Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 33
Found at i:4317573 original size:23 final size:24
Alignment explanation
Indices: 4317539--4317611 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 24
4317529 AATTAAAAAT
*
4317539 AAAG-TATGATAATCAAGAAATCA
1 AAAGATATAATAATCAAGAAATCA
*
4317562 AAAGATA-AATAACTTAA-AAAT--
1 AAAGATATAATAA-TCAAGAAATCA
*
4317583 AAAG-TATGATAATCAAGAAATCA
1 AAAGATATAATAATCAAGAAATCA
4317606 AAAGAT
1 AAAGAT
4317612 CTTCCTTGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
20 5 0.13
21 12 0.31
23 16 0.41
24 6 0.15
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.22
Consensus pattern (24 bp):
AAAGATATAATAATCAAGAAATCA
Found at i:4317603 original size:21 final size:21
Alignment explanation
Indices: 4317535--4317603 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
4317525 AAGAAATTAA
4317535 AAATAAAGTATGATAATCAAG
1 AAATAAAGTATGATAATCAAG
* *
4317556 AAATCAAAAG-ATAAATAACTTAA-
1 AAAT--AAAGTAT-GATAA-TCAAG
4317579 AAATAAAGTATGATAATCAAG
1 AAATAAAGTATGATAATCAAG
4317600 AAAT
1 AAAT
4317604 CAAAAGATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
20 3 0.08
21 16 0.42
22 4 0.11
23 12 0.32
24 3 0.08
ACGTcount: A:0.61, C:0.06, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAGTATGATAATCAAG
Found at i:4318548 original size:5 final size:5
Alignment explanation
Indices: 4318533--4318577 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
4318523 TTTTCACATC
* *
4318533 TTTTCA TTTTA TTTTA TTTTG TTTTA TTTTA GTTTA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4318578 TGTGGAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:4321154 original size:13 final size:15
Alignment explanation
Indices: 4321125--4321156 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
4321115 ACATAGTTTG
4321125 TATACAATATAAAAC
1 TATACAATATAAAAC
4321140 TATA-AATAT-AAAC
1 TATACAATATAAAAC
4321153 TATA
1 TATA
4321157 TAATTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 5 0.29
15 4 0.24
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (15 bp):
TATACAATATAAAAC
Found at i:4321156 original size:21 final size:19
Alignment explanation
Indices: 4321132--4321175 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
4321122 TTGTATACAA
4321132 TATAAAACTATAAATATAAAC
1 TATAAAA-T-TAAATATAAAC
* *
4321153 TATATAATTATATATAAAC
1 TATAAAATTAAATATAAAC
4321172 TATA
1 TATA
4321176 GTTTATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 1 0.05
21 6 0.29
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
TATAAAATTAAATATAAAC
Found at i:4321182 original size:26 final size:26
Alignment explanation
Indices: 4321153--4321225 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
4321143 AAATATAAAC
4321153 TATATAATTATATATAAACTATAGTT
1 TATATAATTATATATAAACTATAGTT
4321179 TATATAATT-TATTAATAAA-TATAGTT
1 TATATAATTATA-T-ATAAACTATAGTT
* *
4321205 CAT-T-AGTATATATAAACTATA
1 TATATAATTATATATAAACTATA
4321226 TATACTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
23 5 0.12
24 7 0.17
25 5 0.12
26 19 0.46
27 5 0.12
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (26 bp):
TATATAATTATATATAAACTATAGTT
Found at i:4321218 original size:2 final size:2
Alignment explanation
Indices: 4321211--4321371 Score: 57
Period size: 2 Copynumber: 78.0 Consensus size: 2
4321201 AGTTCATTAG
* * * *
4321211 TA TA TA TA AA CTA TA TA TA CTA TA TG TT TA CA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
4321255 -A TA TA TA GT- TA T- TA TGA AA CTA TA TA AA GTA TT TA TA T- TG
1 TA TA TA TA -TA TA TA TA T-A TA -TA TA TA TA -TA TA TA TA TA TA
* * *
4321295 TA GTA CTA TA TA TA TA TA AA CTA TA TA -A T- TA TA GTT TA TA TT
1 TA -TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA
*
4321337 TA TA TA T- TA TA TA TA TA AA CTA TA TA TA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA
4321372 ACTTACATAT
Statistics
Matches: 118, Mismatches: 23, Indels: 36
0.67 0.13 0.20
Matches are distributed among these distances:
1 7 0.06
2 95 0.81
3 16 0.14
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:4321316 original size:41 final size:40
Alignment explanation
Indices: 4321271--4321433 Score: 119
Period size: 41 Copynumber: 4.0 Consensus size: 40
4321261 AGTTATTATG
4321271 AAACTATATAA-AGTA-TTTATATTGTAGTACTA-TATATATAT
1 AAACTATATAATA-TAGTTTATATT-TA-TA-TATTATATATAT
4321312 AAACTATATAATTATAGTTTATATTTATATATTATATATAT
1 AAACTATATAA-TATAGTTTATATTTATATATTATATATAT
* * * *
4321353 AAACTATAT-ATACTA-TATA-ACTTACATATGA-ACTATAT
1 AAACTATATAATA-TAGTTTATATTTATATATTATA-TATAT
*
4321391 AAAACTATATATTATAGTTGATATATTTATACTA-TATA-ATAT
1 -AAACTATATAATATAGTT--TATATTTATA-TATTATATATAT
4321433 A
1 A
4321434 GTTTATACTT
Statistics
Matches: 99, Mismatches: 9, Indels: 28
0.73 0.07 0.21
Matches are distributed among these distances:
37 1 0.01
38 14 0.14
39 16 0.16
40 8 0.08
41 32 0.32
42 10 0.10
43 15 0.15
44 3 0.03
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (40 bp):
AAACTATATAATATAGTTTATATTTATATATTATATATAT
Found at i:4321317 original size:15 final size:15
Alignment explanation
Indices: 4321299--4321374 Score: 61
Period size: 13 Copynumber: 5.2 Consensus size: 15
4321289 ATATTGTAGT
4321299 ACTATATATATATAA
1 ACTATATATATATAA
*
4321314 ACTATATA-AT-TAT
1 ACTATATATATATAA
* * * *
4321327 AGTTTATATTTATAT
1 ACTATATATATATAA
4321342 A-T-TATATATATAA
1 ACTATATATATATAA
4321355 ACTATATATACTATATA
1 ACTATATATA-TATA-A
4321372 ACT
1 ACT
4321375 TACATATGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
13 18 0.37
14 5 0.10
15 18 0.37
16 4 0.08
17 4 0.08
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (15 bp):
ACTATATATATATAA
Found at i:4321353 original size:11 final size:10
Alignment explanation
Indices: 4321211--4321371 Score: 57
Period size: 11 Copynumber: 15.6 Consensus size: 10
4321201 AGTTCATTAG
*
4321211 TATATATAAA
1 TATATATATA
4321221 CTATATATACTA
1 -TATATATA-TA
* * *
4321233 TATGTTTACA
1 TATATATATA
4321243 TATATATATA
1 TATATATATA
4321253 TA-ATATATA
1 TATATATATA
4321262 GT-TAT-TATGA
1 -TATATATAT-A
* *
4321272 AACTATATAAA
1 TA-TATATATA
*
4321283 GTATTTATAT-
1 -TATATATATA
*
4321293 TGTAGTACTATA
1 TATA-TA-TATA
*
4321305 TATATATAAA
1 TATATATATA
4321315 CTATATA-AT-
1 -TATATATATA
*
4321324 TATAGTTTATA
1 TATA-TATATA
*
4321335 TTTATATAT-
1 TATATATATA
4321344 TATATATATA
1 TATATATATA
*
4321354 AACTATATATA
1 TA-TATATATA
4321365 CTATATA
1 -TATATA
4321372 ACTTACATAT
Statistics
Matches: 109, Mismatches: 23, Indels: 36
0.65 0.14 0.21
Matches are distributed among these distances:
8 4 0.04
9 21 0.19
10 27 0.25
11 49 0.45
12 8 0.07
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (10 bp):
TATATATATA
Found at i:4321440 original size:25 final size:26
Alignment explanation
Indices: 4321394--4321446 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
4321384 ACTATATAAA
* *
4321394 ACTATATATTATAGTTGATATATTTAT
1 ACTATATAATATAGTT-ATATACTTAT
4321421 ACTATATAATATAGTT-TATACTTAT
1 ACTATATAATATAGTTATATACTTAT
4321446 A
1 A
4321447 TAATTATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.38
27 15 0.62
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (26 bp):
ACTATATAATATAGTTATATACTTAT
Found at i:4321448 original size:20 final size:18
Alignment explanation
Indices: 4321411--4321450 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
4321401 ATTATAGTTG
4321411 ATATATTTATACTATATA
1 ATATATTTATACTATATA
4321429 ATATAGTTTATACTTATATA
1 ATATA-TTTATAC-TATATA
4321449 AT
1 AT
4321451 TATACTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.25
19 7 0.35
20 8 0.40
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (18 bp):
ATATATTTATACTATATA
Found at i:4321479 original size:33 final size:33
Alignment explanation
Indices: 4321411--4321480 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
4321401 ATTATAGTTG
* * *
4321411 ATATATTTATACTATATAATATAGTTTATACTT
1 ATATAATTATACTATATAATAAAGTATATACTT
4321444 ATATAATTATACTATA-AATTCAAAGTATATA-TT
1 ATATAATTATACTATATAA-T-AAAGTATATACTT
4321477 ATAT
1 ATAT
4321481 GTATGAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 2 0.06
33 22 0.69
34 8 0.25
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (33 bp):
ATATAATTATACTATATAATAAAGTATATACTT
Found at i:4321658 original size:20 final size:20
Alignment explanation
Indices: 4321613--4321778 Score: 68
Period size: 20 Copynumber: 8.3 Consensus size: 20
4321603 AACTATATGA
*
4321613 ACTATAGTTTTATATATACT
1 ACTATAGTTATATATATACT
*
4321633 ATCTATAGTTGATATATTTA-T
1 A-CTATAGTT-ATATATATACT
*
4321654 ACTATA-TTATGTATATAAACT
1 ACTATAGTTA--TATATATACT
* *
4321675 A-TATA-TTATTTAGTTTAC-
1 ACTATAGTTATATA-TATACT
* * *
4321693 A-TATGAATTATATAAAAACT
1 ACTAT-AGTTATATATATACT
4321713 A-TATA--TATATATATA-T
1 ACTATAGTTATATATATACT
4321729 ACTATAGTTTATATAAACTATA-T
1 ACTATAG-TTATAT--A-TATACT
4321752 ACTATAGTTGATATTATATACT
1 ACTATAGTT-ATA-TATATACT
4321774 A-TATA
1 ACTATA
4321779 ATAATTTATA
Statistics
Matches: 114, Mismatches: 13, Indels: 37
0.70 0.08 0.23
Matches are distributed among these distances:
16 2 0.02
17 12 0.11
18 8 0.07
19 9 0.08
20 34 0.30
21 20 0.18
22 13 0.11
23 15 0.13
24 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (20 bp):
ACTATAGTTATATATATACT
Found at i:4321902 original size:27 final size:27
Alignment explanation
Indices: 4321872--4321945 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
4321862 AGTATACTAA
4321872 ATATAAACTATATACTATATAATTTAC
1 ATATAAACTATATACTATATAATTTAC
* * * * *
4321899 ATATGAACTATATA-AAAAGTATTTTAT
1 ATATAAACTATATACTATA-TAATTTAC
*
4321926 ATATAAACTATCTACTATAT
1 ATATAAACTATATACTATAT
4321946 TTGATATTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
26 2 0.06
27 32 0.89
28 2 0.06
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (27 bp):
ATATAAACTATATACTATATAATTTAC
Found at i:4322897 original size:28 final size:27
Alignment explanation
Indices: 4322856--4322910 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
4322846 TAACATGCAA
4322856 ACTATAGTAAATACTAATTATATAATAT
1 ACTATAGTAAATACTAATTAT-TAATAT
4322884 ACTAT-GTAATATACTAATTATTAATAT
1 ACTATAGTAA-ATACTAATTATTAATAT
4322911 CAAATACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (27 bp):
ACTATAGTAAATACTAATTATTAATAT
Found at i:4323597 original size:13 final size:13
Alignment explanation
Indices: 4323581--4323605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4323571 GATTTATAAC
4323581 ATAAGAATCATAT
1 ATAAGAATCATAT
4323594 ATAAGAATCATA
1 ATAAGAATCATA
4323606 ATTAATATAA
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:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
ATAAGAATCATAT
Found at i:4323854 original size:16 final size:16
Alignment explanation
Indices: 4323809--4323854 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
4323799 CATTTACAGA
4323809 TCAGGTTGAAAACATG
1 TCAGGTTGAAAACATG
* * * *
4323825 TTATGTTCATAACATG
1 TCAGGTTGAAAACATG
4323841 TCAGGTTGAAAACA
1 TCAGGTTGAAAACA
4323855 AGTCGGGTAA
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (16 bp):
TCAGGTTGAAAACATG
Found at i:4337962 original size:26 final size:26
Alignment explanation
Indices: 4337897--4337963 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
4337887 AGGACCTCCA
* *
4337897 TTTTATATTTGACCAGTTTAGGACCAC
1 TTTTATATTTCA-AAGTTTAGGACCAC
*
4337924 -TTGATATTGTCAAAGTTTAGTGA-CAC
1 TTTTATATT-TCAAAGTTTAG-GACCAC
4337950 TTTTATATTTCAAA
1 TTTTATATTTCAAA
4337964 TTCACCAAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
26 22 0.67
27 11 0.33
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (26 bp):
TTTTATATTTCAAAGTTTAGGACCAC
Found at i:4341585 original size:3 final size:3
Alignment explanation
Indices: 4341577--4341603 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4341567 CACGGATAAC
4341577 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA
4341604 AACCCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:4351645 original size:34 final size:34
Alignment explanation
Indices: 4351591--4351667 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 34
4351581 AGTAGGTCAT
*
4351591 AAGTCATGTCA---TGAATAAATTTATTAATAAT
1 AAGTCATGTCATGGTGAATAAATTTATTAATAAA
*
4351622 AAGTTATGTCATGGTGAATAAATTTATTAATAAA
1 AAGTCATGTCATGGTGAATAAATTTATTAATAAA
4351656 AAGTCATGTCAT
1 AAGTCATGTCAT
4351668 TTGGTAATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
31 10 0.25
34 30 0.75
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (34 bp):
AAGTCATGTCATGGTGAATAAATTTATTAATAAA
Found at i:4355022 original size:25 final size:26
Alignment explanation
Indices: 4354975--4355024 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
4354965 AAATTTATTT
*
4354975 TTAAATTATCTAAAAATTCAATAAAA
1 TTAAATTATCTAAAAATTAAATAAAA
* *
4355001 TTAAATT-TTTAAAATTTAAATAAA
1 TTAAATTATCTAAAAATTAAATAAA
4355025 TTTAGTCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
TTAAATTATCTAAAAATTAAATAAAA
Found at i:4364406 original size:4 final size:4
Alignment explanation
Indices: 4364399--4364444 Score: 56
Period size: 4 Copynumber: 11.0 Consensus size: 4
4364389 TAAAAAAAAC
* *
4364399 TAAA TAAA TAAT TAAA TAAA TAAA TAAA TAGA TAAGA TAAGA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA-A TAA-A TAAA
4364445 GAAGAAAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
4 28 0.76
5 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:4364822 original size:11 final size:11
Alignment explanation
Indices: 4364803--4364834 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
4364793 AATAAAGGGG
*
4364803 AGGAGAGAAAA
1 AGGAAAGAAAA
4364814 AGGAAAGAAAA
1 AGGAAAGAAAA
4364825 AGGAAAGAAA
1 AGGAAAGAAA
4364835 GAAAAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (11 bp):
AGGAAAGAAAA
Found at i:4365731 original size:20 final size:20
Alignment explanation
Indices: 4365687--4365925 Score: 172
Period size: 20 Copynumber: 11.9 Consensus size: 20
4365677 AATGACCAAC
* **
4365687 AAAATCGCAATGCGAAACA-
1 AAAATCGCAACGCGATTCAG
*
4365706 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* * **
4365726 AAAATCGCAATGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
4365746 AAAATCGCAACG-G--TCAAAAG
1 AAAATCGCAACGCGATTC---AG
4365766 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* *
4365788 AGAATCGCAATGCGATTCA-
1 AAAATCGCAACGCGATTCAG
*
4365807 AAGAATCGCAACGCGATTGAG
1 AA-AATCGCAACGCGATTCAG
4365828 AAAATCGCAACGCGATTCCAG
1 AAAATCGCAACGCGATT-CAG
* * *
4365849 -GAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTCAG
4365868 AAAATCGCAACGCGATTCCAG
1 AAAATCGCAACGCGATT-CAG
* * *
4365889 -GAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTCAG
4365908 AAAATCGCAACGCGATTC
1 AAAATCGCAACGCGATTC
4365926 CAAGAATCGC
Statistics
Matches: 174, Mismatches: 29, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
18 1 0.01
19 22 0.13
20 126 0.72
21 9 0.05
22 13 0.07
23 1 0.01
25 1 0.01
26 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:4365844 original size:40 final size:40
Alignment explanation
Indices: 4365790--4365937 Score: 251
Period size: 40 Copynumber: 3.7 Consensus size: 40
4365780 ATCTTCCAAG
* * *
4365790 AATCGCAATGCGATTCAAAGAATCGCAACGCGATTGAGAA
1 AATCGCAACGCGATTCCAAGAATCGCAATGCGATTGAGAA
*
4365830 AATCGCAACGCGATTCCAGGAATCGCAATGCGATTGAGAA
1 AATCGCAACGCGATTCCAAGAATCGCAATGCGATTGAGAA
*
4365870 AATCGCAACGCGATTCCAGGAATCGCAATGCGATTGAGAA
1 AATCGCAACGCGATTCCAAGAATCGCAATGCGATTGAGAA
4365910 AATCGCAACGCGATTCCAAGAATCGCAA
1 AATCGCAACGCGATTCCAAGAATCGCAA
4365938 AACGGCAAAA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (40 bp):
AATCGCAACGCGATTCCAAGAATCGCAATGCGATTGAGAA
Found at i:4365876 original size:60 final size:61
Alignment explanation
Indices: 4365764--4365937 Score: 196
Period size: 60 Copynumber: 2.9 Consensus size: 61
4365754 AACGGTCAAA
4365764 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCAAAGAATCGCAACGCGATTG
1 AGAAAATCGCAACGCGA-CTTCCAAGAATCGCAATGCGATTCAAAGAATCGCAACGCGATTG
* * *
4365826 AGAAAATCGCAACGCGA-TTCCAGGAATCGCAATGCGATTGAGAA-AATCGCAACGCGATTCC
1 AGAAAATCGCAACGCGACTTCCAAGAATCGCAATGCGATTCA-AAGAATCGCAACGCGATT-G
* * * * * *
4365887 AG-GAATCGCAATGCGA-TT-GAGAAAATCGCAACGCGATTCCAAGAATCGCAA
1 AGAAAATCGCAACGCGACTTCCA-AGAATCGCAATGCGATTCAAAGAATCGCAA
4365938 AACGGCAAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
59 3 0.03
60 73 0.75
61 4 0.04
62 17 0.18
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (61 bp):
AGAAAATCGCAACGCGACTTCCAAGAATCGCAATGCGATTCAAAGAATCGCAACGCGATTG
Found at i:4366059 original size:6 final size:6
Alignment explanation
Indices: 4366048--4366086 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
4366038 GACACGTATT
4366048 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
4366087 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4366851 original size:6 final size:6
Alignment explanation
Indices: 4366840--4366896 Score: 114
Period size: 6 Copynumber: 9.5 Consensus size: 6
4366830 TCTCGTCTCG
4366840 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
4366888 GGTCGT GGT
1 GGTCGT GGT
4366897 AATACGTGTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:4367100 original size:60 final size:60
Alignment explanation
Indices: 4367020--4367222 Score: 264
Period size: 60 Copynumber: 3.3 Consensus size: 60
4367010 CGATTCTTGG
*
4367020 AATCGCATTGCGATTTTCTCAATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTCTC
*
4367080 AATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTATTGGAATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTCTC
* ** * * ***
4367140 GATCGCGTTGCGATTCTTCGAAGATCGCATTGCGATTCTTTGG-ATCGCATTGCGATTCTTGGA
1 AATCGCGTTGCGATT-TTCTCA-ATCGCGTTGCGATTC-TTGGAATCGCGTTGCGATT-TTCTC
4367203 AGATCGCGTTGCGATTTTCT
1 A-ATCGCGTTGCGATTTTCT
4367223 TTCGACCATT
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
60 72 0.58
61 4 0.03
62 26 0.21
63 9 0.07
64 14 0.11
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (60 bp):
AATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTCTC
Found at i:4367233 original size:42 final size:42
Alignment explanation
Indices: 4367081--4367238 Score: 191
Period size: 42 Copynumber: 3.8 Consensus size: 42
4367071 GATTTTCTCA
* * *
4367081 ATCGCGTTGCGATTTTCTCAATCGCGTTGCGATTATTGG-A-
1 ATCGCGTTGCGATTTTCTCGATCGCATTGCGATTCTTGGAAG
* *
4367121 ATCGCGTTGCGATTTTCTCGATCGCGTTGCGATTCTTCGAAG
1 ATCGCGTTGCGATTTTCTCGATCGCATTGCGATTCTTGGAAG
* *
4367163 ATCGCATTGCGATTCTT-TGGATCGCATTGCGATTCTTGGAAG
1 ATCGCGTTGCGATT-TTCTCGATCGCATTGCGATTCTTGGAAG
4367205 ATCGCGTTGCGATTTTCTTTCGA-C-CATTGCGATT
1 ATCGCGTTGCGATTTTC--TCGATCGCATTGCGATT
4367239 TTCTTTTCAA
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
40 36 0.35
41 3 0.03
42 58 0.56
43 3 0.03
44 3 0.03
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (42 bp):
ATCGCGTTGCGATTTTCTCGATCGCATTGCGATTCTTGGAAG
Found at i:4367272 original size:20 final size:20
Alignment explanation
Indices: 4367020--4367299 Score: 205
Period size: 20 Copynumber: 13.8 Consensus size: 20
4367010 CGATTCTTGG
* *
4367020 AATCGCATTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTA
**
4367040 AATCGCGTTGCGATTCTT-GG
1 AATCGCGTTGCGATT-TTCTA
*
4367060 AATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTA
*
4367080 AATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTA
**
4367100 AATCGCGTTGCGATTATT-GG
1 AATCGCGTTGCGATT-TTCTA
*
4367120 AATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTA
* *
4367140 GATCGCGTTGCGATTCTTCGA
1 AATCGCGTTGCGATT-TTCTA
* *
4367161 AGATCGCATTGCGATTCTT-TG
1 A-ATCGCGTTGCGATT-TTCTA
* * **
4367182 GATCGCATTGCGATTCTTGGA
1 AATCGCGTTGCGATT-TTCTA
4367203 AGATCGCGTTGCGATTTTCT-
1 A-ATCGCGTTGCGATTTTCTA
* *
4367223 -TTCGACCATTGCGATTTTCT-
1 AATCG--CGTTGCGATTTTCTA
** *
4367243 TTTCAACGTTGCGATTTTCTA
1 AATC-GCGTTGCGATTTTCTA
*
4367264 AATCGCGTTGCGATTTT-GA
1 AATCGCGTTGCGATTTTCTA
*
4367283 TATCGCGTTGCGATTTT
1 AATCGCGTTGCGATTTT
4367300 GTTGGTCATT
Statistics
Matches: 215, Mismatches: 32, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.01
19 21 0.10
20 148 0.69
21 14 0.07
22 29 0.13
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (20 bp):
AATCGCGTTGCGATTTTCTA
Found at i:4368634 original size:105 final size:105
Alignment explanation
Indices: 4368444--4369115 Score: 1112
Period size: 105 Copynumber: 6.4 Consensus size: 105
4368434 GTATTGTTCC
* *** * * *
4368444 GAGTCCAATATCCTCCACCGTGGAGTTGAAATTGGTTCTGGAACTGG-GAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAATGGAGAAA-TGTTTGTTGACA
*
4368508 ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4368550 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGTTGACAAC
*
4368615 CAGCGCTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
4368655 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAA-ATGTTTGTTGACAA
4368720 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4368761 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGTTGACAAC
*
4368826 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4368866 GGGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGGAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGTTGACAAC
4368931 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4368971 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATCGGCTCTGAAATTGAGAAATGTTTGTTGACAAT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGTTGACAAC
4369036 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4369076 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
4369116 GGTAAAACCT
Statistics
Matches: 532, Mismatches: 32, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
105 396 0.74
106 136 0.26
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:4368685 original size:211 final size:211
Alignment explanation
Indices: 4368444--4369115 Score: 1141
Period size: 211 Copynumber: 3.2 Consensus size: 211
4368434 GTATTGTTCC
* ** * * * *
4368444 GAGTCCAATATCCTCCACCGTGGAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
4368509 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
*
4368574 GTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAACCAGCGCTCCCTTCGTCGTGAAGTT
131 GTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
4368639 GAACTTGCGTTGTCTG
196 GAACTTGCGTTGTCTG
* * *
4368655 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
4368720 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
4368785 GTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 GTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
4368850 GAACTTGCGTTGTCGG
196 GAACTTGCGTTGTCTG
* *
4368866 GGGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGG-AA-TGTTTGTTGACA
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTG-GGAAATTGTTTGTTGACA
4368929 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
* * * *
4368994 AGTTGAAATCGGCTCTGAAATTGAGAAATGTTTGTTGACAATCAGCGGTCCCTTCGTCGTGAAGT
130 AGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGT
4369059 TGAACTTGCGTTGTCTG
195 TGAACTTGCGTTGTCTG
*
4369076 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTG
4369116 GGTAAAACCT
Statistics
Matches: 436, Mismatches: 24, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
210 192 0.44
211 243 0.56
212 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (211 bp):
GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTG
Found at i:4380802 original size:11 final size:11
Alignment explanation
Indices: 4380783--4380814 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
4380773 AATAAAGGGG
*
4380783 AGGAGAGAAAA
1 AGGAAAGAAAA
4380794 AGGAAAGAAAA
1 AGGAAAGAAAA
4380805 AGGAAAGAAA
1 AGGAAAGAAA
4380815 GAAAAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (11 bp):
AGGAAAGAAAA
Found at i:4381531 original size:54 final size:55
Alignment explanation
Indices: 4381449--4381554 Score: 205
Period size: 54 Copynumber: 1.9 Consensus size: 55
4381439 CAACGAAGGC
4381449 CGAAGCCGATTACACCCAACAAACCGAAATG-AACGAGGTAAAAATACCTTTTAT
1 CGAAGCCGATTACACCCAACAAACCGAAATGAAACGAGGTAAAAATACCTTTTAT
4381503 CGAAGCCGATTACACCCAACAAACCGAAATGAAACGAGGTAAAAATACCTTT
1 CGAAGCCGATTACACCCAACAAACCGAAATGAAACGAGGTAAAAATACCTTT
4381555 ATTGATGCTC
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 31 0.61
55 20 0.39
ACGTcount: A:0.43, C:0.25, G:0.15, T:0.17
Consensus pattern (55 bp):
CGAAGCCGATTACACCCAACAAACCGAAATGAAACGAGGTAAAAATACCTTTTAT
Found at i:4385166 original size:11 final size:11
Alignment explanation
Indices: 4385152--4385208 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
4385142 GCTTTTACAG
4385152 ATACATATTAA
1 ATACATATTAA
*
4385163 ATACTCATTTTAA
1 ATA--CATATTAA
4385176 ACT-CATATTAA
1 A-TACATATTAA
*
4385187 ATACATATTAG
1 ATACATATTAA
4385198 ATACATATTAA
1 ATACATATTAA
4385209 GTCGTACTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 1 0.03
11 28 0.74
13 8 0.21
14 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (11 bp):
ATACATATTAA
Found at i:4389383 original size:6 final size:6
Alignment explanation
Indices: 4389372--4389399 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4389362 TTTTAATCGT
4389372 ATGTAA ATGTAA ATGTAA ATGTAA ATGT
1 ATGTAA ATGTAA ATGTAA ATGTAA ATGT
4389400 CTAGTAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (6 bp):
ATGTAA
Found at i:4395434 original size:20 final size:20
Alignment explanation
Indices: 4395393--4395432 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
4395383 CATAAAATAC
4395393 AAAAAAAATAAATTACATTT
1 AAAAAAAATAAATTACATTT
*
4395413 AAAAAAAACTCAATTACATT
1 AAAAAAAA-TAAATTACATT
4395433 AATCAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAAAATAAATTACATTT
Found at i:4399580 original size:29 final size:29
Alignment explanation
Indices: 4399548--4399642 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
4399538 AAATTGGTCT
4399548 TTAAACTTTTGAATATTTTAATTTCATCC
1 TTAAACTTTTGAATATTTTAATTTCATCC
* * * * *
4399577 TTAAA-GTATGACTTCATTCTAAATT-AGTCC
1 TTAAACTTTTGA-AT-ATTTTAATTTCA-TCC
* *
4399607 TTAAACTTTTAAACATTTTAATTTCATCC
1 TTAAACTTTTGAATATTTTAATTTCATCC
*
4399636 CTAAACT
1 TTAAACT
4399643 ATGATTGTCT
Statistics
Matches: 48, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
28 4 0.08
29 24 0.50
30 17 0.35
31 3 0.06
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (29 bp):
TTAAACTTTTGAATATTTTAATTTCATCC
Found at i:4399629 original size:59 final size:60
Alignment explanation
Indices: 4399537--4399676 Score: 183
Period size: 59 Copynumber: 2.4 Consensus size: 60
4399527 ACCCTTAGTT
* * * * *
4399537 TAAATTGGTCTTTAAACTTTTGAATATTTTAATTTCATCCTTAAAGTATGACT-TCATTC
1 TAAATTGGTCCTTAAACTTTTAAACATTTTAATTTCATCCCTAAACTATGACTGTCATTC
* * *
4399596 TAAATTAGTCCTTAAACTTTTAAACATTTTAATTTCATCCCTAAACTATGATTGTCTTTC
1 TAAATTGGTCCTTAAACTTTTAAACATTTTAATTTCATCCCTAAACTATGACTGTCATTC
**
4399656 TAAATTGGTCCCCAAACTTTT
1 TAAATTGGTCCTTAAACTTTT
4399677 GAATCTTCCA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
59 46 0.67
60 23 0.33
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.45
Consensus pattern (60 bp):
TAAATTGGTCCTTAAACTTTTAAACATTTTAATTTCATCCCTAAACTATGACTGTCATTC
Found at i:4399690 original size:60 final size:59
Alignment explanation
Indices: 4399550--4399693 Score: 164
Period size: 60 Copynumber: 2.4 Consensus size: 59
4399540 ATTGGTCTTT
* * * **
4399550 AAACTTTTGAATATTTTAATTTCATCCTTAAAGTATGACTTCATTCTAAATTAGTCCTT
1 AAACTTTTGAATCTTTTAATTTCATCCCTAAACTATGACTTCATTCTAAATTAGTCCCC
* * * *
4399609 AAACTTTT-AAACATTTTAATTTCATCCCTAAACTATGATTGTCTTTCTAAATTGGTCCCC
1 AAACTTTTGAATC-TTTTAATTTCATCCCTAAACTATGACT-TCATTCTAAATTAGTCCCC
**
4399669 AAACTTTTGAATCTTCCAATTTCAT
1 AAACTTTTGAATCTTTTAATTTCAT
4399694 TCCCAAATTC
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
58 2 0.03
59 32 0.46
60 33 0.47
61 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (59 bp):
AAACTTTTGAATCTTTTAATTTCATCCCTAAACTATGACTTCATTCTAAATTAGTCCCC
Found at i:4401889 original size:189 final size:189
Alignment explanation
Indices: 4401569--4401948 Score: 742
Period size: 189 Copynumber: 2.0 Consensus size: 189
4401559 CATCCAACAA
4401569 TATTTTTTCTCCAAAAATCATATCTATTTGTTACATTTTGATTTAATTTTGGTCACATGCAGTTA
1 TATTTTTTCTCCAAAAATCATATCTATTTGTTACATTTTGATTTAATTTTGGTCACATGCAGTTA
4401634 GAAAATTAATAGAACTACTGATGTAATATTTTTTTTTATTTTTTTAATGATAACGTGGTATTACT
66 GAAAATTAATAGAACTACTGATGTAATATTTTTTTTTATTTTTTTAATGATAACGTGGTATTACT
*
4401699 TTATGGTGACACATCAGTATCATAATTAATTTTTTAATGGTTAGTGAGCAAAATGAAAT
131 TTATGGTGACACATCAGTATCATAATTAATTTTTTAATGGTTAGTGAGAAAAATGAAAT
4401758 TATTTTTTCTCCAAAAATCATATCTATTTGTTACATTTTGATTTAATTTTGGTCACATGCAGTTA
1 TATTTTTTCTCCAAAAATCATATCTATTTGTTACATTTTGATTTAATTTTGGTCACATGCAGTTA
*
4401823 GAAAATTAATAGAACTGCTGATGTAATATTTTTTTTTATTTTTTTAATGATAACGTGGTATTACT
66 GAAAATTAATAGAACTACTGATGTAATATTTTTTTTTATTTTTTTAATGATAACGTGGTATTACT
4401888 TTATGGTGACACATCAGTATCATAATTAATTTTTTAATGGTTAGTGAGAAAAATGAAAT
131 TTATGGTGACACATCAGTATCATAATTAATTTTTTAATGGTTAGTGAGAAAAATGAAAT
4401947 TA
1 TA
4401949 AAATGTAACG
Statistics
Matches: 189, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 189 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (189 bp):
TATTTTTTCTCCAAAAATCATATCTATTTGTTACATTTTGATTTAATTTTGGTCACATGCAGTTA
GAAAATTAATAGAACTACTGATGTAATATTTTTTTTTATTTTTTTAATGATAACGTGGTATTACT
TTATGGTGACACATCAGTATCATAATTAATTTTTTAATGGTTAGTGAGAAAAATGAAAT
Found at i:4402235 original size:29 final size:29
Alignment explanation
Indices: 4402202--4402291 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 29
4402192 TATTGAATCT
4402202 CTTGACTATTAAAAATTATAAAATAGTCA
1 CTTGACTATTAAAAATTATAAAATAGTCA
* * * **** *
4402231 CTTGATTA-TAGGATATTATTTTGTTGAGTCT
1 CTTGACTATTA-AAAATTA-TAAAAT-AGTCA
4402262 CTTGACTATTAAAAATTATAAAATAGTCA
1 CTTGACTATTAAAAATTATAAAATAGTCA
4402291 C
1 C
4402292 GCGACTAGTC
Statistics
Matches: 41, Mismatches: 16, Indels: 8
0.63 0.25 0.12
Matches are distributed among these distances:
28 2 0.05
29 17 0.41
30 4 0.10
31 16 0.39
32 2 0.05
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (29 bp):
CTTGACTATTAAAAATTATAAAATAGTCA
Found at i:4410743 original size:32 final size:32
Alignment explanation
Indices: 4410696--4410779 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 32
4410686 TCTCTCTTGA
* * *
4410696 TGGACGAGTTCTTCTCTTTACGAACCCTTCAT
1 TGGATGAGTTATTCTCATTACGAACCCTTCAT
4410728 TGGATGAGTTATTCTCATTACGAACCCTTCAT
1 TGGATGAGTTATTCTCATTACGAACCCTTCAT
*
4410760 TGAATGAGTTATTCTCATTA
1 TGGATGAGTTATTCTCATTA
4410780 TCTTCTTTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (32 bp):
TGGATGAGTTATTCTCATTACGAACCCTTCAT
Found at i:4413002 original size:25 final size:25
Alignment explanation
Indices: 4412974--4413038 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
4412964 CATTGTAGAT
4412974 CTCGTAGTATTGCACTCGAAAGTAC
1 CTCGTAGTATTGCACTCGAAAGTAC
*
4412999 CTCGTAGTATTGCACTCGAAAGTGC
1 CTCGTAGTATTGCACTCGAAAGTAC
* *
4413024 CTCTTAGGATTGCAC
1 CTCGTAGTATTGCAC
4413039 CATATGTGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (25 bp):
CTCGTAGTATTGCACTCGAAAGTAC
Found at i:4435164 original size:25 final size:25
Alignment explanation
Indices: 4435136--4435200 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
4435126 CCTCGTAGAT
4435136 CTCATAGTATTGCACTCGAAAGTGC
1 CTCATAGTATTGCACTCGAAAGTGC
4435161 CTCATAGTATTGCACTCGAAAGTGC
1 CTCATAGTATTGCACTCGAAAGTGC
* *
4435186 CTCTTAGGATTGCAC
1 CTCATAGTATTGCAC
4435201 CATAGGTGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (25 bp):
CTCATAGTATTGCACTCGAAAGTGC
Found at i:4437237 original size:29 final size:31
Alignment explanation
Indices: 4437162--4437238 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 31
4437152 TCCAAAATTT
*
4437162 AACTTTTAAAATTTTACAGTTTTAGTCCTTA
1 AACTTTTAAAATTTTACAGCTTTAGTCCTTA
* *
4437193 AACTTTTACAA-CTTACA-CTTTAGT-CTCTA
1 AACTTTTAAAATTTTACAGCTTTAGTCCT-TA
4437222 AAC-TTTAAAATTTTACA
1 AACTTTTAAAATTTTACA
4437239 TTCCAATCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 8 0.21
29 16 0.41
30 5 0.13
31 10 0.26
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (31 bp):
AACTTTTAAAATTTTACAGCTTTAGTCCTTA
Found at i:4441246 original size:14 final size:15
Alignment explanation
Indices: 4441227--4441255 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4441217 ACTTTTGGTA
4441227 ATAATAAT-AATATT
1 ATAATAATAAATATT
4441241 ATAATAATAAATATT
1 ATAATAATAAATATT
4441256 TTTTGGGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAATAAATATT
Found at i:4442317 original size:29 final size:28
Alignment explanation
Indices: 4442285--4442356 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
4442275 ATTTTATACG
*
4442285 CATGAAGAAAACTTTTTTTTTTGATAAAA
1 CATGAAGAAAACTTTCTTTTTT-ATAAAA
*
4442314 CATGAAGAAAACTCTCTTTTTTATAAAA
1 CATGAAGAAAACTTTCTTTTTTATAAAA
4442342 CATGAAGAAAACTTT
1 CATGAAGAAAACTTT
4442357 ATTCTATCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 20 0.50
29 20 0.50
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (28 bp):
CATGAAGAAAACTTTCTTTTTTATAAAA
Found at i:4442342 original size:28 final size:29
Alignment explanation
Indices: 4442285--4442354 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
4442275 ATTTTATACG
* *
4442285 CATGAAGAAAACTTTTTTTTTTGATAAAA
1 CATGAAGAAAACTCTCTTTTTTGATAAAA
4442314 CATGAAGAAAACTCTCTTTTTT-ATAAAA
1 CATGAAGAAAACTCTCTTTTTTGATAAAA
4442342 CATGAAGAAAACT
1 CATGAAGAAAACT
4442355 TTATTCTATC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 19 0.49
29 20 0.51
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (29 bp):
CATGAAGAAAACTCTCTTTTTTGATAAAA
Found at i:4443847 original size:18 final size:18
Alignment explanation
Indices: 4443826--4443885 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
4443816 ATTACTTTTT
4443826 TTAAATTTAGTTTTTATA
1 TTAAATTTAGTTTTTATA
* *
4443844 TT-AATTATAATTTGTATA
1 TTAAATT-TAGTTTTTATA
*
4443862 TTATAAATTTGGTTTTTATA
1 -T-TAAATTTAGTTTTTATA
4443882 TTAA
1 TTAA
4443886 TTCCAATTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 4 0.12
18 14 0.42
19 2 0.06
20 9 0.27
21 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (18 bp):
TTAAATTTAGTTTTTATA
Found at i:4443912 original size:19 final size:18
Alignment explanation
Indices: 4443874--4443922 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
4443864 ATAAATTTGG
* *
4443874 TTTTTATATTAATTCCAA
1 TTTTTATATTATTTACAA
*
4443892 TTCTTTATATTATTTATAA
1 TT-TTTATATTATTTACAA
*
4443911 TTATTATATTAT
1 TTTTTATATTAT
4443923 AAATTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTATATTATTTACAA
Found at i:4443917 original size:13 final size:13
Alignment explanation
Indices: 4443899--4443938 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
4443889 CAATTCTTTA
4443899 TATTATTTATAAT
1 TATTATTTATAAT
4443912 TATTATATTATAAAT
1 TATTAT-TTAT-AAT
4443927 T-TTATTTATAAT
1 TATTATTTATAAT
4443939 CACTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.12
13 10 0.40
14 8 0.32
15 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATTTATAAT
Found at i:4444683 original size:20 final size:20
Alignment explanation
Indices: 4444658--4444725 Score: 136
Period size: 20 Copynumber: 3.4 Consensus size: 20
4444648 AACCCTTACA
4444658 AATATCAAGTAGAAGTAAGC
1 AATATCAAGTAGAAGTAAGC
4444678 AATATCAAGTAGAAGTAAGC
1 AATATCAAGTAGAAGTAAGC
4444698 AATATCAAGTAGAAGTAAGC
1 AATATCAAGTAGAAGTAAGC
4444718 AATATCAA
1 AATATCAA
4444726 ACAAAAGCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (20 bp):
AATATCAAGTAGAAGTAAGC
Found at i:4444741 original size:40 final size:40
Alignment explanation
Indices: 4444658--4444742 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
4444648 AACCCTTACA
** * * *
4444658 AATATCAAGTAGAAGTAAGCAATATCAAGTAGAAGTAAGC
1 AATATCAAGTAGAAGTAAGCAATATCAAACAAAAGCAAAC
4444698 AATATCAAGTAGAAGTAAGCAATATCAAACAAAAGCAAAC
1 AATATCAAGTAGAAGTAAGCAATATCAAACAAAAGCAAAC
4444738 AATAT
1 AATAT
4444743 AAAACATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.19
Consensus pattern (40 bp):
AATATCAAGTAGAAGTAAGCAATATCAAACAAAAGCAAAC
Found at i:4447368 original size:18 final size:19
Alignment explanation
Indices: 4447329--4447374 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
4447319 TATTATAACT
* * *
4447329 ATATTATAAAATTATCTTA
1 ATATTATAAAAGTATATCA
4447348 ATA-TATAAAAGTATATCA
1 ATATTATAAAAGTATATCA
4447366 ATATTATAA
1 ATATTATAA
4447375 TAATAAATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
ATATTATAAAAGTATATCA
Found at i:4448758 original size:11 final size:11
Alignment explanation
Indices: 4448738--4448762 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4448728 TAACATAAGA
4448738 ATAATATAATT
1 ATAATATAATT
4448749 ATAATATAATT
1 ATAATATAATT
4448760 ATA
1 ATA
4448763 TAATTATATC
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATATAATT
Found at i:4449146 original size:89 final size:89
Alignment explanation
Indices: 4449012--4449182 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 89
4449002 GCTTGATTTG
* * * * * *
4449012 CTTGGAAAGAATCTGTTTCACTACTCTTTCTTGAATATCATATTCAAGGTTGATTTGCTACCACT
1 CTTGAAAAGAATCTGTTTCACTACTCATTCGTGAAGACCAGATTCAAGGTTGATTTGCTACCACT
4449077 ACTCTTCCGTGGAGATCGGATTGA
66 ACTCTTCCGTGGAGATCGGATTGA
*
4449101 CTTGAAAAGAATCTGTTTGACTACTCATTCGTGAAGACCAGATTCAAGGTTGATTTGCTACCACT
1 CTTGAAAAGAATCTGTTTCACTACTCATTCGTGAAGACCAGATTCAAGGTTGATTTGCTACCACT
*
4449166 ACTCTTTCGTGGAGATC
66 ACTCTTCCGTGGAGATC
4449183 AAATCTGCAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (89 bp):
CTTGAAAAGAATCTGTTTCACTACTCATTCGTGAAGACCAGATTCAAGGTTGATTTGCTACCACT
ACTCTTCCGTGGAGATCGGATTGA
Found at i:4458223 original size:22 final size:22
Alignment explanation
Indices: 4458189--4458250 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
4458179 AACAGTGAAT
*
4458189 AATACCGTATGAATAATAATGAAC
1 AATACCG--TGAATAATAATAAAC
* * *
4458213 AGTACTGTGAATAGTAATAAAC
1 AATACCGTGAATAATAATAAAC
*
4458235 AATACCGTGAACAATA
1 AATACCGTGAATAATA
4458251 CCCAAATGTT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 25 0.83
24 5 0.17
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (22 bp):
AATACCGTGAATAATAATAAAC
Found at i:4458321 original size:21 final size:22
Alignment explanation
Indices: 4458283--4458325 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
4458273 AATGTCAGAG
*
4458283 GGGAACCGAATCCCCTGCTACA
1 GGGAACCGAATACCCTGCTACA
4458305 GGGAACCG-ATACCCTGCTACA
1 GGGAACCGAATACCCTGCTACA
4458326 TTACTGCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.28, C:0.35, G:0.23, T:0.14
Consensus pattern (22 bp):
GGGAACCGAATACCCTGCTACA
Found at i:4462065 original size:11 final size:11
Alignment explanation
Indices: 4462049--4462073 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4462039 AATCTGACCC
4462049 ATATCCAGGTA
1 ATATCCAGGTA
4462060 ATATCCAGGTA
1 ATATCCAGGTA
4462071 ATA
1 ATA
4462074 GACTATTTCC
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (11 bp):
ATATCCAGGTA
Found at i:4463429 original size:18 final size:19
Alignment explanation
Indices: 4463390--4463435 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
4463380 TATTATAACT
* * *
4463390 ATATTATAAAATTATCTTA
1 ATATTATAAAAGTATATCA
4463409 ATA-TATAAAAGTATATCA
1 ATATTATAAAAGTATATCA
4463427 ATATTATAA
1 ATATTATAA
4463436 TAATAAATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
ATATTATAAAAGTATATCA
Found at i:4464804 original size:22 final size:22
Alignment explanation
Indices: 4464778--4464831 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 22
4464768 TTGTAACTAT
4464778 TAATAGTAA-TATAACATAAGAA
1 TAATA-TAATTATAACATAAGAA
*
4464800 TAATATAATTAT-A-AT-ATAA
1 TAATATAATTATAACATAAGAA
4464819 TAATATAATTATA
1 TAATATAATTATA
4464832 TCAAATTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 15 0.52
20 2 0.07
21 4 0.14
22 8 0.28
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
TAATATAATTATAACATAAGAA
Found at i:4465092 original size:2 final size:2
Alignment explanation
Indices: 4465085--4465121 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4465075 CCCTATACCA
4465085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4465122 AAGAATATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4465360 original size:27 final size:27
Alignment explanation
Indices: 4465330--4465384 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
4465320 GTTTTGAATA
4465330 GTTTGGATTCGGGTTT-GGATT-GGGTTT
1 GTTTGGATT-GGGTTTAGG-TTAGGGTTT
4465357 GTTTGGATTGGGTTTAGGTTAGGGTTT
1 GTTTGGATTGGGTTTAGGTTAGGGTTT
4465384 G
1 G
4465385 GATTTAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.09, C:0.02, G:0.42, T:0.47
Consensus pattern (27 bp):
GTTTGGATTGGGTTTAGGTTAGGGTTT
Found at i:4465362 original size:15 final size:15
Alignment explanation
Indices: 4465342--4465371 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4465332 TTGGATTCGG
4465342 GTTTGGATTGGGTTT
1 GTTTGGATTGGGTTT
4465357 GTTTGGATTGGGTTT
1 GTTTGGATTGGGTTT
4465372 AGGTTAGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.40, T:0.53
Consensus pattern (15 bp):
GTTTGGATTGGGTTT
Found at i:4465425 original size:6 final size:6
Alignment explanation
Indices: 4465330--4465465 Score: 75
Period size: 6 Copynumber: 23.5 Consensus size: 6
4465320 GTTTTGAATA
* * * * *
4465330 GTTTGG ATTCGG GTTT-G GATTGG GTTT-- GTTT-G GATTGG GTTTAG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
* * * * ** * *
4465374 GTTAGG GTTTGG ATTTAG GTTTGA GTTCAG GTTTGG GTTCGA GTTTGG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
* * * * *
4465422 GTTTAG GTTTGG GTTTAG GTTTTG G-TTAG GTTTGG GTTAGG GTT
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTT
4465466 AGGGGTTAGA
Statistics
Matches: 93, Mismatches: 33, Indels: 8
0.69 0.25 0.06
Matches are distributed among these distances:
4 4 0.04
5 11 0.12
6 78 0.84
ACGTcount: A:0.10, C:0.02, G:0.40, T:0.47
Consensus pattern (6 bp):
GTTTGG
Found at i:4465465 original size:12 final size:11
Alignment explanation
Indices: 4465357--4465462 Score: 95
Period size: 12 Copynumber: 9.1 Consensus size: 11
4465347 GATTGGGTTT
* *
4465357 GTTTGGATTGG
1 GTTTGGGTTAG
*
4465368 GTTTAGGTTAGG
1 GTTTGGGTTA-G
*
4465380 GTTTGGATTTAG
1 GTTTGG-GTTAG
*
4465392 GTTTGAGTTCAG
1 GTTTGGGTT-AG
*
4465404 GTTTGGGTTCG
1 GTTTGGGTTAG
4465415 AGTTTGGGTTTAG
1 -GTTTGGG-TTAG
4465428 GTTTGGGTTTAG
1 GTTTGGG-TTAG
*
4465440 GTTTTGGTTAG
1 GTTTGGGTTAG
4465451 GTTTGGGTTAG
1 GTTTGGGTTAG
4465462 G
1 G
4465463 GTTAGGGGTT
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
11 25 0.32
12 47 0.60
13 6 0.08
ACGTcount: A:0.11, C:0.02, G:0.41, T:0.46
Consensus pattern (11 bp):
GTTTGGGTTAG
Found at i:4465851 original size:102 final size:102
Alignment explanation
Indices: 4465639--4465851 Score: 250
Period size: 102 Copynumber: 2.1 Consensus size: 102
4465629 TGTGTGTTTG
* *
4465639 TAAGGGTTTGGGGAAGAACACGAATGAATAATGGATGAACTTTTGGGTGTTTAATCGAAAAAATA
1 TAAGGGTTTGGGGAAGAACACGAATGAATAATGAATGAACTTTTGGGTGTTTAATCGAAAAAACA
** *
4465704 GGAATGTGTTTAGGTGTTGGTGTTTGTGAAGATCAAA
66 AAAATGTGTTTAGGTGTTGGTGTTTGTAAAGATCAAA
* ** * * * *
4465741 TAATGGTTTGGGGAAGAACTGGGATGAA-CATGAATGAATTTTTGGGTGTTTGATCGAAAAAAAC
1 TAAGGGTTTGGGGAAGAACACGAATGAATAATGAATGAACTTTTGGGTGTTTAATCG-AAAAAAC
* * *
4465805 ACAAAATG-GTTTGGGTTTTGGTGTTTTTAAAGATCAAA
65 A-AAAATGTGTTTAGGTGTTGGTGTTTGTAAAGATCAAA
*
4465843 TGAGGGTTT
1 TAAGGGTTT
4465852 TTGGGATGAA
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
101 24 0.26
102 64 0.70
103 4 0.04
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (102 bp):
TAAGGGTTTGGGGAAGAACACGAATGAATAATGAATGAACTTTTGGGTGTTTAATCGAAAAAACA
AAAATGTGTTTAGGTGTTGGTGTTTGTAAAGATCAAA
Found at i:4466246 original size:33 final size:33
Alignment explanation
Indices: 4466206--4466324 Score: 211
Period size: 33 Copynumber: 3.6 Consensus size: 33
4466196 ATTAATAAAT
*
4466206 TAATATATAGGTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* *
4466239 TACTATATAGTTTATATATGCTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
4466272 TAATATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
4466305 TAATATATAGTTTATATATA
1 TAATATATAGTTTATATATA
4466325 TATTATATAG
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.43
Consensus pattern (33 bp):
TAATATATAGTTTATATATACTAATGAACTATA
Found at i:4466291 original size:18 final size:18
Alignment explanation
Indices: 4466268--4466394 Score: 81
Period size: 18 Copynumber: 7.3 Consensus size: 18
4466258 GCTAATGAAC
4466268 TATATAATATATAGTTTA
1 TATATAATATATAGTTTA
* *
4466286 TATATACTA-AT-G--AA
1 TATATAATATATAGTTTA
4466300 CTATATAATATATAGTTTA
1 -TATATAATATATAGTTTA
*
4466319 TATATATATTATATAGTATA
1 TATATA-A-TATATAGTTTA
* *
4466339 TATATACTA-ATA---AA
1 TATATAATATATAGTTTA
* *
4466353 AATATAATATATAGTTTG
1 TATATAATATATAGTTTA
** *
4466371 TATATACCATATACTTTA
1 TATATAATATATAGTTTA
4466389 TATATA
1 TATATA
4466395 TAGTTTTTAT
Statistics
Matches: 82, Mismatches: 16, Indels: 22
0.68 0.13 0.18
Matches are distributed among these distances:
14 9 0.11
15 11 0.13
16 3 0.04
17 6 0.07
18 35 0.43
19 2 0.02
20 16 0.20
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (18 bp):
TATATAATATATAGTTTA
Found at i:4466306 original size:2 final size:2
Alignment explanation
Indices: 4466301--4466465 Score: 54
Period size: 2 Copynumber: 79.0 Consensus size: 2
4466291 ACTAATGAAC
*
4466301 TA TA TA -A TA TA TA GTT TA TA TA TA TA T- TA TA TA GTA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * *
4466343 TA CTA -A TA AA AA TA TA -A TA TA TA GTT TG TA TA TA CCA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA
* * * * *
4466384 CTT TA TA TA TA TA GTT TT TA TA TA TA GT- TCA TA TG TA AA CTA TA
1 -TA TA TA TA TA TA -TA TA TA TA TA TA -TA T-A TA TA TA TA -TA TA
* *
4466428 TA -A TA TA TA TA AA CTA TA TA TG TA GTA TA TA CTA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA
4466466 AATCGTTTAT
Statistics
Matches: 123, Mismatches: 21, Indels: 38
0.68 0.12 0.21
Matches are distributed among these distances:
1 6 0.05
2 100 0.81
3 17 0.14
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4466323 original size:11 final size:11
Alignment explanation
Indices: 4466307--4466463 Score: 55
Period size: 11 Copynumber: 14.6 Consensus size: 11
4466297 GAACTATATA
*
4466307 ATATATAGTTT
1 ATATATAGTAT
4466318 ATATATA-TAT
1 ATATATAGTAT
4466328 -TATATAGTAT
1 ATATATAGTAT
*
4466338 ATATATACTA-
1 ATATATAGTAT
* *
4466348 ATA-AAAATAT
1 ATATATAGTAT
*
4466358 AATATATAGTTT
1 -ATATATAGTAT
* **
4466370 GTATATACCAT
1 ATATATAGTAT
4466381 ATACT-T--TAT
1 ATA-TATAGTAT
*
4466390 ATATATAGTTTTT
1 ATATATAG--TAT
4466403 ATATATAGT-T
1 ATATATAGTAT
* *
4466413 -CATAT-GTAA
1 ATATATAGTAT
*
4466422 ACTATATAATAT
1 A-TATATAGTAT
* *
4466434 ATATAAACTAT
1 ATATATAGTAT
*
4466445 ATATGTAGTAT
1 ATATATAGTAT
4466456 ATACTATA
1 ATA-TATA
4466464 TAAATCGTTT
Statistics
Matches: 105, Mismatches: 25, Indels: 31
0.65 0.16 0.19
Matches are distributed among these distances:
8 3 0.03
9 20 0.19
10 9 0.09
11 52 0.50
12 11 0.10
13 10 0.10
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (11 bp):
ATATATAGTAT
Found at i:4466323 original size:13 final size:13
Alignment explanation
Indices: 4466307--4466417 Score: 50
Period size: 13 Copynumber: 8.2 Consensus size: 13
4466297 GAACTATATA
4466307 ATATATAGTTTAT
1 ATATATAGTTTAT
4466320 ATATATA--TTAT
1 ATATATAGTTTAT
*
4466331 ATAGTATA-TATAT
1 ATA-TATAGTTTAT
***
4466344 ACTA-ATAAAAATAT
1 A-TATAT-AGTTTAT
4466358 AATATATAGTTTGTAT
1 -ATATATAG-TT-TAT
*
4466374 ATACCATATACTTTAT
1 ATA---TATAGTTTAT
*
4466390 ATATATAGTTTTT
1 ATATATAGTTTAT
*
4466403 ATATATAGTTCAT
1 ATATATAGTTTAT
4466416 AT
1 AT
4466418 GTAAACTATA
Statistics
Matches: 76, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
11 7 0.09
12 6 0.08
13 33 0.43
14 9 0.12
15 6 0.08
16 9 0.12
17 2 0.03
18 4 0.05
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (13 bp):
ATATATAGTTTAT
Found at i:4466396 original size:52 final size:53
Alignment explanation
Indices: 4466268--4466377 Score: 154
Period size: 52 Copynumber: 2.1 Consensus size: 53
4466258 GCTAATGAAC
* **
4466268 TATATA-A-TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTA
1 TATATACATTATATAGTATATATATACTAATGAAAAATATAATATATAGTTTA
* *
4466319 TATATATATTATATAGTATATATATACTAAT-AAAAATATAATATATAGTTTG
1 TATATACATTATATAGTATATATATACTAATGAAAAATATAATATATAGTTTA
4466371 TATATAC
1 TATATAC
4466378 CATATACTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
51 6 0.12
52 25 0.48
53 21 0.40
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (53 bp):
TATATACATTATATAGTATATATATACTAATGAAAAATATAATATATAGTTTA
Found at i:4466428 original size:85 final size:84
Alignment explanation
Indices: 4466235--4466429 Score: 216
Period size: 85 Copynumber: 2.3 Consensus size: 84
4466225 ACTAATGAAC
* ** * ** *
4466235 TATATACTATATAGTTTATATATGCTAATGAACTATATAATATATAGTTTATATATACTAATGAA
1 TATATATTATATAGTAAATATATACTAAT-AAAAATATAATATATAGTTTATATATACCAAT-AA
4466300 CTATATAATATATAGTTTATA
64 CTATATAATATATAGTTTATA
* *
4466321 TATATATTATATAGTATATATATACTAATAAAAATATAATATATAGTTTGTATATACC-ATATAC
1 TATATATTATATAGTAAATATATACTAATAAAAATATAATATATAGTTTATATATACCAATA-AC
* *
4466385 TTTAT-ATATATAGTTTTTA
65 TATATAATATATAGTTTATA
4466404 TATATAGTTCATAT-GTAAACTATATA
1 TATATA-TT-ATATAGTAAA-TATATA
4466430 ATATATATAA
Statistics
Matches: 95, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
83 20 0.21
84 14 0.15
85 35 0.37
86 26 0.27
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (84 bp):
TATATATTATATAGTAAATATATACTAATAAAAATATAATATATAGTTTATATATACCAATAACT
ATATAATATATAGTTTATA
Found at i:4466578 original size:21 final size:21
Alignment explanation
Indices: 4466530--4466573 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4466520 ACTTTGAATT
*
4466530 TATATATTATAATTATATAAG
1 TATAAATTATAATTATATAAG
4466551 TATAAATTAT-ATTATAT-AG
1 TATAAATTATAATTATATAAG
4466570 TATA
1 TATA
4466574 TAAATATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 7 0.32
21 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
TATAAATTATAATTATATAAG
Found at i:4466588 original size:27 final size:27
Alignment explanation
Indices: 4466532--4466602 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
4466522 TTTGAATTTA
* * *
4466532 TATATTATA-ATTATATAAGTATAAAT
1 TATATTATATAGTATATAAATATAAAC
*
4466558 TATATTATATAGTATATAAATATCAAC
1 TATATTATATAGTATATAAATATAAAC
* *
4466585 TATAGTATATAGTTTATA
1 TATATTATATAGTATATA
4466603 TGGTTTTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
26 9 0.24
27 29 0.76
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (27 bp):
TATATTATATAGTATATAAATATAAAC
Found at i:4466648 original size:34 final size:36
Alignment explanation
Indices: 4466610--4466685 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 36
4466600 ATATGGTTTT
* *
4466610 TATATATAGTTCATATGTA-AAT-TATACTATATAG
1 TATATATAATTCATATATATAATATATACTATATAG
* * *
4466644 TATATATAATTTATATATATAATATATAGTATGTAG
1 TATATATAATTCATATATATAATATATACTATATAG
4466680 TATATA
1 TATATA
4466686 AATATAAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 16 0.46
35 3 0.09
36 16 0.46
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (36 bp):
TATATATAATTCATATATATAATATATACTATATAG
Found at i:4466662 original size:13 final size:13
Alignment explanation
Indices: 4466638--4466692 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
4466628 AAATTATACT
4466638 ATATAGTATATATA
1 ATATA-TATATATA
*
4466652 ATTTATATATATA
1 ATATATATATATA
*
4466665 ATATATAGTATGTA
1 ATATATA-TATATA
* *
4466679 GTATATAAATATA
1 ATATATATATATA
4466692 A
1 A
4466693 ACTATAGTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
13 18 0.55
14 15 0.45
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
ATATATATATATA
Found at i:4466690 original size:29 final size:29
Alignment explanation
Indices: 4466627--4466691 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
4466617 AGTTCATATG
* *
4466627 TAAAT-TATACTATATAGTATATATAATT
1 TAAATATATAATATATAGTATATATAATA
* *
4466655 TATATATATAATATATAGTATGTAGT-ATA
1 TAAATATATAATATATAGTATATA-TAATA
4466684 TAAATATA
1 TAAATATA
4466692 AACTATAGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.13
29 25 0.83
30 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.45
Consensus pattern (29 bp):
TAAATATATAATATATAGTATATATAATA
Found at i:4466760 original size:24 final size:24
Alignment explanation
Indices: 4466733--4466822 Score: 72
Period size: 24 Copynumber: 4.0 Consensus size: 24
4466723 ATAAATAGTT
*
4466733 TATATAGTTCA-CTGATAAACTATA
1 TATATAGTTCATATG-TAAACTATA
4466757 TATATAGTTCATATGTAAAC----
1 TATATAGTTCATATGTAAACTATA
4466777 --TATAGTTCATATGTAAA-TATCA
1 TATATAGTTCATATGTAAACTAT-A
*
4466799 -ACTATAGTTTATATGTAAACTATA
1 TA-TATAGTTCATATGTAAACTATA
4466823 GTTAGTATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
18 17 0.31
24 33 0.60
25 5 0.09
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (24 bp):
TATATAGTTCATATGTAAACTATA
Found at i:4466781 original size:42 final size:43
Alignment explanation
Indices: 4466735--4466842 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 43
4466725 AAATAGTTTA
*
4466735 TATAGTTCACTGATAAACTATATA-TATAGTTCATATGTAAAC
1 TATAGTTCAATGATAAACTATATACTATAGTTCATATGTAAAC
*
4466777 TATAGTTCATATG-TAAA-TATCA-ACTATAGTTTATATGTAAAC
1 TATAGTTCA-ATGATAAACTAT-ATACTATAGTTCATATGTAAAC
4466819 TATAGTT-AGTAT-ATAAACTATATA
1 TATAGTTCA--ATGATAAACTATATA
4466843 GTTTTAACTA
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
41 5 0.09
42 46 0.81
43 6 0.11
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (43 bp):
TATAGTTCAATGATAAACTATATACTATAGTTCATATGTAAAC
Found at i:4466782 original size:18 final size:18
Alignment explanation
Indices: 4466759--4466840 Score: 76
Period size: 18 Copynumber: 4.2 Consensus size: 18
4466749 AAACTATATA
4466759 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
4466777 TATAGTTCATATGTAAATATCAAC
1 TATAGTTCATATG----TA--AAC
*
4466801 TATAGTTTATATGTAAAC
1 TATAGTTCATATGTAAAC
*
4466819 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
4466837 TATA
1 TATA
4466841 TAGTTTTAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
17 1 0.02
18 35 0.64
20 2 0.04
22 2 0.04
24 15 0.27
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:4466966 original size:20 final size:19
Alignment explanation
Indices: 4466943--4467073 Score: 87
Period size: 18 Copynumber: 6.9 Consensus size: 19
4466933 TCAACTATAG
4466943 TATATAGTTTATATATAAA
1 TATATAGTTTATATATAAA
* *
4466962 -CTATAGTTTATATATATTTTA
1 TATATAGTTTATATATA---AA
* *
4466983 TATATAGTTCATATGTAAA
1 TATATAGTTTATATATAAA
4467002 T-TATA--TTATATAGT--A
1 TATATAGTTTATATA-TAAA
4467017 TATATAGTTTATATATATAA
1 TATATAGTTTATATATA-AA
*
4467037 TATATAGTATATAAATATAAA
1 TATATAGT-T-TATATATAAA
* *
4467058 -CTATAGTTTGTATATA
1 TATATAGTTTATATATA
4467074 TAGTATATAC
Statistics
Matches: 87, Mismatches: 12, Indels: 27
0.69 0.10 0.21
Matches are distributed among these distances:
15 2 0.02
16 9 0.10
17 2 0.02
18 32 0.37
19 3 0.03
20 15 0.17
21 4 0.05
22 20 0.23
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (19 bp):
TATATAGTTTATATATAAA
Found at i:4466977 original size:11 final size:11
Alignment explanation
Indices: 4466963--4467033 Score: 65
Period size: 11 Copynumber: 6.4 Consensus size: 11
4466953 ATATATAAAC
4466963 TATAGTTTATA
1 TATAGTTTATA
*
4466974 TATATTTTATA
1 TATAGTTTATA
*
4466985 TATAGTTCATA
1 TATAGTTTATA
* *
4466996 TGTAAATTATATTA
1 TAT-AGTT-TA-TA
4467010 TATAG--TATA
1 TATAGTTTATA
4467019 TATAGTTTATA
1 TATAGTTTATA
4467030 TATA
1 TATA
4467034 TAATATATAG
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
9 7 0.15
10 2 0.04
11 29 0.62
12 3 0.06
13 2 0.04
14 4 0.09
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.52
Consensus pattern (11 bp):
TATAGTTTATA
Found at i:4467019 original size:34 final size:36
Alignment explanation
Indices: 4466981--4467049 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
4466971 ATATATATTT
* *
4466981 TATATATAGTTCATATGTA-AAT-TATATTATATAG
1 TATATATAGTTCATATATATAATATATAGTATATAG
*
4467015 TATATATAGTTTATATATATAATATATAGTATATA
1 TATATATAGTTCATATATATAATATATAGTATATA
4467050 AATATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.48
Consensus pattern (36 bp):
TATATATAGTTCATATATATAATATATAGTATATAG
Found at i:4467022 original size:9 final size:9
Alignment explanation
Indices: 4467008--4467104 Score: 62
Period size: 9 Copynumber: 10.9 Consensus size: 9
4466998 TAAATTATAT
4467008 TATATAGTA
1 TATATAGTA
4467017 TATATAGTTTA
1 TATATAG--TA
4467028 TATATA-TAA
1 TATATAGT-A
4467037 TATATAGTA
1 TATATAGTA
4467046 TATA-A--A
1 TATATAGTA
* *
4467052 TATAAACTA
1 TATATAGTA
*
4467061 TAGT-TTGTA
1 TA-TATAGTA
4467070 TATATAGTA
1 TATATAGTA
4467079 TATACTA-TA
1 TATA-TAGTA
* *
4467088 TAAATAGTT
1 TATATAGTA
4467097 TATATAGT
1 TATATAGT
4467105 TCACTAATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
6 5 0.07
7 1 0.01
8 5 0.07
9 47 0.67
10 4 0.06
11 8 0.11
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.45
Consensus pattern (9 bp):
TATATAGTA
Found at i:4467074 original size:20 final size:20
Alignment explanation
Indices: 4466938--4467161 Score: 119
Period size: 20 Copynumber: 11.3 Consensus size: 20
4466928 AAATATCAAC
*
4466938 TATAGTATATAGTTTATATA
1 TATAATATATAGTTTATATA
*
4466958 TA-AA-CTATAGTTTATATA
1 TATAATATATAGTTTATATA
* * *
4466976 TATTTTATATATAGTTCATATG
1 TA--TAATATATAGTTTATATA
4466998 TA-AAT-TATA--TTATATA
1 TATAATATATAGTTTATATA
*
4467014 -GT-ATATATAGTTTATATA
1 TATAATATATAGTTTATATA
* *
4467032 TATAATATATAGTATATAAA
1 TATAATATATAGTTTATATA
*
4467052 TATAA-ACTATAGTTTGTATA
1 TATAATA-TATAGTTTATATA
* * * *
4467072 TATAGTATATACTATATAAA
1 TATAATATATAGTTTATATA
* *
4467092 TAGT-TTATATAGTTCACTAATA
1 TA-TAATATATAGTTTA-T-ATA
* * * *
4467114 AACTCTATATATAGTTCATATG
1 TA-T-AATATATAGTTTATATA
4467136 TA-AACTATATAGTTTATATA
1 TATAA-TATATAGTTTATATA
4467156 TATAAT
1 TATAAT
4467162 TCACATGTAA
Statistics
Matches: 151, Mismatches: 34, Indels: 38
0.68 0.15 0.17
Matches are distributed among these distances:
15 2 0.01
16 9 0.06
18 26 0.17
19 6 0.04
20 70 0.46
21 6 0.04
22 20 0.13
23 1 0.01
24 11 0.07
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (20 bp):
TATAATATATAGTTTATATA
Found at i:4467102 original size:2 final size:2
Alignment explanation
Indices: 4466938--4467089 Score: 53
Period size: 2 Copynumber: 72.0 Consensus size: 2
4466928 AAATATCAAC
* * * *
4466938 TA TA GTA TA TA GTT TA TA TA TA AA CTA TA GTT TA TA TA TA T- TT
1 TA TA -TA TA TA -TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA
* *
4466981 TA TA TA TA GT- TCA TA TG TA AA T- TA TA T- TA TA TA GTA TA TA
1 TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
4467021 TA GTT TA TA TA TA TA -A TA TA TA GTA TA TA AA TA TA AA CTA TA
1 TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA
* *
4467063 GTT TG TA TA TA TA GTA TA TA CTA TA TA
1 -TA TA TA TA TA TA -TA TA TA -TA TA TA
4467090 AATAGTTTAT
Statistics
Matches: 112, Mismatches: 20, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
1 5 0.04
2 89 0.79
3 18 0.16
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4467103 original size:40 final size:40
Alignment explanation
Indices: 4466943--4467105 Score: 137
Period size: 40 Copynumber: 4.2 Consensus size: 40
4466933 TCAACTATAG
* * **
4466943 TATATAGTTTATATATA-AACTATAGT-TTATATATATTTTA
1 TATATAGTTTATATATATAA-TATA-TACTATATAAATAGTA
* *
4466983 TATATAGTTCATATGTA-AAT-TATA-T-TAT--ATAGTA
1 TATATAGTTTATATATATAATATATACTATATAAATAGTA
*
4467017 TATATAGTTTATATATATAATATATAGTATATAAATA-TA
1 TATATAGTTTATATATATAATATATACTATATAAATAGTA
* * * *
4467056 AACTATAGTTTGTATATATAGTATATACTATATAAATAGTT
1 TA-TATAGTTTATATATATAATATATACTATATAAATAGTA
4467097 TATATAGTT
1 TATATAGTT
4467106 CACTAATAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
34 19 0.19
35 3 0.03
36 7 0.07
37 3 0.03
38 5 0.05
39 4 0.04
40 59 0.58
41 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.48
Consensus pattern (40 bp):
TATATAGTTTATATATATAATATATACTATATAAATAGTA
Found at i:4467139 original size:24 final size:24
Alignment explanation
Indices: 4467097--4467146 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4467087 ATAAATAGTT
*
4467097 TATATAGTTCACTAATAAACTCTA
1 TATATAGTTCACTAATAAACTATA
*
4467121 TATATAGTTCA-TATGTAAACTATA
1 TATATAGTTCACTA-ATAAACTATA
4467145 TA
1 TA
4467147 GTTTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (24 bp):
TATATAGTTCACTAATAAACTATA
Found at i:4467178 original size:31 final size:32
Alignment explanation
Indices: 4467119--4467185 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
4467109 TAATAAACTC
* * *
4467119 TATATATAGTTCATATGTAAACTATATAGTTTA
1 TATATATAATTCACATGTAAAC-ATATAGTTCA
4467152 TATATATAATTCACATGTAAAC-TATAGTTCA
1 TATATATAATTCACATGTAAACATATAGTTCA
4467183 TAT
1 TAT
4467186 GTAAATATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 11 0.35
33 20 0.65
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.43
Consensus pattern (32 bp):
TATATATAATTCACATGTAAACATATAGTTCA
Found at i:4467182 original size:18 final size:18
Alignment explanation
Indices: 4467156--4467190 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4467146 AGTTTATATA
4467156 TATAATTCACATGTAAAC
1 TATAATTCACATGTAAAC
* *
4467174 TATAGTTCATATGTAAA
1 TATAATTCACATGTAAA
4467191 TATCAACTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (18 bp):
TATAATTCACATGTAAAC
Found at i:4467278 original size:18 final size:18
Alignment explanation
Indices: 4467255--4467294 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4467245 ATAGTTTATA
*
4467255 TATAGTTCATATGTAAAC
1 TATAGTTCATATATAAAC
*
4467273 TATAGTTCATATATCAAC
1 TATAGTTCATATATAAAC
4467291 TATA
1 TATA
4467295 TAATTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (18 bp):
TATAGTTCATATATAAAC
Found at i:4467305 original size:29 final size:27
Alignment explanation
Indices: 4467273--4467335 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 27
4467263 ATATGTAAAC
*
4467273 TATAGTTCATATATCAACTATATAATTTA
1 TATAGTTCATATATAAAC--TATAATTTA
* *
4467302 TATAGTTTATATATAAACTATAGTTTA
1 TATAGTTCATATATAAACTATAATTTA
4467329 TATAGTT
1 TATAGTT
4467336 TTTATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 15 0.48
29 16 0.52
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (27 bp):
TATAGTTCATATATAAACTATAATTTA
Found at i:4467328 original size:27 final size:28
Alignment explanation
Indices: 4467273--4467343 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
4467263 ATATGTAAAC
* *
4467273 TATAGTTCATATATCAACTATATAATTTA
1 TATAGTTTATATATAAAC-ATATAATTTA
*
4467302 TATAGTTTATATATAAAC-TATAGTTTA
1 TATAGTTTATATATAAACATATAATTTA
*
4467329 TATAGTTTTTATATA
1 TATAGTTTATATATA
4467344 TAGTTCATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 22 0.58
29 16 0.42
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (28 bp):
TATAGTTTATATATAAACATATAATTTA
Found at i:4467332 original size:9 final size:9
Alignment explanation
Indices: 4467291--4467341 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
4467281 ATATATCAAC
*
4467291 TATATAATT
1 TATATAGTT
4467300 TATATAGTT
1 TATATAGTT
*
4467309 TATATA-TA
1 TATATAGTT
*
4467317 AACTATAGTT
1 TA-TATAGTT
4467327 TATATAGTT
1 TATATAGTT
*
4467336 TTTATA
1 TATATA
4467342 TATAGTTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
8 2 0.06
9 30 0.88
10 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (9 bp):
TATATAGTT
Found at i:4467411 original size:20 final size:20
Alignment explanation
Indices: 4467374--4467477 Score: 66
Period size: 20 Copynumber: 4.8 Consensus size: 20
4467364 CTATATACAC
* * *
4467374 TATATAGTTTACATATATAA
1 TATATAGTATATAAATATAA
4467394 TATATAGTATATAAATATCAACTA
1 TATATAGTATATAAATAT--A--A
4467418 TAGTATGTAGTATATAAATATAA
1 TA-TA--TAGTATATAAATATAA
* * *
4467441 -ACTATAGTTTATATATATAG
1 TA-TATAGTATATAAATATAA
*
4467461 TATATACTATATAAATA
1 TATATAGTATATAAATA
4467478 GTTTATATAG
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
20 40 0.61
21 1 0.02
22 4 0.06
23 1 0.02
24 3 0.05
25 3 0.05
27 14 0.21
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (20 bp):
TATATAGTATATAAATATAA
Found at i:4467419 original size:27 final size:27
Alignment explanation
Indices: 4467389--4467484 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 27
4467379 AGTTTACATA
* *
4467389 TATAATATATAGTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATAAAC
*
4467416 TATAGTATGTAGTATATAAATATAAAC
1 TATAGTATATAGTATATAAATATAAAC
* * *
4467443 TATAGTTTATA-TATAT-AGTATATAC
1 TATAGTATATAGTATATAAATATAAAC
* *
4467468 TATA-TAAATAGTTTATA
1 TATAGTATATAGTATATA
4467485 TAGTTCACTA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
24 4 0.07
25 15 0.26
26 5 0.09
27 33 0.58
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (27 bp):
TATAGTATATAGTATATAAATATAAAC
Found at i:4467471 original size:18 final size:18
Alignment explanation
Indices: 4467450--4467484 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4467440 AACTATAGTT
*
4467450 TATATATATAGTATATAC
1 TATATAAATAGTATATAC
*
4467468 TATATAAATAGTTTATA
1 TATATAAATAGTATATA
4467485 TAGTTCACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TATATAAATAGTATATAC
Found at i:4467487 original size:384 final size:389
Alignment explanation
Indices: 4466753--4467541 Score: 1122
Period size: 384 Copynumber: 2.0 Consensus size: 389
4466743 ACTGATAAAC
* *
4466753 TATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAA
1 TATATATATAATTCACATGTAAACTATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAA
*
4466818 CTATAGTTAGTATATAAACTATATAGTTTTAACTATAGTTTATATATAGTTCATATCATATGTAA
66 CTATAGCTAG-ATATAAACTATATAGTTTTAACTATAGTTTATATATAG-T--TATCATATGTAA
4466883 ACTATAGTTCATATATCAACTATATAACTTATATAGTTTATATATAAATATCAACTATAGTATAT
127 ACTATAGTTCATATATCAACTATATAACTTATATAGTTTATATATAAATAT-AACTATA-TATAT
* ** * * *
4466948 AGTTTATATATAAACTATAGTTTATATATATTTTATATATAGTTCATATGTAAATTATATTATAT
190 AGTTTATATAT-AACTATAGTTCATATATAAATTATATATAGTACATATATAAATTACATTATAT
*
4467013 AGTATATATAGTTTATATATATAATATATAGTATATAAATATAAACTATAGTTTGTATATATAGT
254 AG-ATATATAGTTTATATATATAATATATAGTATATAAATATAAACTATAGTTTATATATATAGT
* *
4467078 ATATACTATATAAATAGTTTATATAGTTCACTAATAAACTCTATATATAGTTCATATGTAAACTA
318 ATATACTATATAAATAGTTTATATAGTTCACTAATAAACTATATATATAGGTCATATGTAAACTA
4467143 TATAGTT
383 TATAGTT
4467150 TATATATATAATTCACATGTAAACTATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAA
1 TATATATATAATTCACATGTAAACTATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAA
*
4467215 CTATAGCTCG-TAT-AACTATATAG-TTTAACTATAGTTTATATATAG-T-TCATATGTAAACTA
66 CTATAGCTAGATATAAACTATATAGTTTTAACTATAGTTTATATATAGTTATCATATGTAAACTA
* *
4467275 TAGTTCATATATCAACTATATAATTTATATAGTTTATATATAAACTAT-AGT-T-TATATAGTTT
131 TAGTTCATATATCAACTATATAACTTATATAGTTTATATATAAA-TATAACTATATATATAGTTT
* **
4467337 -T-TAT-A-TATAGTTCATATGTAAATTATACTATA-TACACTATATAGTTTACA-TATATA-AT
195 ATATATAACTATAGTTCATATATAAATTATA-TATAGTACA-TATATAAATTACATTATATAGAT
* *
4467395 ATATAGTATATAAATATCAACTATAGTATGTAGTATATAAATATAAACTATAGTTTATATATATA
258 ATATAGT-T-T--ATAT--A-TATAATATATAGTATATAAATATAAACTATAGTTTATATATATA
4467460 GTATATACTATATAAATAGTTTATATAGTTCACTAATAAACTATATATATAGGTCATATGTAAAC
316 GTATATACTATATAAATAGTTTATATAGTTCACTAATAAACTATATATATAGGTCATATGTAAAC
4467525 TATATAGTT
381 TATATAGTT
*
4467534 TACATATA
1 TATATATA
4467542 GTATAAGTTA
Statistics
Matches: 361, Mismatches: 21, Indels: 33
0.87 0.05 0.08
Matches are distributed among these distances:
377 9 0.02
378 1 0.00
379 28 0.08
380 14 0.04
381 4 0.01
382 3 0.01
383 2 0.01
384 130 0.36
386 1 0.00
387 2 0.01
388 57 0.16
389 4 0.01
393 22 0.06
394 10 0.03
395 3 0.01
397 71 0.20
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (389 bp):
TATATATATAATTCACATGTAAACTATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAA
CTATAGCTAGATATAAACTATATAGTTTTAACTATAGTTTATATATAGTTATCATATGTAAACTA
TAGTTCATATATCAACTATATAACTTATATAGTTTATATATAAATATAACTATATATATAGTTTA
TATATAACTATAGTTCATATATAAATTATATATAGTACATATATAAATTACATTATATAGATATA
TAGTTTATATATATAATATATAGTATATAAATATAAACTATAGTTTATATATATAGTATATACTA
TATAAATAGTTTATATAGTTCACTAATAAACTATATATATAGGTCATATGTAAACTATATAGTT
Found at i:4467589 original size:30 final size:31
Alignment explanation
Indices: 4467523--4467590 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 31
4467513 TCATATGTAA
*
4467523 ACTATATAGTTTACATATAGTATAAGTTAAT
1 ACTATATAGTTTACATATAGTATAAGATAAT
* * * *
4467554 A-TATATTGTTTATATATAGTTTAA-ATACT
1 ACTATATAGTTTACATATAGTATAAGATAAT
4467583 ACTATATA
1 ACTATATA
4467591 TAAACTACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
29 4 0.13
30 25 0.83
31 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (31 bp):
ACTATATAGTTTACATATAGTATAAGATAAT
Found at i:4467679 original size:13 final size:13
Alignment explanation
Indices: 4467657--4467696 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
4467647 ACCTTAAATC
*
4467657 ATATATACTATAT
1 ATATAAACTATAT
4467670 ATATAAACTATAT
1 ATATAAACTATAT
4467683 ATATAAACTATAT
1 ATATAAACTATAT
4467696 A
1 A
4467697 GTTTATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATAAACTATAT
Found at i:4467703 original size:22 final size:21
Alignment explanation
Indices: 4467678--4467850 Score: 73
Period size: 22 Copynumber: 8.4 Consensus size: 21
4467668 ATATATAAAC
4467678 TATATATATAAACTATATAGTT
1 TATATATATAAACTATATA-TT
*
4467700 TATAT-TAATAAATTATATAATT
1 TATATAT-ATAAACTATAT-ATT
* *
4467722 TATACA-ATAGA-TAT-TATT
1 TATATATATAAACTATATATT
** *
4467740 TATA-AT-TGTAC-ATA-ATA
1 TATATATATAAACTATATATT
* *
4467757 TATA-ACTATAAATTGTATAGTT
1 TATATA-TATAAACTATATA-TT
** *
4467779 TATATATA-ATTCATATATAAT
1 TATATATATAAAC-TATATATT
4467800 T-TATATATAAACTATATAATT
1 TATATATATAAACTATAT-ATT
*
4467821 TATAT-TAATAAACTATGTAGTT
1 TATATAT-ATAAACTATATA-TT
4467843 TATATATA
1 TATATATA
4467851 GTTCAATAGT
Statistics
Matches: 112, Mismatches: 20, Indels: 38
0.66 0.12 0.22
Matches are distributed among these distances:
17 12 0.11
18 8 0.07
19 3 0.03
20 16 0.14
21 16 0.14
22 54 0.48
23 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (21 bp):
TATATATATAAACTATATATT
Found at i:4467807 original size:13 final size:11
Alignment explanation
Indices: 4467772--4468069 Score: 81
Period size: 11 Copynumber: 27.4 Consensus size: 11
4467762 CTATAAATTG
*
4467772 TATAGTTTATA
1 TATAATTTATA
*
4467783 TATAATTCATA
1 TATAATTTATA
4467794 TATAATTTATA
1 TATAATTTATA
4467805 TATAA---ACTA
1 TATAATTTA-TA
4467814 TATAATTTATA
1 TATAATTTATA
**
4467825 T-TAATAAACTA
1 TATAATTTA-TA
* *
4467836 TGTAGTTTATA
1 TATAATTTATA
* *
4467847 TAT-AGTT-CA
1 TATAATTTATA
* *
4467856 -ATAGTTCATA
1 TATAATTTATA
**
4467866 TATAAACTATA
1 TATAATTTATA
*
4467877 TAGT-ATTATAGTT
1 TA-TAATT-TA-TA
*
4467890 TATACATGGTATA
1 TATA-AT-TTATA
*
4467903 TATAGTTTATA
1 TATAATTTATA
* *
4467914 CATAATATATA
1 TATAATTTATA
* *
4467925 CATATATATATAA
1 TATA-ATTTAT-A
*
4467938 TATAGTTTATA
1 TATAATTTATA
* *
4467949 TATAGTATATA
1 TATAATTTATA
* *
4467960 -ATAATATAAA
1 TATAATTTATA
*
4467970 TATAATCTATA
1 TATAATTTATA
4467981 TAGT--TTATATA
1 TA-TAATT-TATA
4467992 TATAA--TATA
1 TATAATTTATA
*
4468001 TATACTTTATA
1 TATAATTTATA
4468012 TATAA---ACTA
1 TATAATTTA-TA
*
4468021 TATAGTTTATA
1 TATAATTTATA
*
4468032 TAT-ATATATA
1 TATAATTTATA
*
4468042 TATATATATATA
1 TATA-ATTTATA
*
4468054 TATATATATATA
1 TATA-ATTTATA
4468066 TATA
1 TATA
4468070 GTTGTTTTAA
Statistics
Matches: 213, Mismatches: 44, Indels: 59
0.67 0.14 0.19
Matches are distributed among these distances:
8 4 0.02
9 23 0.11
10 26 0.12
11 99 0.46
12 45 0.21
13 12 0.06
14 4 0.02
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (11 bp):
TATAATTTATA
Found at i:4467906 original size:2 final size:2
Alignment explanation
Indices: 4467899--4468069 Score: 147
Period size: 2 Copynumber: 85.0 Consensus size: 2
4467889 TTATACATGG
* * *
4467899 TA TA TA TA GTT TA TA CA TA -A TA TA TA CA TA TA TA TA TA -A TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
4467940 TA GTT TA TA TA TA GTA TA TA -A TA -A TA TA AA TA TA -A TC TA TA
1 TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
4467981 TA GTT TA TA TA TA TA -A TA TA TA TA CTT TA TA TA TA AA CTA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA
*
4468023 TA GTT TA TA TA 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 TA TA TA TA TA
4468066 TA TA
1 TA TA
4468070 GTTGTTTTAA
Statistics
Matches: 136, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
1 6 0.04
2 122 0.90
3 8 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4468636 original size:217 final size:216
Alignment explanation
Indices: 4468167--4468672 Score: 825
Period size: 217 Copynumber: 2.3 Consensus size: 216
4468157 TTGATCCCTT
*
4468167 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTTATATTTATTCAATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTTAAAA
* * *
4468232 TTATATTTCCATATGAAATTGTCTCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
66 TTATATTTCCATATGAAATTGGCCCATACTTATTACTTATTTATATTATTTAATTGGCCCATAAC
*
4468297 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACCATTTAAAATTATTT
131 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
* * *
4468362 TGATTTGATCCCTCATCAATG
196 CGATTTGATCACTCATCAATA
*
4468383 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTGATATTTGTTCAATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTTAAAA
*
4468448 TTATATTTGCATATGAAATTGGCCCATACTTATTACTTATTTATATTATTTAATTGGCCCATAAC
66 TTATATTTCCATATGAAATTGGCCCATACTTATTACTTATTTATATTATTTAATTGGCCCATAAC
* * *
4468513 TTTTTTAAATGTGTATAATTTCGTA-TGTTTTTGTATTAATTTAAACCTCATAATTTAAAATTAT
131 -TTTTTAAATGGGTATAATTTAGTACT-TTTTTGTATTAATTTAAACCTCACAATTTAAAATTAT
4468577 TTCGATTTGATCACTCATCAATA
194 TTCGATTTGATCACTCATCAATA
* * * *
4468600 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTTATATTTGTTTAATTTAGTTCTTAAAT
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTTAAAA
*
4468665 TTGTATTT
66 TTATATTT
4468673 TTCATAAAAT
Statistics
Matches: 269, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
216 125 0.46
217 144 0.54
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (216 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTTAAAA
TTATATTTCCATATGAAATTGGCCCATACTTATTACTTATTTATATTATTTAATTGGCCCATAAC
TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
CGATTTGATCACTCATCAATA
Found at i:4468653 original size:16 final size:15
Alignment explanation
Indices: 4468607--4468653 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
4468597 ATATGTGTTG
*
4468607 TTTAATTTATTTAAAT
1 TTTAATTTGTTT-AAT
4468623 TTTAATTTG--TAAT
1 TTTAATTTGTTTAAT
4468636 TTTATATTTGTTTAAT
1 TTTA-ATTTGTTTAAT
4468652 TT
1 TT
4468654 AGTTCTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.26
14 6 0.22
16 14 0.52
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (15 bp):
TTTAATTTGTTTAAT
Found at i:4472305 original size:16 final size:18
Alignment explanation
Indices: 4472274--4472306 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4472264 GTCAAGGGTC
4472274 GGTCAACTGCCGGTCAAT
1 GGTCAACTGCCGGTCAAT
4472292 GGTCAAC-G-CGGTCAA
1 GGTCAACTGCCGGTCAA
4472307 CAGCTCAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.18
Consensus pattern (18 bp):
GGTCAACTGCCGGTCAAT
Found at i:4472337 original size:18 final size:18
Alignment explanation
Indices: 4472310--4472344 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4472300 CGGTCAACAG
* *
4472310 CTCAGTGGCTTGGCTCGA
1 CTCAGCGGCTAGGCTCGA
4472328 CTCAGCGGCTAGGCTCG
1 CTCAGCGGCTAGGCTCG
4472345 GTGGCTCAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.31, G:0.34, T:0.23
Consensus pattern (18 bp):
CTCAGCGGCTAGGCTCGA
Found at i:4477940 original size:11 final size:11
Alignment explanation
Indices: 4477924--4477987 Score: 83
Period size: 11 Copynumber: 5.6 Consensus size: 11
4477914 TCGAAACTCT
4477924 AGCTCGATTGA
1 AGCTCGATTGA
*
4477935 AGCTCGATTTGG
1 AGCTCGA-TTGA
*
4477947 AGCTCGATTCA
1 AGCTCGATTGA
4477958 AGCTCGATTTGA
1 AGCTCGA-TTGA
*
4477970 AGCTCGATTCA
1 AGCTCGATTGA
4477981 AGCTCGA
1 AGCTCGA
4477988 CAGGTTAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
11 26 0.57
12 20 0.43
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:4477953 original size:23 final size:23
Alignment explanation
Indices: 4477924--4477987 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
4477914 TCGAAACTCT
* *
4477924 AGCTCGATTGAAGCTCGATTTGG
1 AGCTCGATTCAAGCTCGATTTGA
4477947 AGCTCGATTCAAGCTCGATTTGA
1 AGCTCGATTCAAGCTCGATTTGA
4477970 AGCTCGATTCAAGCTCGA
1 AGCTCGATTCAAGCTCGA
4477988 CAGGTTAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (23 bp):
AGCTCGATTCAAGCTCGATTTGA
Found at i:4479773 original size:14 final size:14
Alignment explanation
Indices: 4479737--4479816 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
4479727 AATTAAGGGC
*
4479737 TTAGGGTTTATGGT
1 TTAGGATTTATGGT
** *
4479751 TTACTATTTATTGT
1 TTAGGATTTATGGT
*
4479765 TTAGGATTTAGGGT
1 TTAGGATTTATGGT
* * *
4479779 TTAGTACTTAGGGAT
1 TTAGGATTTATGG-T
*
4479794 TAAGGA-TTATGGT
1 TTAGGATTTATGGT
*
4479807 TTAGGGTTTA
1 TTAGGATTTA
4479817 GAGGGTTAGA
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
13 5 0.10
14 39 0.80
15 5 0.10
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.47
Consensus pattern (14 bp):
TTAGGATTTATGGT
Found at i:4479869 original size:21 final size:21
Alignment explanation
Indices: 4479786--4479874 Score: 79
Period size: 21 Copynumber: 4.1 Consensus size: 21
4479776 GGTTTAGTAC
* * *
4479786 TTAGGGATTAAGGATTATGGT
1 TTAGGGATTAAGGGTTAGGGA
* *
4479807 TTAGGGTTTAGAGGGTTAGAGGG
1 TTAGGGATTA-AGGGTTAG-GGA
* *
4479830 TTAGGGATTAATGTTTAGGGA
1 TTAGGGATTAAGGGTTAGGGA
* *
4479851 TTAGGGATTAAGGGCTAGGTA
1 TTAGGGATTAAGGGTTAGGGA
4479872 TTA
1 TTA
4479875 TGATTTAGGG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
21 31 0.57
22 12 0.22
23 11 0.20
ACGTcount: A:0.27, C:0.01, G:0.37, T:0.35
Consensus pattern (21 bp):
TTAGGGATTAAGGGTTAGGGA
Found at i:4480480 original size:25 final size:25
Alignment explanation
Indices: 4480433--4480480 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
4480423 TATAATCATC
* * * *
4480433 AATAGTGTATTTTTAATATATCTTT
1 AATAATGTAATTTTAAAAAATCTTT
4480458 AATAATGTAATTTTAAAAAATCT
1 AATAATGTAATTTTAAAAAATCT
4480481 AAAATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (25 bp):
AATAATGTAATTTTAAAAAATCTTT
Found at i:4480582 original size:6 final size:6
Alignment explanation
Indices: 4480565--4480599 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
4480555 TCGTTAAGAA
4480565 CTCGAG -TCGAG CTCGAG CTCGAG CTCGAG CTCGAG
1 CTCGAG CTCGAG CTCGAG CTCGAG CTCGAG CTCGAG
4480600 TTCATTCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.17
Consensus pattern (6 bp):
CTCGAG
Found at i:4488108 original size:26 final size:27
Alignment explanation
Indices: 4488069--4488141 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
4488059 TTGGACATAA
*
4488069 GAAAATGACTAAAATACCCTTGAACTGT
1 GAAAA-GACCAAAATACCCTTGAACTGT
* *
4488097 -AAAAGACCAAAATACACTTGAAGTGT
1 GAAAAGACCAAAATACCCTTGAACTGT
4488123 GAAATA-ACCTAAAATACCC
1 GAAA-AGACC-AAAATACCC
4488142 CAAGCCTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 19 0.50
27 10 0.26
28 9 0.24
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (27 bp):
GAAAAGACCAAAATACCCTTGAACTGT
Found at i:4488165 original size:25 final size:26
Alignment explanation
Indices: 4488134--4488188 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
4488124 AAATAACCTA
*
4488134 AAATACCC-CAAGC-CTTGGAATGACT
1 AAATACCCTCAAGCTC-TGGAATGAAT
*
4488159 AAATACCCTTAAGCTCTGGAATGAAT
1 AAATACCCTCAAGCTCTGGAATGAAT
4488185 AAAT
1 AAAT
4488189 CTACCTAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 17 0.65
27 1 0.04
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.24
Consensus pattern (26 bp):
AAATACCCTCAAGCTCTGGAATGAAT
Done.