Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 14 of 160
Found at i:4241550 original size:18 final size:18
Alignment explanation
Indices: 4241523--4241563 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4241513 GGTGTCATCT
*
4241523 TCTTCTTCTTCCTCTTCC
1 TCTTCATCTTCCTCTTCC
* *
4241541 TCTTCATCTTCGTCTTCG
1 TCTTCATCTTCCTCTTCC
4241559 TCTTC
1 TCTTC
4241564 TTTGTCGTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.39, G:0.05, T:0.54
Consensus pattern (18 bp):
TCTTCATCTTCCTCTTCC
Found at i:4241574 original size:27 final size:27
Alignment explanation
Indices: 4241516--4241581 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
4241506 CATCGTCGGT
* *
4241516 GTCATCTTCTTCTTCTTCCTCTTCCTC
1 GTCATCTTCGTCTTCGTCCTCTTCCTC
* * **
4241543 TTCATCTTCGTCTTCGTCTTCTTTGTC
1 GTCATCTTCGTCTTCGTCCTCTTCCTC
*
4241570 GTCATCTCCGTC
1 GTCATCTTCGTC
4241582 ATCAACTTCG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.05, C:0.36, G:0.09, T:0.50
Consensus pattern (27 bp):
GTCATCTTCGTCTTCGTCCTCTTCCTC
Found at i:4242058 original size:16 final size:17
Alignment explanation
Indices: 4242022--4242063 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
4242012 ATAATAACGG
4242022 TAAAATT-AATTAATAT
1 TAAAATTAAATTAATAT
*
4242038 AAAAATTAAATTAA-AT
1 TAAAATTAAATTAATAT
*
4242054 TAAAAGTAAA
1 TAAAATTAAA
4242064 ATATGTATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAAATTAAATTAATAT
Found at i:4243144 original size:53 final size:52
Alignment explanation
Indices: 4242972--4243147 Score: 193
Period size: 50 Copynumber: 3.4 Consensus size: 52
4242962 TATTTTATTA
*
4242972 TTATATTATAATTATAAAAATATCTCTTATT-TTATAATTATTTACTTA-ATATAT-
1 TTATATCATAATTATAAAAATAT-T-TT-TTCTTATAATTATTTA-TTATA-ATATC
* * * *
4243026 TTATACCATAATTACAAAAATACTTTTTTCATA-AATTAATTATTAT-AT-TC
1 TTATATCATAATTATAAAAATA-TTTTTTCTTATAATTATTTATTATAATATC
*
4243076 TCATATCATAATTATAAAAATATTTTTTCTTATAATTATTTATTATAATACTC
1 TTATATCATAATTATAAAAATATTTTTTCTTATAATTATTTATTATAATA-TC
4243129 TTATATCATAATTATAAAA
1 TTATATCATAATTATAAAA
4243148 TACCCTTTTC
Statistics
Matches: 103, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
49 10 0.10
50 33 0.32
51 5 0.05
52 10 0.10
53 24 0.23
54 20 0.19
55 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (52 bp):
TTATATCATAATTATAAAAATATTTTTTCTTATAATTATTTATTATAATATC
Found at i:4243156 original size:104 final size:104
Alignment explanation
Indices: 4242954--4243147 Score: 263
Period size: 104 Copynumber: 1.9 Consensus size: 104
4242944 ACATGTATTC
* * *
4242954 AAATTAATTATTTTATTATTATATTATAATTATAAAAATATCTCTTATTTTATAATTATTTACTT
1 AAATTAATTATTATATTATCATATCATAATTATAAAAATATCTCTTATTTTATAATTATTTACTT
4243019 AATATATTTATACCATAATTACAAAAATACTTTTTTCAT
66 AATATATTTATACCATAATTACAAAAATACTTTTTTCAT
*
4243058 AAATTAATTATTATATTCTCATATCATAATTATAAAAATAT-T-TT-TTCTTATAATTATTTA-T
1 AAATTAATTATTATATTATCATATCATAATTATAAAAATATCTCTTATT-TTATAATTATTTACT
* *
4243119 T-ATAATACTCTTATATCATAATTATAAAA
65 TAAT-ATA-T-TTATACCATAATTACAAAA
4243148 TACCCTTTTC
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
100 2 0.03
101 7 0.09
102 16 0.20
103 18 0.22
104 37 0.46
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (104 bp):
AAATTAATTATTATATTATCATATCATAATTATAAAAATATCTCTTATTTTATAATTATTTACTT
AATATATTTATACCATAATTACAAAAATACTTTTTTCAT
Found at i:4243173 original size:31 final size:29
Alignment explanation
Indices: 4243137--4243209 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 29
4243127 TCTTATATCA
*
4243137 TAATTATAAAATACCCTTTTCACTTATTAT
1 TAATTATAAAATA-CATTTTCACTTATTAT
*
4243167 TGAATTATGAAAATACATTTTCTCTTATTAT
1 T-AATTAT-AAAATACATTTTCACTTATTAT
4243198 TAATTA-AAAATA
1 TAATTATAAAATA
4243210 TTATAATACC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 6 0.15
30 6 0.15
31 21 0.54
32 6 0.15
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (29 bp):
TAATTATAAAATACATTTTCACTTATTAT
Found at i:4243810 original size:35 final size:35
Alignment explanation
Indices: 4243762--4243837 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
4243752 AAATAGTCAA
* * *
4243762 AATT-ATTATAATTATAGAAATACCCTTTTACTAT
1 AATTAATTAAAATTATAAAAATACCATTTTACTAT
*
4243796 AATTAATTAAAATTATAAAAATACTATTTTACTAT
1 AATTAATTAAAATTATAAAAATACCATTTTACTAT
4243831 AATTAAT
1 AATTAAT
4243838 CAATATTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 4 0.11
35 33 0.89
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.43
Consensus pattern (35 bp):
AATTAATTAAAATTATAAAAATACCATTTTACTAT
Found at i:4243860 original size:35 final size:36
Alignment explanation
Indices: 4243787--4243871 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 36
4243777 AGAAATACCC
*
4243787 TTTTACTATAATTAATTAAAATTATAAAAATACTA-
1 TTTTACTATAATTAATCAAAATTATAAAAATACTAT
* *
4243822 TTTTACTATAATTAATCAATATTACT-ATAATA-TCAT
1 TTTTACTATAATTAATCAAAATTA-TAAAAATACT-AT
*
4243858 TTTTACCATAATTA
1 TTTTACTATAATTA
4243872 TAAAAATACC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
34 1 0.02
35 28 0.65
36 14 0.33
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.46
Consensus pattern (36 bp):
TTTTACTATAATTAATCAAAATTATAAAAATACTAT
Found at i:4243863 original size:17 final size:18
Alignment explanation
Indices: 4243821--4243869 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
4243811 TAAAAATACT
4243821 ATTTTACTATAATTAATCA
1 ATTTTACTATAA-TAATCA
*
4243840 ATATTACTATAAT-ATCA
1 ATTTTACTATAATAATCA
* *
4243857 TTTTTACCATAAT
1 ATTTTACTATAAT
4243870 TATAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 14 0.54
18 1 0.04
19 11 0.42
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTACTATAATAATCA
Found at i:4244115 original size:20 final size:20
Alignment explanation
Indices: 4244086--4244140 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
4244076 ATTCGAAATT
*
4244086 AATA-AAATATTATTTTTTA
1 AATATAAATATTAATTTTTA
4244105 AATATAAATATTAATTTTTA
1 AATATAAATATTAATTTTTA
4244125 AATAT-AATATATAATT
1 AATATAAATAT-TAATT
4244141 ATAATAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 9 0.27
20 24 0.73
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATAAATATTAATTTTTA
Found at i:4244159 original size:11 final size:12
Alignment explanation
Indices: 4244143--4244172 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4244133 ATATAATTAT
4244143 AATAATTA-AAA
1 AATAATTACAAA
4244154 AATAATTACAAA
1 AATAATTACAAA
4244166 AATAATT
1 AATAATT
4244173 TTAATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATTACAAA
Found at i:4247954 original size:60 final size:61
Alignment explanation
Indices: 4247833--4247961 Score: 149
Period size: 60 Copynumber: 2.1 Consensus size: 61
4247823 AAAATATTTT
* *
4247833 TAATATTTCAATAATAAATAGTAATATATTCTTATTTTAATAATAAATAATAACATATATAA
1 TAATATTTAAATAATAAATAG-AATATATTATTATTTTAATAATAAATAATAACATATATAA
* * *
4247895 TAATATGTTAAATAATAAA-A-AATATTTTATTATTTTAATAATTAAT-GTCAA-ATAGTATAA
1 TAATAT-TTAAATAATAAATAGAATATATTATTATTTTAATAATAAATAAT-AACATA-TATAA
4247955 TAATATT
1 TAATATT
4247962 ATTTTCTTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
59 5 0.08
60 36 0.61
62 7 0.12
63 11 0.19
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (61 bp):
TAATATTTAAATAATAAATAGAATATATTATTATTTTAATAATAAATAATAACATATATAA
Found at i:4248164 original size:43 final size:42
Alignment explanation
Indices: 4248109--4248199 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 42
4248099 AATAGATAAC
* * * *
4248109 TTTTAATATAATAGTATA-AATATTTTAATAATAAATATTACTA
1 TTTTAATATAATA-AAAAGAATATTTTAAGAAT-AATAATACTA
* *
4248152 TTTTAATTTAATAAAAAGAATATTTTAAGAATAGTAATACTA
1 TTTTAATATAATAAAAAGAATATTTTAAGAATAATAATACTA
4248194 TTTTAA
1 TTTTAA
4248200 ATATTTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 16 0.39
43 25 0.61
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.45
Consensus pattern (42 bp):
TTTTAATATAATAAAAAGAATATTTTAAGAATAATAATACTA
Found at i:4248295 original size:26 final size:25
Alignment explanation
Indices: 4248233--4248296 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
4248223 ATTATTCTTG
4248233 AATATTAATAA-TTTTAATATACTTT
1 AATATTAATAATTTTTAATATA-TTT
*
4248258 AATAATAAATAATTTTTAATAT-TTT
1 AAT-ATTAATAATTTTTAATATATTT
4248283 AATAGTTATATAAT
1 AATA-TTA-ATAAT
4248297 ATTATTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
24 1 0.03
25 11 0.33
26 12 0.36
27 9 0.27
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
AATATTAATAATTTTTAATATATTT
Found at i:4249128 original size:33 final size:33
Alignment explanation
Indices: 4249086--4249168 Score: 157
Period size: 33 Copynumber: 2.5 Consensus size: 33
4249076 AGCAATCCAT
4249086 CATATTACCTTTGTCATTTACAGATGTTAAAGC
1 CATATTACCTTTGTCATTTACAGATGTTAAAGC
4249119 CATATTACCTTTGTCATTTACAGATGTTAAAGC
1 CATATTACCTTTGTCATTTACAGATGTTAAAGC
4249152 CATATTACCTGTTGTCA
1 CATATTACCT-TTGTCA
4249169 AAGGTTTACT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 43 0.88
34 6 0.12
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (33 bp):
CATATTACCTTTGTCATTTACAGATGTTAAAGC
Found at i:4251519 original size:3 final size:3
Alignment explanation
Indices: 4251511--4251547 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4251501 CACTTTATTG
4251511 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4251548 AAGAACACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4254577 original size:23 final size:23
Alignment explanation
Indices: 4254550--4254600 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
4254540 ATTTTTTATT
4254550 TTTAT-ATATCATTTTAATATAAA
1 TTTATAATAT-ATTTTAATATAAA
4254573 TTTATAATATATTTTAATATAAA
1 TTTATAATATATTTTAATATAAA
*
4254596 ATTAT
1 TTTAT
4254601 TTTTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTATAATATATTTTAATATAAA
Found at i:4254750 original size:24 final size:24
Alignment explanation
Indices: 4254723--4254791 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
4254713 ATATATATTT
* *
4254723 AATATTTAAATTTAATTTGAAA-TA
1 AATATTAAAATTTAAATT-AAATTA
**
4254747 AATAAAAAAATTTAAATTAAATTA
1 AATATTAAAATTTAAATTAAATTA
*
4254771 AATATTATAATTTCAAATTAA
1 AATATTAAAATTT-AAATTAA
4254792 TTTTTAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 3 0.08
24 26 0.72
25 7 0.19
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (24 bp):
AATATTAAAATTTAAATTAAATTA
Found at i:4255132 original size:5 final size:5
Alignment explanation
Indices: 4255122--4255148 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4255112 ATTATAAAAG
4255122 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
4255149 TTTATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:4257015 original size:22 final size:22
Alignment explanation
Indices: 4256990--4257032 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4256980 ATAATTTTTT
* *
4256990 AATTATAATTAAATAATTATAA
1 AATTATAATAAAAAAATTATAA
4257012 AATTATAATAAAAAAATTATA
1 AATTATAATAAAAAAATTATA
4257033 GATGATACGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATTATAATAAAAAAATTATAA
Found at i:4260817 original size:19 final size:21
Alignment explanation
Indices: 4260781--4260830 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
4260771 GTTCAAGCCG
*
4260781 AATTATTATTTTATTA-TTTAA
1 AATTATT-TTTTAATATTTTAA
4260802 AA-TATTTTTTAATATTTTAA
1 AATTATTTTTTAATATTTTAA
4260822 AATTATTTT
1 AATTATTTT
4260831 GATTGGTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 7 0.27
20 11 0.42
21 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTATTTTTTAATATTTTAA
Found at i:4261892 original size:16 final size:15
Alignment explanation
Indices: 4261847--4261893 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
4261837 TTATAATAAA
4261847 ATTATAAATTTATGTTT
1 ATTATAAATTT-T-TTT
4261864 ATTATAAATTTTTTT
1 ATTATAAATTTTTTT
4261879 ATATATAATATTTTT
1 AT-TATAA-ATTTTT
4261894 AGATAAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.18
16 6 0.21
17 17 0.61
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
ATTATAAATTTTTTT
Found at i:4265083 original size:2 final size:2
Alignment explanation
Indices: 4265076--4265112 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4265066 GCAACTCTAT
*
4265076 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4265113 GTCAACCTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4267298 original size:19 final size:19
Alignment explanation
Indices: 4267261--4267300 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
4267251 CATTTTTGAC
4267261 ATTTCTATTTTCAAGAAAA
1 ATTTCTATTTTCAAGAAAA
4267280 ATTT-TATTTTCAAGAAAA
1 ATTTCTATTTTCAAGAAAA
4267298 ATT
1 ATT
4267301 GATACTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (19 bp):
ATTTCTATTTTCAAGAAAA
Found at i:4267309 original size:19 final size:18
Alignment explanation
Indices: 4267269--4267311 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
4267259 ACATTTCTAT
* *
4267269 TTTCAAGAAAAATTTTAT
1 TTTCAAGAAAAATTATAC
4267287 TTTCAAGAAAAATTGATAC
1 TTTCAAGAAAAATT-ATAC
4267306 TTTCAA
1 TTTCAA
4267312 CTTTTTCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (18 bp):
TTTCAAGAAAAATTATAC
Found at i:4267354 original size:60 final size:58
Alignment explanation
Indices: 4267276--4267690 Score: 428
Period size: 61 Copynumber: 7.0 Consensus size: 58
4267266 TATTTTCAAG
*
4267276 AAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAATTCCTTTTTT
1 AAAAATTTTA-TTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAATT--TTTTTT
* *
4267337 AAAAATTTTATTTCAAGAAAAATTGATACTTTCAAATTTTTCTC-AAAAATGTTTTTTT
1 AAAAATTTTATTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAT-TTTTTTT
* * * *
4267395 --TAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTTCTAAAAAAAATCTTTTTTT
1 AAAAATTTTA-TTTCAAGAAAAATTGATACTTTCAACTTTTCCT-CAAAAAAT-TTTTTTT
* * *
4267454 AAAAAATTTTATTTCAA-AGAAAATTGATACTTTCAACTTTTCCT-TAAAAATATTTTTG
1 -AAAAATTTTATTTCAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTT
* * * * * * * **
4267512 AAAAGTTTATTTTTAAAG-AAAATTGTTACTTTCAACTTATCCTTAAAAAAAATTTTTAA
1 AAAAATTT-TATTTCAAGAAAAATTGATACTTTCAACTTTTCC-TCAAAAAATTTTTTTT
* * *
4267571 AAAAATTTTGTTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTT
1 AAAAATTTT-ATTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA-A-TTTTTTTT
* *
4267632 GAAAATTTTATTTTCAAGAAAATTTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAAATTTTA-TTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTT
4267691 AGAATTTTTA
Statistics
Matches: 302, Mismatches: 35, Indels: 35
0.81 0.09 0.09
Matches are distributed among these distances:
56 7 0.02
57 60 0.20
58 19 0.06
59 54 0.18
60 65 0.22
61 90 0.30
62 7 0.02
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (58 bp):
AAAAATTTTATTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTT
Found at i:4267407 original size:117 final size:116
Alignment explanation
Indices: 4267279--4267701 Score: 494
Period size: 117 Copynumber: 3.6 Consensus size: 116
4267269 TTTCAAGAAA
* * *
4267279 AATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAATTCCTTTTTTAAAAATT
1 AATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAT-CTTTTTTAAAAATT
* * * *
4267344 TTATTTCAAGAAAAATTGATACTTTCAAATTTTTCTCAAAAATGTTTTTTTT
65 TTATTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTT
* *
4267396 AATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTTCTAAAAAAAATCTTTTTTTAAAAAAT
1 AATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAATC-TTTTTT-AAAAAT
***
4267461 TTTATTTCAA-AGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTGAA
64 TTTATTTCAAGA-AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTT
* * * * **
4267514 AAGTTTATTTTTAA-AGAAAATTGTTACTTTCAACTTATCCTTAAAAAAAAT-TTTTAAAAAAAT
1 AATTTTATTTTCAAGA-AAAATTGATACTTTCAACTTTTCC-TAAAAAAAATCTTTTTTAAAAAT
* *
4267577 TTTGTTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTT
64 TTT-ATTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATA-TTTTTTTT
* * * * *
4267632 GAAAATTTTATTTTCAAGAAAATTTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTAGAAT
1 ---AATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAATCTTTTTTAAAAA
4267696 TTTTAT
63 TTTTAT
4267702 ATAAAAAAGA
Statistics
Matches: 259, Mismatches: 35, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
116 10 0.04
117 98 0.38
118 87 0.34
119 11 0.04
120 19 0.07
121 33 0.13
122 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (116 bp):
AATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAATCTTTTTTAAAAATTT
TATTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTT
Found at i:4267779 original size:4 final size:4
Alignment explanation
Indices: 4267770--4267841 Score: 55
Period size: 4 Copynumber: 18.5 Consensus size: 4
4267760 TCACATCAAC
* *
4267770 AAAT AAAT AAAC AAAT -AAT -AAT -AAT -AAT GATAAT AAAT AAAC AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -A-AAT AAAT AAAT AAAT
*
4267816 ACAA- AAAT AAAT AAAT AGAT AAAT AA
1 A-AAT AAAT AAAT AAAT AAAT AAAT AA
4267842 GATTTAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
3 14 0.25
4 37 0.65
5 3 0.05
6 3 0.05
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:4268694 original size:14 final size:14
Alignment explanation
Indices: 4268658--4268698 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 14
4268648 AATTTGATTC
*
4268658 AAAAATATAAAAAT
1 AAAAATAAAAAAAT
4268672 AAATCAATAAAAAAAT
1 AAA--AATAAAAAAAT
4268688 AAAAATAAAAA
1 AAAAATAAAAA
4268699 TAGGTGTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.46
16 13 0.54
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:4269061 original size:86 final size:86
Alignment explanation
Indices: 4268964--4269560 Score: 523
Period size: 86 Copynumber: 6.9 Consensus size: 86
4268954 GACATAGGGT
* * *
4268964 GAAATCCAAAAGCAAAATGACCTGGTTTAAAG-CGAAGTCTGAAAAGAATAATTTGGACTAAGCT
1 GAAATCTAAAAGCAAAATGACCTGGTCT-AAGTCGAAGTCTGAAAAGAATAATCTGGACTAAGCT
*
4269028 GAAGAAAGATCTAGCATATACC
65 GAAGAAGGATCTAGCATATACC
* * * * *
4269050 GAAATCTAAAAGTAAAATGACCTGGTCTGAGCCGGAGTCTGAAAAGAATAATCTAGACTAAGCTG
1 GAAATCTAAAAGCAAAATGACCTGGTCTAAGTCGAAGTCTGAAAAGAATAATCTGGACTAAGCTG
* * * *
4269115 ACGAAGGATTTAGCATAAATC
66 AAGAAGGATCTAGCATATACC
* * *
4269136 TAAATCTAAAAGCAAAAGCAAAATGACATGGTCTAAGTC-AGAGTCTGAAAAGAATAATCTAGAC
1 GAAATCT------AAAAGCAAAATGACCTGGTCTAAGTCGA-AGTCTGAAAAGAATAATCTGGAC
* * *
4269200 TAAG-TTAATGAAAGATCTGGCATA-AGCC
59 TAAGCTGAA-GAAGGATCTAGCATATA-CC
* * * * *
4269228 GAAATCCAAAAGTAAAATGACCTGGTCTGAA-CCAAAGTCTGAAAAAAATAATCTGGACTAAGCT
1 GAAATCTAAAAGCAAAATGACCTGGTCT-AAGTCGAAGTCTGAAAAGAATAATCTGGACTAAGCT
* **
4269292 AAAGAAGGATCT-GACATATGTC
65 GAAGAAGGATCTAG-CATATACC
** *
4269314 -ACAATCTAAAAGCAAAATGACCTAATCTAAGTCGAAGTCTGAAAAGAATAATCTGGACTAAACT
1 GA-AATCTAAAAGCAAAATGACCTGGTCTAAGTCGAAGTCTGAAAAGAATAATCTGGACTAAGCT
* * *
4269378 GAATAAGGATCTAACATAT-GC
65 GAAGAAGGATCTAGCATATACC
* ** * * * *
4269399 TAAACTCTAAAAGCAAAATGACCTAAAT-TGAGCCGAAG-CTTAAAAAGAATAATTTGGACTAAG
1 GAAA-TCTAAAAGCAAAATGACCT-GGTCTAAGTCGAAGTC-TGAAAAGAATAATCTGGACTAAG
* * * *
4269462 TTGAAGAAAGATCTGGCATATGCC
63 CTGAAGAAGGATCTAGCATATACC
* * * * *
4269486 AAAAT-TCAAAAGCAAAATGACATGGTCTGAGTCGAAGTCTGAAAAGAATAATCTGGATTAAGAT
1 GAAATCT-AAAAGCAAAATGACCTGGTCTAAGTCGAAGTCTGAAAAGAATAATCTGGACTAAGCT
4269550 GAAGAAGGATC
65 GAAGAAGGATC
4269561 CAAAAGTAAA
Statistics
Matches: 417, Mismatches: 68, Indels: 52
0.78 0.13 0.10
Matches are distributed among these distances:
85 12 0.03
86 321 0.77
87 14 0.03
91 3 0.01
92 67 0.16
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (86 bp):
GAAATCTAAAAGCAAAATGACCTGGTCTAAGTCGAAGTCTGAAAAGAATAATCTGGACTAAGCTG
AAGAAGGATCTAGCATATACC
Found at i:4269232 original size:178 final size:178
Alignment explanation
Indices: 4268970--4269422 Score: 475
Period size: 178 Copynumber: 2.6 Consensus size: 178
4268960 GGGTGAAATC
* * * *
4268970 CAAAAGCAAAATGACCTGGTTTAAAGCGAAGTCTGAAAAGAATAATTTGGACTAAGCTGAAGAAA
1 CAAAAGCAAAATGACATGGTCTAAAGCGAAGTCTGAAAAGAATAATCTAGACTAAGCTGAAGAAA
* * ** *
4269035 GATCTAGCATATACCGAAATCTAAAAGTAAAATGACCTGGTCTGAGCCGGAGTCTGAAAAGAATA
66 GATCTAGCATATACCGAAATCCAAAAGTAAAATGACCTGGTCTGAACCAAAGTCTGAAAAAAATA
* *
4269100 ATCTAGACTAAGCTGACGAAGGATTTAGCATAAATCTAAATCTAAAAG
131 ATCTAGACTAAGCTAAAGAAGGATTTAGCATAAATCTAAATCTAAAAG
*
4269148 CAAAAGCAAAATGACATGGTCT-AAGTC-AGAGTCTGAAAAGAATAATCTAGACTAAG-TTAATG
1 CAAAAGCAAAATGACATGGTCTAAAG-CGA-AGTCTGAAAAGAATAATCTAGACTAAGCTGAA-G
*
4269210 AAAGATCTGGCATA-AGCCGAAATCCAAAAGTAAAATGACCTGGTCTGAACCAAAGTCTGAAAAA
63 AAAGATCTAGCATATA-CCGAAATCCAAAAGTAAAATGACCTGGTCTGAACCAAAGTCTGAAAAA
* * **
4269274 AATAATCTGGACTAAGCTAAAGAAGGATCT-GACATATGTC-ACAATCT-----
127 AATAATCTAGACTAAGCTAAAGAAGGATTTAG-CATAAATCTA-AATCTAAAAG
* ** * * *
4269321 -AAAAGCAAAATGACCTAATCT-AAGTCGAAGTCTGAAAAGAATAATCTGGACTAAACTGAATAA
1 CAAAAGCAAAATGACATGGTCTAAAG-CGAAGTCTGAAAAGAATAATCTAGACTAAGCTGAAGAA
* * * * * *
4269384 GGATCTAACATAT-GCTAAACTCTAAAAGCAAAATGACCT
65 AGATCTAGCATATACCGAAA-TCCAAAAGTAAAATGACCT
4269423 AAATTGAGCC
Statistics
Matches: 234, Mismatches: 31, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
171 4 0.02
172 76 0.32
173 4 0.02
177 10 0.04
178 140 0.60
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (178 bp):
CAAAAGCAAAATGACATGGTCTAAAGCGAAGTCTGAAAAGAATAATCTAGACTAAGCTGAAGAAA
GATCTAGCATATACCGAAATCCAAAAGTAAAATGACCTGGTCTGAACCAAAGTCTGAAAAAAATA
ATCTAGACTAAGCTAAAGAAGGATTTAGCATAAATCTAAATCTAAAAG
Found at i:4269459 original size:172 final size:171
Alignment explanation
Indices: 4268931--4269750 Score: 652
Period size: 172 Copynumber: 4.8 Consensus size: 171
4268921 ATAAACAACT
* * * * * * *
4268931 TGGACTAAGCTAAAAAAGGATATGACATAGGGTGAAATC-CAAAAGCAAAATGACCTGGTTTAAA
1 TGGACTAAGCTAAAGAAGGATCTGACATA-TGTCAAATCTAAAAAGCAAAATGACATGGTCT-AA
* * *
4268995 G-CGAAGTCTGAAAAGAATAATTTGGACTAAGCTGAAGAAAGATCTAGCATATACCGAAATCTAA
64 GTCGAAGTCTGAAAAGAATAATCTGGACTAAACTGAAGAAAGATCTAGCATAT-GCGAAATCTAA
* *
4269059 AAGTAAAATGACCTGGTCTGAGCCGGAG-TCTGAAAAGAATAATC
128 AAGTAAAATGACCTGGTCTGAGCCGAAGCT-TAAAAAGAATAATC
* * * * **
4269103 TAGACTAAGCTGACGAAGGAT-TTAGCATAAATCTAAATCTAAAAGCAAAAGCAAAATGACATGG
1 TGGACTAAGCTAAAGAAGGATCTGA-CATATGTC-AAATCT---A--AAAAGCAAAATGACATGG
* * * * *
4269167 TCTAAGTC-AGAGTCTGAAAAGAATAATCTAGACT-AAGTTAATGAAAGATCTGGCATAAGCCGA
59 TCTAAGTCGA-AGTCTGAAAAGAATAATCTGGACTAAACTGAA-GAAAGATCTAGCATATG-CGA
* * * *
4269230 AATCCAAAAGTAAAATGACCTGGTCTGAACCAAAGTCTGAAAAA-AATAATC
121 AATCTAAAAGTAAAATGACCTGGTCTGAGCCGAAG-CTTAAAAAGAATAATC
* **
4269281 TGGACTAAGCTAAAGAAGGATCTGACATATGTCACAATCT-AAAAGCAAAATGACCTAATCTAAG
1 TGGACTAAGCTAAAGAAGGATCTGACATATGTCA-AATCTAAAAAGCAAAATGACATGGTCTAAG
* * * *
4269345 TCGAAGTCTGAAAAGAATAATCTGGACTAAACTGAATAAGGATCTAACATATGCTAAACTCTAAA
65 TCGAAGTCTGAAAAGAATAATCTGGACTAAACTGAAGAAAGATCTAGCATATGCGAAA-TCTAAA
* ** *
4269410 AGCAAAATGACCTAAAT-TGAGCCGAAGCTTAAAAAGAATAATT
129 AGTAAAATGACCT-GGTCTGAGCCGAAGCTTAAAAAGAATAATC
* * * * * * *
4269453 TGGACTAAGTTGAAGAAAGATCTGGCATATGCCAAAAT-TCAAAAGCAAAATGACATGGTCTGAG
1 TGGACTAAGCTAAAGAAGGATCTGACATATGTC-AAATCTAAAAAGCAAAATGACATGGTCTAAG
* *
4269517 TCGAAGTCTGAAAAGAATAATCTGGA-T----T-AAG-ATGA---AG-A-A-G-G--ATCCAAAA
65 TCGAAGTCTGAAAAGAATAATCTGGACTAAACTGAAGAAAGATCTAGCATATGCGAAATCTAAAA
* * * *
4269566 GTAAAATGACCTGGTCTAAGCCAAAG-TAAAAAAAGAATAATT
130 GTAAAATGACCTGGTCTGAGCCGAAGCT-TAAAAAGAATAATC
* * * * * * *
4269608 TAGACTAAGCTGAAGAAGGATCTGGCATATGCTGAAATC-CAAAAGCAAAATGACCTGGTCTAAA
1 TGGACTAAGCTAAAGAAGGATCTGACATATG-TCAAATCTAAAAAGCAAAATGACATGGTCTAAG
* * * * * *
4269672 CCGAAGTCTGAAAAGAATAATTTAGACTAAGCTGAAGAAAGATCTGGCATATGTCGAAATCCAAA
65 TCGAAGTCTGAAAAGAATAATCTGGACTAAACTGAAGAAAGATCTAGCATATG-CGAAATCTAAA
**
4269737 AACAAAATGACCTG
129 AGTAAAATGACCTG
4269751 AATTAAGCTG
Statistics
Matches: 518, Mismatches: 86, Indels: 88
0.75 0.12 0.13
Matches are distributed among these distances:
154 2 0.00
155 115 0.22
156 2 0.00
159 1 0.00
160 2 0.00
161 4 0.01
162 4 0.01
165 4 0.01
166 3 0.01
167 2 0.00
168 1 0.00
170 1 0.00
171 16 0.03
172 211 0.41
173 8 0.02
177 9 0.02
178 126 0.24
179 6 0.01
180 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (171 bp):
TGGACTAAGCTAAAGAAGGATCTGACATATGTCAAATCTAAAAAGCAAAATGACATGGTCTAAGT
CGAAGTCTGAAAAGAATAATCTGGACTAAACTGAAGAAAGATCTAGCATATGCGAAATCTAAAAG
TAAAATGACCTGGTCTGAGCCGAAGCTTAAAAAGAATAATC
Found at i:4269572 original size:69 final size:69
Alignment explanation
Indices: 4269492--4269629 Score: 168
Period size: 69 Copynumber: 2.0 Consensus size: 69
4269482 TGCCAAAATT
* * * *** * *
4269492 CAAAAGCAAAATGACATGGTCTGAGTCGAAGTCTGAAAAGAATAATCTGGATTAAGATGAAGAAG
1 CAAAAGCAAAATGACATGGTCTAAGCCAAAGTAAAAAAAGAATAATCTAGACTAAGATGAAGAAG
4269557 GATC
66 GATC
* * * *
4269561 CAAAAGTAAAATGACCTGGTCTAAGCCAAAGTAAAAAAAGAATAATTTAGACTAAGCTGAAGAAG
1 CAAAAGCAAAATGACATGGTCTAAGCCAAAGTAAAAAAAGAATAATCTAGACTAAGATGAAGAAG
4269626 GATC
66 GATC
4269630 TGGCATATGC
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (69 bp):
CAAAAGCAAAATGACATGGTCTAAGCCAAAGTAAAAAAAGAATAATCTAGACTAAGATGAAGAAG
GATC
Found at i:4269686 original size:86 final size:86
Alignment explanation
Indices: 4269558--4269750 Score: 298
Period size: 86 Copynumber: 2.2 Consensus size: 86
4269548 ATGAAGAAGG
* *
4269558 ATCCAAAAGTAAAATGACCTGGTCTAAGCCAAAGTAAAAAAAGAATAATTTAGACTAAGCTGAAG
1 ATCCAAAAGCAAAATGACCTGGTCTAAACCAAAGTAAAAAAAGAATAATTTAGACTAAGCTGAAG
*
4269623 AAGGATCTGGCATATG-CTGAA
66 AAAGATCTGGCATATGTC-GAA
* ***
4269644 ATCCAAAAGCAAAATGACCTGGTCTAAACCGAAGTCTGAAAAGAATAATTTAGACTAAGCTGAAG
1 ATCCAAAAGCAAAATGACCTGGTCTAAACCAAAGTAAAAAAAGAATAATTTAGACTAAGCTGAAG
4269709 AAAGATCTGGCATATGTCGAA
66 AAAGATCTGGCATATGTCGAA
*
4269730 ATCCAAAAACAAAATGACCTG
1 ATCCAAAAGCAAAATGACCTG
4269751 AATTAAGCTG
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 97 0.99
87 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (86 bp):
ATCCAAAAGCAAAATGACCTGGTCTAAACCAAAGTAAAAAAAGAATAATTTAGACTAAGCTGAAG
AAAGATCTGGCATATGTCGAA
Found at i:4270701 original size:53 final size:53
Alignment explanation
Indices: 4270636--4270748 Score: 156
Period size: 53 Copynumber: 2.2 Consensus size: 53
4270626 TATTTATTTA
* * * *
4270636 TTTATTTATTTTTGAACTCAAATTGCCTTTTACGAGTTTTCAATTTAAGCTAT
1 TTTATTTTTTTTTAAACTCAAACTACCTTTTACGAGTTTTCAATTTAAGCTAT
* * *
4270689 TTTATTTTTTTTTAAACTCAAACTACCTTTTACGGGTTTTCAATTTGAGCTCT
1 TTTATTTTTTTTTAAACTCAAACTACCTTTTACGAGTTTTCAATTTAAGCTAT
4270742 TTT-TTTT
1 TTTATTTT
4270749 ATTAAGAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
52 4 0.08
53 49 0.92
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.54
Consensus pattern (53 bp):
TTTATTTTTTTTTAAACTCAAACTACCTTTTACGAGTTTTCAATTTAAGCTAT
Found at i:4281314 original size:24 final size:24
Alignment explanation
Indices: 4281287--4281395 Score: 75
Period size: 24 Copynumber: 4.5 Consensus size: 24
4281277 AAAATGAAAA
4281287 AAAAAAT-AAAAAATAAAAAAAATG
1 AAAAAATGAAAAAAT-AAAAAAATG
* *
4281311 AAAAAGTGAAAAAATGAAAAAATG
1 AAAAAATGAAAAAATAAAAAAATG
** *
4281335 -AAAGGTGAAAAAAGT-GAAAAAT-
1 AAAAAATGAAAAAA-TAAAAAAATG
* *
4281357 AAGAAATGTAAAAAAAAAAAAAATG
1 AAAAAATG-AAAAAATAAAAAAATG
4281382 AGAGAAAA-GAAAAA
1 A-A-AAAATGAAAAA
4281396 CTCAAATTGA
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
23 22 0.33
24 27 0.40
25 13 0.19
26 2 0.03
27 3 0.04
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (24 bp):
AAAAAATGAAAAAATAAAAAAATG
Found at i:4281336 original size:16 final size:16
Alignment explanation
Indices: 4281287--4281395 Score: 75
Period size: 16 Copynumber: 6.8 Consensus size: 16
4281277 AAAATGAAAA
*
4281287 AAAAAAT-AAAAAATAA
1 AAAAAATGAAAAAAT-G
*
4281303 AAAAAATGAAAAAGTG
1 AAAAAATGAAAAAATG
4281319 AAAAAATGAAAAAATG
1 AAAAAATGAAAAAATG
**
4281335 -AAAGGTGAAAAAAGTG
1 AAAAAATGAAAAAA-TG
*
4281351 -AAAAAT-AAGAAATG
1 AAAAAATGAAAAAATG
**
4281365 TAAAAAAAAAAAAAATG
1 -AAAAAATGAAAAAATG
4281382 AGAGAAAA-GAAAAA
1 A-A-AAAATGAAAAA
4281396 CTCAAATTGA
Statistics
Matches: 75, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
14 2 0.03
15 16 0.21
16 34 0.45
17 19 0.25
18 4 0.05
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (16 bp):
AAAAAATGAAAAAATG
Found at i:4281348 original size:10 final size:9
Alignment explanation
Indices: 4281302--4281355 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 9
4281292 ATAAAAAATA
*
4281302 AAAAAAATG
1 AAAAAAGTG
4281311 -AAAAAGTG
1 AAAAAAGTG
4281319 AAAAAA-TG
1 AAAAAAGTG
4281327 AAAAAA-TG
1 AAAAAAGTG
*
4281335 --AAAGGTG
1 AAAAAAGTG
4281342 AAAAAAGTG
1 AAAAAAGTG
4281351 AAAAA
1 AAAAA
4281356 TAAGAAATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 3 0.08
7 2 0.05
8 17 0.45
9 16 0.42
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.11
Consensus pattern (9 bp):
AAAAAAGTG
Found at i:4282703 original size:21 final size:21
Alignment explanation
Indices: 4282679--4282739 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
4282669 CTCATAACTT
*
4282679 TTTTGAATAAGAATCTTTAAG
1 TTTTGAATGAGAATCTTTAAG
* *
4282700 TTTTAAATGAGAATCTTTGAG
1 TTTTGAATGAGAATCTTTAAG
4282721 TTTTGAATGAGAATCTTTA
1 TTTTGAATGAGAATCTTTA
4282740 TTTTTGAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
TTTTGAATGAGAATCTTTAAG
Found at i:4282885 original size:20 final size:20
Alignment explanation
Indices: 4282860--4282898 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4282850 CTAAAATTTA
* *
4282860 TTGAATGTGAATCTTTGAAC
1 TTGAATGAGAAACTTTGAAC
4282880 TTGAATGAGAAACTTTGAA
1 TTGAATGAGAAACTTTGAA
4282899 AATTTGGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGAATGAGAAACTTTGAAC
Found at i:4282892 original size:44 final size:45
Alignment explanation
Indices: 4282812--4282903 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 45
4282802 ATCCTAAACG
4282812 TTTATCGAATGTGAACCTTTGAATTCATATATGAAACTCT-AAAA
1 TTTATCGAATGTGAACCTTTGAATTCATATATGAAACTCTGAAAA
* * * *
4282856 TTTATTGAATGTGAATCTTTGAACTTGA-ATGA-GAAACTTTGAAAA
1 TTTATCGAATGTGAACCTTTGAA-TTCATAT-ATGAAACTCTGAAAA
4282901 TTT
1 TTT
4282904 GGATGAAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
44 30 0.73
45 11 0.27
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (45 bp):
TTTATCGAATGTGAACCTTTGAATTCATATATGAAACTCTGAAAA
Found at i:4283259 original size:17 final size:17
Alignment explanation
Indices: 4283237--4283277 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
4283227 TTGACAATCA
4283237 AATTCTTATGAATCTTT
1 AATTCTTATGAATCTTT
*
4283254 AATTCTTATGAATGTTT
1 AATTCTTATGAATCTTT
4283271 AATTCTT
1 AATTCTT
4283278 GCAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.54
Consensus pattern (17 bp):
AATTCTTATGAATCTTT
Found at i:4283294 original size:18 final size:18
Alignment explanation
Indices: 4283271--4283315 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4283261 ATGAATGTTT
*
4283271 AATTCTTG-CAAATTTAAA
1 AATTCTTGTCAAA-CTAAA
*
4283289 AATTCTTGTGAAACTAAA
1 AATTCTTGTCAAACTAAA
4283307 AATTCTTGT
1 AATTCTTGT
4283316 GATCTGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (18 bp):
AATTCTTGTCAAACTAAA
Found at i:4283694 original size:17 final size:17
Alignment explanation
Indices: 4283672--4283711 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4283662 ATTACTCATT
*
4283672 TTTTATTTGGTTTTTT-A
1 TTTTATTT-ATTTTTTCA
4283689 TTTTATTTATTTTTTCA
1 TTTTATTTATTTTTTCA
4283706 TTTTAT
1 TTTTAT
4283712 CTTTTTGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTATTTATTTTTTCA
Found at i:4284772 original size:4 final size:4
Alignment explanation
Indices: 4284763--4284793 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
4284753 TATTTGGTAT
*
4284763 TTTA TTTA TTTA TTTA TTTG TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
4284794 TGGTTTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:4285750 original size:16 final size:16
Alignment explanation
Indices: 4285710--4285765 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
4285700 CTTATATGAG
*
4285710 TTTT-TTTTTTAAATT
1 TTTTATTTTTTCAATT
* *
4285725 TTTAAATTTTT-AATT
1 TTTTATTTTTTCAATT
*
4285740 TTCTTATTTTTTCACTT
1 TT-TTATTTTTTCAATT
4285757 TTTTATTTT
1 TTTTATTTT
4285766 AAGTATATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 9 0.27
16 19 0.58
17 5 0.15
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTTTTCAATT
Found at i:4289739 original size:78 final size:78
Alignment explanation
Indices: 4289610--4289767 Score: 271
Period size: 78 Copynumber: 2.0 Consensus size: 78
4289600 GACTTCCCAC
4289610 TAGCATGACATAGCAGAATATAGAAGAAAGCTATCAGATTATTAACAAAAGAGAATTCCTAAATG
1 TAGCATGACATAGCAGAATATAGAAGAAAGCTATCAGATTATTAACAAAAGAGAATTCCTAAATG
4289675 TACCAAAATATCT
66 TACCAAAATATCT
** * * *
4289688 TAGCATGATGTAGCAGAATATGGAAGAAAGCTATCAGGTTATTAACAAAAGAGAATTCCTATATG
1 TAGCATGACATAGCAGAATATAGAAGAAAGCTATCAGATTATTAACAAAAGAGAATTCCTAAATG
4289753 TACCAAAATATCT
66 TACCAAAATATCT
4289766 TA
1 TA
4289768 ACAGTCAATA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (78 bp):
TAGCATGACATAGCAGAATATAGAAGAAAGCTATCAGATTATTAACAAAAGAGAATTCCTAAATG
TACCAAAATATCT
Found at i:4293516 original size:6 final size:6
Alignment explanation
Indices: 4293507--4293544 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
4293497 CAAGCTCTCT
*
4293507 ATCCAA ATCCAA ATCAAA ATCCAA AT-CAA ATCCCAA AT
1 ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA AT-CCAA AT
4293545 AAAAAATACC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 5 0.18
6 18 0.64
7 5 0.18
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (6 bp):
ATCCAA
Found at i:4293528 original size:12 final size:12
Alignment explanation
Indices: 4293511--4293548 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
4293501 CTCTCTATCC
4293511 AAATCCAAATCA
1 AAATCCAAATCA
4293523 AAATCCAAATC-
1 AAATCCAAATCA
4293534 AAATCCCAAAT-A
1 AAAT-CCAAATCA
4293546 AAA
1 AAA
4293549 AATACCACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.61, C:0.24, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATCCAAATCA
Found at i:4293780 original size:3 final size:3
Alignment explanation
Indices: 4293772--4293814 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
4293762 AGGGAGCTCG
4293772 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG- AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
4293815 GAGAGGAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:4293819 original size:8 final size:8
Alignment explanation
Indices: 4293775--4293819 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 8
4293765 GAGCTCGAGA
4293775 AGAAGAAG
1 AGAAGAAG
4293783 AAGAAGAAG
1 -AGAAGAAG
4293792 AAGAAGAAG
1 -AGAAGAAG
4293801 AAGAAGAAG
1 -AGAAGAAG
*
4293810 AGAAGGAG
1 AGAAGAAG
4293818 AG
1 AG
4293820 GAAGTGAGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
8 9 0.26
9 26 0.74
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (8 bp):
AGAAGAAG
Found at i:4293952 original size:1 final size:1
Alignment explanation
Indices: 4293946--4293970 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4293936 ATTCCACATT
4293946 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
4293971 CCCAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4295244 original size:2 final size:2
Alignment explanation
Indices: 4295239--4295266 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4295229 AAAGCTATTG
4295239 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
4295267 TGTCACTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4304181 original size:13 final size:13
Alignment explanation
Indices: 4304163--4304209 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
4304153 CATATTTTAA
4304163 TTTTATTAATAAT
1 TTTTATTAATAAT
4304176 TTTTATTAA-AAT
1 TTTTATTAATAAT
* *
4304188 TTTAAATTATATATT
1 TTT-TATTA-ATAAT
4304203 TTTTATT
1 TTTTATT
4304210 TTTTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 6 0.21
13 13 0.46
14 4 0.14
15 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTATTAATAAT
Found at i:4304188 original size:24 final size:26
Alignment explanation
Indices: 4304161--4304209 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
4304151 TACATATTTT
4304161 AATTTT-ATTA-ATAATTTTTATTAA
1 AATTTTAATTATATAATTTTTATTAA
*
4304185 AATTTTAAATTATATATTTTTTATT
1 AATTTT-AATTATATAATTTTTATT
4304210 TTTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
26 4 0.19
27 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
AATTTTAATTATATAATTTTTATTAA
Found at i:4305102 original size:30 final size:30
Alignment explanation
Indices: 4305068--4305125 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
4305058 TGACATATAT
4305068 TAATGACTTATTTAAGA-ATAAATTAAAAGC
1 TAATGACTTATTT-AGATATAAATTAAAAGC
* *
4305098 TAATGATTTATTTGGATATAAATTAAAA
1 TAATGACTTATTTAGATATAAATTAAAA
4305126 TTCAAGTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (30 bp):
TAATGACTTATTTAGATATAAATTAAAAGC
Found at i:4305987 original size:17 final size:18
Alignment explanation
Indices: 4305967--4306009 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
4305957 TATTATTTTG
4305967 ATTTAAATTAATC-ATAA
1 ATTTAAATTAATCTATAA
*
4305984 ATTTAATTTTAATCTATAA
1 ATTTAA-ATTAATCTATAA
*
4306003 ATATAAA
1 ATTTAAA
4306010 ATATAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTAAATTAATCTATAA
Found at i:4307896 original size:15 final size:15
Alignment explanation
Indices: 4307873--4307919 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 15
4307863 TTTATTTCTG
4307873 ATTAATTTTATTTAA
1 ATTAATTTTATTTAA
*
4307888 ATTATTTTTATTTTTTAA
1 ATTAATTTTA---TTTAA
4307906 ATTAATTTTATTTA
1 ATTAATTTTATTTA
4307920 TTTTTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 13 0.48
18 14 0.52
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTAATTTTATTTAA
Found at i:4307906 original size:18 final size:18
Alignment explanation
Indices: 4307883--4307918 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4307873 ATTAATTTTA
*
4307883 TTTAAATTATTTTTATTT
1 TTTAAATTAATTTTATTT
4307901 TTTAAATTAATTTTATTT
1 TTTAAATTAATTTTATTT
4307919 ATTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAAATTAATTTTATTT
Found at i:4311400 original size:26 final size:25
Alignment explanation
Indices: 4311346--4311417 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
4311336 TTTTTGTTCA
**
4311346 TTTTTTTATGTATTAAAATTATATC
1 TTTTTTTAAATATTAAAATTATATC
4311371 TTTTTTTAAATATCTAAAATT-T-T-
1 TTTTTTTAAATAT-TAAAATTATATC
* * *
4311394 TATTTTTATATTTTAAAATTATAT
1 TTTTTTTAAATATTAAAATTATAT
4311418 TTTATTTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 7 0.18
23 11 0.28
24 2 0.05
25 12 0.31
26 7 0.18
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (25 bp):
TTTTTTTAAATATTAAAATTATATC
Found at i:4311596 original size:2 final size:2
Alignment explanation
Indices: 4311589--4311616 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4311579 CTTCCTTGTA
4311589 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
4311617 GGGATTGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4315177 original size:10 final size:9
Alignment explanation
Indices: 4315122--4315172 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
4315112 TTCAAAGTTT
4315122 TAAATAATAA
1 TAAA-AATAA
4315132 TATAAAATAA
1 TA-AAAATAA
4315142 TAAAAATCAA
1 TAAAAAT-AA
**
4315152 TAAAAATTC
1 TAAAAATAA
4315161 TAAAAA-AA
1 TAAAAATAA
4315169 TAAA
1 TAAA
4315173 TAAAACGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 4 0.11
9 11 0.31
10 18 0.51
11 2 0.06
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (9 bp):
TAAAAATAA
Found at i:4315925 original size:17 final size:18
Alignment explanation
Indices: 4315903--4315937 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4315893 AGATTTTTAT
4315903 TTAAAAA-AAACCAAAAA
1 TTAAAAACAAACCAAAAA
*
4315920 TTAAAAACAAATCAAAAA
1 TTAAAAACAAACCAAAAA
4315938 CAAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.14
Consensus pattern (18 bp):
TTAAAAACAAACCAAAAA
Found at i:4316347 original size:17 final size:17
Alignment explanation
Indices: 4316325--4316358 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4316315 TTGCTAACCC
4316325 TTTTGTAGAAAGTACCT
1 TTTTGTAGAAAGTACCT
4316342 TTTTGTAGAAAGTACCT
1 TTTTGTAGAAAGTACCT
4316359 AAGTCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTTGTAGAAAGTACCT
Found at i:4316392 original size:12 final size:13
Alignment explanation
Indices: 4316375--4316403 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4316365 AAAACATGTA
4316375 AAAAT-ACAAAAC
1 AAAATAACAAAAC
4316387 AAAATAACAAAAC
1 AAAATAACAAAAC
4316400 AAAA
1 AAAA
4316404 AAAAAAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.79, C:0.14, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAATAACAAAAC
Found at i:4320227 original size:19 final size:19
Alignment explanation
Indices: 4320191--4320232 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4320181 CATGTAAACC
* * *
4320191 CTCAGTTTAGTTATCCATT
1 CTCAGTTTAGTCAACCATG
4320210 CTCAGTTTAGTCAACCATG
1 CTCAGTTTAGTCAACCATG
4320229 CTCA
1 CTCA
4320233 AACTTATGCA
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:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (19 bp):
CTCAGTTTAGTCAACCATG
Found at i:4324188 original size:2 final size:2
Alignment explanation
Indices: 4324176--4324211 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4324166 AGCATTTTGG
4324176 TA TA T- 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
4324212 GATTGATTAA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4343161 original size:2 final size:2
Alignment explanation
Indices: 4343154--4343192 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4343144 AGTGTTATAC
4343154 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
4343193 GCAGCTGACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4354509 original size:21 final size:19
Alignment explanation
Indices: 4354485--4354524 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
4354475 TATTTAAAAC
4354485 CATTCTTAATTTTTTTATGAT
1 CATT-TTAA-TTTTTTATGAT
*
4354506 CATTTTTATTTTTTATGAT
1 CATTTTAATTTTTTATGAT
4354525 TTTATCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 3 0.17
21 4 0.22
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (19 bp):
CATTTTAATTTTTTATGAT
Found at i:4357505 original size:2 final size:2
Alignment explanation
Indices: 4357498--4357525 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4357488 GCTATTGGCT
4357498 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4357526 AGTAGACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4357983 original size:30 final size:31
Alignment explanation
Indices: 4357939--4358004 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
4357929 TATTAATATT
*
4357939 TTATATATTTATAATATATTTTAA-ATAAAAA
1 TTATATATTTATAATATATATTAATAT-AAAA
*
4357970 TTATATA-TTATAATTTATATTAATATAAAA
1 TTATATATTTATAATATATATTAATATAAAA
4358000 TTATA
1 TTATA
4358005 AAAAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
TTATATATTTATAATATATATTAATATAAAA
Found at i:4357996 original size:20 final size:19
Alignment explanation
Indices: 4357928--4357995 Score: 50
Period size: 18 Copynumber: 3.6 Consensus size: 19
4357918 ATCATATAAA
*
4357928 ATATTAATATTTTATATATTT
1 ATATT-ATATATTATA-ATTT
* * **
4357949 ATAATATATTTTA-AATAA
1 ATATTATATATTATAATTT
*
4357967 AAATTATATATTATAATTT
1 ATATTATATATTATAATTT
4357986 ATATTA-ATAT
1 ATATTATATAT
4357996 AAAATTATAA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
18 16 0.43
19 9 0.24
20 8 0.22
21 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTATATATTATAATTT
Found at i:4359721 original size:19 final size:20
Alignment explanation
Indices: 4359699--4359736 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4359689 TCAAGTATTA
*
4359699 TCTATTTATTTTAT-TTTCT
1 TCTATTTATCTTATCTTTCT
4359718 TCTATTTATCTTATCTTTC
1 TCTATTTATCTTATCTTTC
4359737 ACTCACCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (20 bp):
TCTATTTATCTTATCTTTCT
Found at i:4364438 original size:27 final size:28
Alignment explanation
Indices: 4364408--4364461 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
4364398 CAAATTGTAC
*
4364408 TTGGTTAGTAA-ATTATATATTGAATAA
1 TTGGATAGTAACATTATATATTGAATAA
4364435 TTGGATAGTAACATTATATATTGAATA
1 TTGGATAGTAACATTATATATTGAATA
4364462 CTACAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.43
Consensus pattern (28 bp):
TTGGATAGTAACATTATATATTGAATAA
Found at i:4365790 original size:19 final size:19
Alignment explanation
Indices: 4365766--4365802 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4365756 TGATTCCTAC
*
4365766 ACTTTTTTCTACTCTTTTT
1 ACTTTTATCTACTCTTTTT
*
4365785 ACTTTTATCTTCTCTTTT
1 ACTTTTATCTACTCTTTT
4365803 AAATAATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.68
Consensus pattern (19 bp):
ACTTTTATCTACTCTTTTT
Found at i:4368008 original size:20 final size:20
Alignment explanation
Indices: 4367985--4368022 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4367975 TTTTAATATC
4367985 ATATAAAATATTA-ATATTTT
1 ATATAAAA-ATTACATATTTT
4368005 ATATAAAAATTACATATT
1 ATATAAAAATTACATATT
4368023 ATATTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATAAAAATTACATATTTT
Found at i:4373139 original size:18 final size:18
Alignment explanation
Indices: 4373118--4373159 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
4373108 ATTATATTTT
4373118 AATAATAT-TTAATATTAA
1 AATAATATATTAATA-TAA
*
4373136 AATATTATATTAATATAA
1 AATAATATATTAATATAA
4373154 AATAAT
1 AATAAT
4373160 TGAAATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATATATTAATATAA
Found at i:4373229 original size:20 final size:20
Alignment explanation
Indices: 4373204--4373306 Score: 66
Period size: 20 Copynumber: 4.8 Consensus size: 20
4373194 TTTAAAATAT
*
4373204 TTAAAATACTATTATTATTC
1 TTAAAATACTATTATTATTA
* *
4373224 TTAAAATATTAATTTTATTAATA
1 TTAAAATACT-A--TTATTATTA
*
4373247 TTAAAATAGT-TTATTTATTA
1 TTAAAATACTATTA-TTATTA
* *
4373267 TTAAAATATTTATGTTTTATT-
1 TTAAAATA-CTAT-TATTATTA
4373288 TTGAAAATATCTATTATTA
1 TT-AAAATA-CTATTATTA
4373307 AATCATAACA
Statistics
Matches: 66, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
19 3 0.05
20 22 0.33
21 8 0.12
22 16 0.24
23 17 0.26
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
TTAAAATACTATTATTATTA
Found at i:4373251 original size:43 final size:42
Alignment explanation
Indices: 4373199--4373306 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 42
4373189 AATATTTTAA
* *
4373199 AATATTTAAAATACTATTATTATTCTTAAAATATTAATTTTATT
1 AATA-TTAAAATACTATTATTATTATTAAAATATTAATGTT-TT
* *
4373243 AATATTAAAATAGT-TTATTTATTATTAAAATATTTATGTTTT
1 AATATTAAAATACTATTA-TTATTATTAAAATATTAATGTTTT
*
4373285 -ATTTTGAAAATATCTATTATTA
1 AATATT-AAAATA-CTATTATTA
4373307 AATCATAACA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
41 4 0.07
42 11 0.20
43 32 0.59
44 7 0.13
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (42 bp):
AATATTAAAATACTATTATTATTATTAAAATATTAATGTTTT
Found at i:4373558 original size:32 final size:29
Alignment explanation
Indices: 4373494--4373552 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
4373484 ATATTATTAT
* * *
4373494 ATATGTTATTATTTATTGTTGAGATAATA
1 ATATGATATTATTTATTATTGAAATAATA
4373523 ATATGATATTATTTATTATTGAAATAATA
1 ATATGATATTATTTATTATTGAAATAATA
4373552 A
1 A
4373553 AAATATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (29 bp):
ATATGATATTATTTATTATTGAAATAATA
Found at i:4373562 original size:24 final size:24
Alignment explanation
Indices: 4373532--4373597 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
4373522 AATATGATAT
4373532 TATTTATTATTGAAATA-ATAAAAA
1 TATTTA-TATTGAAATATATAAAAA
*
4373556 TATTTATATT-TAATAATATAAAAA
1 TATTTATATTGAAAT-ATATAAAAA
* *
4373580 AATTTAAAATTGAAATAT
1 TATTT-ATATTGAAATAT
4373598 CAAAAAACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 3 0.09
23 5 0.15
24 17 0.50
25 6 0.18
26 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (24 bp):
TATTTATATTGAAATATATAAAAA
Found at i:4373672 original size:24 final size:24
Alignment explanation
Indices: 4373625--4373672 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4373615 TTAATATTTT
*
4373625 AAATTTTTTAATTAAAATTAAATA
1 AAATTTTTTAATTAAAATAAAATA
*
4373649 AAATTTTTT-ATTAATATAATAATA
1 AAATTTTTTAATTAAAATAA-AATA
4373673 TTTTAAATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAATTTTTTAATTAAAATAAAATA
Found at i:4373675 original size:21 final size:20
Alignment explanation
Indices: 4373613--4373676 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
4373603 AACCTTTTAA
**
4373613 TATTAATATTTTAAATTTTT
1 TATTAATATAATAAATTTTT
*
4373633 TAATTAAAATTAAATAAAATTTTT
1 T-ATTAATA-T-AAT-AAATTTTT
4373657 TATTAATATAATAATATTTT
1 TATTAATATAATAA-ATTTT
4373677 AAATCGAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
20 3 0.09
21 14 0.40
22 2 0.06
23 7 0.20
24 9 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTAATATAATAAATTTTT
Found at i:4376220 original size:857 final size:850
Alignment explanation
Indices: 4374535--4376817 Score: 2586
Period size: 857 Copynumber: 2.7 Consensus size: 850
4374525 TTAGACTAAG
* * * **
4374535 CAAAATTAAATAATCAATCAAGCACATATAAG--AGAATAATTTAACATGATTTGGTTTAACTAA
1 CAAAATTAAATAATCAATCAAGCACACATAAGAAATAATAATTTAACATGA-TTCGTCCAACTAA
** * * * * * *
4374598 TTTACGT-TCACAGATAAAAAATAAAATTTATTAGTTGTAAAAAATTACAGATATATATCAAATC
65 CCTACGTCT-ACAGATAAAAAACAAGATTCACTAGTTGTAAAAAATTACAAATATACATCAAATC
* * *
4374662 AATCTCACTCAACAATCAATACT-CATAAGCTCTTTCAATAT-CTTCTAGTTTTACGAAATATTC
129 AATCTCACTCAACAATCAATA-TACATAAGCTCTTTCAATCTCCTT-TAGTCTTACGAAGTATTC
* * * ** * *
4374725 TTAATACAAACAAATACAAACCCATGTGCACTTTTTCAATATAAACAAACACATA-TCCATATGT
192 TCAACACAAACAAATACAAACTCATGTGCACCATTTCAACACAAACAAACACATACT-CATATGT
* * * * *
4374789 ACACATTCATCATTACCTATTTAGATCATCTCAATCTCTTT-TAGTTCATT-CTCAAACATTCAA
256 ACCCATTCATCATTACCTATGTAGACCCTCTCAATCT-TTTCTAGTCCATTCCT-AAACATTCAA
* * * *
4374852 ACATACACACTCATAAAATGTAAATCCTT-AGTACTTTTATGAAGTGTTTATTCCACAAAATCCT
319 ACATACACACTCATAAAATGTAAAT-CTTCAGTACTCTTATG-GGTGTCTA-TCCACAAAATCTT
* * *
4374916 ATAATTTTCTTATATTTTTT-TTCAT-GTCTAACCCTATAAAGATTTCACCTATTTATAACCATA
381 ATAATTCTCTTATATTTTTTCTT-ATACT-TAACCCTATAGAGATTTCACCTATTTATAACCATA
* * * *
4374979 CAAACTTGCCTATTAAGAATCCATTTCTTTTTAAAATTCTTTTTCTGTAACTCTTCTTAT-TCAT
444 CAAACTTGCCTATTAAGAATCCATTTC-TTTT-AAATTCTTCTTCTGCAAATCTTATTATCT-AT
* * * * *
4375043 CAAATAATATCTAACAAATCTCAAACAAATCTTTTGTGGGATTTGAGTAACTATTCCTAGCAATC
506 CAAATAATATCTAACAAATCTTAAACAAATCTCTTGT-GGATTTGAGTCACTATTACTAACAATC
* * * * * **
4375108 TATATCTTGACTTAAATTTCATCAATCATCTATTTTTATGCTAGACATGCTGGCTGTACATACAA
570 TACACCTTGACTTAAATTTCATCAATCATCTATCTTCATGCCAGACATGCTGGCTCCACATACAA
* * *
4375173 TGAAAGTCTCACAATTATCTTCTCTTGTGTGCCTTTACGCTTCATGCAAATCGATCTTCAAAATA
635 TGAAAATCTCACAATCATCTTCTCTTGTATGCCTTTACGCTTCATGCAAATCGATCTTCAAAATA
* * * * * *
4375238 CGAACTTGAGCTTCTTTCTTGAATTGAGCACCTCTAAACTTGTCTCTTACTATATCTCGAACTAT
700 CGAACTTGAACTTCTTTCTTAAATCGAGCACCTCTAAACTTGCCTCTTACCATATCTCGAACCAT
* * * ** * **
4375303 TCTCTGATACTACTTGTTAAAAATTACCACAGCTCTTATATTACTTGTTAAGCTAAATAGCCCTG
765 GCTCTGATACTACTTATTAAAAATTACCACAACTCTTATACCACTTGTTAAGCCAAATAGCCCCA
***
4375368 ATCCAATCACACCAGTGGATA
830 ATCCAATCACACCACCAGATA
*
4375389 CAAAATTAAATAATCAATCAAGCACACATAAGAAATAATAATTTAACATGGTTCCGTCCAACTAA
1 CAAAATTAAATAATCAATCAAGCACACATAAGAAATAATAATTTAACATGATT-CGTCCAACTAA
* * *
4375454 CCTACATCTACAGATGAGAAACAAGATTCACTAGTTGTAAAAAATTACAAATATACATCAAATCA
65 CCTACGTCTACAGATAAAAAACAAGATTCACTAGTTGTAAAAAATTACAAATATACATCAAATCA
* * *
4375519 ATCTCACTCAATAATCAATATACATAAGCTCTTTCAATCTCCTTTAGTCATACGGAGTATTCTCA
130 ATCTCACTCAACAATCAATATACATAAGCTCTTTCAATCTCCTTTAGTCTTACGAAGTATTCTCA
* * * * *
4375584 ACACAAATAAATACAAATTCATGTGCACCATTTCAAGACAAACAAACATATACTCATATGTGCCC
195 ACACAAACAAATACAAACTCATGTGCACCATTTCAACACAAACAAACACATACTCATATGTACCC
* *
4375649 ATTCATCATTACCTATGTGGACCCTCTCAATCTTTTCTAGTCCATTCCTAAACATTCAAATATAC
260 ATTCATCATTACCTATGTAGACCCTCTCAATCTTTTCTAGTCCATTCCTAAACATTCAAACATAC
* * * * * * *
4375714 ATAATCATAATATGTAAATCTTCAATACTCTTATAGGGTGTCTATCCTATAAAATCTTACAACTC
325 ACACTCATAAAATGTAAATCTTCAGTACTCTTAT-GGGTGTCTATCC-ACAAAATCTTATAATTC
* * * *
4375779 TCTTACATCTTTTTCTTATACTTAACCCTGTAGAGAATTCACATATTTATAACCATACAAACTTG
388 TCTTATAT-TTTTTCTTATACTTAACCCTATAGAGATTTCACCTATTTATAACCATACAAACTTG
* * *
4375844 GCTATTAAGAATCCATTTACTTTTAGAATTCTTCTTCTGCAAATTTTTTTATCTATCAAATAATA
452 CCTATTAAGAATCCATTT-CTTTTA-AATTCTTCTTCTGCAAATCTTATTATCTATCAAATAATA
* * * *
4375909 TCCAACAAATCTTAAACAAATCTCTTGTAGGATTTGAGTCACTATTTCTAATAATCTCCACCTTG
515 TCTAACAAATCTTAAACAAATCTCTTGT-GGATTTGAGTCACTATTACTAACAATCTACACCTTG
* * * *
4375974 ACTTAAATTTCATCAATCATCTGTCTTCATGCCA-ACATGCTTGGCTCCACTTGCAATTAAAATC
579 ACTTAAATTTCATCAATCATCTATCTTCATGCCAGACATGC-TGGCTCCACATACAATGAAAATC
*
4376038 TCACAATCATCTTCTCTTGTATGCCTTTACGCTTCATGCAAATCGATCTTCAAAA-CCTGAACTT
643 TCACAATCATCTTCTCTTGTATGCCTTTACGCTTCATGCAAATCGATCTTCAAAATAC-GAACTT
* * * * * * *
4376102 GAACTT-TTTCCTTAAATCGAGTTA-TTTTAAGCTTGCCTCTTCCCATGTTTCGAACCATGCTCT
707 GAACTTCTTT-CTTAAATCGAG-CACCTCTAAACTTGCCTCTTACCATATCTCGAACCATGCTCT
**** *
4376165 GATACTACTTATTGGGGATTACCACAACTCTTATACCACTTGTTAGGCCAAATAGCCCCAATCCA
770 GATACTACTTATTAAAAATTACCACAACTCTTATACCACTTGTTAAGCCAAATAGCCCCAATCCA
* *
4376230 ATCACACCACCAGTTG
835 ATCACACCACCAGATA
* * * *
4376246 CAAAATTAAACAATCAATTAAGCACACATAA-AAGATAATAATTTAATATGATTCGATCCAATTA
1 CAAAATTAAATAATCAATCAAGCACACATAAGAA-ATAATAATTTAACATGATTCG-TCCAACTA
* * * * * *
4376310 ACCTATGTCTATAGATAAAAAACAAGATCCACTAGTTGTAGAGAATTACAAACATACATCAAATC
64 ACCTACGTCTACAGATAAAAAACAAGATTCACTAGTTGTAAAAAATTACAAATATACATCAAATC
* * * * * *
4376375 AATCTCACTCAACAATCAATACACGTACGCTCTCTCAATCTCCTCTAATCTTACGAAGTATTCTC
129 AATCTCACTCAACAATCAATATACATAAGCTCTTTCAATCTCCTTTAGTCTTACGAAGTATTCTC
** * * * * * *
4376440 AACTTAAACAAACACAAACTCATGTGTATCATTTCAACACAAACAAGCACATACACATATGTATC
194 AACACAAACAAATACAAACTCATGTGCACCATTTCAACACAAACAAACACATACTCATATGTACC
** * * * *
4376505 CATTCATCA-TACCTATGTAGACCCTCTCAATCTCCTCTAGTCTACTCCCAACCATTCAAACATA
259 CATTCATCATTACCTATGTAGACCCTCTCAATCTTTTCTAGTCCATTCCTAAACATTCAAACATA
* * *
4376569 TACACCCATAAGATGTAAATCTTCAGTACTCTTATGGGGTGTCTATCCCACAAAATCTTATAATT
324 CACACTCATAAAATGTAAATCTTCAGTACTCTTAT-GGGTGTCTAT-CCACAAAATCTTATAATT
* * *
4376634 CTGTTATATTTTTTCTTATACCTAACCCTATAGAGATTTTACCTATTTATAACCATACAAACTTG
387 CTCTTATATTTTTTCTTATACTTAACCCTATAGAGATTTCACCTATTTATAACCATACAAACTTG
* * * * * * * * * *
4376699 TCTATTAAAAATCTATTTCCTTTTAAATTTTTCTTCTACAAGTCTTATTGTCCATTAAGTAATAT
452 CCTATTAAGAATCCATTT-CTTTTAAATTCTTCTTCTGCAAATCTTATTATCTATCAAATAATAT
* * * * *
4376764 TTAACAAATTTTAAATAAATCTCTTATGAGATTTGAGTCATTATTACTAACAAT
516 CTAACAAATCTTAAACAAATCTCTTGTG-GATTTGAGTCACTATTACTAACAAT
4376818 TCTAGTAACA
Statistics
Matches: 1201, Mismatches: 202, Indels: 52
0.83 0.14 0.04
Matches are distributed among these distances:
853 1 0.00
854 106 0.09
855 84 0.07
856 402 0.33
857 602 0.50
858 6 0.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (850 bp):
CAAAATTAAATAATCAATCAAGCACACATAAGAAATAATAATTTAACATGATTCGTCCAACTAAC
CTACGTCTACAGATAAAAAACAAGATTCACTAGTTGTAAAAAATTACAAATATACATCAAATCAA
TCTCACTCAACAATCAATATACATAAGCTCTTTCAATCTCCTTTAGTCTTACGAAGTATTCTCAA
CACAAACAAATACAAACTCATGTGCACCATTTCAACACAAACAAACACATACTCATATGTACCCA
TTCATCATTACCTATGTAGACCCTCTCAATCTTTTCTAGTCCATTCCTAAACATTCAAACATACA
CACTCATAAAATGTAAATCTTCAGTACTCTTATGGGTGTCTATCCACAAAATCTTATAATTCTCT
TATATTTTTTCTTATACTTAACCCTATAGAGATTTCACCTATTTATAACCATACAAACTTGCCTA
TTAAGAATCCATTTCTTTTAAATTCTTCTTCTGCAAATCTTATTATCTATCAAATAATATCTAAC
AAATCTTAAACAAATCTCTTGTGGATTTGAGTCACTATTACTAACAATCTACACCTTGACTTAAA
TTTCATCAATCATCTATCTTCATGCCAGACATGCTGGCTCCACATACAATGAAAATCTCACAATC
ATCTTCTCTTGTATGCCTTTACGCTTCATGCAAATCGATCTTCAAAATACGAACTTGAACTTCTT
TCTTAAATCGAGCACCTCTAAACTTGCCTCTTACCATATCTCGAACCATGCTCTGATACTACTTA
TTAAAAATTACCACAACTCTTATACCACTTGTTAAGCCAAATAGCCCCAATCCAATCACACCACC
AGATA
Found at i:4385993 original size:106 final size:107
Alignment explanation
Indices: 4385882--4386275 Score: 359
Period size: 106 Copynumber: 3.7 Consensus size: 107
4385872 TAAGTATAAT
* * * * *
4385882 ATTTTTTATATTACAAATGTCATAATATTTAACAAATATAATATTTTGATCATTATAAACGTAAT
1 ATTTTTTATATTATAAATGTCATAATATTAAACAAGTATAATATTTTAATCATTATAAACATAAT
* * **
4385947 TTTTGTTAAATTATTTAAACATTTTATTTAATAAATAAG-TC
66 TTTTGATAAATAATCAAAACATTTTATTTAATAAATAAGATC
* * *
4385988 ATTTTTTATATTATAAATGTCATAATATTAAATAAGTATGATGTTTTAATCATTATAAACATAAT
1 ATTTTTTATATTATAAATGTCATAATATTAAACAAGTATAATATTTTAATCATTATAAACATAAT
* ** * * * * *
4386053 CTTCAATAAATAATCAAAACATTATATTTAACAAGTATGATT
66 TTTTGATAAATAATCAAAACATTTTATTTAATAAATAAGATC
* * * * * * *
4386095 TTTTTTTATTTTATAAATGTTATAATATTAAACAAGCACAATATTTTAATTATTATAAATATAAT
1 ATTTTTTATATTATAAATGTCATAATATTAAACAAGTATAATATTTTAATCATTATAAACATAAT
* ** *
4386160 TTTTGAAAAATCGTCAAAACATTTTATTTAATAAACTCA-A-C
66 TTTTGATAAATAATCAAAACATTTTATTTAATAAA-TAAGATC
* * ** * * *
4386201 --GTTTTAGTTTTATAAA-CACTATAATATTAAACAAGTATGATATTTTGATCATTATAAATATA
1 ATTTTTTA-TATTATAAATGTC-ATAATATTAAACAAGTATAATATTTTAATCATTATAAACATA
* *
4386263 AGTTTTAATAAAT
64 ATTTTTGATAAAT
4386276 CTTTCTTGTA
Statistics
Matches: 230, Mismatches: 54, Indels: 9
0.78 0.18 0.03
Matches are distributed among these distances:
104 5 0.02
105 56 0.24
106 85 0.37
107 83 0.36
108 1 0.00
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.44
Consensus pattern (107 bp):
ATTTTTTATATTATAAATGTCATAATATTAAACAAGTATAATATTTTAATCATTATAAACATAAT
TTTTGATAAATAATCAAAACATTTTATTTAATAAATAAGATC
Found at i:4386009 original size:21 final size:22
Alignment explanation
Indices: 4385968--4386010 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
4385958 TATTTAAACA
4385968 TTTTATTTAATAAATAAGTCATT
1 TTTTATTTAATAAAT-AGTCATT
4385991 TTTTATATT-ATAAAT-GTCAT
1 TTTTAT-TTAATAAATAGTCAT
4386011 AATATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (22 bp):
TTTTATTTAATAAATAGTCATT
Found at i:4387465 original size:3 final size:3
Alignment explanation
Indices: 4387457--4387488 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4387447 ACACCATTTT
4387457 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4387489 TAATATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4388832 original size:20 final size:20
Alignment explanation
Indices: 4388809--4388869 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
4388799 TTATAAAATT
4388809 TTTTAATATAATAAAAAAAA
1 TTTTAATATAATAAAAAAAA
**
4388829 TTTTGTTAGTAATAAATAAAAA
1 TTTTAATA-TAATAAA-AAAAA
*
4388851 TTGATTAATATATTAAAAA
1 TT--TTAATATAATAAAAA
4388870 TATAAGTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 6 0.19
21 7 0.22
22 9 0.28
23 6 0.19
24 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
TTTTAATATAATAAAAAAAA
Found at i:4388832 original size:21 final size:21
Alignment explanation
Indices: 4388803--4388869 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
4388793 GAGTATTTAT
*
4388803 AAAATTTTTTAATATAATAAA
1 AAAAATTTTTAATATAATAAA
4388824 AAAAATTTTGT--TAGTAATAAA
1 AAAAATTTT-TAATA-TAATAAA
* *
4388845 TAAAAATTGATTAATATATTAAA
1 -AAAAATT-TTTAATATAATAAA
4388868 AA
1 AA
4388870 TATAAGTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
20 2 0.05
21 15 0.41
22 11 0.30
23 7 0.19
24 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (21 bp):
AAAAATTTTTAATATAATAAA
Found at i:4389080 original size:12 final size:13
Alignment explanation
Indices: 4389054--4389082 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4389044 AAATTAAAAT
4389054 TAAAACAATTTAA
1 TAAAACAATTTAA
4389067 TAAAACAA-TTAA
1 TAAAACAATTTAA
4389079 TAAA
1 TAAA
4389083 TTTTTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAACAATTTAA
Found at i:4389899 original size:24 final size:24
Alignment explanation
Indices: 4389861--4389920 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
4389851 TTTAAGAGTT
* *
4389861 AAAATTTCTAAATATGCAAATTCA
1 AAAATTTTTAGATATGCAAATTCA
* *
4389885 AAAGTTTTTAGATATGCAAATTTA
1 AAAATTTTTAGATATGCAAATTCA
4389909 AAAATTTTTAGA
1 AAAATTTTTAGA
4389921 AGTTTTGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (24 bp):
AAAATTTTTAGATATGCAAATTCA
Found at i:4392739 original size:3 final size:3
Alignment explanation
Indices: 4392731--4392779 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
4392721 CAAAATATCA
4392731 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4392779 A
1 A
4392780 GTGTTGTTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4392937 original size:13 final size:13
Alignment explanation
Indices: 4392919--4392961 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
4392909 TTTAGCTTGC
4392919 TTTAAAAATTTTA
1 TTTAAAAATTTTA
*
4392932 TTTAAAAGA-TTCA
1 TTTAAAA-ATTTTA
4392945 TTTAAACAATTTTA
1 TTTAAA-AATTTTA
4392959 TTT
1 TTT
4392962 TTTTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 17 0.68
14 8 0.32
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (13 bp):
TTTAAAAATTTTA
Found at i:4392978 original size:14 final size:14
Alignment explanation
Indices: 4392961--4392994 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
4392951 CAATTTTATT
4392961 TTTTTATTTATTAA
1 TTTTTATTTATTAA
4392975 TTTTTATTTATTAA
1 TTTTTATTTATTAA
4392989 TTTTTA
1 TTTTTA
4392995 AATATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTATTTATTAA
Found at i:4393000 original size:14 final size:14
Alignment explanation
Indices: 4392969--4393009 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
4392959 TTTTTTTATT
**
4392969 TATTAATTTTTATT
1 TATTAATTTTTAAA
4392983 TATTAATTTTTAAA
1 TATTAATTTTTAAA
4392997 TATT--TTTTTAAA
1 TATTAATTTTTAAA
4393009 T
1 T
4393010 TATCCCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 9 0.36
14 16 0.64
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTAATTTTTAAA
Found at i:4393120 original size:18 final size:15
Alignment explanation
Indices: 4393099--4393142 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
4393089 AAATTTTTTA
4393099 TTTATATTTTTTTAGGT
1 TTTAT-TTTTTTTA-GT
4393116 CTTTATTTTATTTTAGT
1 -TTTATTTT-TTTTAGT
4393133 TTTATTTTTT
1 TTTATTTTTT
4393143 ATTTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.08
16 8 0.32
17 5 0.20
18 10 0.40
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTTAGT
Found at i:4393122 original size:16 final size:14
Alignment explanation
Indices: 4393092--4393142 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
4393082 TATTATTAAA
4393092 TTTTTTA-TTTATAT
1 TTTTTTAGTTT-TAT
4393106 TTTTTTAGGTCTTTATT
1 TTTTTTA-GT-TTTA-T
4393123 TTATTTTAGTTTTAT
1 TT-TTTTAGTTTTAT
4393138 TTTTT
1 TTTTT
4393143 ATTTTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 10 0.31
15 3 0.09
16 7 0.22
17 7 0.22
18 5 0.16
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (14 bp):
TTTTTTAGTTTTAT
Found at i:4393160 original size:23 final size:23
Alignment explanation
Indices: 4393117--4393160 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4393107 TTTTTAGGTC
*
4393117 TTTATTTTATTTTAGTTTTATTT
1 TTTATTTTATTTTAATTTTATTT
4393140 TTTATTTT-TTTTAATTATTAT
1 TTTATTTTATTTTAATT-TTAT
4393161 CATTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTATTTTATTTTAATTTTATTT
Found at i:4393188 original size:19 final size:19
Alignment explanation
Indices: 4393164--4393200 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4393154 TTATTATCAT
4393164 TAATAATAAAAAATAACAA
1 TAATAATAAAAAATAACAA
4393183 TAATAATAAAAAATAACA
1 TAATAATAAAAAATAACA
4393201 TAAAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (19 bp):
TAATAATAAAAAATAACAA
Found at i:4393212 original size:19 final size:19
Alignment explanation
Indices: 4393168--4393235 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
4393158 TATCATTAAT
*
4393168 AATAAAAAATAACAATAAT
1 AATAAAAAATAACAATAAA
4393187 AATAAAAAATAAC-ATAAA
1 AATAAAAAATAACAATAAA
* *
4393205 AAT-CAAAATCAA-AATCAA
1 AATAAAAAAT-AACAATAAA
4393223 AATAAAATAATAA
1 AATAAAA-AATAA
4393236 AAAAAAAACC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 5 0.12
18 16 0.39
19 17 0.41
20 3 0.07
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (19 bp):
AATAAAAAATAACAATAAA
Found at i:4393243 original size:19 final size:20
Alignment explanation
Indices: 4393165--4393243 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 20
4393155 TATTATCATT
4393165 AATAATAAAAAATAACAAT--
1 AATAATAAAAAATAA-AATAA
*
4393184 AATAATAAAAAATAACATAAA
1 AATAATAAAAAATAAAAT-AA
4393205 AATCAA-AATCAAAATCAAAATAA
1 AAT-AATAA--AAAAT-AAAATAA
4393228 AATAATAAAAAA-AAAA
1 AATAATAAAAAATAAAA
4393244 CCTACGAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
18 2 0.04
19 19 0.38
21 9 0.18
22 4 0.08
23 12 0.24
24 4 0.08
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (20 bp):
AATAATAAAAAATAAAATAA
Found at i:4395639 original size:34 final size:34
Alignment explanation
Indices: 4395600--4395703 Score: 138
Period size: 34 Copynumber: 3.1 Consensus size: 34
4395590 TTTTTGCTTT
* *
4395600 AAAGTTTTTCAATATGTAAATTTGAAAATTTTTA
1 AAAGTTTTTGAATATGTAAATTTAAAAATTTTTA
* * *
4395634 AAAGTTTTTGGATATGCAAATCTAAAAATTTTTA
1 AAAGTTTTTGAATATGTAAATTTAAAAATTTTTA
* *
4395668 AAAG-TTTTGAAAATGTAAATTTAAAAACTTTTA
1 AAAGTTTTTGAATATGTAAATTTAAAAATTTTTA
4395701 AAA
1 AAA
4395704 ATTCAAATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 27 0.45
34 33 0.55
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (34 bp):
AAAGTTTTTGAATATGTAAATTTAAAAATTTTTA
Found at i:4395687 original size:25 final size:25
Alignment explanation
Indices: 4395659--4395715 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
4395649 GCAAATCTAA
* *
4395659 AAATTTTTAAAAGTTTTGAAAATGT-
1 AAATTTTTAAAACTTTTAAAAAT-TC
*
4395684 AAA-TTTAAAAACTTTTAAAAATTC
1 AAATTTTTAAAACTTTTAAAAATTC
4395708 AAATTTTT
1 AAATTTTT
4395716 TTATAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 19 0.73
25 6 0.23
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (25 bp):
AAATTTTTAAAACTTTTAAAAATTC
Found at i:4397623 original size:6 final size:6
Alignment explanation
Indices: 4397612--4397637 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4397602 TCGTATTACG
4397612 CTTTCC CTTTCC CTTTCC CTTTCC CT
1 CTTTCC CTTTCC CTTTCC CTTTCC CT
4397638 ATCTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
CTTTCC
Found at i:4400736 original size:2 final size:2
Alignment explanation
Indices: 4400729--4400772 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
4400719 TAAGAAATTA
* * * *
4400729 AG AG AG AG AG AG AG AG AC AG AG AC AG AG AC AG AG AT AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4400771 AG
1 AG
4400773 CTCTTCTACT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.07, G:0.41, T:0.02
Consensus pattern (2 bp):
AG
Found at i:4407708 original size:9 final size:9
Alignment explanation
Indices: 4407694--4407718 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4407684 TTTGGATGAA
4407694 ATATAAATT
1 ATATAAATT
4407703 ATATAAATT
1 ATATAAATT
4407712 ATATAAA
1 ATATAAA
4407719 ATTTTAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATATAAATT
Found at i:4408129 original size:26 final size:26
Alignment explanation
Indices: 4408083--4408147 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
4408073 TATTATAATG
* *
4408083 ATTTCAATCAATTATGATAAATGAGG-T
1 ATTTTAAT-AATTATGATAAAAG-GGAT
4408110 ATTTTAATAATTAT-ATTAAAAGGGAT
1 ATTTTAATAATTATGA-TAAAAGGGAT
*
4408136 ATTATAATAATT
1 ATTTTAATAATT
4408148 TTAGTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 3 0.09
26 23 0.70
27 7 0.21
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTTTAATAATTATGATAAAAGGGAT
Found at i:4409090 original size:193 final size:193
Alignment explanation
Indices: 4408761--4409147 Score: 666
Period size: 193 Copynumber: 2.0 Consensus size: 193
4408751 TGCATGGCAT
* *
4408761 ACATGACATTTTCTTACGAAAAATAAATTCGAGCCTCCAAATATGAGATTCTAAAAGTATTTCGA
1 ACATGACATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTCCGA
* *
4408826 GTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGAAA
66 GTAGAGATGCTTTAAAAAATCTCTAGGTAAGAAAGAGTTCTTTTAATGTTACCAACGTACTGAAA
* * * *
4408891 CATTTTAAGAATTATTTTAATAAAAATGTTTTAATTTATTCTTCTTGAGAATAATTTTTTTTA
131 CATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTCTTCTCGAGAATAAATTTTTTTA
*
4408954 ACATGACATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTCCGC
1 ACATGACATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTCCGA
* *
4409019 GTAGAGATGCTTTAAAAAATCTCTAGGTAAGAAAGAGTTCTTTTAATGTTATCAATGTACTGAAA
66 GTAGAGATGCTTTAAAAAATCTCTAGGTAAGAAAGAGTTCTTTTAATGTTACCAACGTACTGAAA
*
4409084 CATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAAATTTTTTTA
131 CATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTCTTCTCGAGAATAAATTTTTTTA
4409147 A
1 A
4409148 TAAATAAAAA
Statistics
Matches: 182, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
193 182 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (193 bp):
ACATGACATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTCCGA
GTAGAGATGCTTTAAAAAATCTCTAGGTAAGAAAGAGTTCTTTTAATGTTACCAACGTACTGAAA
CATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTCTTCTCGAGAATAAATTTTTTTA
Found at i:4409729 original size:25 final size:25
Alignment explanation
Indices: 4409659--4409729 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
4409649 TAATTCAAGC
* *
4409659 TAATTGTGATACGAGAGGTA-TTTCG
1 TAATTATGATAAGA-AGGTATTTTCG
* * *
4409684 TAATTATGATAAGATGATATTTTTG
1 TAATTATGATAAGAAGGTATTTTCG
4409709 TAATTATGACTAA-AAGGTATT
1 TAATTATGA-TAAGAAGGTATT
4409730 AAAGTAATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 3 0.08
25 31 0.84
26 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (25 bp):
TAATTATGATAAGAAGGTATTTTCG
Found at i:4409834 original size:85 final size:85
Alignment explanation
Indices: 4409675--4409835 Score: 191
Period size: 85 Copynumber: 1.9 Consensus size: 85
4409665 TGATACGAGA
* * * * *
4409675 GGTATTTCGTAATTATGATAAGATGATATTTTTGTAATTATGACTAAAAGGTATTAAAGTAATTT
1 GGTATTTCGTAATTATGATAAGAAGATATTTATATAATTATGACTAAAAGGCATTAAAGTAAATT
*
4409740 TGACAAATTATAATATGAAG
66 GGACAAATTATAATATGAAG
* * * *
4409760 GGTATTTTTGTAATTATG-TAAGAAGATATTTATATAATTATGATTATAGGGCATTAAAGTAACA
1 GGTA-TTTCGTAATTATGATAAGAAGATATTTATATAATTATGACTAAAAGGCATTAAAGTAA-A
*
4409824 TTGGTC-AATTAT
64 TTGGACAAATTAT
4409836 GGTAAAAGGG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 47 0.75
86 16 0.25
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.41
Consensus pattern (85 bp):
GGTATTTCGTAATTATGATAAGAAGATATTTATATAATTATGACTAAAAGGCATTAAAGTAAATT
GGACAAATTATAATATGAAG
Found at i:4410156 original size:61 final size:60
Alignment explanation
Indices: 4410072--4410205 Score: 148
Period size: 61 Copynumber: 2.2 Consensus size: 60
4410062 GCTTAAAAAA
** * *
4410072 TATTATAGTAATTTTGATCAATTATAATATGACG-AGTA-TTTTTGTAATTATGATTAGAGGG
1 TATTATAGTAATTTCAATCAATTATAATAT-AAGAAGTATTTTTTGTAATTAT-AGT-GAGGG
*
4410133 TATTATAGTAATTTCAA-CTAATTATAATATAAGAAGTATTTTTTTTAATTATAGTGAGGG
1 TATTATAGTAATTTCAATC-AATTATAATATAAGAAGTATTTTTTGTAATTATAGTGAGGG
* *
4410193 TATTTTTGTAATT
1 TATTATAGTAATT
4410206 ATGATTATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
60 19 0.30
61 32 0.51
62 12 0.19
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (60 bp):
TATTATAGTAATTTCAATCAATTATAATATAAGAAGTATTTTTTGTAATTATAGTGAGGG
Found at i:4410389 original size:26 final size:26
Alignment explanation
Indices: 4410360--4410415 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
4410350 AATTTTTGCA
* *
4410360 AATTATGATAAGA-ATGATATTTTAAT
1 AATTATGATAAGATATG-CATTATAAT
*
4410386 AATTATGTTAAGATATGCATTATAAT
1 AATTATGATAAGATATGCATTATAAT
4410412 AATT
1 AATT
4410416 TTAATTAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (26 bp):
AATTATGATAAGATATGCATTATAAT
Found at i:4411113 original size:12 final size:13
Alignment explanation
Indices: 4411091--4411116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4411081 TAAATTGAGT
4411091 AAAATTAAAAAAA
1 AAAATTAAAAAAA
4411104 AAAATTAAAAAAA
1 AAAATTAAAAAAA
4411117 TATTATGTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATTAAAAAAA
Found at i:4418269 original size:14 final size:14
Alignment explanation
Indices: 4418250--4418277 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4418240 TTCTCAAGTG
4418250 TTCTGTTTTTCTGC
1 TTCTGTTTTTCTGC
4418264 TTCTGTTTTTCTGC
1 TTCTGTTTTTCTGC
4418278 ATCCGCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.21, G:0.14, T:0.64
Consensus pattern (14 bp):
TTCTGTTTTTCTGC
Found at i:4422030 original size:33 final size:33
Alignment explanation
Indices: 4421993--4422059 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
4421983 GTCACATGAT
4421993 AGGCAGCACAAAACAGACAATCCCACATTGCAG
1 AGGCAGCACAAAACAGACAATCCCACATTGCAG
4422026 AGGCAGCACAAAACAGACAATCCCACATTGCAG
1 AGGCAGCACAAAACAGACAATCCCACATTGCAG
4422059 A
1 A
4422060 AGGGCCTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.30, G:0.18, T:0.09
Consensus pattern (33 bp):
AGGCAGCACAAAACAGACAATCCCACATTGCAG
Found at i:4427636 original size:2 final size:2
Alignment explanation
Indices: 4427629--4427662 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4427619 TAAATTGAAC
*
4427629 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4427663 CTTTGTGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4430199 original size:17 final size:17
Alignment explanation
Indices: 4430177--4430210 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4430167 CCCGCAATAG
4430177 AAAGCAATTATCCTATC
1 AAAGCAATTATCCTATC
*
4430194 AAAGCAATTATCTTATC
1 AAAGCAATTATCCTATC
4430211 CTAAGATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (17 bp):
AAAGCAATTATCCTATC
Found at i:4432248 original size:26 final size:26
Alignment explanation
Indices: 4432199--4432251 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
4432189 TATATAAAGG
* * **
4432199 TATATATTTTATTGTTAATCTTATTA
1 TATATATTATATTGATAAAATTATTA
4432225 TATATATTATATTGATAAAATTATTA
1 TATATATTATATTGATAAAATTATTA
4432251 T
1 T
4432252 TTAATATCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (26 bp):
TATATATTATATTGATAAAATTATTA
Found at i:4432820 original size:26 final size:26
Alignment explanation
Indices: 4432790--4432840 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
4432780 CATCCTTTAA
4432790 ATTTAAATTTT-TTAATTTTATTTTGT
1 ATTTAAATTTTATTAA-TTTATTTTGT
*
4432816 ATTTATATTTTAATTAATTTATTTT
1 ATTTAAATTTT-ATTAATTTATTTT
4432841 TATAAATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 8 0.36
28 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
ATTTAAATTTTATTAATTTATTTTGT
Found at i:4451278 original size:25 final size:24
Alignment explanation
Indices: 4451232--4451292 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
4451222 TAATATATTT
* *
4451232 ATAAATA-AATGAAATTTTTATAAA
1 ATAAATATAA-GAAATATATATAAA
*
4451256 ATTAAATATAAGAAATATATATAAG
1 A-TAAATATAAGAAATATATATAAA
*
4451281 ATAATTATAAGA
1 ATAAATATAAGA
4451293 TTTATTAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 11 0.35
25 18 0.58
26 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (24 bp):
ATAAATATAAGAAATATATATAAA
Done.