Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008914.1 Hibiscus syriacus cultivar Beakdansim tig00112217_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: 1601432
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:435 original size:64 final size:63
Alignment explanation
Indices: 297--520 Score: 201
Period size: 64 Copynumber: 3.5 Consensus size: 63
287 TTATATGAAT
* *
297 GTGCATCGATGCATTGGTAGTGCATCGATGCA--CTATTTTAA-A-TAAAGACATCGAATGCAAT
1 GTGCATCGATGCATTAGTAGTGCATCGATGCATCCCA--TTAATAGT-AA-ACATCGAATGCAA-
358 TC-
61 TCG
* *
360 GTGCATTGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATTAGTAGTGCATCGATGCATCCCATTAATAGT-AAACATCGAATGCAATCG
* ** * * * *
424 GTGCATCGATGCATTAGGAGTGCATCGATGCATCCCAACAAT-GATACTACATCGAATAC-CTTG
1 GTGCATCGATGCATTAGTAGTGCATCGATGCATCCCATTAATAG-TA-AACATCGAATGCAATCG
* *
487 GATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 G-TGCATCGATGCATTAGTAGTGCATCGATGCAT
521 ACCTTCATTA
Statistics
Matches: 136, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
63 40 0.29
64 91 0.67
65 5 0.04
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (63 bp):
GTGCATCGATGCATTAGTAGTGCATCGATGCATCCCATTAATAGTAAACATCGAATGCAATCG
Found at i:844 original size:12 final size:12
Alignment explanation
Indices: 826--873 Score: 80
Period size: 12 Copynumber: 4.0 Consensus size: 12
816 TATATATGTT
826 CATGTGATATG-
1 CATGTGATATGA
837 CTATGTGATATGA
1 C-ATGTGATATGA
850 CATGTGATATGA
1 CATGTGATATGA
862 CATGTGATATGA
1 CATGTGATATGA
874 GAACATGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 1 0.03
12 33 0.94
13 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:924 original size:29 final size:29
Alignment explanation
Indices: 889--962 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
879 TGATATGAAG
889 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
918 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
947 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
963 ACATATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:1064 original size:15 final size:15
Alignment explanation
Indices: 1047--1121 Score: 102
Period size: 15 Copynumber: 5.2 Consensus size: 15
1037 GAGGGTATAA
* *
1047 TAGTCCTTCAGGATA
1 TAGTCCTTCGGGATG
1062 TAGTCCTTC-GG--G
1 TAGTCCTTCGGGATG
1074 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
1089 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
1104 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
1119 TAG
1 TAG
1122 GAGTCCTACG
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
12 9 0.17
13 2 0.04
14 2 0.04
15 41 0.76
ACGTcount: A:0.16, C:0.21, G:0.31, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:1087 original size:27 final size:29
Alignment explanation
Indices: 1047--1117 Score: 101
Period size: 27 Copynumber: 2.5 Consensus size: 29
1037 GAGGGTATAA
*
1047 TAGTCCTTCAGGATATAGTCCTTC-GG-G
1 TAGTCCTTCGGGATATAGTCCTTCGGGAG
*
1074 TAGTCCTTCGGGATGTAGTCCTTCGGGACG
1 TAGTCCTTCGGGATATAGTCCTTCGGGA-G
1104 TAGTCCTTCGGGAT
1 TAGTCCTTCGGGAT
1118 GTAGGAGTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 22 0.56
28 2 0.05
30 15 0.38
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.32
Consensus pattern (29 bp):
TAGTCCTTCGGGATATAGTCCTTCGGGAG
Found at i:1134 original size:33 final size:30
Alignment explanation
Indices: 1047--1136 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 30
1037 GAGGGTATAA
* * *
1047 TAGTCCTTCAGGATATAGTCCTTC-GG--G
1 TAGTCCTTCGGGATGTAGTCCTACGGGACG
*
1074 TAGTCCTTCGGGATGTAGTCCTTCGGGACG
1 TAGTCCTTCGGGATGTAGTCCTACGGGACG
1104 TAGTCCTTCGGGATGTAGGAGTCCTACGGGACG
1 TAGTCCTTCGGGATGT---AGTCCTACGGGACG
1137 AATACTGAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
27 22 0.41
28 2 0.04
30 17 0.31
33 13 0.24
ACGTcount: A:0.17, C:0.22, G:0.32, T:0.29
Consensus pattern (30 bp):
TAGTCCTTCGGGATGTAGTCCTACGGGACG
Found at i:7348 original size:64 final size:63
Alignment explanation
Indices: 7272--7495 Score: 197
Period size: 64 Copynumber: 3.5 Consensus size: 63
7262 TTATATGAAT
*
7272 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTATTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATTGGTAGTGCATCGATGCACCCA--TTAATAATAAA-ACATCGAATGCAA-T
7335 C-
62 CG
** * *
7336 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
** * ** * * *
7400 GTGCATCGATGCATTAGG-AGTGCATCGATGCATCCCAACAATGATACTACATCGAATAC-CTTG
1 GTGCATCGATGCATT-GGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
* **
7463 GATGCACCGATGCATCAGTAGTGCATCGATGCA
1 G-TGCATCGATGCATTGGTAGTGCATCGATGCA
7496 TACCTTCATT
Statistics
Matches: 133, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
63 6 0.05
64 120 0.90
65 5 0.04
66 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATTGGTAGTGCATCGATGCACCCATTAATAATAAAACATCGAATGCAATCG
Found at i:7822 original size:12 final size:12
Alignment explanation
Indices: 7805--7851 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
7795 ATATATGTTC
*
7805 ATGTGATATGCT
1 ATGTGATATGAT
7817 ATGTGATATGAT
1 ATGTGATATGAT
*
7829 ATGTGATATGAC
1 ATGTGATATGAT
*
7841 CTGTGATATGA
1 ATGTGATATGA
7852 GAACATGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:7909 original size:29 final size:29
Alignment explanation
Indices: 7867--7940 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
7857 TGATATGAAG
7867 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
7896 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
7925 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
7941 ACATATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:8043 original size:15 final size:15
Alignment explanation
Indices: 8025--8102 Score: 147
Period size: 15 Copynumber: 5.2 Consensus size: 15
8015 GAGGGTATAA
8025 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
8040 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
8055 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
8070 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
8085 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
8100 TAG
1 TAG
8103 GAGTCCTACG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 61 1.00
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:14352 original size:64 final size:63
Alignment explanation
Indices: 14283--14506 Score: 197
Period size: 64 Copynumber: 3.5 Consensus size: 63
14273 TTATATGAAT
*
14283 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTATTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATTGGTAGTGCATCGATGCACCCA--TTAATAATAAA-ACATCGAATGCAA-T
14346 C-
62 CG
** * *
14347 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
** * ** * * *
14411 GTGCATCGATGCATTAGG-AGTGCATCGATGCATCCCAACAATGATACTACATCGAATAC-CTTG
1 GTGCATCGATGCATT-GGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
* **
14474 GATGCACCGATGCATCAGTAGTGCATCGATGCA
1 G-TGCATCGATGCATTGGTAGTGCATCGATGCA
14507 TACCTTCATT
Statistics
Matches: 133, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
63 6 0.05
64 120 0.90
65 5 0.04
66 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATTGGTAGTGCATCGATGCACCCATTAATAATAAAACATCGAATGCAATCG
Found at i:14862 original size:12 final size:13
Alignment explanation
Indices: 14816--14862 Score: 73
Period size: 12 Copynumber: 3.8 Consensus size: 13
14806 ATATATGTTC
14816 ATGTGATATG-CT
1 ATGTGATATGACT
14828 ATGTGATATGA-T
1 ATGTGATATGACT
14840 ATGTGATATGACT
1 ATGTGATATGACT
14853 -TGTGATATGA
1 ATGTGATATGA
14863 GAACATGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 32 0.97
13 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.26, T:0.40
Consensus pattern (13 bp):
ATGTGATATGACT
Found at i:14922 original size:29 final size:29
Alignment explanation
Indices: 14880--14951 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
14870 ATATGAAGTG
14880 ACATGAGCTACATGATCACAAGAGAAATA
1 ACATGAGCTACATGATCACAAGAGAAATA
*
14909 ACATGAGCTACATGATCACAAGAGAAATG
1 ACATGAGCTACATGATCACAAGAGAAATA
14938 ACATGAG-TACATGA
1 ACATGAGCTACATGA
14952 ACATATGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.17
29 35 0.83
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.18
Consensus pattern (29 bp):
ACATGAGCTACATGATCACAAGAGAAATA
Found at i:15054 original size:15 final size:15
Alignment explanation
Indices: 15036--15098 Score: 108
Period size: 15 Copynumber: 4.2 Consensus size: 15
15026 GAGGGTATAA
15036 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
15051 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
* *
15066 TAGTCCTTCAGGACG
1 TAGTCCTTCGGGATG
15081 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
15096 TAG
1 TAG
15099 GAGTCCTACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.16, C:0.21, G:0.32, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:21349 original size:64 final size:63
Alignment explanation
Indices: 21280--21503 Score: 206
Period size: 64 Copynumber: 3.5 Consensus size: 63
21270 TTATATGAAT
*
21280 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTATTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATTGGTAGTGCATCGATGCACCCA--TTAATAATAAA-ACATCGAATGCAA-T
21343 C-
62 CG
** * *
21344 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
** ** * * *
21408 GTGCATCGATGCATTAGG-AGTGCATCGATGCATCCCAACAATAATACTACATCGAATAC-CTTG
1 GTGCATCGATGCATT-GGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
* **
21471 GATGCACCGATGCATCAGTAGTGCATCGATGCA
1 G-TGCATCGATGCATTGGTAGTGCATCGATGCA
21504 TACCTTCATT
Statistics
Matches: 134, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
63 6 0.04
64 121 0.90
65 5 0.04
66 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATTGGTAGTGCATCGATGCACCCATTAATAATAAAACATCGAATGCAATCG
Found at i:21830 original size:12 final size:12
Alignment explanation
Indices: 21813--21859 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
21803 ATATATGTTC
*
21813 ATGTGATATGCT
1 ATGTGATATGAT
21825 ATGTGATATGAT
1 ATGTGATATGAT
*
21837 ATGTGATATGAC
1 ATGTGATATGAT
*
21849 CTGTGATATGA
1 ATGTGATATGA
21860 GAACATGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:21917 original size:29 final size:29
Alignment explanation
Indices: 21875--21948 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
21865 TGATATGAAG
21875 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
21904 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
21933 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
21949 ACATATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:22051 original size:15 final size:15
Alignment explanation
Indices: 22033--22080 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
22023 GAGGGTATAA
22033 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
22048 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
22063 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
22078 TAG
1 TAG
22081 GAGTCCTACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.31
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:22093 original size:33 final size:30
Alignment explanation
Indices: 22033--22095 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 30
22023 GAGGGTATAA
*
22033 TAGTCCTTCGGGATGTAGTCCTTCGGGACG
1 TAGTCCTTCGGGATGTAGTCCTACGGGACG
22063 TAGTCCTTCGGGATGTAGGAGTCCTACGGGACG
1 TAGTCCTTCGGGATGT---AGTCCTACGGGACG
22096 AATACTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 16 0.55
33 13 0.45
ACGTcount: A:0.16, C:0.22, G:0.35, T:0.27
Consensus pattern (30 bp):
TAGTCCTTCGGGATGTAGTCCTACGGGACG
Found at i:23410 original size:23 final size:24
Alignment explanation
Indices: 23365--23423 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
23355 AAGTAGAATG
* *
23365 TTTTATTTTTAACTTTTAAGTGGA
1 TTTTATTTTTAAATATTAAGTGGA
*
23389 TTTT-TTTTTAAATATTAGGTGGA
1 TTTTATTTTTAAATATTAAGTGGA
*
23412 TAGTTATTTTTA
1 T-TTTATTTTTA
23424 GAGAAATGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 17 0.59
24 6 0.21
25 6 0.21
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (24 bp):
TTTTATTTTTAAATATTAAGTGGA
Found at i:24322 original size:13 final size:13
Alignment explanation
Indices: 24304--24346 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
24294 ATTTTTTACT
*
24304 ATGGAATATTTTA
1 ATGGAATATTGTA
24317 ATGGAAGATATTGTA
1 ATGG-A-ATATTGTA
*
24332 ATGGCATATTGTA
1 ATGGAATATTGTA
24345 AT
1 AT
24347 TATCAAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 14 0.54
14 1 0.04
15 11 0.42
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (13 bp):
ATGGAATATTGTA
Found at i:28577 original size:18 final size:19
Alignment explanation
Indices: 28556--28600 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
28546 TCACTTAACT
28556 ATTTTTTAATTATA-TATA
1 ATTTTTTAATTATATTATA
* *
28574 ATTTTATATTTATATTATA
1 ATTTTTTAATTATATTATA
28593 ATTATTTT
1 ATT-TTTT
28601 TCGTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 12 0.55
19 7 0.32
20 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTTAATTATATTATA
Found at i:36131 original size:6 final size:7
Alignment explanation
Indices: 36115--36141 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
36105 ACAACATTTC
36115 TTTTTAT
1 TTTTTAT
36122 TTTTTAT
1 TTTTTAT
36129 TTTTTAT
1 TTTTTAT
36136 TTTTTA
1 TTTTTA
36142 ATATATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:38320 original size:18 final size:19
Alignment explanation
Indices: 38284--38329 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
38274 TATTGTTAGC
* *
38284 ATATTTTTATTTGATTAAA
1 ATATTTTTATGTGAGTAAA
38303 ATATTTTTA-GTGAGTAAA
1 ATATTTTTATGTGAGTAAA
38321 ATATTTTTA
1 ATATTTTTA
38330 ATAGATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (19 bp):
ATATTTTTATGTGAGTAAA
Found at i:48788 original size:14 final size:14
Alignment explanation
Indices: 48769--48797 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
48759 TGCAGGAAAG
48769 AAATATATATATAT
1 AAATATATATATAT
48783 AAATATATATATAT
1 AAATATATATATAT
48797 A
1 A
48798 TAGAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:50140 original size:30 final size:29
Alignment explanation
Indices: 50077--50176 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 29
50067 TAAAAGAACC
* *
50077 TTTTAAAATTAATTTCTAAATTTTAAAATA
1 TTTT-AAATTAATTTATAAATTATAAAATA
* * **
50107 TTTTATATTAATTTTTAAATTATAATTTCA
1 TTTTAAATTAATTTATAAATTATAAAAT-A
* *
50137 TTTTAAATTGATTTATAAATTTTAAAATA
1 TTTTAAATTAATTTATAAATTATAAAATA
50166 TTTTATAATTA
1 TTTTA-AATTA
50177 TTAGTAGCAT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
29 25 0.45
30 31 0.55
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTTAAATTAATTTATAAATTATAAAATA
Found at i:50170 original size:19 final size:19
Alignment explanation
Indices: 50077--50173 Score: 65
Period size: 19 Copynumber: 4.9 Consensus size: 19
50067 TAAAAGAACC
* *
50077 TTTTAAAATTAATTTCTAAA
1 TTTTAAAA-TATTTTATAAA
50097 TTTTAAAATATTTTATATTAA
1 TTTTAAAATATTTTATA--AA
* * *
50118 TTTTTAAATTATAATT-T-CA
1 -TTTTAAAATAT-TTTATAAA
*
50137 TTTTAAATTGA-TTTATAAA
1 TTTTAAAAT-ATTTTATAAA
50156 TTTTAAAATATTTTATAA
1 TTTTAAAATATTTTATAA
50174 TTATTAGTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
17 2 0.03
18 11 0.18
19 25 0.41
20 8 0.13
21 2 0.03
22 11 0.18
23 2 0.03
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (19 bp):
TTTTAAAATATTTTATAAA
Found at i:50911 original size:22 final size:22
Alignment explanation
Indices: 50854--50912 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
50844 ACGCGATTCT
50854 GACTATCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
* * *
50876 AAAT-TCGCGTTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
*
50897 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
50913 ATATGTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:50926 original size:20 final size:20
Alignment explanation
Indices: 50901--50972 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
50891 TTTTCCGACT
50901 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
* ***
50921 ATCGCAATGCGAGTATGGCT
1 ATCGCAATGCGAATATGTAA
*
50941 ATCGCAACGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
50961 ATCGCAATGCGA
1 ATCGCAATGCGA
50973 TTATTACTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:50984 original size:20 final size:20
Alignment explanation
Indices: 50898--51014 Score: 94
Period size: 20 Copynumber: 5.8 Consensus size: 20
50888 CGATTTTCCG
*
50898 ACTATCGCAATGCGAATATGT
1 ACTATCGCAATGCGATTAT-T
* * *
50919 A-AATCGCAATGCGAGTATG
1 ACTATCGCAATGCGATTATT
* * *
50938 GCTATCGCAACGCGAATATGT
1 ACTATCGCAATGCGATTAT-T
*
50959 A-AATCGCAATGCGATTATT
1 ACTATCGCAATGCGATTATT
* * *
50978 ACTATCGCAACGCGATTCTG
1 ACTATCGCAATGCGATTATT
*
50998 ACTGTCGCAATGCGATT
1 ACTATCGCAATGCGATT
51015 TTCAAAGCAC
Statistics
Matches: 75, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
19 2 0.03
20 72 0.96
21 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
ACTATCGCAATGCGATTATT
Found at i:51014 original size:40 final size:40
Alignment explanation
Indices: 50897--50992 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
50887 GCGATTTTCC
* *
50897 GACTATCGCAATGCGAATATGTAAATCGCAATGCGAGTAT
1 GACTATCGCAACGCGAATATGTAAATCGCAATGCGATTAT
*
50937 GGCTATCGCAACGCGAATATGTAAATCGCAATGCGATTAT
1 GACTATCGCAACGCGAATATGTAAATCGCAATGCGATTAT
*
50977 TACTATCGCAACGCGA
1 GACTATCGCAACGCGA
50993 TTCTGACTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (40 bp):
GACTATCGCAACGCGAATATGTAAATCGCAATGCGATTAT
Found at i:51213 original size:22 final size:22
Alignment explanation
Indices: 51188--51230 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
51178 GGCGACATCC
51188 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
51210 GTCCCCATCTTCGGCGAAATC
1 GTCCCCATCTCCGACGAAATC
51231 CGTCTATCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.40, G:0.16, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:51672 original size:20 final size:19
Alignment explanation
Indices: 51628--51679 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
51618 CGATTTTGGT
* *
51628 TTCGCGTTGCGATTGTCAT
1 TTCGCGTTGCGATAGTCAA
51647 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTC-AA
51667 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
51680 TTTCATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.37
Consensus pattern (19 bp):
TTCGCGTTGCGATAGTCAA
Found at i:51702 original size:20 final size:19
Alignment explanation
Indices: 51627--51700 Score: 94
Period size: 20 Copynumber: 3.8 Consensus size: 19
51617 ACGATTTTGG
51627 TTTCGCGTTGCGATTGTCA
1 TTTCGCGTTGCGATTGTCA
*
51646 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATTGTC-A
* *
51666 ATTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTGTCA
*
51685 TTTTCGTGTTGCGATT
1 -TTTCGCGTTGCGATT
51701 TTAAGTTTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 18 0.38
20 29 0.62
ACGTcount: A:0.14, C:0.19, G:0.24, T:0.43
Consensus pattern (19 bp):
TTTCGCGTTGCGATTGTCA
Found at i:51709 original size:20 final size:20
Alignment explanation
Indices: 51626--51709 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
51616 TACGATTTTG
* *
51626 GTTTCGCGTTGCGATTGTCA
1 GTTTCGCGTTGCGATTTTAA
* *
51646 -TTTCGCGTTGCGATAGTCAA
1 GTTTCGCGTTGCGAT-TTTAA
* *
51666 -ATTCGCGTTGCGATTTTCA
1 GTTTCGCGTTGCGATTTTAA
* *
51685 TTTTCGTGTTGCGATTTTAA
1 GTTTCGCGTTGCGATTTTAA
51705 GTTTC
1 GTTTC
51710 AGAAACTATT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 16 0.32
20 34 0.68
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.44
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTAA
Found at i:53463 original size:18 final size:18
Alignment explanation
Indices: 53440--53489 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
53430 TTTACTCGTA
53440 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
53458 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
53476 ATTTCACTTAGATT
1 ATTTCACTTAGATT
53490 GCTTAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:53669 original size:20 final size:20
Alignment explanation
Indices: 53640--53702 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
53630 TTTACTTTCA
53640 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
* *
53660 CAACGTGAAAATGACTATCA
1 CAACGCGAAAATGACTATCG
**
53680 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
53700 CAA
1 CAA
53703 TGAGAGAATC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:53767 original size:34 final size:37
Alignment explanation
Indices: 53728--53802 Score: 93
Period size: 40 Copynumber: 2.0 Consensus size: 37
53718 GCGATTTTTA
53728 TTTCGCATTGCGAT-TC-TTT-CGTTGCGATAGTCAT
1 TTTCGCATTGCGATATCATTTCCGTTGCGATAGTCAT
*
53762 TTTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAT
1 TTTCGCATTGCGATA-TCA-TTTC-CGTTGCGATAGTCAT
53802 T
1 T
53803 CGTGTTGCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
34 13 0.38
36 2 0.06
38 3 0.09
40 16 0.47
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.43
Consensus pattern (37 bp):
TTTCGCATTGCGATATCATTTCCGTTGCGATAGTCAT
Found at i:53772 original size:20 final size:20
Alignment explanation
Indices: 53747--53802 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
53737 GCGATTCTTT
53747 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
53767 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
53787 CGTTGCGATAGTCATT
1 CGTTGCGATAGTCATT
53803 CGTGTTGCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:53809 original size:18 final size:19
Alignment explanation
Indices: 53747--53813 Score: 100
Period size: 20 Copynumber: 3.5 Consensus size: 19
53737 GCGATTCTTT
53747 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
53767 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
53787 CGTTGCGATAGTCA-TTCG
1 CGTTGCGATAGTCATTTCG
*
53805 TGTTGCGAT
1 CGTTGCGAT
53814 TTTAAGTTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
18 12 0.26
20 34 0.74
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.39
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:54373 original size:21 final size:21
Alignment explanation
Indices: 54299--54385 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
54289 TCCCGACTCA
54299 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* ** **
54320 CCTATCATCCCTCAAGAATCC
1 CCTGTCATCGTTCAAGAGGCC
** *
54341 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* * *
54362 ACTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
54383 CCT
1 CCT
54386 CCCAACATTC
Statistics
Matches: 47, Mismatches: 19, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:55851 original size:36 final size:30
Alignment explanation
Indices: 55771--55834 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
55761 ATAAGAGTTG
55771 ATTTGTTTAATTGATGTGCAAATAATTCTT
1 ATTTGTTTAATTGATGTGCAAATAATTCTT
*
55801 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGCAAATAATTCTT
55831 ATTT
1 ATTT
55835 TTGCTTGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGCAAATAATTCTT
Found at i:56049 original size:19 final size:20
Alignment explanation
Indices: 55985--56317 Score: 153
Period size: 20 Copynumber: 17.9 Consensus size: 20
55975 GCGATTTTCT
*
55985 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
56005 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
56025 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
* *
56044 CATTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
* *
56058 CATTGCAATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * *
56078 CGATTATGC-A-GGTTAAATTCA
1 CG--T-TGCGATAGTCAAATTCG
* ** *
56099 CGTTGCAATAGTCATTTTCA
1 CGTTGCGATAGTCAAATTCG
* **
56119 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
56139 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
56153 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
56173 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
56193 CATTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
*
56207 CGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
56227 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
56247 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
56261 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
* *
56281 CGTTGCAATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
56301 CATTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
56318 AAATATGTAA
Statistics
Matches: 237, Mismatches: 47, Indels: 58
0.69 0.14 0.17
Matches are distributed among these distances:
14 39 0.16
16 4 0.02
17 1 0.00
18 6 0.03
19 19 0.08
20 153 0.65
21 10 0.04
22 2 0.01
23 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:56164 original size:54 final size:54
Alignment explanation
Indices: 56099--56309 Score: 323
Period size: 54 Copynumber: 3.9 Consensus size: 54
56089 GTTAAATTCA
* ** *
56099 CGTTGCAATAGTCATTTTCACATTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTTTCGCATTGCGATTATCC
* *
56153 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCT
1 CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTTTCGCATTGCGATTATCC
* *
56207 CGTTGTGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTTTCGCATTGCGATTATCC
* * *
56261 CGTTGCGATATTCAAATTCACGTTGCAATAGTCATATTCGCATTGCGAT
1 CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTTTCGCATTGCGAT
56310 AGTCAAATAA
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 144 1.00
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTTTCGCATTGCGATTATCC
Found at i:56231 original size:74 final size:74
Alignment explanation
Indices: 55947--56255 Score: 281
Period size: 74 Copynumber: 4.2 Consensus size: 74
55937 TCTGCATCAT
** * * * *
55947 ATTCGCGTTGCGATAGT-AAATACACTTTGCGATTTTCTCGTTGCGATAGTCAAATTCCCGTTGC
1 ATTCGCGTTGCGATAGTCATTTTCACATTGCGATTATCTCATTGCGATAGTCAAATTCCCGTTGC
*
56011 GATAATCAA
66 GATAGTCAA
* * *
56020 ATTCGCGTTGCGATAGTCA-TTTCGCATTGCGATTATCTCATTGCAATAGTCAAATTCGCGATTA
1 ATTCGCGTTGCGATAGTCATTTTCACATTGCGATTATCTCATTGCGATAGTCAAATTCCCG--T-
* *
56084 TGC-A-GGTTAA
63 TGCGATAGTCAA
* * * * * * *
56094 ATTCACGTTGCAATAGTCATTTTCACATTGCGA-TA-GTCATTTTCGCATTG-CGATTATCCCGT
1 ATTCGCGTTGCGATAGTCATTTTCACATTGCGATTATCTCA-TTGCG-ATAGTCAAAT-TCCCGT
56156 TGCGATAGTCAA
63 TGCGATAGTCAA
* * * *
56168 ATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCTCGTTGTGATAGTCAAATTCGCGTTGC
1 ATTCGCGTTGCGATAGTCATTTTCACATTGCGATTATCTCATTGCGATAGTCAAATTCCCGTTGC
*
56233 GATAGTCAT
66 GATAGTCAA
* *
56242 TTTCGCATTGCGAT
1 ATTCGCGTTGCGAT
56256 TATCCCGTTG
Statistics
Matches: 186, Mismatches: 37, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
72 3 0.02
73 55 0.30
74 94 0.51
75 29 0.16
76 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (74 bp):
ATTCGCGTTGCGATAGTCATTTTCACATTGCGATTATCTCATTGCGATAGTCAAATTCCCGTTGC
GATAGTCAA
Found at i:56515 original size:18 final size:18
Alignment explanation
Indices: 56492--56526 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56482 AAGTCGGTTG
*
56492 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
56510 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
56527 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:58582 original size:14 final size:14
Alignment explanation
Indices: 58563--58599 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
58553 TCCCATGGCA
58563 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
58577 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
58591 TTCTTCTTC
1 TT-TTCTTC
58600 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:59553 original size:20 final size:20
Alignment explanation
Indices: 59516--59585 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
59506 TTGAAATTCA
* *
59516 GCATTGCGACAGTCAGAATC
1 GCATTGCGATAGTAAGAATC
* *
59536 GCGTTGCTATAGTAAGAATC
1 GCATTGCGATAGTAAGAATC
*
59556 GCATTGCGATAGTAATAATC
1 GCATTGCGATAGTAAGAATC
*
59576 ACATTGCGAT
1 GCATTGCGAT
59586 TTACATATTC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (20 bp):
GCATTGCGATAGTAAGAATC
Found at i:59602 original size:20 final size:20
Alignment explanation
Indices: 59554--59645 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 20
59544 ATAGTAAGAA
* *
59554 TCGCATTGCGATAGTA-ATAA
1 TCGCATTGCGAT-TTACATAT
*
59574 TCACATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* *** *
59594 TCGCGTTGCGATAGCCATAC
1 TCGCATTGCGATTTACATAT
*
59614 TCGCATTGTGATTTACATAT
1 TCGCATTGCGATTTACATAT
59634 TCGCATTGCGAT
1 TCGCATTGCGAT
59646 AGTCGGAAAA
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
19 2 0.04
20 53 0.96
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:59603 original size:40 final size:40
Alignment explanation
Indices: 59554--59648 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
59544 ATAGTAAGAA
59554 TCGCATTGCGATAGTAATAATCACATTGCGATTTACATAT
1 TCGCATTGCGATAGTAATAATCACATTGCGATTTACATAT
* ** * * *
59594 TCGCGTTGCGATAGCCATACTCGCATTGTGATTTACATAT
1 TCGCATTGCGATAGTAATAATCACATTGCGATTTACATAT
59634 TCGCATTGCGATAGT
1 TCGCATTGCGATAGT
59649 CGGAAAATCG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (40 bp):
TCGCATTGCGATAGTAATAATCACATTGCGATTTACATAT
Found at i:59709 original size:41 final size:42
Alignment explanation
Indices: 59634--59716 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 42
59624 ATTTACATAT
* *
59634 TCGCATTGCGATAGTCGGAAAATCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGATAGTC-GAAAATCGCAACGCGAATCTGGAAAA
***
59677 TCGCAATGCGATAGTC-AAAATCGCGTTGCGAATCTGGAAA
1 TCGCAATGCGATAGTCGAAAATCGCAACGCGAATCTGGAAA
59717 CTGATTTGCG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 20 0.57
43 15 0.43
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (42 bp):
TCGCAATGCGATAGTCGAAAATCGCAACGCGAATCTGGAAAA
Found at i:62173 original size:14 final size:14
Alignment explanation
Indices: 62156--62184 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
62146 TAATCCCTGT
62156 AAATAATTCCCTAC
1 AAATAATTCCCTAC
62170 AAATAATTCCCTAC
1 AAATAATTCCCTAC
62184 A
1 A
62185 TAGAAATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAATTCCCTAC
Found at i:67901 original size:16 final size:16
Alignment explanation
Indices: 67880--67911 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
67870 ACTATTCACA
*
67880 TGAATAGTGAATTTTG
1 TGAATAGTGAAATTTG
67896 TGAATAGTGAAATTTG
1 TGAATAGTGAAATTTG
67912 GTCGGCGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (16 bp):
TGAATAGTGAAATTTG
Found at i:69963 original size:27 final size:27
Alignment explanation
Indices: 69925--69987 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
69915 TAAGTGGGAG
*
69925 ATTGTTGAATATTCAACAATGGCCGGC
1 ATTGTTGAATATTCAACAATGACCGGC
* *
69952 ATTGTTGAATATTCAACATTGACTGGC
1 ATTGTTGAATATTCAACAATGACCGGC
69979 ATTGTTGAA
1 ATTGTTGAA
69988 ATTGCAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (27 bp):
ATTGTTGAATATTCAACAATGACCGGC
Found at i:72801 original size:20 final size:21
Alignment explanation
Indices: 72776--72827 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
72766 TTTTCCCAAT
*
72776 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
72796 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
72817 TCGCAATGCGA
1 TCGCAATGCGA
72828 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:72841 original size:20 final size:20
Alignment explanation
Indices: 72816--72929 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
72806 AATTGGGAAA
*
72816 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
72836 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
72856 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
72877 ATCACAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
72897 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
72917 TTCGCAACGCGAT
1 ATCGCAACGCGAT
72930 TTACATAGCG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 63 0.80
21 12 0.15
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:73487 original size:19 final size:19
Alignment explanation
Indices: 73463--73507 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
73453 GCAACGAGAG
* *
73463 AATCGCAACTCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
73482 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
73501 AATCGCA
1 AATCGCA
73508 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.49, C:0.27, G:0.13, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:73554 original size:33 final size:34
Alignment explanation
Indices: 73508--73571 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
73498 CAAAATCGCA
**
73508 TTGCGATTTTCATTT-CGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCCGCGTTGCGATTCTCTCG
73541 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
73572 ATTATCTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (34 bp):
TTGCGATAGTCATTTCCGCGTTGCGATTCTCTCG
Found at i:73573 original size:20 final size:19
Alignment explanation
Indices: 73503--73596 Score: 81
Period size: 20 Copynumber: 5.1 Consensus size: 19
73493 GAAACCAAAA
* *
73503 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTCTCATT
73522 TCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTCTCATT
**
73538 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTCTCATT
73555 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTCTCATT
* *
73575 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTCTCATT
73595 TC
1 TC
73597 AACCAAAAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
14 11 0.18
16 1 0.02
17 1 0.02
19 16 0.27
20 30 0.50
21 1 0.02
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTCTCATT
Found at i:75771 original size:42 final size:42
Alignment explanation
Indices: 75720--75858 Score: 172
Period size: 42 Copynumber: 3.3 Consensus size: 42
75710 CCACTCTTAT
75720 CGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCAC
1 CGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCAC
* *** * * * * *
75762 CGTTCAAGAGGCTATTGTCA-TCACTCAAGAGTCCACTCCTAT
1 CGTTGAAGAGGCCCCTATCATTC-CTCGAGAGTCCCCTCCCAC
75804 CGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCAC
1 CGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCAC
*
75846 CGTTTAAGAGGCC
1 CGTTGAAGAGGCC
75859 ACTGTCATCG
Statistics
Matches: 76, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
41 2 0.03
42 72 0.95
43 2 0.03
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (42 bp):
CGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCAC
Found at i:75876 original size:84 final size:84
Alignment explanation
Indices: 75692--75867 Score: 307
Period size: 84 Copynumber: 2.1 Consensus size: 84
75682 CCCGACTCGC
* *
75692 CTGTCATCCCTCAAGAGTCCACTCTTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCACTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
75757 CCCACCGTTCAAGAGGCTA
66 CCCACCGTTCAAGAGGCCA
*
75776 TTGTCATCACTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCACTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
75841 CCCACCGTTTAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
75860 CTGTCATC
1 CTGTCATC
75868 GTTGAAGAGG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.26
Consensus pattern (84 bp):
CTGTCATCACTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:75883 original size:42 final size:41
Alignment explanation
Indices: 75747--75897 Score: 115
Period size: 42 Copynumber: 3.6 Consensus size: 41
75737 TCATTCCTCG
* * * *
75747 AGAGTCCCCTCCCACCGTTCAAGAGGCTATTGTCATCACTCA
1 AGAGT-CCCTCCCACCGTTCAAGAGGCCACTGTCATCATTGA
* * * * * * *
75789 AGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCG-
1 AGAGTCC-CTCCCACCGTTCAAGAGGCCACTGTCA-TCATTGA
* *
75831 AGAGTCCCCTCCCACCGTTTAAGAGGCCACTGTCATCGTTGA
1 AGAGT-CCCTCCCACCGTTCAAGAGGCCACTGTCATCATTGA
* *
75873 AGAGGTCCCTCTCACCATTCAAGAG
1 AGA-GTCCCTCCCACCGTTCAAGAG
75898 CCCGATTCAC
Statistics
Matches: 83, Mismatches: 21, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
41 6 0.07
42 71 0.86
43 6 0.07
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (41 bp):
AGAGTCCCTCCCACCGTTCAAGAGGCCACTGTCATCATTGA
Found at i:75897 original size:84 final size:84
Alignment explanation
Indices: 75692--75897 Score: 254
Period size: 84 Copynumber: 2.5 Consensus size: 84
75682 CCCGACTCGC
* * * * *
75692 CTGTCATCCCTCAAGAGTCCACTCTTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCACTCAAGAGTCCACTCCTACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
75757 CCCACCGTTCAAGAGGCTA
66 CCCACCGTTCAAGAGGCCA
* * * *
75776 TTGTCATCACTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCACTCAAGAGTCCACTCCTACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
75841 CCCACCGTTTAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
** *
75860 CTGTCATCGTTGAAGAGGTCC-CT-CTCACCATTCAAGAG
1 CTGTCATCACTCAAGA-GTCCACTCCT-ACCATTCAAGAG
75898 CCCGATTCAC
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
83 2 0.02
84 102 0.94
85 4 0.04
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.25
Consensus pattern (84 bp):
CTGTCATCACTCAAGAGTCCACTCCTACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:77243 original size:14 final size:14
Alignment explanation
Indices: 77224--77259 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
77214 ATTGTTTAAT
77224 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
77238 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
77252 TGATTTGT
1 TGATTTGT
77260 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:77441 original size:19 final size:19
Alignment explanation
Indices: 77419--77554 Score: 148
Period size: 19 Copynumber: 7.7 Consensus size: 19
77409 CGAAATTAAA
* *
77419 TTCGCGTTGCAATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
77438 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
77454 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
77471 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
77490 TTCGCATTGTGATTTTCAT
1 TTCGCATTGCGATTTTCAT
77509 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
77525 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
77542 TTCGCATTGCGAT
1 TTCGCATTGCGAT
77555 AGTAATTTCC
Statistics
Matches: 97, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
14 12 0.12
16 13 0.13
17 13 0.13
19 59 0.61
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:77467 original size:33 final size:33
Alignment explanation
Indices: 77423--77554 Score: 183
Period size: 33 Copynumber: 3.8 Consensus size: 33
77413 ATTAAATTCG
* *
77423 CGTTGCAATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
77456 CGTTGCGATTTTCATTTCGCATTGCGATTTTCATTT
1 CGTTGCGATTTTCATTTCGCATTGCGA--TTC-TCT
*
77492 CGCATTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CG--TTGCGATTTTCATTTCGCATTGCGATTCTCT
77527 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
77555 AGTAATTTCC
Statistics
Matches: 88, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 51 0.58
35 7 0.08
36 6 0.07
38 24 0.27
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:77563 original size:71 final size:71
Alignment explanation
Indices: 77430--77563 Score: 232
Period size: 71 Copynumber: 1.9 Consensus size: 71
77420 TCGCGTTGCA
** *
77430 ATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGC
1 ATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATAGTAATTTCGC
77495 ATTGTG
66 ATTGTG
*
77501 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAGTAATTTC
1 ATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATAGTAATTTC
77564 CGCGTTACGA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (71 bp):
ATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATAGTAATTTCGC
ATTGTG
Found at i:80557 original size:21 final size:20
Alignment explanation
Indices: 80533--80592 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
80523 AACGGTGGGG
80533 GGGGACTCTTGAGGGA-GGATA
1 GGGGACTCTTGAGGGATGG--A
* **
80554 GGGGCCTCTTGAACGATTGGA
1 GGGGACTCTTGAGGGA-TGGA
80575 GGGGACTCTTGAGGGATG
1 GGGGACTCTTGAGGGATG
80593 ACAGGTGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
23 2 0.06
ACGTcount: A:0.20, C:0.13, G:0.45, T:0.22
Consensus pattern (20 bp):
GGGGACTCTTGAGGGATGGA
Found at i:80982 original size:20 final size:20
Alignment explanation
Indices: 80959--81012 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
80949 GAAACTTAAA
80959 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* * *
80979 ATCGCAACGCGGAAATGGCT
1 ATCGCAATGCGAAAATGACT
80999 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
81013 TGAAAATCGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:81034 original size:14 final size:14
Alignment explanation
Indices: 81015--81105 Score: 56
Period size: 14 Copynumber: 5.9 Consensus size: 14
81005 ATGCGAAATG
81015 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
81029 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
81045 ATGAAAACTGCAACGAC
1 A--AAATC-GCAACGAC
*
81062 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
81078 ATGAAATCACAACGAC
1 A--AAATCGCAACGAC
*
81094 AAAAGCGCAACG
1 AAAATCGCAACG
81106 CGAAACACAA
Statistics
Matches: 59, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
14 23 0.39
15 4 0.07
16 12 0.20
17 4 0.07
18 12 0.20
19 4 0.07
ACGTcount: A:0.49, C:0.23, G:0.18, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:81041 original size:33 final size:33
Alignment explanation
Indices: 80999--81110 Score: 174
Period size: 33 Copynumber: 3.4 Consensus size: 33
80989 GGAAATGGCT
80999 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
81032 ATCGCAATGCGAAATGAAAA-CTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATC-GCAACGACAAA
*
81065 ATCGCAATGCGAAATG-AAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
81097 AGCGCAACGCGAAA
1 ATCGCAATGCGAAA
81111 CACAAATCGC
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
32 26 0.35
33 48 0.65
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:81139 original size:19 final size:19
Alignment explanation
Indices: 81117--81232 Score: 92
Period size: 19 Copynumber: 6.6 Consensus size: 19
81107 GAAACACAAA
81117 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
81136 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
81152 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
81168 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
81184 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
81201 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
81220 TCCGCATTGCGAT
1 T-CGCATTGCGAT
81233 AGTCATTTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 19
0.75 0.08 0.18
Matches are distributed among these distances:
14 15 0.19
15 3 0.04
16 12 0.15
17 4 0.05
18 12 0.15
19 22 0.28
20 11 0.14
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:81158 original size:14 final size:14
Alignment explanation
Indices: 81139--81196 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
81129 TTTCATTTCG
81139 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
81153 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
81169 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
81185 CGTTGCGATTTT
1 CGTTGCGATTTT
81197 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:81203 original size:33 final size:33
Alignment explanation
Indices: 81122--81212 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
81112 ACAAATCGCA
*
81122 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
81155 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
81187 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
81213 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:81249 original size:20 final size:20
Alignment explanation
Indices: 81197--81240 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
81187 TTGCGATTTT
81197 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
*
81216 CATTTCCGCATTGCGATAGT
1 CATTTCCGCATTGCGATAGC
81236 CATTT
1 CATTT
81241 TCGTGTTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:81759 original size:18 final size:18
Alignment explanation
Indices: 81733--81777 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
81723 GTCGATCAGA
*
81733 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
81751 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
81769 TGATGGCTC
1 TGATGGCTC
81778 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:83146 original size:20 final size:20
Alignment explanation
Indices: 83098--83156 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
83088 AATAGTTTCT
** *
83098 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
83118 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
83138 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
83157 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:83446 original size:22 final size:22
Alignment explanation
Indices: 83419--83462 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
83409 GATGGAGATA
83419 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
83441 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
83463 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:83736 original size:20 final size:20
Alignment explanation
Indices: 83630--83764 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
83620 CGCTTTGAAA
*
83630 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
83651 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
83671 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
83691 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
83712 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
83732 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
83752 ATCGCATTGCGAT
1 ATCGCATTGCGAT
83765 TTTTCCAATT
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.05
20 66 0.69
21 23 0.24
22 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:83736 original size:61 final size:61
Alignment explanation
Indices: 83630--83767 Score: 195
Period size: 61 Copynumber: 2.3 Consensus size: 61
83620 CGCTTTGAAA
* * * *
83630 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
83691 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
83752 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
83768 TCCAATTCGC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:83783 original size:61 final size:61
Alignment explanation
Indices: 83630--83785 Score: 181
Period size: 61 Copynumber: 2.6 Consensus size: 61
83620 CGCTTTGAAA
* * * * *
83630 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * * *
83691 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
83752 ATCGCATTGCGATTTT-TCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTTGT--AATATCGCGTTGCGAT
83786 TTACTTATTC
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
60 1 0.01
61 77 0.96
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:83812 original size:14 final size:14
Alignment explanation
Indices: 83793--83821 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
83783 GATTTACTTA
83793 TTCGCATTGCGAAT
1 TTCGCATTGCGAAT
83807 TTCGCATTGCGAAT
1 TTCGCATTGCGAAT
83821 T
1 T
83822 GGGAAAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (14 bp):
TTCGCATTGCGAAT
Found at i:83889 original size:21 final size:21
Alignment explanation
Indices: 83849--83889 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
83839 ACTGTAGACC
** *
83849 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
83870 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
83890 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:84607 original size:23 final size:23
Alignment explanation
Indices: 84578--84627 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
84568 TTGAAGGGAT
84578 GATTGTTATCTCTAGAGGTCTCG
1 GATTGTTATCTCTAGAGGTCTCG
84601 GATTGTTATCTCTAGAGGTCTCG
1 GATTGTTATCTCTAGAGGTCTCG
84624 GATT
1 GATT
84628 CAAGCACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.18, C:0.16, G:0.26, T:0.40
Consensus pattern (23 bp):
GATTGTTATCTCTAGAGGTCTCG
Found at i:85231 original size:12 final size:12
Alignment explanation
Indices: 85207--85238 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
85197 TTTACCAATT
85207 TTAATAA-AAAA
1 TTAATAACAAAA
85218 TTAATAACAAAA
1 TTAATAACAAAA
85230 TTAATAACA
1 TTAATAACA
85239 CATTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAATAACAAAA
Found at i:85646 original size:22 final size:22
Alignment explanation
Indices: 85605--85646 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
85595 ATCAAGAGTA
* *
85605 TAATCTTTTAGGTTCGATAAAG
1 TAATATTTTAGGTTCAATAAAG
*
85627 TAATATTTTAGGTTTAATAA
1 TAATATTTTAGGTTCAATAA
85647 GATAATGAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
TAATATTTTAGGTTCAATAAAG
Found at i:85652 original size:22 final size:21
Alignment explanation
Indices: 85604--85652 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
85594 TATCAAGAGT
* *
85604 ATAATCTTTTAGGTTCGATAA
1 ATAATATTTTAGGTTCAATAA
*
85625 AGTAATATTTTAGGTTTAATAA
1 A-TAATATTTTAGGTTCAATAA
85647 GATAAT
1 -ATAAT
85653 GAATCGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.91
23 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (21 bp):
ATAATATTTTAGGTTCAATAA
Found at i:89679 original size:20 final size:20
Alignment explanation
Indices: 89654--89693 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
89644 GTTATGTCTG
89654 TTTCTAGCCGTTGGGGATGA
1 TTTCTAGCCGTTGGGGATGA
* *
89674 TTTCTAGCCTTTTGGGATGA
1 TTTCTAGCCGTTGGGGATGA
89694 AATCTCTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.40
Consensus pattern (20 bp):
TTTCTAGCCGTTGGGGATGA
Found at i:93504 original size:15 final size:14
Alignment explanation
Indices: 93470--93496 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93460 TTAAGTATAA
93470 AAAATACTAAAAAT
1 AAAATACTAAAAAT
93484 AAAATACTAAAAA
1 AAAATACTAAAAA
93497 ATTGAATATA
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:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATACTAAAAAT
Found at i:96458 original size:16 final size:16
Alignment explanation
Indices: 96433--96476 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
96423 GCCTTTTAAG
96433 CTTC-TAGAAAAGAAC
1 CTTCATAGAAAAGAAC
96448 CTTCATAGAAAAGAAC
1 CTTCATAGAAAAGAAC
96464 CTTCATAGGAAAA
1 CTTCATA-GAAAA
96477 CCACTAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.15
16 18 0.67
17 5 0.19
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (16 bp):
CTTCATAGAAAAGAAC
Found at i:98787 original size:21 final size:22
Alignment explanation
Indices: 98760--98813 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
98750 TTTTACTATA
98760 TATATTTAAATTTTTAGTAGTT
1 TATATTTAAATTTTTAGTAGTT
** *
98782 TA-ATTTTTATTTTTAGTATTT
1 TATATTTAAATTTTTAGTAGTT
98803 TATATTTAAAT
1 TATATTTAAAT
98814 GTTTGAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (22 bp):
TATATTTAAATTTTTAGTAGTT
Found at i:98847 original size:14 final size:14
Alignment explanation
Indices: 98760--98850 Score: 55
Period size: 14 Copynumber: 6.1 Consensus size: 14
98750 TTTTACTATA
98760 TATATTTA-AATTTT
1 TATATTTATAA-TTT
*
98774 TAGTAGTT-TAATTT
1 TA-TATTTATAATTT
*
98788 T-TATTTTTAGTATTT
1 TATATTTATA--ATTT
98803 TATATTTA-AATGTT
1 TATATTTATAAT-TT
98817 TGAATATTTTAATAATTT
1 T--ATA-TTT-ATAATTT
98835 TATATTTATAATTT
1 TATATTTATAATTT
98849 TA
1 TA
98851 AATAAATTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
12 4 0.06
13 4 0.06
14 18 0.29
15 15 0.24
16 11 0.18
17 3 0.05
18 4 0.06
19 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (14 bp):
TATATTTATAATTT
Found at i:98848 original size:23 final size:24
Alignment explanation
Indices: 98822--98867 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
98812 ATGTTTGAAT
98822 ATTTT-AAT-AATTTTATATTTATA
1 ATTTTAAATAAATTTTAT-TTTATA
98845 ATTTTAAATAAATTTTATTTTAT
1 ATTTTAAATAAATTTTATTTTAT
98868 TAAAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 8 0.38
25 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTTTAAATAAATTTTATTTTATA
Found at i:100239 original size:14 final size:14
Alignment explanation
Indices: 100220--100275 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
100210 CGTTCGTGAA
100220 CGTTCGATTATGTT
1 CGTTCGATTATGTT
*
100234 CGTTCGGTTATG-T
1 CGTTCGATTATGTT
*
100247 --TT-GTTTATGTT
1 CGTTCGATTATGTT
100258 CGTTCGATTATGTT
1 CGTTCGATTATGTT
100272 CGTT
1 CGTT
100276 TATGTTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 6 0.17
11 3 0.09
13 3 0.09
14 23 0.66
ACGTcount: A:0.11, C:0.12, G:0.23, T:0.54
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:100254 original size:24 final size:24
Alignment explanation
Indices: 100227--100296 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
100217 GAACGTTCGA
*
100227 TTATGTTCGTTCGGTTATGTTTGT
1 TTATGTTCGTTCGATTATGTTTGT
*
100251 TTATGTTCGTTCGATTATGTTCGT
1 TTATGTTCGTTCGATTATGTTTGT
*
100275 TTATGTTCATTC-ATTTATGTTT
1 TTATGTTCGTTCGA-TTATGTTT
100297 AACTCAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.13, C:0.10, G:0.19, T:0.59
Consensus pattern (24 bp):
TTATGTTCGTTCGATTATGTTTGT
Found at i:101034 original size:10 final size:10
Alignment explanation
Indices: 101019--101093 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
101009 GGGTCTCCAA
101019 CGTTTATGTT
1 CGTTTATGTT
101029 CGTTTATGTT
1 CGTTTATGTT
101039 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
101050 ATGTTCGTGTT
1 -CGTTTATGTT
101061 CGTTTATGTT
1 CGTTTATGTT
101071 CG----TGTT
1 CGTTTATGTT
101077 CGTTTATGTT
1 CGTTTATGTT
101087 CGTTTAT
1 CGTTTAT
101094 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:101050 original size:16 final size:16
Alignment explanation
Indices: 101025--101089 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
101015 CCAACGTTTA
101025 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
101041 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
101057 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
101073 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
101089 T
1 T
101090 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:101180 original size:16 final size:16
Alignment explanation
Indices: 101159--101191 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
101149 AAAAATTTTT
101159 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
101175 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
101191 T
1 T
101192 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:105505 original size:110 final size:110
Alignment explanation
Indices: 105354--105629 Score: 372
Period size: 110 Copynumber: 2.5 Consensus size: 110
105344 TGGGAAATTA
* * *
105354 TTTGTTGACAATCAGCCGCCCTTTCATCGTGAAGTTGAGCTTGTGTTGTGTTGAGTCCAATATCC
1 TTTGTTGACAATCAGCCGCCCATTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCC
* * * * *
105419 TTCGTTGTTAAGTTGAAATTGAATCTGAATGAAATTGAAAAGTTG
66 TTCGCTGTGAAGTTGAAATTGAATATGAATGAAACTGAAAAGTGG
* * *
105464 TTTGTTGACAATCAGCCACCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGGGTCCAATATCC
1 TTTGTTGACAATCAGCCGCCCATTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCC
**
105529 TTCGCTGTGAAGTTGAAATTGGCTATGAATGAAACTGAAAAGTGG
66 TTCGCTGTGAAGTTGAAATTGAATATGAATGAAACTGAAAAGTGG
* * * * * * *
105574 TTTGTTGACAACCAGTCGTCCATTCGTTGTGAAGTTGAACTTGTGTTATCTCGAGT
1 TTTGTTGACAATCAGCCGCCCATTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGAGT
105630 GGCGCAATAT
Statistics
Matches: 144, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
110 144 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (110 bp):
TTTGTTGACAATCAGCCGCCCATTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCC
TTCGCTGTGAAGTTGAAATTGAATATGAATGAAACTGAAAAGTGG
Found at i:114811 original size:4 final size:4
Alignment explanation
Indices: 114792--114827 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
114782 AAAACATATT
114792 ATAA AT-A AT-A AT-A ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
114828 TTTTTTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 9 0.29
4 22 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAA
Found at i:114932 original size:8 final size:8
Alignment explanation
Indices: 114909--114942 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
114899 AAACTCATAA
114909 TTTTCTTC
1 TTTTCTTC
114917 ATTTTTCTTC
1 --TTTTCTTC
114927 TTTTCTTC
1 TTTTCTTC
114935 TTTTCTTC
1 TTTTCTTC
114943 ACTTCTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTCTTC
Found at i:123105 original size:19 final size:18
Alignment explanation
Indices: 123078--123133 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
123068 GGTTTAACCA
123078 GTCTGAACCAGGTTGATCG
1 GTCTGAACC-GGTTGATCG
* *
123097 GTCTAAACCGGGTTGACCG
1 GTCTGAACC-GGTTGATCG
123116 GTCTGAACCGGTCTGATC
1 GTCTGAACCGGT-TGATC
123134 CGACCCGACC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 3 0.10
19 28 0.90
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (18 bp):
GTCTGAACCGGTTGATCG
Found at i:138452 original size:14 final size:15
Alignment explanation
Indices: 138421--138449 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
138411 CAACCATCCA
138421 AAAAGGAAAACGGGG
1 AAAAGGAAAACGGGG
138436 AAAAGGAAAACGGG
1 AAAAGGAAAACGGG
138450 AAACTCTCAA
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:0.55, C:0.07, G:0.38, T:0.00
Consensus pattern (15 bp):
AAAAGGAAAACGGGG
Found at i:138735 original size:37 final size:37
Alignment explanation
Indices: 138665--138921 Score: 265
Period size: 37 Copynumber: 6.9 Consensus size: 37
138655 GAAAACATTT
* *
138665 ATATATTATATAGTTTTTTAAAACGTTTGTGAAAATAA
1 ATATATTATATAG-TTTTTAAAACATTTTTGAAAATAA
* * *
138703 ATATAATATATAGTTTTTAAAACATTTTTGAAAACAT
1 ATATATTATATAGTTTTTAAAACATTTTTGAAAATAA
* *
138740 GTATATTATATAG-TTTAAAAACA-TTTTGAAAAT--
1 ATATATTATATAGTTTTTAAAACATTTTTGAAAATAA
* **
138773 ATATAATATATAGTTTTTAAAACA-TTTTGAAAACATTT
1 ATATATTATATAGTTTTTAAAACATTTTTG-AAA-ATAA
* * *
138811 ATATATTATATAATTTTTTTAAAACGTTTTTAAAAATAAA
1 ATATATTATAT-A-GTTTTTAAAACATTTTTGAAAAT-AA
* *
138851 ATATAATATATAGTTTTTAAAATATTTTTGAAAA-AA
1 ATATATTATATAGTTTTTAAAACATTTTTGAAAATAA
*
138887 TATATATTATATAGTTTTTAAAACATTTTAGAAAA
1 -ATATATTATATAGTTTTTAAAACATTTTTGAAAA
138922 CTATATAATT
Statistics
Matches: 183, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
33 11 0.06
34 14 0.08
35 12 0.07
36 13 0.07
37 62 0.34
38 40 0.22
39 4 0.02
40 23 0.13
41 4 0.02
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (37 bp):
ATATATTATATAGTTTTTAAAACATTTTTGAAAATAA
Found at i:138878 original size:148 final size:151
Alignment explanation
Indices: 138638--138930 Score: 461
Period size: 148 Copynumber: 2.0 Consensus size: 151
138628 TGCAAATGGA
* *
138638 TTTTATAAAATATATTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTGTGAAAATAA
1 TTTTATAAAACATATTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTGTAAAAATAA
* *
138703 ATATAATATATAGTTTTTAAAACATTTTTGAAAACATGTATATTATATAG-TTTAAAAACATTTT
66 ATATAATATATAGTTTTTAAAACATTTTTGAAAAAATATATATTATATAGTTTTAAAAACATTTT
138767 -GAAAA-TATATAATATATAG
131 AGAAAACTATATAATATATAG
* *
138786 TTTT-TAAAACAT-TTTGAAAACATTTATATATTATATAATTTTTTTAAAACGTTTTTAAAAATA
1 TTTTATAAAACATATTTGAAAACATTTATATATTATAT-AGTTTTTTAAAACGTTTGTAAAAAT-
* *
138849 AAATATAATATATAGTTTTTAAAATATTTTTGAAAAAATATATATTATATAGTTTTTAAAACATT
64 AAATATAATATATAGTTTTTAAAACATTTTTGAAAAAATATATATTATATAGTTTTAAAAACATT
138914 TTAGAAAACTATATAAT
129 TTAGAAAACTATATAAT
138931 TTTGAAAATA
Statistics
Matches: 132, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
146 24 0.18
147 29 0.22
148 53 0.40
149 13 0.10
150 5 0.04
151 8 0.06
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (151 bp):
TTTTATAAAACATATTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTGTAAAAATAA
ATATAATATATAGTTTTTAAAACATTTTTGAAAAAATATATATTATATAGTTTTAAAAACATTTT
AGAAAACTATATAATATATAG
Found at i:138938 original size:29 final size:29
Alignment explanation
Indices: 138894--138959 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
138884 AAATATATAT
* * *
138894 TATATAGTTTTTAAAACATTTTAGAAAAC
1 TATATAATTTTGAAAACATTTTAGAAAAA
* **
138923 TATATAATTTTGAAAATATTTTTTAAAAA
1 TATATAATTTTGAAAACATTTTAGAAAAA
138952 TATATAAT
1 TATATAAT
138960 ATATAATATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (29 bp):
TATATAATTTTGAAAACATTTTAGAAAAA
Found at i:138980 original size:34 final size:36
Alignment explanation
Indices: 138923--138998 Score: 111
Period size: 34 Copynumber: 2.2 Consensus size: 36
138913 TTTAGAAAAC
* *
138923 TATATAATTTTGAAAATATTTTTTAAAAATATATAA
1 TATATAATATTGAAAATAGTTTTTAAAAATATATAA
*
138959 TATATAATATT-AAAAT-GTTTTTAAAAATATATAT
1 TATATAATATTGAAAATAGTTTTTAAAAATATATAA
138993 TATATA
1 TATATA
138999 GATTTTTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 22 0.59
35 5 0.14
36 10 0.27
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (36 bp):
TATATAATATTGAAAATAGTTTTTAAAAATATATAA
Found at i:138981 original size:65 final size:64
Alignment explanation
Indices: 138855--138991 Score: 161
Period size: 65 Copynumber: 2.1 Consensus size: 64
138845 AATAAAATAT
* * * * *
138855 AATATATAGTTTTTAAAATATTTTTGAAAAAATATATATTATATAGTTTTTAAAACATTTTAGAA
1 AATATATAATTTTGAAAATATTTTTGAAAAAATATATAATATATAGATATTAAAACATTTTA-AA
* **
138920 AACTATATAATTTTGAAAATATTTTT-TAAAAATATATAATATATA-ATATTAAAATGTTTTTAA
1 AA-TATATAATTTTGAAAATATTTTTGAAAAAATATATAATATATAGATATTAAAA-CATTTTAA
138983 A
64 A
138984 AATATATA
1 AATATATA
138992 TTATATAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
63 6 0.10
64 11 0.18
65 24 0.39
66 21 0.34
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (64 bp):
AATATATAATTTTGAAAATATTTTTGAAAAAATATATAATATATAGATATTAAAACATTTTAAA
Found at i:139089 original size:15 final size:16
Alignment explanation
Indices: 139050--139088 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
139040 CTTTTTCTTT
139050 TTATTTATTATTATTAC
1 TTATTT-TTATTATTAC
139067 TTATTTTTATT-TTAC
1 TTATTTTTATTATTAC
139082 TT-TTTTT
1 TTATTTTT
139089 TTTCAGATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.23
15 6 0.27
16 5 0.23
17 6 0.27
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTTTATTATTAC
Found at i:146209 original size:249 final size:244
Alignment explanation
Indices: 145510--146678 Score: 1534
Period size: 249 Copynumber: 4.7 Consensus size: 244
145500 GCTCAAGGCC
* * *
145510 AGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
1 AGAAGGGCTATCTG-CCA--AAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATT
*
145574 TGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCCTTAAGTTCGATTACACTCAGCT
63 TGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCT
* * * * * *** * *
145639 TCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAGACCTTTG
128 TCAA-GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTCCAACCAAAGACCCTTA
*
145704 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
192 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
145757 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
** * ** *
145822 AGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTCCA
66 AGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCA
*
145887 AGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGT
131 AGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT-CCAACCAAAGACCCTTAAGT
* * * * * * * *
145952 TCGATTACACTCAGCTTCAAGGGCATATCATTTACA-ACATAACTCAAGGCT
195 TCGACTACACTCAGCTCCAA-GGCACATCATTTGCAGA-ATAGCTTAAGTCG
* * * * *
146003 AGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
1 AGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATT
** * **
146067 TGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCT
63 TGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCT
* *
146132 TCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTACCAACTAAAGACCCTT
128 TC-AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT-CCAACCAAAGACCCTT
* *
146197 AAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTGCAGAATAGCTTAAGTCG
191 AAGTTCGACTACACTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCG
146252 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
* * * *
146317 AGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGC
66 AGAATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTTAAGTTCGATTACACTCAGC
* * * * * * *** *
146382 TTCAAGGGCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAGACCTTT
127 TTCAA-GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTCCAACCAAAGACCCTT
* *
146447 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
191 AAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
146501 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
* * * *
146566 AGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGC
66 AGAATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTTAAGTTCGATTACACTCAGC
*
146631 TCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT
127 TTCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT
146679 ACTAAAGACT
Statistics
Matches: 826, Mismatches: 81, Indels: 29
0.88 0.09 0.03
Matches are distributed among these distances:
244 64 0.08
245 109 0.13
246 66 0.08
247 58 0.07
248 119 0.14
249 312 0.38
250 35 0.04
251 63 0.08
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (244 bp):
AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
AGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCA
AGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTCCAACCAAAGACCCTTAAGTT
CGACTACACTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
Found at i:146401 original size:415 final size:412
Alignment explanation
Indices: 145609--146687 Score: 1725
Period size: 415 Copynumber: 2.6 Consensus size: 412
145599 GCTATCTGCT
* * * * * * * * * * * *
145609 AAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCT
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCG
* * * * *
145674 AGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
65 AGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATT
* * * * * ** * **
145738 TGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGC--C-AAAGACCCTCGAGTTCGACTACGTTCA
127 TGCAGTATAACTTAAGTCAAGAAGGGTTATCTCCAACTAAAGACCCTTAAGTTCGATTACACTCA
145800 GCTTCGAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCG
192 GCTTC-AAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCG
145865 AGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATC
256 AGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATC
145930 TGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAAC
321 TGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAAC
145995 TCAAGGCTAGAAGGGTTATCTGTTACC
386 TCAAGGCTAGAAGGGTTATCTGTTACC
146022 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGA
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGA
146087 GAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCA
66 GAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCA
146152 GTATAACTTAAGTCAAGAAGGGTTATCTACCAACTAAAGACCCTTAAGTTCGATTACACTCAGCT
131 GTATAACTTAAGTCAAGAAGGGTTATCT-CCAACTAAAGACCCTTAAGTTCGATTACACTCAGCT
146217 TCAAGGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGT
195 TCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGT
* *
146282 TCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTG
259 TCGACTACGTTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG
146347 CCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAACTC
323 CCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAACTC
146412 AAGGCTAGAAGGGTTATCTGTTACC
388 AAGGCTAGAAGGGTTATCTGTTACC
146437 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGA
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGA
146502 GAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCA
66 GAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCA
146567 GTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCT
131 GTATAACTTAAGTCAAGAAGGGTTATCT-CCAACTAAAGACCCTTAAGTTCGATTACACTCAGCT
* * * * * * *
146632 CCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTACTAAAGAC
195 TCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
146688 TTTTGAGTTC
Statistics
Matches: 622, Mismatches: 37, Indels: 13
0.93 0.06 0.02
Matches are distributed among these distances:
409 28 0.05
410 43 0.07
411 1 0.00
412 36 0.06
413 32 0.05
414 148 0.24
415 334 0.54
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (412 bp):
AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGA
GAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCA
GTATAACTTAAGTCAAGAAGGGTTATCTCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTT
CAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTC
GACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCA
ACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAACTCAAG
GCTAGAAGGGTTATCTGTTACC
Found at i:146752 original size:415 final size:413
Alignment explanation
Indices: 145501--146769 Score: 1684
Period size: 415 Copynumber: 3.1 Consensus size: 413
145491 TGCAGCTTAG
* * * * * * * *
145501 CTCAAGGCCAGAAGGGCTATCTGCCCAC-CAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-
1 CTCAAGGCAAGAAGGGTTATCTGCCAACTAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAG
* * * * * * * * * *
145563 GGCACATCATTTGCAGA-ATAGCTTAAGTCGAGAAGGGCTATCTG---CTAAAGACCCTTAAGTT
65 GGCATATCATTTACA-ACATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAGACCTTTGAGTT
* * * * * * * * * * *
145624 CGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT
129 CGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-
* * * * * *
145689 TACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGAATAGCTTAA
192 --CCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAA
* * ** * ** *
145753 GTCGAGAAGGGCTATCTG-C--C-AAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACA
255 GTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGC-TCCAAGGCACA
145814 TCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTT
319 TCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTT
* *
145879 CAGCTCCA-AGGCACATCATTTGCAGCATAA
384 CAGCT-TAGAGGCACATCATTTGCAGAATAA
* *
145909 CTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGG
1 CTCAAGGCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGG
145974 GCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCG
66 GCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCG
146039 ACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
131 ACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
146104 AGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAG
196 AGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAG
* *
146169 AAGGGTTATCTACCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCACATCATTT
261 AAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTCCAA-GGCACATCATTT
146234 GCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTT
325 GCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTT
* *
146299 CGAAGGCACATCATTTGCAGTATAA
390 AG-AGGCACATCATTTGCAGAATAA
* *
146324 CTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGG
1 CTCAAGGCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGG
146389 GCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCG
66 GCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCG
146454 ACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
131 ACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
146519 AGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAG
196 AGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAG
146584 AAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTCCAAGGCACATCATTTG
261 AAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTCCAAGGCACATCATTTG
* * * * * * ** * * * ** *
146649 CAGCATAACTTAAGTCAAGAAGGGTTATCTACTAAAGACTTTTGAGTTCTATTATATTCAACTTA
326 CAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTA
* * * *
146714 GAGGCAAATCAAGCTTACAGAATAG
391 GAGGCACATC-A-TTTGCAGAATAA
*
146739 CTCAAGGCAAGAAGGGTTATCTGTCAA-TAAA
1 CTCAAGGCAAGAAGGGTTATCTGCCAACTAAA
146770 ATTGTCGAGT
Statistics
Matches: 769, Mismatches: 75, Indels: 28
0.88 0.09 0.03
Matches are distributed among these distances:
408 23 0.03
409 53 0.07
410 82 0.11
411 1 0.00
412 36 0.05
413 42 0.05
414 169 0.22
415 363 0.47
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (413 bp):
CTCAAGGCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGG
GCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCG
ACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
AGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAG
AAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTCCAAGGCACATCATTTG
CAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTA
GAGGCACATCATTTGCAGAATAA
Found at i:147449 original size:37 final size:37
Alignment explanation
Indices: 147379--147635 Score: 265
Period size: 37 Copynumber: 6.9 Consensus size: 37
147369 GAAAACATTT
* *
147379 ATATATTATATAGTTTTTTAAAACGTTTGTGAAAATAA
1 ATATATTATATAG-TTTTTAAAACATTTTTGAAAATAA
* * *
147417 ATATAATATATAGTTTTTAAAACATTTTTGAAAACAT
1 ATATATTATATAGTTTTTAAAACATTTTTGAAAATAA
* *
147454 GTATATTATATAG-TTTAAAAACA-TTTTGAAAAT--
1 ATATATTATATAGTTTTTAAAACATTTTTGAAAATAA
* **
147487 ATATAATATATAGTTTTTAAAACA-TTTTGAAAACATTT
1 ATATATTATATAGTTTTTAAAACATTTTTG-AAA-ATAA
* * *
147525 ATATATTATATAATTTTTTTAAAACGTTTTTAAAAATAAA
1 ATATATTATAT-A-GTTTTTAAAACATTTTTGAAAAT-AA
* *
147565 ATATAATATATAGTTTTTAAAATATTTTTGAAAA-AA
1 ATATATTATATAGTTTTTAAAACATTTTTGAAAATAA
*
147601 TATATATTATATAGTTTTTAAAACATTTTAGAAAA
1 -ATATATTATATAGTTTTTAAAACATTTTTGAAAA
147636 CTATATAATT
Statistics
Matches: 183, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
33 11 0.06
34 14 0.08
35 12 0.07
36 13 0.07
37 62 0.34
38 40 0.22
39 4 0.02
40 23 0.13
41 4 0.02
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (37 bp):
ATATATTATATAGTTTTTAAAACATTTTTGAAAATAA
Found at i:147592 original size:148 final size:151
Alignment explanation
Indices: 147352--147644 Score: 461
Period size: 148 Copynumber: 2.0 Consensus size: 151
147342 TGCAAATGGA
* *
147352 TTTTATAAAATATATTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTGTGAAAATAA
1 TTTTATAAAACATATTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTGTAAAAATAA
* *
147417 ATATAATATATAGTTTTTAAAACATTTTTGAAAACATGTATATTATATAG-TTTAAAAACATTTT
66 ATATAATATATAGTTTTTAAAACATTTTTGAAAAAATATATATTATATAGTTTTAAAAACATTTT
147481 -GAAAA-TATATAATATATAG
131 AGAAAACTATATAATATATAG
* *
147500 TTTT-TAAAACAT-TTTGAAAACATTTATATATTATATAATTTTTTTAAAACGTTTTTAAAAATA
1 TTTTATAAAACATATTTGAAAACATTTATATATTATAT-AGTTTTTTAAAACGTTTGTAAAAAT-
* *
147563 AAATATAATATATAGTTTTTAAAATATTTTTGAAAAAATATATATTATATAGTTTTTAAAACATT
64 AAATATAATATATAGTTTTTAAAACATTTTTGAAAAAATATATATTATATAGTTTTAAAAACATT
147628 TTAGAAAACTATATAAT
129 TTAGAAAACTATATAAT
147645 TTTGAAAATA
Statistics
Matches: 132, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
146 24 0.18
147 29 0.22
148 53 0.40
149 13 0.10
150 5 0.04
151 8 0.06
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (151 bp):
TTTTATAAAACATATTTGAAAACATTTATATATTATATAGTTTTTTAAAACGTTTGTAAAAATAA
ATATAATATATAGTTTTTAAAACATTTTTGAAAAAATATATATTATATAGTTTTAAAAACATTTT
AGAAAACTATATAATATATAG
Found at i:147702 original size:33 final size:33
Alignment explanation
Indices: 147562--147707 Score: 106
Period size: 29 Copynumber: 4.4 Consensus size: 33
147552 TTTTAAAAAT
* * *
147562 AAAATATAATATATAGTTTTTAAAATATTTTTGAA
1 AAAATAT-ATATATAATATTGAAAATATTTTT-AA
* * *
147597 AAAATATATATTATATAGTTTTTAAAACA-TTTTAGA
1 AAAATATATA-TATA-A-TATTGAAAATATTTTTA-A
* *
147633 AAACTATATA-AT--T-TTGAAAATATTTTTTA
1 AAAATATATATATAATATTGAAAATATTTTTAA
*
147662 AAAATATATATATAATATT-AAAATGTTTTTAA
1 AAAATATATATATAATATTGAAAATATTTTTAA
147694 AAATATATATATAT
1 AAA-ATATATATAT
147708 TTTTAGAAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
29 17 0.18
30 7 0.08
32 15 0.16
33 12 0.13
34 5 0.05
35 12 0.13
36 14 0.15
37 10 0.11
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (33 bp):
AAAATATATATATAATATTGAAAATATTTTTAA
Found at i:147718 original size:33 final size:32
Alignment explanation
Indices: 147562--147721 Score: 121
Period size: 31 Copynumber: 4.9 Consensus size: 32
147552 TTTTAAAAAT
* * *
147562 AAAATATAATATATAGTTTTTAAAATATTTTTGAA
1 AAAATAT-ATATATAATTTTGAAAATGTTTTT--A
* **
147597 AAAATATATATTATATAGTTTTTAAAA-CATTTTA
1 AAAATATATA-TATA-A-TTTTGAAAATGTTTTTA
* * *
147631 GAAA-A-CTATATAATTTTGAAAATATTTTTTA
1 AAAATATATATATAATTTTGAAAAT-GTTTTTA
*
147662 AAAATATATATATAATATT-AAAATGTTTTTA
1 AAAATATATATATAATTTTGAAAATGTTTTTA
*
147693 AAAATATATATATATTTTTAGAAAATGTT
1 AAAATATATATATAATTTT-GAAAATGTT
147722 CTTCTTTTGT
Statistics
Matches: 102, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
29 8 0.08
30 1 0.01
31 35 0.34
32 8 0.08
33 19 0.19
34 7 0.07
35 11 0.11
36 4 0.04
37 9 0.09
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (32 bp):
AAAATATATATATAATTTTGAAAATGTTTTTA
Found at i:147786 original size:15 final size:15
Alignment explanation
Indices: 147754--147791 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
147744 ACCTTTTTCT
147754 TTTTATTTATTATTAC
1 TTTT-TTTATTATTAC
147770 TTATTTTTATT-TTAC
1 TT-TTTTTATTATTAC
147785 TTTTTTT
1 TTTTTTT
147792 TTTCAGATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.24
15 6 0.29
16 8 0.38
17 2 0.10
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTATTATTAC
Found at i:150106 original size:2 final size:2
Alignment explanation
Indices: 150082--150140 Score: 86
Period size: 2 Copynumber: 30.5 Consensus size: 2
150072 CATTACTTGT
* *
150082 TA TA TT TA TA CA T- TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
150122 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
150141 GCTTATTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:159737 original size:12 final size:12
Alignment explanation
Indices: 159720--159744 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
159710 GAAATCGTCC
159720 ATGGAATTGCAG
1 ATGGAATTGCAG
159732 ATGGAATTGCAG
1 ATGGAATTGCAG
159744 A
1 A
159745 GGGAGGTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (12 bp):
ATGGAATTGCAG
Found at i:160790 original size:22 final size:21
Alignment explanation
Indices: 160760--160804 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
160750 CTTATTAAAT
* *
160760 ATATTATAACTTTTTAAATTGA
1 ATATAATAACATTTTAAA-TGA
160782 ATATAATAACATTTTAAATGA
1 ATATAATAACATTTTAAATGA
160803 AT
1 AT
160805 GTCTCGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (21 bp):
ATATAATAACATTTTAAATGA
Done.