-
1 ACTTTAGTGGCATTTTTATACAAACGCCGCAATA-GACTCAT
* * * * * * *
88315 CCTATAGTGGCATTTTT-TCAATAAACGCCGCAACATA-TTAGG
1 ACTTTAGTGGCATTTTTAT--ACAAACGCCGCAATAGACTCA-T
* * * **
88357 ACTTTAGCGGCATTTCTATACAAACACAACTAA-AGACTCAT
1 ACTTTAGTGGCATTTTTATACAAACGCCGC-AATAGACTCAT
*
88398 ACTTTAGTGGCATTTTTATACAAACGCCGCAATATA-TCAGT
1 ACTTTAGTGGCATTTTTATACAAACGCCGCAATAGACTCA-T
* * *
88439 ACTTTAGTAGCGTTTGTATTTACAAACGCCGCAA
1 ACTTTAGTGGCATTT-T-TATACAAACGCCGCAA
88473 GTTTACAATT
Statistics
Matches: 118, Mismatches: 29, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
40 8 0.07
41 65 0.55
42 29 0.25
43 16 0.14
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (41 bp):
ACTTTAGTGGCATTTTTATACAAACGCCGCAATAGACTCAT
Found at i:89506 original size:124 final size:123
Alignment explanation
Indices: 89233--89491 Score: 297
Period size: 124 Copynumber: 2.1 Consensus size: 123
89223 GCGCTTACTT
* * ** *
89233 GACAAACGCCGCTACAGATAAGTACTTTAGTGGCGTTTGTTTAAAAATGCCACCACAAAATAGTT
1 GACAAACGCCGCAACAAATTGGTACTTTAGTGGCGTTTGTTTAAAAATGCCACCACAAAATAGTA
* * * *
89298 CTTTAGTGGCGTTTTTAGACAAATGCCGCAATATGGTACATATATCGTGGCGGTTTTA
66 CTTTAGTGACGTTTTTAGACAAACGCCGCAATAAGGTACATATATAGTGGCGGTTTTA
* * * * * * *
89356 GACTATCGCCGCAACAAATTGGTACTTTAGTGGCGTTTGTTTACACAAA-GGCGCTACAGAATTG
1 GACAAACGCCGCAACAAATTGGTACTTTAGTGGCGTTTGTTTA-A-AAATGCCACCACAAAATAG
* * * *
89420 TACTTTAGTGACGTTTTTCAGA-AAACGCCGTAATAAGTTTCATATATAGTGGCGTTTTTA
64 TACTTTAGTGACGTTTTT-AGACAAACGCCGCAATAAGGTACATATATAGTGGCGGTTTTA
89480 GACAAACGCCGC
1 GACAAACGCCGC
89492 GACATACTTG
Statistics
Matches: 111, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
123 37 0.33
124 68 0.61
125 6 0.05
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (123 bp):
GACAAACGCCGCAACAAATTGGTACTTTAGTGGCGTTTGTTTAAAAATGCCACCACAAAATAGTA
CTTTAGTGACGTTTTTAGACAAACGCCGCAATAAGGTACATATATAGTGGCGGTTTTA
Found at i:91456 original size:13 final size:13
Alignment explanation
Indices: 91438--91464 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
91428 ATAACAATTC
91438 AATAGTAATTTAT
1 AATAGTAATTTAT
91451 AATAGTAATTTAT
1 AATAGTAATTTAT
91464 A
1 A
91465 TGTTGACGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
AATAGTAATTTAT
Found at i:93427 original size:23 final size:23
Alignment explanation
Indices: 93409--93469 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
93399 CTCGTACAAA
*
93409 TGCACCAAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
93432 TACACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
93455 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
93470 TATAAGATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Done.