Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008919.1 Hibiscus syriacus cultivar Beakdansim tig00112223_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: 1453011
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 5
Found at i:56 original size:20 final size:20
Alignment explanation
Indices: 1--174 Score: 164
Period size: 20 Copynumber: 8.9 Consensus size: 20
1 CGGATACGCGTTGCGATTTA
1 CGGATACGCGTTGCGATTTA
* * *
21 TGTATTA-TCG-TGCGATTTA
1 CGGA-TACGCGTTGCGATTTA
40 CGGATACGCGTTGCGA--TA
1 CGGATACGCGTTGCGATTTA
*
58 CGGATACGCATTGCGATTTA
1 CGGATACGCGTTGCGATTTA
**
78 CCCATACGCGTTGCGATTTA
1 CGGATACGCGTTGCGATTTA
*
98 CGGATACACGTTGCGATTTA
1 CGGATACGCGTTGCGATTTA
118 CGG--ACGCGTTGCGATTTA
1 CGGATACGCGTTGCGATTTA
* * *
136 TGTG-TTCGCGTTGCGATTTT
1 CG-GATACGCGTTGCGATTTA
** *
156 CATATTCGCGTTGCGATTT
1 CGGATACGCGTTGCGATTT
175 GGAAAATCGC
Statistics
Matches: 126, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
18 34 0.27
19 14 0.11
20 76 0.60
21 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.34
Consensus pattern (20 bp):
CGGATACGCGTTGCGATTTA
Found at i:146 original size:58 final size:57
Alignment explanation
Indices: 1--154 Score: 177
Period size: 58 Copynumber: 2.7 Consensus size: 57
** *
1 CGGATACGCGTTGCGATTTATGTATTATCG-TGCGATTTACGGATACGCGTTGCGATA
1 CGGA-ACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACACGTTGCGATA
* *** *
58 CGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACACGTTGCGATTTA
1 CGGA-ACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACACGTTGCGA--TA
*
118 CGG-ACGCGTTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGGAACGCGTTGCGATTTATGTATTCGCGTTGCGATTT
155 TCATATTCGC
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
57 23 0.29
58 52 0.65
60 5 0.06
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.33
Consensus pattern (57 bp):
CGGAACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACACGTTGCGATA
Found at i:148 original size:38 final size:38
Alignment explanation
Indices: 6--154 Score: 128
Period size: 38 Copynumber: 3.9 Consensus size: 38
1 CGGAT
* * *
6 ACGCGTTGCGATTTATGTATTA-TCG-TGCGATTTACGG
1 ACGCGTTGCGATTTACGGA-TACGCGTTGCGATTTACGG
* **
43 ATACGCGTTGCGA--TACGGATACGCATTGCGATTTACCCAT
1 --ACGCGTTGCGATTTACGGATACGCGTTGCGATTTA--CGG
*
83 ACGCGTTGCGATTTACGGATACACGTTGCGATTTACGG
1 ACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGG
* *
121 ACGCGTTGCGATTTATGTG-TTCGCGTTGCGATTT
1 ACGCGTTGCGATTTACG-GATACGCGTTGCGATTT
155 TCATATTCGC
Statistics
Matches: 90, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
36 2 0.02
37 5 0.06
38 50 0.56
39 12 0.13
40 21 0.23
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (38 bp):
ACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGG
Found at i:184 original size:20 final size:20
Alignment explanation
Indices: 141--235 Score: 57
Period size: 20 Copynumber: 4.7 Consensus size: 20
131 ATTTATGTGT
* * *
141 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTGCAAAA
*
161 TCGCGTTGCGATTTGGAAAA
1 TCGCGTTGCGATTTGCAAAA
** * **
181 TCGCAATGCGAATTTGTACTA
1 TCGCGTTGCG-ATTTGCAAAA
* * *
202 TCGCATCGCGATTTTCAAGAA
1 TCGCGTTGCGATTTGCAA-AA
223 T-GCGTTGCGATTT
1 TCGCGTTGCGATTT
236 TGGAAACTGA
Statistics
Matches: 56, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
20 39 0.70
21 17 0.30
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TCGCGTTGCGATTTGCAAAA
Found at i:250 original size:20 final size:20
Alignment explanation
Indices: 227--278 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
217 CAAGAATGCG
*
227 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
247 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
267 TTGCGATTCTGG
1 TTGCGATTCTGG
279 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:606 original size:20 final size:21
Alignment explanation
Indices: 555--627 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 21
545 AAAATTATAA
**
555 AAATAATATTAATAAT-AAAT
1 AAATAATATTAATTTTAAAAT
* *
575 AAATTATTTTAATTTTAAAAT
1 AAATAATATTAATTTTAAAAT
**
596 -AATAATATTAAGTTTTATGAT
1 AAATAATATTAA-TTTTAAAAT
617 AAATAATATTA
1 AAATAATATTA
628 TTTATTATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 21 0.50
21 11 0.26
22 10 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
AAATAATATTAATTTTAAAAT
Found at i:793 original size:15 final size:15
Alignment explanation
Indices: 771--809 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
761 TATTTTCCAG
771 AATT-AAATTTTAAT
1 AATTCAAATTTTAAT
*
785 AATTCAAATTTTAGT
1 AATTCAAATTTTAAT
800 AATTCAAATT
1 AATTCAAATT
810 GCATAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (15 bp):
AATTCAAATTTTAAT
Found at i:12488 original size:51 final size:47
Alignment explanation
Indices: 12384--12504 Score: 120
Period size: 51 Copynumber: 2.5 Consensus size: 47
12374 GTAACCATGC
*
12384 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGAAAAAAATA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTG---AAAATA
* * **
12434 ATAATAAGCTTATGAGCTTATGGAATTTAAATGGTAAGTATTTTG-GTA-A
1 A-AATAAGCTTATGAGCTTATGGAA--T-AATGGCAAGTATATTGAAAATA
12483 AAATAAGCTTATGAGCTTATGG
1 AAATAAGCTTATGAGCTTATGG
12505 GATGAAAGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
48 21 0.34
49 2 0.03
50 2 0.03
51 22 0.35
53 1 0.02
54 14 0.23
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (47 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAATA
Found at i:15420 original size:17 final size:17
Alignment explanation
Indices: 15387--15460 Score: 82
Period size: 17 Copynumber: 4.3 Consensus size: 17
15377 ATAGAAAAAG
*
15387 AAAATGAAAACGAAGAAA
1 AAAATGAAAATG-AGAAA
15405 AAAATGAAAATGAGAAA
1 AAAATGAAAATGAGAAA
15422 GAAAA-G-AAATAGAGAAA
1 -AAAATGAAAAT-GAGAAA
15439 AAAATGAGAAATGA-AAA
1 AAAATGA-AAATGAGAAA
15456 AAAAT
1 AAAAT
15461 ATGCGAGACT
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
16 8 0.16
17 21 0.42
18 17 0.34
19 4 0.08
ACGTcount: A:0.72, C:0.01, G:0.18, T:0.09
Consensus pattern (17 bp):
AAAATGAAAATGAGAAA
Found at i:15451 original size:35 final size:35
Alignment explanation
Indices: 15382--15460 Score: 103
Period size: 34 Copynumber: 2.3 Consensus size: 35
15372 AAAAAATAGA
15382 AAAAGAAAATGAAAACGAAGAAAAAAATGAAAATG
1 AAAAGAAAATGAAAACGAAGAAAAAAATGAAAATG
15417 AGAAAGAAAA-GAAATA-G-AGAAAAAAATGAGAAATG
1 A-AAAGAAAATGAAA-ACGAAGAAAAAAATGA-AAATG
15452 AAAA-AAAAT
1 AAAAGAAAAT
15461 ATGCGAGACT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
33 4 0.10
34 15 0.38
35 12 0.30
36 9 0.22
ACGTcount: A:0.72, C:0.01, G:0.18, T:0.09
Consensus pattern (35 bp):
AAAAGAAAATGAAAACGAAGAAAAAAATGAAAATG
Found at i:19423 original size:51 final size:47
Alignment explanation
Indices: 19319--19439 Score: 120
Period size: 51 Copynumber: 2.5 Consensus size: 47
19309 GTAACCTTGC
*
19319 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGAAAAAAATA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTG---AAAATA
* * **
19369 ATAATAAGCTTATGAGCTTATGGAATTTAAATGGTAAGTATTTTG-GTA-A
1 A-AATAAGCTTATGAGCTTATGGAA--T-AATGGCAAGTATATTGAAAATA
19418 AAATAAGCTTATGAGCTTATGG
1 AAATAAGCTTATGAGCTTATGG
19440 GATGAAAGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
48 21 0.34
49 2 0.03
50 2 0.03
51 22 0.35
53 1 0.02
54 14 0.23
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (47 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAATA
Found at i:20643 original size:2 final size:2
Alignment explanation
Indices: 20636--20668 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
20626 CACTGGTTAT
20636 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20669 GATGTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24364 original size:37 final size:37
Alignment explanation
Indices: 24313--24413 Score: 184
Period size: 37 Copynumber: 2.7 Consensus size: 37
24303 TTTGAAAATG
* *
24313 TTTTTGAAAAATATAGTATATAGTTTTCAAAAAATAT
1 TTTTTGAAATATATATTATATAGTTTTCAAAAAATAT
24350 TTTTTGAAATATATATTATATAGTTTTCAAAAAATAT
1 TTTTTGAAATATATATTATATAGTTTTCAAAAAATAT
24387 TTTTTGAAATATATATTATATAGTTTT
1 TTTTTGAAATATATATTATATAGTTTT
24414 TTAAAACGTT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (37 bp):
TTTTTGAAATATATATTATATAGTTTTCAAAAAATAT
Found at i:24438 original size:36 final size:35
Alignment explanation
Indices: 24313--24641 Score: 175
Period size: 37 Copynumber: 9.1 Consensus size: 35
24303 TTTGAAAATG
* * * *
24313 TTTTTGAAAA-ATATAGTATATAGTTTTCAAAAAATA
1 TTTTTGAAAACTTATATTATATAGTTTT--TAAAACA
* *
24349 TTTTTTG-AAA-TATATATTATATAGTTTTCAAAAAATA
1 -TTTTTGAAAACT-TATATTATATAGTTTT--TAAAACA
*
24386 TTTTTTG-AAA-TATATATTATATAGTTTTTTAAAACG
1 -TTTTTGAAAACT-TATATTATATAG-TTTTTAAAACA
*
24422 TTTTTGAAAACTTATATACAATAATAAG-TTTTAAAACA
1 TTTTTGAAAACTTATAT--TAT-AT-AGTTTTTAAAACA
* *
24460 -TTTTGAAAA-TTATATAGTATATAGTTTTGAAATCA
1 TTTTTGAAAACTTATAT--TATATAGTTTTTAAAACA
* *
24495 -TTTTCAAAA--TATA-TATATAGTTTTTAAAAAAA
1 TTTTTGAAAACTTATATTATATAGTTTTT-AAAACA
* *
24527 TTTTGGAAAATTTATATAATATATAGTTTTTTAAAAAAACA
1 TTTTTGAAAACTTATAT--TATATAG-TTTTT---AAAACA
*
24568 TTTTGGAAAACTTATA-TA-ATA-TTTTTAAAATCA
1 TTTTTGAAAACTTATATTATATAGTTTTTAAAA-CA
* * *
24601 TTTTTGAAAACTATATAATATATAGTTTTGAAAACG
1 TTTTTGAAAACT-TATATTATATAGTTTTTAAAACA
24637 TTTTT
1 TTTTT
24642 AAATATAATA
Statistics
Matches: 246, Mismatches: 22, Indels: 49
0.78 0.07 0.15
Matches are distributed among these distances:
31 11 0.04
32 8 0.03
33 20 0.08
34 10 0.04
35 35 0.14
36 33 0.13
37 75 0.30
38 24 0.10
39 7 0.03
40 2 0.01
41 21 0.09
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (35 bp):
TTTTTGAAAACTTATATTATATAGTTTTTAAAACA
Found at i:24508 original size:34 final size:33
Alignment explanation
Indices: 24396--24670 Score: 127
Period size: 32 Copynumber: 7.8 Consensus size: 33
24386 TTTTTTGAAA
* *
24396 TATATATTATATAGTTTTTTAAAACGTTTTTGAAAACT
1 TATATA-TATATAG--TTTTAAAAC-ATTTTCAAAA-T
* *
24434 TATATACAATAATAAGTTTTAAAACATTTTGAAAAT
1 TATATA-TAT-AT-AGTTTTAAAACATTTTCAAAAT
*
24470 TATATAGTATATAGTTTTGAAATCATTTTC-AAA-
1 TATATA-TATATAGTTTT-AAAACATTTTCAAAAT
* *
24503 -ATATATATATAGTTTTTAAAAAAATTTTGGAAAATT
1 TATATATATATAG-TTTT-AAAACATTTT-CAAAA-T
*
24539 TATATAATATATAGTTTTTTAAAAAAACATTTTGGAAAACT
1 TATAT-ATATATAG--TTTT---AAAACATTTT-CAAAA-T
* *
24580 TATATA-ATAT--TTTTAAAATCATTTTTGAAAAC
1 TATATATATATAGTTTTAAAA-CA-TTTTCAAAAT
* *
24612 TATATAATATATAGTTTTGAAAACGTTTT-TAAA-
1 TATAT-ATATATAGTTTT-AAAACATTTTCAAAAT
* *
24645 TATA-ATATATAGTTTAAAAATATTTT
1 TATATATATATAGTTTTAAAACATTTT
24671 TTTGAAACAT
Statistics
Matches: 198, Mismatches: 19, Indels: 48
0.75 0.07 0.18
Matches are distributed among these distances:
30 8 0.04
31 18 0.09
32 26 0.13
33 12 0.06
34 23 0.12
35 19 0.10
36 14 0.07
37 17 0.09
38 25 0.13
39 11 0.06
40 3 0.02
41 22 0.11
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (33 bp):
TATATATATATAGTTTTAAAACATTTTCAAAAT
Found at i:24623 original size:142 final size:138
Alignment explanation
Indices: 24351--24671 Score: 352
Period size: 142 Copynumber: 2.3 Consensus size: 138
24341 AAAAAATATT
* *
24351 TTTTGAAATATATATTATATAGTTTTCAAAAAATATTTTTTGAAATATATATTATATAGTTTTTT
1 TTTT-AAA-ATATA-TATATAGTTTTCAAAAAATATTTTTGGAAATATATAATATATAGTTTTTT
* * * *
24416 AAAACGTTTTTGAAAACTTATATACAATAATAAGTTTTAAAACATTTTGAAAATTATATAGTATA
63 AAAACATTTTGGAAAACTTATATA-AATAAT-A-TTTTAAAACATTTTGAAAACTATATAATATA
*
24481 TAGTTTTGAAATCA
125 TAGTTTTGAAAACA
*
24495 TTTTCAAAATATATATATAGTTTTTAAAAAA-A-TTTTGGAAAATTTATATAATATATAGTTTTT
1 TTTT-AAAATATATATATAGTTTTCAAAAAATATTTTTGG-AAA--TATATAATATATAGTTTTT
24558 TAAAAAAACATTTTGGAAAACTTATAT-AAT-AT-TTTTAAAATCATTTTTGAAAACTATATAAT
62 T---AAAACATTTTGGAAAACTTATATAAATAATATTTTAAAA-CA-TTTTGAAAACTATATAAT
*
24620 ATATAGTTTTGAAAACG
122 ATATAGTTTTGAAAACA
*
24637 TTTTTAAATATAATATATAG-TTT--AAAAATATTTTT
1 TTTTAAAATAT-ATATATAGTTTTCAAAAAATATTTTT
24672 TTGAAACATA
Statistics
Matches: 155, Mismatches: 11, Indels: 25
0.81 0.06 0.13
Matches are distributed among these distances:
139 5 0.03
140 14 0.09
141 19 0.12
142 60 0.39
143 26 0.17
144 10 0.06
146 21 0.14
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (138 bp):
TTTTAAAATATATATATAGTTTTCAAAAAATATTTTTGGAAATATATAATATATAGTTTTTTAAA
ACATTTTGGAAAACTTATATAAATAATATTTTAAAACATTTTGAAAACTATATAATATATAGTTT
TGAAAACA
Found at i:24647 original size:24 final size:23
Alignment explanation
Indices: 24589--24648 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
24579 TTATATAATA
*
24589 TTTTTAAA-ATCATTTTTGAAAAC
1 TTTTTAAATAT-AGTTTTGAAAAC
* *
24612 TATATAATATATAGTTTTGAAAAC
1 TTTTTAA-ATATAGTTTTGAAAAC
24636 GTTTTTAAATATA
1 -TTTTTAAATATA
24649 ATATATAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 5 0.17
24 17 0.59
25 7 0.24
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (23 bp):
TTTTTAAATATAGTTTTGAAAAC
Found at i:25938 original size:20 final size:21
Alignment explanation
Indices: 25904--25952 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
25894 ATTATTATTA
25904 TTATTTTTTCATTTTTTCCTT
1 TTATTTTTTCATTTTTTCCTT
*
25925 TTATTTTTT-TTTTTTTCC-T
1 TTATTTTTTCATTTTTTCCTT
*
25944 TGATTTTTT
1 TTATTTTTT
25953 GTTTCACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 9 0.35
20 8 0.31
21 9 0.35
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.80
Consensus pattern (21 bp):
TTATTTTTTCATTTTTTCCTT
Found at i:25994 original size:27 final size:27
Alignment explanation
Indices: 25959--26011 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
25949 TTTTGTTTCA
*
25959 CTTTATTATTTTTATTTCATTT-TTATG
1 CTTTATTATATTTATTT-ATTTATTATG
*
25986 CTTTTTTATATTTATTTATTTATTAT
1 CTTTATTATATTTATTTATTTATTAT
26012 TATTCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.72
Consensus pattern (27 bp):
CTTTATTATATTTATTTATTTATTATG
Found at i:30347 original size:248 final size:247
Alignment explanation
Indices: 29898--31027 Score: 1621
Period size: 248 Copynumber: 4.6 Consensus size: 247
29888 CAACATTTGT
* * * * *
29898 AGCATAACTCAAGGCTATAAGGGTTATCTGCCAACAAAGACCTTCAAGTTAGACTACGCTCAGCT
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
*
29963 CCAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCG
66 CCAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCAACCAAAGACCTTCG
* * * *
30028 AGTTCGACTACGCTCAGCTTCAAGGCACATCATTTCCGGCATAGCTTAAGTAAAGAAGGGCTATC
131 AGTTCGACTACGCTCAGCTCCAAGGAACATCATTT-CAGCATAGCTTAAGTCAAGAAGGGCTATC
*
30093 TGCCAAAGACCCTCGAGTTCGACTACGCTCAGCTTCAAGGGCACATCATTTAC
195 TGCCAAAGACCCTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTAC
* * *
30146 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCATCAAAGACCTTCAAGTTCGACTATGCTCAGCT
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* *
30211 CCAAGGCATATCATTTGTAGCATAACTTAAATCGAGAAGGGTTATCTACCAACCAAAGACCTTCA
66 CCAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCAACCAAAGACCTTCG
* * ** * * ** * *
30276 AGTTTGACTACGCTCAGCTCTAAGGTGCACCATTTATAGCATAGCTTAAGTCGGGAAGGGTTATA
131 AGTTCGACTACGCTCAGCTCCAAGGAACATCATTT-CAGCATAGCTTAAGTCAAGAAGGGCTATC
*
30341 TGCCAAAGACCCTCGAGTTCGACTACGCTCAGCTTTGAGGGCACATCATTTAC
195 TGCCAAAGACCCTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTAC
* *
30394 AGCATAAGTCAATGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * * * *
30459 CCAAGGCATATCATTTGCAGCATAAATTAAATCGAGAACGGTTATCTACGAACCAAAGACTTTTG
66 CCAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCAACCAAAGACCTTCG
* *
30524 AGTTCGACTACGCTCAGCTCCAAGGAACATCATTTTCAGCATAACTTAAGTCGAGAAGGGCTATC
131 AGTTCGACTACGCTCAGCTCCAAGGAACATCA-TTTCAGCATAGCTTAAGTCAAGAAGGGCTATC
* *
30589 TGCCAAAGACCCTCGAGTTTGACTACGCTCAGCTTCGAGGGCACATTATTTAC
195 TGCCAAAGACCCTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTAC
* * *
30642 AGTATAACTCAAGACTAGAAGGGTTATCTTTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * * * * * *
30707 CCAAGACCTATCATTTACAGCATAATTTAAATTGAGAAGAGTTATCTGCCAACCAAAGACCTTCG
66 CCAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCAACCAAAGACCTTCG
*** *
30772 AGTTCGACTACGCTCAGCTCCAAGGGGTATCATTTGCAACATAGCTTAAGTCAAGAAGGGCTATC
131 AGTTCGACTACGCTCAGCTCCAAGGAACATCATTT-CAGCATAGCTTAAGTCAAGAAGGGCTATC
* * * *
30837 TGCCAAAGACCCTCAAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTAC
195 TGCCAAAGACCCTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTAC
** * *
30890 AGCATAACTCAATTCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGTGTTCAACTACGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGC
* * * * * *
30955 TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGATAAGGGTTATCTACCAACCGAAGACCTTC
65 TCCAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCAACCAAAGACCTTC
31020 GAGTTCGA
130 GAGTTCGA
31028 TTACACCCGG
Statistics
Matches: 785, Mismatches: 94, Indels: 5
0.89 0.11 0.01
Matches are distributed among these distances:
247 3 0.00
248 692 0.88
249 90 0.11
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (247 bp):
AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
CCAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCAACCAAAGACCTTCG
AGTTCGACTACGCTCAGCTCCAAGGAACATCATTTCAGCATAGCTTAAGTCAAGAAGGGCTATCT
GCCAAAGACCCTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTAC
Found at i:31047 original size:84 final size:83
Alignment explanation
Indices: 29898--31027 Score: 1118
Period size: 84 Copynumber: 13.6 Consensus size: 83
29888 CAACATTTGT
* * * * * * *
29898 AGCATAACTCAAGGCTATAAGGGTTATCTGCCAACAAAGACCTTCAAGTTAGACTACGCTCAGCT
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* *
29963 CCAAGGCATATCATTTGC
66 CCAAGGCACATCATTTAC
*
29981 AGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
30046 TTCAAGGCACATCATTTCC
65 TCCAAGGCACATCATTTAC
* * ** * *
30065 GGCATAGCTTAAGTAAAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGACTACGCTCAGCT
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
*
30127 TCAAGGGCACATCATTTAC
66 CCAA-GGCACATCATTTAC
* * * * * * *
30146 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCATCAAAGACCTTCAAGTTCGACTATGCTCAGCT
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* **
30211 CCAAGGCATATCATTTGT
66 CCAAGGCACATCATTTAC
* * * *
30229 AGCATAACTTAAATCGAGAAGGGTTATCTACCAACCAAAGACCTTCAAGTTTGACTACGCTCAGC
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* ** * *
30294 TCTAAGGTGCACCATTTAT
65 TCCAAGGCACATCATTTAC
* * * *
30313 AGCATAGCTTAAGTCGGGAAGGGTTATATG---CCAAAGACCCTCGAGTTCGACTACGCTCAGCT
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-
** *
30375 TTGAGGGCACATCATTTAC
65 TCCAAGGCACATCATTTAC
* * * *
30394 AGCATAAGTCAA-TGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC
1 AGCATAACTTAAGT-CGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
30458 TCCAAGGCATATCATTTGC
65 TCCAAGGCACATCATTTAC
* * * * * * *
30477 AGCATAAATTAAATCGAGAACGGTTATCTACGAACCAAAGACTTTTGAGTTCGACTACGCTCAGC
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGC-CACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
30542 TCCAAGGAACATCATTTTC
65 TCCAAGGCACATCATTTAC
* * *
30561 AGCATAACTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTTGACTACGCTCAGCT
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-
* * *
30623 TCGAGGGCACATTATTTAC
65 TCCAAGGCACATCATTTAC
* * * * **
30642 AGTATAACTCAAGACTAGAAGGGTTATCTTTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
*
30707 CCAAGAC-CTATCATTTAC
66 CCAAGGCAC-ATCATTTAC
* * * *
30725 AGCATAATTTAAATTGAGAAGAGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGC
*** *
30790 TCCAAGGGGTATCATTTGC
65 TCCAAGGCACATCATTTAC
* * * * * * * * *
30809 AACATAGCTTAAGTCAAGAAGGGCTATCTG---CCAAAGACCCTCAAGTTTGATTACACTCAGCT
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-
* *
30871 TCGAGGGCACATCATTTAC
65 TCCAAGGCACATCATTTAC
* * * * * *
30890 AGCATAACTCAATTCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGTGTTCAACTACGCTCAGC
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACGCTCAGC
*
30955 TCCAAGGCACATCATTTGC
65 TCCAAGGCACATCATTTAC
* * * * *
30974 AGTATAGCTTAAGTCGATAAGGGTTATCTACCAACCGAAGACCTTCGAGTTCGA
1 AGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGA
31028 TTACACCCGG
Statistics
Matches: 847, Mismatches: 174, Indels: 51
0.79 0.16 0.05
Matches are distributed among these distances:
80 117 0.14
81 145 0.17
82 1 0.00
83 136 0.16
84 423 0.50
85 25 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (83 bp):
AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
CCAAGGCACATCATTTAC
Found at i:31870 original size:107 final size:106
Alignment explanation
Indices: 31712--31959 Score: 267
Period size: 107 Copynumber: 2.3 Consensus size: 106
31702 CAAAAAATAT
* * * ** *
31712 TTTTTGAAATATATATTATATAGTTTTTTAAAACATTTTTGAAAACTTATATACAATATATAAG-
1 TTTTTGAAATATATAATATATAGTTTTTAAAAAAAAATTGGAAAACTTATAT--AATATAT-AGT
31776 TTTT-AAAACATTTT-GAAAA-TTATATAGTATATAGTTTTGAAA-TCA
63 TTTTAAAAACATTTTGGAAAACTTATATA--ATAT--TTTT-AAATTCA
*
31821 -TTTTGAAA-ATATAATATATAGTTTTTAAAAAAAAATTGGAAAATTTATATAATATATAGTTTT
1 TTTTTGAAATATATAATATATAGTTTTTAAAAAAAAATTGGAAAACTTATATAATATATAGTTTT
31884 TAAAAAACATTTTGGAAAACTTATATAATATTTTTAAATTCA
66 T-AAAAACATTTTGGAAAACTTATATAATATTTTTAAATTCA
* *
31926 TTTTTGAAAGCTATATAATACATAGTTTTGAAAA
1 TTTTTGAAA--TATATAATATATAGTTTTTAAAA
31960 TTATTTTAAA
Statistics
Matches: 120, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
104 5 0.04
105 18 0.15
106 8 0.07
107 49 0.41
108 13 0.11
109 27 0.22
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (106 bp):
TTTTTGAAATATATAATATATAGTTTTTAAAAAAAAATTGGAAAACTTATATAATATATAGTTTT
TAAAAACATTTTGGAAAACTTATATAATATTTTTAAATTCA
Found at i:31900 original size:39 final size:36
Alignment explanation
Indices: 31676--31914 Score: 192
Period size: 38 Copynumber: 6.6 Consensus size: 36
31666 TTGAAAATGT
* * *
31676 TTTTGAAAA--ATATAGTATATAGTTTTCAAAAAATA
1 TTTTGAAAATTATATAATATATAGTTTT-TAAAAACA
* *
31711 TTTTTTG-AAA-TATATATTATATAGTTTTTTAAAACA
1 --TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
31747 TTTTTGAAAACTTATATACAATATATAAG-TTTT-AAAACA
1 -TTTTGAAAA-TTATAT--AATATAT-AGTTTTTAAAAACA
* * *
31786 TTTTGAAAATTATATAGTATATAG-TTTTGAAATCA
1 TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
*
31821 TTTTG-AAA--ATATAATATATAGTTTTTAAAAAAAA
1 TTTTGAAAATTATATAATATATAGTTTTT-AAAAACA
* *
31855 ATTGGAAAATTTATATAATATATAGTTTTTAAAAAACA
1 TTTTGAAAA-TTATATAATATATAGTTTTT-AAAAACA
31893 TTTTGGAAAACTTATATAATAT
1 TTTT-GAAAA-TTATATAATAT
31915 TTTTAAATTC
Statistics
Matches: 170, Mismatches: 17, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
32 12 0.07
33 4 0.02
34 16 0.09
35 25 0.15
36 11 0.06
37 27 0.16
38 41 0.24
39 22 0.13
40 10 0.06
41 2 0.01
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (36 bp):
TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
Found at i:31991 original size:31 final size:30
Alignment explanation
Indices: 31938--31996 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
31928 TTTGAAAGCT
* *
31938 ATATAATACATAGTTTTGAAAATTATTTTAA
1 ATATAATACATAG-TTTAAAAAATATTTTAA
*
31969 ATATAATATATAGTTTAAAAAATATTTT
1 ATATAATACATAGTTTAAAAAATATTTT
31997 TTTGAAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (30 bp):
ATATAATACATAGTTTAAAAAATATTTTAA
Found at i:32067 original size:16 final size:15
Alignment explanation
Indices: 32036--32074 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
32026 TTATTATTAA
32036 TATTT-ATTTTATTT
1 TATTTCATTTTATTT
32050 TATTTCATTTTCATTT
1 TATTTCATTTT-ATTT
*
32066 TATTACATT
1 TATTTCATT
32075 ACATTTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 5 0.23
16 12 0.55
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTCATTTTATTT
Found at i:32096 original size:5 final size:5
Alignment explanation
Indices: 32088--32114 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
32078 TTTCATTTTA
32088 TTAAT TTAAT TTAAT TTAAT TTAAT TT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TT
32115 TTTTTGTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTAAT
Found at i:35614 original size:22 final size:21
Alignment explanation
Indices: 35589--35630 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
35579 ATTGGGGTTC
*
35589 ATGAAGTACATGTTGAATTTTT
1 ATGAAGTAAATGTTG-ATTTTT
*
35611 ATGAATTAAATGTTGATTTT
1 ATGAAGTAAATGTTGATTTT
35631 ATTTTATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (21 bp):
ATGAAGTAAATGTTGATTTTT
Found at i:37289 original size:22 final size:22
Alignment explanation
Indices: 37257--37303 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
37247 CTATGAAAAC
*
37257 TGAAATATGAAAGTATTGATTA
1 TGAAATATGAAAGTACTGATTA
*
37279 TGAAATGTGAAAGTACTGATTA
1 TGAAATATGAAAGTACTGATTA
37301 TGA
1 TGA
37304 GAATTGGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (22 bp):
TGAAATATGAAAGTACTGATTA
Found at i:39531 original size:91 final size:91
Alignment explanation
Indices: 39376--39562 Score: 340
Period size: 91 Copynumber: 2.1 Consensus size: 91
39366 GGCACTGAAC
* *
39376 CTGAAGCTATGTCCTTATTTGCTGTGTGTTAAAGCAAAAGCTTGGTTAAGTTCACTTCCACCAGG
1 CTGAAGCGATGTCCTTATTTGCTATGTGTTAAAGCAAAAGCTTGGTTAAGTTCACTTCCACCAGG
39441 TGGTATAGTATCTTGGAATGAGTTAG
66 TGGTATAGTATCTTGGAATGAGTTAG
*
39467 CTGAAGCGATGTCCTTATTTGCTATGTGTTAAAGCAAAAGCTTTGTTAAGTTCACTTCCACCAGG
1 CTGAAGCGATGTCCTTATTTGCTATGTGTTAAAGCAAAAGCTTGGTTAAGTTCACTTCCACCAGG
39532 TGGTATAGTATCTTGGAATGAGTTAG
66 TGGTATAGTATCTTGGAATGAGTTAG
39558 C-GAAG
1 CTGAAG
39563 AAATTTTTGT
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 4 0.04
91 89 0.96
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (91 bp):
CTGAAGCGATGTCCTTATTTGCTATGTGTTAAAGCAAAAGCTTGGTTAAGTTCACTTCCACCAGG
TGGTATAGTATCTTGGAATGAGTTAG
Found at i:43467 original size:29 final size:29
Alignment explanation
Indices: 43421--43486 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
43411 CATGTACAAG
* *
43421 TGATTTTAATAATTAATCACGCTTGGAAA
1 TGATTCTAATAATCAATCACGCTTGGAAA
*
43450 TGATTCTAATCATCAATCACGCTTGGAAA
1 TGATTCTAATAATCAATCACGCTTGGAAA
43479 TGATTCTA
1 TGATTCTA
43487 CAATCTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (29 bp):
TGATTCTAATAATCAATCACGCTTGGAAA
Found at i:50287 original size:13 final size:14
Alignment explanation
Indices: 50269--50311 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
50259 GGCTATCGTC
*
50269 TATTGTTTATGG-T
1 TATTGTTTATGGAA
*
50282 TATTGTCTATGGAA
1 TATTGTTTATGGAA
*
50296 TATGGTTTATGGAA
1 TATTGTTTATGGAA
50310 TA
1 TA
50312 ATGGTAAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (14 bp):
TATTGTTTATGGAA
Found at i:50368 original size:45 final size:44
Alignment explanation
Indices: 50302--50500 Score: 317
Period size: 45 Copynumber: 4.5 Consensus size: 44
50292 GGAATATGGT
*
50302 TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAAAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
50346 TTATGGAACAAATGGTATGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAA-AAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* * *
50391 TTACGGAATAATGGTAAGTATATTGGTAAAATAAACTTACGAGC
1 TTATGGAAAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
50435 TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAA-AAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
50480 TTATGGGATAAATGGTAAGTA
1 TTAT-GGAAAAATGGTAAGTA
50501 AACTGATAAG
Statistics
Matches: 142, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
44 48 0.34
45 91 0.64
46 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.31
Consensus pattern (44 bp):
TTATGGAAAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:50457 original size:89 final size:89
Alignment explanation
Indices: 50306--50500 Score: 345
Period size: 89 Copynumber: 2.2 Consensus size: 89
50296 TATGGTTTAT
* *
50306 GGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAACAAATGGTATGTATATT
1 GGAATAATGGTAAGTATATTGGTAAAATAAACTTACGAGCTTATGGAACAAATGGTAAGTATATT
50371 GGTAAAATAAGCTTACGAGCTTAC
66 GGTAAAATAAGCTTACGAGCTTAC
50395 GGAATAATGGTAAGTATATTGGTAAAATAAACTTACGAGCTTATGGAACAAATGGTAAGTATATT
1 GGAATAATGGTAAGTATATTGGTAAAATAAACTTACGAGCTTATGGAACAAATGGTAAGTATATT
*
50460 GGTAAAATAAGCTTACGAGCTTAT
66 GGTAAAATAAGCTTACGAGCTTAC
*
50484 GGGATAAATGGTAAGTA
1 GGAAT-AATGGTAAGTA
50501 AACTGATAAG
Statistics
Matches: 101, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 90 0.89
90 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (89 bp):
GGAATAATGGTAAGTATATTGGTAAAATAAACTTACGAGCTTATGGAACAAATGGTAAGTATATT
GGTAAAATAAGCTTACGAGCTTAC
Found at i:53232 original size:10 final size:10
Alignment explanation
Indices: 53217--53278 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
53207 ATATAATATA
53217 AAAAAAAAAG
1 AAAAAAAAAG
*
53227 AAAAAAAAGG
1 AAAAAAAAAG
*
53237 AAAAAACGAAG
1 AAAAAA-AAAG
*
53248 AAAAAAACAG
1 AAAAAAAAAG
*
53258 AACAAGAAAAG
1 AA-AAAAAAAG
53269 AAAAGAAAAA
1 AAAA-AAAAA
53279 AGAGGAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
10 21 0.51
11 20 0.49
ACGTcount: A:0.81, C:0.05, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:57341 original size:45 final size:45
Alignment explanation
Indices: 57277--57382 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
57267 TTTATAGAAT
57277 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT-GGAACA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATAGG-ACA
* * *
57322 AATGGTAATTTTATTGGTAAAATAAGCTTACGAGCTTATAGGATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATAGGACA
*
57367 AATGGTAAGTAGATTG
1 AATGGTAAGTATATTG
57383 ATAAGAAATG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 52 0.96
46 2 0.04
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.32
Consensus pattern (45 bp):
AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATAGGACA
Found at i:58027 original size:74 final size:74
Alignment explanation
Indices: 57900--58275 Score: 528
Period size: 74 Copynumber: 5.1 Consensus size: 74
57890 GAGAGGACAT
* * * * * *
57900 ATCATTAAGAACCCTTTAAAAATCTA-ACTTGGCTTCTTCAAAAAATCATTTGAAAACATCATAT
1 ATCATCAAGAAACCTCTAAAAATC-AGACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGT
57964 CAATCAAGTA
65 CAATCAAGTA
* *
57974 ATAATCAAGAAACCTCTAAAAATCAGACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATATC
1 ATCATCAAGAAACCTCTAAAAATCAGACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGTC
58039 AAT-ATAGTA
66 AATCA-AGTA
*
58048 ATCATCAAGAAACCTCTAAAAATCATACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGTC
1 ATCATCAAGAAACCTCTAAAAATCAGACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGTC
58113 AATCGAA-TA
66 AATC-AAGTA
* *
58122 ATCATCAACAAACCTCTGAAAATCAGACTTGGCTT-TTTAAAAATTCATTTGAAAACATCATGTC
1 ATCATCAAGAAACCTCTAAAAATCAGACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGTC
58186 AATCAAGTA
66 AATCAAGTA
* ** *
58195 ATCATCAAGAAACCT-TAGAAAATCAAACTTCTCTTCTTTAAAAATTCAATTGAAAACATCATGT
1 ATCATCAAGAAACCTCTA-AAAATCAGACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGT
* *
58259 TAATTAAGTA
65 CAATCAAGTA
58269 ATCATCA
1 ATCATCA
58276 TGTTAATCAG
Statistics
Matches: 275, Mismatches: 20, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
72 3 0.01
73 65 0.24
74 205 0.75
75 1 0.00
76 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (74 bp):
ATCATCAAGAAACCTCTAAAAATCAGACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGTC
AATCAAGTA
Found at i:58219 original size:147 final size:147
Alignment explanation
Indices: 57900--58275 Score: 535
Period size: 147 Copynumber: 2.5 Consensus size: 147
57890 GAGAGGACAT
* * * * *
57900 ATCATTAAGAACCCTTTAAAAATC-TAACTTGGCTTCTTCAAAAAATCATTTGAAAACATCATAT
1 ATCATCAAGAAACC-TTAAAAATCAT-ACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGT
* *
57964 CAATCAAGTAATAATCAAGAAACCTCTAAAAATCAGACTTGGCTTCTTTAAAAATTCATTTGAAA
64 CAATCAAGTAATCATCAACAAACCTCTAAAAATCAGACTTGGCTTCTTTAAAAATTCATTTGAAA
58029 ACATCATATCAATATAGTA
129 ACATCATATCAATATAGTA
58048 ATCATCAAGAAACCTCTAAAAATCATACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGTC
1 ATCATCAAGAAACCT-TAAAAATCATACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGTC
*
58113 AATCGAA-TAATCATCAACAAACCTCTGAAAATCAGACTTGGCTT-TTTAAAAATTCATTTGAAA
65 AATC-AAGTAATCATCAACAAACCTCTAAAAATCAGACTTGGCTTCTTTAAAAATTCATTTGAAA
*
58176 ACATCATGTCAATCA-AGTA
129 ACATCATATCAAT-ATAGTA
* ** * *
58195 ATCATCAAGAAACCTTAGAAAATCAAACTTCTCTTCTTTAAAAATTCAATTGAAAACATCATGTT
1 ATCATCAAGAAACCTTA-AAAATCATACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGTC
*
58260 AATTAAGTAATCATCA
65 AATCAAGTAATCATCA
58276 TGTTAATCAG
Statistics
Matches: 207, Mismatches: 15, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
146 4 0.02
147 105 0.51
148 95 0.46
149 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (147 bp):
ATCATCAAGAAACCTTAAAAATCATACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATGTCA
ATCAAGTAATCATCAACAAACCTCTAAAAATCAGACTTGGCTTCTTTAAAAATTCATTTGAAAAC
ATCATATCAATATAGTA
Found at i:61419 original size:33 final size:31
Alignment explanation
Indices: 61371--61435 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 31
61361 AGTTCTCACC
*
61371 ATCCATAAATCCAAACAAATT-CAAAATCAATCA
1 ATCCAAAAATCCAAAC--ATTCCAAAAT-AATCA
*
61404 ATCCAAAAATTCAAACATTCCAAAATAATCA
1 ATCCAAAAATCCAAACATTCCAAAATAATCA
61435 A
1 A
61436 AATGTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 9 0.31
32 6 0.21
33 14 0.48
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.22
Consensus pattern (31 bp):
ATCCAAAAATCCAAACATTCCAAAATAATCA
Found at i:62700 original size:12 final size:12
Alignment explanation
Indices: 62683--62708 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62673 TTCAGAAATA
62683 GGAGGAGGATTT
1 GGAGGAGGATTT
62695 GGAGGAGGATTT
1 GGAGGAGGATTT
62707 GG
1 GG
62709 TTGACGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.54, T:0.23
Consensus pattern (12 bp):
GGAGGAGGATTT
Found at i:63466 original size:20 final size:20
Alignment explanation
Indices: 63396--63474 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
63386 AGAACCCCAA
*
63396 GGGGTATCGATTCCC-C-TAG
1 GGGGAATCGATTCCCTCAT-G
* *
63415 GGGGAATCGGTTCCCTTTCAAAG
1 GGGGAATCGATTCCC--TC-ATG
*
63438 GGGGAATCGGTTCCCTCATG
1 GGGGAATCGATTCCCTCATG
*
63458 GGGGTATCGATTCCCTC
1 GGGGAATCGATTCCCTC
63475 TGCACCAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 13 0.27
20 17 0.35
21 2 0.04
22 1 0.02
23 16 0.33
ACGTcount: A:0.16, C:0.25, G:0.32, T:0.27
Consensus pattern (20 bp):
GGGGAATCGATTCCCTCATG
Found at i:73509 original size:22 final size:22
Alignment explanation
Indices: 73484--73534 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
73474 CAAATGACTA
73484 AATTGAAATAAATTTAAAATTT
1 AATTGAAATAAATTTAAAATTT
73506 AATTGAAATAAATTTAAAATTT
1 AATTGAAATAAATTTAAAATTT
73528 AATTGAA
1 AATTGAA
73535 GAATTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (22 bp):
AATTGAAATAAATTTAAAATTT
Found at i:76144 original size:57 final size:57
Alignment explanation
Indices: 75965--76201 Score: 278
Period size: 57 Copynumber: 4.1 Consensus size: 57
75955 GTTCAATACA
* * * *** *
75965 GAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCA-CACGAAGTACCCTAACT
1 GAAATTCATACACTTAGTATG-ATTTCTTAACATTTTAG-AGTACGAAACGCCCTATCT
* * * *
76023 GGAAATTTATACACTTAGTATGATTTCCTTATCATTTTAGCGTACGAAACGCCCTATTT
1 -GAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGAGTACGAAACGCCCTATCT
* * *
76082 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGAGTATGAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGAGTACGAAACGCCCTATCT
* * *
76139 GAAATTCATACACTTGGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATAT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGAGTACGAAACGCCCTATCT
76196 GAAATT
1 GAAATT
76202 TCCCATATTT
Statistics
Matches: 154, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
57 84 0.55
58 27 0.18
59 43 0.28
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGAGTACGAAACGCCCTATCT
Found at i:76961 original size:23 final size:23
Alignment explanation
Indices: 76909--76961 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
76899 CTCGTATAAA
*
76909 TGCACCGAAATGCCACGCAGATT
1 TGCACCGAAATGCCACGCAGAAT
* * *
76932 TGAACCGAAGTGCCACGTAGAAT
1 TGCACCGAAATGCCACGCAGAAT
76955 TGCACCG
1 TGCACCG
76962 TAGTACCATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.17
Consensus pattern (23 bp):
TGCACCGAAATGCCACGCAGAAT
Found at i:77008 original size:22 final size:22
Alignment explanation
Indices: 76966--77008 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
76956 GCACCGTAGT
*
76966 ACCATATAAAATGTCCATAAGG
1 ACCACATAAAATGTCCATAAGG
*
76988 ACCACATAGAAAT-TCCTTAAG
1 ACCACATA-AAATGTCCATAAG
77009 AATCATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (22 bp):
ACCACATAAAATGTCCATAAGG
Found at i:78336 original size:76 final size:80
Alignment explanation
Indices: 78197--78344 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 80
78187 AGTAAGTAAG
78197 CATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTTGGAATAATTAAA
1 CATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTTGGAATAATTAAA
78262 TAAGTTTTTAAATAAA
66 TAA-TTTTTAAATAAA
* * * *
78278 CATT-AAAGATTGTAATTTAGATTA-TAGTC-TTTAA-TG-TATATTTAATTT-GAATTAATTAA
1 CATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTTGGAA-TAATTAA
78337 ATAATTTT
65 ATAATTTT
78345 ATTATAATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
75 7 0.11
76 22 0.35
77 2 0.03
78 5 0.08
79 3 0.05
80 19 0.31
81 4 0.06
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (80 bp):
CATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTTGGAATAATTAAA
TAATTTTTAAATAAA
Found at i:78354 original size:19 final size:22
Alignment explanation
Indices: 78328--78381 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 22
78318 TTTAATTTGA
78328 ATTAATTAAATAAT-TTTA-TT
1 ATTAATTAAATAATATTTATTT
78348 A-TAATTAAATAATATTTATTT
1 ATTAATTAAATAATATTTATTT
78369 ATTAATTCAAATA
1 ATTAATT-AAATA
78382 CTTTAAAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 3 0.10
22 5 0.17
23 5 0.17
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTAATTAAATAATATTTATTT
Found at i:84651 original size:23 final size:23
Alignment explanation
Indices: 84625--84685 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
84615 CTCGTATAAA
*
84625 TGCACCGAAGTGCCACGTAGATT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
84648 TGCACTGAAGTGTCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
84671 TACACCGTAGTGCCA
1 TGCACCGAAGTGCCA
84686 TATCAAATGT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:89008 original size:344 final size:344
Alignment explanation
Indices: 88380--89060 Score: 1238
Period size: 344 Copynumber: 2.0 Consensus size: 344
88370 CTCTGATACC
*
88380 AATAAATGTAACATCTAACTTCCGTATACCCTTCCGTCCATGAGATATAGATGTCACATCACTTT
1 AATAAATGTAACATCTAACTTCCGTATACCCTTCCGTCCATAAGATATAGATGTCACATCACTTT
* * * *
88445 TTGAATAATGTTTATCATTTGAAAACCCTTAAAAATTTGTTTCAATTTGATTAACCATAAAATAG
66 TAGAATAATATTTATCATTTGAAAACCCTTAAAAATTTATTTCAATCTGATTAACCATAAAATAG
* *
88510 GATATTTCTAAAAGTATCATTCTAAAATTATTCTTTAATTTCATTATAAAATGTTTACCATAGTT
131 GATATTTCTAAAAGTATCATTATAAAATTATTCCTTAATTTCATTATAAAATGTTTACCATAGTT
88575 AAATTACATGCCAACTAAGTTCTTAAATTGAATAACATTGTCATAATATTATTGATGAGCCAACC
196 AAATTACATGCCAACTAAGTTCTTAAATTGAATAACATTGTCATAATATTATTGATGAGCCAACC
* *
88640 TTTAATGGTGAAAGCTGCTGCTACTGCTACACTTCTTATGCAGTAATCCTTACCTTTACCTACGC
261 TTTAATGGTGAAAGCTGCTGCTACTGCTACACTCCTTACGCAGTAATCCTTACCTTTACCTACGC
88705 GTGAAATAAACACGCTTGA
326 GTGAAATAAACACGCTTGA
88724 AATAAATGTAACATCTAACTTCCGTATA-CCTGTCCGTCCATAAGATATAGATGTCACATCACTT
1 AATAAATGTAACATCTAACTTCCGTATACCCT-TCCGTCCATAAGATATAGATGTCACATCACTT
*
88788 TTAGAATAATATTTATCATTTGAAAACCCTTAAAAGTTTATTTCAATCTGATTAACCATAAAATA
65 TTAGAATAATATTTATCATTTGAAAACCCTTAAAAATTTATTTCAATCTGATTAACCATAAAATA
88853 GGATATTTCTAAAAGTATCATTATAAAATTATTCCTTAATTTCATTATAAAATGTTTACCATAGT
130 GGATATTTCTAAAAGTATCATTATAAAATTATTCCTTAATTTCATTATAAAATGTTTACCATAGT
*
88918 TAAATTACATGCCAACTAAGTTCTTAAATTGAATAACATTGTCATAATATTATTGATGAGTCAAC
195 TAAATTACATGCCAACTAAGTTCTTAAATTGAATAACATTGTCATAATATTATTGATGAGCCAAC
*
88983 CTTTAATGGTGAAAGCTGTTGCTACTGCTACACTCCTTACGCAGTAATCCTTACCTTTACCTACG
260 CTTTAATGGTGAAAGCTGCTGCTACTGCTACACTCCTTACGCAGTAATCCTTACCTTTACCTACG
89048 CGTGAAATAAACA
325 CGTGAAATAAACA
89061 TGCATTAAGT
Statistics
Matches: 324, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
343 3 0.01
344 321 0.99
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (344 bp):
AATAAATGTAACATCTAACTTCCGTATACCCTTCCGTCCATAAGATATAGATGTCACATCACTTT
TAGAATAATATTTATCATTTGAAAACCCTTAAAAATTTATTTCAATCTGATTAACCATAAAATAG
GATATTTCTAAAAGTATCATTATAAAATTATTCCTTAATTTCATTATAAAATGTTTACCATAGTT
AAATTACATGCCAACTAAGTTCTTAAATTGAATAACATTGTCATAATATTATTGATGAGCCAACC
TTTAATGGTGAAAGCTGCTGCTACTGCTACACTCCTTACGCAGTAATCCTTACCTTTACCTACGC
GTGAAATAAACACGCTTGA
Found at i:90225 original size:57 final size:57
Alignment explanation
Indices: 90053--92761 Score: 4185
Period size: 57 Copynumber: 47.5 Consensus size: 57
90043 TTACTATACG
* * * ** *** *
90053 GAAATTCATACACATAGTATGAATTTCTTATCATGTTAGCAAACGAAGTACCCTATAT
1 GAAATTCATACACTTAGTATG-ATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
90111 AGAAATTTATACACTTAGTATGATTTCCTTATCATTTTAGCGTACGAAACGCCCTATCT
1 -GAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * *
90170 GAAATTCATACACTTAGTATGAGTTCTTAGCATTTTAGCATATGAAACGTCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
90227 TAAATTCATACATTTGGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
90284 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTAC-AAATCTCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAA-CGCCCTATCT
90341 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
90398 GAAATTCATACACTTAGTATGATATT-TTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGAT-TTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
90455 GAAATTCATACACTTATTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
90512 GAAATTCATACACTTGGTATCATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
90569 GAAATTCATATACTTAGTATGATTTCTTAACATTTTAGCATACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
90626 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * *
90683 GAAATTCATACACTTAGTATGATTTTTTAACATTTTAGCATACAAAATGCCCTTTCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
90740 GAAATTCATACACTTATTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
90797 GAAATTCATACACTTGGTATGATTTCTTAACATTTTAGCATACGAAACGTCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
90854 GAAATTCATACACTT-GTTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAG-TATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
90911 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
90968 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * *
91025 AAAATTCATACACTTAGTATTATTTTTTAACATTTTAGCGTACAAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * *
91082 GAAATTCATACACTTATTATGATTTCTTAACATTTTAGCCTAAGAAACACCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* **
91139 GAAATTCATACACTTGGTATGATTTCTTAACATTTTAGCGTACGAAACATCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
91196 GAAATTCATACACTT-GTTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAG-TATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
91253 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
91310 GAAATTCATACACTTAGTATGATTTCTTAACATTTTACCGTACGAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
91367 GAAATTCATACACTTAGTATG-TTTTTTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
91423 GAAATTCATACACTTATTATGATTTCTTAACATTTTAGCATATGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
91480 GAAATTCATACACTTGGTATGATTTCTTAACATTTTAGCGTACGAAACGTCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
91537 GAAATTCAAACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * *
91594 GAAATTCATACACTTAGTATGATTTTTTAACATTTTAGCATACAAAATGCCCTTTCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
91651 GAAATTCATACACTTATTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
91708 GAAATTCATACACTTGGTATGATTTCTTAACATTTTAGCATACGAAACGTCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
91765 GAAATTCATACACTT-GTTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAG-TATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
91822 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
91879 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * *
91936 AAAATTCATACACTTAGTATTATTTTTTAACATTTTAGCGTACAAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * *
91993 GAAATTCATATACTTATTATGATTTCTTAACATTTTAGCCTAAGAAACACCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* **
92050 GAAATTCATACACTTGGTATGATTTCTTAACATTTTAGCGTACGAAACATCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
92107 GAAATTCATACACTT-GTTATGATTTCTTAACATTTTAGCGTACCAAACGCCCTATCT
1 GAAATTCATACACTTAG-TATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
92164 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
92221 GAAATTCATACACTTAGTATGATTTCTTAACATTTTACCGTACGAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
92278 GAAATTCATACACTTAGTATG-TTTTTTAACATTTTAGCGTACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
92334 GAAATTCATACACTTATTATGATTTCTTAACATTTTAGCATATGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
92391 GAAATTCATACACTTGGTATGATTTCTTAACATTTTAGCGTACGAAACGTCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
92448 GAAATTCAAACACTT-GTTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAG-TATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
92505 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCATATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
** * * * * *
92562 GAAATTCATATGCTTAGTATGATTTCTTAATATTTTAACATACAAAACACCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
92619 AAAATTCATACGCTTAGTATGATTTCTTAACATTTTATCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * *
92676 GAAATTCATACACTTAATAAGATTTCTTAACATTTTATCATACGAAAAGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
92733 AAAATTCATACACTTAGTATGATTTCTTA
1 GAAATTCATACACTTAGTATGATTTCTTA
92762 TATTTTGCAC
Statistics
Matches: 2440, Mismatches: 193, Indels: 36
0.91 0.07 0.01
Matches are distributed among these distances:
56 112 0.05
57 2247 0.92
58 37 0.02
59 44 0.02
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
Found at i:93304 original size:96 final size:95
Alignment explanation
Indices: 93109--93326 Score: 271
Period size: 96 Copynumber: 2.3 Consensus size: 95
93099 TATAAAATCC
* * * *
93109 ATACCCCTATCATGGTATCGATACTACTATACTATGGTACAGATACCCCATTCTAGTATCGATAC
1 ATACCCTTACCATGGTATCGATACTACTATACTATGGTACAGATACCCCATTCGAGTAGCGATAC
* * * *
93174 CAATTTTTGATTCGATGTTGCTTGGTATCA
66 CAATTTTAGATTCGATGTAGCTTAGTACCA
* *
93204 ATACCCTTACCATGGTATCGATACTACTATATATTATGGTACCGATACCCC-TTCCGA-TAGCGA
1 ATACCCTTACCATGGTATCGATACTAC--TATACTATGGTACAGATACCCCATT-CGAGTAGCGA
* *
93267 TACCCATTTTAGATTCGATGTAGAC-TAGTACCG
63 TACCAATTTTAGATTCGATGTAG-CTTAGTACCA
93300 ATACCCTTACCATGGTATCGATACTAC
1 ATACCCTTACCATGGTATCGATACTAC
93327 CTTGTTGGTA
Statistics
Matches: 107, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
95 25 0.23
96 59 0.55
97 23 0.21
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (95 bp):
ATACCCTTACCATGGTATCGATACTACTATACTATGGTACAGATACCCCATTCGAGTAGCGATAC
CAATTTTAGATTCGATGTAGCTTAGTACCA
Found at i:104454 original size:29 final size:28
Alignment explanation
Indices: 104417--104497 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
104407 TGTTAGTAAC
* *
104417 CAAAATATAAATTTTGAAAGTTTAGTGGT
1 CAAAGTATAAATTTTGAAAGTTTAG-GGA
*
104446 CAAAGTATAAACTTTGAAAAGTTTAGGGA
1 CAAAGTATAAATTTTG-AAAGTTTAGGGA
* * *
104475 CTAAAGTGTAATTTTTAAAAGTT
1 C-AAAGTATAAATTTTGAAAGTT
104498 ATGTAATAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 23 0.53
30 20 0.47
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.36
Consensus pattern (28 bp):
CAAAGTATAAATTTTGAAAGTTTAGGGA
Found at i:129724 original size:24 final size:24
Alignment explanation
Indices: 129674--129726 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
129664 AAATTCTCTC
* * *
129674 TTTTATTTTATTTTCAAGTTTTTT
1 TTTTACTTTATTTTCAAGCTTTGT
**
129698 TTTTACTTTATTTTGTAGCTTTGT
1 TTTTACTTTATTTTCAAGCTTTGT
129722 TTTTA
1 TTTTA
129727 AATATCCTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.15, C:0.06, G:0.08, T:0.72
Consensus pattern (24 bp):
TTTTACTTTATTTTCAAGCTTTGT
Found at i:130332 original size:21 final size:22
Alignment explanation
Indices: 130306--130352 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
130296 AAATCTTTTC
130306 TTTATT-TTACTTTAAACA-ATT
1 TTTATTATTA-TTTAAACATATT
*
130327 TTTATTATTATTTAAATATATT
1 TTTATTATTATTTAAACATATT
130349 TTTA
1 TTTA
130353 CCAAAACCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATTATTATTTAAACATATT
Found at i:135994 original size:26 final size:25
Alignment explanation
Indices: 135947--136011 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
135937 CTAACGTGGC
* *
135947 AGTTTCTAGAAGGTCCAGTCAGCTGT
1 AGTTTCTAGAAGATCCACTCAGC-GT
*
135973 AGTTTCTAGAAGATCTACTCAGCGT
1 AGTTTCTAGAAGATCCACTCAGCGT
*
135998 -GCCTTCTAGAAGAT
1 AG-TTTCTAGAAGAT
136012 GGAATAGCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.03
25 13 0.38
26 20 0.59
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (25 bp):
AGTTTCTAGAAGATCCACTCAGCGT
Found at i:142978 original size:15 final size:17
Alignment explanation
Indices: 142945--142978 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
142935 CTGAGCTTAG
142945 TTTTCAAAATCAGAATA
1 TTTTCAAAATCAGAATA
142962 TTTTC-AAATCA-AATA
1 TTTTCAAAATCAGAATA
142977 TT
1 TT
142979 AACTTTTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 6 0.35
17 5 0.29
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (17 bp):
TTTTCAAAATCAGAATA
Found at i:144737 original size:2 final size:2
Alignment explanation
Indices: 144730--144756 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
144720 AGATTATTTT
144730 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
144757 TCTAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:159670 original size:19 final size:18
Alignment explanation
Indices: 159625--159680 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
159615 ATTTCTTTAG
* **
159625 TTTTAGATTCATAACTTA
1 TTTTAGATTCATAGCCCA
*
159643 GTTTTAGATTTATAGCCCA
1 -TTTTAGATTCATAGCCCA
159662 TTTTCAGATTCATAGCCCA
1 TTTT-AGATTCATAGCCCA
159681 ATGTATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 4 0.13
19 27 0.87
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.43
Consensus pattern (18 bp):
TTTTAGATTCATAGCCCA
Found at i:162651 original size:13 final size:14
Alignment explanation
Indices: 162626--162653 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
162616 TAGGATTAAA
162626 TCATACTTAAAAAT
1 TCATACTTAAAAAT
162640 TCATACTTAAAAAT
1 TCATACTTAAAAAT
162654 AACACGAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
TCATACTTAAAAAT
Found at i:163120 original size:16 final size:16
Alignment explanation
Indices: 163099--163131 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
163089 TAAATTCATA
163099 ATGATC-CTTCACCATT
1 ATGATCACTTCA-CATT
163115 ATGATCACTTCACATT
1 ATGATCACTTCACATT
163131 A
1 A
163132 ACCATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (16 bp):
ATGATCACTTCACATT
Found at i:168655 original size:2 final size:2
Alignment explanation
Indices: 168648--168672 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
168638 ATACATATGC
168648 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
168673 CAATTTATAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:169477 original size:11 final size:11
Alignment explanation
Indices: 169461--169486 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
169451 TTTTCGTTCT
169461 TTTTATTTTTA
1 TTTTATTTTTA
169472 TTTTATTTTTA
1 TTTTATTTTTA
169483 TTTT
1 TTTT
169487 TTCCATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:170296 original size:220 final size:222
Alignment explanation
Indices: 169913--170354 Score: 861
Period size: 220 Copynumber: 2.0 Consensus size: 222
169903 GGTTTTTGAG
169913 CATCTATTTTTGATTCATTGAGGACATTGTATGGATTAAGTGTGGGGGAGAGTATTTCATACATG
1 CATCTATTTTTGATTCATTGAGGACATTGTATGGATTAAGTGTGGGGGAGAGTATTTCATACATG
169978 GTTTTGCTTTGAACATAATTTTGCTTCATTTTTTTGAAAAAAAAAAACTAGTATGCTTTAGTTCT
66 GTTTTGCTTTGAACATAATTTTGCTTCATTTTTTTGAAAAAAAAAAACTAGTATGCTTTAGTTCT
170043 TGTTTGTGATTTTCTCTTCGAGATTCCATATTCTTTCGATGTTTGTCCTTACATGATTTGGAA-T
131 TGTTTGTGATTTTCTCTTCGAGATTCCATATTCTTTCGATGTTTGTCCTTACATGATTTGGAATT
170107 TTGTGAATTATCGAATTAAGTTGAAGC
196 TTGTGAATTATCGAATTAAGTTGAAGC
170134 CATCTATTTTTGATTCATTGAGGACATTGTATGGATTAAGTGT-GGGGAGAGTATTTCATACATG
1 CATCTATTTTTGATTCATTGAGGACATTGTATGGATTAAGTGTGGGGGAGAGTATTTCATACATG
170198 GTTTTGCTTTGAACATAATTTTGCTTCATTTTTTTGAAAAAAAAAAACTAGTATGCTTTAGTTCT
66 GTTTTGCTTTGAACATAATTTTGCTTCATTTTTTTGAAAAAAAAAAACTAGTATGCTTTAGTTCT
*
170263 TGTTTGTGATTTTCTCTTCGAGATTTCATATTCTTTCGATGTTTGTCCTTACATGATTTGGAATT
131 TGTTTGTGATTTTCTCTTCGAGATTCCATATTCTTTCGATGTTTGTCCTTACATGATTTGGAATT
170328 TTGTGAATTATCGAATTAAGTTGAAGC
196 TTGTGAATTATCGAATTAAGTTGAAGC
170355 ATAATAGGGG
Statistics
Matches: 219, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
220 148 0.68
221 71 0.32
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (222 bp):
CATCTATTTTTGATTCATTGAGGACATTGTATGGATTAAGTGTGGGGGAGAGTATTTCATACATG
GTTTTGCTTTGAACATAATTTTGCTTCATTTTTTTGAAAAAAAAAAACTAGTATGCTTTAGTTCT
TGTTTGTGATTTTCTCTTCGAGATTCCATATTCTTTCGATGTTTGTCCTTACATGATTTGGAATT
TTGTGAATTATCGAATTAAGTTGAAGC
Found at i:170918 original size:20 final size:21
Alignment explanation
Indices: 170877--170923 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
170867 TCTCATTAAT
170877 AAAAAGAACCAAAAAAATAGAA
1 AAAAAGAA-CAAAAAAATAGAA
170899 AAAAAGAA-AAAGAAAA-AGAA
1 AAAAAGAACAAA-AAAATAGAA
170919 AAAAA
1 AAAAA
170924 TCGTGCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.50
21 4 0.17
22 8 0.33
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.02
Consensus pattern (21 bp):
AAAAAGAACAAAAAAATAGAA
Found at i:170937 original size:24 final size:25
Alignment explanation
Indices: 170906--170974 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 25
170896 GAAAAAAAGA
170906 AAAAGAAAAAGAAAAAA-ATCGTGC
1 AAAAGAAAAAGAAAAAATATCGTGC
* *
170930 AAAGGAAAGAAAGAAAAATATATTGTGC
1 AAAAG-AA-AAAGAAAAA-ATATCGTGC
170958 AAAAG-AAAAGAAAAAAT
1 AAAAGAAAAAGAAAAAAT
170975 GTTATGTGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 6 0.16
25 11 0.29
26 10 0.26
27 1 0.03
28 10 0.26
ACGTcount: A:0.67, C:0.04, G:0.17, T:0.12
Consensus pattern (25 bp):
AAAAGAAAAAGAAAAAATATCGTGC
Found at i:170938 original size:28 final size:31
Alignment explanation
Indices: 170900--170972 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 31
170890 AAAATAGAAA
170900 AAAAGAAAAAGAAAAAGAAAAA-A-ATCGTGC
1 AAAAG-AAAAGAAAAAGAAAAATATATCGTGC
* *
170930 -AAAGGAAAG--AAAGAAAAATATATTGTGC
1 AAAAGAAAAGAAAAAGAAAAATATATCGTGC
170958 AAAAGAAAAGAAAAA
1 AAAAGAAAAGAAAAA
170973 ATGTTATGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
26 9 0.26
27 1 0.03
28 10 0.29
29 12 0.34
31 3 0.09
ACGTcount: A:0.68, C:0.04, G:0.18, T:0.10
Consensus pattern (31 bp):
AAAAGAAAAGAAAAAGAAAAATATATCGTGC
Found at i:172042 original size:11 final size:11
Alignment explanation
Indices: 172018--172051 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
172008 TCATAGGAGA
172018 CATTAAGCTTTT
1 CATTAAG-TTTT
172030 CATTAAGTTTT
1 CATTAAGTTTT
*
172041 CATTTAGTTTT
1 CATTAAGTTTT
172052 TATTTTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (11 bp):
CATTAAGTTTT
Found at i:175416 original size:19 final size:19
Alignment explanation
Indices: 175394--175480 Score: 124
Period size: 19 Copynumber: 4.6 Consensus size: 19
175384 GGACTCCTAT
*
175394 TGCATCGGTGCACTAAGAG
1 TGCATCGATGCACTAAGAG
175413 TGCATCGATGCACTAAGAG
1 TGCATCGATGCACTAAGAG
*
175432 TGCATCGATGCA-TGA-AG
1 TGCATCGATGCACTAAGAG
*
175449 TGCATTCGATGTACTAAGAG
1 TGCA-TCGATGCACTAAGAG
175469 TGCATCGATGCA
1 TGCATCGATGCA
175481 TGAAGTGCAT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 6 0.10
18 9 0.15
19 39 0.65
20 6 0.10
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (19 bp):
TGCATCGATGCACTAAGAG
Found at i:175465 original size:37 final size:37
Alignment explanation
Indices: 175411--175494 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
175401 GTGCACTAAG
175411 AGTGCA-TCGATGCACTAAGAGTGCATCGATGCATGA
1 AGTGCATTCGATGCACTAAGAGTGCATCGATGCATGA
*
175447 AGTGCATTCGATGTACTAAGAGTGCATCGATGCATGA
1 AGTGCATTCGATGCACTAAGAGTGCATCGATGCATGA
175484 AGTGCATTCGA
1 AGTGCATTCGA
175495 GTTTGAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 6 0.13
37 40 0.87
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (37 bp):
AGTGCATTCGATGCACTAAGAGTGCATCGATGCATGA
Found at i:175596 original size:19 final size:19
Alignment explanation
Indices: 175572--175622 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
175562 TAATTAAATC
175572 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
175591 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
175610 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
175623 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:175599 original size:64 final size:64
Alignment explanation
Indices: 175465--175655 Score: 203
Period size: 64 Copynumber: 3.0 Consensus size: 64
175455 CGATGTACTA
* * * *
175465 AGAGTGCATCGATGCATGAAGTGCATTCGA-GTTTGAA--AATAGCCTG-GTGCATCGATGCATG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAA-A-TCAGAGTGCATCGATGCATG
175526 G
64 G
** * *
175527 ATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCAGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAATCAGAGTGCATCGATGCATGG
* * * *
175591 AGAGTGCATCGGTGCATGGAATGCATTCGATGTTTCAATTTATTCATTGA-TGCATCGATGCATG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAATCA--GAGTGCATCGATGCATG
175655 G
64 G
175656 TATTGATGCA
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
62 26 0.24
63 8 0.07
64 55 0.51
65 17 0.16
66 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (64 bp):
AGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAATCAGAGTGCATCGATGCATGG
Found at i:178273 original size:24 final size:23
Alignment explanation
Indices: 178202--178281 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
178192 CATGGTCTTG
*
178202 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGGA
* *
178225 TGCATCGGTG--CA-TCATGCGGA
1 TGCATCGATGCACATTCAAG-GGA
178246 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
178270 TGCATCGATGCA
1 TGCATCGATGCA
178282 TTATTAAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.28
23 11 0.23
24 17 0.36
25 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:178294 original size:44 final size:41
Alignment explanation
Indices: 178179--178286 Score: 117
Period size: 45 Copynumber: 2.5 Consensus size: 41
178169 AAAACCCGAC
*
178179 GGATGCATCGATGCATGGTCTTGTGCATCGATGCACATTCAAG
1 GGATGCATCGATGCAT--TATTGTGCATCGATGCACATTCAAG
* * * *
178222 GCATGCATCGGTGCATCATGCGGATGCATCGATGCACATTCAAAG
1 GGATGCATCGATGCATTAT--TG-TGCATCGATGCACATTC-AAG
178267 GGATGCATCGATGCATTATT
1 GGATGCATCGATGCATTATT
178287 AAGTGCATTG
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.02
43 15 0.29
44 17 0.33
45 19 0.37
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
GGATGCATCGATGCATTATTGTGCATCGATGCACATTCAAG
Found at i:183637 original size:18 final size:19
Alignment explanation
Indices: 183602--183639 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
183592 TAATTAAATC
183602 AGAGTGCATCAATGCATGG
1 AGAGTGCATCAATGCATGG
*
183621 AGAGTGCATC-GTGCATGG
1 AGAGTGCATCAATGCATGG
183639 A
1 A
183640 ATGAATTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.29, C:0.16, G:0.34, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCAATGCATGG
Found at i:183688 original size:21 final size:21
Alignment explanation
Indices: 183662--183701 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
183652 CAATTTATTC
183662 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
183683 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
183702 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:196121 original size:37 final size:39
Alignment explanation
Indices: 196031--196134 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 39
196021 TTATAATTAT
* * * * *
196031 ATTT-TTAACCTAATCACCATAATTAATATAGAGAGCAA
1 ATTTATTAATCTAATGATCATAATTAATATAGAAAACAA
*
196069 ATTTATTAATCTAATGATCATAATTGATATAGAAAAC-A
1 ATTTATTAATCTAATGATCATAATTAATATAGAAAACAA
*
196107 A-TTATTAATCTAATGATTATAATTAATA
1 ATTTATTAATCTAATGATCATAATTAATA
196135 ATTTATTTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 25 0.44
38 6 0.11
39 26 0.46
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.38
Consensus pattern (39 bp):
ATTTATTAATCTAATGATCATAATTAATATAGAAAACAA
Found at i:200698 original size:30 final size:30
Alignment explanation
Indices: 200662--200775 Score: 219
Period size: 30 Copynumber: 3.8 Consensus size: 30
200652 TTGTCAATGT
*
200662 CTTAACATATTTGATATACCGAACTGAAGC
1 CTTAACATATTTGATATACCGAACCGAAGC
200692 CTTAACATATTTGATATACCGAACCGAAGC
1 CTTAACATATTTGATATACCGAACCGAAGC
200722 CTTAACATATTTGATATACCGAACCGAAGC
1 CTTAACATATTTGATATACCGAACCGAAGC
200752 CTTAACATATTTGATATACCGAAC
1 CTTAACATATTTGATATACCGAAC
200776 TGATGGGACT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (30 bp):
CTTAACATATTTGATATACCGAACCGAAGC
Found at i:201651 original size:20 final size:20
Alignment explanation
Indices: 201624--201716 Score: 177
Period size: 20 Copynumber: 4.7 Consensus size: 20
201614 TCCAAAGTAA
201624 GCAGTATCGATACTCTACTT
1 GCAGTATCGATACTCTACTT
*
201644 GTAGTATCGATACTCTACTT
1 GCAGTATCGATACTCTACTT
201664 GCAGTATCGATACTCTACTT
1 GCAGTATCGATACTCTACTT
201684 GCAGTATCGATACTCTACTT
1 GCAGTATCGATACTCTACTT
201704 GCAGTATCGATAC
1 GCAGTATCGATAC
201717 CCCTATGAGT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (20 bp):
GCAGTATCGATACTCTACTT
Found at i:206917 original size:22 final size:26
Alignment explanation
Indices: 206890--206943 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
206880 AAAATCAGCA
206890 AAGAAA-TT-GAAGCACTC-AAAA-G
1 AAGAAATTTAGAAGCACTCAAAAAGG
*
206912 AAGAAATTTATAAGCACTCAAAAAGG
1 AAGAAATTTAGAAGCACTCAAAAAGG
206938 AAGAAA
1 AAGAAA
206944 AAGAAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 6 0.22
23 2 0.07
24 8 0.30
25 4 0.15
26 7 0.26
ACGTcount: A:0.57, C:0.11, G:0.17, T:0.15
Consensus pattern (26 bp):
AAGAAATTTAGAAGCACTCAAAAAGG
Found at i:231270 original size:45 final size:44
Alignment explanation
Indices: 231205--231524 Score: 168
Period size: 45 Copynumber: 7.2 Consensus size: 44
231195 ACTGGATTGT
* *
231205 AAAAGATAAAATCAAAGGATTAGTTCTTGTTTATTATTATGTTGCC
1 AAAAG-TAAAATCAAAGGATTAGTTCTT-TTAATTATTGTGTTGCC
* * * * *
231251 AAAAGTAAAATAAAAGGATTAGTCCCTTTTAATGATTGGGTTCCC
1 AAAAGTAAAATCAAAGGATTAGT-TCTTTTAATTATTGTGTTGCC
* * **
231296 AAAAGTAAAATCAAATGATTAGTTTCTTTTGATTATTGTGTTGTT
1 AAAAGTAAAATCAAAGGATTAG-TTCTTTTAATTATTGTGTTGCC
* * *
231341 AAAAGTATAATC-AA--A-T-GTTCTTTTTGATTATTGGGTTGCC
1 AAAAGTAAAATCAAAGGATTAGTTC-TTTTAATTATTGTGTTGCC
* * * * * * **
231381 AAAATTAAAATTAAAAGAGTAGTTCCTTTTGATTACTTG-GTCGTG
1 AAAAGTAAAATCAAAGGATTAGTT-CTTTTAATTA-TTGTGTTGCC
* * * * * * * *
231426 GATATTAAAATCAAATGATTAATTCCTTTTGATTATTCTGTTGCA
1 AAAAGTAAAATCAAAGGATTAGTT-CTTTTAATTATTGTGTTGCC
* * * * * *
231471 AAAAATAAAATCGAATGATTAATTCCTTTTGATTATT-TGGTTGCT
1 AAAAGTAAAATCAAAGGATTAGTT-CTTTTAATTATTGT-GTTGCC
*
231516 AAAATTAAA
1 AAAAGTAAA
231525 GGATTAATTC
Statistics
Matches: 220, Mismatches: 42, Indels: 25
0.77 0.15 0.09
Matches are distributed among these distances:
39 3 0.01
40 26 0.12
41 3 0.01
42 1 0.00
43 1 0.00
44 6 0.03
45 167 0.76
46 13 0.06
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (44 bp):
AAAAGTAAAATCAAAGGATTAGTTCTTTTAATTATTGTGTTGCC
Found at i:231438 original size:85 final size:85
Alignment explanation
Indices: 231285--231442 Score: 192
Period size: 85 Copynumber: 1.9 Consensus size: 85
231275 CCTTTTAATG
* * * * * *
231285 ATTGGGTTCCCAAAAGTAAAATCAAATGATTAGTTTCTTTTGATTATTGTGTTGTTAAAAGTATA
1 ATTGGGTTCCCAAAAGTAAAATCAAAAGAGTAGTTCCTTTTGATTATTGTGTCGTGAAAAGTAAA
231350 ATCAAATGTTCTTTTTGATT
66 ATCAAATGTTCTTTTTGATT
* * * * * *
231370 ATTGGGTTGCCAAAATTAAAATTAAAAGAGTAGTTCCTTTTGATTACTTG-GTCGTGGATATTAA
1 ATTGGGTTCCCAAAAGTAAAATCAAAAGAGTAGTTCCTTTTGATTA-TTGTGTCGTGAAAAGTAA
231434 AATCAAATG
65 AATCAAATG
231443 ATTAATTCCT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
85 57 0.95
86 3 0.05
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.41
Consensus pattern (85 bp):
ATTGGGTTCCCAAAAGTAAAATCAAAAGAGTAGTTCCTTTTGATTATTGTGTCGTGAAAAGTAAA
ATCAAATGTTCTTTTTGATT
Found at i:231523 original size:90 final size:83
Alignment explanation
Indices: 231296--231524 Score: 206
Period size: 90 Copynumber: 2.6 Consensus size: 83
231286 TTGGGTTCCC
* * * *
231296 AAAAGTAAAATCAAATGATTAGTTTCTTTTGATTATTGTGTTGTTAAAAGTATAATCAAATGTTC
1 AAAAATAAAATCAAATGATTAGTTCCTTTTGATTATTG-GTTG-TAAAATTAAAATCAAATGTTC
* * *
231361 TTTTTGATTATTGGGTTGCC
64 CTTTTGATTATTCGGTTGCA
* * * * * * *
231381 AAAATTAAAATTAAAAGAGTAGTTCCTTTTGATTACTTGGTCGTGGATATTAAAATCAAATGATT
1 AAAAATAAAATCAAATGATTAGTTCCTTTTGATTA-TTGGTTGT-AAAATTAAAATCAAATG---
*
231446 AATTCCTTTTGATTATTCTGTTGCA
61 --TTCCTTTTGATTATTCGGTTGCA
* *
231471 AAAAATAAAATCGAATGATTAATTCCTTTTGATTATTTGGTTGCTAAAATTAAA
1 AAAAATAAAATCAAATGATTAGTTCCTTTTGATTA-TTGGTTG-TAAAATTAAA
231525 GGATTAATTC
Statistics
Matches: 112, Mismatches: 24, Indels: 11
0.76 0.16 0.07
Matches are distributed among these distances:
84 1 0.01
85 46 0.41
86 3 0.03
90 61 0.54
91 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.42
Consensus pattern (83 bp):
AAAAATAAAATCAAATGATTAGTTCCTTTTGATTATTGGTTGTAAAATTAAAATCAAATGTTCCT
TTTGATTATTCGGTTGCA
Found at i:231530 original size:39 final size:40
Alignment explanation
Indices: 231431--231543 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 40
231421 TCGTGGATAT
* *
231431 TAAAATCAAATGATTAATTCCTTTTGATTATTCTGTTGCA
1 TAAAATAAAAGGATTAATTCCTTTTGATTATTCTGTTGCA
*
231471 AAAAATAAAATCGAATGATTAATTCCTTTTGATTATT-TGGTTGC-
1 TAAAATAAAA--G---GATTAATTCCTTTTGATTATTCT-GTTGCA
*
231515 TAAAATTAAAGGATTAATTCCTTTTGATT
1 TAAAATAAAAGGATTAATTCCTTTTGATT
231544 TATGTTTGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
39 18 0.29
40 8 0.13
42 1 0.02
44 9 0.15
45 26 0.42
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (40 bp):
TAAAATAAAAGGATTAATTCCTTTTGATTATTCTGTTGCA
Found at i:231769 original size:58 final size:58
Alignment explanation
Indices: 231688--232037 Score: 331
Period size: 58 Copynumber: 6.1 Consensus size: 58
231678 AATCTTATAT
* * *
231688 TGATTCTAGCTTTGTAA-GAAAATAAATTGTTAAATTTATTTCCTTAAGAATCTTGAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTGAA
** * *
231745 CT-ATTCTAACTTTGTAAGGAAAATAAATCATTGAATTTAGTTCCTTTAGAATCTTGAA
1 -TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTGAA
* * * * *
231803 TGATTCAAAATTTGTAAGGAAAATAAATTATTGAATTTATTTTCTTGAGAATCTTGAG
1 TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTGAA
* ** * * *
231861 CGATTCTAACTTTGTAAGGGGAA-AAATTGTTGAACTTAGTTCCTTGAGAATCCTGAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTGAA
* * * * * * * *
231918 TGATTATAAATCTGT-A--AAAA-AAATTGTTTAATTTATTTTCTCGAGAATCGTGGA
1 TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTGAA
* * * * *
231972 TGATTCTATCTTT-TAAAAGAAAATAAATTGTTGAATTTATTTTCTTGA-AACTTTTAAA
1 TGATTCTAACTTTGT-AAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAA-TCTTGAA
232030 TGATTCTA
1 TGATTCTA
232038 TTATGTAAAA
Statistics
Matches: 237, Mismatches: 47, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
53 1 0.00
54 38 0.16
55 1 0.00
56 1 0.00
57 60 0.25
58 136 0.57
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (58 bp):
TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTGAA
Found at i:232109 original size:39 final size:38
Alignment explanation
Indices: 232066--232265 Score: 145
Period size: 39 Copynumber: 5.2 Consensus size: 38
232056 ATCGGTGAAA
232066 TTATTTTCCTATTTCATAAAAGGAAATAAATTGTTTGAT
1 TTATTTTCCTATTT-ATAAAAGGAAATAAATTGTTTGAT
* * * * *
232105 TTATTTTTCTGTATTATAAAAAGAAATAAATCT-TTGGTT
1 TTATTTTCCTAT-TTATAAAAGGAAATAAAT-TGTTTGAT
* * * * * *
232144 TTATTTTCTTATTTTTTAAATGAAATAAATCG-ATGAAT
1 TTATTTTCCTATTTATAAAAGGAAATAAATTGTTTG-AT
* * *
232182 TTTTTTTCCTATTTTGTAAAATGAAATAAATT-TTTAGAT
1 TTATTTTCCTA-TTTATAAAAGGAAATAAATTGTTT-GAT
* * * * *
232221 CTATTTTCCTATATCATAAAAGGAAATAAATCGTTGGAG
1 TTATTTTCCTAT-TTATAAAAGGAAATAAATTGTTTGAT
232260 TTATTT
1 TTATTT
232266 CTTAGAAAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 18
0.72 0.18 0.11
Matches are distributed among these distances:
37 1 0.01
38 26 0.21
39 89 0.73
40 6 0.05
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (38 bp):
TTATTTTCCTATTTATAAAAGGAAATAAATTGTTTGAT
Found at i:232249 original size:116 final size:116
Alignment explanation
Indices: 232045--232257 Score: 293
Period size: 116 Copynumber: 1.8 Consensus size: 116
232035 CTATTATGTA
* * *
232045 AAATGAAATGAATCGGTGAAATTATTTTCCTATTTCATAAAAGGAAATAAATTGTTTGATTTATT
1 AAATGAAATAAATCGATGAAATTATTTTCCTATTTCATAAAAGGAAATAAATTGTTTGATCTATT
* * * *
232110 TTTCTGTATTATAAAAAGAAATAAATCTTTGGTTTTATTTTCTTATTTTTT
66 TTCCTATATCATAAAAAGAAATAAATCGTTGGTTTTATTTTCTTATTTTTT
* * ** *
232161 AAATGAAATAAATCGATGAATTTTTTTTCCTATTTTGTAAAATGAAATAAATT-TTTAGATCTAT
1 AAATGAAATAAATCGATGAAATTATTTTCCTATTTCATAAAAGGAAATAAATTGTTT-GATCTAT
*
232225 TTTCCTATATCATAAAAGGAAATAAATCGTTGG
65 TTTCCTATATCATAAAAAGAAATAAATCGTTGG
232258 AGTTATTTCT
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
115 3 0.04
116 80 0.96
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (116 bp):
AAATGAAATAAATCGATGAAATTATTTTCCTATTTCATAAAAGGAAATAAATTGTTTGATCTATT
TTCCTATATCATAAAAAGAAATAAATCGTTGGTTTTATTTTCTTATTTTTT
Found at i:232303 original size:35 final size:35
Alignment explanation
Indices: 232264--232333 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
232254 TTGGAGTTAT
232264 TTCTTAGAAAATCAAGTATGATTTTACTTTTGAAA
1 TTCTTAGAAAATCAAGTATGATTTTACTTTTGAAA
*
232299 TTCTTAGAAAATCAAGTATGCTTTTACTTTTGAAA
1 TTCTTAGAAAATCAAGTATGATTTTACTTTTGAAA
232334 AAAAGAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (35 bp):
TTCTTAGAAAATCAAGTATGATTTTACTTTTGAAA
Found at i:238018 original size:55 final size:55
Alignment explanation
Indices: 237944--238258 Score: 517
Period size: 55 Copynumber: 5.7 Consensus size: 55
237934 CCCACTTCCA
* *
237944 ATACGGAAATTCATTCACTTAGTATGAATTTCTTCTA-TTTACACATAAAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTT-AAGTTTACACATAAAGTGCCC
**
237999 ATGGGGAAATT-AGTCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
1 ATACGGAAATTCA-TCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
* *
238054 ATACGGAAATTCATCCACTTAGTATGAATTTCTTCAGTTTAGACATAAAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
*
238109 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
* *
238164 ATACGGAAATTCATCCACTTAGTTTGAATTTCTTATGTTTACACATAAAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
238219 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
238259 TTACACACTT
Statistics
Matches: 241, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
54 2 0.01
55 238 0.99
56 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (55 bp):
ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
Found at i:238627 original size:22 final size:21
Alignment explanation
Indices: 238582--238651 Score: 83
Period size: 22 Copynumber: 3.4 Consensus size: 21
238572 CATATCTTAA
* *
238582 GTATCGATAC-CTCTACCATG
1 GTATCGATACTCTATACTATG
238602 GTATCGATACTACTATACTATG
1 GTATCGATACT-CTATACTATG
*
238624 GTATCGATACTCTAT--TACG
1 GTATCGATACTCTATACTATG
238643 GTATCGATA
1 GTATCGATA
238652 TCATTTTTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.27
20 10 0.22
21 4 0.09
22 19 0.42
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (21 bp):
GTATCGATACTCTATACTATG
Found at i:238645 original size:19 final size:19
Alignment explanation
Indices: 238582--238651 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
238572 CATATCTTAA
**
238582 GTATCGATACCTCTACCATG
1 GTATCGATA-CTCTATTATG
238602 GTATCGATACTACTATACTATG
1 GTATCGATACT-CTAT--TATG
*
238624 GTATCGATACTCTATTACG
1 GTATCGATACTCTATTATG
238643 GTATCGATA
1 GTATCGATA
238652 TCATTTTTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 14 0.32
20 12 0.27
21 4 0.09
22 14 0.32
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (19 bp):
GTATCGATACTCTATTATG
Found at i:243614 original size:169 final size:169
Alignment explanation
Indices: 243335--243674 Score: 680
Period size: 169 Copynumber: 2.0 Consensus size: 169
243325 AAGCTTTTTG
243335 TATTCGGCCTCATACTCGTGCATTGCTCGATCGTCTTGCTTCAAATTAAGAAACGTCAACAATAT
1 TATTCGGCCTCATACTCGTGCATTGCTCGATCGTCTTGCTTCAAATTAAGAAACGTCAACAATAT
243400 TGACCTAATAACTGCTCCCTGATATACTTGTTCTTGAACTTATCTTGAAAGAATTGCCAGTTCAC
66 TGACCTAATAACTGCTCCCTGATATACTTGTTCTTGAACTTATCTTGAAAGAATTGCCAGTTCAC
243465 TTGTTTCGGTGATGCATACATAGTTGTATTTTTCCACCA
131 TTGTTTCGGTGATGCATACATAGTTGTATTTTTCCACCA
243504 TATTCGGCCTCATACTCGTGCATTGCTCGATCGTCTTGCTTCAAATTAAGAAACGTCAACAATAT
1 TATTCGGCCTCATACTCGTGCATTGCTCGATCGTCTTGCTTCAAATTAAGAAACGTCAACAATAT
243569 TGACCTAATAACTGCTCCCTGATATACTTGTTCTTGAACTTATCTTGAAAGAATTGCCAGTTCAC
66 TGACCTAATAACTGCTCCCTGATATACTTGTTCTTGAACTTATCTTGAAAGAATTGCCAGTTCAC
243634 TTGTTTCGGTGATGCATACATAGTTGTATTTTTCCACCA
131 TTGTTTCGGTGATGCATACATAGTTGTATTTTTCCACCA
243673 TA
1 TA
243675 CCTAAGCTAA
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
169 171 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (169 bp):
TATTCGGCCTCATACTCGTGCATTGCTCGATCGTCTTGCTTCAAATTAAGAAACGTCAACAATAT
TGACCTAATAACTGCTCCCTGATATACTTGTTCTTGAACTTATCTTGAAAGAATTGCCAGTTCAC
TTGTTTCGGTGATGCATACATAGTTGTATTTTTCCACCA
Found at i:244889 original size:55 final size:55
Alignment explanation
Indices: 244820--245293 Score: 661
Period size: 55 Copynumber: 8.6 Consensus size: 55
244810 TACCAATACG
* * * *
244820 AAAATTTATACACTTAGTATGAATTTAC-T-AGTTTTACACATAAAGTGCACATACA
1 AAAATTCATCCACTTAGTATGAATTT-CTTAAG-TTTACACATAAAGTGCCCATATA
* * * *
244875 AAAATTTATCCACTTAGTATTAATTTAC-T-AGTTTTACACATATAGTGCCCATGTA
1 AAAATTCATCCACTTAGTATGAATTT-CTTAAG-TTTACACATAAAGTGCCCATATA
*
244930 AAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATATG
1 AAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATATA
* * *
244985 AAAATTCATCCACTTGGTATGAATTTCTTAAGTTTATACATAAAGTGCCCATACA
1 AAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATATA
* * * *
245040 AAAATTCATCCACTTAGTATGAATTTCTTAAGTCTACATATAAAGTGTCCATATG
1 AAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATATA
*
245095 AAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGT-CCCATATG
1 AAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATATA
* * *
245149 AAAATTCATCCACTTAGTATGAATTTCATAAGTTTACACATAAAGTGCCTATACA
1 AAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATATA
**
245204 AAAATTCATCCACTTAGTATGAATTGATTAAGTTTACACATAAAGTGCCCATATA
1 AAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATATA
* *
245259 GAAATTCATCCACTTAGTATGAATTTATTAAGTTT
1 AAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
245294 TTTCACACTT
Statistics
Matches: 380, Mismatches: 36, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
54 53 0.14
55 325 0.86
56 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (55 bp):
AAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATATA
Found at i:245210 original size:164 final size:163
Alignment explanation
Indices: 244819--245293 Score: 690
Period size: 164 Copynumber: 2.9 Consensus size: 163
244809 CTACCAATAC
* * *
244819 GAAAATTTATACACTTAGTATGAATTT-ACT-AGTTTTACACATAAAGTGCACATACAAAAATTT
1 GAAAATTCATCCACTTAGTATGAATTTCA-TAAG-TTTACACATAAAGTGC-CATACAAAAATTC
* * *
244882 ATCCACTTAGTATTAATTTAC-T-AGTTTTACACATATAGTGCCCATGTAAAAATTCATCCACTT
63 ATCCACTTAGTATGAATTT-CTTAAG-TTTACACATAAAGTGCCCATAT-AAAATTCATCCACTT
244945 AGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAT
125 AGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAT
* * *
244984 GAAAATTCATCCACTTGGTATGAATTTCTTAAGTTTATACATAAAGTGCCCATACAAAAATTCAT
1 GAAAATTCATCCACTTAGTATGAATTTCATAAGTTTACACATAAAGTG-CCATACAAAAATTCAT
* * *
245049 CCACTTAGTATGAATTTCTTAAGTCTACATATAAAGTGTCCATATGAAAATTCATCCACTTAGTA
65 CCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAT-AAAATTCATCCACTTAGTA
245114 TGAATTTCTTAAGTTTACACATAAAGT-CCCATAT
129 TGAATTTCTTAAGTTTACACATAAAGTGCCCATAT
245148 GAAAATTCATCCACTTAGTATGAATTTCATAAGTTTACACATAAAGTGCCTATACAAAAATTCAT
1 GAAAATTCATCCACTTAGTATGAATTTCATAAGTTTACACATAAAGTGCC-ATACAAAAATTCAT
**
245213 CCACTTAGTATGAATTGATTAAGTTTACACATAAAGTGCCCATATAGAAATTCATCCACTTAGTA
65 CCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATATA-AAATTCATCCACTTAGTA
*
245278 TGAATTTATTAAGTTT
129 TGAATTTCTTAAGTTT
245294 TTTCACACTT
Statistics
Matches: 281, Mismatches: 22, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
163 3 0.01
164 140 0.50
165 133 0.47
166 5 0.02
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (163 bp):
GAAAATTCATCCACTTAGTATGAATTTCATAAGTTTACACATAAAGTGCCATACAAAAATTCATC
CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATATAAAATTCATCCACTTAGTATG
AATTTCTTAAGTTTACACATAAAGTGCCCATAT
Found at i:247378 original size:18 final size:18
Alignment explanation
Indices: 247351--247415 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
247341 AGCCATTTTT
*
247351 AGTATTGATACTCATGGG
1 AGTATCGATACTCATGGG
*
247369 AGTATCGATACTAATGGTAG
1 AGTATCGATACTCATGG--G
247389 AGTATCGATACT-AT--G
1 AGTATCGATACTCATGGG
247404 -GTATCGATACTC
1 AGTATCGATACTC
247416 TGATATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
18 15 0.36
19 2 0.05
20 13 0.31
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (18 bp):
AGTATCGATACTCATGGG
Found at i:247393 original size:20 final size:19
Alignment explanation
Indices: 247351--247406 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
247341 AGCCATTTTT
*
247351 AGTATTGATACTCATGG--G
1 AGTATCGATACT-ATGGTAG
247369 AGTATCGATACTAATGGTAG
1 AGTATCGATACT-ATGGTAG
247389 AGTATCGATACTATGGTA
1 AGTATCGATACTATGGTA
247407 TCGATACTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 15 0.44
19 6 0.18
20 13 0.38
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (19 bp):
AGTATCGATACTATGGTAG
Found at i:256427 original size:29 final size:29
Alignment explanation
Indices: 256385--256441 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
256375 TGAAGCACTC
*
256385 AAAAGAAGACAAAAATTCAAGCACTCAAA
1 AAAAGAAAACAAAAATTCAAGCACTCAAA
* * * *
256414 AAAAGAAAAGAAAAGTTGAAGTACTCAA
1 AAAAGAAAACAAAAATTCAAGCACTCAA
256442 CAACAATTCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.61, C:0.12, G:0.14, T:0.12
Consensus pattern (29 bp):
AAAAGAAAACAAAAATTCAAGCACTCAAA
Found at i:267927 original size:12 final size:13
Alignment explanation
Indices: 267907--267948 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
267897 AGATATATTA
267907 AAATAAAATAAAT
1 AAATAAAATAAAT
267920 AAAT-AAATAAAT
1 AAATAAAATAAAT
*
267932 AAAGGAAAATAATAT
1 AAA-TAAAATAA-AT
267947 AA
1 AA
267949 TAATAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 11 0.44
13 4 0.16
14 6 0.24
15 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:268028 original size:22 final size:22
Alignment explanation
Indices: 268002--268045 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
267992 TGGTTAAAAT
268002 AGAAAAATAAGAATTAAATAAA
1 AGAAAAATAAGAATTAAATAAA
*
268024 AGAAAAATAATAATTAAATAAA
1 AGAAAAATAAGAATTAAATAAA
268046 CAAATTAAAG
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:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (22 bp):
AGAAAAATAAGAATTAAATAAA
Found at i:268777 original size:75 final size:76
Alignment explanation
Indices: 268686--268826 Score: 239
Period size: 76 Copynumber: 1.9 Consensus size: 76
268676 ATACCAAAAA
* * *
268686 AAAAATAATATTCTAAATCCTAATTGAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAA
1 AAAAATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAA
268750 AGATAAAATAT
66 AGATAAAATAT
*
268761 AAAAATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAA
1 AAAAATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAA
268826 A
66 A
268827 ATATAATGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
75 29 0.48
76 32 0.52
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (76 bp):
AAAAATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAA
AGATAAAATAT
Found at i:268842 original size:76 final size:75
Alignment explanation
Indices: 268686--268853 Score: 230
Period size: 76 Copynumber: 2.2 Consensus size: 75
268676 ATACCAAAAA
* * *
268686 AAAAATAATATTCTAAATCCTAATTGAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAA
1 AAAAATAATATACTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAA
268751 GATAAAATAT
66 GATAAAATAT
* *
268761 AAAAATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAA
1 AAAAATAATATACTAAAACCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAA
* *
268826 A-ATATAATGTT
65 AGATAAAAT-AT
* *
268837 TAAAATATTATACTAAA
1 AAAAATAATATACTAAA
268854 TTTGAGTTTA
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 35 0.43
76 47 0.57
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (75 bp):
AAAAATAATATACTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAA
GATAAAATAT
Found at i:271593 original size:17 final size:18
Alignment explanation
Indices: 271562--271596 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
271552 AAGATATATT
271562 AAAAT-AAAATAAATAAA
1 AAAATAAAAATAAATAAA
271579 AAAATAAAAATAATATAA
1 AAAATAAAAATAA-ATAA
271597 TAATAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAATAAAAATAAATAAA
Found at i:271691 original size:21 final size:22
Alignment explanation
Indices: 271658--271698 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
271648 GGTTAAAATA
271658 AAAAATAAGAATTAAATAAAAG
1 AAAAATAAGAATTAAATAAAAG
*
271680 AAAAA-AATAATTAAATAAA
1 AAAAATAAGAATTAAATAAA
271699 CAAATTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAAATAAGAATTAAATAAAAG
Found at i:272358 original size:64 final size:69
Alignment explanation
Indices: 272290--272488 Score: 211
Period size: 64 Copynumber: 2.9 Consensus size: 69
272280 TAAAACATCT
*
272290 TAAATACTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCAAA-AAAATAATATAAT-AT
1 TAAATACTAATTAAAATACTTAAAACCTATTTAAACTAAAATACCAAAGAAAATAATATAATAAT
272352 -T-C
66 ATCC
*
272354 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATA-CAAAGATAAAGATAAAATATA
1 TAAATACTAATTAAAATACTTAAAACCTATTTAAACTAAAATACCAAAG--AAA-AT--AATAT-
272417 AAAATAATATCC
60 --AATAATATCC
* *
272429 TAAA-ACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATA-CAAAGATAA-AATATAAT
1 TAAATAC-TAATTAAAATACTTAAAACCTATTTAAACTAAAATACCAAAGAAAATAATATAAT
272489 GTTTAAAATA
Statistics
Matches: 115, Mismatches: 5, Indels: 27
0.78 0.03 0.18
Matches are distributed among these distances:
63 9 0.08
64 34 0.30
66 3 0.03
67 5 0.04
69 5 0.04
70 5 0.04
72 3 0.03
73 3 0.03
74 4 0.03
75 17 0.15
76 27 0.23
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.28
Consensus pattern (69 bp):
TAAATACTAATTAAAATACTTAAAACCTATTTAAACTAAAATACCAAAGAAAATAATATAATAAT
ATCC
Found at i:272478 original size:76 final size:75
Alignment explanation
Indices: 272345--272508 Score: 240
Period size: 76 Copynumber: 2.2 Consensus size: 75
272335 AAAAAATAAT
* *
272345 ATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATA
1 ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAA-ATA
272410 AAAT-ATAAAA
65 AAATGATAAAA
*
272420 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAAACCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAATA
* * *
272485 TAATGTTTAAA
65 AAATGATAAAA
*
272496 ATATTATCCTAAA
1 ATAATATCCTAAA
272509 TTTGAGTTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
75 32 0.40
76 48 0.60
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (75 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATAA
AATGATAAAA
Found at i:282303 original size:17 final size:18
Alignment explanation
Indices: 282283--282320 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
282273 ACTTTTTTGG
282283 TTTTTT-GG-TTTTTCTT
1 TTTTTTCGGCTTTTTCTT
282299 TTTTTTCGGCCTTTTTCTT
1 TTTTTTCGG-CTTTTTCTT
282318 TTT
1 TTT
282321 AAAAAATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
19 11 0.58
ACGTcount: A:0.00, C:0.13, G:0.11, T:0.76
Consensus pattern (18 bp):
TTTTTTCGGCTTTTTCTT
Found at i:285538 original size:24 final size:21
Alignment explanation
Indices: 285503--285545 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
285493 GGCTCATTCT
*
285503 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
285526 TTTGATATGTCAAAGGACAT
1 TTTGA-ATGTCAAAGGACAT
285546 ATCTTGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 8 0.44
24 6 0.33
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:290021 original size:19 final size:19
Alignment explanation
Indices: 289997--290035 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
289987 TCGAATGCAT
289997 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
290016 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
290035 T
1 T
290036 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:290160 original size:64 final size:65
Alignment explanation
Indices: 289983--290145 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
289973 GAATTAATTG
* * * *
289983 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
290048 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
290111 A
65 A
290112 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
290146 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:297778 original size:19 final size:19
Alignment explanation
Indices: 297742--297811 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
297732 ATTAATTGAA
297742 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
*
297760 CACCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
297779 CATCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
297798 CATCGATGCACTCT
1 CATCGATGCACTCT
297812 GAATATTTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
17 5 0.10
18 5 0.10
19 38 0.79
ACGTcount: A:0.23, C:0.36, G:0.16, T:0.26
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:297916 original size:64 final size:65
Alignment explanation
Indices: 297775--297919 Score: 195
Period size: 64 Copynumber: 2.2 Consensus size: 65
297765 ATGCACTCTC
*** * *
297775 CATGCATCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAAAACATCCAATGCATTT
* **
297840 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-AAACATCCAATGCATT
1 CATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCAAAACATCCAATGCATT
297903 T
65 T
297904 CATGCATCGATGCACA
1 CATGCATCGATGCACA
297920 CTTGGTGCAC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 35 0.50
65 35 0.50
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (65 bp):
CATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAAAACATCCAATGCATTT
Found at i:307090 original size:30 final size:30
Alignment explanation
Indices: 307054--307112 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
307044 CTTTGACCTA
307054 CTTCTGGACTTGTTAGCTTGAATTGAGCTG
1 CTTCTGGACTTGTTAGCTTGAATTGAGCTG
307084 CTTCTGGACTTGTTAGCTTGAATTGAGCT
1 CTTCTGGACTTGTTAGCTTGAATTGAGCT
307113 AGTGAAGCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.41
Consensus pattern (30 bp):
CTTCTGGACTTGTTAGCTTGAATTGAGCTG
Found at i:307759 original size:15 final size:14
Alignment explanation
Indices: 307732--307761 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
307722 TAGAACATAG
307732 ATATATTTATCTAT
1 ATATATTTATCTAT
307746 ATATATTATATCTAT
1 ATATATT-TATCTAT
307761 A
1 A
307762 GCTATGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATATTTATCTAT
Found at i:312442 original size:2 final size:2
Alignment explanation
Indices: 312435--312510 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
312425 ATGGCATAGG
312435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
312477 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
312511 TGATGATATT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:315137 original size:13 final size:13
Alignment explanation
Indices: 315119--315176 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
315109 TAGGCGTGCA
315119 ATGGTGATGGAAG
1 ATGGTGATGGAAG
** *
315132 ATGGTGATGTTAT
1 ATGGTGATGGAAG
* *
315145 A-GGCG-T-GAAA
1 ATGGTGATGGAAG
315155 ATGGTGATGGAAG
1 ATGGTGATGGAAG
315168 ATGGTGATG
1 ATGGTGATG
315177 AACAAATAGT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
10 2 0.06
11 4 0.12
12 4 0.12
13 23 0.70
ACGTcount: A:0.29, C:0.02, G:0.41, T:0.28
Consensus pattern (13 bp):
ATGGTGATGGAAG
Found at i:315165 original size:36 final size:35
Alignment explanation
Indices: 315066--315177 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
315056 AAAGGAATTA
* **
315066 TGATTATATAGGCGTGAAATGGTGATATAAGATGG
1 TGATGATATAGGCGTGAAATGGTGATGGAAGATGG
* *
315101 TGATCATATAGGCGTGCAATGGTGATGGAAGATGG
1 TGATGATATAGGCGTGAAATGGTGATGGAAGATGG
*
315136 TGATGTTATAGGCGTGAAAATGGTGATGGAAGATGG
1 TGATGATATAGGCGTG-AAATGGTGATGGAAGATGG
315172 TGATGA
1 TGATGA
315178 ACAAATAGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
35 45 0.66
36 23 0.34
ACGTcount: A:0.31, C:0.04, G:0.36, T:0.29
Consensus pattern (35 bp):
TGATGATATAGGCGTGAAATGGTGATGGAAGATGG
Found at i:327423 original size:23 final size:22
Alignment explanation
Indices: 327388--327434 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
327378 AGATGTTTAT
*
327388 TTCATATGTTATAAGATAGTTA
1 TTCATATATTATAAGATAGTTA
**
327410 TTCATATATATATACTATAGTTA
1 TTCATATAT-TATAAGATAGTTA
327433 TT
1 TT
327435 ATGATAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (22 bp):
TTCATATATTATAAGATAGTTA
Found at i:330753 original size:2 final size:2
Alignment explanation
Indices: 330739--330777 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
330729 TTATAACATG
*
330739 TA TA TA T- TCA TA TA TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
330778 TACATCTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 31 0.94
3 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:346860 original size:6 final size:6
Alignment explanation
Indices: 346849--346882 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
346839 CTACTACAAC
*
346849 AAAAAG AAAAAG AAAGAAG AAAAAC AAAAAG AAA
1 AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAA
346883 GGAAAAGGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:346868 original size:13 final size:12
Alignment explanation
Indices: 346846--346882 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
346836 AAACTACTAC
346846 AACAAAAAGAAA
1 AACAAAAAGAAA
*
346858 AAGAAAGAAGAAA
1 AACAAA-AAGAAA
346871 AACAAAAAGAAA
1 AACAAAAAGAAA
346883 GGAAAAGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (12 bp):
AACAAAAAGAAA
Found at i:350912 original size:33 final size:33
Alignment explanation
Indices: 350870--350938 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
350860 GTTGATGAAT
*
350870 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
350903 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
350936 GAA
1 GAA
350939 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:355392 original size:33 final size:33
Alignment explanation
Indices: 355350--355418 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
355340 GTTGATGAAT
*
355350 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
355383 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
355416 GAA
1 GAA
355419 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Done.