Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 339 of 373
Found at i:113428247 original size:9 final size:9
Alignment explanation
Indices: 113428233--113428262 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
113428223 ACACCAATTT
*
113428233 ATTATTTGA
1 ATTATTCGA
113428242 ATTATTCGA
1 ATTATTCGA
113428251 ATTATTCGA
1 ATTATTCGA
113428260 ATT
1 ATT
113428263 CTGAAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (9 bp):
ATTATTCGA
Found at i:113428487 original size:27 final size:27
Alignment explanation
Indices: 113428449--113428520 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
113428439 CAAATAAGGA
*
113428449 TGCTATAAAATAAAATAGCCAACG-GGC
1 TGCTAAAAAATAAAATAG-CAACGTGGC
** *
113428476 TGCTAAAAAATAAAATAGTTAGGTGGC
1 TGCTAAAAAATAAAATAGCAACGTGGC
*
113428503 TGCTCAAAAATAAAATAG
1 TGCTAAAAAATAAAATAG
113428521 TCAAGGGATG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.05
27 37 0.95
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (27 bp):
TGCTAAAAAATAAAATAGCAACGTGGC
Found at i:113434952 original size:14 final size:15
Alignment explanation
Indices: 113434919--113434955 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
113434909 CAATTTAAAG
*
113434919 AAAAATGAATATTGT
1 AAAAATAAATATTGT
*
113434934 AAAAATAAATGTTGT
1 AAAAATAAATATTGT
113434949 AAAAATA
1 AAAAATA
113434956 TTGGTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (15 bp):
AAAAATAAATATTGT
Found at i:113435751 original size:16 final size:16
Alignment explanation
Indices: 113435730--113435797 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
113435720 TTTGGTTCGC
113435730 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
113435746 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
113435762 TTTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
113435778 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
113435794 TGTA
1 TGTA
113435798 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:113436051 original size:16 final size:16
Alignment explanation
Indices: 113436014--113436055 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
113436004 TTAATCATAT
*
113436014 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
113436030 TT-AAATATATTATAA
1 TTAAAATATATTATAA
113436045 TTAAAATATAT
1 TTAAAATATAT
113436056 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:113436062 original size:14 final size:15
Alignment explanation
Indices: 113436023--113436064 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
113436013 TTTAAACATA
*
113436023 ATTATTATTAAATAT
1 ATTATAATTAAATAT
113436038 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
113436052 A-TATAATTTAATA
1 ATTATAATTAAATA
113436065 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:113436162 original size:120 final size:120
Alignment explanation
Indices: 113436017--113436495 Score: 734
Period size: 120 Copynumber: 4.0 Consensus size: 120
113436007 ATCATATTTA
* *
113436017 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
* * *
113436081 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* * *
113436137 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAAT---ATTATTAATAATCA
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
* * * *
113436198 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
*
113436254 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* *
113436319 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATTT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* *
113436374 AAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* *
113436439 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAGATT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
113436494 AA
1 AA
113436496 TAATGTAGAT
Statistics
Matches: 342, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
117 110 0.32
118 3 0.01
120 229 0.67
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
Found at i:113436182 original size:14 final size:15
Alignment explanation
Indices: 113436133--113436195 Score: 60
Period size: 15 Copynumber: 4.2 Consensus size: 15
113436123 ATAAAATATA
113436133 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
113436148 TATTAAATATATTAT
1 AATTAAATATATTAT
113436163 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
113436176 AATTTAATATTATTAAT
1 AATTAAATA-TATT-AT
113436193 AAT
1 AAT
113436196 CAATATTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 9 0.22
14 7 0.17
15 18 0.45
16 1 0.03
17 5 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:113436201 original size:44 final size:43
Alignment explanation
Indices: 113436110--113436201 Score: 96
Period size: 44 Copynumber: 2.1 Consensus size: 43
113436100 CTCAAATCAT
* * *
113436110 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAACATAATTAATAATA
* * * *
113436153 AATATATTATAAT-TAAAATATATAATTTAATATTATTAATAATC
1 AATATATGATAATATAAAATATA-AA-TTAACATAATTAATAATA
113436197 AATAT
1 AATAT
113436202 TCTTATATGA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAACATAATTAATAATA
Found at i:113436335 original size:38 final size:37
Alignment explanation
Indices: 113436288--113436471 Score: 140
Period size: 37 Copynumber: 4.7 Consensus size: 37
113436278 TTAATAAAAA
*
113436288 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
113436325 TATATGAATTTAATAAAA-TCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-TAT
* * * * ** *
113436364 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAA
1 TATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATTAT
*
113436408 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
113436445 TATATGAATTTAATAAAA-TCATAATAT
1 TATAT-AATTTAATAAAATTCTTAATAT
113436472 ATAATACTAT
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
36 2 0.02
37 36 0.32
38 32 0.28
39 7 0.06
40 5 0.04
41 6 0.05
42 7 0.06
44 11 0.10
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCTTAATATTAAATATTAT
Found at i:113436437 original size:18 final size:18
Alignment explanation
Indices: 113436271--113436424 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
113436261 TTATTATTAA
113436271 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
113436289 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
113436307 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
113436326 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
113436344 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
113436360 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
113436379 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
113436391 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
113436409 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
113436425 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:113440199 original size:19 final size:19
Alignment explanation
Indices: 113440148--113440199 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
113440138 AAGTACAAAA
* *
113440148 AAAAATCAAAGTAATTTTC
1 AAAATTCAAAATAATTTTC
* *
113440167 AAAATTTGAAAATAATTTTT
1 AAAA-TTCAAAATAATTTTC
113440187 AAAATTCAAAATA
1 AAAATTCAAAATA
113440200 TTTATAGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:113445825 original size:3 final size:3
Alignment explanation
Indices: 113445817--113445872 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
113445807 TTTAACTTAT
** *
113445817 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA -AA CCA TAC TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
113445861 TAA TAA TAA TAA
1 TAA TAA TAA TAA
113445873 AATCTTATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:113455542 original size:16 final size:16
Alignment explanation
Indices: 113455521--113455588 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
113455511 TTTGGTTCGC
113455521 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
113455537 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
113455553 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
113455569 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
113455585 TGTA
1 TGTA
113455589 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:113455625 original size:45 final size:44
Alignment explanation
Indices: 113455569--113455678 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
113455559 GGATTAGAGG
113455569 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG-A
* * ***
113455614 TGTATTGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGA
1 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGA
113455657 ---A-TGGAATAGAGGTGTAATAGCA
1 TGTATTGGAATAGAGGTGTAATAGCA
113455679 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 18 0.32
40 1 0.02
43 1 0.02
44 14 0.25
45 23 0.40
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGA
Found at i:113455841 original size:16 final size:16
Alignment explanation
Indices: 113455804--113455845 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
113455794 TTAATCATAT
*
113455804 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
113455820 TT-AAATATATTATAA
1 TTAAAATATATTATAA
113455835 TTAAAATATAT
1 TTAAAATATAT
113455846 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:113455852 original size:14 final size:15
Alignment explanation
Indices: 113455813--113455854 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
113455803 TTTAAACATA
*
113455813 ATTATTATTAAATAT
1 ATTATAATTAAATAT
113455828 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
113455842 A-TATAATTTAATA
1 ATTATAATTAAATA
113455855 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:113455904 original size:61 final size:61
Alignment explanation
Indices: 113455839--113456026 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
113455829 TTATAATTAA
113455839 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
113455900 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
113455959 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
113456020 AATATAT
1 AATATAT
113456027 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 24 0.25
61 37 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:113455952 original size:120 final size:120
Alignment explanation
Indices: 113455807--113456036 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
113455797 ATCATATTTA
113455807 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
113455872 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
113455927 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
113455992 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
113456037 TTTACTCAAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:113455972 original size:14 final size:15
Alignment explanation
Indices: 113455923--113455974 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
113455913 ATAAAATATA
113455923 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
113455938 TATTAAATATATTAT
1 AATTAAATATATTAT
113455953 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
113455966 AATTTAATA
1 AATTAAATA
113455975 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:113456025 original size:59 final size:59
Alignment explanation
Indices: 113455842--113456025 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
113455832 TAATTAAAAT
113455842 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
113455901 ATAT-ATGATACTATAAAA-TATAAATTAA-CATAATTATTATTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-TACTCAAATC
113455960 AT-
57 ATA
113455962 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
113456021 ATATA
1 ATATA
113456026 TGATACTATA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 7 0.07
59 20 0.21
60 10 0.11
61 15 0.16
62 7 0.07
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:113457546 original size:20 final size:20
Alignment explanation
Indices: 113457523--113457561 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
113457513 CATTGAGATT
113457523 TCGAAACATCTTGCATCAGG
1 TCGAAACATCTTGCATCAGG
113457543 TCGAAACATCTTGCATCAG
1 TCGAAACATCTTGCATCAG
113457562 AACCAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (20 bp):
TCGAAACATCTTGCATCAGG
Found at i:113461157 original size:48 final size:48
Alignment explanation
Indices: 113461086--113461306 Score: 176
Period size: 48 Copynumber: 4.6 Consensus size: 48
113461076 TAATTTGCCA
** *
113461086 ATGCCATGTCTTAGACATGGTCTTACACTGGCTCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCG
* * * **
113461134 ATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAATGCAA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATCGAGGCCG
* * * * * * * *
113461182 ATGTCATGTTCTAGATATGGACTTACACTGGCTCACACAAC-ATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGA-GGCCG
* * * ** * * *
113461230 ATGCCATGTTCCAAACATGGTCTTACAATGGCTTTCATATTGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCG
* *
113461278 ACGCCATGTCCCAGGCATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
113461307 AGTGCACATA
Statistics
Matches: 132, Mismatches: 37, Indels: 8
0.75 0.21 0.05
Matches are distributed among these distances:
47 2 0.02
48 129 0.98
49 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCG
Found at i:113462884 original size:54 final size:54
Alignment explanation
Indices: 113462797--113462910 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
113462787 AGTCACACGA
* *
113462797 CCGTATCGTAGGCCATGTGCCAGACCGTGTTACATACTAACTTGAGACACATGG
1 CCGTGTCGTAGGCCATATGCCAGACCGTGTTACATACTAACTTGAGACACATGG
* * * ** *
113462851 TCGTGTCGTAGGCCGTATGCTAGACCGTGTTACATACTGGCTTGAGCCACATGG
1 CCGTGTCGTAGGCCATATGCCAGACCGTGTTACATACTAACTTGAGACACATGG
113462905 CCGTGT
1 CCGTGT
113462911 TTTAGACCGA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.26
Consensus pattern (54 bp):
CCGTGTCGTAGGCCATATGCCAGACCGTGTTACATACTAACTTGAGACACATGG
Found at i:113468154 original size:56 final size:56
Alignment explanation
Indices: 113468088--113468198 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
113468078 ATTTAATAGT
113468088 ACAGGTATAATAAAAAACAACCTAAGAATAACATAATCAAATTAACTATTATGTAC
1 ACAGGTATAATAAAAAACAACCTAAGAATAACATAATCAAATTAACTATTATGTAC
*
113468144 ACAGGTATAATAAAAAATAACCTAAGAATAACATAATCAAATTAACTATTATGTA
1 ACAGGTATAATAAAAAACAACCTAAGAATAACATAATCAAATTAACTATTATGTA
113468199 TGGTTGAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (56 bp):
ACAGGTATAATAAAAAACAACCTAAGAATAACATAATCAAATTAACTATTATGTAC
Found at i:113472458 original size:19 final size:19
Alignment explanation
Indices: 113472434--113472473 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
113472424 TTAACCTTGT
113472434 AAAAGTTAAATTTAAAAAA
1 AAAAGTTAAATTTAAAAAA
113472453 AAAAGTTAAATTTAAAAAA
1 AAAAGTTAAATTTAAAAAA
113472472 AA
1 AA
113472474 TTGATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (19 bp):
AAAAGTTAAATTTAAAAAA
Found at i:113474432 original size:21 final size:22
Alignment explanation
Indices: 113474408--113474449 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
113474398 CTTAAAAATA
*
113474408 TAAAATTT-TAATTTAATTTTT
1 TAAAATTTACAATTTAATTTTT
113474429 TAAAATTTACAATTTAATTTT
1 TAAAATTTACAATTTAATTTT
113474450 CTCCTCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TAAAATTTACAATTTAATTTTT
Found at i:113476971 original size:46 final size:46
Alignment explanation
Indices: 113476919--113477090 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
113476909 TGGGCATCCA
*
113476919 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCG
* * * * * *
113476965 AACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACGTCCG
* *
113477012 AACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCG
* *
113477058 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113477091 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 65 0.63
47 36 0.35
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCG
Found at i:113477022 original size:93 final size:93
Alignment explanation
Indices: 113476911--113477083 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
113476901 AGGATATTTG
* *
113476911 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
113476976 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * *
113477004 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
113477069 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
113477084 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:113481457 original size:6 final size:6
Alignment explanation
Indices: 113481446--113481475 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
113481436 TTGTAGGAAC
*
113481446 TATGGA TATGGA TATGGA TATGGA TGTGGA
1 TATGGA TATGGA TATGGA TATGGA TATGGA
113481476 AAGAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (6 bp):
TATGGA
Found at i:113482463 original size:23 final size:22
Alignment explanation
Indices: 113482392--113482459 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
113482382 ATAATTTATA
* *
113482392 AAAAATAGAGAATCAAATATGT
1 AAAAATAGAAAATCAAATATGG
* *
113482414 AAAGAAAAGAAAAAAACAAATAT-G
1 AAA-AATAG--AAAATCAAATATGG
113482438 AAAAATAGAAAATCAAATATGG
1 AAAAATAGAAAATCAAATATGG
113482460 GAAAGGAAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
21 11 0.31
22 4 0.11
23 8 0.22
24 3 0.08
25 10 0.28
ACGTcount: A:0.66, C:0.04, G:0.13, T:0.16
Consensus pattern (22 bp):
AAAAATAGAAAATCAAATATGG
Found at i:113488261 original size:39 final size:39
Alignment explanation
Indices: 113488211--113488287 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
113488201 TGTTCAAAAC
113488211 AAAGAACCCAACAAATTCAAAGAACAAATAACAAACAAT
1 AAAGAACCCAACAAATTCAAAGAACAAATAACAAACAAT
* *
113488250 AAAGAATCCAACACATTCAAAGAACAAATAACAAACAA
1 AAAGAACCCAACAAATTCAAAGAACAAATAACAAACAA
113488288 AGAACCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.64, C:0.21, G:0.05, T:0.10
Consensus pattern (39 bp):
AAAGAACCCAACAAATTCAAAGAACAAATAACAAACAAT
Found at i:113488288 original size:18 final size:18
Alignment explanation
Indices: 113488228--113488292 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 18
113488218 CCAACAAATT
113488228 CAAAGAACAAATAACAAA
1 CAAAGAACAAATAACAAA
* *
113488246 CAATA-AA-GAATCCAACACATT
1 CAA-AGAACAAAT--AACA-A-A
113488267 CAAAGAACAAATAACAAA
1 CAAAGAACAAATAACAAA
113488285 CAAAGAAC
1 CAAAGAAC
113488293 CCAAAATCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 3 0.08
18 13 0.36
19 6 0.17
20 6 0.17
21 5 0.14
22 3 0.08
ACGTcount: A:0.65, C:0.20, G:0.06, T:0.09
Consensus pattern (18 bp):
CAAAGAACAAATAACAAA
Found at i:113488435 original size:19 final size:19
Alignment explanation
Indices: 113488408--113488456 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
113488398 GAAAAAAGTT
* *
113488408 AACAACCTAATATAATAGC
1 AACAACCTAAAATAAGAGC
* *
113488427 AAGAACCTAAAATGAGAGC
1 AACAACCTAAAATAAGAGC
113488446 AACAACCTAAA
1 AACAACCTAAA
113488457 GAATTACAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.55, C:0.20, G:0.10, T:0.14
Consensus pattern (19 bp):
AACAACCTAAAATAAGAGC
Found at i:113490517 original size:45 final size:48
Alignment explanation
Indices: 113490411--113490538 Score: 140
Period size: 50 Copynumber: 2.7 Consensus size: 48
113490401 CGAGGCTGAC
* * *
113490411 GCCATGTCCCGGACATGGTCTTACACTAGCTCTCACATATTCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG--CACACATACTCGTGCCGAT
*
113490461 GCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CTCGTAGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACACATACTCGT-GCCGAT
* *
113490507 G-CATGTCCCAGACAT-ATCTTACACTAGTACAC
1 GCCATGTCCCAGACATGGTCTTACACTAGCACAC
113490539 CAATAACCCG
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
44 9 0.13
45 19 0.27
46 15 0.21
49 1 0.01
50 26 0.37
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCACACATACTCGTGCCGAT
Found at i:113493971 original size:31 final size:31
Alignment explanation
Indices: 113493933--113494112 Score: 243
Period size: 31 Copynumber: 5.8 Consensus size: 31
113493923 ACAAATGACA
*
113493933 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
113493964 AGTGAAAAGTGGTAGCTTCTGCTACCTGATA
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
113493995 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
113494026 AGTGAAAAATGGTAGCTCCGACTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
113494057 AATGAAAAATAGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
113494088 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
113494113 AAGTGACAAG
Statistics
Matches: 131, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 131 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:113494306 original size:49 final size:48
Alignment explanation
Indices: 113494134--113494303 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 48
113494124 GATTTCCGTA
* * * * *
113494134 TAAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTAC-GTG
* * *
113494181 TAAGACCATATCTGGGATATGGCATC-AGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
*
113494227 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGA-ATGTGATATGTGATTACGTG
* *
113494276 TAAGACCATAGCTGGGCTATGACATCGA
1 TAAGACCATAGCTGGGATATGGCATCGA
113494304 TATATGAAGA
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
46 26 0.24
47 38 0.35
48 14 0.13
49 31 0.28
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
Found at i:113495741 original size:17 final size:16
Alignment explanation
Indices: 113495715--113495747 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
113495705 TTTTTATTTT
113495715 TAATAATTTAAAATAA
1 TAATAATTTAAAATAA
113495731 TAATAAATTTAAAATAA
1 TAAT-AATTTAAAATAA
113495748 ATTCCATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAATAATTTAAAATAA
Found at i:113500917 original size:46 final size:46
Alignment explanation
Indices: 113500864--113501037 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
113500854 TGGTTGAGCA
113500864 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * *
113500910 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGT-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA-T--G
* * * *
113500955 CATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* *
113501003 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
113501038 GGGCGGGTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
44 2 0.02
45 1 0.01
46 59 0.56
47 27 0.26
48 1 0.01
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
Found at i:113501020 original size:93 final size:93
Alignment explanation
Indices: 113500861--113501031 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
113500851 GGATGGTTGA
* * * *
113500861 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTCATAGATGCGAACGCCCGAACTCGTTGAGT
113500926 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
113500954 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTCATAGATGCGAACGCCCGAACTCGTTGAGT
113501019 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
113501032 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTCATAGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:113507942 original size:46 final size:46
Alignment explanation
Indices: 113507892--113508067 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
113507882 TGGTTGAGCA
113507892 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113507938 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
113507983 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113508031 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113508068 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:113508048 original size:93 final size:93
Alignment explanation
Indices: 113507889--113508060 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
113507879 GGATGGTTGA
* * *
113507889 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
113507954 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
113507982 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
113508047 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
113508061 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:113510569 original size:26 final size:26
Alignment explanation
Indices: 113510540--113510594 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
113510530 CAGTCCTTGT
113510540 ACTTAGTCAAAAGTACAATTTAATCC
1 ACTTAGTCAAAAGTACAATTTAATCC
113510566 ACTTAGTCAAAAGTACAATTTAATCC
1 ACTTAGTCAAAAGTACAATTTAATCC
113510592 ACT
1 ACT
113510595 ATATTACAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (26 bp):
ACTTAGTCAAAAGTACAATTTAATCC
Found at i:113514205 original size:23 final size:22
Alignment explanation
Indices: 113514186--113514248 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
113514176 TAAAAAATGC
113514186 TAATACAATTACATATAAAATTT
1 TAATACAATTACATATAAAA-TT
*
113514209 TAATA-AATATAAAT-TAAAAATT
1 TAATACAAT-TACATAT-AAAATT
113514231 TAAATACAATTACATATA
1 T-AATACAATTACATATA
113514249 TAGGATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 7 0.21
23 22 0.67
24 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATACAATTACATATAAAATT
Found at i:113514742 original size:21 final size:22
Alignment explanation
Indices: 113514716--113514777 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
113514706 TCTAAACTCT
113514716 AAACCCTTAACCCTT-AACCCC
1 AAACCCTTAACCCTTAAACCCC
*
113514737 AAACCCTT-ACACCTTAAACTCC
1 AAACCCTTAAC-CCTTAAACCCC
*
113514759 -AACCC-TAACCCCTAAACCC
1 AAACCCTTAACCCTTAAACCC
113514778 TAAATTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 11 0.31
21 19 0.54
22 5 0.14
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.18
Consensus pattern (22 bp):
AAACCCTTAACCCTTAAACCCC
Found at i:113514867 original size:21 final size:21
Alignment explanation
Indices: 113514841--113514925 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
113514831 ACTCCTAAAC
*
113514841 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
113514862 CTTAAACCATAGGTAACTCAAAAAT
1 CTTAAACCATA---AAC-CATATAT
* *
113514887 CTTAAACCCTAAACTATATAT
1 CTTAAACCATAAACCATATAT
113514908 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
113514926 AACTATAACG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 30 0.59
22 3 0.06
24 3 0.06
25 15 0.29
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:113515147 original size:41 final size:41
Alignment explanation
Indices: 113515090--113515308 Score: 309
Period size: 41 Copynumber: 5.4 Consensus size: 41
113515080 GTTATATGAC
*
113515090 TTTTAGCGGCGTTTTGCCAAAAGCGCCGTTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
113515131 TTTTAGCGGCGTTTTGCCAAAAGCGCAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
113515172 TTTTAGTGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
113515213 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATTCTCT-GT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
113515253 TTTTCGCGGCGTTTTTTACTAAAA-CGTCGCTATTGCTCT-GT
1 TTTTAGCGGCG--TTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
113515294 TTTTAGTGGCGTTTT
1 TTTTAGCGGCGTTTT
113515309 TGGTAAAACG
Statistics
Matches: 162, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 4 0.02
40 12 0.07
41 137 0.85
42 9 0.06
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:113515309 original size:41 final size:40
Alignment explanation
Indices: 113515090--113515339 Score: 281
Period size: 41 Copynumber: 6.1 Consensus size: 40
113515080 GTTATATGAC
* *
113515090 TTTTAGCGGCGTTTTGCCAAAAGCGCCGTTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCT-GT
* *
113515131 TTTTAGCGGCGTTTTGCCAAAAGCGCAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCT-GT
* *
113515172 TTTTAGTGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCT-GT
113515213 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATT-CTCTGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCT-ATTGCTCTGT
* * * *
113515253 TTTTCGCGGCGTTTTTTACTAAAA-CGTCGCTATTGCTCTGT
1 TTTTAGCGGCG--TTTTGCCAAAAGCGCCGCTATTGCTCTGT
* ** *
113515294 TTTTAGTGGCGTTTTTGGTAAAA-CGCCGCTATTGCTATGT
1 TTTTAGCGGCG-TTTTGCCAAAAGCGCCGCTATTGCTCTGT
113515334 GTTTTA
1 -TTTTA
113515340 CAATTTTTGC
Statistics
Matches: 188, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
40 40 0.21
41 137 0.73
42 11 0.06
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCTGT
Found at i:113515310 original size:123 final size:123
Alignment explanation
Indices: 113515090--113515338 Score: 328
Period size: 123 Copynumber: 2.0 Consensus size: 123
113515080 GTTATATGAC
* *
113515090 TTTTAGCGGCGTTTTGCCAAAAGCGCCGTTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
*
113515155 GCAGCTAATGCTCTGGTTTTTAGTGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTG-GT
66 GCAGCTAATGCTCTGGTTTTTAGTGGCGTTTTGCCAAAA-CGCCGCTAATGCTATGTGT
* * *
113515213 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATTCTCT-GTTTTTCGCGGCGTTTTTTACTAAAA
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCG--TTTTACCAAAA
* ** *
113515277 -CGTC-GCTATTGCTCT-GTTTTTAGTGGCGTTTTTGGTAAAACGCCGCTATTGCTATGTGT
64 GCG-CAGCTAATGCTCTGGTTTTTAGTGGCG-TTTTGCCAAAACGCCGCTAATGCTATGTGT
113515336 TTT
1 TTT
113515339 ACAATTTTTG
Statistics
Matches: 111, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
122 39 0.35
123 62 0.56
124 10 0.09
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (123 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
GCAGCTAATGCTCTGGTTTTTAGTGGCGTTTTGCCAAAACGCCGCTAATGCTATGTGT
Found at i:113518510 original size:14 final size:14
Alignment explanation
Indices: 113518491--113518524 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
113518481 TGTTTGACTA
113518491 AAAATGATTTCCGG
1 AAAATGATTTCCGG
*
113518505 AAAATGATTTCTGG
1 AAAATGATTTCCGG
113518519 AAAATG
1 AAAATG
113518525 GCTTACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:113523875 original size:20 final size:19
Alignment explanation
Indices: 113523850--113523895 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
113523840 AGGTTGAGGG
113523850 AGAAAGAAG-ATGAAGAGAAA
1 AGAAAGAAGAAT-AAGA-AAA
113523870 AGAAAGAAGAATAAGAAAA
1 AGAAAGAAGAATAAGAAAA
113523889 A-AAAGAA
1 AGAAAGAA
113523896 AGAGGTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.24
19 4 0.16
20 13 0.52
21 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (19 bp):
AGAAAGAAGAATAAGAAAA
Found at i:113532756 original size:25 final size:26
Alignment explanation
Indices: 113532702--113532758 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
113532692 TTTTTAAAGG
* *
113532702 TTTTAATTCAATTAAATTTGATTTGA
1 TTTTAATTCAATTAAATTTAATTTAA
* *
113532728 -TTTAATTC-TTTTAATTTAATTTAA
1 TTTTAATTCAATTAAATTTAATTTAA
113532752 TTTTAAT
1 TTTTAAT
113532759 ATACTTCTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTAATTCAATTAAATTTAATTTAA
Found at i:113533582 original size:22 final size:19
Alignment explanation
Indices: 113533557--113533637 Score: 62
Period size: 22 Copynumber: 4.3 Consensus size: 19
113533547 TTTTATATAA
113533557 TATATTTTTTAAAATTTATGAT
1 TATATTTTTTAAAATTT-T--T
* *
113533579 TATATATTTTAGAATTTTT
1 TATATTTTTTAAAATTTTT
113533598 TAT-TTTTTT-AAA-TTTT
1 TATATTTTTTAAAATTTTT
* * *
113533614 TACATTTTTT-GAATTATT
1 TATATTTTTTAAAATTTTT
113533632 TATATT
1 TATATT
113533638 ATATATGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
16 6 0.12
17 10 0.20
18 13 0.27
19 4 0.08
21 1 0.02
22 15 0.31
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (19 bp):
TATATTTTTTAAAATTTTT
Found at i:113539392 original size:23 final size:23
Alignment explanation
Indices: 113539366--113539413 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
113539356 ATTAAAGTTT
113539366 AATCTTAAACTAAGGTTAAAATA
1 AATCTTAAACTAAGGTTAAAATA
113539389 AATCTTAAACTAAGGTTAAAATA
1 AATCTTAAACTAAGGTTAAAATA
113539412 AA
1 AA
113539414 ACAAAATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.29
Consensus pattern (23 bp):
AATCTTAAACTAAGGTTAAAATA
Found at i:113544770 original size:18 final size:18
Alignment explanation
Indices: 113544744--113544778 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
113544734 TAAATAAAGG
*
113544744 TACTGAATAATTGACTGC
1 TACTAAATAATTGACTGC
*
113544762 TACTAAATATTTGACTG
1 TACTAAATAATTGACTG
113544779 TTGCTGAATT
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:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (18 bp):
TACTAAATAATTGACTGC
Found at i:113545855 original size:22 final size:20
Alignment explanation
Indices: 113545809--113545862 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
113545799 CACGGTGTGC
* *
113545809 CCACACGGGTGTGTTATGGA
1 CCACACGGGCGTGTTATAGA
*
113545829 ACACACGGGCGTGTTATCTAGA
1 CCACACGGGCGTGTTA--TAGA
113545851 CCACACGGGCGT
1 CCACACGGGCGT
113545863 ATGGTACTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 14 0.50
22 14 0.50
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.20
Consensus pattern (20 bp):
CCACACGGGCGTGTTATAGA
Found at i:113549664 original size:17 final size:18
Alignment explanation
Indices: 113549630--113549675 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
113549620 CCGTTATGTC
113549630 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
113549645 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
113549662 CGCGACCGCGACCG
1 CGCGACCGCGACCG
113549676 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:113551598 original size:104 final size:104
Alignment explanation
Indices: 113551418--113551625 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
113551408 GAAAGAATGG
113551418 ATATCAAGATCCTGGCTTTTTATGATTAAATAAATATGTAGTTAACAAAAGAGAGAACATTCCAT
1 ATATCAAGATCCTGGCTTTTTATGATTAAATAAATATGTAGTTAACAAAAGAGAGAACATTCCAT
113551483 GTATATTAGAAAAACTCTACGTACTGGTAACTTAAATAC
66 GTATATTAGAAAAACTCTACGTACTGGTAACTTAAATAC
113551522 ATATCAAGATCCTGGCTTTTTATGATTAAATAAATATGTAGTTAACAAAAGAGAGAACATTCCAT
1 ATATCAAGATCCTGGCTTTTTATGATTAAATAAATATGTAGTTAACAAAAGAGAGAACATTCCAT
113551587 GTATATTAGAAAAACTCTACGTACTGGTAACTTAAATAC
66 GTATATTAGAAAAACTCTACGTACTGGTAACTTAAATAC
113551626 TAGCATCAAT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (104 bp):
ATATCAAGATCCTGGCTTTTTATGATTAAATAAATATGTAGTTAACAAAAGAGAGAACATTCCAT
GTATATTAGAAAAACTCTACGTACTGGTAACTTAAATAC
Found at i:113553957 original size:6 final size:6
Alignment explanation
Indices: 113553903--113553937 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
113553893 CAAAGGCGGC
113553903 AGGCAG A-GCAG AGGCAG AGGCAG AGGCAG AGGCAG
1 AGGCAG AGGCAG AGGCAG AGGCAG AGGCAG AGGCAG
113553938 CGGCTATGGC
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:0.34, C:0.17, G:0.49, T:0.00
Consensus pattern (6 bp):
AGGCAG
Found at i:113555277 original size:20 final size:21
Alignment explanation
Indices: 113555251--113555305 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
113555241 AATTTTATTT
* *
113555251 TATTTTATTTTATTATTCTAA
1 TATTTTATTTTATTACTATAA
113555272 -ATTTTATTTTATTACTATAA
1 TATTTTATTTTATTACTATAA
*
113555292 TATTTTATATTATT
1 TATTTTATTTTATT
113555306 TTAATAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTTATTTTATTACTATAA
Found at i:113568055 original size:29 final size:28
Alignment explanation
Indices: 113568009--113568086 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
113567999 ATCTTTTTGG
*
113568009 AATTGATTTAATCAATTTTAATATGAGAA
1 AATTGATTTAATCAATTTTAAT-TAAGAA
** *
113568038 AATTGATTTAATTGATTTTAGTTAAGAA
1 AATTGATTTAATCAATTTTAATTAAGAA
*
113568066 AATCGATTTAAAATCAATTTT
1 AATTGATTT--AATCAATTTT
113568087 GATTCGGTCG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 13 0.32
29 19 0.47
30 8 0.20
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (28 bp):
AATTGATTTAATCAATTTTAATTAAGAA
Found at i:113570034 original size:24 final size:24
Alignment explanation
Indices: 113570006--113570052 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
113569996 CTATTAAAAC
113570006 GTGATTGATAATTAATCATTAATG
1 GTGATTGATAATTAATCATTAATG
*
113570030 GTGATTGATTATTAATCATTAAT
1 GTGATTGATAATTAATCATTAAT
113570053 TTTTTTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (24 bp):
GTGATTGATAATTAATCATTAATG
Found at i:113573015 original size:43 final size:42
Alignment explanation
Indices: 113572968--113573066 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
113572958 TCCTAGACGT
* ** *
113572968 GGTCTTACATGTAATCAAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATA-CGATGCCGATATCCCAGACAG
* *
113573011 GGTCTTACACGAAATCAAATACGATGCCGATATCCCAGACAT
1 GGTCTTACACGTAATCAAATACGATGCCGATATCCCAGACAG
*
113573053 GATCTTACACGTAA
1 GGTCTTACACGTAA
113573067 ATCTCGAATC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 29 0.60
43 19 0.40
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCGATATCCCAGACAG
Found at i:113588680 original size:17 final size:18
Alignment explanation
Indices: 113588658--113588706 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
113588648 GGTTCTAGAA
113588658 TATTTGGATAGATTA-TT
1 TATTTGGATAGATTAGTT
*
113588675 TATTTGAGA-AAATTAGTT
1 TATTTG-GATAGATTAGTT
*
113588693 AATTT-GATAGATTA
1 TATTTGGATAGATTA
113588707 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 2 0.08
17 16 0.62
18 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (18 bp):
TATTTGGATAGATTAGTT
Found at i:113591087 original size:14 final size:14
Alignment explanation
Indices: 113591068--113591096 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
113591058 ACTTACACCT
113591068 TAATTAATTAACCA
1 TAATTAATTAACCA
113591082 TAATTAATTAACCA
1 TAATTAATTAACCA
113591096 T
1 T
113591097 TAAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATTAATTAACCA
Found at i:113594123 original size:10 final size:11
Alignment explanation
Indices: 113594094--113594137 Score: 63
Period size: 10 Copynumber: 4.0 Consensus size: 11
113594084 CTTCTCTTCC
*
113594094 CTTTTCTTTTGG
1 CTTTTCTTTT-T
113594106 CTTTTCTTTTT
1 CTTTTCTTTTT
113594117 C-TTTCTTTTT
1 CTTTTCTTTTT
113594127 CTTTTCTTTTT
1 CTTTTCTTTTT
113594138 AAAAATGGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 10 0.33
11 10 0.33
12 10 0.33
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:113594880 original size:22 final size:22
Alignment explanation
Indices: 113594853--113594934 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
113594843 CTGCCTCAAC
113594853 CACACGGGCGTGTGCCTCTCTT
1 CACACGGGCGTGTGCCTCTCTT
* * *
113594875 CACACGGGCATGTGCGTCAGC--
1 CACACGGGCGTGTGCCTC-TCTT
** *
113594896 CACATAGGTGTGTGCCTCTCTT
1 CACACGGGCGTGTGCCTCTCTT
113594918 CACACGGGCGTGTGCCT
1 CACACGGGCGTGTGCCT
113594935 TAGCCACACG
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.02
21 13 0.29
22 30 0.67
23 1 0.02
ACGTcount: A:0.13, C:0.33, G:0.29, T:0.24
Consensus pattern (22 bp):
CACACGGGCGTGTGCCTCTCTT
Found at i:113594899 original size:43 final size:43
Alignment explanation
Indices: 113594830--113594965 Score: 146
Period size: 43 Copynumber: 3.2 Consensus size: 43
113594820 ATGTCCCTGG
** * *
113594830 TTCACACGACCATCTGCCTCAACCACACGGGCGTGTGCCTCTC
1 TTCACACGGGCATGTGCCTCAGCCACACGGGCGTGTGCCTCTC
* ** *
113594873 TTCACACGGGCATGTGCGTCAGCCACATAGGTGTGTGCCTCTC
1 TTCACACGGGCATGTGCCTCAGCCACACGGGCGTGTGCCTCTC
* * ** * *
113594916 TTCACACGGGCGTGTGCCTTAGCCACACGACCGTGAGCCCCTC
1 TTCACACGGGCATGTGCCTCAGCCACACGGGCGTGTGCCTCTC
113594959 TTCACAC
1 TTCACAC
113594966 AGGCGTTTGA
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.18, C:0.38, G:0.23, T:0.22
Consensus pattern (43 bp):
TTCACACGGGCATGTGCCTCAGCCACACGGGCGTGTGCCTCTC
Found at i:113597317 original size:13 final size:13
Alignment explanation
Indices: 113597299--113597328 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
113597289 TATATTAAAA
113597299 AAATTAATTCAAT
1 AAATTAATTCAAT
*
113597312 AAATTAATTCATT
1 AAATTAATTCAAT
113597325 AAAT
1 AAAT
113597329 ATTAAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTAATTCAAT
Found at i:113600572 original size:13 final size:13
Alignment explanation
Indices: 113600554--113600578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113600544 TAATTTATAT
113600554 GTGTGAAAATTTC
1 GTGTGAAAATTTC
113600567 GTGTGAAAATTT
1 GTGTGAAAATTT
113600579 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:113601724 original size:43 final size:43
Alignment explanation
Indices: 113601672--113601799 Score: 150
Period size: 44 Copynumber: 3.0 Consensus size: 43
113601662 CATAGGGTTC
*
113601672 CGATATGTGATTTCGTGTAATACCATGTCTGGGACGTTGGCAT
1 CGATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
* * *
113601715 CGATTTGTGATTTTAGTGTAAGACCCTGTCTGGGACAG-TGGCAT
1 CGATATGTGA-TTTCGTGTAAGACCATGTCTGGGAC-GTTGGCAT
* * * * *
113601759 CAATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGC
1 CGATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGC
113601800 GTTGTACGAG
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.46
44 36 0.51
45 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:113602010 original size:14 final size:14
Alignment explanation
Indices: 113601991--113602036 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
113601981 TGAGAGTTCA
113601991 ATATGCTTATGAAT
1 ATATGCTTATGAAT
* *
113602005 ATATGCGTAT-CA-
1 ATATGCTTATGAAT
113602017 ATATGCTTATGAAT
1 ATATGCTTATGAAT
113602031 ATATGC
1 ATATGC
113602037 GTATTCGGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 9 0.35
13 2 0.08
14 15 0.58
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (14 bp):
ATATGCTTATGAAT
Found at i:113602020 original size:26 final size:26
Alignment explanation
Indices: 113601988--113602040 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
113601978 AAGTGAGAGT
113601988 TCAATATGCTTATGAATATATGCGTA
1 TCAATATGCTTATGAATATATGCGTA
113602014 TCAATATGCTTATGAATATATGCGTA
1 TCAATATGCTTATGAATATATGCGTA
113602040 T
1 T
113602041 TCGGCCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (26 bp):
TCAATATGCTTATGAATATATGCGTA
Found at i:113609369 original size:32 final size:27
Alignment explanation
Indices: 113609344--113609395 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
113609334 TATGTATATC
113609344 ATATATTA-TCTATTATATTATTTATGT
1 ATATATTATTC-ATTATATTATTTATGT
*
113609371 TTATATTATTCATTATATTATTTAT
1 ATATATTATTCATTATATTATTTAT
113609396 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATATTATTCATTATATTATTTATGT
Found at i:113615176 original size:39 final size:39
Alignment explanation
Indices: 113615090--113615244 Score: 240
Period size: 39 Copynumber: 3.9 Consensus size: 39
113615080 ATAAAGTATG
*
113615090 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
113615130 GTTTTAATTAATAATGAAAACAAAATAGTAT-GGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
*
113615169 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
* *
113615208 GTTTTAATTAATAATAAAACAAAGTAGCATAGGGGGA
1 GTTTTAATTAATAATAAAACAAAATAGTAT-GGGGGA
113615245 GTGGAATCAA
Statistics
Matches: 108, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
38 15 0.14
39 57 0.53
40 36 0.33
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
Found at i:113627825 original size:3 final size:3
Alignment explanation
Indices: 113627819--113627871 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
113627809 TTACAATACC
* *
113627819 AAT AAT AAT ACT AAGT AAT GAT AAT AAT AAT AAT AA- AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
113627864 AAT AAT AA
1 AAT AAT AA
113627872 GGAGAAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:113627860 original size:14 final size:14
Alignment explanation
Indices: 113627841--113627868 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
113627831 AAGTAATGAT
113627841 AATAATAATAATAA
1 AATAATAATAATAA
113627855 AATAATAATAATAA
1 AATAATAATAATAA
113627869 TAAGGAGAAA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:113627879 original size:23 final size:23
Alignment explanation
Indices: 113627834--113627882 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
113627824 TAATACTAAG
* * *
113627834 TAATGATAATAATAATAATAAAA
1 TAATAATAATAATAAGAAGAAAA
*
113627857 TAATAATAATAATAAGGAGAAAA
1 TAATAATAATAATAAGAAGAAAA
113627880 TAA
1 TAA
113627883 ATTTAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (23 bp):
TAATAATAATAATAAGAAGAAAA
Found at i:113630390 original size:26 final size:25
Alignment explanation
Indices: 113630333--113630395 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
113630323 TTTATTATTA
** *
113630333 TTATT-TAATATTAATTTAATTATT
1 TTATTATAATATTAATAAAATTAAT
113630357 TTATTTATAATATTAATAAAATATAAT
1 TTA-TTATAATATTAATAAAAT-TAAT
*
113630384 TTATTATTATAT
1 TTATTATAATAT
113630396 CTTTCAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 3 0.09
25 2 0.06
26 21 0.66
27 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTATTATAATATTAATAAAATTAAT
Found at i:113646546 original size:16 final size:17
Alignment explanation
Indices: 113646525--113646559 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
113646515 CTTAAAATTA
*
113646525 TTATTTTAGAATTT-TT
1 TTATTTTAAAATTTATT
113646541 TTATTTTAAAATTTATT
1 TTATTTTAAAATTTATT
113646558 TT
1 TT
113646560 TATATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTATTTTAAAATTTATT
Found at i:113646575 original size:22 final size:21
Alignment explanation
Indices: 113646544--113646590 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
113646534 AATTTTTTTA
*
113646544 TTTTAAAATTTATTTTTATATT
1 TTTTAAAATTT-TTTTAATATT
* *
113646566 TTTTAGAATTTTTTTAATTTT
1 TTTTAAAATTTTTTTAATATT
113646587 TTTT
1 TTTT
113646591 TTATAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTAAAATTTTTTTAATATT
Found at i:113650868 original size:42 final size:42
Alignment explanation
Indices: 113650788--113650870 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
113650778 TCTCCTACAG
* * *
113650788 CGCATATTATTAAGGAAGACAACCACGCATAAGTACGAAAAA
1 CGCATATTATAAAGGAAGACAACCACACATAAGCACGAAAAA
* *
113650830 CGCATATTATAAAGGAAGACAACCGCACATGAGCACGAAAA
1 CGCATATTATAAAGGAAGACAACCACACATAAGCACGAAAA
113650871 TCTATCGTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.14
Consensus pattern (42 bp):
CGCATATTATAAAGGAAGACAACCACACATAAGCACGAAAAA
Found at i:113652026 original size:13 final size:13
Alignment explanation
Indices: 113652008--113652034 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
113651998 GATTTTCTTA
113652008 TATTTTATTTTAC
1 TATTTTATTTTAC
113652021 TATTTTATTTTAC
1 TATTTTATTTTAC
113652034 T
1 T
113652035 TTGTATTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTTTATTTTAC
Found at i:113655603 original size:55 final size:55
Alignment explanation
Indices: 113655514--113655619 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 55
113655504 TTAATGTAAG
* * * *
113655514 AGTCGATTTAAATATATAAATAATCAATTCAAAAGAAACATTATTTCAACACGAT
1 AGTCAATTTAAACATATAAAAAATCAATTCAAAAGAAACAGTATTTCAACACGAT
113655569 AGTCAATTTAAACATATAAAAAAT-ATATTCAAAAGAAACAGTATTTCAACA
1 AGTCAATTTAAACATATAAAAAATCA-ATTCAAAAGAAACAGTATTTCAACA
113655620 ATTAAGACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 1 0.02
55 45 0.98
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (55 bp):
AGTCAATTTAAACATATAAAAAATCAATTCAAAAGAAACAGTATTTCAACACGAT
Found at i:113659525 original size:31 final size:32
Alignment explanation
Indices: 113659484--113659546 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
113659474 TTATTTATAA
*
113659484 AAGATATTTAT-TAATTAAATA-ATTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
113659515 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
113659547 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:113659630 original size:2 final size:2
Alignment explanation
Indices: 113659623--113659647 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
113659613 TTAAGTTAAC
113659623 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 A
113659648 AAGTAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113659681 original size:15 final size:15
Alignment explanation
Indices: 113659656--113659739 Score: 64
Period size: 15 Copynumber: 5.5 Consensus size: 15
113659646 TAAAGTAAAC
113659656 AAAAGAAAAAGAAATG
1 AAAAGAAAAAGAAA-G
*
113659672 AAAA-AAAAAGATAG
1 AAAAGAAAAAGAAAG
*
113659686 AAAAGAAACAGAAAG
1 AAAAGAAAAAGAAAG
* * *
113659701 AAACGAAACAGAGAG
1 AAAAGAAAAAGAAAG
* *
113659716 CAAGGAAGGAAAGAAAG
1 AAAAGAA--AAAGAAAG
113659733 -AAAGAAA
1 AAAAGAAA
113659740 GGGAGAAAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
14 6 0.11
15 34 0.62
16 9 0.16
17 6 0.11
ACGTcount: A:0.70, C:0.05, G:0.23, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAGAAAG
Found at i:113671976 original size:31 final size:32
Alignment explanation
Indices: 113671939--113672012 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
113671929 AGGGGTCGAG
* *
113671939 ACACAGGCA-TGTGTGACCATACGGGCT-GACC
1 ACACAGGCAGTGTGTGACCACACGGCCTAG-CC
113671970 ACACAGG-AGTGTGTGACCACACGGCCTAGCC
1 ACACAGGCAGTGTGTGACCACACGGCCTAGCC
113672001 ACACAGGC-GTGT
1 ACACAGGCAGTGT
113672013 CCCAAAACCA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
30 1 0.03
31 36 0.95
32 1 0.03
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.15
Consensus pattern (32 bp):
ACACAGGCAGTGTGTGACCACACGGCCTAGCC
Found at i:113675162 original size:20 final size:19
Alignment explanation
Indices: 113675123--113675162 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
113675113 TTCCCTATTG
*
113675123 TTTGAAAAATTTTCTAAGT
1 TTTGAAAAATTTCCTAAGT
*
113675142 TTTGTAAAAATTTCCTGAGT
1 TTTG-AAAAATTTCCTAAGT
113675162 T
1 T
113675163 GTCGGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTGAAAAATTTCCTAAGT
Found at i:113678626 original size:21 final size:20
Alignment explanation
Indices: 113678597--113678636 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
113678587 ACAAAACTTG
113678597 CATAACTATCATCAAACATT
1 CATAACTATCATCAAACATT
*
113678617 CATAATCTATCATTAAACAT
1 CATAA-CTATCATCAAACAT
113678637 CAAAATACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.33
Consensus pattern (20 bp):
CATAACTATCATCAAACATT
Found at i:113679772 original size:21 final size:21
Alignment explanation
Indices: 113679731--113679772 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
113679721 GAATTTAACA
*
113679731 TCAATTTAATACAATTTACAT
1 TCAATTTAATACAATTCACAT
* *
113679752 TCAATTTAGTCCAATTCACAT
1 TCAATTTAATACAATTCACAT
113679773 CTTAGACAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.40
Consensus pattern (21 bp):
TCAATTTAATACAATTCACAT
Found at i:113681113 original size:17 final size:16
Alignment explanation
Indices: 113681093--113681131 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
113681083 TTAATACAAT
113681093 ATATAAATTATTTTTTA
1 ATATAAA-TATTTTTTA
*
113681110 ATATTACATATTTTTTA
1 ATA-TAAATATTTTTTA
113681127 ATATA
1 ATATA
113681132 TTATTTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 15 0.75
18 3 0.15
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATAAATATTTTTTA
Found at i:113688143 original size:20 final size:20
Alignment explanation
Indices: 113688105--113688143 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
113688095 AAATAACATA
* *
113688105 TTATTTTATAATTTCATTTC
1 TTATTTAATAATTTAATTTC
*
113688125 TTATTTAATATTTTAATTT
1 TTATTTAATAATTTAATTT
113688144 AATTTTAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTAATAATTTAATTTC
Found at i:113688343 original size:166 final size:162
Alignment explanation
Indices: 113688065--113688407 Score: 560
Period size: 166 Copynumber: 2.1 Consensus size: 162
113688055 TAATAAAACG
*
113688065 TGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTATTTTATAATTTCATTTCTTATT
1 TGTATCTCATTACAATAATAGTCATTTTCCAAATAACATATTATTTTATAATTTCATTTCTTATT
* *
113688130 TAATATTTTAATTTAATTTTAATAATGCATACTTTACCTGGATGAAGTATGTATTAGCAGATTCA
66 TAATATTTTAATTTAATTTTAATAATGCATACTTTACCCGAATGAAGTATGTATTAGCAGATTCA
* *
113688195 CTAATATGATTATGTATATATATATATATACACGCA
131 CTAATATG---AT-TATATATATATACACACACGCA
* * *
113688231 TGTATCTCATTACAATAATAGTCATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATT
1 TGTATCTCATTACAATAATAGTCATTTTCCAAATAACATATTATTTTATAATTTCATTTCTTATT
*
113688296 TAATATTTTAATTTAATTTTAATAATGCCTACTTTACCCGAATGAAGTATGTATTAGCAGATTCA
66 TAATATTTTAATTTAATTTTAATAATGCATACTTTACCCGAATGAAGTATGTATTAGCAGATTCA
113688361 CTAATATGATTATATATATATACACACACGCA
131 CTAATATGATTATATATATATACACACACGCA
*
113688393 TGTATCACATTACAA
1 TGTATCTCATTACAA
113688408 AGACAAAATT
Statistics
Matches: 167, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
162 34 0.20
163 2 0.01
166 131 0.78
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (162 bp):
TGTATCTCATTACAATAATAGTCATTTTCCAAATAACATATTATTTTATAATTTCATTTCTTATT
TAATATTTTAATTTAATTTTAATAATGCATACTTTACCCGAATGAAGTATGTATTAGCAGATTCA
CTAATATGATTATATATATATACACACACGCA
Found at i:113689077 original size:26 final size:25
Alignment explanation
Indices: 113689048--113689098 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
113689038 TACTGTTCCG
* *
113689048 AAAATAAAAAATAATATTTTATTTAA
1 AAAACAAAAAAAAATATTTT-TTTAA
113689074 AAAACAAAAAAAAATATTTTTTTAA
1 AAAACAAAAAAAAATATTTTTTTAA
113689099 TATAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAACAAAAAAAAATATTTTTTTAA
Found at i:113697086 original size:93 final size:93
Alignment explanation
Indices: 113696973--113697144 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
113696963 CGCCCATAAG
* *
113696973 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
113697038 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
113697066 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
113697131 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
113697145 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:113697141 original size:46 final size:46
Alignment explanation
Indices: 113696966--113697141 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
113696956 TGTAACCCGC
* * *
113696966 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
113697012 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
113697062 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
113697105 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
113697142 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:113697599 original size:30 final size:30
Alignment explanation
Indices: 113697564--113697620 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
113697554 TAACTCAAAT
113697564 TTTTGCAAAATTACAATTTTACCCCTAAAC
1 TTTTGCAAAATTACAATTTTACCCCTAAAC
* * * *
113697594 TTTTGCATATTTACATTTTTGCCCCTA
1 TTTTGCAAAATTACAATTTTACCCCTA
113697621 GGCTCGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTACCCCTAAAC
Found at i:113699451 original size:6 final size:6
Alignment explanation
Indices: 113699440--113699472 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
113699430 GTGAAAGGGG
113699440 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
113699473 TTCCCAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:113712808 original size:28 final size:26
Alignment explanation
Indices: 113712750--113712808 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
113712740 ATAAATTTGA
*
113712750 AAATAATTATGAAAAAAACATGAAAT
1 AAATAATTATGAAAAAAAAATGAAAT
* * *
113712776 TAATAATGTATAGAAAAAAAAATTAAGT
1 AAATAAT-TAT-GAAAAAAAAATGAAAT
113712804 AAATA
1 AAATA
113712809 TATAAATGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.23
27 3 0.12
28 17 0.65
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.25
Consensus pattern (26 bp):
AAATAATTATGAAAAAAAAATGAAAT
Found at i:113715621 original size:6 final size:6
Alignment explanation
Indices: 113715554--113715610 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
113715544 ATTGAGTCTA
* * * *
113715554 TTTATC TTTATG TTTATT TTTATTT TTTGTT TTTATC TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT TTTATT TTTATT
113715603 TTTATT TT
1 TTTATT TT
113715611 GTTTTGTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
6 39 0.89
7 5 0.11
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:113717830 original size:17 final size:17
Alignment explanation
Indices: 113717788--113717830 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
113717778 GTGGACATTA
113717788 TAATTTATGAAAATGTT
1 TAATTTATGAAAATGTT
*
113717805 AAATTTATGAAAATGTT
1 TAATTTATGAAAATGTT
*
113717822 TAATATATG
1 TAATTTATG
113717831 TTTATTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
TAATTTATGAAAATGTT
Found at i:113721223 original size:15 final size:15
Alignment explanation
Indices: 113721203--113721259 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
113721193 CGATGAATTT
113721203 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
113721218 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
113721233 ATTGAATTTATATTG
1 ATTGAATTTATATTG
113721248 ATTGAA-TTATAT
1 ATTGAATTTATAT
113721260 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:113721670 original size:23 final size:22
Alignment explanation
Indices: 113721644--113721704 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
113721634 AGGCACTTTA
*
113721644 TGTGTCGTATATCAGGTACCTCG
1 TGTGTCGT-TATCAGGCACCTCG
113721667 TGTGTCG-TATCAGGCACCTCG
1 TGTGTCGTTATCAGGCACCTCG
*
113721688 TGTGTCGTT-TTAGGCAC
1 TGTGTCGTTATCAGGCAC
113721705 TTTATGTGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 27 0.77
22 1 0.03
23 7 0.20
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.34
Consensus pattern (22 bp):
TGTGTCGTTATCAGGCACCTCG
Found at i:113721677 original size:21 final size:21
Alignment explanation
Indices: 113721644--113721718 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
113721634 AGGCACTTTA
*
113721644 TGTGTCGTATATCAGGTACCTCG
1 TGTGTCG--TATCAGGCACCTCG
113721667 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
113721688 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
113721709 TGTGTCGTAT
1 TGTGTCGTAT
113721719 ACTGATCAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 38 0.84
23 7 0.16
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.39
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:113726282 original size:8 final size:8
Alignment explanation
Indices: 113726269--113726313 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
113726259 TTATGTTTAG
113726269 TATATTAT
1 TATATTAT
113726277 TATATTAT
1 TATATTAT
113726285 TATATTA-
1 TATATTAT
113726292 TAT-TATAT
1 TATAT-TAT
113726300 TATATTAT
1 TATATTAT
113726308 ATATAT
1 -TATAT
113726314 AAACTAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 1 0.03
7 5 0.15
8 21 0.64
9 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:113726284 original size:5 final size:5
Alignment explanation
Indices: 113726274--113726313 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
113726264 TTTAGTATAT
113726274 TATTA TA-T- TATTA TATTA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
113726314 AAACTAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.06
4 6 0.19
5 24 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:113726297 original size:10 final size:9
Alignment explanation
Indices: 113726269--113726313 Score: 58
Period size: 10 Copynumber: 5.0 Consensus size: 9
113726259 TTATGTTTAG
113726269 TATAT-TAT
1 TATATATAT
113726277 TATAT-TAT
1 TATATATAT
113726285 TATATTATAT
1 TATA-TATAT
113726295 TATATTATAT
1 TATA-TATAT
113726305 TATATATAT
1 TATATATAT
113726314 AAACTAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 12 0.34
9 6 0.17
10 17 0.49
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TATATATAT
Found at i:113727102 original size:16 final size:17
Alignment explanation
Indices: 113727081--113727116 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
113727071 ATAAAATAAT
*
113727081 AATATTTT-ATTTAAAA
1 AATATTTTAATATAAAA
113727097 AATATTTTAATATAAAA
1 AATATTTTAATATAAAA
113727114 AAT
1 AAT
113727117 GTATTGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTTTAATATAAAA
Found at i:113739146 original size:28 final size:28
Alignment explanation
Indices: 113739109--113739179 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
113739099 TTTATTATTC
*
113739109 TTATTCTTATTCTTATTCTTATATTTTAA
1 TTATTTTTATT-TTATTCTTATATTTTAA
* * *
113739138 TT-TTTTTATATTTTTTTTTATATTTTTA
1 TTATTTTTAT-TTTATTCTTATATTTTAA
113739166 TTATTTTTATTTTA
1 TTATTTTTATTTTA
113739180 CTATTTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 25 0.71
29 10 0.29
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (28 bp):
TTATTTTTATTTTATTCTTATATTTTAA
Found at i:113739155 original size:12 final size:12
Alignment explanation
Indices: 113739138--113739202 Score: 71
Period size: 12 Copynumber: 5.5 Consensus size: 12
113739128 TATATTTTAA
113739138 TTTTTTTATATT
1 TTTTTTTATATT
113739150 TTTTTTTATA-T
1 TTTTTTTATATT
*
113739161 TTTTATTAT-TT
1 TTTTTTTATATT
*
113739172 TTATTTTACTATT
1 TTTTTTTA-TATT
* *
113739185 TTTATTTCTATT
1 TTTTTTTATATT
113739197 TTTTTT
1 TTTTTT
113739203 CATTTTTACT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
11 16 0.37
12 20 0.47
13 7 0.16
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTATATT
Found at i:113739169 original size:23 final size:23
Alignment explanation
Indices: 113739132--113739202 Score: 85
Period size: 22 Copynumber: 3.1 Consensus size: 23
113739122 TATTCTTATA
113739132 TTTTA-ATTTTT-TTATATTTTT
1 TTTTATATTTTTATTATATTTTT
*
113739153 TTTTATATTTTTATTAT-TTTTA
1 TTTTATATTTTTATTATATTTTT
*
113739175 TTTTACTATTTTTATTTCTATTTTT
1 TTTTA-TATTTTTA-TTATATTTTT
113739200 TTT
1 TTT
113739203 CATTTTTACT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 5 0.12
22 15 0.36
23 12 0.29
24 3 0.07
25 7 0.17
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTATATTTTTATTATATTTTT
Found at i:113739174 original size:9 final size:9
Alignment explanation
Indices: 113739099--113739176 Score: 52
Period size: 9 Copynumber: 8.7 Consensus size: 9
113739089 AATTAATTAA
113739099 TTTATTATT
1 TTTATTATT
* *
113739108 CTTATTCTT
1 TTTATTATT
* *
113739117 ATTCTTATT
1 TTTATTATT
*
113739126 CTTA-TATT
1 TTTATTATT
*
113739134 TTAATT-TT
1 TTTATTATT
*
113739142 TTTATATTTT
1 TTTAT-TATT
*
113739152 TTTTTATATT
1 TTTAT-TATT
113739162 TTTATTATT
1 TTTATTATT
113739171 TTTATT
1 TTTATT
113739177 TTACTATTTT
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
8 12 0.23
9 27 0.51
10 14 0.26
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTATTATT
Found at i:113739175 original size:6 final size:6
Alignment explanation
Indices: 113739098--113739199 Score: 61
Period size: 6 Copynumber: 17.0 Consensus size: 6
113739088 TAATTAATTA
* * * * * *
113739098 ATTTATT ATTCTT ATTCTT ATTCTT ATTCTT ATATTTT AATTTT -TTTAT
1 ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT AT-TTTT ATTTTT ATTTTT
*
113739147 ATTTTT -TTTTAT ATTTTT A---TT ATTTTT ATTTTACT ATTTTT ATTTCT
1 ATTTTT ATTTT-T ATTTTT ATTTTT ATTTTT ATTTT--T ATTTTT ATTTTT
113739194 ATTTTT
1 ATTTTT
113739200 TTTCATTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
3 3 0.04
5 7 0.09
6 51 0.65
7 11 0.14
8 6 0.08
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:113739190 original size:20 final size:19
Alignment explanation
Indices: 113739039--113739198 Score: 63
Period size: 20 Copynumber: 8.4 Consensus size: 19
113739029 TTACCCCAAC
*
113739039 TTTATTTTATTTTATTTATT
1 TTTATTTTATATT-TTTATT
* *
113739059 ATTAATTGTTATA-TTAT-TT
1 -TTTATT-TTATATTTTTATT
*
113739078 TTTATTTTACTAATTAATTAATT
1 TTTATTTTA-T-ATT--TTTATT
* *
113739101 TATTATTCT-TATTCTTATT
1 T-TTATTTTATATTTTTATT
* *
113739120 CTTATTCTTATA-TTTTA-A
1 TTTATT-TTATATTTTTATT
113739138 TTT-TTTTATATTTTT-TT
1 TTTATTTTATATTTTTATT
113739155 TTATATTTT-TA---TTATT
1 TT-TATTTTATATTTTTATT
113739171 TTTATTTTACTATTTTTATT
1 TTTATTTTA-TATTTTTATT
*
113739191 TCTATTTT
1 TTTATTTT
113739199 TTTTCATTTT
Statistics
Matches: 103, Mismatches: 16, Indels: 41
0.64 0.10 0.26
Matches are distributed among these distances:
15 8 0.08
16 9 0.09
17 13 0.13
18 16 0.16
19 16 0.16
20 17 0.17
21 9 0.09
22 6 0.06
23 3 0.03
24 6 0.06
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (19 bp):
TTTATTTTATATTTTTATT
Found at i:113739197 original size:35 final size:35
Alignment explanation
Indices: 113739141--113739210 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
113739131 ATTTTAATTT
*
113739141 TTTTATATTTTTTTTTATATTTTTATT-ATTTTTA
1 TTTTATATTTTTATTTATATTTTTATTCATTTTTA
* *
113739175 TTTTACTATTTTTATTTCTATTTTTTTTCATTTTTA
1 TTTTA-TATTTTTATTTATATTTTTATTCATTTTTA
113739211 CTATTATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 5 0.16
35 19 0.61
36 7 0.23
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (35 bp):
TTTTATATTTTTATTTATATTTTTATTCATTTTTA
Found at i:113739264 original size:3 final size:3
Alignment explanation
Indices: 113739256--113739287 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
113739246 ATCATTGAGT
113739256 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
113739288 TATCTTTCTT
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:113740307 original size:11 final size:11
Alignment explanation
Indices: 113740291--113740320 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
113740281 CATTGTTCTC
113740291 AAAAAAAATGA
1 AAAAAAAATGA
*
113740302 AAAAAAAGTGA
1 AAAAAAAATGA
113740313 AAAAAAAA
1 AAAAAAAA
113740321 ATTTATGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:113743632 original size:42 final size:42
Alignment explanation
Indices: 113743530--113743686 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 42
113743520 AGCTCGTACA
** * *
113743530 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATAT-G
113743573 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATATG
* *
113743615 ATGCCAACGTCCTAGACATGGTCTTACACATAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACATGGTCTTACAC-GAAATCA-AA-TATG
*
113743659 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
113743687 TAAATCATAA
Statistics
Matches: 101, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
42 28 0.28
43 42 0.42
44 30 0.30
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATG
Found at i:113744943 original size:12 final size:12
Alignment explanation
Indices: 113744926--113744971 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
113744916 TACAGTGCAC
113744926 CTATTCTTTCTT
1 CTATTCTTTCTT
113744938 CTATTCTTTCTT
1 CTATTCTTTCTT
* *
113744950 TTTTTCTTTCTT
1 CTATTCTTTCTT
113744962 -T-TTCTTTCTT
1 CTATTCTTTCTT
113744972 AATTTTGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 9 0.28
11 1 0.03
12 22 0.69
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (12 bp):
CTATTCTTTCTT
Done.