Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_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: 4364108
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 17
Found at i:1339404 original size:56 final size:56
Alignment explanation
Indices: 1339104--1339667 Score: 762
Period size: 56 Copynumber: 10.2 Consensus size: 56
1339094 TTCTTTTAGG
* * * *
1339104 TGCACACGTAGTGCCGATACGGTCGTTCATAAACATATTATGGATTCCAT-GGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
* * * **
1339159 TGCAAACTTAGTGTTGATATGGTCGTTCATAAACATATTATGAATTCTATGGG--T
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
* * ** *
1339213 TGCACACTTTGTGCCGATATAGTCGTTCATAAACATATTATGAATTTCGT-GGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
* *
1339268 TACACACTTAGTGTCAATACGGTCGTTCATAAACATATTATGAATTCCGT-GGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
* * *
1339323 TTCACACTTAGTATCGATACGGTCGTTCATAAACATATTATGAATTCCATGGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
* *
1339379 TGCGCACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
*
1339435 TGCACACTTAATG-CTGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
1 TGCACACTTAGTGTC-GATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
* ** **
1339491 TGCACACTTAGTGTCAATACAATCGTTCATAAACATATTATGAATTTTGTGGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
* * **
1339547 TGCAGACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
* * * *
1339603 CGCACACTTAGTGTCGATGCGATCGTTCATAAACATATTATGAATTCCGTCGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
1339659 TGCACACTT
1 TGCACACTT
1339668 TGTGCTGATA
Statistics
Matches: 449, Mismatches: 54, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.00
54 43 0.10
55 139 0.31
56 264 0.59
57 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (56 bp):
TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
Found at i:1342516 original size:20 final size:20
Alignment explanation
Indices: 1342491--1342542 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1342481 TCGTCACGAC
1342491 ACTTACATGACAGTTCACAA
1 ACTTACATGACAGTTCACAA
1342511 ACTTACATGACAGTTCACAA
1 ACTTACATGACAGTTCACAA
1342531 ACTTACATGACA
1 ACTTACATGACA
1342543 ATCTATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (20 bp):
ACTTACATGACAGTTCACAA
Found at i:1343369 original size:12 final size:12
Alignment explanation
Indices: 1343352--1343376 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1343342 ACATCATTAA
1343352 AAATATATTTTT
1 AAATATATTTTT
1343364 AAATATATTTTT
1 AAATATATTTTT
1343376 A
1 A
1343377 TAAGTATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAATATATTTTT
Found at i:1345351 original size:276 final size:278
Alignment explanation
Indices: 1344804--1345363 Score: 1052
Period size: 276 Copynumber: 2.0 Consensus size: 278
1344794 AAACTATGAC
*
1344804 ACTTTGCCTAATCAACCCAAAGCTACTTGAACACATCCCATGTTGTGGGGCAATTGGTTTTGAGG
1 ACTTTGCCTAATCAACCCAAAACTACTTGAACACATCCCATGTTGTGGGGCAATTGGTTTTGAGG
*
1344869 CTGCTTAACCAAGTCATAAAAGTGGGGTTGTCGGCCTAAGCTTTAAGAATATGTTAATGAATTTC
66 CTGCTTAACCAAGTCATAAAAGTGGGGTTGTCGGCCTAAGCTTTAAGAATAAGTTAATGAATTTC
*
1344934 AATTCTCTCAATTATTATTTGGTTAACACATTTTACATCTTTAACTAGTTTTTGTGTTCCATAAT
131 AATTCTCTCAATTATTATTTGGTTAACACATTTTACAACTTTAACTAGTTTTTGTGTTCCATAAT
1344999 AACGAGTTATGCTCCTGGTCATCTGTGTAACTATAGCTCAATTTTTGCAATCAGTTTGTGGAGAG
196 AACGAGTTATGCTCCTGGTCATCTGTGTAACTATAGCTCAATTTTTGCAATCAGTTTGTGGAGAG
1345064 TGGGCTCCCATTTCATCT
261 TGGGCTCCCATTTCATCT
*
1345082 ACTTTGCGTAATCAACCCAAAACTACTTGAACACATCCCATGTTGTGGGGCAATTGGTTTTGAGG
1 ACTTTGCCTAATCAACCCAAAACTACTTGAACACATCCCATGTTGTGGGGCAATTGGTTTTGAGG
1345147 CTGCTTAACCAAGTCATAAAAGTGGGGTTGTCGGCCTAAGCTTTAAGAATAAGTTAATGAATTTC
66 CTGCTTAACCAAGTCATAAAAGTGGGGTTGTCGGCCTAAGCTTTAAGAATAAGTTAATGAATTTC
1345212 AA-T-TCTCAATTATTATTTGGTTAACACATTTTACAACTTTAACTAGTTTTTGTGTTCCATAAT
131 AATTCTCTCAATTATTATTTGGTTAACACATTTTACAACTTTAACTAGTTTTTGTGTTCCATAAT
* *
1345275 AACGAGTTATGCTCCTGGTCATCTGTGTAATTATAGCTCAATTTTTGCATTCAGTTTGTGGAGAG
196 AACGAGTTATGCTCCTGGTCATCTGTGTAACTATAGCTCAATTTTTGCAATCAGTTTGTGGAGAG
1345340 TGGGCTCCCATTTCATCT
261 TGGGCTCCCATTTCATCT
1345358 ACTTTG
1 ACTTTG
1345364 TCATGTAAAT
Statistics
Matches: 276, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
276 146 0.53
277 1 0.00
278 129 0.47
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (278 bp):
ACTTTGCCTAATCAACCCAAAACTACTTGAACACATCCCATGTTGTGGGGCAATTGGTTTTGAGG
CTGCTTAACCAAGTCATAAAAGTGGGGTTGTCGGCCTAAGCTTTAAGAATAAGTTAATGAATTTC
AATTCTCTCAATTATTATTTGGTTAACACATTTTACAACTTTAACTAGTTTTTGTGTTCCATAAT
AACGAGTTATGCTCCTGGTCATCTGTGTAACTATAGCTCAATTTTTGCAATCAGTTTGTGGAGAG
TGGGCTCCCATTTCATCT
Found at i:1346838 original size:28 final size:28
Alignment explanation
Indices: 1346802--1346868 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
1346792 TCACAAATAT
* * *
1346802 GTGCATAAAGTATTTTTGACTTATCTTG
1 GTGCCTAAAGTATTTTTGACTCATCTCG
1346830 GTGCCTAAAGTATTTTTGACTCATCTCG
1 GTGCCTAAAGTATTTTTGACTCATCTCG
*
1346858 GTGGCTAAAGT
1 GTGCCTAAAGT
1346869 TAAAAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (28 bp):
GTGCCTAAAGTATTTTTGACTCATCTCG
Found at i:1351168 original size:13 final size:13
Alignment explanation
Indices: 1351150--1351174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1351140 TCGAATATAC
1351150 TTAGAAAATCTTT
1 TTAGAAAATCTTT
1351163 TTAGAAAATCTT
1 TTAGAAAATCTT
1351175 AAAATTCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTAGAAAATCTTT
Found at i:1353637 original size:23 final size:24
Alignment explanation
Indices: 1353579--1353626 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1353569 AGGGGGAATC
1353579 GAATCGGTTCCCCTTCAAAGGGGG
1 GAATCGGTTCCCCTTCAAAGGGGG
*
1353603 GAACCGGTTCCCCTTCAAAGGGGG
1 GAATCGGTTCCCCTTCAAAGGGGG
1353627 TATCGATTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (24 bp):
GAATCGGTTCCCCTTCAAAGGGGG
Found at i:1359190 original size:11 final size:11
Alignment explanation
Indices: 1359168--1359203 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
1359158 GTTTGATGTT
1359168 TTCTCT-TTGA
1 TTCTCTCTTGA
1359178 TTCTCTCTTGA
1 TTCTCTCTTGA
1359189 TTCTCTCTTGA
1 TTCTCTCTTGA
1359200 TTCT
1 TTCT
1359204 TGATAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.08, C:0.25, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCTCTTGA
Found at i:1362976 original size:23 final size:24
Alignment explanation
Indices: 1362939--1362983 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
1362929 TATCACCTTC
*
1362939 TTAGACAACTAAAAAGAATGAAAA
1 TTAGACAACAAAAAAGAATGAAAA
1362963 TTAGA-AACAAAAAAGAATGAA
1 TTAGACAACAAAAAAGAATGAA
1362984 GTAAAAGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.64, C:0.07, G:0.13, T:0.16
Consensus pattern (24 bp):
TTAGACAACAAAAAAGAATGAAAA
Found at i:1363784 original size:19 final size:19
Alignment explanation
Indices: 1363760--1363802 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
1363750 TTCCTTCGGG
1363760 TAAAGTTGTGGTGAATGGA
1 TAAAGTTGTGGTGAATGGA
1363779 TAAAGTTGTGGTGAATGGA
1 TAAAGTTGTGGTGAATGGA
1363798 TAAAG
1 TAAAG
1363803 CAGTGGACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (19 bp):
TAAAGTTGTGGTGAATGGA
Found at i:1363808 original size:19 final size:19
Alignment explanation
Indices: 1363767--1363808 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1363757 GGGTAAAGTT
**
1363767 GTGGTGAATGGATAAAGTT
1 GTGGTGAATGGATAAAGCA
1363786 GTGGTGAATGGATAAAGCA
1 GTGGTGAATGGATAAAGCA
1363805 GTGG
1 GTGG
1363809 ACTGATGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.40, T:0.26
Consensus pattern (19 bp):
GTGGTGAATGGATAAAGCA
Found at i:1368926 original size:2 final size:2
Alignment explanation
Indices: 1368921--1368952 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1368911 GTTATTTTTT
1368921 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1368953 GTAATATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1369070 original size:14 final size:14
Alignment explanation
Indices: 1369032--1369073 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
1369022 TTTATATATT
**
1369032 ATATAGTTTTTGAA
1 ATATAGTTTTAAAA
*
1369046 AT-TATTTTTAAAA
1 ATATAGTTTTAAAA
1369059 ATATAGTTTTAAAA
1 ATATAGTTTTAAAA
1369073 A
1 A
1369074 CATTTATATG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATAGTTTTAAAA
Found at i:1369244 original size:36 final size:36
Alignment explanation
Indices: 1369095--1369420 Score: 212
Period size: 38 Copynumber: 9.1 Consensus size: 36
1369085 TATATAGTTT
*
1369095 TTTTAAAAAATCATTTTTAAAATATATATATAATATATAG
1 TTTTAAAAAA--ATTTTGAAAA-AT-TATATAATATATAG
* * *
1369135 TTTTTCAAAACATTTTGAAAATAATATATAATATATAG
1 -TTTTAAAAAAATTTTGAAAA-ATTATATAATATATAG
**
1369173 TTTTGAAAAGTATTTTGAAAAACTTATATAATATATAG
1 TTTT-AAAAAAATTTTGAAAAA-TTATATAATATATAG
*
1369211 TTTTAAAAAAAATTTGAAAAATTATATAATATATAG
1 TTTTAAAAAAATTTTGAAAAATTATATAATATATAG
** *
1369247 TTTTATAAATATTTTTTTG-AAACTTATAT-A-ATAT--
1 TTTTA-AAA-A-AATTTTGAAAAATTATATAATATATAG
** * *
1369281 TTTTAAATCATTTTTG-AAAATTGTATAATATATAG
1 TTTTAAAAAAATTTTGAAAAATTATATAATATATAG
* * * * *
1369316 TTTT-GAAAACTTTT-TAAGA--ATATAGTATATAG
1 TTTTAAAAAAATTTTGAAAAATTATATAATATATAG
* * *
1369348 -TTTAAAAATATTTTTGAAATA-TATATATTATATAG
1 TTTTAAAAA-AATTTTGAAAAATTATATAATATATAG
* * *
1369383 -TTTAAAAATATTTTTGAAATA-TATATATTATATAG
1 TTTTAAAAA-AATTTTGAAAAATTATATAATATATAG
1369418 TTT
1 TTT
1369421 ATATTATATT
Statistics
Matches: 238, Mismatches: 32, Indels: 35
0.78 0.10 0.11
Matches are distributed among these distances:
31 17 0.07
32 15 0.06
33 11 0.05
34 17 0.07
35 51 0.21
36 26 0.11
37 23 0.10
38 55 0.23
39 15 0.06
41 8 0.03
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.46
Consensus pattern (36 bp):
TTTTAAAAAAATTTTGAAAAATTATATAATATATAG
Found at i:1369421 original size:35 final size:36
Alignment explanation
Indices: 1369095--1369420 Score: 245
Period size: 35 Copynumber: 9.1 Consensus size: 36
1369085 TATATAGTTT
*
1369095 TTTTAAAAAATCATTTTTAAAATATATATATAATATATAG
1 TTTT-AAAAAT-ATTTTT-GAA-ATATATATAATATATAG
* *
1369135 TTTTTCAAAACA-TTTTGAAAATAATATATAATATATAG
1 -TTTTAAAAATATTTTTG-AAAT-ATATATAATATATAG
* *
1369173 TTTTGAAAAGTA-TTTTGAAAAACTTATATAATATATAG
1 TTTT-AAAAATATTTTTGAAATA--TATATAATATATAG
** *
1369211 TTTTAAAAA-AAATTTGAAAAATTATATAATATATAG
1 TTTTAAAAATATTTTTGAAATA-TATATAATATATAG
*
1369247 TTTTATAAATATTTTTTTGAAACT-TATAT-A-ATAT--
1 TTTTA-AAA-ATATTTTTGAAA-TATATATAATATATAG
*
1369281 TTTT--AAATCATTTTTGAAA-ATTGTATAATATATAG
1 TTTTAAAAAT-ATTTTTGAAATA-TATATAATATATAG
* * * *
1369316 TTTTGAAAA-CTTTTT--AAGA-ATATAGTATATAG
1 TTTTAAAAATATTTTTGAAATATATATAATATATAG
*
1369348 -TTTAAAAATATTTTTGAAATATATATATTATATAG
1 TTTTAAAAATATTTTTGAAATATATATAATATATAG
*
1369383 -TTTAAAAATATTTTTGAAATATATATATTATATAG
1 TTTTAAAAATATTTTTGAAATATATATAATATATAG
1369418 TTT
1 TTT
1369421 ATATTATATT
Statistics
Matches: 238, Mismatches: 22, Indels: 55
0.76 0.07 0.17
Matches are distributed among these distances:
30 2 0.01
31 22 0.09
32 17 0.07
33 6 0.03
34 8 0.03
35 56 0.24
36 28 0.12
37 29 0.12
38 54 0.23
39 8 0.03
40 4 0.02
41 4 0.02
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.46
Consensus pattern (36 bp):
TTTTAAAAATATTTTTGAAATATATATAATATATAG
Found at i:1369442 original size:18 final size:18
Alignment explanation
Indices: 1369400--1369451 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
1369390 ATATTTTTGA
*
1369400 AATATATATATTATATAGTT
1 AATAT-TATATTAT-TAATT
*
1369420 TATATTATATTATTAATT
1 AATATTATATTATTAATT
1369438 AATA-TATTATTATT
1 AATATTA-TATTATT
1369452 TTTTTCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.07
18 14 0.50
19 8 0.29
20 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AATATTATATTATTAATT
Found at i:1370893 original size:25 final size:25
Alignment explanation
Indices: 1370845--1370905 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 25
1370835 CTTTGTTTTA
1370845 TTTATTTATTTTCTTTTATCTTCATT
1 TTTATTTATTTTCTTTTATCTTCA-T
1370871 TTTATTT-TTGTTC-TTTATCTTCAT
1 TTTATTTATT-TTCTTTTATCTTCAT
1370895 TTTATTTATTT
1 TTTATTTATTT
1370906 ATTTATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.27
25 14 0.42
26 10 0.30
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTATTTATTTTCTTTTATCTTCAT
Found at i:1370912 original size:12 final size:13
Alignment explanation
Indices: 1370840--1370923 Score: 52
Period size: 12 Copynumber: 6.3 Consensus size: 13
1370830 ATTTCCTTTG
1370840 TTTTATTTATTTA
1 TTTTATTTATTTA
*
1370853 TTTTCTTTTATCTTCA
1 TTTT-ATTTAT-TT-A
1370869 --TT-TTTATTT-
1 TTTTATTTATTTA
*
1370878 TTGTTCTTTATCTTCA
1 TT-TTATTTAT-TT-A
1370894 TTTTATTTATTTA
1 TTTTATTTATTTA
1370907 -TTTATTTATTTTA
1 TTTTATTTA-TTTA
1370920 TTTT
1 TTTT
1370924 CCTCTCTAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 23
0.70 0.02 0.28
Matches are distributed among these distances:
11 2 0.04
12 15 0.26
13 14 0.25
14 14 0.25
15 9 0.16
16 3 0.05
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.75
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:1371526 original size:20 final size:20
Alignment explanation
Indices: 1371467--1371536 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
1371457 AATGACAAAC
* **
1371467 AAATTCGCAACGCGAACTCC
1 AAATTCGCAACGCGAATTTG
* * *
1371487 AACTTCGCAACTC-AGTTTTG
1 AAATTCGCAACGCGA-ATTTG
1371507 AAATTCGCAACGCGAATTTG
1 AAATTCGCAACGCGAATTTG
1371527 TAAA-TCGCAA
1 -AAATTCGCAA
1371537 TACAGAAGTC
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.03
20 33 0.87
21 4 0.11
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (20 bp):
AAATTCGCAACGCGAATTTG
Found at i:1371597 original size:20 final size:20
Alignment explanation
Indices: 1371531--1371614 Score: 114
Period size: 20 Copynumber: 4.2 Consensus size: 20
1371521 AATTTGTAAA
*
1371531 TCGCAATACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* *
1371551 TCGCAATACATAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
1371571 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* * *
1371591 TCGCAACACACAATTGAAAT
1 TCGCAACACAGAAGTCAAAT
1371611 TCGC
1 TCGC
1371615 GTTGCGAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.43, C:0.24, G:0.13, T:0.20
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:1371651 original size:20 final size:20
Alignment explanation
Indices: 1371628--1371665 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1371618 GCGAATTTCA
1371628 CTTTCGCAACACGCACACAT
1 CTTTCGCAACACGCACACAT
1371648 CTTTCGCAACACGCACAC
1 CTTTCGCAACACGCACAC
1371666 TTTACTGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.42, G:0.11, T:0.18
Consensus pattern (20 bp):
CTTTCGCAACACGCACACAT
Found at i:1372641 original size:19 final size:19
Alignment explanation
Indices: 1372619--1372657 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1372609 TTCCTCCTCC
*
1372619 ACACAGCTTTGGTTTCGCA
1 ACACAGCTTCGGTTTCGCA
1372638 ACACAGCTTCGGTTTCGCA
1 ACACAGCTTCGGTTTCGCA
1372657 A
1 A
1372658 ATTCGAGTTG
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:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ACACAGCTTCGGTTTCGCA
Found at i:1372740 original size:19 final size:19
Alignment explanation
Indices: 1372718--1372788 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
1372708 TCCACACAGA
*
1372718 TTTGGTTTCGTAACACAAC
1 TTTGGTTTCGCAACACAAC
* * *
1372737 TTTGGTTTCACAACGCAGC
1 TTTGGTTTCGCAACACAAC
**
1372756 TTTGGTTTCGCAACACAGT
1 TTTGGTTTCGCAACACAAC
1372775 TTTGGTTATCGCAA
1 TTTGGTT-TCGCAA
1372789 ATTCGAGTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 38 0.86
20 6 0.14
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (19 bp):
TTTGGTTTCGCAACACAAC
Found at i:1373695 original size:22 final size:20
Alignment explanation
Indices: 1373658--1373701 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
1373648 TAAGTTTTAA
* *
1373658 AATAATAAAAATAAAAGTTT
1 AATAAAAAAAATAAAAATTT
1373678 AATAAAAACAAATAAAAAATTT
1 AATAAAAA-AAAT-AAAAATTT
1373700 AA
1 AA
1373702 AAATATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 9 0.45
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
AATAAAAAAAATAAAAATTT
Found at i:1375527 original size:21 final size:21
Alignment explanation
Indices: 1375486--1375527 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1375476 TAGCAAAGAG
*
1375486 AAGTGAATTTTAATGGGAAAT
1 AAGTGAATTTTAATGGAAAAT
*
1375507 AAGTGATTTTTGAAT-GAAAAT
1 AAGTGAATTTT-AATGGAAAAT
1375528 GAGCTGGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (21 bp):
AAGTGAATTTTAATGGAAAAT
Found at i:1381502 original size:20 final size:20
Alignment explanation
Indices: 1381477--1381516 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1381467 AATAGGCCCT
1381477 AGGAGATTTAGAAAACCCCA
1 AGGAGATTTAGAAAACCCCA
1381497 AGGAGATTTAGAAAACCCCA
1 AGGAGATTTAGAAAACCCCA
1381517 TGACCTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (20 bp):
AGGAGATTTAGAAAACCCCA
Found at i:1414151 original size:19 final size:19
Alignment explanation
Indices: 1414104--1414153 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1414094 TTTAAACGGG
*
1414104 TGCATCGATACACTCCTTA
1 TGCATCGATGCACTCCTTA
1414123 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
1414142 TGCATCGATGCA
1 TGCATCGATGCA
1414154 TTAATGGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:1414181 original size:83 final size:81
Alignment explanation
Indices: 1414042--1414197 Score: 190
Period size: 83 Copynumber: 1.9 Consensus size: 81
1414032 TTGACAGATT
* *
1414042 CATCGATGCACTACATATGCATCGGTGCATAAATCCCATTCGATGTTTGTATTTTAAACGGGTGC
1 CATCGATGCACTACATATGCATCGATGCATAAATCCCATTCGATGTTTGTATTTT-AA-GAGTGC
1414107 ATCGATACACTCCTTATG
64 ATCGATACACTCCTTATG
* * * **
1414125 CATCGATGCACTCCTTATGCATCGATGCATTAATGGCATTCGATGTTCAT-TA-TTTAAGAGTGC
1 CATCGATGCACTACATATGCATCGATGCATAAATCCCATTCGATGTT--TGTATTTTAAGAGTGC
*
1414188 ATCGGTACAC
64 ATCGATACAC
1414198 ATTGAATGTG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
81 14 0.22
82 2 0.03
83 44 0.70
84 2 0.03
85 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (81 bp):
CATCGATGCACTACATATGCATCGATGCATAAATCCCATTCGATGTTTGTATTTTAAGAGTGCAT
CGATACACTCCTTATG
Found at i:1419097 original size:2 final size:2
Alignment explanation
Indices: 1419090--1419115 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1419080 ACCAAACCAA
1419090 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
1419116 TAAGTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1426858 original size:65 final size:65
Alignment explanation
Indices: 1426725--1426884 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
1426715 ACGATTTTTA
* * *
1426725 GTGCACCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTTCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAGCTG
* *
1426789 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AGTCTGAGTGCATCGATGCATAG-T
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGCCTGAGTGCATCGATGCATAGCT
*
1426852 AT
65 -G
* * *
1426854 GTGCATCGGTGCATGAAATGCATTCTATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
1426885 CAATTTATTC
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 28 0.33
65 53 0.63
66 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAGCTG
Found at i:1431108 original size:21 final size:21
Alignment explanation
Indices: 1431061--1431112 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
1431051 AATGTACCTT
*
1431061 GGTATCGATACTGACCTTTCA
1 GGTATCGATACTGACCTCTCA
*
1431082 -GTATCGATAGTG-CCTCTCAA
1 GGTATCGATACTGACCTCTC-A
1431102 GGTATCGATAC
1 GGTATCGATAC
1431113 CTAGTGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 5 0.19
20 12 0.46
21 9 0.35
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (21 bp):
GGTATCGATACTGACCTCTCA
Found at i:1446454 original size:54 final size:54
Alignment explanation
Indices: 1446315--1446656 Score: 365
Period size: 54 Copynumber: 6.4 Consensus size: 54
1446305 GTATGTGTAC
*
1446315 TATAGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
* * * *
1446369 TATA-ACACTAAGTGTGCAACCCACATAATTCATTATATGTTGATGAACAACCT
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
**
1446422 TATAGGCACTAAGTGTGCAACCCATGGAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
*
1446476 TATAGGCACTAAGTGTGCAACCCA-AGGAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACA-GAATTCATCATATGTTGATGAACAACCG
* * * * *
1446530 TATAGGCATTACA-T-TAGCGAA-CTAC-GAAATTTATCATATGTTAATGAACGACCG
1 TATAGGCACTA-AGTGT-GC-AACCCACAG-AATTCATCATATGTTGATGAACAACCG
* * * * * * ** *
1446584 TATATGTACTATGTGTGTTAA-CCACAGAATTCATAATATGTTTATGAATGATCG
1 TATAGGCACTAAGTGTG-CAACCCACAGAATTCATCATATGTTGATGAACAACCG
**
1446638 TATAGGCACTGCGTGTGCA
1 TATAGGCACTAAGTGTGCA
1446657 TCTCAATGAA
Statistics
Matches: 245, Mismatches: 32, Indels: 23
0.82 0.11 0.08
Matches are distributed among these distances:
53 52 0.21
54 188 0.77
55 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
Found at i:1449335 original size:20 final size:20
Alignment explanation
Indices: 1449310--1449350 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1449300 CCGTTAAACA
*
1449310 GGGGGAATCGATAGCCCCTG
1 GGGGGAATCGATACCCCCTG
*
1449330 GGGGGAATCTATACCCCCTG
1 GGGGGAATCGATACCCCCTG
1449350 G
1 G
1449351 ACATTCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.37, T:0.17
Consensus pattern (20 bp):
GGGGGAATCGATACCCCCTG
Found at i:1449826 original size:40 final size:40
Alignment explanation
Indices: 1449771--1449849 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
1449761 ATCATTGAAA
1449771 TCAAATTTGAAATTACTCCCCCTTACTATAATACATCTTT
1 TCAAATTTGAAATTACTCCCCCTTACTATAATACATCTTT
1449811 TCAAATTTGAAATTACTCCCCCTTACTATAATACATCTT
1 TCAAATTTGAAATTACTCCCCCTTACTATAATACATCTT
1449850 CTCCCCCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (40 bp):
TCAAATTTGAAATTACTCCCCCTTACTATAATACATCTTT
Found at i:1450888 original size:40 final size:40
Alignment explanation
Indices: 1450833--1450911 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
1450823 AAAGGGGGAG
1450833 AAGATGTATTATAGTAAAGGGGAGTAATTTCAAATTTGAA
1 AAGATGTATTATAGTAAAGGGGAGTAATTTCAAATTTGAA
*
1450873 AAGATGTATTATAGTAAGGGGGAGTAATTTCAAATTTGA
1 AAGATGTATTATAGTAAAGGGGAGTAATTTCAAATTTGA
1450912 TTTCAATGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.33
Consensus pattern (40 bp):
AAGATGTATTATAGTAAAGGGGAGTAATTTCAAATTTGAA
Found at i:1451272 original size:21 final size:21
Alignment explanation
Indices: 1451235--1451315 Score: 128
Period size: 21 Copynumber: 3.9 Consensus size: 21
1451225 CCGTTAAACA
*
1451235 GGGGGAATCAGTACCCCCT-G
1 GGGGGAATCTGTACCCCCTAG
*
1451255 GGGGGAATCTGTTCCCCCTAG
1 GGGGGAATCTGTACCCCCTAG
*
1451276 GGGGGAATCGGTACCCCCTAG
1 GGGGGAATCTGTACCCCCTAG
1451297 GGGGGAATCTGTACCCCCT
1 GGGGGAATCTGTACCCCCT
1451316 GGGCATTCTA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 17 0.31
21 38 0.69
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.19
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTAG
Found at i:1456278 original size:54 final size:54
Alignment explanation
Indices: 1456139--1456619 Score: 563
Period size: 54 Copynumber: 8.9 Consensus size: 54
1456129 ATATGTGTAC
* * * **
1456139 TATAGGCACTAAGTGTGCAACCAATGGAATTCATCATATGTTGATGAACAAACTT
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAAC-AACCG
* * *
1456194 TATAGGCACTAAGAGTACAACCCACAAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
*
1456248 TATAGGCACTAAGTGTGTAACCCACGAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* * *
1456302 TATAGACACTAAGTGTACAACCCACAAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* *
1456356 TATAGGTACTAAGTGTGCAACCCAC-AGAATTCATCATATGTTTATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCG
* * *
1456410 TATAGGTACTAAGTGTACAACCCACGAAATTCATCATATGTTGATGAACAATCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* * * ** *
1456464 TATAGGCACTAAGTGTGCAACCCAAGGAATTCATCATATGTTTATGAATGATCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
*** * * * * * *
1456518 TATAAAAACTATGTGTGTGAA-CCACGAAATTCATCATATATTGTTAAACGACCG
1 TATAGGCACTAAGTGTG-CAACCCACGAAATTCATCATATGTTGATGAACAACCG
* * * * * *
1456572 TATAGGCACTATGTGTGTGAA-CGACGGAATTCATAATATGTTTATGAA
1 TATAGGCACTAAGTGTG-CAACCCACGAAATTCATCATATGTTGATGAA
1456620 TGACTGTATA
Statistics
Matches: 370, Mismatches: 53, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.00
54 323 0.87
55 46 0.12
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
Found at i:1466326 original size:59 final size:59
Alignment explanation
Indices: 1466229--1466353 Score: 178
Period size: 59 Copynumber: 2.1 Consensus size: 59
1466219 GTGCTAGCCT
* * * *
1466229 GAATATGATACATAACGTCGTGCCCACCATCTGTACTAGGTATCCTTTAGTACAATCCC
1 GAATATGACACATAACGTCGTGCCCACCATATGCACTAGGTATCCTCTAGTACAATCCC
* * *
1466288 GAATATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATCCTCTAGTGCAATCCC
1 GAATATGACACATAACGTCGTGCCCACCATATGCACTAGGTATCCTCTAGTACAATCCC
*
1466347 AAATATG
1 GAATATG
1466354 CCACTGTTAG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (59 bp):
GAATATGACACATAACGTCGTGCCCACCATATGCACTAGGTATCCTCTAGTACAATCCC
Found at i:1467897 original size:11 final size:11
Alignment explanation
Indices: 1467881--1467916 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
1467871 CCAACAGTTA
*
1467881 CATAATTTTTT
1 CATAATTTTCT
1467892 CATAATTTTCT
1 CATAATTTTCT
1467903 CATAATTTTCT
1 CATAATTTTCT
1467914 CAT
1 CAT
1467917 CCTTAAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
CATAATTTTCT
Found at i:1468952 original size:30 final size:29
Alignment explanation
Indices: 1468902--1468958 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
1468892 AATACATATA
*
1468902 TTTTAAAATTATACTTTTAGTCCCTAAAT
1 TTTTAAAAGTATACTTTTAGTCCCTAAAT
*
1468931 TTTTAAAAAGTATATTTTTAGTCCCTAA
1 TTTT-AAAAGTATACTTTTAGTCCCTAA
1468959 TCTTTTCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (29 bp):
TTTTAAAAGTATACTTTTAGTCCCTAAAT
Found at i:1471666 original size:16 final size:16
Alignment explanation
Indices: 1471642--1471681 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
1471632 GGCTTACCAT
*
1471642 TTAATACTAAAGTGTA
1 TTAACACTAAAGTGTA
1471658 TTAACACTAAAGTGTA
1 TTAACACTAAAGTGTA
1471674 TTAACACT
1 TTAACACT
1471682 GGGTAGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (16 bp):
TTAACACTAAAGTGTA
Found at i:1474243 original size:13 final size:13
Alignment explanation
Indices: 1474227--1474256 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1474217 CTTAATTGCA
1474227 AAAATTAAAAATT
1 AAAATTAAAAATT
*
1474240 AAAATTAAAATTT
1 AAAATTAAAAATT
1474253 AAAA
1 AAAA
1474257 ACCTTATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:1474345 original size:11 final size:11
Alignment explanation
Indices: 1474325--1474398 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 11
1474315 GTTAGATGAG
1474325 AAATAATAAAT
1 AAATAATAAAT
*
1474336 AAATATTAAAT
1 AAATAATAAAT
*
1474347 AAAT--TAAAGGGA
1 AAATAATAAA---T
1474359 AAATAATAAAT
1 AAATAATAAAT
1474370 AAAATAAT-AAT
1 -AAATAATAAAT
1474381 -AATAAT-AAT
1 AAATAATAAAT
1474390 -AATAATAAA
1 AAATAATAAA
1474399 AAAAAAAATC
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
9 19 0.36
10 2 0.04
11 17 0.32
12 11 0.21
14 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:1474378 original size:3 final size:3
Alignment explanation
Indices: 1474360--1474397 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
1474350 TTAAAGGGAA
1474360 AAT AAT AAAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1474398 AAAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1475777 original size:2 final size:2
Alignment explanation
Indices: 1475766--1475801 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1475756 AAATAATTAT
1475766 TA TA -A 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 TA TA T
1475802 TAAGCCCGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1480044 original size:2 final size:2
Alignment explanation
Indices: 1480037--1480070 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1480027 TATTTAATAA
1480037 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
1480071 TCAGATGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1481875 original size:3 final size:3
Alignment explanation
Indices: 1481867--1481900 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
1481857 TGTAAAAGAT
1481867 TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
1481901 ATAAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1481889 original size:16 final size:16
Alignment explanation
Indices: 1481868--1481915 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
1481858 GTAAAAGATT
1481868 AATAATAATAATAATA
1 AATAATAATAATAATA
1481884 AATAATAATAATAATA
1 AATAATAATAATAATA
1481900 AATAA-AA-AATAA-A
1 AATAATAATAATAATA
1481913 AAT
1 AAT
1481916 GGGCAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.12
14 5 0.16
15 2 0.06
16 21 0.66
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:1482439 original size:123 final size:123
Alignment explanation
Indices: 1482217--1482672 Score: 770
Period size: 123 Copynumber: 3.7 Consensus size: 123
1482207 GAATTAAGGC
*
1482217 AAGGTTGAACAAGTTCTTCTCATTACGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
*
1482282 GAACTCTACCTGGCAATGTTGATATTGATCTATCTCCTTATGTGATAGAGTCGAGCAA
66 GAACTCTACCTGGAAATGTTGATATTGATCTATCTCCTTATGTGATAGAGTCGAGCAA
* *
1482340 AATGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
1482405 GAACTCTACCTTGAAATGTTGATATTGATCTATCTCCTTTTGTGATAGAGTCGAGCAA
66 GAACTCTACCTGGAAATGTTGATATTGATCTATCTCCTTATGTGATAGAGTCGAGCAA
* *
1482463 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTTAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * *
1482528 GTACTCTACCTGGAAATGTTGATGA-TGATCTATCTCCTTCTGTGATAGAGTCGAACAA
66 GAACTCTACCTGGAAATGTTGAT-ATTGATCTATCTCCTTATGTGATAGAGTCGAGCAA
* *
1482586 AAGGTTGAACAATTTCTTCTCATTATGAACTTCTTCTTTCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
*
1482651 GAACTCTACCTAGAAATGTTGA
66 GAACTCTACCTGGAAATGTTGA
1482673 AAACATCCAG
Statistics
Matches: 314, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
123 313 1.00
124 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (123 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTACCTGGAAATGTTGATATTGATCTATCTCCTTATGTGATAGAGTCGAGCAA
Found at i:1482724 original size:45 final size:45
Alignment explanation
Indices: 1482669--1482800 Score: 171
Period size: 43 Copynumber: 3.0 Consensus size: 45
1482659 CCTAGAAATG
* *
1482669 TTGAAAACATCCAGCACTGAAGGTCTTATGGATGACCCGAAGGCT
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGAT
* * *
1482714 TTGGAAACATCCTGCACTGTAGG--TAATGGATGACCCGAAGGAT
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGAT
* *
1482757 TTGAAAACATCCTGCACT-ATAGGTCTTATGGATGGCCCGTAGGA
1 TTGAAAACATCCTGCACTGA-AGGTCTTATGGATGACCCGAAGGA
1482801 CTTAAGTAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 38 0.51
45 36 0.49
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (45 bp):
TTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGAT
Found at i:1484266 original size:75 final size:75
Alignment explanation
Indices: 1484139--1484324 Score: 291
Period size: 75 Copynumber: 2.5 Consensus size: 75
1484129 AGCCTTCAGC
* *
1484139 ATGCCCCAACATTTGCTGATACAAACGTTCAAAATGTATCAACATTCTTATTTCTGATTAAAATG
1 ATGCCCCAACATTTACTGATACAAACGTTCAAAATGTATCAACATTCCTATTTCTGATTAAAATG
1484204 GGCTTTCAAG
66 GGCTTTCAAG
* * * * *
1484214 TTGCCCCAACATTTACTGATACAAACATTCAAAATGTATTAACATTCCTATTTTTGATTGAAATG
1 ATGCCCCAACATTTACTGATACAAACGTTCAAAATGTATCAACATTCCTATTTCTGATTAAAATG
1484279 GGCTTTCAAG
66 GGCTTTCAAG
**
1484289 ATGCCCCAACATTTACTGATATGAACGTTCAAAATG
1 ATGCCCCAACATTTACTGATACAAACGTTCAAAATG
1484325 CATTCAAAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 100 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (75 bp):
ATGCCCCAACATTTACTGATACAAACGTTCAAAATGTATCAACATTCCTATTTCTGATTAAAATG
GGCTTTCAAG
Found at i:1488643 original size:18 final size:18
Alignment explanation
Indices: 1488622--1488660 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1488612 AAAAAAAATA
1488622 AAATAAAAAGAAAAATGC
1 AAATAAAAAGAAAAATGC
* *
1488640 AAATAAATATAAAAATGC
1 AAATAAAAAGAAAAATGC
1488658 AAA
1 AAA
1488661 CGCAAACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.72, C:0.05, G:0.08, T:0.15
Consensus pattern (18 bp):
AAATAAAAAGAAAAATGC
Found at i:1492719 original size:3 final size:3
Alignment explanation
Indices: 1492711--1492785 Score: 107
Period size: 3 Copynumber: 24.0 Consensus size: 3
1492701 TATAAAAGAT
1492711 TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TTAA -AA CTAA TAAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA -TAA TAA -TAA T-AA TAA
1492759 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1492786 ATTAAAAAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.03
3 54 0.81
4 11 0.16
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1497012 original size:55 final size:55
Alignment explanation
Indices: 1496923--1497435 Score: 670
Period size: 55 Copynumber: 9.3 Consensus size: 55
1496913 CTATGTGTAC
*
1496923 TACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* *
1496978 TACAGGCACTATGTGTGCAAATCCACAGAATTCATAATGAGTTGATGAATAATCG
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* * * *
1497033 TACAGACACTATGTGTGCAAATCCACAGAATTCACCATGAATTGATGAATAACTG
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* * * *
1497088 TACAAGCACTATGTGTGTAAAACCGCAGAATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* * *
1497143 TACAAGCACTATGTGTGCAAATCCACAGAATTCATCATTAGTTGATGAATAGCCG
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* * * * * * *
1497198 TACAGGAACTATGTGTACAAATTCACGGAATTCATCATTAGATGATGAATAACTG
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* * * * * *
1497253 TACATGAACTATGTGTGAAAATCCACGGAATTCATCATGAGTTAACGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* * * *
1497308 TACATGCACTATGTGTGCAAATCCACAGAATTTATCATGAGTTGATGAATAATCA
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* * * *
1497363 TACAGGCACGATGTGTAC-AACCCACAGAATTCATAATGAGTTGATGAACT-ACCG
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAA-TAACCG
* *
1497417 TATAGGCACTACGTGTGCA
1 TACAGGCACTATGTGTGCA
1497436 TCTTAATAAA
Statistics
Matches: 397, Mismatches: 59, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
54 43 0.11
55 354 0.89
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (55 bp):
TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
Found at i:1498388 original size:24 final size:24
Alignment explanation
Indices: 1498280--1498390 Score: 75
Period size: 24 Copynumber: 4.5 Consensus size: 24
1498270 TTTTATCTTT
*
1498280 GTATTTTAGTTTAAATAGGTTTTA
1 GTATTTTAATTTAAATAGGTTTTA
* *
1498304 GTATTTTAA-TTAAGTTTTAGGATATTA
1 GTATTTTAATTTAA---ATAGG-TTTTA
* **
1498331 -T-TTTTATATTTTATATTTGTTTTA
1 GTATTTTA-A-TTTAAATAGGTTTTA
*
1498355 GGTATGTTAATTTAAATAGGTTTTA
1 -GTATTTTAATTTAAATAGGTTTTA
1498380 GTATTTTAATT
1 GTATTTTAATT
1498391 AGGATTTAGA
Statistics
Matches: 64, Mismatches: 13, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
23 4 0.06
24 22 0.34
25 19 0.30
26 8 0.12
27 8 0.12
28 3 0.05
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.58
Consensus pattern (24 bp):
GTATTTTAATTTAAATAGGTTTTA
Found at i:1498393 original size:19 final size:19
Alignment explanation
Indices: 1498289--1498427 Score: 56
Period size: 19 Copynumber: 7.2 Consensus size: 19
1498279 TGTATTTTAG
*
1498289 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
*
1498308 TTTAATTAAGTTTTAGGATAT
1 TTTAATTAGGTTTTA-G-TAT
* **
1498329 TATT-TTTATATTTTA-TAT
1 T-TTAATTAGGTTTTAGTAT
*
1498347 TTGT-TTTAGGTATGTTA--A-
1 TT-TAATTAGGT-T-TTAGTAT
*
1498365 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
1498384 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* **
1498403 ATTATATTATTTTTTAGATAT
1 TTTA-ATTAGGTTTTAG-TAT
1498424 TTTA
1 TTTA
1498428 GTTCAAGTAG
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
16 3 0.03
17 3 0.03
18 18 0.20
19 34 0.38
20 13 0.14
21 17 0.19
22 2 0.02
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:1499078 original size:19 final size:18
Alignment explanation
Indices: 1499054--1499097 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
1499044 CTTTAATTTG
*
1499054 TTTATTTAATTATTTTTC
1 TTTATTTAATTATTATTC
*
1499072 TTTTATTTAATTCTTATTC
1 -TTTATTTAATTATTATTC
1499091 TTTATTT
1 TTTATTT
1499098 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTAATTATTATTC
Found at i:1499175 original size:17 final size:17
Alignment explanation
Indices: 1499144--1499194 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
1499134 TTACTATTAA
*
1499144 TATTTATTATTTTATTAT
1 TATTTATT-TTTTATAAT
1499162 T-TTTCATTTTTTATAAT
1 TATTT-ATTTTTTATAAT
1499179 TATTTATTTTATTATA
1 TATTTATTTT-TTATA
1499195 CCTTTTAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTATTTTTTATAAT
Found at i:1509318 original size:3 final size:3
Alignment explanation
Indices: 1509310--1509366 Score: 78
Period size: 3 Copynumber: 18.3 Consensus size: 3
1509300 TAAAAACATA
**
1509310 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT ACAT TTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A-AT AAT
1509357 AAT AAT AAT A
1 AAT AAT AAT A
1509367 TTAAATAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 43 0.90
4 5 0.10
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:1510372 original size:257 final size:257
Alignment explanation
Indices: 1509479--1510618 Score: 1377
Period size: 258 Copynumber: 4.4 Consensus size: 257
1509469 TGTTTGTTTC
* * * * *
1509479 CATCATGCTCGAAAGACTTATTGATGGCTCAAAAGACTT-C---TCTTGAAAATAGTTTACTAGG
1 CATCATGCTCGAAAGACTTACTGATGGC-CGAACGACTTACTAATTTTAAAAATAGTTTACTAGG
*
1509540 TAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAACATTAAATGAG
65 TAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATATTAAATGAG
* * * * * *
1509605 AAACTTTGAAAATTGCTTTTCTCA-TTTTTCACAATCATCATATAAAAACATCTTGCCCAAAGGT
130 AAACTTTGGAAATCGC-TTTCTCATTTTTTGA-AA--ATCATGTGAAAACATCTTGCCTAAAGGT
* * * * * *
1509669 CGTATAGATGGCCCGAAGGACTTATCATATTGCTCGAAATAGTGACAGATGACCCGAAGGATTTT
191 CTTATAGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
1509734 AT
256 AT
* * * * * *
1509736 CCTCATGCTCAAAAGACTTACTGATGGACCGAAGGACTTACTAATTTTGGAAACTA-CTTACTAG
1 CATCATGCTCGAAAGACTTACTGATGG-CCGAACGACTTACTAATTTT-AAAAATAGTTTACTAG
* * *
1509800 GTGAGAAACTTTGGAAATTGCTTTATTACTTTTCAAAAATTTCATTTTCTGAAAATATTAAATGA
64 GTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATATTAAATGA
* * *
1509865 TAAACTTTGGAAATCGCTTTCTCATTTTTTAAAAATCATGTGAAAACATCATGCCTAAAGGTCTT
129 GAAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCATGTGAAAACATCTTGCCTAAAGGTCTT
* * * * * *
1509930 ATAGATGGCCCGAACGGCTTATTATCTTGATCAAAAGACTGACAGATGATCCGAAGGATTTAAT
194 ATAGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAT
* * * * * *
1509994 CATCATGCTCGAAAGACTTACTAATGGCCTGAACTACTTGCTAATTTTAAAAATAGTTAAATATG
1 CATCATGCTCGAAAGACTTACTGATGGCC-GAACGACTTACTAATTTTAAAAATAGTTTACTAGG
* * * * * *
1510059 TAAGAAACTTTTGAAATTGATTTCTTACTTTTCAAAAACTACATTTTCTAAAAATATTAAATGAG
65 TAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATATTAAATGAG
* * * * * *
1510124 AAACTTTGGAAATCGATTTATCATTTTTTGAAAATAATGTGAAAACATCCTGCCTGAATGTCTTA
130 AAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCATGTGAAAACATCTTGCCTAAAGGTCTTA
*
1510189 TAGATGGCCCGAAAGACTTAAT-ATCTTGCTCGAAA-ACTAACAGATGACCCGAAGGATTTAAT
195 TAGATGGCCCGAAAGACTT-ATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAT
* ** * *
1510251 CATCATTCTCGAAAGACTTACTGATGTTCGTAACTACTTGCTAATTTTAAAAATAGTTTACTAGG
1 CATCATGCTCGAAAGACTTACTGATGGCCG-AACGACTTACTAATTTTAAAAATAGTTTACTAGG
* * * *
1510316 TAAGATACTTTAGAAATCGCTTTCTTACTTTTCAAAAATTTTATTTTTTGAAAATATTAAATGAG
65 TAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATATTAAATGAG
* * *
1510381 AAACTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGAAAGCATCTTGCCTAAATGTCTTA
130 AAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCATGTGAAAACATCTTGCCTAAAGGTCTTA
* ** *
1510446 TAGAT--CGC-AGTG-CTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGTATTTAAT
195 TAGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAT
* ** * *
1510505 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAATTTTGGAAATAGTTTAATGGG
1 CATCATGCTCGAAAGACTTACTGATGG-CCGAACGACTTACTAATTTTAAAAATAGTTTACTAGG
* ** *
1510570 TAAGAAACTTTGAAAAAGGCTTTCTTACTTTTCAAAAAGTTCATTTTCT
65 TAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCT
1510619 AAATGAGAAA
Statistics
Matches: 759, Mismatches: 110, Indels: 31
0.84 0.12 0.03
Matches are distributed among these distances:
252 2 0.00
253 16 0.02
254 120 0.16
255 4 0.01
256 1 0.00
257 239 0.31
258 269 0.35
259 2 0.00
260 9 0.01
261 91 0.12
262 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (257 bp):
CATCATGCTCGAAAGACTTACTGATGGCCGAACGACTTACTAATTTTAAAAATAGTTTACTAGGT
AAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATATTAAATGAGA
AACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCATGTGAAAACATCTTGCCTAAAGGTCTTAT
AGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAT
Found at i:1510450 original size:515 final size:514
Alignment explanation
Indices: 1509524--1510621 Score: 1413
Period size: 515 Copynumber: 2.1 Consensus size: 514
1509514 ACTTCTCTTG
* * *
1509524 AAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCT
1 AAAATAGTTTAATAGGTAAGAAACTTTTGAAATCGCTTTCTTACTTTTCAAAAACTTCATTTTCT
* * * * *
1509589 GAAAACATTAAATGAGAAACTTTGAAAATTGCTTTTCTCATTTTTCACAATCATCATATAAAAAC
66 AAAAACATTAAATGAGAAACTTTGAAAATCGCATTTATCATTTTTCACAA-CATAATATAAAAAC
* * * *
1509654 ATCTTGCCCAAAGGTCGTATAGATGGCCCGAAGGACTTATCATATTGCTCGAAATAGTGACAGAT
130 ATCCTGCCCAAAGGTCGTATAGATGGCCCGAAAGACTTATCATATTGCTCGAAATACTAACAGAT
* * *
1509719 GACCCGAAGGATTTTATCCTCATGCTCAAAAGACTTACTGATGGACCGAAGGACTTACTAATTTT
195 GACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGACCGAACGACTTACTAATTTT
* * * * *
1509784 GGAAACTACTTACTAGGTGAGAAACTTTGGAAATTGCTTTATTACTTTTCAAAAATTTCATTTTC
260 GAAAAATACTTACTAGGTAAGAAACTTTAGAAATCGCTTTATTACTTTTCAAAAATTTCATTTTC
* *
1509849 TGAAAATATTAAATGATAAACTTTGGAAATCGCTTTCTCATTTTTTAAAAATCATGTGAAAACAT
325 TGAAAATATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAAATCATGTGAAAACAT
*
1509914 CATGCCTAAAGGTCTTATAGATGGCCCGAACG-GCTTATTATCTTGATCAAAAGACTGACAGATG
390 CATGCCTAAAGGTCTTATAGAT----CGAA-GTGCTTATCATCTTGATCAAAAGACTGACAGATG
* * * *
1509978 ATCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTAATGGCCTGAACTACTTGCTAATTTTA
450 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTAATGGCCCGAACGACTTACTAATTTTA
* * * * *
1510043 AAAATAGTTAAATATGTAAGAAACTTTTGAAATTGATTTCTTACTTTTCAAAAACTACATTTTCT
1 AAAATAGTTTAATAGGTAAGAAACTTTTGAAATCGCTTTCTTACTTTTCAAAAACTTCATTTTCT
* * * * *
1510108 AAAAATATTAAATGAGAAACTTTGGAAATCG-ATTTATCATTTTTTGA-AA-ATAATGTGAAAAC
66 AAAAACATTAAATGAGAAACTTTGAAAATCGCATTTATCA-TTTTTCACAACATAATATAAAAAC
** * * *
1510170 ATCCTGCCTGAATGTCTTATAGATGGCCCGAAAGACTTAAT-ATCTTGCTCGAAA-ACTAACAGA
130 ATCCTGCCCAAAGGTCGTATAGATGGCCCGAAAGACTT-ATCATATTGCTCGAAATACTAACAGA
* * ** * *
1510233 TGACCCGAAGGATTTAATCATCATTCTCGAAAGACTTACTGAT-GTTCGTAACTACTTGCTAATT
194 TGACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGACCG-AACGACTTACTAATT
* * * *
1510297 TT-AAAAATAGTTTACTAGGTAAGATACTTTAGAAATCGCTTTCTTACTTTTCAAAAATTTTATT
258 TTGAAAAATA-CTTACTAGGTAAGAAACTTTAGAAATCGCTTTATTACTTTTCAAAAATTTCATT
* * *
1510361 TTTTGAAAATATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCGAAAATCATGTGAAAG
322 TTCTGAAAATATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAAATCATGTGAAAA
* * * * *
1510426 CATCTTGCCTAAATGTCTTATAGATCGCAGTGCTTATCATCTTGCTCGAAAGACTGACAGATGAC
387 CATCATGCCTAAAGGTCTTATAGATCGAAGTGCTTATCATCTTGATCAAAAGACTGACAGATGAC
* * * *
1510491 CCGAAGTATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAATTTTG
452 CCGAAGGATTTAATCATCATGCTCGAAAGACTTACTAATGGCCCGAACGACTTACTAATTTTA
* * ** *
1510554 GAAATAGTTTAATGGGTAAGAAAC-TTTGAAAAAGGCTTTCTTACTTTTCAAAAAGTTCATTTTC
1 AAAATAGTTTAATAGGTAAGAAACTTTTG-AAATCGCTTTCTTACTTTTCAAAAACTTCATTTTC
1510618 TAAA
65 TAAA
1510622 TGAGAAACTT
Statistics
Matches: 500, Mismatches: 73, Indels: 20
0.84 0.12 0.03
Matches are distributed among these distances:
510 5 0.01
511 143 0.29
514 8 0.02
515 190 0.38
516 54 0.11
517 2 0.00
518 8 0.02
519 90 0.18
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (514 bp):
AAAATAGTTTAATAGGTAAGAAACTTTTGAAATCGCTTTCTTACTTTTCAAAAACTTCATTTTCT
AAAAACATTAAATGAGAAACTTTGAAAATCGCATTTATCATTTTTCACAACATAATATAAAAACA
TCCTGCCCAAAGGTCGTATAGATGGCCCGAAAGACTTATCATATTGCTCGAAATACTAACAGATG
ACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGACCGAACGACTTACTAATTTTG
AAAAATACTTACTAGGTAAGAAACTTTAGAAATCGCTTTATTACTTTTCAAAAATTTCATTTTCT
GAAAATATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAAATCATGTGAAAACATC
ATGCCTAAAGGTCTTATAGATCGAAGTGCTTATCATCTTGATCAAAAGACTGACAGATGACCCGA
AGGATTTAATCATCATGCTCGAAAGACTTACTAATGGCCCGAACGACTTACTAATTTTA
Found at i:1512668 original size:12 final size:12
Alignment explanation
Indices: 1512651--1512688 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
1512641 GTTCTATTTC
1512651 TTCTTTTCTTTT
1 TTCTTTTCTTTT
1512663 TTCTTTTCTTTT
1 TTCTTTTCTTTT
*
1512675 TTATTTTTCTTTT
1 TT-CTTTTCTTTT
1512688 T
1 T
1512689 ATTGTTTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (12 bp):
TTCTTTTCTTTT
Found at i:1512689 original size:12 final size:12
Alignment explanation
Indices: 1512654--1512736 Score: 57
Period size: 12 Copynumber: 6.8 Consensus size: 12
1512644 CTATTTCTTC
1512654 TTTTCTTTTT-T
1 TTTTCTTTTTAT
1512665 CTTTTCTTTTTTAT
1 -TTTTC-TTTTTAT
1512679 TTTTCTTTTTAT
1 TTTTCTTTTTAT
* *
1512691 TGTTTCGTCTCT-T
1 T-TTTC-TTTTTAT
*
1512704 TTTTC-TTCTAT
1 TTTTCTTTTTAT
*
1512715 TTCTT-TTTTTCT
1 TT-TTCTTTTTAT
1512727 TTTTCTTTTT
1 TTTTCTTTTT
1512737 GTCTTTTATC
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
10 3 0.05
11 5 0.09
12 30 0.52
13 16 0.28
14 4 0.07
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTCTTTTTAT
Found at i:1519942 original size:31 final size:29
Alignment explanation
Indices: 1519881--1519968 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
1519871 AAATTTTTTA
*
1519881 TAGTGACCAAAATATAAATTTTGAAAGTT
1 TAGTGACCAAAATATAAATTTTAAAAGTT
* *
1519910 TAGTGGCCAAAGTATAAATTTTATAAAAGTT
1 TAGTGACCAAAATATAAA-TTT-TAAAAGTT
*
1519941 TAAG-GATCAAAATAT-AATTTTAAAAGTT
1 T-AGTGACCAAAATATAAATTTTAAAAGTT
1519969 ATATTTTTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
28 8 0.16
29 19 0.38
30 5 0.10
31 16 0.32
32 2 0.04
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (29 bp):
TAGTGACCAAAATATAAATTTTAAAAGTT
Found at i:1522326 original size:17 final size:17
Alignment explanation
Indices: 1522279--1522327 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
1522269 TACGTAAAGG
1522279 ATTTTAATAATTGTTTCT
1 ATTTTAATAA-TGTTTCT
* *
1522297 A-TTTCATACATGTTTTT
1 ATTTTAATA-ATGTTTCT
1522314 ATTTTAATAATGTT
1 ATTTTAATAATGTT
1522328 GTTTTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTTTAATAATGTTTCT
Found at i:1523123 original size:27 final size:26
Alignment explanation
Indices: 1523093--1523153 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
1523083 TATAGATAAT
1523093 AATTAATAAATAAATATAAAAAAATTA
1 AATTAATAAA-AAATATAAAAAAATTA
* * **
1523120 AATTAATTTAAAAATATTAAAATCTTA
1 AATTAA-TAAAAAATATAAAAAAATTA
1523147 AATTAAT
1 AATTAAT
1523154 TTTAAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 25 0.86
28 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
AATTAATAAAAAATATAAAAAAATTA
Found at i:1523131 original size:19 final size:19
Alignment explanation
Indices: 1523099--1523140 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1523089 TAATAATTAA
1523099 TAAATAAATATAAAAAAAT
1 TAAATAAATATAAAAAAAT
* * *
1523118 TAAATTAATTTAAAAATAT
1 TAAATAAATATAAAAAAAT
1523137 TAAA
1 TAAA
1523141 ATCTTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAATAAATATAAAAAAAT
Found at i:1525829 original size:11 final size:11
Alignment explanation
Indices: 1525813--1525837 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1525803 AGTATTTTAC
1525813 TTTAATTATTA
1 TTTAATTATTA
1525824 TTTAATTATTA
1 TTTAATTATTA
1525835 TTT
1 TTT
1525838 TATTTTAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTATTA
Found at i:1525861 original size:2 final size:2
Alignment explanation
Indices: 1525854--1525927 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
1525844 AGTCATGCTA
1525854 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
1525896 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
1525928 GTGCATATGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1526781 original size:17 final size:18
Alignment explanation
Indices: 1526759--1526792 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1526749 ATTTCATTAA
1526759 ATTATTTTT-TATCCTTT
1 ATTATTTTTATATCCTTT
1526776 ATTATTTTTATATCCTT
1 ATTATTTTTATATCCTT
1526793 ATATATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTATTTTTATATCCTTT
Found at i:1526784 original size:18 final size:17
Alignment explanation
Indices: 1526759--1526792 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1526749 ATTTCATTAA
*
1526759 ATTATTTTTTATCCTTT
1 ATTATTTTATATCCTTT
1526776 ATTATTTTTATATCCTT
1 ATTA-TTTTATATCCTT
1526793 ATATATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTATTTTATATCCTTT
Found at i:1529213 original size:20 final size:19
Alignment explanation
Indices: 1529184--1529247 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
1529174 CATCCACATT
1529184 TTTGCA-TTTGCATTTACA
1 TTTGCATTTTGCATTTACA
* *
1529202 TTTGCATCTTTGCGTTTTCA
1 TTTGCAT-TTTGCATTTACA
* *
1529222 TTTTGCATTTGTGCTTTTATA
1 -TTTGCATTT-TGCATTTACA
1529243 TTTGC
1 TTTGC
1529248 CGTCTTTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 6 0.16
20 17 0.46
21 14 0.38
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.56
Consensus pattern (19 bp):
TTTGCATTTTGCATTTACA
Found at i:1534407 original size:94 final size:92
Alignment explanation
Indices: 1534240--1534415 Score: 219
Period size: 94 Copynumber: 1.9 Consensus size: 92
1534230 CAGATTATAA
* * * * * * *
1534240 TATATATACAATAAAGCTTAGTTGTCCCTCTAGAGTATTTGGTTAAATGCCCTGGTTTTAGGGAT
1 TATATATACAATAAAGCTTAGCTGTCCCTCTAGAGCAATTAGTTAAACGCCCTAGCTTTAGGGAT
* *
1534305 AATATTCAGCTAGCCTGATAAGGTGAT
66 AAGATTCAGCTAACCTGATAAGGTGAT
*
1534332 TATACTATACAATAAAGCTTGAGCTGTCCCTCTA-AGGCAATTAGTTAAACGCCCTAGCTTTATG
1 TATA-TATACAATAAAGCTT-AGCTGTCCCTCTAGA-GCAATTAGTTAAACGCCCTAGCTTTAGG
*
1534396 GATAAGGTTCAGCTAACCTG
63 GATAAGATTCAGCTAACCTG
1534416 GTAAAGGTAT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
92 4 0.06
93 16 0.23
94 50 0.71
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (92 bp):
TATATATACAATAAAGCTTAGCTGTCCCTCTAGAGCAATTAGTTAAACGCCCTAGCTTTAGGGAT
AAGATTCAGCTAACCTGATAAGGTGAT
Found at i:1541982 original size:32 final size:31
Alignment explanation
Indices: 1541906--1541983 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
1541896 CTAATGTGAC
* *
1541906 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
* **
1541937 TCTCAGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-CAT
1541969 TCTTAGGTAGGCCCT
1 TCTTAGGTAGGCCCT
1541984 ACGACCCCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 25 0.62
32 15 0.38
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.28
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
Found at i:1543899 original size:43 final size:43
Alignment explanation
Indices: 1543555--1543888 Score: 544
Period size: 43 Copynumber: 7.8 Consensus size: 43
1543545 AACAAAAAAT
1543555 GCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGACAAAC
1 GCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGACAAAC
* *
1543598 GCCGCAATAGGTCGAGATCTATAGCGGCATTTTTGGGATAAAC
1 GCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGACAAAC
*
1543641 GCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGACAAAT
1 GCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGACAAAC
* *
1543684 GCCGCAATAGGTCAAGATCTATAGTGGCGTTTTTGGGACAAAC
1 GCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGACAAAC
*
1543727 GCCGCAATAGGTCGAGATCTATAACGGCGTTTTTGGGACAAAC
1 GCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGACAAAC
*
1543770 GCCGCAATAGGTCGAGATCTATAGCGGCATTTTTGGGACAAAC
1 GCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGACAAAC
* * *
1543813 GCCTCAATAGGTCGAGATTTATAGCGGCGTTTTTGGAACAAAC
1 GCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGACAAAC
* * *
1543856 GCCACAAAAGGT-TAGATCTATAGCGGCGTTTTT
1 GCCGCAATAGGTCGAGATCTATAGCGGCGTTTTT
1543889 TGATACAAAC
Statistics
Matches: 270, Mismatches: 21, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
42 19 0.07
43 251 0.93
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (43 bp):
GCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGACAAAC
Found at i:1548009 original size:163 final size:159
Alignment explanation
Indices: 1547686--1548048 Score: 487
Period size: 163 Copynumber: 2.3 Consensus size: 159
1547676 CACAAGTTTA
** * * * * * *
1547686 TAGCGGCGTTTTTACAAAAACGCCACTATATATCTGGGCTATTGCGGCGTTTTATACATAAACGC
1 TAGCGGCGTTTGCACAAAAACGCCAATATATAT-TTGGATATCGCGGCGTTTTATACAAAAACAC
* *
1547751 CACTAAAGTACATGTTTTTAGCGGCGTTAAAACGCCGCTATATATTCGGATATTGCGGAGCTTTT
65 CACTAAAGTACATGATTTTAGCGGCGTTAAAACACCGCTATATATTCGGATATTGCGGAGCTTTT
*
1547816 TTACATAAATGCCACTAAAGTACGCATTTT
130 TTACATAAATGCCACTAAAGTACACATTTT
* * * * *
1547846 TAGCGGCGTTTGCACAAAAACGCCATTATATATTTAGATATCGCGGCG-TTTGTCCAAAAATACC
1 TAGCGGCGTTTGCACAAAAACGCCAATATATATTTGGATATCGCGGCGTTTTATACAAAAACACC
* *
1547910 ACTAAAGTACATGATTTTAGCGGCGTTTTTGTGAAAACACCGCTATATATTTGGATATTGCGGCG
66 ACTAAAGTACATGATTTTAGCGGCG----T-T-AAAACACCGCTATATATTCGGATATTGCGGAG
1547975 -TTTTTTACATAAATGCCACTAAAGTACACATTTT
125 CTTTTTTACATAAATGCCACTAAAGTACACATTTT
1548009 TAGCGGCGTTTGCACAAAAACGCCAATATATATTTGGATA
1 TAGCGGCGTTTGCACAAAAACGCCAATATATATTTGGATA
1548049 AACGCCGCTA
Statistics
Matches: 178, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
158 35 0.20
159 11 0.06
160 30 0.17
162 1 0.01
163 72 0.40
164 29 0.16
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (159 bp):
TAGCGGCGTTTGCACAAAAACGCCAATATATATTTGGATATCGCGGCGTTTTATACAAAAACACC
ACTAAAGTACATGATTTTAGCGGCGTTAAAACACCGCTATATATTCGGATATTGCGGAGCTTTTT
TACATAAATGCCACTAAAGTACACATTTT
Found at i:1548029 original size:82 final size:82
Alignment explanation
Indices: 1547686--1548048 Score: 391
Period size: 81 Copynumber: 4.5 Consensus size: 82
1547676 CACAAGTTTA
** * * * *
1547686 TAGCGGCGTTTTTACAAAAACGCCACTATATATCTGGGCTATTGCGGCGTTTTATACATAAACGC
1 TAGCGGCGTTTGCACAAAAACGCCACTATATAT-TTGGATATTGCGGCGTTTTTTACATAAATGC
**
1547751 CACTAAAGTACATGTTTT
65 CACTAAAGTACACATTTT
* * *
1547769 TAGCGGCG-TT-----AAAACGCCGCTATATATTCGGATATTGCGGAGCTTTTTTACATAAATGC
1 TAGCGGCGTTTGCACAAAAACGCCACTATATATTTGGATATTGCGGCG-TTTTTTACATAAATGC
*
1547828 CACTAAAGTACGCATTTT
65 CACTAAAGTACACATTTT
* * * * * * *
1547846 TAGCGGCGTTTGCACAAAAACGCCATTATATATTTAGATATCGCGGCG-TTTGTCCAAAAATACC
1 TAGCGGCGTTTGCACAAAAACGCCACTATATATTTGGATATTGCGGCGTTTTTTACATAAATGCC
*
1547910 ACTAAAGTACATGA-TTT
66 ACTAAAGTACA-CATTTT
***** * *
1547927 TAGCGGCGTTTTTGTGAAAACACCGCTATATATTTGGATATTGCGGCGTTTTTTACATAAATGCC
1 TAGCGGCGTTTGCACAAAAACGCCACTATATATTTGGATATTGCGGCGTTTTTTACATAAATGCC
1547992 ACTAAAGTACACATTTT
66 ACTAAAGTACACATTTT
*
1548009 TAGCGGCGTTTGCACAAAAACGCCAATATATATTTGGATA
1 TAGCGGCGTTTGCACAAAAACGCCACTATATATTTGGATA
1548049 AACGCCGCTA
Statistics
Matches: 226, Mismatches: 44, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
76 12 0.05
77 53 0.23
78 2 0.01
81 64 0.28
82 61 0.27
83 34 0.15
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (82 bp):
TAGCGGCGTTTGCACAAAAACGCCACTATATATTTGGATATTGCGGCGTTTTTTACATAAATGCC
ACTAAAGTACACATTTT
Found at i:1549483 original size:22 final size:21
Alignment explanation
Indices: 1549454--1549500 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
1549444 CATACCCGAA
* *
1549454 ATATCATTAATGTTAAATATC
1 ATATCATTAATGGTAAACATC
*
1549475 ATATACATTCATGGTAAACATC
1 ATAT-CATTAATGGTAAACATC
1549497 ATAT
1 ATAT
1549501 GTAACGTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (21 bp):
ATATCATTAATGGTAAACATC
Found at i:1549650 original size:15 final size:15
Alignment explanation
Indices: 1549630--1549668 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
1549620 CCTACCCAAT
1549630 GATGTATAAAACATC
1 GATGTATAAAACATC
1549645 GATGTATAAAACATC
1 GATGTATAAAACATC
1549660 GATGTATAA
1 GATGTATAA
1549669 TGTTATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (15 bp):
GATGTATAAAACATC
Found at i:1566811 original size:2 final size:2
Alignment explanation
Indices: 1566799--1566831 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1566789 TATTTTAGAA
1566799 AT AT A- 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
1566832 TTATTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1566845 original size:68 final size:67
Alignment explanation
Indices: 1566755--1566888 Score: 162
Period size: 68 Copynumber: 2.0 Consensus size: 67
1566745 TACATGTTCA
* ** * *
1566755 ATATATATAATATATATTTATTTCAAAATCTTTATA-TTTTAGAAATATAATATATATATATATA
1 ATATATATAATATATATTTATTTCAAAAACGATACATTTTTA-AAATATAATATATATACATATA
1566819 TAT
65 TAT
* * * *
1566822 ATATATATATTTATTTATTTATTTTAAAAACGATACATTTTTAAAATATAATATCTATACATATA
1 ATATATATA-ATATATATTTATTTCAAAAACGATACATTTTTAAAATATAATATATATACATATA
1566887 TA
65 TA
1566889 ATTAAAACTA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
67 9 0.16
68 42 0.75
69 5 0.09
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (67 bp):
ATATATATAATATATATTTATTTCAAAAACGATACATTTTTAAAATATAATATATATACATATAT
AT
Found at i:1566894 original size:45 final size:45
Alignment explanation
Indices: 1566848--1566933 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 45
1566838 ATTTATTTTA
* *
1566848 AAAACGATACATTTTTAAAATATA-ATATCTATACATATATAATT
1 AAAACGATACATTTTCAAAATATATATATATATACATATATAATT
* * * *
1566892 AAAACTATATATTTTCAATATATATATATATATATATATATA
1 AAAACGATACATTTTCAAAATATATATATATATACATATATA
1566934 TATAATCTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
44 20 0.57
45 15 0.43
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (45 bp):
AAAACGATACATTTTCAAAATATATATATATATACATATATAATT
Found at i:1566914 original size:2 final size:2
Alignment explanation
Indices: 1566909--1566937 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1566899 TATATTTTCA
1566909 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1566938 ATCTTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1567306 original size:2 final size:2
Alignment explanation
Indices: 1567299--1567366 Score: 122
Period size: 2 Copynumber: 35.0 Consensus size: 2
1567289 ATAAATCATA
1567299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1567339 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
1567367 TAGATTTAAG
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 62 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1572971 original size:21 final size:21
Alignment explanation
Indices: 1572945--1572989 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1572935 GATTTCTGGG
* *
1572945 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1572966 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1572987 CAA
1 CAA
1572990 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1573464 original size:20 final size:20
Alignment explanation
Indices: 1573419--1573456 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1573409 TGAATATGTG
* *
1573419 ATATGTTATGATGATAAACC
1 ATATGATATGATAATAAACC
1573439 ATATGATATGATAATAAA
1 ATATGATATGATAATAAA
1573457 TTATATGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (20 bp):
ATATGATATGATAATAAACC
Found at i:1574710 original size:23 final size:23
Alignment explanation
Indices: 1574651--1574710 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
1574641 ACATTATTAT
* *
1574651 ATGGCACTACGGTATAATTCTAC
1 ATGGCACTTCGGTGTAATTCTAC
* *
1574674 ACGGAACTAT-GGTGTAATTCTAC
1 ATGGCACT-TCGGTGTAATTCTAC
*
1574697 GTGGCACTTCGGTG
1 ATGGCACTTCGGTG
1574711 CATTTATATG
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (23 bp):
ATGGCACTTCGGTGTAATTCTAC
Found at i:1577045 original size:77 final size:77
Alignment explanation
Indices: 1576959--1577115 Score: 314
Period size: 77 Copynumber: 2.0 Consensus size: 77
1576949 AATCACTTAG
1576959 TATATAAAAAAGGGGTGTTATGTGAAATGACATATTAGGTCGGGTGATGACATGCACATATTCAG
1 TATATAAAAAAGGGGTGTTATGTGAAATGACATATTAGGTCGGGTGATGACATGCACATATTCAG
1577024 AAATATAATTTA
66 AAATATAATTTA
1577036 TATATAAAAAAGGGGTGTTATGTGAAATGACATATTAGGTCGGGTGATGACATGCACATATTCAG
1 TATATAAAAAAGGGGTGTTATGTGAAATGACATATTAGGTCGGGTGATGACATGCACATATTCAG
1577101 AAATATAATTTA
66 AAATATAATTTA
1577113 TAT
1 TAT
1577116 GTACATTGTA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.32
Consensus pattern (77 bp):
TATATAAAAAAGGGGTGTTATGTGAAATGACATATTAGGTCGGGTGATGACATGCACATATTCAG
AAATATAATTTA
Found at i:1578460 original size:13 final size:13
Alignment explanation
Indices: 1578442--1578509 Score: 77
Period size: 13 Copynumber: 5.4 Consensus size: 13
1578432 GCTGCAAATG
*
1578442 TAATAAATAATAT
1 TAATAAATAATAA
1578455 TAATAAA-AATAA
1 TAATAAATAATAA
* *
1578467 CAAT-AATAACAA
1 TAATAAATAATAA
*
1578479 TAATTAATAATAA
1 TAATAAATAATAA
*
1578492 TAATATATAATAA
1 TAATAAATAATAA
1578505 TAATA
1 TAATA
1578510 TTTTTTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
11 2 0.04
12 14 0.30
13 30 0.65
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
TAATAAATAATAA
Found at i:1578489 original size:3 final size:3
Alignment explanation
Indices: 1578442--1578509 Score: 73
Period size: 3 Copynumber: 21.7 Consensus size: 3
1578432 GCTGCAAATG
* * * *
1578442 TAA TAAA TAA TAT TAA TAA AAA TAA CAA TAA TAA CAA TAA TTAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
1578489 TAA TAA TATA TAA TAA TAA TA
1 TAA TAA TA-A TAA TAA TAA TA
1578510 TTTTTTAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
3 45 0.83
4 9 0.17
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1581487 original size:51 final size:52
Alignment explanation
Indices: 1581354--1581545 Score: 262
Period size: 52 Copynumber: 3.7 Consensus size: 52
1581344 CATCCTAACC
* * * * * *
1581354 TTTTCATGTTGATGTGAGCCTTCAAGATGCCCCACATGGA-TAATATATGTCT
1 TTTTCATGCTGATGTGAACCTTCAAGATGCCTCACATGGATTACT-TCTATCT
* *
1581406 TTTTCATGCTGATGTGAACCTTCAACATGCCTCATATGGATTACTTCTATCT
1 TTTTCATGCTGATGTGAACCTTCAAGATGCCTCACATGGATTACTTCTATCT
*
1581458 TTTT-ATGCTGAAGTGAACCTTCAAGATGCCTCACATGGATTACTTCTATCT
1 TTTTCATGCTGATGTGAACCTTCAAGATGCCTCACATGGATTACTTCTATCT
* *
1581509 TTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACAT
1 TTTTCATGCTGATGTGAACCTTCAAGATGCCTCACAT
1581546 AGATAATATA
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
51 48 0.39
52 73 0.59
53 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (52 bp):
TTTTCATGCTGATGTGAACCTTCAAGATGCCTCACATGGATTACTTCTATCT
Found at i:1581532 original size:103 final size:103
Alignment explanation
Indices: 1581353--1581539 Score: 268
Period size: 103 Copynumber: 1.8 Consensus size: 103
1581343 ACATCCTAAC
* * * *
1581353 CTTTTCATGTTGATGTGAGCCTTCAAGATGCCCCACATGGATAATATATGTCTTTTTCATGCTGA
1 CTTTTCATGCTGAAGTGAACCTTCAAGATGCCCCACATGGATAATATATATCTTTTTCATGCTGA
1581418 TGTGAACCTTCAACATGCCTCATATGGATTACTTCTAT
66 TGTGAACCTTCAACATGCCTCATATGGATTACTTCTAT
* * * *
1581456 CTTTTTATGCTGAAGTGAACCTTCAAGATGCCTCACATGGATTACT-TCTATCTTTTTCATGCTG
1 CTTTTCATGCTGAAGTGAACCTTCAAGATGCCCCACATGGA-TAATATATATCTTTTTCATGCTG
* *
1581520 ATGTGAGCCTTCAAGATGCC
65 ATGTGAACCTTCAACATGCC
1581540 CCACATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
103 70 0.96
104 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (103 bp):
CTTTTCATGCTGAAGTGAACCTTCAAGATGCCCCACATGGATAATATATATCTTTTTCATGCTGA
TGTGAACCTTCAACATGCCTCATATGGATTACTTCTAT
Found at i:1582853 original size:5 final size:5
Alignment explanation
Indices: 1582832--1582925 Score: 82
Period size: 5 Copynumber: 17.4 Consensus size: 5
1582822 TTGTTTCAAA
* *
1582832 TTCTT TTTTT CTTCTT TTCTT TTCTT TTCTT TTCTTT TATCTT TTTTT
1 TTCTT TTCTT -TTCTT TTCTT TTCTT TTCTT TTC-TT T-TCTT TTCTT
*
1582880 TTCTTT TTCTT TTATT TTCTTT TTCCTTT TTCTT TATC-T TTCTT TT
1 TTC-TT TTCTT TTCTT TTC-TT TT-C-TT TTCTT T-TCTT TTCTT TT
1582926 TTTCCCGATA
Statistics
Matches: 75, Mismatches: 6, Indels: 16
0.77 0.06 0.16
Matches are distributed among these distances:
4 2 0.03
5 43 0.57
6 22 0.29
7 8 0.11
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (5 bp):
TTCTT
Found at i:1582877 original size:23 final size:23
Alignment explanation
Indices: 1582832--1582927 Score: 89
Period size: 23 Copynumber: 4.4 Consensus size: 23
1582822 TTGTTTCAAA
* *
1582832 TTCTTTTTT-TCTTCTTTTCT-T
1 TTCTTTTTTCTTTTCTTTTATCT
*
1582853 TTCTTTTCT-TTT-CTTTTATCT
1 TTCTTTTTTCTTTTCTTTTATCT
1582874 TT-TTTTTTCTTTTTCTTTTAT-T
1 TTCTTTTTTC-TTTTCTTTTATCT
*
1582896 TTCTTTTTCCTTTT-TCTTTATCT
1 TTCTTTTTTCTTTTCT-TTTATCT
1582919 TTCTTTTTT
1 TTCTTTTTT
1582928 TCCCGATAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
20 11 0.18
21 14 0.23
22 15 0.24
23 22 0.35
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (23 bp):
TTCTTTTTTCTTTTCTTTTATCT
Found at i:1582898 original size:33 final size:33
Alignment explanation
Indices: 1582846--1582925 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
1582836 TTTTTTCTTC
*
1582846 TTTTC-TTTTCTTTTCTTTTCTTTTAT-CTTTTT
1 TTTTCTTTTTCTTTTATTTTCTTTT-TCCTTTTT
1582878 TTTTCTTTTTCTTTTATTTTCTTTTTCCTTTTT
1 TTTTCTTTTTCTTTTATTTTCTTTTTCCTTTTT
* * *
1582911 CTTTATCTTTCTTTT
1 TTTTCTTTTTCTTTT
1582926 TTTCCCGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
32 6 0.14
33 36 0.86
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (33 bp):
TTTTCTTTTTCTTTTATTTTCTTTTTCCTTTTT
Found at i:1582904 original size:16 final size:16
Alignment explanation
Indices: 1582832--1582920 Score: 101
Period size: 16 Copynumber: 5.4 Consensus size: 16
1582822 TTGTTTCAAA
1582832 TTCTTTTT-TTCTTCTT
1 TTCTTTTTCTT-TTCTT
1582848 TTC-TTTTCTTTTCTT
1 TTCTTTTTCTTTTCTT
*
1582863 TTCTTTTATCTTTTTTT
1 TTCTTTT-TCTTTTCTT
*
1582880 TTCTTTTTCTTTTATT
1 TTCTTTTTCTTTTCTT
1582896 TTCTTTTTCCTTTTTCTT
1 TTCTTTTT-C-TTTTCTT
1582914 TATCTTT
1 T-TCTTT
1582921 CTTTTTTTCC
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
15 12 0.19
16 24 0.38
17 16 0.25
18 7 0.11
19 5 0.08
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTCTTTTTCTTTTCTT
Found at i:1585139 original size:11 final size:11
Alignment explanation
Indices: 1585123--1585157 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
1585113 TATTTCTTTA
1585123 TTTCTCATTTC
1 TTTCTCATTTC
1585134 TTTCTCATTTC
1 TTTCTCATTTC
1585145 TTTCTCA-TTC
1 TTTCTCATTTC
1585155 TTT
1 TTT
1585158 AGCATCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTCTCATTTC
Found at i:1587354 original size:27 final size:27
Alignment explanation
Indices: 1587295--1587346 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1587285 TTGAAAAATG
* *
1587295 ACACAAACAAAAGAAATAAGTTAGTGT
1 ACACAAACAAAAGAAAAAAATTAGTGT
1587322 ACACAAACAAAAGAAAAAAATTAGT
1 ACACAAACAAAAGAAAAAAATTAGT
1587347 TAATACAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.15
Consensus pattern (27 bp):
ACACAAACAAAAGAAAAAAATTAGTGT
Found at i:1590259 original size:3 final size:3
Alignment explanation
Indices: 1590212--1590283 Score: 72
Period size: 3 Copynumber: 22.7 Consensus size: 3
1590202 CCTGCAAATG
* * * *
1590212 TAA TAAA TAA TAT TAA TAA AAA TAA CAA TAA TAA CAA TAA TTAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
1590259 TAA TAA TATA TATA TAA TAA TAA TA
1 TAA TAA TA-A TA-A TAA TAA TAA TA
1590284 TTTTTTAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 45 0.78
4 13 0.22
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1593645 original size:20 final size:21
Alignment explanation
Indices: 1593614--1593658 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1593604 ATTTATATAT
1593614 TTTCATTTTTCA-ATCATTTTC
1 TTTCATTTTTCACATC-TTTTC
*
1593635 TTTCA-TTTTCACTTCTTTTC
1 TTTCATTTTTCACATCTTTTC
1593655 TTTC
1 TTTC
1593659 TTTATACCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTCATTTTTCACATCTTTTC
Found at i:1597109 original size:213 final size:211
Alignment explanation
Indices: 1596709--1597272 Score: 763
Period size: 213 Copynumber: 2.6 Consensus size: 211
1596699 TGCTCATATT
* *
1596709 ATCTTCTAAGTTAAAAGTTTTAACTTTATGAGTGAGTTATCATTCAAATCGTAACATTGTTGAGT
1 ATCTTCTAAGTTAAAAGCTTTAACTTTATGAGTGAGTTATCATTCAAATCGTGACATTGTTGAGT
* *
1596774 CACCCAACAATTCTGTGTTTGCTCCACTGTGGTTGTCGAGTCAAAATACAGTGTGATGAGATGAA
66 CACCC-ATAATT-TGTGTTTGCTCCACTGTGGTTGTCGAGTCAAAAGACAGTGTGATGAGATGAA
* ** * * * *
1596839 CCCTTAGGTTGAAAAAAGGGGCGCGGGGCACTCCGCTAAAGTGACAGATTGAGTAGCTAAAGAGG
129 CCCCTAGGTTGAAAAAAAAGGCGCGCGACACTCCACTAAAGTGACAGATTAAGTAGCTAAAGAGG
*
1596904 TAGTTGTTTTCTCCAACC
194 TAGTTATTTTCTCCAACC
* *
1596922 ATCTTCTAAGCTAAAAGCTTTAACTTTATGAGTGAGTTATCATTCAAATCATGACATTGTTGAGT
1 ATCTTCTAAGTTAAAAGCTTTAACTTTATGAGTGAGTTATCATTCAAATCGTGACATTGTTGAGT
* *
1596987 CACCTATTAATTTGGTGTTTACTCCACTGTGGTTGTCGAGTCAAAAGACAGTGTGATGAGATGAA
66 CACCCA-TAATTT-GTGTTTGCTCCACTGTGGTTGTCGAGTCAAAAGACAGTGTGATGAGATGAA
* * * * * *
1597052 CCCCTAGGTT-AAACAAAAAGGCTCGCGACACTCCACTGAGGTTACGGGA-TAAGTAGCTAAGGA
129 CCCCTAGGTTGAAA-AAAAAGGCGCGCGACACTCCACTAAAGTGAC-AGATTAAGTAGCTAAAGA
1597115 GGTAGTTATTTTCTCCAACC
192 GGTAGTTATTTTCTCCAACC
**
1597135 ATCTTCTAAGTTAAAAGCTTTAACTTTACAAGTGAGTTATCATTCAAATCGTGACATTGTTGAGT
1 ATCTTCTAAGTTAAAAGCTTTAACTTTATGAGTGAGTTATCATTCAAATCGTGACATTGTTGAGT
* * * * ** *
1597200 CACTCGATAATTTAGTGTTTGCTCCGCTGTAGTTGTCAAGTCAAAAGATTGTGTGATTAGATGAA
66 CAC-CCATAATTT-GTGTTTGCTCCACTGTGGTTGTCGAGTCAAAAGACAGTGTGATGAGATGAA
1597265 CCCCTAGG
129 CCCCTAGG
1597273 ACTAAAAAAA
Statistics
Matches: 311, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
212 5 0.02
213 302 0.97
214 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (211 bp):
ATCTTCTAAGTTAAAAGCTTTAACTTTATGAGTGAGTTATCATTCAAATCGTGACATTGTTGAGT
CACCCATAATTTGTGTTTGCTCCACTGTGGTTGTCGAGTCAAAAGACAGTGTGATGAGATGAACC
CCTAGGTTGAAAAAAAAGGCGCGCGACACTCCACTAAAGTGACAGATTAAGTAGCTAAAGAGGTA
GTTATTTTCTCCAACC
Found at i:1598576 original size:54 final size:54
Alignment explanation
Indices: 1597927--1598576 Score: 620
Period size: 54 Copynumber: 12.0 Consensus size: 54
1597917 AACATGAACC
* *
1597927 CAAATTTCCAAGACCGAGTAAGCTCTAGCTTTCCTTTATTATGGAGGAGTAGAG
1 CAAATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
* * ** * **
1597981 AAAATTTTCAAGACTAAGTAACCTCTAGGGTTCCTTTGTTATGGAGGAGTAGAG
1 CAAATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
* * ** * * * *
1598035 CGAATTTCTAAGAGTGAGTAAGTTCTAGCGTTCCTTTGTTATGGAGGAGTATAA
1 CAAATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
* * * * * *
1598089 CAAATTTTCAAGACCAAGTAAGCTCCAACATTCCTTTGTT-TCTGAAGAGTAGAG
1 CAAATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTAT-GGAGGAGTAGAG
** * * ** **
1598143 TGAATTTCCAAGATCGAATAAGCTCTAGTGTTCCTTTGTTATAAAGGAGTAGAG
1 CAAATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
* * * * *
1598197 AAAATTTCCAATATCGAGTAAGCTCTAGCATTCCTTTGTTATAGAGGAGAAGAG
1 CAAATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
* * * **
1598251 -AGAATTTCAAACACCGAGTAAGATCTAGTGTTCCTTTGTTATGGAGGAGTAGAG
1 CA-AATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
** * * * * *
1598305 TGAATTTCCAAGATCGAGTAAGCTCTAGCATTCCTTTGTTATAGAGAACTATAG
1 CAAATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
* * * * * *
1598359 CGAATTTCCAAGTCCAAGTAAGCTCTAGCGTTCTTTTGTTATGGAGGAATAGAG
1 CAAATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
* ** * *
1598413 CAAATTCCCAAGACTAAGTAAGCTCTAGCATTCCGTTGTTACGGAGGAGTAGAG
1 CAAATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
* ** ** * *
1598467 TAAATTTTTTAAGACTTAGAAAGCTCTAGCATTCCTTTGTCATGGAGGAGTAGAG
1 CAAA-TTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
* ** **
1598522 CAAATTTCCAAGGCCGAGCGAGCTCTAGCATTTGTTTGTTATGGAGGAGTAGAG
1 CAAATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
1598576 C
1 C
1598577 GCATTATTCA
Statistics
Matches: 479, Mismatches: 112, Indels: 10
0.80 0.19 0.02
Matches are distributed among these distances:
53 2 0.00
54 431 0.90
55 46 0.10
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (54 bp):
CAAATTTCCAAGACCGAGTAAGCTCTAGCATTCCTTTGTTATGGAGGAGTAGAG
Found at i:1599914 original size:18 final size:18
Alignment explanation
Indices: 1599891--1599926 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1599881 GAAATTTGTT
1599891 TTTGTCTTTTGAAAATTG
1 TTTGTCTTTTGAAAATTG
1599909 TTTGTCTTTTGAAAATTG
1 TTTGTCTTTTGAAAATTG
1599927 AGCCAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.17, T:0.56
Consensus pattern (18 bp):
TTTGTCTTTTGAAAATTG
Found at i:1605394 original size:26 final size:26
Alignment explanation
Indices: 1605329--1605394 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
1605319 TCCCATCCTT
* *
1605329 ATTTCA-TTTCATTCCTTATCTTTATC
1 ATTTCATTTTC-TTCCTTATATTAATC
*
1605355 ATTTCATTAATCTTCCTT-TATTAATC
1 ATTTCATT-TTCTTCCTTATATTAATC
1605381 ATTTTCATTTTCTT
1 A-TTTCATTTTCTT
1605395 ATCTATGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 17 0.52
27 14 0.42
28 2 0.06
ACGTcount: A:0.21, C:0.20, G:0.00, T:0.59
Consensus pattern (26 bp):
ATTTCATTTTCTTCCTTATATTAATC
Found at i:1613502 original size:102 final size:103
Alignment explanation
Indices: 1613325--1613520 Score: 288
Period size: 102 Copynumber: 1.9 Consensus size: 103
1613315 TTATCATTAG
* * * *
1613325 AGTGTATATCCAAGACACTTAGTGCAGGTGGTGGGCATGGCCTTATGTGTCATATTCAGTTTAGC
1 AGTGTATACCCAAGACACTTAGTGAAGGTGGTGGGCACGACCTTATGTGTCATATTCAGTTTAGC
*
1613390 ACTAGAGTGTATACCCAAGACACTTAGTGCAACACTAA
66 AATAGAGTGTATACCCAAGACACTTAGTGCAACACTAA
* * *
1613428 AGTGTATACCCAAGACATTTAGT-AAGGTGGTGGGCACGACCTTATGTGTCCTATTTTA-TTTAG
1 AGTGTATACCCAAGACACTTAGTGAAGGTGGTGGGCACGACCTTATGTGTCATA-TTCAGTTTAG
*
1613491 TAATAGAGTGTATACCCAAGACACTTAGTG
65 CAATAGAGTGTATACCCAAGACACTTAGTG
1613521 TGTATGGTGG
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
102 59 0.71
103 24 0.29
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (103 bp):
AGTGTATACCCAAGACACTTAGTGAAGGTGGTGGGCACGACCTTATGTGTCATATTCAGTTTAGC
AATAGAGTGTATACCCAAGACACTTAGTGCAACACTAA
Found at i:1618334 original size:21 final size:21
Alignment explanation
Indices: 1618308--1618464 Score: 119
Period size: 21 Copynumber: 7.6 Consensus size: 21
1618298 GTTTCTAGAT
*
1618308 TCGCAACGCGAACGTCGACTA
1 TCGCAATGCGAACGTCGACTA
* *
1618329 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACGTCGACTA
** *
1618350 TCGCAATGCGAATAT-GTA-AA
1 TCGCAATGCGAACGTCG-ACTA
*
1618370 TCGCAATGC-AATAGTCGACTA
1 TCGCAATGCGAA-CGTCGACTA
* *
1618391 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACGTCGACTA
** *
1618412 TCGCAATGCGAATAT-GTA-AA
1 TCGCAATGCGAACGTCG-ACTA
1618432 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACGTCGACTA
*
1618453 TCGCAATACGAA
1 TCGCAATGCGAA
1618465 TATGTAAATC
Statistics
Matches: 109, Mismatches: 18, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
19 2 0.02
20 29 0.27
21 76 0.70
22 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAACGTCGACTA
Found at i:1618405 original size:62 final size:62
Alignment explanation
Indices: 1618321--1618464 Score: 270
Period size: 62 Copynumber: 2.3 Consensus size: 62
1618311 CAACGCGAAC
1618321 GTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCAATA
1 GTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCAATA
*
1618383 GTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATA
1 GTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCAATA
*
1618445 GTCGACTATCGCAATACGAA
1 GTCGACTATCGCAATGCGAA
1618465 TATGTAAATC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (62 bp):
GTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCAATA
Found at i:1618435 original size:41 final size:42
Alignment explanation
Indices: 1618308--1618490 Score: 168
Period size: 41 Copynumber: 4.4 Consensus size: 42
1618298 GTTTCTAGAT
* * * *
1618308 TCGCAACGCGAACGTCGACTATCGCAATGCGAACT-TGGACTA
1 TCGCAATGCGAACTTCGACTATCGCAATGCGAA-TATGTACAA
* *
1618350 TCGCAATGCGAA-TAT-GTA-AATCGCAATGC-AATA-GTCGACTA
1 TCGCAATGCGAACT-TCG-ACTATCGCAATGCGAATATGT--ACAA
*
1618391 TCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTA-AA
1 TCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTACAA
* *
1618432 TCGCAATGCGATA-GTCGACTATCGCAATACGAATATGTA-AA
1 TCGCAATGCGA-ACTTCGACTATCGCAATGCGAATATGTACAA
1618473 TCGCAATGCGAACTTCGA
1 TCGCAATGCGAACTTCGA
1618491 TTGTCGCGTT
Statistics
Matches: 119, Mismatches: 10, Indels: 25
0.77 0.06 0.16
Matches are distributed among these distances:
39 2 0.02
40 3 0.03
41 81 0.68
42 27 0.23
43 4 0.03
44 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (42 bp):
TCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTACAA
Found at i:1618606 original size:6 final size:6
Alignment explanation
Indices: 1618595--1618625 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
1618585 GACACGTATA
1618595 ACCACG ACCACG ACCACG ACCACG ACC-CG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG AC
1618626 TCGAGACGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1619159 original size:12 final size:12
Alignment explanation
Indices: 1619132--1619164 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1619122 GTCTCGTCTC
1619132 GGGTCG-GGTCG
1 GGGTCGTGGTCG
1619143 GGGTCGTGGTCG
1 GGGTCGTGGTCG
*
1619155 TGGTCGTGGT
1 GGGTCGTGGT
1619165 AATACTTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.00, C:0.15, G:0.58, T:0.27
Consensus pattern (12 bp):
GGGTCGTGGTCG
Found at i:1619280 original size:21 final size:20
Alignment explanation
Indices: 1619254--1619306 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
1619244 TTTGAAATAA
1619254 ATCGCAACGCGAACTTCGACT
1 ATCGCAA-GCGAACTTCGACT
* *
1619275 ATCGCAA-CGAATTTGGACT
1 ATCGCAAGCGAACTTCGACT
1619294 ATCGCAATGCGAA
1 ATCGCAA-GCGAA
1619307 TATGTAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 17 0.61
21 11 0.39
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (20 bp):
ATCGCAAGCGAACTTCGACT
Found at i:1619340 original size:21 final size:21
Alignment explanation
Indices: 1619254--1619346 Score: 86
Period size: 21 Copynumber: 4.6 Consensus size: 21
1619244 TTTGAAATAA
* *
1619254 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTGGACT
*
1619275 ATCGCAA--CGAATTTGGACT
1 ATCGCAATGCGAACTTGGACT
* *
1619294 ATCGCAATGCGAA-TATGTA-A
1 ATCGCAATGCGAACT-TGGACT
*
1619314 ATCGCAATGTGAACTTGGACT
1 ATCGCAATGCGAACTTGGACT
*
1619335 ATCGCATTGCGA
1 ATCGCAATGCGA
1619347 TTTACATAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
19 17 0.29
20 16 0.28
21 25 0.43
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (21 bp):
ATCGCAATGCGAACTTGGACT
Found at i:1619360 original size:20 final size:20
Alignment explanation
Indices: 1619335--1619490 Score: 124
Period size: 20 Copynumber: 7.7 Consensus size: 20
1619325 AACTTGGACT
1619335 ATCGCATTGCGATTTACATA
1 ATCGCATTGCGATTTACATA
1619355 ATCGCATTGCGATTTACATA
1 ATCGCATTGCGATTTACATA
* *
1619375 TTCGCATTGCGATAGT-CGACT-
1 ATCGCATTGCGAT-TTAC-A-TA
*
1619396 ATCGCATTGCGATTTATATA
1 ATCGCATTGCGATTTACATA
* * *
1619416 TTCGCATTGCGATAGTCCA-A
1 ATCGCATTGCGAT-TTACATA
* *
1619436 GTTCGCATTGCGATAGT-CGACT-
1 -ATCGCATTGCGAT-TTAC-A-TA
1619458 ATCGCATTGCGATTTACATA
1 ATCGCATTGCGATTTACATA
*
1619478 TTCGCATTGCGAT
1 ATCGCATTGCGAT
1619491 AGTCCAAGTT
Statistics
Matches: 112, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
19 2 0.02
20 63 0.56
21 46 0.41
22 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATTTACATA
Found at i:1619400 original size:41 final size:42
Alignment explanation
Indices: 1619355--1619449 Score: 149
Period size: 41 Copynumber: 2.3 Consensus size: 42
1619345 GATTTACATA
*
1619355 ATCGCATTGCGATTTACATATTCGCATTGCGATAGT-CGACT
1 ATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACT
* *
1619396 ATCGCATTGCGATTTATATATTCGCATTGCGATAGTCCAAGT
1 ATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACT
1619438 -TCGCATTGCGAT
1 ATCGCATTGCGAT
1619450 AGTCGACTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 47 0.94
42 3 0.06
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (42 bp):
ATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACT
Found at i:1619402 original size:21 final size:21
Alignment explanation
Indices: 1619376--1619494 Score: 106
Period size: 21 Copynumber: 5.8 Consensus size: 21
1619366 ATTTACATAT
1619376 TCGCATTGCGATAGTCGACTA
1 TCGCATTGCGATAGTCGACTA
* **
1619397 TCGCATTGCGAT-TTATA-TA
1 TCGCATTGCGATAGTCGACTA
* *
1619416 TTCGCATTGCGATAGTCCAAGT-
1 -TCGCATTGCGATAGT-CGACTA
1619438 TCGCATTGCGATAGTCGACTA
1 TCGCATTGCGATAGTCGACTA
*
1619459 TCGCATTGCGAT--T-TACATA
1 TCGCATTGCGATAGTCGAC-TA
1619478 TTCGCATTGCGATAGTC
1 -TCGCATTGCGATAGTC
1619495 CAAGTTTGCA
Statistics
Matches: 79, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.03
19 5 0.06
20 29 0.37
21 40 0.51
22 2 0.03
23 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGACTA
Found at i:1619468 original size:62 final size:62
Alignment explanation
Indices: 1619331--1619506 Score: 284
Period size: 62 Copynumber: 2.9 Consensus size: 62
1619321 TGTGAACTTG
* * *
1619331 GACTATCGCATTGCGATTTACATAATCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTC
*
1619392 GACTATCGCATTGCGATTTATATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
*
1619454 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTTGCATT
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATT
1619507 TTTGGTCAAT
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
61 36 0.34
62 71 0.66
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (62 bp):
GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
Found at i:1619494 original size:41 final size:42
Alignment explanation
Indices: 1619331--1619490 Score: 133
Period size: 41 Copynumber: 3.9 Consensus size: 42
1619321 TGTGAACTTG
* *
1619331 GACTA-TCGCATTGCGAT-TTACATAATCGCATTGCGAT-T-
1 GACTATTCGCATTGCGATAGTACATATTCGCATTGCGATGTC
* * *
1619369 TACATATTCGCATTGCGATAGT-CGACTA-TCGCATTGCGATTTA
1 GAC-TATTCGCATTGCGATAGTAC-A-TATTCGCATTGCGATGTC
* *
1619412 TA-TATTCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTC
1 GACTATTCGCATTGCGATAGTACATA-TTCGCATTGCGAT-GTC
*
1619454 GACTA-TCGCATTGCGAT-TTACATATTCGCATTGCGAT
1 GACTATTCGCATTGCGATAGTACATATTCGCATTGCGAT
1619491 AGTCCAAGTT
Statistics
Matches: 102, Mismatches: 7, Indels: 23
0.77 0.05 0.17
Matches are distributed among these distances:
38 2 0.02
39 3 0.03
40 13 0.13
41 61 0.60
42 19 0.19
43 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (42 bp):
GACTATTCGCATTGCGATAGTACATATTCGCATTGCGATGTC
Found at i:1619627 original size:20 final size:20
Alignment explanation
Indices: 1619602--1619812 Score: 210
Period size: 20 Copynumber: 10.4 Consensus size: 20
1619592 TAAAAATTAT
1619602 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
1619622 GTTGCGATTTTACGTAT-TGTC
1 GTTGCGA-TTTACGGATACG-C
1619643 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * * * *
1619663 ATTGTGATTTACGTATTCTC
1 GTTGCGATTTACGGATACGC
**
1619683 GTTGCGATTTATAGATACGC
1 GTTGCGATTTACGGATACGC
** * *
1619703 GTTGCGATTTACATATTCTC
1 GTTGCGATTTACGGATACGC
1619723 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
1619743 GTTGGGATTTTACGTAT-TGTC
1 GTTGCGA-TTTACGGATACG-C
1619764 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1619784 GTTGCGATTTTACGGATACTC
1 GTTGCGA-TTTACGGATACGC
1619805 GTTGCGAT
1 GTTGCGAT
1619813 AGTCAGAATC
Statistics
Matches: 153, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
20 101 0.66
21 52 0.34
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:1619659 original size:41 final size:41
Alignment explanation
Indices: 1619602--1619812 Score: 318
Period size: 41 Copynumber: 5.2 Consensus size: 41
1619592 TAAAAATTAT
*
1619602 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
* *
1619643 GTTGCGATTTACGGATACGCATTGTGA-TTTACGTATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
** *
1619683 GTTGCGATTTATAGATACGCGTTGCGA-TTTACATATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
* *
1619723 GTTGCGATTTACGGATACGCGTTGGGATTTTACGTATTGTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
* *
1619764 GTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
1619805 GTTGCGAT
1 GTTGCGAT
1619813 AGTCAGAATC
Statistics
Matches: 152, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 71 0.47
41 81 0.53
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (41 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
Found at i:1619844 original size:20 final size:20
Alignment explanation
Indices: 1619821--1619873 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1619811 ATAGTCAGAA
*
1619821 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
1619841 TCGCGTTGTGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
1619861 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1619874 CTGGAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Done.