Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006056.1 Hibiscus syriacus cultivar Beakdansim tig00014328_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: 120318
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Found at i:3084 original size:20 final size:22
Alignment explanation
Indices: 3039--3095 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
3029 ACATATACAT
3039 TCTTCAAAGATGACAGATTCTC
1 TCTTCAAAGATGACAGATTCTC
*
3061 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGACAGATTCTC
* *
3083 TTTTCAAATATGA
1 TCTTCAAAGATGA
3096 AAGCTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGACAGATTCTC
Found at i:3871 original size:36 final size:36
Alignment explanation
Indices: 3820--3933 Score: 138
Period size: 36 Copynumber: 3.1 Consensus size: 36
3810 TTCAAATAGC
3820 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
* * * ** ** *
3856 AATTTGTCTCGCTTGAGATAGTTTCACTCGAAATAA
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
*
3892 CAATTTAACTCACTTGAGATTGTTTTTCTTAAAACAA
1 -AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
3929 AATTT
1 AATTT
3934 GTTTCTCTTG
Statistics
Matches: 60, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
36 33 0.55
37 27 0.45
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (36 bp):
AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
Found at i:3932 original size:73 final size:73
Alignment explanation
Indices: 3813--3961 Score: 244
Period size: 73 Copynumber: 2.0 Consensus size: 73
3803 GGATGTTTTC
* * *
3813 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGATAGT
1 AAATAACAATTTAACTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
*
3878 TTCACTCG
66 TTCACTAG
* *
3886 AAATAACAATTTAACTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTTTCTCTTGAGACAGT
1 AAATAACAATTTAACTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
3951 TTCACTAG
66 TTCACTAG
3959 AAA
1 AAA
3962 CAGAAATTTC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (73 bp):
AAATAACAATTTAACTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGT
TTCACTAG
Found at i:3944 original size:36 final size:36
Alignment explanation
Indices: 3820--3946 Score: 137
Period size: 36 Copynumber: 3.5 Consensus size: 36
3810 TTCAAATAGC
*
3820 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
1 AATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
* * ** ** *
3856 AATTTGTCTCGCTTGAGATAGTTTCACTCGAAATAA
1 AATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
**
3892 CAATTTAACTCACTTGAGATTGTTTTTCTTAAAACAA
1 -AATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
* *
3929 AATTTGTTTCTCTTGAGA
1 AATTTGTCTCACTTGAGA
3947 CAGTTTCACT
Statistics
Matches: 69, Mismatches: 21, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
36 42 0.61
37 27 0.39
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (36 bp):
AATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
Found at i:3963 original size:36 final size:36
Alignment explanation
Indices: 3820--3970 Score: 117
Period size: 36 Copynumber: 4.1 Consensus size: 36
3810 TTCAAATAGC
* * **
3820 AATTTATCTCACTTGAGATTGTTTTTCTTA-AAACAA
1 AATTTGTCTCACTTGAGATAGTTTCAC-TAGAAACAA
* * *
3856 AATTTGTCTCGCTTGAGATAGTTTCACTCGAAATAA
1 AATTTGTCTCACTTGAGATAGTTTCACTAGAAACAA
** * **
3892 CAATTTAACTCACTTGAGATTGTTTTTCTTA-AAACAA
1 -AATTTGTCTCACTTGAGATAGTTTCAC-TAGAAACAA
* * *
3929 AATTTGTTTCTCTTGAGACAGTTTCACTAGAAACAGA
1 AATTTGTCTCACTTGAGATAGTTTCACTAGAAACA-A
3966 AATTT
1 AATTT
3971 CCATCACTCG
Statistics
Matches: 87, Mismatches: 23, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
35 3 0.03
36 51 0.59
37 32 0.37
38 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (36 bp):
AATTTGTCTCACTTGAGATAGTTTCACTAGAAACAA
Found at i:4211 original size:123 final size:123
Alignment explanation
Indices: 3985--4564 Score: 926
Period size: 123 Copynumber: 4.7 Consensus size: 123
3975 CACTCGATGG
* *
3985 ATCAACATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGTAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
4050 ATGAGAAGAACTTGTTCAACCTTTTGTTCGACTCTATCGCAGAAGGAGATAGATCAGC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAAC
* *
4108 ATCAATATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * *
4173 ATGAGAAGAACTTGTTCAACCTTTTGCTCAACTGTATCGCAGAATGAGATAGATTAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAAC
* *
4231 ATCAACATTTCTAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGGAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
4296 ATGAGAAGAACTTGTTCAACCTTTTGTTCGACTCTATCGCAGAAGGAGATAGATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAAC
* * * * *
4354 ATCAACATTTCCAAAAGGAGTTCATAATGAAAAGAATTCATCTGAAGATGAAGAAAAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
4419 ATGAGAAGAACTTGTTCGACCATTTGCTCGATTCTATCGCAGAAGGAGATAGATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAAC
** * *
4477 ATCAACATTTCCAGAAATAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCAAA
1 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
4542 ATGAGAAGAACTGGTTCAACCTT
66 ATGAGAAGAACTTGTTCAACCTT
4565 AGTTCAATTC
Statistics
Matches: 416, Mismatches: 41, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
123 416 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (123 bp):
ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAAC
Found at i:6035 original size:25 final size:24
Alignment explanation
Indices: 6003--6077 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 24
5993 TTGATCATTA
6003 ATTA-TTTGCAATATTATTTTATT
1 ATTACTTTGCAATATTATTTTATT
*
6026 ATTACTTTTG--ATATATATTTAAATT
1 ATTAC-TTTGCAATAT-TATTT-TATT
* *
6051 ATTACTTT-CATTATTATTTTTTT
1 ATTACTTTGCAATATTATTTTATT
6074 ATTA
1 ATTA
6078 TCTTAATCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
23 14 0.33
24 13 0.31
25 15 0.36
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (24 bp):
ATTACTTTGCAATATTATTTTATT
Found at i:6127 original size:28 final size:26
Alignment explanation
Indices: 6091--6142 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 26
6081 TAATCATATA
6091 AATATATATTTATATATATTTGTTTAAAT
1 AATATATATTTAT-T-TATTT-TTTAAAT
6120 AATA-ATATTTATTTATTTTTTAA
1 AATATATATTTATTTATTTTTTAA
6143 TATTAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.22
26 5 0.22
27 1 0.04
28 8 0.35
29 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
AATATATATTTATTTATTTTTTAAAT
Found at i:12806 original size:14 final size:14
Alignment explanation
Indices: 12787--12813 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12777 TTACATCTTT
12787 TGGAAAATATTTTC
1 TGGAAAATATTTTC
12801 TGGAAAATATTTT
1 TGGAAAATATTTT
12814 ATAGTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (14 bp):
TGGAAAATATTTTC
Found at i:12938 original size:22 final size:23
Alignment explanation
Indices: 12904--12946 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
12894 ATATAATAAA
12904 TAATATTATTTATTATAAAAACT
1 TAATATTATTTATTATAAAAACT
*
12927 TAATATTA-TTATTTTAAAAA
1 TAATATTATTTATTATAAAAA
12947 TATTAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATATTATTTATTATAAAAACT
Found at i:13359 original size:19 final size:20
Alignment explanation
Indices: 13302--13362 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 20
13292 TAGTATCATA
* *
13302 TATTATTATAATATAATTGAGT
1 TATTATTGTAATATTATT-A-T
13324 ATATTATTGTAATATTATTAT
1 -TATTATTGTAATATTATTAT
*
13345 TATTA-TGTTATATTATTA
1 TATTATTGTAATATTATTA
13363 AAAATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 12 0.34
20 5 0.14
21 1 0.03
22 1 0.03
23 16 0.46
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (20 bp):
TATTATTGTAATATTATTAT
Found at i:13371 original size:12 final size:12
Alignment explanation
Indices: 13353--13398 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
13343 ATTATTATGT
13353 TATATTATTAAA
1 TATATTATTAAA
* *
13365 AATATTAATAAA
1 TATATTATTAAA
13377 TATATT-TTAAA
1 TATATTATTAAA
*
13388 TATGTTATTAA
1 TATATTATTAA
13399 TTAATATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
TATATTATTAAA
Found at i:20861 original size:18 final size:18
Alignment explanation
Indices: 20838--20873 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20828 AATGACAATA
*
20838 AGACCAGCGCTGCTGTAT
1 AGACCAGCGCTGCGGTAT
20856 AGACCAGCGCTGCGGTAT
1 AGACCAGCGCTGCGGTAT
20874 TGGTTGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.19
Consensus pattern (18 bp):
AGACCAGCGCTGCGGTAT
Found at i:26543 original size:182 final size:182
Alignment explanation
Indices: 25990--26655 Score: 956
Period size: 182 Copynumber: 3.7 Consensus size: 182
25980 TGTCGGTTTA
* * * * * * * *
25990 TGTCGATACTTTATAAAAATGTATCGATCTATATCAATATAACAGGTAAAAATATGACACAATCA
1 TGTCAATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATCG
* ** * * * *
26055 GTCTCGAAAAGACAAAAGTGGTAAAGCGCTACCGGATATATTAAAAGTGTCGATTCTTTAATATA
66 GTCTCGAAAGGACAAAACCGGTATAGAGCTACCGAATATATTAAAAGTGTCGATACTTTAATATA
*
26120 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAGCG-TCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAACAATTTTAGCGCT-TATAAAG
* * *
26172 TGTCGATACTTTATAACAATGTATCGATCTACAACGATATAACATGTAAAAATATGACAAAA-CT
1 TGTCAATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATC-
* * * *
26236 GGTCTCGAAATGATAAAATCGGTATAGAGATACCG---A-A-T---AGTGTCGATACTTTAATAT
65 GGTCTCGAAAGGACAAAACCGGTATAGAGCTACCGAATATATTAAAAGTGTCGATACTTTAATAT
* *
26293 AAGTATCGACACTTTGTGAATTTAAAAGAGAAACATTTTTAGCGCCTATAAAG
130 AAGTATCGACACTTTGTGAATTTAAAAGAGAAACAATTTTAGCGCTTATAAAG
*
26346 TGTCAATACTTTATAACAATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAATCG
1 TGTCAATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATCG
26411 GTCTCGAAAGGACAAAACCGGTATAGAGCTACCGAATATATTAAAAGTGTCGATACTTTAATATA
66 GTCTCGAAAGGACAAAACCGGTATAGAGCTACCGAATATATTAAAAGTGTCGATACTTTAATATA
*
26476 AGTATCGACACTTTGTGAATTTAAAAGAGAAACAAGTTTAGCGCTTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAACAATTTTAGCGCTTATAAAG
* *
26528 TGTCAATACTTTATAACAATGTATCGATCCACAACGATATAATAGGTAAAAATATGACAAAACCG
1 TGTCAATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATCG
* * *
26593 GTCTCGAAAGAACAAAACCGGTATAGAGCTACCGAATATATTGAAAGTGTTGATACTTTAATA
66 GTCTCGAAAGGACAAAACCGGTATAGAGCTACCGAATATATTAAAAGTGTCGATACTTTAATA
26656 AGTACGCGTA
Statistics
Matches: 440, Mismatches: 33, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
174 158 0.36
175 1 0.00
177 2 0.00
178 2 0.00
179 2 0.00
181 1 0.00
182 274 0.62
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (182 bp):
TGTCAATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATCG
GTCTCGAAAGGACAAAACCGGTATAGAGCTACCGAATATATTAAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAACAATTTTAGCGCTTATAAAG
Found at i:28631 original size:19 final size:22
Alignment explanation
Indices: 28583--28637 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
28573 TTTTTGTTTT
28583 TTTTATATAAAATGATAGTATAA
1 TTTTATATAAAAT-ATAGTATAA
28606 TTATTATATAAAAT-TA-TA-AA
1 TT-TTATATAAAATATAGTATAA
28626 TTTTATTATAAA
1 TTTTA-TATAAA
28638 TGCATGTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 2 0.07
22 2 0.07
23 2 0.07
24 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTTATATAAAATATAGTATAA
Found at i:29652 original size:19 final size:19
Alignment explanation
Indices: 29623--29673 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
29613 ATGCATTTTA
* *
29623 TGCACCGATGCATTAGTAG
1 TGCATCGATGCATCAGTAG
*
29642 TGGATCGATGCATCAGTAG
1 TGCATCGATGCATCAGTAG
29661 TGCATCGATGCAT
1 TGCATCGATGCAT
29674 ACCTTCATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (19 bp):
TGCATCGATGCATCAGTAG
Found at i:30687 original size:47 final size:47
Alignment explanation
Indices: 30633--30752 Score: 206
Period size: 47 Copynumber: 2.6 Consensus size: 47
30623 CTTTATGAAC
*
30633 ATTATTATATGGCACTACCGTGCAATTCTACGCGGCACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
30680 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
* *
30727 ATTA-TATGTGGCACTTCGGTGCAATT
1 ATTATTATATGGCACTACGGTGCAATT
30753 ATATGAGCTG
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 20 0.29
47 50 0.71
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (47 bp):
ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
Found at i:30753 original size:23 final size:23
Alignment explanation
Indices: 30633--30757 Score: 124
Period size: 23 Copynumber: 5.3 Consensus size: 23
30623 CTTTATGAAC
* *
30633 ATTATTATATGGCACTACCGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
30657 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
30680 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
30704 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
30727 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
30750 ATTATATG
1 ATTATATG
30758 AGCTGTGGTG
Statistics
Matches: 80, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
23 59 0.74
24 21 0.26
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:31125 original size:23 final size:23
Alignment explanation
Indices: 31095--31149 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
31085 TGATATGGAC
31095 ATAAGAGATCATAGGAACATGAG
1 ATAAGAGATCATAGGAACATGAG
31118 ATAAGAGATCATAGGAACATGAG
1 ATAAGAGATCATAGGAACATGAG
31141 ATAAGAGAT
1 ATAAGAGAT
31150 ATGAATGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.25, T:0.18
Consensus pattern (23 bp):
ATAAGAGATCATAGGAACATGAG
Found at i:35676 original size:19 final size:19
Alignment explanation
Indices: 35647--35697 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
35637 ATGCATTTTA
*
35647 TGCACCGATGCATCAGTAG
1 TGCATCGATGCATCAGTAG
*
35666 TGGATCGATGCATCAGTAG
1 TGCATCGATGCATCAGTAG
35685 TGCATCGATGCAT
1 TGCATCGATGCAT
35698 ACCTTCATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (19 bp):
TGCATCGATGCATCAGTAG
Found at i:36711 original size:47 final size:47
Alignment explanation
Indices: 36657--36776 Score: 179
Period size: 47 Copynumber: 2.6 Consensus size: 47
36647 ATTTATGAAC
* *
36657 ATTATTATATGGCACTACTGTGCAATTCTACGCGGCACTCCGGTGGA
1 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
* *
36704 ATTATTATATGGTACTACGGTACAATTCTACGCGGCACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
* *
36751 ATTA-TATGTGGCACTTCGGTGCAATT
1 ATTATTATATGGCACTACGGTGCAATT
36777 ATATGAGCTG
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 18 0.28
47 47 0.72
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (47 bp):
ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
Found at i:36777 original size:23 final size:23
Alignment explanation
Indices: 36657--36781 Score: 97
Period size: 23 Copynumber: 5.3 Consensus size: 23
36647 ATTTATGAAC
* *
36657 ATTATTATATGGCACTACTGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * * *
36681 ATTCTACGCGGCACTCCGGTGGA
1 ATTATATGTGGCACTACGGTGCA
* * *
36704 ATTATTATATGGTACTACGGTACA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
36728 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
36751 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
36774 ATTATATG
1 ATTATATG
36782 AGCTGTGGTG
Statistics
Matches: 74, Mismatches: 26, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
23 56 0.76
24 18 0.24
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:37147 original size:23 final size:23
Alignment explanation
Indices: 37117--37171 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
37107 TGATATGGAC
37117 ATAAGAGATCATAGGAACATGAG
1 ATAAGAGATCATAGGAACATGAG
37140 ATAAGAGATCATAGGAACATGAG
1 ATAAGAGATCATAGGAACATGAG
37163 ATAAGAGAT
1 ATAAGAGAT
37172 ATGAATGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.25, T:0.18
Consensus pattern (23 bp):
ATAAGAGATCATAGGAACATGAG
Found at i:38055 original size:19 final size:19
Alignment explanation
Indices: 38033--38077 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
38023 AAAGACAATC
38033 AAGAGTCGAAGAGACACTT
1 AAGAGTCGAAGAGACACTT
38052 AAGAAAGTCGAAGAGACACTT
1 AAG--AGTCGAAGAGACACTT
*
38073 GAGAG
1 AAGAG
38078 GCATAAGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
21 18 0.78
ACGTcount: A:0.44, C:0.13, G:0.29, T:0.13
Consensus pattern (19 bp):
AAGAGTCGAAGAGACACTT
Found at i:38223 original size:66 final size:66
Alignment explanation
Indices: 38099--38223 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 66
38089 AAGTGGAAGG
** * *
38099 AAAAATAGATAGAGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAACTTAAGATGGTGACAGGTG
1 AAAAATAGATAGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGACAGGTG
38164 A
66 A
* * * * * * *
38165 AAAAATTGATGGAGTGGTGAAGGAGGTTGTGGAATTGAGGAGTGAACTTACGGGGGTGA
1 AAAAATAGATAGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGA
38224 AGGGGGTGGT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 48 1.00
ACGTcount: A:0.34, C:0.03, G:0.40, T:0.23
Consensus pattern (66 bp):
AAAAATAGATAGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGACAGGTG
A
Found at i:38340 original size:14 final size:14
Alignment explanation
Indices: 38321--38356 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
38311 ATGAACTGAA
38321 AAAATATGAAGAAG
1 AAAATATGAAGAAG
38335 AAAATATGAAGAAG
1 AAAATATGAAGAAG
38349 AAAATATG
1 AAAATATG
38357 GAGGAAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (14 bp):
AAAATATGAAGAAG
Found at i:38365 original size:18 final size:18
Alignment explanation
Indices: 38342--38377 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
38332 AAGAAAATAT
*
38342 GAAGAAGAAAATATGGAG
1 GAAGAAGAAAAGATGGAG
38360 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
38378 AAAATGAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:38379 original size:29 final size:31
Alignment explanation
Indices: 38328--38391 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
38318 GAAAAAATAT
*
38328 GAAGAAGAAAATATGAAGAAGAAAAT-ATGGAG
1 GAAGAAGAAAAGATG-AGAAGAAAATGA-GGAG
38360 GAAGAAGAAAAGATG-G-AGAAAATGAGGAG
1 GAAGAAGAAAAGATGAGAAGAAAATGAGGAG
38389 GAA
1 GAA
38392 CGATGTCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 14 0.47
30 2 0.07
32 14 0.47
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (31 bp):
GAAGAAGAAAAGATGAGAAGAAAATGAGGAG
Found at i:39955 original size:19 final size:19
Alignment explanation
Indices: 39931--39979 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
39921 AATGTAGGGT
39931 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
39950 TAATTTTGTATATGATTTA
1 TAATTTTGTATAAGATTTA
39969 TAATTTTGTAT
1 TAATTTTGTAT
39980 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:40652 original size:200 final size:200
Alignment explanation
Indices: 40331--41294 Score: 1309
Period size: 200 Copynumber: 4.8 Consensus size: 200
40321 ATAAGCAGAT
* *
40331 GTGTCGATACATTTATACAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* ** * * *
40396 AGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTACAATGTAACCGGTATAAATATATCAGTTTTATGTGAAAATAGGTCTACATAATGT
* * * *
40461 ATCAACACTTTTGAAATTAGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAATGC
131 ATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACGC
40526 ATAAA
196 ATAAA
* * * *
40531 GTGTCGATACATTTGTAAAAAGTATCGATCCCAGAAACATCGAAACACAAAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
40596 GGTAAATTTACAATGTAACCGGTATAACTATACCAGTTTTATGAGAGAACAGGTCTACATAATGT
66 GGTAATTTTACAATGTAACCGGTATAAATATATCAGTTTTATGTGAAAATAGGTCTACATAATGT
* *
40661 ATCGACACTTTTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGC
131 ATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACGC
40726 ATAAA
196 ATAAA
* * *
40731 GTGTTGATACATTTATAAAAAAGTATCGATACCAAAAACATCAAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTAT-AAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
* *
40796 AGGTAATTTTACAATGTAATCGGTATAAATATATCAGTTTTATGTGAAAATATGTCTACATAATG
65 AGGTAATTTTACAATGTAACCGGTATAAATATATCAGTTTTATGTGAAAATAGGTCTACATAATG
* * * * *
40861 TATCGACACTTGTGGATTTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
130 TATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACG
40926 CATAAA
195 CATAAA
* *
40932 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
** * * *
40997 GGTAATTTTTTAATGTAACCGGTATAAATATATCGGTTTTATGTGATAATAGGTCTACAAAATGT
66 GGTAATTTTACAATGTAACCGGTATAAATATATCAGTTTTATGTGAAAATAGGTCTACATAATGT
** * * * * * * * *
41062 ATTAACACTTGTGTATTTTGTGTCGATAATTTTTGTCTAGAAGGAATGCCCAAAAGGGTGCACCC
131 ATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACGC
41127 ATAAA
196 ATAAA
* * ***
41132 GTGTCGATACATTTTTAAAAAGTATCGATCCCAAAACCATCGAAATTGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * *
41197 GGTAAATTTCCAATGTAACCGATATAAATATATCGGTTTTATGAGAAAATAGATC-AGCATAAAG
66 GGTAATTTTACAATGTAACCGGTATAAATATATCAGTTTTATGTGAAAATAGGTCTA-CATAATG
* * *
41261 TGTCGACAATTTTTAAATTTGTGTCGATACTTTT
130 TATCGACACTTTTGAAATTTGTGTCGATACTTTT
41295 AAAATATCGA
Statistics
Matches: 676, Mismatches: 86, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
199 1 0.00
200 494 0.73
201 181 0.27
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTACAATGTAACCGGTATAAATATATCAGTTTTATGTGAAAATAGGTCTACATAATGT
ATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACGC
ATAAA
Found at i:41097 original size:401 final size:400
Alignment explanation
Indices: 40331--41248 Score: 1359
Period size: 401 Copynumber: 2.3 Consensus size: 400
40321 ATAAGCAGAT
*
40331 GTGTCGATACATTTATACAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
* ** * * *
40396 AGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTACAATGTAACCGGTATAAATATATCAGTTTTATGTGAAAATAGGTCTACATAATGT
* * *
40461 ATCAACACTTTTGAAATTAGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAATGC
131 ATCAACACTTGTGAAATTAGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
*
40526 ATAAAGTGTCGATACATTTGTAAAAAGTATCGATCCCAGAAACATCGAAACACAAAATTATAATG
196 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACACAAAATTATAATG
* *
40591 TAATAGGTAAATTTACAATGTAACCGGTATAACTATACCAGTTTTATGAGAGAACAGGTCTACAT
261 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAACAGGTCTACAA
* * * *
40656 AATGTATCGACACTTTTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTG
326 AATGTATCAACACTTGTGGAATTTGTGTCGATAATTTTTGTCCAGAAGGAATGCCCAAAAGGGTG
*
40721 CACGCATAAA
391 CACCCATAAA
* * * *
40731 GTGTTGATACATTTATAAAAAAGTATCGATACCAAAAACATCAAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTAT-AAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAAT
* *
40796 AGGTAATTTTACAATGTAATCGGTATAAATATATCAGTTTTATGTGAAAATATGTCTACATAATG
65 AGGTAATTTTACAATGTAACCGGTATAAATATATCAGTTTTATGTGAAAATAGGTCTACATAATG
* * * *
40861 TATCGACACTTGTGGATTTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
130 TATCAACACTTGTGAAATTAGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
* * *
40926 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAATATCGAAACCCATAATTATAAT
195 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACACAAAATTATAAT
* ** * * * * *
40991 GTAATAGGTAATTTTTTAATGTAACCGGTATAAATATATCGGTTTTATGTGATAATAGGTCTACA
260 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAACAGGTCTACA
* * * *
41056 AAATGTATTAACACTTGTGTATTTTGTGTCGATAATTTTTGTCTAGAAGGAATGCCCAAAAGGGT
325 AAATGTATCAACACTTGTGGAATTTGTGTCGATAATTTTTGTCCAGAAGGAATGCCCAAAAGGGT
41121 GCACCCATAAA
390 GCACCCATAAA
* * * *
41132 GTGTCGATACATTTTTAAAAAGTATCGATCCCAAAACCATCGAAATTGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
* * * * *
41197 GGTAAATTTCCAATGTAACCGATATAAATATATCGGTTTTATGAGAAAATAG
66 GGTAATTTTACAATGTAACCGGTATAAATATATCAGTTTTATGTGAAAATAG
41249 ATCAGCATAA
Statistics
Matches: 459, Mismatches: 58, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
400 103 0.22
401 356 0.78
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (400 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
GGTAATTTTACAATGTAACCGGTATAAATATATCAGTTTTATGTGAAAATAGGTCTACATAATGT
ATCAACACTTGTGAAATTAGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACACAAAATTATAATG
TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAACAGGTCTACAA
AATGTATCAACACTTGTGGAATTTGTGTCGATAATTTTTGTCCAGAAGGAATGCCCAAAAGGGTG
CACCCATAAA
Found at i:41294 original size:21 final size:21
Alignment explanation
Indices: 41260--41299 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
41250 TCAGCATAAA
*
41260 GTGTCGACAATTTTTAAATTT
1 GTGTCGACAATTTTAAAATTT
* *
41281 GTGTCGATACTTTTAAAAT
1 GTGTCGACAATTTTAAAAT
41300 ATCGAGTGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (21 bp):
GTGTCGACAATTTTAAAATTT
Found at i:41638 original size:15 final size:15
Alignment explanation
Indices: 41618--41646 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
41608 TCTTTCTCAA
41618 AGCTCTTCTCAACCC
1 AGCTCTTCTCAACCC
41633 AGCTCTTCTCAACC
1 AGCTCTTCTCAACC
41647 ACAACCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.45, G:0.07, T:0.28
Consensus pattern (15 bp):
AGCTCTTCTCAACCC
Found at i:42847 original size:6 final size:6
Alignment explanation
Indices: 42813--42868 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
42803 CAAGCGGTCA
* * * * * *
42813 ATGAAG ATGAAG ATGACG ATGAAG ATGATG ATGATA ATGGTG ATGATG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
42861 ATGATG AT
1 ATGATG AT
42869 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.32, T:0.27
Consensus pattern (6 bp):
ATGATG
Found at i:49632 original size:21 final size:21
Alignment explanation
Indices: 49590--49632 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49580 TTTCTGGGCT
* *
49590 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
49611 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
49632 A
1 A
49633 CGTATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:50197 original size:25 final size:25
Alignment explanation
Indices: 50163--50231 Score: 138
Period size: 25 Copynumber: 2.8 Consensus size: 25
50153 GGGTAGAGGG
50163 TCTACGCGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
50188 TCTACGCGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
50213 TCTACGCGGTCCTTCGGGA
1 TCTACGCGGTCCTTCGGGA
50232 TATATATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.28
Consensus pattern (25 bp):
TCTACGCGGTCCTTCGGGACAATAT
Found at i:53302 original size:15 final size:15
Alignment explanation
Indices: 53282--53315 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
53272 GTCATTATGA
53282 ATTCATCGTAATGCC
1 ATTCATCGTAATGCC
53297 ATTCATCGTAATGCC
1 ATTCATCGTAATGCC
53312 ATTC
1 ATTC
53316 GGAGTAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (15 bp):
ATTCATCGTAATGCC
Found at i:56475 original size:21 final size:21
Alignment explanation
Indices: 56433--56475 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
56423 TTTCTGGGCT
* *
56433 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
56454 AGGGGAATTGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
56475 A
1 A
56476 TGTATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:56527 original size:20 final size:20
Alignment explanation
Indices: 56502--56539 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56492 GAATGCTAGA
*
56502 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
56522 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
56540 TATAAAAAAA
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:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:57037 original size:25 final size:25
Alignment explanation
Indices: 57003--57071 Score: 138
Period size: 25 Copynumber: 2.8 Consensus size: 25
56993 GGGTAGAGGG
57003 TCTACGCGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
57028 TCTACGCGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
57053 TCTACGCGGTCCTTCGGGA
1 TCTACGCGGTCCTTCGGGA
57072 TATATATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.28
Consensus pattern (25 bp):
TCTACGCGGTCCTTCGGGACAATAT
Found at i:61113 original size:17 final size:15
Alignment explanation
Indices: 61071--61113 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
61061 AATGCCTTTG
61071 GATTGTTTGA-GTTT
1 GATTGTTTGATGTTT
*
61085 GATTGTTGGATGTTT
1 GATTGTTTGATGTTT
61100 GAATTTGTTTGATG
1 G-A-TTGTTTGATG
61114 GTTTATGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 9 0.38
15 5 0.21
16 1 0.04
17 9 0.38
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.53
Consensus pattern (15 bp):
GATTGTTTGATGTTT
Found at i:61436 original size:12 final size:12
Alignment explanation
Indices: 61419--61450 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
61409 ATGGGGAGTA
61419 ATTTCAAACTTG
1 ATTTCAAACTTG
61431 ATTTCAAACTTG
1 ATTTCAAACTTG
61443 ATTTCAAA
1 ATTTCAAA
61451 ATCTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (12 bp):
ATTTCAAACTTG
Found at i:62060 original size:10 final size:10
Alignment explanation
Indices: 62027--62071 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
62017 AGCCATTGAT
62027 CAACAACATAA
1 CAACAACA-AA
62038 -AA-AACAAGA
1 CAACAACAA-A
62047 -AACAACAAA
1 CAACAACAAA
62056 CAACAACAAA
1 CAACAACAAA
62066 CAACAA
1 CAACAA
62072 GAATCAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.03
9 8 0.26
10 22 0.71
ACGTcount: A:0.71, C:0.24, G:0.02, T:0.02
Consensus pattern (10 bp):
CAACAACAAA
Found at i:62894 original size:200 final size:200
Alignment explanation
Indices: 62550--63603 Score: 1261
Period size: 200 Copynumber: 5.3 Consensus size: 200
62540 TTAACTCAAC
62550 AATAGGTCTACA-AATTGTATCGACAC-TCGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGA
1 AATAGGTCTACATAA-TGTATCGACACTTC-TGGAATTTGTGTCGATACTTTTTGTCCAGAATGA
**
62613 ATGTCCAAAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAGAAACA
64 ATGTCC-AAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAAAGGTATCGATCCCAGAAACA
* *
62678 TCGAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACTGATTT
128 TCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGATTT
* *
62743 TATGTGAG
193 TATGAGAA
* *
62751 AATAGGTCTACATAATGTATCGACACTTCTGGATTTTGTGTCGATACTTTTTGTCCAGAATGATT
1 AATAGGTCTACATAATGTATCGACACTTCTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAAT
* * * *
62816 GTCCAAAAGGGTGCACACATAAAGAGTTGATACATTTATAAAAGGTATCGATCCCAGAAATATCG
66 GTCCAAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAAAGGTATCGATCCCAGAAACATCG
* * * *
62881 AAACCGATAATTATAATGTATTAGGTAAATTTACAATGTAACCGGTATAAATAAACCGGTTTTAT
131 AAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGATTTTAT
62946 GAGAA
196 GAGAA
* * * *
62951 AATAGGTCTATA-AATTGTATCGACACTTGTGGAATTTATGTCGATACTTTTTGTCTAGAATGAA
1 AATAGGTCTACATAA-TGTATCGACACTTCTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAA
* * *
63015 TGTCCAAAAGGGTGCACGCATAAAGTGTCGATATATTTATAAAAAGTATAGATCCCAGAAACATC
65 TGTCCAAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAAAGGTATCGATCCCAGAAACATC
* * *
63080 GAAACCGATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATATTGATTTTT
130 GAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGATTTTA
63145 TGAGAA
195 TGAGAA
* * ** * * * *
63151 AATAGGTC-AGCATAAAGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGTCCAAAACGAT
1 AATAGGTCTA-CATAATGTATCGACACTTCTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAA
* * * * * *
63215 TG-CCAAATGGGGTGCACGCATAAAGTGTCGATATATTTAT-TAAGAGTGTCGATCCAAAAAACA
65 TGTCCAAA-AGGGTGCACGCATAAAGTGTCGATACATTTATAAAAG-GTATCGATCCCAGAAACA
* * * * *
63278 TCGAAACCAAAAATTATAATGTAATAGGTAATTTTCCAATGTAACCGGTATAAATATACCGATTT
128 TCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGATTT
63343 TATGAGAA
193 TATGAGAA
* * * ** * * *
63351 AATAAGTC-AGCATAAAGTATCGACACTTTTTAAATTTGTGTCGATA-TATTTTTTCCTGAACGA
1 AATAGGTCTA-CATAATGTATCGACACTTCTGGAATTTGTGTCGATACT-TTTTGTCCAGAATGA
* * * * * *
63414 ATG-CCAAATGGGGTGTACGTATAAAGTGTCGATACATTTATTAAGAGCG--TCGATCCAAAAAA
64 ATGTCCAAA-AGGGTGCACGCATAAAGTGTCGATACATTTA-TAAAAG-GTATCGATCCCAGAAA
* * * *
63476 CATCGAAACCGAAAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATGTA-TCAG
126 CATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGA-
*
63540 TTTTATGATAA
190 TTTTATGAGAA
* * ** *
63551 AATAGGTATACATAATATATCGACACTGT-TTAAATTTGTGTCAATACGTTTTT
1 AATAGGTCTACATAATGTATCGACACT-TCTGGAATTTGTGTCGATAC-TTTTT
63604 AAATTACGCA
Statistics
Matches: 753, Mismatches: 85, Indels: 30
0.87 0.10 0.03
Matches are distributed among these distances:
199 11 0.01
200 664 0.88
201 70 0.09
202 8 0.01
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.32
Consensus pattern (200 bp):
AATAGGTCTACATAATGTATCGACACTTCTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAAT
GTCCAAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAAAGGTATCGATCCCAGAAACATCG
AAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGATTTTAT
GAGAA
Found at i:64916 original size:19 final size:19
Alignment explanation
Indices: 64892--64939 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
64882 ATTTAGGGGA
64892 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
*
64911 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
*
64930 ATTTTTGTAT
1 AATTTTGTAT
64940 GTGAATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.54
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:67813 original size:200 final size:197
Alignment explanation
Indices: 67420--68140 Score: 878
Period size: 200 Copynumber: 3.6 Consensus size: 197
67410 ACCTAAATAT
* *
67420 GTGTCGATATATTT-TCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
* *** * * *
67483 TAGGTAAATTAACAATGTAACTAATATAAATATACCGGTTAATTATAAAACAGGTCAACATAATG
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTATTAGAAAATAGGTC-ACATAATG
** *
67548 TATCGACACTTGTGGAATTTGTGTCGATACTTATTGTCCAGAATGAATGTCCAAAC-GAAGTGCA
128 TATCGACACTTGTTAAATTTGTGTCGATACTT-TTGTCCAGAATGAATG-CCAAACAG-GGTGCA
67612 CGCATAAA
190 CGCATAAA
* *
67620 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATAGAAACCGATAATTATAATATAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
67685 GGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGAGAAAATAGGTCAGCATAAAGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGG-TTTATTAGAAAATAGGTCA-CATAATGT
* *
67750 ATCAACACTTGTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGCCAAACAGGGTGCACGC
129 ATCGACACTTGTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCAAACAGGGTGCACGC
*
67815 ATAGA
193 ATAAA
* * * * *
67820 GTGTCGATATATTTATTGAAAGTATCAATCCCAAAAACATCGAAA-CGAAAATTATAATGTGATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * *
67884 TGTAAATTTACAATGTACCCGGTATAAATATATCGGTTTTATAAGAAAATAGGTCTAAATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGG-TTTATTAGAAAATAGGTC-ACATAATGT
* * * * *
67949 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGCCCAACAAGGTGCACGCA
129 ATCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAACAGGGTGCACGCA
68014 TAAA
194 TAAA
* *
68018 GTGTCGATACATTTA--AAAGTGTATCGATCCAAAAAAAACATCGAAACCGATAATTATAATGTA
1 GTGTCGATACATTTATTAAA-AGTATCGATCC--CAAAAACATCGAAACCGATAATTATAATGTA
* * * * *
68081 ATAGGTAAAATTTGCAATGTTACCGGTAGAAATTTACCGGTTTACTTAGAAAATATGTCA
63 ATAGGT-AAATTTACAATGTAACCGGTATAAATATACCGGTTTA-TTAGAAAATAGGTCA
68141 ATATAAGCGC
Statistics
Matches: 452, Mismatches: 56, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
196 2 0.00
197 9 0.02
198 49 0.11
199 113 0.25
200 171 0.38
201 106 0.23
202 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (197 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTATTAGAAAATAGGTCACATAATGTAT
CGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAACAGGGTGCACGCATA
AA
Found at i:68274 original size:23 final size:23
Alignment explanation
Indices: 68224--68275 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
68214 ATGCCTATTT
* * *
68224 TATTATATAAGTACTACCTATTA
1 TATTATATAAGCACTAACTAATA
* *
68247 CATTATATAAGCGCTAACTAATA
1 TATTATATAAGCACTAACTAATA
68270 TATTAT
1 TATTAT
68276 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (23 bp):
TATTATATAAGCACTAACTAATA
Found at i:68288 original size:87 final size:87
Alignment explanation
Indices: 68141--68303 Score: 254
Period size: 87 Copynumber: 1.9 Consensus size: 87
68131 AAATATGTCA
* * ** *
68141 ATATAAGCGCTACCTATTACATTATATAAGCGTTATTTAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGCTAACTAATATATTATTGTACTTAATAATATTT
68206 CCGATTAAATGCCTATTTTATT
66 CCGATTAAATGCCTATTTTATT
* *
68228 ATATAAGTACTACCTATTACATTATATAAGCGCTAACTAATATATTATTGTACTTGATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGCTAACTAATATATTATTGTACTTAATAATATTT
*
68293 CCGGTTAAATG
66 CCGATTAAATG
68304 ATATAAAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCACTACCTATTACATTATATAAGCGCTAACTAATATATTATTGTACTTAATAATATTT
CCGATTAAATGCCTATTTTATT
Found at i:73924 original size:28 final size:29
Alignment explanation
Indices: 73883--73948 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
73873 ACAACCATTG
* *
73883 AAAATAACATCATTTT-AAAAAAAATACC
1 AAAATATCACCATTTTCAAAAAAAATACC
* * *
73911 AAAATATCACCATTTTCAAAATAATTACT
1 AAAATATCACCATTTTCAAAAAAAATACC
73940 AAAATATCA
1 AAAATATCA
73949 TTTAAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (29 bp):
AAAATATCACCATTTTCAAAAAAAATACC
Found at i:74013 original size:29 final size:29
Alignment explanation
Indices: 73981--74048 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
73971 AAATTATGAA
73981 AATAACACCCTTTTCAAAATAATTACCAG
1 AATAACACCCTTTTCAAAATAATTACCAG
* *
74010 AATAGA-ACCCTTTTCCAAATAATTATCAG
1 AATA-ACACCCTTTTCAAAATAATTACCAG
*
74039 AATAGCACCC
1 AATAACACCC
74049 AGTCAACGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 33 0.97
30 1 0.03
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.26
Consensus pattern (29 bp):
AATAACACCCTTTTCAAAATAATTACCAG
Found at i:74082 original size:23 final size:23
Alignment explanation
Indices: 74056--74100 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
74046 CCCAGTCAAC
* *
74056 GGTCGGGTCAACGGGTCGGGTCA
1 GGTCAGGTCAACGGGTCAGGTCA
74079 GGTCAGGTCAACGGGTCAGGTC
1 GGTCAGGTCAACGGGTCAGGTC
74101 GTAACTGGTC
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:0.16, C:0.22, G:0.44, T:0.18
Consensus pattern (23 bp):
GGTCAGGTCAACGGGTCAGGTCA
Found at i:80954 original size:29 final size:29
Alignment explanation
Indices: 80912--80978 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
80902 CCATTTTACG
* *
80912 AAAATAGCATCATTTTCAAAAAAAATACC
1 AAAATATCACCATTTTCAAAAAAAATACC
* * *
80941 AAAATATCACCATTTTCAAAATAATTACT
1 AAAATATCACCATTTTCAAAAAAAATACC
80970 AAAATATCA
1 AAAATATCA
80979 TTTTTTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.28
Consensus pattern (29 bp):
AAAATATCACCATTTTCAAAAAAAATACC
Found at i:80985 original size:29 final size:29
Alignment explanation
Indices: 80924--81105 Score: 96
Period size: 29 Copynumber: 6.6 Consensus size: 29
80914 AATAGCATCA
* * * *
80924 TTTTCAAAAAAAATACCAAAATATCACCA
1 TTTTCAAAATAATTACTAAAATATCACCT
**
80953 TTTTCAAAATAATTACTAAAATATCATTTT
1 TTTTCAAAATAATTACTAAAATATCA-CCT
*
80983 TTTTTAAAA-AATTACT-AAAT-T-A--T
1 TTTTCAAAATAATTACTAAAATATCACCT
**** * *
81006 TTTTTTTTA-AATTACAAAAATAGCA--T
1 TTTTCAAAATAATTACTAAAATATCACCT
* *
81032 TTTTCAAAATAATTA-TCAAAATAGCACCC
1 TTTTCAAAATAATTACT-AAAATATCACCT
* * * *
81061 TTTTCAAAATAATTACCAGAATAGCACCC
1 TTTTCAAAATAATTACTAAAATATCACCT
*
81090 TTTTCCAAATAATTAC
1 TTTTCAAAATAATTAC
81106 CAGAATAGCA
Statistics
Matches: 123, Mismatches: 21, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
23 13 0.11
24 4 0.03
26 8 0.07
27 15 0.12
28 4 0.03
29 71 0.58
30 8 0.07
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTTTCAAAATAATTACTAAAATATCACCT
Found at i:81007 original size:26 final size:30
Alignment explanation
Indices: 80953--81016 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 30
80943 AATATCACCA
*
80953 TTTTCAAAATAATTACTAAAATATCATTTT
1 TTTTTAAAATAATTACTAAAATATCATTTT
80983 TTTTTAAAA-AATTACT-AAAT-T-ATTTT
1 TTTTTAAAATAATTACTAAAATATCATTTT
81009 TTTTTAAA
1 TTTTTAAA
81017 TTACAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 13 0.39
27 1 0.03
28 4 0.12
29 7 0.21
30 8 0.24
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTTTAAAATAATTACTAAAATATCATTTT
Found at i:81106 original size:29 final size:29
Alignment explanation
Indices: 81032--81118 Score: 147
Period size: 29 Copynumber: 3.0 Consensus size: 29
81022 AAAATAGCAT
* *
81032 TTTTCAAAATAATTATCAAAATAGCACCC
1 TTTTCAAAATAATTACCAGAATAGCACCC
81061 TTTTCAAAATAATTACCAGAATAGCACCC
1 TTTTCAAAATAATTACCAGAATAGCACCC
*
81090 TTTTCCAAATAATTACCAGAATAGCACCC
1 TTTTCAAAATAATTACCAGAATAGCACCC
81119 GGTCACCGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (29 bp):
TTTTCAAAATAATTACCAGAATAGCACCC
Found at i:81129 original size:7 final size:7
Alignment explanation
Indices: 81118--81156 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
81108 GAATAGCACC
*
81118 CGGTCAC
1 CGGTCAA
81125 CGGTCAA
1 CGGTCAA
81132 CGGTCAA
1 CGGTCAA
81139 CGGTCAA
1 CGGTCAA
81146 CGTGTCAA
1 CG-GTCAA
81154 CGG
1 CGG
81157 GTCGAGTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (7 bp):
CGGTCAA
Found at i:81167 original size:21 final size:22
Alignment explanation
Indices: 81141--81182 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
81131 ACGGTCAACG
*
81141 GTCAACGTGTCA-ACGGGTCGA
1 GTCAACGGGTCAGACGGGTCGA
81162 GTCAACGGGTCAGGACGGGTC
1 GTCAACGGGTCA-GACGGGTC
81183 AAAATCAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
23 7 0.39
ACGTcount: A:0.21, C:0.24, G:0.38, T:0.17
Consensus pattern (22 bp):
GTCAACGGGTCAGACGGGTCGA
Found at i:82621 original size:17 final size:17
Alignment explanation
Indices: 82599--82637 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
82589 TGAATCAAAT
82599 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
82616 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
82633 -AATTA
1 TAATTA
82638 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:83268 original size:17 final size:17
Alignment explanation
Indices: 83246--83285 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
83236 TGAATCAAAT
83246 TAATTAAATATTATTTA
1 TAATTAAATATTATTTA
*
83263 TAATTAGATATTATTTA
1 TAATTAAATATTATTTA
83280 -AATTAA
1 TAATTAA
83286 TTGTAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TAATTAAATATTATTTA
Found at i:86383 original size:28 final size:28
Alignment explanation
Indices: 86343--86427 Score: 125
Period size: 28 Copynumber: 3.0 Consensus size: 28
86333 TTCCGTTTAT
* ***
86343 ATTATACTATCGATCTGGTGCTTGAAAG
1 ATTATACTATCGAGCCACTGCTTGAAAG
*
86371 ATTATACTATCGAGCCACTGCTTGAGAG
1 ATTATACTATCGAGCCACTGCTTGAAAG
86399 ATTATACTATCGAGCCACTGCTTGAAAG
1 ATTATACTATCGAGCCACTGCTTGAAAG
86427 A
1 A
86428 AACGACAGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (28 bp):
ATTATACTATCGAGCCACTGCTTGAAAG
Found at i:86638 original size:61 final size:59
Alignment explanation
Indices: 86549--86661 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 59
86539 GAACATATGA
*
86549 ATAGTCGGTGACCATTTTGTAACTTTTAATAGTCG-GATGACTCAACAAAGCAACATTAT
1 ATAGTCGGTGACCATTTTGTAACTTTTAATAGTCGAG-GGACTCAACAAAGCAACATTAT
*
86608 ATAGTCGAGTGATCATTTTTGTAA-TCTTTAATAGTCGAGGGACTCAACAAAGCA
1 ATAGTCG-GTGACCA-TTTTGTAACT-TTTAATAGTCGAGGGACTCAACAAAGCA
86662 TCACCCCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
59 7 0.15
60 7 0.15
61 33 0.69
62 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (59 bp):
ATAGTCGGTGACCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACATTAT
Found at i:86673 original size:61 final size:61
Alignment explanation
Indices: 86549--86695 Score: 144
Period size: 61 Copynumber: 2.5 Consensus size: 61
86539 GAACATATGA
* * ** *
86549 ATAGTCG-GTGACCA-TTTTGTAACTTTTAATAGTCGGATGACTCAACAAAGCAACATTAT
1 ATAGTCGAGTGATCATTTTTGTAACTTTTAATAGTCGGAGGACTCAACAAAGCAACACCAC
* *
86608 ATAGTCGAGTGATCATTTTTGTAA-TCTTTAATAGTC-GAGGGACTCAACAAAGCATCACCCC
1 ATAGTCGAGTGATCATTTTTGTAACT-TTTAATAGTCGGA-GGACTCAACAAAGCAACACCAC
* *
86669 ATAGT-TAGGGGATCATTTTTGT-ACTTT
1 ATAGTCGA-GTGATCATTTTTGTAACTTT
86696 AACCAAGTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
59 7 0.10
60 13 0.18
61 53 0.73
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (61 bp):
ATAGTCGAGTGATCATTTTTGTAACTTTTAATAGTCGGAGGACTCAACAAAGCAACACCAC
Found at i:87001 original size:2 final size:2
Alignment explanation
Indices: 86990--87022 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
86980 TAAATCATCG
86990 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87023 TTTTATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:91739 original size:12 final size:12
Alignment explanation
Indices: 91722--91752 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
91712 AAACCCACAT
91722 GTGAGTGCATGA
1 GTGAGTGCATGA
91734 GTGAGTGCATGA
1 GTGAGTGCATGA
91746 GTGAGTG
1 GTGAGTG
91753 AGATGTGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.06, G:0.45, T:0.26
Consensus pattern (12 bp):
GTGAGTGCATGA
Found at i:93071 original size:2 final size:2
Alignment explanation
Indices: 93064--93088 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93054 AAGGAAATAA
93064 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
93089 ACGTTGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:93937 original size:229 final size:227
Alignment explanation
Indices: 93531--93979 Score: 756
Period size: 229 Copynumber: 2.0 Consensus size: 227
93521 GTAAATTATC
* * * *
93531 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATAATTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
93596 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
93661 TGTGTAAATGAAATTATTAAATTAATATTGTATGTGGAAAACATGAAACACTATTAAAAAAAATT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATT
93726 GAAACATAAATTACATAACTTTCAAAAAAGTATA
195 GAAACATAAATTACATAACTTT-AAAAAAGTATA
* *
93760 TATCATTTTTATAAAAGTGTTCATAATTATTTCACTGTTGAAAACATATTTATTA-TATATTTGG
1 TATCATTTTTATAAAAGTGTCCATAATTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
93824 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
93889 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
93954 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
93980 GCAGTTATAA
Statistics
Matches: 207, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
227 4 0.02
228 30 0.14
229 157 0.76
230 16 0.08
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATAATTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:94067 original size:20 final size:19
Alignment explanation
Indices: 94044--94089 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
94034 CGATATACCA
94044 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
94064 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
94084 GGTAAA
1 GGTAAA
94090 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:94233 original size:20 final size:19
Alignment explanation
Indices: 94210--94256 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
94200 CGATATAACA
94210 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
94230 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
94250 GGTAAAA
1 GGTAAAA
94257 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:94258 original size:17 final size:19
Alignment explanation
Indices: 94219--94261 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
94209 AGGTAAAAAT
94219 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
94239 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
94256 ATGATA
1 ATGATA
94262 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:96535 original size:21 final size:21
Alignment explanation
Indices: 96488--96552 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
96478 AAGACAATCA
* *
96488 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
96510 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
96530 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
96551 AG
1 AG
96553 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:96630 original size:33 final size:33
Alignment explanation
Indices: 96588--96651 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
96578 ATAGATGGAT
*
96588 TGGTGAAAGAAGTAGAGGTGTTGAGGGGTGAAG
1 TGGTGAAAGAAGTAGAGGTGTTAAGGGGTGAAG
* *
96621 TGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 TGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
96652 TATTAAGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
TGGTGAAAGAAGTAGAGGTGTTAAGGGGTGAAG
Found at i:98464 original size:19 final size:19
Alignment explanation
Indices: 98440--98488 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
98430 AATGTAGGGT
98440 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
98459 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
98478 T-ATTTTCGTAT
1 TAATTTT-GTAT
98489 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:99085 original size:198 final size:197
Alignment explanation
Indices: 98613--100087 Score: 2873
Period size: 198 Copynumber: 7.5 Consensus size: 197
98603 GGCCAAAAGG
98613 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
98678 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
98743 ATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
98807 AAT
195 AAT
98810 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
98875 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA-CC
98940 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
99005 AAT
195 AAT
99008 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
99073 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
99138 TAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
99202 AT
196 AT
99204 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
99269 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA-CC
99334 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
99399 AAT
195 AAT
99402 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
99467 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
99532 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
99597 AT
196 AT
99599 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
99664 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA-CC
99729 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
99794 AAT
195 AAT
99797 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
99862 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
99927 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
99992 AT
196 AT
99994 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
100059 TGTCGACACTAATATAGTTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
100088 CTAATTTAAA
Statistics
Matches: 1268, Mismatches: 5, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
196 204 0.16
197 523 0.41
198 541 0.43
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (197 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
AT
Found at i:99888 original size:395 final size:394
Alignment explanation
Indices: 98613--100087 Score: 2914
Period size: 395 Copynumber: 3.7 Consensus size: 394
98603 GGCCAAAAGG
98613 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
98678 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
98743 ATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
130 ATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
98808 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
195 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
98873 TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
260 TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
98938 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
325 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
99003 GTAAT
390 GTAAT
99008 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
99073 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
99138 TAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
131 TAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
99203 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAAT
196 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAAT
99268 GTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
261 GTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
99333 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
326 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
99398 TAAT
391 TAAT
99402 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
99467 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
99532 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
99597 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
195 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
99662 TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
260 TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
99727 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
325 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
99792 GTAAT
390 GTAAT
99797 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
99862 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
99927 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
99992 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
195 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
100057 TGTGTCGACACTAATATAGTTTGTGTCGATA
260 TGTGTCGACACTAATATAGTTTGTGTCGATA
100088 CTAATTTAAA
Statistics
Matches: 1078, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
394 450 0.42
395 628 0.58
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (394 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAAT
GTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAAT
Found at i:101566 original size:18 final size:18
Alignment explanation
Indices: 101545--101606 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
101535 AGCGATCGCA
101545 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
101563 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
101581 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
101599 GAAGATGA
1 GAAGATGA
101607 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:101569 original size:6 final size:6
Alignment explanation
Indices: 101545--101630 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
101535 AGCGATCGCA
* * * * * *
101545 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * *
101593 GGCGAT GAAGAT GATGAC GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
101631 TGATCCAAAC
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:101580 original size:3 final size:3
Alignment explanation
Indices: 101560--101634 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
101550 TGAAGCTGAC
* * * * * ** *
101560 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
101608 GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
101635 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:101599 original size:36 final size:36
Alignment explanation
Indices: 101548--101626 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
101538 GATCGCAGAA
*
101548 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
101584 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
101620 GATGAAG
1 GATGAAG
101627 ATGATGATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.20
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:101634 original size:12 final size:12
Alignment explanation
Indices: 101548--101630 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
101538 GATCGCAGAA
*
101548 GATGAAGCTGAC
1 GATGAAGATGAC
101560 GATGAAGATGAC
1 GATGAAGATGAC
*
101572 GATGATGATGAC
1 GATGAAGATGAC
* *
101584 GATGAAGCTGGC
1 GATGAAGATGAC
*
101596 GATGAAGATGAT
1 GATGAAGATGAC
* * *
101608 GACGATGATGAT
1 GATGAAGATGAC
101620 GATGAAGATGA
1 GATGAAGATGA
101631 TGATCCAAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:106037 original size:22 final size:23
Alignment explanation
Indices: 106012--106064 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
106002 TAACTACAAG
*
106012 TATATAATGTAATAGGTATCG-T
1 TATATAATGTAATAGGTAGCGCT
106034 TATATAATGTAATAGGTAGCGCT
1 TATATAATGTAATAGGTAGCGCT
106057 TATATAAT
1 TATATAAT
106065 ATATTGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (23 bp):
TATATAATGTAATAGGTAGCGCT
Found at i:106514 original size:18 final size:18
Alignment explanation
Indices: 106493--106529 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
106483 GTAATTGGAG
106493 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
106511 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
106529 T
1 T
106530 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:106537 original size:24 final size:24
Alignment explanation
Indices: 106485--106531 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
106475 TTTCATATGT
* *
106485 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
106509 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
106532 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:106829 original size:39 final size:39
Alignment explanation
Indices: 106786--106872 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
106776 TCCGATGCTC
*
106786 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
106825 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
106864 ATCAAAATC
1 ATCAAAATC
106873 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:107342 original size:22 final size:22
Alignment explanation
Indices: 107293--107364 Score: 99
Period size: 23 Copynumber: 3.2 Consensus size: 22
107283 ATAGGTAAAA
* *
107293 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTATCG-TT
107316 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTATCGTT
*
107338 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTA-TCGTT
107361 ATAT
1 ATAT
107365 TGTAAAGTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 19 0.42
23 26 0.58
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (22 bp):
ATATAATGTAATAGGTATCGTT
Found at i:107748 original size:23 final size:23
Alignment explanation
Indices: 107717--107789 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
107707 ATAGGTAAAA
*
107717 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
107740 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
107763 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
107786 ATAT
1 ATAT
107790 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:107911 original size:424 final size:426
Alignment explanation
Indices: 107081--108133 Score: 1922
Period size: 424 Copynumber: 2.5 Consensus size: 426
107071 TTATCTTTGG
107081 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
107146 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAAT
*
107211 TGAAACATAAATTATATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGGTATGGACACTTT
130 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAA-GTATGGACACTTT
107276 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTATA
194 C-A-AT-ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTATA
107341 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
256 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
*
107406 TTCACTGTGGAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAAT
321 TTCACTGTGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAAT
107471 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATAT-
386 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
107511 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAA-TTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
107575 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
*
107640 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGTATGGACACTTACA
131 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGTATGGACACTTTCA
107705 ATATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAT
196 ATATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TTATATAAT
107770 GTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTCA
260 GTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
*
107834 CTGTTGAAAACATTAATTTAAGGTTATTTTTTGAGTGAG-TTTAAGATTTTAATTTAGTAATTAT
325 CTG-TGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTAT
107898 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
389 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
*
107936 TT-A--TTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
* *
107998 TTGTTCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTTAAAAAATT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
108063 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
131 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTAT-AAAAGTATGGACACTTTC
108128 AATATA
195 AATATA
108134 TTATAATAAA
Statistics
Matches: 610, Mismatches: 8, Indels: 16
0.96 0.01 0.03
Matches are distributed among these distances:
422 54 0.09
423 112 0.18
424 149 0.24
425 103 0.17
426 1 0.00
427 13 0.02
428 58 0.10
429 59 0.10
430 61 0.10
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (426 bp):
TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGTATGGACACTTTCA
ATATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTATATAATG
TAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAC
TGTGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAG
GCGTCTAATGATTTATTTTTTACGTTACGATATATA
Found at i:109323 original size:32 final size:32
Alignment explanation
Indices: 109284--109358 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
109274 TAAATACAAT
*
109284 AAAAATTTCTTATTAAATATTTAGTACTTTTG
1 AAAAATTTCTTATTAAATATTTAATACTTTTG
109316 AAAAATTTCTTATTAAATATTTAATACTTTTG
1 AAAAATTTCTTATTAAATATTTAATACTTTTG
*
109348 AAAAAATTCTT
1 AAAAATTTCTT
109359 CCTCTTTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (32 bp):
AAAAATTTCTTATTAAATATTTAATACTTTTG
Found at i:113645 original size:32 final size:32
Alignment explanation
Indices: 113604--113667 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
113594 TCCTTCTTTG
113604 TCAACTCAAACATTACCCAACTTGTAACATGT
1 TCAACTCAAACATTACCCAACTTGTAACATGT
113636 TCAACTCAAACATTACCCAACTTGTAACATGT
1 TCAACTCAAACATTACCCAACTTGTAACATGT
113668 CTCTTTCATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (32 bp):
TCAACTCAAACATTACCCAACTTGTAACATGT
Found at i:115909 original size:12 final size:12
Alignment explanation
Indices: 115888--115917 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
115878 ATTATAAATT
115888 TAAA-AAAATAA
1 TAAATAAAATAA
115899 TAAATAAAATAA
1 TAAATAAAATAA
115911 TAAATAA
1 TAAATAA
115918 TGAATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
TAAATAAAATAA
Found at i:115914 original size:23 final size:24
Alignment explanation
Indices: 115866--115914 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
115856 GAAAAGGTAT
* *
115866 AAAAAATAAATAATTATAAATTTA
1 AAAAAATAAATAAATATAAATATA
115890 AAAAAAT-AATAAATA-AAATAATA
1 AAAAAATAAATAAATATAAAT-ATA
115913 AA
1 AA
115915 TAATGAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
24 7 0.32
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAAAATAAATAAATATAAATATA
Found at i:115938 original size:12 final size:13
Alignment explanation
Indices: 115894--115937 Score: 56
Period size: 12 Copynumber: 3.4 Consensus size: 13
115884 AATTTAAAAA
115894 AATAATAAATAA-
1 AATAATAAATAAT
115906 AATAATAAATAAT
1 AATAATAAATAAT
115919 GAATTAA-AAATAAT
1 -AA-TAATAAATAAT
115933 AATAA
1 AATAA
115938 AGATAAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 15 0.52
13 2 0.07
14 9 0.31
15 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:116007 original size:17 final size:17
Alignment explanation
Indices: 115987--116020 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
115977 AATGGGATAA
*
115987 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
116004 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
116021 TGGGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:116736 original size:24 final size:25
Alignment explanation
Indices: 116709--116816 Score: 66
Period size: 24 Copynumber: 4.3 Consensus size: 25
116699 AAAACTTAAT
116709 TAAAATACTAAAACCT-AATTAAAC
1 TAAAATACTAAAACCTAAATTAAAC
* *
116733 TAAAATACCTAAAA-C-AAAGATAAAA
1 TAAAATA-CTAAAACCTAAA-TTAAAC
* * *
116758 TATAAA-AATAATATCCTAAAACTT-AAT
1 TA-AAATACTAA-AACCT-AAA-TTAAAC
*
116785 TAAAATACTAAAACCT-ATTTAAAC
1 TAAAATACTAAAACCTAAATTAAAC
116809 TAAAATAC
1 TAAAATAC
116817 AAAGATAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
23 2 0.03
24 24 0.38
25 14 0.22
26 11 0.17
27 8 0.13
28 4 0.06
ACGTcount: A:0.59, C:0.14, G:0.01, T:0.26
Consensus pattern (25 bp):
TAAAATACTAAAACCTAAATTAAAC
Found at i:116840 original size:76 final size:76
Alignment explanation
Indices: 116629--116816 Score: 333
Period size: 76 Copynumber: 2.5 Consensus size: 76
116619 TCTTAAATCC
*
116629 TAATTAAAATACTTAAAA-CTATTTACACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
1 TAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
*
116693 TATTCTAAAACT
65 TATCCTAAAACT
*
116705 TAATTAAAATACTAAAACCTAATTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
116770 ATCCTAAAACT
66 ATCCTAAAACT
116781 TAATTAAAATACTAAAACCTATTTAAACTAAAATAC
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATAC
116817 AAAGATAAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
75 5 0.05
76 102 0.95
ACGTcount: A:0.59, C:0.13, G:0.01, T:0.28
Consensus pattern (76 bp):
TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
ATCCTAAAACT
Found at i:118661 original size:24 final size:24
Alignment explanation
Indices: 118631--118689 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
118621 CCAAATCAAT
*
118631 TTTTTCTGCACTGTTCTGTTCGAA
1 TTTTTCTGCACTGTTATGTTCGAA
118655 TTTTTCTGCACTGTTATGTTCGAA
1 TTTTTCTGCACTGTTATGTTCGAA
*
118679 CTTTTCTGCAC
1 TTTTTCTGCAC
118690 ATTTCGAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.14, C:0.22, G:0.15, T:0.49
Consensus pattern (24 bp):
TTTTTCTGCACTGTTATGTTCGAA
Done.