Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 94 of 172
Found at i:27272051 original size:28 final size:28
Alignment explanation
Indices: 27272020--27272079 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
27272010 TAATTTTGAA
27272020 AATAAATTTTGTTTAAGGCTAATTTACT
1 AATAAATTTTGTTTAAGGCTAATTTACT
27272048 AATAAATTTTGTTTAAGGCTAATTTACT
1 AATAAATTTTGTTTAAGGCTAATTTACT
27272076 AATA
1 AATA
27272080 GAGTCCAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (28 bp):
AATAAATTTTGTTTAAGGCTAATTTACT
Found at i:27277513 original size:125 final size:127
Alignment explanation
Indices: 27277266--27277516 Score: 323
Period size: 127 Copynumber: 2.0 Consensus size: 127
27277256 AATCCTTCTT
* *
27277266 CGCAAATGGATCAGCTCTAAAGACAATCCAACAACAAAATCAACATTTTTAAATTAATAAATCTC
1 CGCAAATGGATCAGCTCTAAAGACAATCCAACAACAAAATCAACATATTTAAACTAATAAATCTC
** *
27277331 TTTCTAGGATACCCAAACCGCGATTAAAGCTTAAATCAACAATGAAACAAAAAGTACTTACA
66 TTTCTAAAATACCCAAACCGCAATTAAAGCTTAAATCAACAATGAAACAAAAAGTACTTACA
** *
27277393 CGCAAATGGATCAGCATC-AAAGAGTATCCAACAACAGAATCAA-A-ATTTAAACTAATAAATCT
1 CGCAAATGGATCAGC-TCTAAAGACAATCCAACAACAAAATCAACATATTTAAACTAATAAATCT
* * * * *
27277455 CTTTCTAAAATACCCCAAACCGTAATTGAAGGTTAAATCAATGAA-GAAA-AGAAAGTACTTAC
65 CTTTCTAAAATA-CCCAAACCGCAATTAAAGCTTAAATCAA-CAATGAAACAAAAAGTACTTAC
27277517 GCTTTCTTCT
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
125 38 0.35
126 29 0.27
127 39 0.36
128 2 0.02
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (127 bp):
CGCAAATGGATCAGCTCTAAAGACAATCCAACAACAAAATCAACATATTTAAACTAATAAATCTC
TTTCTAAAATACCCAAACCGCAATTAAAGCTTAAATCAACAATGAAACAAAAAGTACTTACA
Found at i:27278636 original size:44 final size:44
Alignment explanation
Indices: 27278548--27278638 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
27278538 ATAGGTCAAA
* *
27278548 TAATATCAAAATAACCTACACTAATCAAAATTTAAGTGGGAAAC
1 TAATATCAAAATAACCTACACTAATCAAAATTTAACTGAGAAAC
* * *
27278592 TAATATTAAAATAACCTACACTAATCAAAGTTTAACTGATAAAC
1 TAATATCAAAATAACCTACACTAATCAAAATTTAACTGAGAAAC
27278636 TAA
1 TAA
27278639 AAACTGAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (44 bp):
TAATATCAAAATAACCTACACTAATCAAAATTTAACTGAGAAAC
Found at i:27280551 original size:44 final size:44
Alignment explanation
Indices: 27280501--27280631 Score: 217
Period size: 44 Copynumber: 3.0 Consensus size: 44
27280491 GTAGGTCAAA
* * * *
27280501 TAATATTAAAATATCCTATATTAATCAAAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAC
27280545 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAC
*
27280589 TAATATTAAAATAACCTACACTAATCAGATTTTAAGTGGGAAA
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAA
27280632 TTAAAAATAG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 82 1.00
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAC
Found at i:27281329 original size:15 final size:15
Alignment explanation
Indices: 27281309--27281342 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
27281299 CTCGTACATT
27281309 TTGACCTATTAAATA
1 TTGACCTATTAAATA
27281324 TTGACCTATTAAATA
1 TTGACCTATTAAATA
27281339 TTGA
1 TTGA
27281343 ACTAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (15 bp):
TTGACCTATTAAATA
Found at i:27306161 original size:22 final size:22
Alignment explanation
Indices: 27306136--27306184 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
27306126 ATTATTATTT
*
27306136 AAATATTGTT-TCACTATTTTAA
1 AAATATTGTTCT-ACTAATTTAA
*
27306158 AAATATTGTTCTATTAATTTAA
1 AAATATTGTTCTACTAATTTAA
27306180 AAATA
1 AAATA
27306185 CTTTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (22 bp):
AAATATTGTTCTACTAATTTAA
Found at i:27307195 original size:30 final size:29
Alignment explanation
Indices: 27307158--27307223 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
27307148 GGGGGATGAG
*
27307158 TTTGGGGTAGATGGGAG-GAAAGTAAAAGT
1 TTTGGGGTAGA-GGGAGAGAAAGTAAAAAT
* *
27307187 TTTAGGGGTAGAGGGCGAGAGAGTAAAAAT
1 TTT-GGGGTAGAGGGAGAGAAAGTAAAAAT
27307217 TTTGGGG
1 TTTGGGG
27307224 AAAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.32, C:0.02, G:0.42, T:0.24
Consensus pattern (29 bp):
TTTGGGGTAGAGGGAGAGAAAGTAAAAAT
Found at i:27312073 original size:304 final size:304
Alignment explanation
Indices: 27311524--27312131 Score: 1207
Period size: 304 Copynumber: 2.0 Consensus size: 304
27311514 GCCAACTTTC
27311524 CTCAATTCATGGCCGACCACTCTTGGTGGAAGTTTCAAAGGATGGACACTCCTATTTTTAGCAAA
1 CTCAATTCATGGCCGACCACTCTTGGTGGAAGTTTCAAAGGATGGACACTCCTATTTTTAGCAAA
*
27311589 CTAGCTCCCTTGGCTCACCTATAAATAAGAGCTCATTTCCCACTTTTTCAATCATCCCTCATCCC
66 CTAGCTCCCTTGCCTCACCTATAAATAAGAGCTCATTTCCCACTTTTTCAATCATCCCTCATCCC
27311654 ACCATCTCTCACTCATTTATCATTCTCTCAACTCTTTTAGCTATCTTTCTCATTCATCATCCTTG
131 ACCATCTCTCACTCATTTATCATTCTCTCAACTCTTTTAGCTATCTTTCTCATTCATCATCCTTG
27311719 CATAAGGATTTTAGCAATTAAGCCTCTTAAAGAACCCTTGGTCAGCCACCTTGTAGAGCCATCAG
196 CATAAGGATTTTAGCAATTAAGCCTCTTAAAGAACCCTTGGTCAGCCACCTTGTAGAGCCATCAG
27311784 CAAAGGAGTAACGCAAAGAAGCGAATGAGCCTCGTCAGTCAGAG
261 CAAAGGAGTAACGCAAAGAAGCGAATGAGCCTCGTCAGTCAGAG
27311828 CTCAATTCATGGCCGACCACTCTTGGTGGAAGTTTCAAAGGATGGACACTCCTATTTTTAGCAAA
1 CTCAATTCATGGCCGACCACTCTTGGTGGAAGTTTCAAAGGATGGACACTCCTATTTTTAGCAAA
27311893 CTAGCTCCCTTGCCTCACCTATAAATAAGAGCTCATTTCCCACTTTTTCAATCATCCCTCATCCC
66 CTAGCTCCCTTGCCTCACCTATAAATAAGAGCTCATTTCCCACTTTTTCAATCATCCCTCATCCC
27311958 ACCATCTCTCACTCATTTATCATTCTCTCAACTCTTTTAGCTATCTTTCTCATTCATCATCCTTG
131 ACCATCTCTCACTCATTTATCATTCTCTCAACTCTTTTAGCTATCTTTCTCATTCATCATCCTTG
27312023 CATAAGGATTTTAGCAATTAAGCCTCTTAAAGAACCCTTGGTCAGCCACCTTGTAGAGCCATCAG
196 CATAAGGATTTTAGCAATTAAGCCTCTTAAAGAACCCTTGGTCAGCCACCTTGTAGAGCCATCAG
27312088 CAAAGGAGTAACGCAAAGAAGCGAATGAGCCTCGTCAGTCAGAG
261 CAAAGGAGTAACGCAAAGAAGCGAATGAGCCTCGTCAGTCAGAG
27312132 TCTTGGGTGA
Statistics
Matches: 303, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
304 303 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (304 bp):
CTCAATTCATGGCCGACCACTCTTGGTGGAAGTTTCAAAGGATGGACACTCCTATTTTTAGCAAA
CTAGCTCCCTTGCCTCACCTATAAATAAGAGCTCATTTCCCACTTTTTCAATCATCCCTCATCCC
ACCATCTCTCACTCATTTATCATTCTCTCAACTCTTTTAGCTATCTTTCTCATTCATCATCCTTG
CATAAGGATTTTAGCAATTAAGCCTCTTAAAGAACCCTTGGTCAGCCACCTTGTAGAGCCATCAG
CAAAGGAGTAACGCAAAGAAGCGAATGAGCCTCGTCAGTCAGAG
Found at i:27315194 original size:25 final size:25
Alignment explanation
Indices: 27315150--27315260 Score: 98
Period size: 25 Copynumber: 4.4 Consensus size: 25
27315140 AACATGTAAA
* **
27315150 CGGGAAGCTCTTGTGAGCCAAATAT
1 CGGGAAGCTCATAAGAGCCAAATAT
* * *
27315175 CGGGAAGCTCAAAAGTGCC-ATTAAT
1 CGGGAAGCTCATAAGAGCCAAAT-AT
* * *
27315200 CGGGAAGCTCATGAGAGCTAAATAA
1 CGGGAAGCTCATAAGAGCCAAATAT
*
27315225 CGGGAAGCTCGTAAGAGCCAAATAT
1 CGGGAAGCTCATAAGAGCCAAATAT
* *
27315250 TGGGACGCTCA
1 CGGGAAGCTCA
27315261 GCTGTGGTGT
Statistics
Matches: 65, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
24 2 0.03
25 61 0.94
26 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (25 bp):
CGGGAAGCTCATAAGAGCCAAATAT
Found at i:27327799 original size:29 final size:29
Alignment explanation
Indices: 27327750--27327806 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
27327740 CAATGGTGCA
* *
27327750 TTCGAACCAATAACTCAGATATCACTTGG
1 TTCGAACCAACAACTCAGATACCACTTGG
* *
27327779 TTCGAACCAACAGCTCTGATACCACTTG
1 TTCGAACCAACAACTCAGATACCACTTG
27327807 TCACGGGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (29 bp):
TTCGAACCAACAACTCAGATACCACTTGG
Found at i:27331302 original size:25 final size:25
Alignment explanation
Indices: 27331194--27331303 Score: 89
Period size: 25 Copynumber: 4.4 Consensus size: 25
27331184 AACATGTAAA
* **
27331194 CGGGAAGCTCTTGTGAGCCAAATAT
1 CGGGAAGCTCATAAGAGCCAAATAT
* * *
27331219 CGGG-AGCTCAAAAGTGCC-ATTAAT
1 CGGGAAGCTCATAAGAGCCAAAT-AT
* *
27331243 CGGGAAGCTCATAAGAGCTAAATAA
1 CGGGAAGCTCATAAGAGCCAAATAT
* * *
27331268 AGGAAAGCTCGTAAGAGCCAAATAT
1 CGGGAAGCTCATAAGAGCCAAATAT
*
27331293 CGGGACGCTCA
1 CGGGAAGCTCA
27331304 GCTGTGGTGT
Statistics
Matches: 62, Mismatches: 20, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
23 2 0.03
24 15 0.24
25 43 0.69
26 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.18
Consensus pattern (25 bp):
CGGGAAGCTCATAAGAGCCAAATAT
Found at i:27341373 original size:68 final size:68
Alignment explanation
Indices: 27341264--27341433 Score: 180
Period size: 68 Copynumber: 2.5 Consensus size: 68
27341254 AAAAATATGG
* * ** * * * * * *
27341264 CATCATATTGTGTAAGACCATAGCTGGGCTACAGTAACATATGATGTCTGCCAGGACAGTAAACA
1 CATCATATTGTGTAAGACCATAGTTGAGCTATGGCAACATATGAAGCCAGCCAAGACAGGAAACA
27341329 TGA
66 TGA
* * *
27341332 CATCATATTGTGTATGACCATAGTTGAGCTATGGCAACATATGAAGCCAGTCAAGATAGGAAACA
1 CATCATATTGTGTAAGACCATAGTTGAGCTATGGCAACATATGAAGCCAGCCAAGACAGGAAACA
27341397 TGA
66 TGA
* * *
27341400 CAACTTATAGTGTAAGACCATAGTT-AGGCTATGG
1 CATCATATTGTGTAAGACCATAGTTGA-GCTATGG
27341434 TACCATATAA
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
67 1 0.01
68 83 0.99
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (68 bp):
CATCATATTGTGTAAGACCATAGTTGAGCTATGGCAACATATGAAGCCAGCCAAGACAGGAAACA
TGA
Found at i:27344075 original size:14 final size:14
Alignment explanation
Indices: 27344045--27344078 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
27344035 ATAGTTATGC
27344045 TTTAATGTTCTATA
1 TTTAATGTTCTATA
27344059 TTTATATGTTCTA-A
1 TTTA-ATGTTCTATA
27344073 TTTAAT
1 TTTAAT
27344079 TTATGATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 9 0.47
15 8 0.42
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTAATGTTCTATA
Found at i:27345950 original size:3 final size:3
Alignment explanation
Indices: 27345944--27345975 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
27345934 CATCATCATT
*
27345944 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
27345976 TGACGTTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:27347005 original size:13 final size:13
Alignment explanation
Indices: 27346989--27347013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27346979 TGCCGTGGAA
27346989 AAGTGCTTTTGAG
1 AAGTGCTTTTGAG
27347002 AAGTGCTTTTGA
1 AAGTGCTTTTGA
27347014 AAATTTGGTT
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:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
AAGTGCTTTTGAG
Found at i:27347324 original size:24 final size:25
Alignment explanation
Indices: 27347277--27347341 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
27347267 TATAACCATT
**
27347277 AAATATTTGTAATTAATTTTTTTTA
1 AAATATTTGTAATTAATTGATTTTA
*
27347302 AAATATTTTTAATTAA-TGATTTTA
1 AAATATTTGTAATTAATTGATTTTA
* *
27347326 ACACATTTGTAATTAA
1 AAATATTTGTAATTAA
27347342 GCACCAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 19 0.56
25 15 0.44
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (25 bp):
AAATATTTGTAATTAATTGATTTTA
Found at i:27351845 original size:20 final size:21
Alignment explanation
Indices: 27351801--27351845 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 21
27351791 TAAAATAAGG
27351801 TTAAATTTTCTAAAATAATTA
1 TTAAATTTTCTAAAATAATTA
*
27351822 -TAAA-TTTGTAAAA-AAGTTA
1 TTAAATTTTCTAAAATAA-TTA
27351841 TTAAA
1 TTAAA
27351846 ATTTATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 2 0.10
19 11 0.52
20 8 0.38
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
TTAAATTTTCTAAAATAATTA
Found at i:27360594 original size:12 final size:12
Alignment explanation
Indices: 27360577--27360602 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27360567 TAGGGAAAAG
27360577 ATAAATACAATT
1 ATAAATACAATT
27360589 ATAAATACAATT
1 ATAAATACAATT
27360601 AT
1 AT
27360603 TAGTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAAATACAATT
Found at i:27367200 original size:23 final size:20
Alignment explanation
Indices: 27367153--27367202 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
27367143 ATTCATCGTA
27367153 TTAATAATAAGTGATATTAG
1 TTAATAATAAGTGATATTAG
27367173 TTAATAATAAGTGATATTAG
1 TTAATAATAAGTGATATTAG
27367193 TTAATAATAA
1 TTAATAATAA
27367203 ATAAAATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
TTAATAATAAGTGATATTAG
Found at i:27367610 original size:22 final size:23
Alignment explanation
Indices: 27367585--27367632 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
27367575 TATTCATTGA
*
27367585 TTACATGATTAT-TT-AGTTTATT
1 TTACAT-ATTATATTAAATTTATT
27367607 TTACATATTATATTAAATTTATT
1 TTACATATTATATTAAATTTATT
27367630 TTA
1 TTA
27367633 AGCTTAGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 8 0.35
23 10 0.43
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (23 bp):
TTACATATTATATTAAATTTATT
Found at i:27367913 original size:3 final size:3
Alignment explanation
Indices: 27367905--27367978 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
27367895 ATGATGGATT
27367905 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
27367953 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
27367979 TTGATAGGTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:27370967 original size:32 final size:33
Alignment explanation
Indices: 27370900--27370967 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
27370890 AAATAAAGAT
* *
27370900 AAAAAAATGTATATGTGTATATATTTACAAAATA
1 AAAAAAATGTATA-GAGTATATATATACAAAATA
27370934 AAAAAAATGTATA-AGTATATATATA-AAATATA
1 AAAAAAATGTATAGAGTATATATATACAAA-ATA
27370966 AA
1 AA
27370968 GTATATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 3 0.10
32 15 0.48
34 13 0.42
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.32
Consensus pattern (33 bp):
AAAAAAATGTATAGAGTATATATATACAAAATA
Found at i:27371085 original size:25 final size:24
Alignment explanation
Indices: 27371054--27371141 Score: 92
Period size: 24 Copynumber: 3.7 Consensus size: 24
27371044 AAGCTTTAAA
27371054 ATATATATATTAAAAAATGCATAT
1 ATATATATATTAAAAAATGCATAT
*
27371078 ATAT-TATATATAAAAATATGCGTAT
1 ATATATATAT-TAAAAA-ATGCATAT
* * *
27371103 GTA-CTATATGAAAAAATGCATAT
1 ATATATATATTAAAAAATGCATAT
27371126 ATATAT-TATGTAAAAA
1 ATATATATAT-TAAAAA
27371142 CCATGCGTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
23 17 0.33
24 21 0.40
25 14 0.27
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (24 bp):
ATATATATATTAAAAAATGCATAT
Found at i:27371186 original size:18 final size:15
Alignment explanation
Indices: 27371172--27371207 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
27371162 AAATAATGAT
27371172 AATAACCATAATAATA
1 AATAA-CATAATAATA
*
27371188 AATAATATAATAATA
1 AATAACATAATAATA
27371203 AATAA
1 AATAA
27371208 TGATATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAACATAATAATA
Found at i:27371213 original size:18 final size:16
Alignment explanation
Indices: 27371179--27371224 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
27371169 GATAATAACC
27371179 ATAATAATAAAT-AAT
1 ATAATAATAAATAAAT
27371194 ATAATAATAAATAATGAT
1 ATAATAATAAATAA--AT
*
27371212 ATAATGATAAATA
1 ATAATAATAAATA
27371225 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
18 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATAATAATAAATAAAT
Found at i:27371216 original size:15 final size:15
Alignment explanation
Indices: 27371179--27371208 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27371169 GATAATAACC
27371179 ATAATAATAAATAAT
1 ATAATAATAAATAAT
27371194 ATAATAATAAATAAT
1 ATAATAATAAATAAT
27371209 GATATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:27372825 original size:89 final size:89
Alignment explanation
Indices: 27372670--27376175 Score: 5077
Period size: 89 Copynumber: 39.6 Consensus size: 89
27372660 AAGACTTGTA
* * * * * *
27372670 TCTTCGATCTACTTCGCCACC-GATATGGGAAGACGAGATCTGTTATCTTTGATCTACTTCATGC
1 TCTTCGATCTACTCCACCACCAG-TATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGC
* * *
27372734 CAATACATGAAGACAAGATCAGCTT
65 CAGTACATGAAGACAAGATCTGTTT
27372759 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* *
27372824 AATACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * * * * * *
27372848 TCTTTGATCTAGTTCGCCATCAGTATGGGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27372913 AGTACATGAAGACAATATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
* * *
27372937 TCTTCGATCTACTCCACCACCAGTATGGGAAGGCAAGCTCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27373002 AGTACATGAAGACAAAATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
* * *
27373026 TCTTCGATCTACCCCACCACCAGTATGGGGAGACAATATCTGGTATCTTTAATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27373091 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * * * *** *
27373115 TCTTTGATCTGCTTC-GCACCAGTATGATAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27373179 AGTACATGAAGACAAGATCTGATT
66 AGTACATGAAGACAAGATCTGTTT
* * * *
27373203 TCTTTGATCTACTCCACCACCAGTATGGGAAGGCAAGATTTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
27373268 AGTACATGAAGACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
27373292 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27373357 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * * * * * *
27373381 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTATGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27373446 AGTACATGAACACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
* *
27373470 TCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCCGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27373535 AGTACATGAAGACAAGATATGTTT
66 AGTACATGAAGACAAGATCTGTTT
* * *
27373559 TCTTCGATCTACTTCACCACCAGTATGGGGAGACAAGATCTGGTATCTATAATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27373624 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * *** * *
27373648 TCTTTGATCTGCTTTGCCACCAGTATGGGGAGACAAGATCTGGTATCTCTGATTTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27373713 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * *** * * *
27373737 TCTTTGATCTGCTTTGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27373802 AGTACATGAAGACAAGATCTGGTT
66 AGTACATGAAGACAAGATCTGTTT
* *
27373826 TCTTCGATCTACTCCACCACCAGTATGAGGAGACAAGATCCGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* *
27373891 AGAACATGAAGACAAGATATGTTT
66 AGTACATGAAGACAAGATCTGTTT
27373915 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27373980 AGTACATGAAAACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
* * * *
27374004 TCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCCGGTATCTCTGATCTACTTCTCGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27374069 AGTACATGAAGATAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
*
27374093 TCTTCGATCTACTCCACCACCAGTATGGGGATACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27374158 AATACATGAAGACAAGATCTG---
66 AGTACATGAAGACAAGATCTGTTT
* ** ** * * * **
27374179 -CTTC-A-C--CACCAGTA-TGGGAAGGCGAGATCTTGTATC-----TC--TGATCTACTTCACG
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGA-CAAG-ATCTGGTATCTTTGATCTACTTCACG
27374231 CCAGTACATGAAGACAAGATCTGTTT
64 CCAGTACATGAAGACAAGATCTGTTT
* * *
27374257 TCTTCGATCTACTCCACCACTAGTATGGAGATACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27374322 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * * * * *
27374346 TCTTTGATCTGCTTCACCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
27374411 AGTACATGAAGACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
* *
27374435 TCTTCGATCTACTCAACCACCAGTATGGGGAGACAAGATCCGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27374500 AGTACATGAAGACAAGATATGTTT
66 AGTACATGAAGACAAGATCTGTTT
*
27374524 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCAGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27374589 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * * * * * *
27374613 TCTTTGATCTGCTTCACCACCGGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* *
27374678 AGTACATGAGGACAAAATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
*
27374702 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCCGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* *
27374767 AGTGCATGAAGACAAGATATGTTT
66 AGTACATGAAGACAAGATCTGTTT
27374791 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27374856 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * *** *
27374880 TCTTTGATCTGCTTTGCCACCAGTATGGGGAGACAAGATCTGGTATCTCTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* *
27374945 AGTATATGAAGACAAGATCTATTT
66 AGTACATGAAGACAAGATCTGTTT
* *
27374969 TCTTCGATCTACTCCACCATCAGTATGGGGAGACAAGATCCGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
27375034 AGTACATGAAGACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
* * *
27375058 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTGTCTTTGATCTACTTCATGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* *
27375123 AATACATGACGACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
*
27375147 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGTC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27375212 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * * * *
27375236 TCTTTGATCTGCTTCGCCACCGGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
27375301 AGTACATGAAGACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
* * **
27375325 TCTTGGATCTACTCCACCACCAGTATGTGGAGACAAGATCTGGTATCTTTGATCTACTTCACGTT
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* *
27375390 AGTACCTGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * * * * *
27375414 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
27375479 AGTACATGAAGACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
* *
27375503 TCTTCGATCTACTCCACCACCACTATGGGGAGACAAGATCAGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* *
27375568 AGTACATGAAGAAAATATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
* *
27375592 TCTTCGATCTACTCCACCACCATTATGGGGAGACAATATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
27375657 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * * * * *
27375681 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
27375746 AGTACATGAAGACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
27375770 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* * **
27375835 ATTACATGAAGACAAGATTTACTT
66 AGTACATGAAGACAAGATCTGTTT
* ** * * * * * **
27375859 TCTTTGATCTGTTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGGT
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* *
27375924 AGTACATGAAGATAAAATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
* *
27375948 TCTTCGATCTACTCAACCACCAGTATGGGGAGTCAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
27376013 AGTACATGAAGACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGTTT
* * *
27376037 TCTTTGATCTACTCCACCACCAGTATGGGGGGACAAGATCTGGTATCTTTGATCTACTTCATGCC
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* *
27376102 AATACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGTTT
* * * * *
27376126 TCTTTGATCTACTTCACCACCACTATGGGAAGACAAGATCTGTTATCTTT
1 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTT
27376176 CAACCTACTC
Statistics
Matches: 3064, Mismatches: 333, Indels: 40
0.89 0.10 0.01
Matches are distributed among these distances:
75 36 0.01
77 2 0.00
79 4 0.00
80 8 0.00
81 8 0.00
82 6 0.00
83 8 0.00
84 9 0.00
85 4 0.00
87 2 0.00
88 78 0.03
89 2898 0.95
90 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGTTT
Found at i:27374189 original size:75 final size:75
Alignment explanation
Indices: 27374098--27374253 Score: 231
Period size: 75 Copynumber: 2.1 Consensus size: 75
27374088 TGTTTTCTTC
* * * *
27374098 GATCTACTCCACCACCAGTATGGGGATACAAGATCTGGTATCTTTGATCTACTTCACGCCAATAC
1 GATCTGCTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAATAC
27374163 ATGAAGACAA
66 ATGAAGACAA
* * * * *
27374173 GATCTGCTTCACCACCAGTATGGGAAGGCGAGATCTTGTATCTCTGATCTACTTCACGCCAGTAC
1 GATCTGCTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAATAC
27374238 ATGAAGACAA
66 ATGAAGACAA
27374248 GATCTG
1 GATCTG
27374254 TTTTCTTCGA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (75 bp):
GATCTGCTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAATAC
ATGAAGACAA
Found at i:27382443 original size:19 final size:19
Alignment explanation
Indices: 27382419--27382455 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27382409 ATAAAAGCTT
*
27382419 AAAAATATATATATATTAA
1 AAAAATACATATATATTAA
*
27382438 AAAAATGCATATATATTA
1 AAAAATACATATATATTA
27382456 TATATAAAAA
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:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAAATACATATATATTAA
Found at i:27382451 original size:25 final size:26
Alignment explanation
Indices: 27382423--27382514 Score: 95
Period size: 25 Copynumber: 3.7 Consensus size: 26
27382413 AAGCTTAAAA
27382423 ATATATATATAT-TAAAAAAATGCAT
1 ATATATATATATATAAAAAAATGCAT
* *
27382448 ATATAT-TATATATAAAAATATGCGT
1 ATATATATATATATAAAAAAATGCAT
* * *
27382473 ATGTA-CTATAT-GAAAAAAATGCAT
1 ATATATATATATATAAAAAAATGCAT
*
27382497 ATATATAT-TATGTAAAAA
1 ATATATATATATATAAAAA
27382515 CCATGCGTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
24 22 0.41
25 32 0.59
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (26 bp):
ATATATATATATATAAAAAAATGCAT
Found at i:27382559 original size:18 final size:15
Alignment explanation
Indices: 27382545--27382580 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
27382535 AAATAATGAT
27382545 AATAACCATAATAATA
1 AATAA-CATAATAATA
*
27382561 AATAATATAATAATA
1 AATAACATAATAATA
27382576 AATAA
1 AATAA
27382581 TGATATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAACATAATAATA
Found at i:27382586 original size:18 final size:16
Alignment explanation
Indices: 27382552--27382597 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
27382542 GATAATAACC
27382552 ATAATAATAAAT-AAT
1 ATAATAATAAATAAAT
27382567 ATAATAATAAATAATGAT
1 ATAATAATAAATAA--AT
*
27382585 ATAATGATAAATA
1 ATAATAATAAATA
27382598 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
18 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATAATAATAAATAAAT
Found at i:27382589 original size:15 final size:15
Alignment explanation
Indices: 27382552--27382581 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27382542 GATAATAACC
27382552 ATAATAATAAATAAT
1 ATAATAATAAATAAT
27382567 ATAATAATAAATAAT
1 ATAATAATAAATAAT
27382582 GATATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:27389967 original size:34 final size:35
Alignment explanation
Indices: 27389923--27389989 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
27389913 CAGTAAAATG
*
27389923 TTTTCCGTAAAATGATTT-CTTGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
27389957 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
27389990 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:27393427 original size:25 final size:23
Alignment explanation
Indices: 27393381--27393429 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
27393371 ATTTCTATTT
**
27393381 TTTATAATTTTTTAAATTATAAA
1 TTTATAATTTTTTAAAAAATAAA
27393404 TTTATTAATTTTTATAAAAAATAAA
1 TTTA-TAATTTTT-TAAAAAATAAA
27393429 T
1 T
27393430 AATGTTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 8 0.36
25 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTATAATTTTTTAAAAAATAAA
Found at i:27393893 original size:10 final size:10
Alignment explanation
Indices: 27393878--27393903 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
27393868 TCATTAAGTG
27393878 CTAACAAATA
1 CTAACAAATA
27393888 CTAACAAATA
1 CTAACAAATA
27393898 CTAACA
1 CTAACA
27393904 TATCAGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (10 bp):
CTAACAAATA
Found at i:27394329 original size:243 final size:243
Alignment explanation
Indices: 27393894--27394394 Score: 903
Period size: 243 Copynumber: 2.1 Consensus size: 243
27393884 AATACTAACA
* * * *
27393894 AATACTAACATATCAGTAAGTGCTAACCAGAGAAAGGCACATATGCCAATTCATACATTAATCAT
1 AATACTAACAGATCAATAAGTGCTAACCAGAGAAAGGCACACAAGCCAATTCATACATTAATCAT
27393959 ACATTGCTCACTTGACTAACATTAATCATTACTCATCATGTAATTTAGCCAATCAGTCCACATGC
66 ACATTGCTCACTTGACTAACATTAATCATTACTCATCATGTAATTTAGCCAATCAGTCCACATGC
* *
27394024 CAATTCCATATGCTATAAATCATGCCAAAATTACCAAAATTCATGACATAGGCACGTATGTATTT
131 CAATTCCATATGCTATAAATCATGCCAAAATTACCAAAATTCATGACATAGCCACATATGTATTT
*
27394089 ACCTACCATCAACCAAATATAACAGCTCATCACTGCCATTTCCCAAAT
196 ACCTACCATCAACCAAATAAAACAGCTCATCACTGCCATTTCCCAAAT
* *
27394137 AATACTAATAGATCAATAAGTGCTAATCAGAGAAAGGCACACAAGCCAATTCATACATTAATCAT
1 AATACTAACAGATCAATAAGTGCTAACCAGAGAAAGGCACACAAGCCAATTCATACATTAATCAT
27394202 ACATTGCTCACTTGACTAACATTAATCATTACTCATCATGTAATTTAGCCAATCAGTCCACATGC
66 ACATTGCTCACTTGACTAACATTAATCATTACTCATCATGTAATTTAGCCAATCAGTCCACATGC
27394267 CAATTCCATATGCTATAAATCATGCCAAAATTACCAAAATTCATGACATAGCCACATATGTATTT
131 CAATTCCATATGCTATAAATCATGCCAAAATTACCAAAATTCATGACATAGCCACATATGTATTT
*
27394332 ACCTACCATCAACCAAATAAAACAGCTCATCATTGCCATTTCCCAAAT
196 ACCTACCATCAACCAAATAAAACAGCTCATCACTGCCATTTCCCAAAT
*
27394380 AATACTAACAAATCA
1 AATACTAACAGATCA
27394395 GAGTAAAAAT
Statistics
Matches: 246, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
243 246 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (243 bp):
AATACTAACAGATCAATAAGTGCTAACCAGAGAAAGGCACACAAGCCAATTCATACATTAATCAT
ACATTGCTCACTTGACTAACATTAATCATTACTCATCATGTAATTTAGCCAATCAGTCCACATGC
CAATTCCATATGCTATAAATCATGCCAAAATTACCAAAATTCATGACATAGCCACATATGTATTT
ACCTACCATCAACCAAATAAAACAGCTCATCACTGCCATTTCCCAAAT
Found at i:27394878 original size:16 final size:16
Alignment explanation
Indices: 27394857--27394893 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
27394847 CAAACAAATT
27394857 TACTTAGAATTCTCAA
1 TACTTAGAATTCTCAA
27394873 TACTTAGAATTCTCAA
1 TACTTAGAATTCTCAA
27394889 TACTT
1 TACTT
27394894 GTATATCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (16 bp):
TACTTAGAATTCTCAA
Found at i:27397264 original size:11 final size:11
Alignment explanation
Indices: 27397250--27397275 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27397240 TTTTATGTGT
27397250 TTTTTTAAATA
1 TTTTTTAAATA
27397261 TTTTTTAAATA
1 TTTTTTAAATA
27397272 TTTT
1 TTTT
27397276 ATTATACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTTAAATA
Found at i:27397575 original size:24 final size:24
Alignment explanation
Indices: 27397543--27397592 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
27397533 TGTTAGAATT
27397543 ATCTATACTATATTTAAGATTTTG
1 ATCTATACTATATTTAAGATTTTG
*
27397567 ATCTTTACTATATTTAAGATTTTG
1 ATCTATACTATATTTAAGATTTTG
27397591 AT
1 AT
27397593 TGAGTTAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (24 bp):
ATCTATACTATATTTAAGATTTTG
Found at i:27399068 original size:3 final size:3
Alignment explanation
Indices: 27399055--27399120 Score: 62
Period size: 3 Copynumber: 21.0 Consensus size: 3
27399045 TGTACATGAA
* *
27399055 AAT AAT AAAT AAT AAT AAAT AAT AAT AAG AAT AAT AAAC AAGT AAT AAT
1 AAT AAT -AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AA-T AAT AAT
*
27399104 AAA AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
27399121 GTAAAAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 2 0.04
3 40 0.77
4 10 0.19
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:27399076 original size:17 final size:18
Alignment explanation
Indices: 27399054--27399120 Score: 65
Period size: 17 Copynumber: 4.0 Consensus size: 18
27399044 ATGTACATGA
27399054 AAATAATA-AATAATAAT
1 AAATAATACAATAATAAT
*
27399071 AAATAAT--AATAAGAAT
1 AAATAATACAATAATAAT
27399087 -AATAA-ACAAGTAATAAT
1 AAATAATACAA-TAATAAT
*
27399104 AAA-AATATAATAATAAT
1 AAATAATACAATAATAAT
27399121 GTAAAAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
15 5 0.12
16 10 0.24
17 22 0.52
18 5 0.12
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (18 bp):
AAATAATACAATAATAAT
Found at i:27399080 original size:20 final size:19
Alignment explanation
Indices: 27399055--27399120 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
27399045 TGTACATGAA
27399055 AATAATAAATAATAATAAAT
1 AATAAT-AATAATAATAAAT
* *
27399075 AATAATAAGAATAATAAAC
1 AATAATAATAATAATAAAT
*
27399094 AAGTAATAATAAAAATATAAT
1 AA-TAATAATAATAATA-AAT
27399115 AATAAT
1 AATAAT
27399121 GTAAAAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 13 0.33
20 22 0.56
21 4 0.10
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (19 bp):
AATAATAATAATAATAAAT
Found at i:27399100 original size:23 final size:21
Alignment explanation
Indices: 27399055--27399120 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 21
27399045 TGTACATGAA
27399055 AATAAT-AAATAATAATAAAT
1 AATAATAAAATAATAATAAAT
27399075 AATAATAAGAATAATAA-ACAAGT
1 AATAATAA-AATAATAATA-AA-T
27399098 AATAATAAAA-ATATAAT-AAT
1 AATAATAAAATA-ATAATAAAT
27399118 AAT
1 AAT
27399121 GTAAAAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
20 10 0.25
21 5 0.12
22 16 0.40
23 9 0.22
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (21 bp):
AATAATAAAATAATAATAAAT
Found at i:27399103 original size:14 final size:13
Alignment explanation
Indices: 27399072--27399119 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
27399062 AATAATAATA
*
27399072 AATAATAATAAG-
1 AATAATAAAAAGT
27399084 AATAATAAACAAGT
1 AATAATAAA-AAGT
*
27399098 AATAATAAAAATAT
1 AATAATAAAAA-GT
27399112 AATAATAA
1 AATAATAA
27399120 TGTAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 8 0.26
13 5 0.16
14 18 0.58
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (13 bp):
AATAATAAAAAGT
Found at i:27399706 original size:15 final size:14
Alignment explanation
Indices: 27399683--27399715 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
27399673 TTTTAAACAA
27399683 AAAATAAAATAAAT
1 AAAATAAAATAAAT
27399697 AAAATGAAAATAAAT
1 AAAAT-AAAATAAAT
27399712 AAAA
1 AAAA
27399716 AGCGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:27400932 original size:132 final size:132
Alignment explanation
Indices: 27400747--27402054 Score: 2076
Period size: 132 Copynumber: 9.9 Consensus size: 132
27400737 CCACTACCGA
* ** * * * * *
27400747 CCAGGGAAATAGAATTACTGGCACCAATATACTCCGCTGCAACCCCAGGGAGGTAAAATCTACCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
*
27400812 TCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
27400877 GC
131 GC
* **
27400879 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCTGCCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
27400944 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
27401009 GC
131 GC
*
27401011 CCAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
*
27401076 TCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
*
27401141 TC
131 GC
* * * **
27401143 CCAGGGAGATAGAATTATTAGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
*
27401208 TCTTTGCTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
27401273 GC
131 GC
27401275 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
* *
27401340 TCTTTGATCTACTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
27401405 GC
131 GC
* * * * **
27401407 CCAGGGAGATAGAATTACTGGCTCCAATATACTCCGCTGCAACCTCAGGGAGGTAAAATCTGCCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
* *
27401472 TCTTTTATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
27401537 GC
131 GC
* * * **
27401539 CCAGGGAGATAGGAGTACTGGCTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCTGCCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
* * *
27401604 TCTTTGATCTACTCCACTATTGCTTAGAGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
27401669 GC
131 GC
* * *
27401671 CTAGGGAGATAGAATTACTGGCTTCAATGTACTCCATTGTAACCTCAGGGTGGTAAAATCCACCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
* * *
27401736 TCTTTGATCTGCTCCACTACTGCTTAAGGAGATAAAATCTGTAATATTCAATCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
27401801 GC
131 GC
* *
27401803 CCAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACTA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
* * * * *
27401868 TCTTCGATCTGCTCAACTACTTCTTAGGGAGATAAGATCTATAATCTTCAACCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
27401933 GC
131 GC
* * *
27401935 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACTTCAAGGAGGTAAAATCCACCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
* ** * *
27402000 TATTTGATCTATTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTCGATCTA
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTA
27402055 CTTCACGCCA
Statistics
Matches: 1081, Mismatches: 95, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 1081 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
GC
Found at i:27406230 original size:19 final size:19
Alignment explanation
Indices: 27406206--27406251 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
27406196 AACTGTGTTT
* *
27406206 AATGCATATG-ATGTAATG
1 AATGCAAATGCATGAAATG
27406224 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
27406244 AATGCAAA
1 AATGCAAA
27406252 AAAGAGACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:27407538 original size:21 final size:21
Alignment explanation
Indices: 27407514--27407554 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
27407504 TATTTTAAAG
27407514 AAATAATAAAATATTATTATA
1 AAATAATAAAATATTATTATA
27407535 AAATAATAAAATATTATTAT
1 AAATAATAAAATATTATTAT
27407555 TTTAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATAATAAAATATTATTATA
Found at i:27407555 original size:24 final size:24
Alignment explanation
Indices: 27407498--27407569 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
27407488 CTTAGTGTCG
*
27407498 AAAAT-TTATT-TTAAAGAAATAAT
1 AAAATATTATTATTATA-AAATAAT
27407521 -AAA-A-TATTATTATAAAATAAT
1 AAAATATTATTATTATAAAATAAT
*
27407542 AAAATATTATTATTTTAAAGA-AAT
1 AAAATATTATTATTATAAA-ATAAT
27407566 AAAA
1 AAAA
27407570 CATCACACCT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
21 11 0.27
22 10 0.24
23 1 0.02
24 18 0.44
25 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (24 bp):
AAAATATTATTATTATAAAATAAT
Found at i:27410584 original size:13 final size:13
Alignment explanation
Indices: 27410566--27410606 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
27410556 GAATTTTTGC
*
27410566 TTTCTTTTCCCTA
1 TTTCTTTTCCATA
*
27410579 TTTCTTCTCCAT-
1 TTTCTTTTCCATA
27410591 TTTCTTTTCCATA
1 TTTCTTTTCCATA
27410604 TTT
1 TTT
27410607 ATCTTTGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTCTTTTCCATA
Found at i:27413818 original size:39 final size:37
Alignment explanation
Indices: 27413772--27413854 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 37
27413762 TTAAATTTAA
27413772 TATTAAGATAA-TCATTTTAATATTAAATTAATA-AAATAC
1 TATTAAGATAAGT-A-TTTAAT-TTAAATTAATATAAAT-C
*
27413811 TATTAAGATAAGTATTTAATTTAATTTAATATTAAATC
1 TATTAAGATAAGTATTTAATTTAAATTAATA-TAAATC
27413849 TATTAA
1 TATTAA
27413855 AATATTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
37 10 0.25
38 13 0.32
39 16 0.40
40 1 0.03
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (37 bp):
TATTAAGATAAGTATTTAATTTAAATTAATATAAATC
Found at i:27419763 original size:91 final size:91
Alignment explanation
Indices: 27419608--27419813 Score: 281
Period size: 91 Copynumber: 2.3 Consensus size: 91
27419598 AGTTTAAGTA
* * * * *
27419608 CAAACACTAGTGGTTTATCCATACACTTACTGACAAATTTTATCTGCAAACCCTTTATGCATTCA
1 CAAACACTGGTGGTTTATCCACAAAATTACTGACAAATTTTATCTGCAAACCCGTTATGCATTCA
* * *
27419673 CAACCTACTGGCAGCGTATTAACTTG
66 CAACCTACTAGCAACGTATTAACCTG
* *
27419699 CAAACACTGGTGGTTTATCCACAAAATTACTGA-AAGCTTTTATCTGCAAACCCGTTGTGCATTC
1 CAAACACTGGTGGTTTATCCACAAAATTACTGACAA-ATTTTATCTGCAAACCCGTTATGCATTC
27419763 ACAACCTACTAGCAACGTATTAACCTG
65 ACAACCTACTAGCAACGTATTAACCTG
* *
27419790 C-GACACTGGTGGTTCATCCACAAA
1 CAAACACTGGTGGTTTATCCACAAA
27419814 CTGGAGTGTC
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
90 23 0.23
91 79 0.77
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (91 bp):
CAAACACTGGTGGTTTATCCACAAAATTACTGACAAATTTTATCTGCAAACCCGTTATGCATTCA
CAACCTACTAGCAACGTATTAACCTG
Found at i:27424655 original size:19 final size:19
Alignment explanation
Indices: 27424631--27424669 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
27424621 AACAAAATAA
*
27424631 ATACATTCTATATTTAATT
1 ATACATTCTATAATTAATT
*
27424650 ATACATTTTATAATTAATT
1 ATACATTCTATAATTAATT
27424669 A
1 A
27424670 AAAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (19 bp):
ATACATTCTATAATTAATT
Found at i:27428243 original size:21 final size:21
Alignment explanation
Indices: 27428202--27428244 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
27428192 ATTAATCAAC
*
27428202 TATTTCTAATGCATCCAAACA
1 TATTTCTAATGCATCAAAACA
*
27428223 TATTT-TAATGCATGAATAACA
1 TATTTCTAATGCATCAA-AACA
27428244 T
1 T
27428245 GAACGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (21 bp):
TATTTCTAATGCATCAAAACA
Found at i:27430205 original size:10 final size:10
Alignment explanation
Indices: 27430190--27430216 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
27430180 GACAATTCTA
27430190 AAGACTATAT
1 AAGACTATAT
27430200 AAGACTATAT
1 AAGACTATAT
27430210 AAGACTA
1 AAGACTA
27430217 ATGAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (10 bp):
AAGACTATAT
Found at i:27435027 original size:27 final size:27
Alignment explanation
Indices: 27434977--27435028 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
27434967 TGTCGTATAA
**
27434977 CATATAATGCGATAAAATTTCCAATAT
1 CATATAATGCGATAAAATCGCCAATAT
27435004 CATATAATGCGATAAAATCGCCAAT
1 CATATAATGCGATAAAATCGCCAAT
27435029 CCCCTCGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (27 bp):
CATATAATGCGATAAAATCGCCAATAT
Found at i:27439507 original size:25 final size:22
Alignment explanation
Indices: 27439477--27439523 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
27439467 TTAAGACTGG
* *
27439477 TCGTGGTGGCTTCCTCTAATTC
1 TCGTGGTGGTTTCCTCCAATTC
27439499 TCGTGGTGGTTTCCTCCAATTC
1 TCGTGGTGGTTTCCTCCAATTC
27439521 TCG
1 TCG
27439524 CGGTTGCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.09, C:0.28, G:0.23, T:0.40
Consensus pattern (22 bp):
TCGTGGTGGTTTCCTCCAATTC
Found at i:27443924 original size:20 final size:20
Alignment explanation
Indices: 27443899--27443938 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
27443889 CTTGTACAGG
*
27443899 GTTTGCACTTTGGTGCCTCT
1 GTTTGCACTTTGATGCCTCT
27443919 GTTTGCACTTTGATGCCTCT
1 GTTTGCACTTTGATGCCTCT
27443939 ATTCACACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.23, T:0.45
Consensus pattern (20 bp):
GTTTGCACTTTGATGCCTCT
Found at i:27443947 original size:20 final size:20
Alignment explanation
Indices: 27443904--27443975 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
27443894 ACAGGGTTTG
* * **
27443904 CACTTTGGTGCCTCTGTTTG
1 CACTTTGATGCCTCTATTCA
27443924 CACTTTGATGCCTCTATTCA
1 CACTTTGATGCCTCTATTCA
* **
27443944 CACTTCGGCGCCTCTATTCA
1 CACTTTGATGCCTCTATTCA
*
27443964 GCACTATGATGC
1 -CACTTTGATGC
27443976 TTTCTGGTGT
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
20 33 0.82
21 7 0.17
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.36
Consensus pattern (20 bp):
CACTTTGATGCCTCTATTCA
Found at i:27445960 original size:27 final size:27
Alignment explanation
Indices: 27445930--27446043 Score: 122
Period size: 27 Copynumber: 4.2 Consensus size: 27
27445920 TCAAGACAAC
* * * *
27445930 AAACACGGTGTAGTCTGCCAAGACAGT
1 AAACACGGGGTAGTCCGTCGAGACAGT
* * *
27445957 AAACATGAGGTAGTCCGTCGAGATAGCT
1 AAACACGGGGTAGTCCGTCGAGACAG-T
*
27445985 -AACACGGGGTAGTCCATCGAGACAGT
1 AAACACGGGGTAGTCCGTCGAGACAGT
* *
27446011 AAACACGGGGTAGTCTGTCGAGACAGA
1 AAACACGGGGTAGTCCGTCGAGACAGT
27446038 AAACAC
1 AAACAC
27446044 AAGGAAGCTC
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 69 0.97
28 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (27 bp):
AAACACGGGGTAGTCCGTCGAGACAGT
Found at i:27450969 original size:32 final size:32
Alignment explanation
Indices: 27450924--27450993 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
27450914 CAATATTCCA
*
27450924 ACACGTCTGTGTGATTCAGTCATGCGGGGCCC
1 ACACGTCTATGTGATTCAGTCATGCGGGGCCC
*
27450956 ACACGTCTATGTGATTCAGTCATGTGGGGCCC
1 ACACGTCTATGTGATTCAGTCATGCGGGGCCC
27450988 ACACGT
1 ACACGT
27450994 TCATCTAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.26
Consensus pattern (32 bp):
ACACGTCTATGTGATTCAGTCATGCGGGGCCC
Found at i:27463410 original size:16 final size:16
Alignment explanation
Indices: 27463389--27463440 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
27463379 TTTGGTTCGC
27463389 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27463405 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
27463421 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
27463437 TGTA
1 TGTA
27463441 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:27463693 original size:16 final size:16
Alignment explanation
Indices: 27463656--27463697 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27463646 TTAATCATAT
*
27463656 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
27463672 TT-AAATATATTATAA
1 TTAAAATATATTATAA
27463687 TTAAAATATAT
1 TTAAAATATAT
27463698 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:27463704 original size:14 final size:15
Alignment explanation
Indices: 27463665--27463706 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27463655 TTTAAACATA
*
27463665 ATTATTATTAAATAT
1 ATTATAATTAAATAT
27463680 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
27463694 A-TATAATTTAATA
1 ATTATAATTAAATA
27463707 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:27463817 original size:18 final size:18
Alignment explanation
Indices: 27463796--27463843 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
27463786 TTATTATTAA
27463796 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
27463814 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
27463831 -TAT-TAATAATTAA
1 ATATATTATAATTAA
27463844 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:27463824 original size:14 final size:15
Alignment explanation
Indices: 27463775--27463826 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
27463765 ATAAAATATA
27463775 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
27463790 TATTAAATATATTAT
1 AATTAAATATATTAT
27463805 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
27463818 AATTTAATA
1 AATTAAATA
27463827 AAATTATTAA
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:27463832 original size:44 final size:43
Alignment explanation
Indices: 27463752--27463835 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
27463742 CTCAAATAAT
* *
27463752 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
* *
27463795 AATATATTATAAT-TAAAATATATAATTTAATAAAATTATTA
1 AATATATGATAATATAAAATATA-AA-TTAACAAAATTATTA
27463836 ATAATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 9 0.26
43 13 0.37
44 13 0.37
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
Found at i:27464105 original size:132 final size:132
Alignment explanation
Indices: 27463868--27464206 Score: 603
Period size: 132 Copynumber: 2.6 Consensus size: 132
27463858 CTAATAAAAC
27463868 AATTAAGCAAAGATCCATTAAAACATGTTTTGAAGTTTGATACTACAATAGAGAATACAAACAAA
1 AATTAAGCAAAGATCCATTAAAACATGTTTTGAAGTTTGATACTACAATAGAGAATACAAACAAA
*
27463933 AGAACCCATTTTTGAAACATGCATACTTTTTGAAGCATATGAAATTACTGCAAGTTAGAGCATAT
66 AGAACCCATTTTTGAAACACGCATACTTTTTGAAGCATATGAAATTACTGCAAGTTAGAGCATAT
27463998 GA
131 GA
*
27464000 AATTAAGCAAAGATCTATTAAAACATGTTTTGAAGTTTGATACTACAATAGAGAATACAAACAAA
1 AATTAAGCAAAGATCCATTAAAACATGTTTTGAAGTTTGATACTACAATAGAGAATACAAACAAA
*
27464065 AGAACCCATTTTTGAAGCACGCATACTTTTTGAAGCATATGAAATTACTGCAAGTTAGAGCATAT
66 AGAACCCATTTTTGAAACACGCATACTTTTTGAAGCATATGAAATTACTGCAAGTTAGAGCATAT
27464130 GA
131 GA
* *
27464132 AATTAAGCAAAGATCCATTAAAACATGTTTTAAAGTTTG--A-TACAATAGAGAAGACAAACAAA
1 AATTAAGCAAAGATCCATTAAAACATGTTTTGAAGTTTGATACTACAATAGAGAATACAAACAAA
*
27464194 ATAACCCATTTTT
66 AGAACCCATTTTT
27464207 ATTAGCTGAC
Statistics
Matches: 200, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
129 33 0.17
130 1 0.00
132 166 0.83
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.29
Consensus pattern (132 bp):
AATTAAGCAAAGATCCATTAAAACATGTTTTGAAGTTTGATACTACAATAGAGAATACAAACAAA
AGAACCCATTTTTGAAACACGCATACTTTTTGAAGCATATGAAATTACTGCAAGTTAGAGCATAT
GA
Found at i:27466296 original size:12 final size:13
Alignment explanation
Indices: 27466268--27466301 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
27466258 TGGAGAAAGC
27466268 AAAGCAAAGGAAG
1 AAAGCAAAGGAAG
27466281 AAAGCAAAGG-AG
1 AAAGCAAAGGAAG
27466293 AAAGCAAAG
1 AAAGCAAAG
27466302 AAAAGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.62, C:0.09, G:0.29, T:0.00
Consensus pattern (13 bp):
AAAGCAAAGGAAG
Found at i:27466301 original size:5 final size:5
Alignment explanation
Indices: 27466293--27466334 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
27466283 AGCAAAGGAG
*
27466293 AAAGC AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AA
27466335 CAGAGGGAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:27466321 original size:25 final size:26
Alignment explanation
Indices: 27466263--27466334 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
27466253 CCTACTGGAG
* *
27466263 AAAGCAAAGCAAAG-GAAG-AAAGCA
1 AAAGAAAAGCAAAGAAAAGAAAAGCA
*
27466287 AAGGAGAAAGCAAAGAAAAGAAAAG-A
1 AAAGA-AAAGCAAAGAAAAGAAAAGCA
*
27466313 AAAGAAAAGAAAAGAAAAGAAA
1 AAAGAAAAGCAAAGAAAAGAAA
27466335 CAGAGGGAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 3 0.08
25 25 0.62
26 8 0.20
27 4 0.10
ACGTcount: A:0.71, C:0.06, G:0.24, T:0.00
Consensus pattern (26 bp):
AAAGAAAAGCAAAGAAAAGAAAAGCA
Found at i:27466380 original size:19 final size:19
Alignment explanation
Indices: 27466356--27466392 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27466346 AATCGGGCGA
27466356 AACAGAAGAGGCAAAGGGG
1 AACAGAAGAGGCAAAGGGG
*
27466375 AACAGAAGAGGCAGAGGG
1 AACAGAAGAGGCAAAGGG
27466393 TAAAACAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.43, T:0.00
Consensus pattern (19 bp):
AACAGAAGAGGCAAAGGGG
Found at i:27467607 original size:18 final size:17
Alignment explanation
Indices: 27467562--27467607 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
27467552 TTAAATTCTT
27467562 AAAAATA-AAAATATAA
1 AAAAATATAAAATATAA
27467578 AAATTAAT-TAAAATATATA
1 AAA--AATATAAAATATA-A
27467597 AAAAATATAAA
1 AAAAATATAAA
27467608 CACTAGGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.12
17 3 0.12
18 15 0.60
19 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATATAAAATATAA
Found at i:27468526 original size:43 final size:43
Alignment explanation
Indices: 27468479--27468561 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
27468469 CCTAATCATT
** * *
27468479 ACAATTAGGGACTCAAATCCAATCTGGGCCCAACCTTTTGTGA
1 ACAATTACAGACTCAAATCCAACCGGGGCCCAACCTTTTGTGA
* *
27468522 ACAATTACAGACTCGAATCTAACCGGGGCCCAACCTTTTG
1 ACAATTACAGACTCAAATCCAACCGGGGCCCAACCTTTTG
27468562 CTAAGAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ACAATTACAGACTCAAATCCAACCGGGGCCCAACCTTTTGTGA
Found at i:27482347 original size:29 final size:29
Alignment explanation
Indices: 27482305--27482362 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
27482295 GCCACAAGAG
27482305 AATATGTCTCTTCATAATCAATGTCGAGC
1 AATATGTCTCTTCATAATCAATGTCGAGC
27482334 AATATGTCTCTTCATAATCAATGTCGAGC
1 AATATGTCTCTTCATAATCAATGTCGAGC
27482363 CTTTGCGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (29 bp):
AATATGTCTCTTCATAATCAATGTCGAGC
Found at i:27501082 original size:50 final size:50
Alignment explanation
Indices: 27501028--27501297 Score: 167
Period size: 50 Copynumber: 5.4 Consensus size: 50
27501018 GCCGCAATGG
* *
27501028 CGAATCTTACTCCCCTGGCAGTGTAGTAGAACAGATTGAAGCTACGACGA
1 CGAATCTTATTCCCCTGGCAGTGTAGTAGAACAGATTGAAGCCACGACGA
** * * * * *
27501078 CGAAT-TTCATTTCCCC-AACATTGTAATTA-AAAAGATTGAAGCCGCAACGA
1 CGAATCTT-A-TTCCCCTGGCAGTGT-AGTAGAACAGATTGAAGCCACGACGA
* * * * * * *
27501128 TGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGAAGG
1 CGAATCTTATTCCCCTGGCAGTGTAGTAGAACAGATTGAAGCCACGACGA
** * * * ** * * * *
27501178 CGAATCTTATTTCCCC-AACATTGCAATTTAAAAGATTGAAGCCGCAACGG
1 CGAATCTTA-TTCCCCTGGCAGTGTAGTAGAACAGATTGAAGCCACGACGA
* *
27501228 CGAATCTTATTTCCCTGGC-GTTGTAG-CGAAGCAGATTGAAGCCACGACGA
1 CGAATCTTATTCCCCTGGCAG-TGTAGTAGAA-CAGATTGAAGCCACGACGA
27501278 CGAATCTTA-TCTCCCTGGCA
1 CGAATCTTATTC-CCCTGGCA
27501298 TTAAGGCTTG
Statistics
Matches: 157, Mismatches: 51, Indels: 23
0.68 0.22 0.10
Matches are distributed among these distances:
49 17 0.11
50 125 0.80
51 15 0.10
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (50 bp):
CGAATCTTATTCCCCTGGCAGTGTAGTAGAACAGATTGAAGCCACGACGA
Found at i:27501190 original size:100 final size:100
Alignment explanation
Indices: 27501010--27501292 Score: 390
Period size: 100 Copynumber: 2.8 Consensus size: 100
27501000 ACAGTGGAGC
* * *
27501010 AGATTAAAGCCGCAATGGCGAATCTTACTCCCCTGGCAGTGTAGTAGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTAGAACAGATTGAAGCTACGA
*
27501075 CGACGAAT-TTCATTTCCCCAACATTGTAATTAAAA
66 CGACGAATCTT-ATTTCCCCAACATTGCAATTAAAA
** *
27501110 AGATTGAAGCCGCAACGATGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTAGAACAGATTGAAGCTACGA
* * *
27501175 AGGCGAATCTTATTTCCCCAACATTGCAATTTAAA
66 CGACGAATCTTATTTCCCCAACATTGCAATTAAAA
* * * * *
27501210 AGATTGAAGCCGCAACGGCGAATCTTATTTCCCTGGCGTTGTAG-CGAAGCAGATTGAAGCCACG
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTAGAA-CAGATTGAAGCTACG
*
27501274 ACGACGAATCTTATCTCCC
65 ACGACGAATCTTATTTCCC
27501293 TGGCATTAAG
Statistics
Matches: 161, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
99 3 0.02
100 156 0.97
101 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTAGAACAGATTGAAGCTACGA
CGACGAATCTTATTTCCCCAACATTGCAATTAAAA
Found at i:27503612 original size:21 final size:21
Alignment explanation
Indices: 27503573--27503612 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27503563 ATTATTTTTA
*
27503573 ATATATTTTATGTGTATATGC
1 ATATATTTTATGTGAATATGC
* *
27503594 ATATATTTTTTTTGAATAT
1 ATATATTTTATGTGAATAT
27503613 TCCATTATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (21 bp):
ATATATTTTATGTGAATATGC
Found at i:27505498 original size:26 final size:27
Alignment explanation
Indices: 27505420--27505499 Score: 85
Period size: 28 Copynumber: 3.0 Consensus size: 27
27505410 TTAACAATTA
*
27505420 ATAAATTATTTGTAAATTTAAT-TATAC
1 ATAAAATATTT-TAAATTTAATATATAC
27505447 ATAAAATATTTTAAAATTTTAA-ATATAC
1 ATAAAATATTTT-AAA-TTTAATATATAC
* *
27505475 ATTAAATA-TTTAAATCTAATATATA
1 ATAAAATATTTTAAATTTAATATATA
27505500 TTCTATAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
25 4 0.09
26 9 0.20
27 16 0.35
28 17 0.37
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (27 bp):
ATAAAATATTTTAAATTTAATATATAC
Found at i:27507198 original size:19 final size:19
Alignment explanation
Indices: 27507174--27507258 Score: 63
Period size: 18 Copynumber: 4.6 Consensus size: 19
27507164 AAAATAAAAC
27507174 TAACAATTAATAG-AATAAT
1 TAACAA-TAATAGTAATAAT
27507193 TAACAATAATAGTAATAA-
1 TAACAATAATAGTAATAAT
**
27507211 T-ATTATAATATGATAATAA-
1 TAACAATAATA-G-TAATAAT
* *
27507230 TAATAATAATAATAATAA-
1 TAACAATAATAGTAATAAT
*
27507248 TAATAATAATA
1 TAACAATAATA
27507259 ACCAAAATGA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
17 7 0.12
18 25 0.43
19 18 0.31
20 8 0.14
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (19 bp):
TAACAATAATAGTAATAAT
Found at i:27507211 original size:3 final size:3
Alignment explanation
Indices: 27507187--27507259 Score: 87
Period size: 3 Copynumber: 24.7 Consensus size: 3
27507177 CAATTAATAG
* * * *
27507187 AAT AATT AAC AAT AAT AGT AAT AAT -AT TAT AAT -AT GAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27507231 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27507260 CCAAAATGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.07
3 54 0.89
4 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:27508890 original size:44 final size:44
Alignment explanation
Indices: 27508743--27509469 Score: 501
Period size: 44 Copynumber: 16.8 Consensus size: 44
27508733 GTTTTTTCTG
* * ** *
27508743 TCTGCTCCGCTACTGCTTAGGGAGATAAGA-CT---TGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCTTCTTCGA
** * **
27508783 TCTGCTCCACTACTGCTTAGGGAGATAGGA-CT-GGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCT-TCTTCGA
* * * * *
27508826 TCTGCTTCACTACTGTTTAGGAAGATAAGATTTACCTTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCTTCTTCGA
* * * *
27508870 TCTACTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCTTCTTCGA
* * ** * **
27508914 CCTGCTCCACTACTGCTTAAGGAGATAGGA-CT-GGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCT-TCTTCGA
* * * *
27508957 TCTGCTTCACTACTGCTTAGGAAGAT-GAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GATCT-ACCTTCTTCGA
* * * *
27509001 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATATTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCTTCTTCGA
* ** * **
27509045 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CT-GGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCT-TCTTCGA
* * * *
27509088 TCTGCTTCACTACTGCTTAGGAAGAT-GAGAT-TCCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GATCTACCTTCTTCGA
*
27509131 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCTTCTTCGA
* ** * **
27509175 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CT-GGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCT-TCTTCGA
* * * * * * *
27509218 TCTGCTTCACTATTACTTAGGAAGATAAGAT-T-CGTTGTCCTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAC-CT-TCTTCGA
* * *
27509262 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCTTCTTCGA
* *
27509306 CCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCCTT-GA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACC-TTCTTCGA
* * ** * **
27509350 CCTGCTCCACTACTACTTAGGGAGATAGGA-CT-GGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCT-TCTTCGA
* * * *
27509393 TCTGCTTCACTACTGCTTAGGAAGAT-GAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GATCT-ACCTTCTTCGA
*
27509437 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCT
27509470 GTGGTTTCGT
Statistics
Matches: 534, Mismatches: 121, Indels: 59
0.75 0.17 0.08
Matches are distributed among these distances:
40 30 0.06
41 1 0.00
42 7 0.01
43 181 0.34
44 306 0.57
45 8 0.01
46 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCTTCTTCGA
Found at i:27508892 original size:87 final size:86
Alignment explanation
Indices: 27508743--27509335 Score: 381
Period size: 87 Copynumber: 6.8 Consensus size: 86
27508733 GTTTTTTCTG
* * ** *
27508743 TCTGCTCCGCTACTGCTTAGGGAGATAAGACT---TGATGCGATCTGCTCCACTACTGCTTAGGG
1 TCTGCTCCACTACTGCTTAGGAAGATAAGACTACCTTCTTCGATCTGCTCCACTACTGCTTAGGG
*
27508805 AGATAGGACTGGTGGCTTAAA
66 AGATAGGACTGGCGGCTTAAA
* * * *
27508826 TCTGCTTCACTACTGTTTAGGAAGATAAGATTTACCTTCTTCGATCTACTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGAAGATAAGA-CTACCTTCTTCGATCTGCTCCACTACTGCTTAGG
** ** **
27508891 GAGATAGGATCTAACATCTTTGA
65 GAGATAGGA-CTGGCGGCTTAAA
* * ** * ** *
27508914 CCTGCTCCACTACTGCTTAAGG-AGATAGGACT-GGTGGCTTAAATCTGCTTCACTACTGCTTAG
1 TCTGCTCCACTACTGCTT-AGGAAGATAAGACTACCT-TCTTCGATCTGCTCCACTACTGCTTAG
* * * * **
27508977 GAAGAT-GAGATTCGCCGTCTTCGA
64 GGAGATAG-GACT-GGCGGCTTAAA
* * * * * * *
27509001 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATATTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGAAGATAAGA-CTACCTTCTTCGATCTGCTCCACTACTGCTTAGG
*
27509066 GAGATAGGACTGGTGGCTTAAA
65 GAGATAGGACTGGCGGCTTAAA
* * * * *
27509088 TCTGCTTCACTACTGCTTAGGAAGATGAGATTCCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 TCTGCTCCACTACTGCTTAGGAAGATAAGACTACCTTCTTCGATCTGCTCCACTACTGCTTAGGG
** ** **
27509153 AGATAGGATCTACCATCTTCGA
66 AGATAGGA-CTGGCGGCTTAAA
* * * ** * ** * * *
27509175 CCTGCTCCACTACTGCTTAGGGAGATAGGACT-GGTGGCTTAAATCTGCTTCACTATTACTTAGG
1 TCTGCTCCACTACTGCTTAGGAAGATAAGACTACCT-TCTTCGATCTGCTCCACTACTGCTTAGG
* * * ** * * **
27509239 AAGATAAGATTCGTTGTCCTCGA
65 GAGATAGGACT-GGCGGCTTAAA
* * * *
27509262 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGAAGATAAGA-CTACCTTCTTCGATCTGCTCCACTACTGCTTAGG
27509327 GAGATAGGA
65 GAGATAGGA
27509336 TCTACCATCC
Statistics
Matches: 386, Mismatches: 106, Indels: 31
0.74 0.20 0.06
Matches are distributed among these distances:
83 26 0.07
84 1 0.00
86 43 0.11
87 223 0.58
88 89 0.23
89 4 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (86 bp):
TCTGCTCCACTACTGCTTAGGAAGATAAGACTACCTTCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAGGACTGGCGGCTTAAA
Found at i:27509204 original size:261 final size:262
Alignment explanation
Indices: 27508743--27509335 Score: 946
Period size: 261 Copynumber: 2.3 Consensus size: 262
27508733 GTTTTTTCTG
* ** *
27508743 TCTGCTCCGCTACTGCTTAGGGAGATAAGA-CT----TGATGCGATCTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTAACAT-ATTTGACCTGCTCCACTACTGCTTAG
* *
27508803 GGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGTTTAGGAAGATAAGATTTACCTTCTTC
65 GGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTTACCGTCTTC
*
27508868 GATCTACTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTA
130 GATCTACTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTCGACCTGCTCCACTACTGCTTA
* * *
27508933 AGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCGCCGTCTT
195 AGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACTTAGGAAGATAAGATTCGCCGTCCT
27508998 CGA
260 CGA
*
27509001 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATATTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTAACATATTTGACCTGCTCCACTACTGCTTAGG
* *
27509066 GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGA-TTCCCGTCTTCG
66 GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTTACCGTCTTCG
* * *
27509130 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
131 ATCTACTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTCGACCTGCTCCACTACTGCTTAA
* **
27509195 GGAGATAGGACTGGTGGCTTAAATCTGCTTCACTATTACTTAGGAAGATAAGATTCGTTGTCCTC
196 GGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACTTAGGAAGATAAGATTCGCCGTCCTC
27509260 GA
261 GA
* *
27509262 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTAACATATTTGACCTGCTCCACTACTGCTTAGG
27509327 GAGATAGGA
66 GAGATAGGA
27509336 TCTACCATCC
Statistics
Matches: 308, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
258 28 0.09
259 2 0.01
261 203 0.66
262 74 0.24
263 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (262 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTAACATATTTGACCTGCTCCACTACTGCTTAGG
GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTTACCGTCTTCG
ATCTACTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTCGACCTGCTCCACTACTGCTTAA
GGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACTTAGGAAGATAAGATTCGCCGTCCTC
GA
Found at i:27509359 original size:175 final size:175
Alignment explanation
Indices: 27509087--27509469 Score: 617
Period size: 175 Copynumber: 2.2 Consensus size: 175
27509077 GGTGGCTTAA
* * * * * *
27509087 ATCTGCTTCACTACTGCTTAGGAAGATGAGAT-TCCCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
*
27509151 GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTACTTAGGGAGATAGGACTGGTGGCTTA
* **
27509216 AATCTGCTTCACTATTACTTAGGAAGATAAGATTCGTTGTCCTCG
131 AATCTGCTTCACTACTACTTAGGAAGATAAGATTCGCCGTCCTCG
*
27509261 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
27509326 GGAGATAGGATCTACCATCCTT-GACCTGCTCCACTACTACTTAGGGAGATAGGACTGGTGGCTT
66 GGAGATAGGATCTACCAT-CTTCGACCTGCTCCACTACTACTTAGGGAGATAGGACTGGTGGCTT
* * *
27509390 AAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCGCCGTCTTCG
130 AAATCTGCTTCACTACTACTTAGGAAGATAAGATTCGCCGTCCTCG
27509436 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
27509470 GTGGTTTCGT
Statistics
Matches: 193, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
174 29 0.15
175 161 0.83
176 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (175 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTACTTAGGGAGATAGGACTGGTGGCTTA
AATCTGCTTCACTACTACTTAGGAAGATAAGATTCGCCGTCCTCG
Found at i:27509413 original size:131 final size:131
Alignment explanation
Indices: 27508784--27509335 Score: 917
Period size: 131 Copynumber: 4.2 Consensus size: 131
27508774 TTGATGCGAT
**
27508784 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGTTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACTTAGGAA
* ** * * *
27508849 GATAAGATTTACCTTCTTCGATCTACTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGA
27508914 C
131 C
* *
27508915 CTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACTTAGGAA
* *
27508980 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATATTTGA
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGA
27509045 C
131 C
*
27509046 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACTTAGGAA
*
27509111 GATGAGATTC-CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGA
27509175 C
131 C
*
27509176 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTATTACTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACTTAGGAA
* ** * *
27509241 GATAAGATTCGTTGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGA
27509306 C
131 C
27509307 CTGCTCCACTACTGCTTAGGGAGATAGGA
1 CTGCTCCACTACTGCTTAGGGAGATAGGA
27509336 TCTACCATCC
Statistics
Matches: 400, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
130 124 0.31
131 276 0.69
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACTTAGGAA
GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGA
C
Found at i:27509442 original size:131 final size:131
Alignment explanation
Indices: 27508743--27509469 Score: 577
Period size: 131 Copynumber: 5.6 Consensus size: 131
27508733 GTTTTTTCTG
* ** * *
27508743 TCTGCTCCGCTACTGCTTAGGGAGATAAGA-CT-TGA--TGCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGAT-AGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGG
** * * * ** * * * *
27508804 GAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGTTTAGGAAGATAAGATTTAC-CT-TCT
65 GAGATAGGATCTCATGCCTTAAACCTGCTCCACTACTACTTAGGAAGATAAGA-CT-CGGTGGCC
**
27508866 TCGA
128 TAAA
* * * *
27508870 TCTACTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAAG
1 TCTGCTCCACTACTGCTTAGGGAGATA-GATCTACCATCTTCGACCTGCTCCACTACTGCTTAGG
** * * * * * * ** * * *
27508935 GAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCGCCGTCTTC
65 GAGATAGGATCTCATGCCTTAAACCTGCTCCACTACTACTTAGGAAGATAAGACTCGGTGGCCTA
*
27508999 GA
130 AA
* * *
27509001 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATATTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATA-GATCTACCATCTTCGACCTGCTCCACTACTGCTTAGG
** * * * * * * * *
27509066 GAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCCCGT--CTT
65 GAGATAGGATCTCATGCCTTAAACCTGCTCCACTACTACTTAGGAAGATAAGACT-CGGTGGCCT
**
27509128 CGA
129 AAA
27509131 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATA-GATCTACCATCTTCGACCTGCTCCACTACTGCTTAGG
** * * * * * * * *
27509196 GAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTATTACTTAGGAAGATAAGATTCGTTGTCCTC
65 GAGATAGGATCTCATGCCTTAAACCTGCTCCACTACTACTTAGGAAGATAAGACTCGGTGGCCTA
*
27509260 GA
130 AA
*
27509262 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGAT-AGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGG
* * * *
27509327 GAGATAGGATCTACCAT-CCTT-GACCTGCTCCACTACTACTTAGGGAGATAGGACT-GGTGGCT
65 GAGATAGGATCT--CATGCCTTAAACCTGCTCCACTACTACTTAGGAAGATAAGACTCGGTGGCC
27509389 TAAA
128 TAAA
* * * * *
27509393 TCTGCTTCACTACTGCTTAGGAAGATGAGAT-TCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGAT-AGATCT-ACCATCTTCGACCTGCTCCACTACTGCTTAG
*
27509457 GGAGATAAGATCT
64 GGAGATAGGATCT
27509470 GTGGTTTCGT
Statistics
Matches: 535, Mismatches: 50, Indels: 26
0.88 0.08 0.04
Matches are distributed among these distances:
126 1 0.00
127 26 0.05
128 2 0.00
129 4 0.01
130 123 0.23
131 344 0.64
132 31 0.06
133 3 0.01
134 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (131 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGG
AGATAGGATCTCATGCCTTAAACCTGCTCCACTACTACTTAGGAAGATAAGACTCGGTGGCCTAA
A
Found at i:27509443 original size:87 final size:87
Alignment explanation
Indices: 27508869--27509463 Score: 513
Period size: 87 Copynumber: 6.8 Consensus size: 87
27508859 ACCTTCTTCG
* * ** * * *
27508869 ATCTACTCCACTACTGCTTAGGGAGATAGGA-TCTAACATCTTTGACCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAGGATTC-GCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
27508933 AGGAGATAGGACTGGTGGCTTAA
65 GGGAGATAGGACTGGCGGCTTAA
*
27508956 ATCTGCTTCACTACTGCTTAGGAAGAT-GAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAG-GATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
** *** **
27509020 GGGAGATAGGATCTAACATATTTG
65 GGGAGATAGGA-CTGGCGGCTTAA
* * * ** * ** *
27509044 ACCTGCTCCACTACTGCTTAGGGAGATAGGACT-GGTGGCTTAAATCTGCTTCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAGGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
* * ** * **
27509108 GAAGAT-GAGATTCCCGTCTTCG
66 GGAGATAG-GACTGGCGGCTTAA
* * * *
27509130 ATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACCATCTTCGACCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAGGATTC-GCCGTCTTCGATCTGCTCCACTACTGCTTA
*
27509194 GGGAGATAGGACTGGTGGCTTAA
65 GGGAGATAGGACTGGCGGCTTAA
* * * * ** *
27509217 ATCTGCTTCACTATTACTTAGGAAGATAAGATTCGTTGTCCTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAGGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
* ** ** **
27509282 GGAGATAAGATCTACCATCTTTG
66 GGAGATAGGA-CTGGCGGCTTAA
* * * * * *
27509305 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACCATCCTT-GACCTGCTCCACTACTACTT
1 ATCTGCTCCACTACTGCTTAGGAAGATAGGATTC-GCCGT-CTTCGATCTGCTCCACTACTGCTT
*
27509368 AGGGAGATAGGACTGGTGGCTTAA
64 AGGGAGATAGGACTGGCGGCTTAA
*
27509392 ATCTGCTTCACTACTGCTTAGGAAGAT-GAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAG-GATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
27509456 GGGAGATA
65 GGGAGATA
27509464 AGATCTGTGG
Statistics
Matches: 394, Mismatches: 99, Indels: 30
0.75 0.19 0.06
Matches are distributed among these distances:
85 1 0.00
86 42 0.11
87 250 0.63
88 98 0.25
89 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (87 bp):
ATCTGCTCCACTACTGCTTAGGAAGATAGGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAGGACTGGCGGCTTAA
Found at i:27509583 original size:43 final size:44
Alignment explanation
Indices: 27509521--27510119 Score: 333
Period size: 44 Copynumber: 13.7 Consensus size: 44
27509511 TGGTGCGATT
* * * * * *
27509521 TGCTCCACTATAACTTCAGGGAGATAGGAT-AGTGTCTTCGATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATC
* * *
27509564 TGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATC
* * **
27509608 TGCTCCACTGTAACCTCAGGGGGATAAGATCTTACAT-TCTTCGGTC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATC--AC-TGGCTTCAATC
* * * * *
27509654 TACTCCACCGTAACCTCAGGGAGATAAGA-C-CT-GATGCGATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATC
* ** * * *** *
27509695 TACTCTGCTGTAACTTCAGAGAGATAAGA-C-CTTTATTTTAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCAC-TGGCTTCAATC
* * * * * *
27509738 CGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATC
* * * *
27509782 TACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATC
* * **
27509826 TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATC---ACTGGCTTCAATC
* * * * *
27509872 TACTCCATTGTAACCTCAGGGAGATAAGA-C-CT-GATGCGATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATC
* ** * * * *** *
27509913 TACTCTGCTGTAACTTCAGAGAGATAAGACTC-TTTAATTTAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGA-TCACTGGCTTCAATC
* * * * *
27509957 CGCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTTCAATC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATC
* * * * * *
27510001 TACTCCGCTGTAATCTCATGGAGATAAGATCTCTGGCTTCAACC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATC
* * * * **
27510045 TGCTCCACTGTAACTTCAGAGAGATAAGATCTGAAAT-TCTTCGGTC
1 TGCTCCACTGTAACCTCAGGGAGATAAGATC---ACTGGCTTCAATC
* *
27510091 TACTCCATTGTAACCTCAGGGAGATAAGA
1 TGCTCCACTGTAACCTCAGGGAGATAAGA
27510120 CCTGATGCGA
Statistics
Matches: 421, Mismatches: 117, Indels: 33
0.74 0.20 0.06
Matches are distributed among these distances:
41 62 0.15
42 2 0.00
43 56 0.13
44 199 0.47
45 3 0.01
46 96 0.23
47 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
TGCTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATC
Found at i:27509713 original size:174 final size:171
Alignment explanation
Indices: 27509497--27510073 Score: 389
Period size: 174 Copynumber: 3.3 Consensus size: 171
27509487 GTTACTGCTT
* * * * * * * *
27509497 AGGGAGATAAGACTTGGTGCGATTTGCTCCACTATAACTTCAGGGAGATAGGA-TAGTGTCTTCG
1 AGGGAGATAAGACCTGATGCGATCTACTCCACTATAACTTCAGAGAGATAAGACT-GTAT-TTCA
* * * * *
27509561 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCT
64 ATCCGCTCCACTGTAACT-TCAGAGAGATAAGAT-TACTAGCTTCAATCTACTCCACTGTAACCT
* * **
27509624 CAGGGGGATAAGATCTTACAT-TCTTCGGTCTACTCCACCGTAACCTC
127 CAGGGAGATAAGATC-T-C-TGGCTTCAATCTACTCCACCGTAACCTC
** * * *
27509671 AGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGACCTTTATTTTAA
1 AGGGAGATAAGACCTGATGCGATCTACTCCACTATAACTTCAGAGAGATAAGA-CTGTATTTCAA
* * *
27509736 TCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAG
65 TCCGCTCCACTGTAACTTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAACCTCAG
* *
27509801 GGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
130 GGAGATAAGATCTCTGGCTTCAATCTACTCCACCGTAACCTC
* * * * * * *
27509843 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCATTGTAACCTCAGGGAGATAAGACCTG-A-
1 AGGGAGATAAGACCTG--A---TGCGATCTACTCCACTATAACTTCAGAGAGATAAGA-CTGTAT
* * ** ** * * * **
27509906 TGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGACTCT-TTA-ATTTAATCCGCTCCACTGTA
60 TTCAATCCGCTCCACTGTAACTTCAGAGAGATAAGA-T-TACTAGCTTCAATCTACTCCACTGTA
* * * * * *
27509969 ACTTCAGGGAGATAGGAT-TACTAGCTTCAATCTACTCCGCTGTAATCTC
123 ACCTCAGGGAGATAAGATCT-CTGGCTTCAATCTACTCCACCGTAACCTC
* * * * * * *
27510018 ATGGAGATAAGATCTCTGGCTTCAACCTGCTCCACTGTAACTTCAGAGAGATAAGA
1 AGGGAGATAAGA-C-CT-GATGCGATCTACTCCACTATAACTTCAGAGAGATAAGA
27510074 TCTGAAATTC
Statistics
Matches: 320, Mismatches: 67, Indels: 33
0.76 0.16 0.08
Matches are distributed among these distances:
171 1 0.00
172 37 0.12
173 31 0.10
174 113 0.35
175 97 0.30
176 5 0.02
177 35 0.11
178 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (171 bp):
AGGGAGATAAGACCTGATGCGATCTACTCCACTATAACTTCAGAGAGATAAGACTGTATTTCAAT
CCGCTCCACTGTAACTTCAGAGAGATAAGATTACTAGCTTCAATCTACTCCACTGTAACCTCAGG
GAGATAAGATCTCTGGCTTCAATCTACTCCACCGTAACCTC
Found at i:27510027 original size:88 final size:88
Alignment explanation
Indices: 27509521--27510070 Score: 219
Period size: 87 Copynumber: 6.3 Consensus size: 88
27509511 TGGTGCGATT
* * * * *
27509521 TGCTCCACTATAACTTCAGGGAGATAGGA-TAGT-GTCTTCGATCTGCTCCGCTGTAA-TCTCAG
1 TGCTCCACTGTAACTTCAGAGAGATAGGATTACTAG-CTTCAATCTACTCCGCTGTAACT-TCAG
* ** *
27509583 GGAGATAAGATCTCTGGCTTCAATC
64 AGAGATAAGATCTCTGAATTCAACC
* * * * * ** * * *
27509608 TGCTCCACTGTAACCTCAGGGGGATAAGATCTTAC-ATTCTTCGGTCTACTCCACCGTAACCTCA
1 TGCTCCACTGTAACTTCAGAGAGATAGGA--TTACTA-GCTTCAATCTACTCCGCTGTAACTTCA
* * * *
27509672 GGGAGATAAGA-C-CTG-ATGCGATC
63 GAGAGATAAGATCTCTGAATTCAACC
* ** * * * ** *
27509695 TACTCTGCTGTAACTTCAGAGAGATAAGACCTT--TA-TTTTAATCCGCTCCACTGTAACTTCAG
1 TGCTCCACTGTAACTTCAGAGAGATAGGA--TTACTAGCTTCAATCTACTCCGCTGTAACTTCAG
* * *
27509757 AGAGATAGGAT-TACT-AGCTTCAATC
64 AGAGATAAGATCT-CTGA-ATTCAACC
* * * * * * * *
27509782 TACTCCGCTGTAA-TCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAG
1 TGCTCCACTGTAACT-TCAGAGAGATAGGAT-TACTAGCTTCAATCTACTCCGCTGTAACTTCAG
* **
27509845 GGAGATAAGA--TCTGAAATTCTTCGGTC
64 AGAGATAAGATCTCTG-AATTCAAC---C
* * * * * * * * * *
27509872 TACTCCATTGTAACCTCAGGGAGATAAGA--CCT-GATGCGATCTACTCTGCTGTAACTTCAGAG
1 TGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAACTTCAGAG
* *
27509934 AGATAAGA-CTCTTTAATTTAATCC
66 AGATAAGATCTC-TGAATTCAA-CC
*
27509958 -GCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAA-TCTCATG
1 TGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAACT-TCA-G
**
27510021 -GAGATAAGATCTCTGGCTTCAACC
64 AGAGATAAGATCTCTGAATTCAACC
27510045 TGCTCCACTGTAACTTCAGAGAGATA
1 TGCTCCACTGTAACTTCAGAGAGATA
27510071 AGATCTGAAA
Statistics
Matches: 354, Mismatches: 76, Indels: 65
0.72 0.15 0.13
Matches are distributed among these distances:
84 27 0.08
85 25 0.07
86 8 0.02
87 126 0.36
88 102 0.29
89 7 0.02
90 59 0.17
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (88 bp):
TGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAACTTCAGAG
AGATAAGATCTCTGAATTCAACC
Found at i:27510071 original size:219 final size:219
Alignment explanation
Indices: 27509522--27510204 Score: 1176
Period size: 219 Copynumber: 3.1 Consensus size: 219
27509512 GGTGCGATTT
* * * *
27509522 GCTCCACTATAACTTCAGGGAGATAGGA-TAGT-GTCTTCGATCTGCTCCGCTGTAATCTCAGGG
1 GCTCCACTGTAACTTCAGGGAGATAGGATTACTAG-CTTCAATCTACTCCGCTGTAATCTCAGGG
* * *
27509585 AGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGGGATAAGATCTTACATTCTTC
65 AGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTC
**
27509650 GGTCTACTCCACCGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGA
130 GGTCTACTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGA
*
27509715 GAGATAAGAC-CTTTATTTTAATCC
195 GAGATAAGACTCTTTAATTTAATCC
*
27509739 GCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGA
1 GCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGA
27509804 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
66 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
27509869 GTCTACTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAG
131 GTCTACTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAG
27509934 AGATAAGACTCTTTAATTTAATCC
196 AGATAAGACTCTTTAATTTAATCC
*
27509958 GCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCATGGA
1 GCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGA
* * *
27510023 GATAAGATCTCTGGCTTCAACCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGAAATTCTTCG
66 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
27510088 GTCTACTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAG
131 GTCTACTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAG
27510153 AGATAAGA-TCCTTTAATTTAATCC
196 AGATAAGACT-CTTTAATTTAATCC
*
27510177 GCTCCACTGCAACTTCAGGGAGATAGGA
1 GCTCCACTGTAACTTCAGGGAGATAGGA
27510205 CTTGTAACTC
Statistics
Matches: 445, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
217 26 0.06
218 166 0.37
219 253 0.57
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (219 bp):
GCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGA
GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
GTCTACTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAG
AGATAAGACTCTTTAATTTAATCC
Found at i:27510376 original size:25 final size:25
Alignment explanation
Indices: 27510332--27510381 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
27510322 CTTGGGAAGT
* *
27510332 AAGATTCTCCGTTGTAGCTTTAATC
1 AAGATTCACCGATGTAGCTTTAATC
*
27510357 AAGATTCACCGATGTGGCTTTAATC
1 AAGATTCACCGATGTAGCTTTAATC
27510382 TTTTCAACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (25 bp):
AAGATTCACCGATGTAGCTTTAATC
Found at i:27510383 original size:125 final size:126
Alignment explanation
Indices: 27510243--27510481 Score: 309
Period size: 125 Copynumber: 1.9 Consensus size: 126
27510233 GATTCGCCAT
* * * *
27510243 TGTGGCTTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCT
1 TGTGGCTTTTAATCTTTTCAACTGCAATGTAGGAGAAACAAGATGCACCAATGTGGCTTTAATCT
* * * * **
27510308 ATTCCACTGCATCGCTTGGGAAGTAAGATTCTCCGTTGTAGCTTTAATCAAGATTCACCGA
66 ATTCCACTGCACCACCTGGGAAGTAAGATTCGCCACTGTAGCTTTAATCAAGATTCACCGA
* * * * *
27510369 TGTGGC-TTTAATCTTTTCAACTGCAATGTAGGGGAAGCAAGATGCATCGATGTGGTTTTAATCT
1 TGTGGCTTTTAATCTTTTCAACTGCAATGTAGGAGAAACAAGATGCACCAATGTGGCTTTAATCT
* * *
27510433 GTTCCACTGCACCACCTGGGAGGTAAGATTCGCTACTGTAGCTTTAATC
66 ATTCCACTGCACCACCTGGGAAGTAAGATTCGCCACTGTAGCTTTAATC
27510482 TTTTTAATCA
Statistics
Matches: 95, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
125 89 0.94
126 6 0.06
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (126 bp):
TGTGGCTTTTAATCTTTTCAACTGCAATGTAGGAGAAACAAGATGCACCAATGTGGCTTTAATCT
ATTCCACTGCACCACCTGGGAAGTAAGATTCGCCACTGTAGCTTTAATCAAGATTCACCGA
Found at i:27510429 original size:75 final size:75
Alignment explanation
Indices: 27510281--27510431 Score: 164
Period size: 75 Copynumber: 2.0 Consensus size: 75
27510271 GTCGGAGAAA
* * * * * *
27510281 CAAGATTCACCAATTTGGCTTTAATCTATTCCACTGCATCGCTTGGGAAGTAAGATTCTCCGTTG
1 CAAGATTCACCAATGTGGCTTTAATCTATTCAACTGCATCGCTGGGGAAGCAAGATGCTCCGATG
27510346 TAGCTTTAAT
66 TAGCTTTAAT
* *
27510356 CAAGATTCACCGATGTGGCTTTAATCTTTTCAACTGCAAT-G-TAGGGGAAGCAAGATGCAT-CG
1 CAAGATTCACCAATGTGGCTTTAATCTATTCAACTGC-ATCGCT-GGGGAAGCAAGATGC-TCCG
* *
27510418 ATGTGGTTTTAAT
63 ATGTAGCTTTAAT
27510431 C
1 C
27510432 TGTTCCACTG
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
74 1 0.02
75 59 0.94
76 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (75 bp):
CAAGATTCACCAATGTGGCTTTAATCTATTCAACTGCATCGCTGGGGAAGCAAGATGCTCCGATG
TAGCTTTAAT
Found at i:27510479 original size:50 final size:49
Alignment explanation
Indices: 27510438--27510586 Score: 158
Period size: 49 Copynumber: 3.0 Consensus size: 49
27510428 AATCTGTTCC
27510438 ACTGCACCACCTGGGAGGTAAGATTCGCTACTGTAGCTTTAATCTTTTT
1 ACTGCACCACCTGGGAGGTAAGATTCGCTACTGTAGCTTTAATCTTTTT
* * * * * * * *
27510487 AAT-CACAATGTCAGGGAGGCAAGATTCACCTTC-GTGGCTTTAATCTTTTT
1 ACTGCACCA--CCTGGGAGGTAAGATTC-GCTACTGTAGCTTTAATCTTTTT
* * *
27510537 ACTGCACCGCCTGGGAGATAAGATTCGCTGCTGTAGCTTTAATCTTTTT
1 ACTGCACCACCTGGGAGGTAAGATTCGCTACTGTAGCTTTAATCTTTTT
27510586 A
1 A
27510587 ACCGCGATGT
Statistics
Matches: 77, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
48 7 0.09
49 32 0.42
50 32 0.42
51 6 0.08
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (49 bp):
ACTGCACCACCTGGGAGGTAAGATTCGCTACTGTAGCTTTAATCTTTTT
Found at i:27510573 original size:99 final size:99
Alignment explanation
Indices: 27510373--27510711 Score: 434
Period size: 99 Copynumber: 3.4 Consensus size: 99
27510363 CACCGATGTG
* * * * * * * * *
27510373 GCTTTAATCTTTTCAACTGCAATGT-AGGGGAAGCAAGATGCATCGATGTGGTTTTAATCTGTTC
1 GCTTTAATCTTTTTAACCGCAATGTCA-GAGAGGCAAGATTCACCGTTGTGGCTTTAATCT-TTT
* * * *
27510437 CACTGCACCACCTGGGAGGTAAGATTCGCTACTGTA
64 TACTGCACCGCCTGGGAGATAAGATTCGCTGCTGTA
* * *
27510473 GCTTTAATCTTTTTAATCACAATGTCAGGGAGGCAAGATTCACC-TTCGTGGCTTTAATCTTTTT
1 GCTTTAATCTTTTTAACCGCAATGTCAGAGAGGCAAGATTCACCGTT-GTGGCTTTAATCTTTTT
27510537 ACTGCACCGCCTGGGAGATAAGATTCGCTGCTGTA
65 ACTGCACCGCCTGGGAGATAAGATTCGCTGCTGTA
* *
27510572 GCTTTAATCTTTTTAACCGCGATGTCAGAGAGGCAAGATTCACCGTTGTGGCTTTAATC-TATTA
1 GCTTTAATCTTTTTAACCGCAATGTCAGAGAGGCAAGATTCACCGTTGTGGCTTTAATCTTTTTA
* *
27510636 CTGCACTGCCTGAGAGATAAGATTCGCTG-TAGTA
66 CTGCACCGCCTGGGAGATAAGATTCGCTGCT-GTA
27510670 GCTTTAATCTTTTTAACCGCAATGTCAGAGAGGCAAGATTCA
1 GCTTTAATCTTTTTAACCGCAATGTCAGAGAGGCAAGATTCA
27510712 TGGTTTTAGT
Statistics
Matches: 213, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
97 1 0.00
98 75 0.35
99 87 0.41
100 49 0.23
101 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (99 bp):
GCTTTAATCTTTTTAACCGCAATGTCAGAGAGGCAAGATTCACCGTTGTGGCTTTAATCTTTTTA
CTGCACCGCCTGGGAGATAAGATTCGCTGCTGTA
Found at i:27510629 original size:50 final size:49
Alignment explanation
Indices: 27510469--27510711 Score: 188
Period size: 50 Copynumber: 4.9 Consensus size: 49
27510459 GATTCGCTAC
* * *
27510469 TGTAGCTTTAATCTTTTTAATCACAATGTCAGGGAGGCAAGATTCACC-T
1 TGTAGCTTTAATCTTTTTAACCGC-ATGTCAGAGAGGCAAGATTCACCGT
* * * * * * ** * * *
27510518 TCGTGGCTTTAATCTTTTT-ACTGCACCGCCTGGGAGATAAGATTCGCTGC
1 T-GTAGCTTTAATCTTTTTAACCGCA-TGTCAGAGAGGCAAGATTCACCGT
27510568 TGTAGCTTTAATCTTTTTAACCGCGATGTCAGAGAGGCAAGATTCACCGT
1 TGTAGCTTTAATCTTTTTAACCGC-ATGTCAGAGAGGCAAGATTCACCGT
* * * * * ** * *
27510618 TGTGGCTTTAATC-TATT-ACTGCACTGCCTGAGAGATAAGATTCGCTGT
1 TGTAGCTTTAATCTTTTTAACCGCA-TGTCAGAGAGGCAAGATTCACCGT
*
27510666 AGTAGCTTTAATCTTTTTAACCGCAATGTCAGAGAGGCAAGATTCA
1 TGTAGCTTTAATCTTTTTAACCGC-ATGTCAGAGAGGCAAGATTCA
27510712 TGGTTTTAGT
Statistics
Matches: 144, Mismatches: 41, Indels: 17
0.71 0.20 0.08
Matches are distributed among these distances:
47 1 0.01
48 34 0.24
49 40 0.28
50 67 0.47
51 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (49 bp):
TGTAGCTTTAATCTTTTTAACCGCATGTCAGAGAGGCAAGATTCACCGT
Found at i:27510674 original size:48 final size:48
Alignment explanation
Indices: 27510523--27510684 Score: 166
Period size: 48 Copynumber: 3.3 Consensus size: 48
27510513 CACCTTCGTG
* *
27510523 GCTTTAATCTTTTTACTGCACCGCCTGGGAGATAAGATTCGCTGCTGTA
1 GCTTTAATCTTTTTACTGCACTGCCTGAGAGATAAGATTCGCTG-TGTA
* * * ** * * *
27510572 GCTTTAATCTTTTTAACCGCGA-TGTCAGAGAGGCAAGATTCACCGTTGTG
1 GCTTTAATCTTTTT-ACTGC-ACTGCCTGAGAGATAAGATTCGCTG-TGTA
*
27510622 GCTTTAATC-TATTACTGCACTGCCTGAGAGATAAGATTCGCTGTAGTA
1 GCTTTAATCTTTTTACTGCACTGCCTGAGAGATAAGATTCGCTGT-GTA
27510670 GCTTTAATCTTTTTA
1 GCTTTAATCTTTTTA
27510685 ACCGCAATGT
Statistics
Matches: 87, Mismatches: 21, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
47 2 0.02
48 32 0.37
49 21 0.24
50 31 0.36
51 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (48 bp):
GCTTTAATCTTTTTACTGCACTGCCTGAGAGATAAGATTCGCTGTGTA
Found at i:27511050 original size:87 final size:87
Alignment explanation
Indices: 27510919--27511462 Score: 869
Period size: 87 Copynumber: 6.3 Consensus size: 87
27510909 TACCGCTTAG
* * * *
27510919 GGAGGCAAGACTTGTGTCTTT-GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTACTATCT
1 GGAGGCAAGGCTT-TGT-TTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCT
27510983 TTAACCAGCTCCACTGCAACCGAT
64 TTAACCAGCTCCACTGCAACCGAT
* * * * *
27511007 GGAGGCAAGGCTTTATTTTTGATCTGCTTCGCTATTAACGCAGGAAGGCAAGATTTGCTATCTTC
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
* *
27511072 AACCAGCTCCAGTACAACCGAT
66 AACCAGCTCCACTGCAACCGAT
* * *
27511094 GGAGGCAATGCTTTATTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
27511159 AACCAGCTCCACTGCAACCGAT
66 AACCAGCTCCACTGCAACCGAT
*
27511181 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
*
27511245 AACCAGCTCCACTGCAACCTAT
66 AACCAGCTCCACTGCAACCGAT
* * *
27511267 GGAGGCAAGGCTTTGTTTTCGATTTGCTTCGCTGTTAATGCAAGAAGGCAAGATCTGCTATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
27511332 AACCAGCTCCACTGCAACCGAT
66 AACCAGCTCCACTGCAACCGAT
27511354 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
*
27511418 AACCAGCTCCACTGCAACCTAT
66 AACCAGCTCCACTGCAACCGAT
27511440 GGAGGCAAGGCTTTGTTTTCGAT
1 GGAGGCAAGGCTTTGTTTTCGAT
27511463 TTTCACTGAT
Statistics
Matches: 422, Mismatches: 32, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
86 133 0.32
87 277 0.66
88 12 0.03
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
AACCAGCTCCACTGCAACCGAT
Found at i:27511464 original size:173 final size:173
Alignment explanation
Indices: 27510919--27511462 Score: 910
Period size: 173 Copynumber: 3.1 Consensus size: 173
27510909 TACCGCTTAG
* * *
27510919 GGAGGCAAGACTTGTGTCTTT-GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTACTATCT
1 GGAGGCAAGGCTT-TGT-TTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCT
* * *
27510983 TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATTTTTGATCTGCTTCGCTATTAACGC
64 TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGC
* * * * *
27511048 AGGAAGGCAAGATTTGCTATCTTCAACCAGCTCCAGTACAACCGAT
129 AGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCTAT
* *
27511094 GGAGGCAATGCTTTATTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTT
*
27511159 AACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAG
66 AACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
27511224 GAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCTAT
131 GAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCTAT
* *
27511267 GGAGGCAAGGCTTTGTTTTCGATTTGCTTCGCTGTTAATGCAAGAAGGCAAGATCTGCTATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTT
27511332 AACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
66 AACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
27511397 GAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCTAT
131 GAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCTAT
27511440 GGAGGCAAGGCTTTGTTTTCGAT
1 GGAGGCAAGGCTTTGTTTTCGAT
27511463 TTTCACTGAT
Statistics
Matches: 349, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
173 217 0.62
174 121 0.35
175 11 0.03
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (173 bp):
GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTT
AACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
GAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCTAT
Found at i:27512714 original size:13 final size:13
Alignment explanation
Indices: 27512696--27512734 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
27512686 TTAGCCTCTC
27512696 CATTTTTCATTTT
1 CATTTTTCATTTT
*
27512709 CATTTTTCATTCT
1 CATTTTTCATTTT
*
27512722 CATTTTTTATTTT
1 CATTTTTCATTTT
27512735 TTTGACTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:27518313 original size:3 final size:3
Alignment explanation
Indices: 27518299--27518352 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
27518289 AACTAACAAT
* * * * *
27518299 TAA TAG TAA TAA TAA TTA TAA TTA TAA TAA TGA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
27518347 TAA TAA
1 TAA TAA
27518353 CCAAAATGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:27520324 original size:20 final size:20
Alignment explanation
Indices: 27520288--27520326 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
27520278 ATATATTATG
27520288 AAAATAATATACTTATTTTAA
1 AAAATAATATAC-TATTTTAA
27520309 AAAATATATATA-TATTTT
1 AAAATA-ATATACTATTTT
27520327 TTAAAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAATAATATACTATTTTAA
Found at i:27530727 original size:18 final size:20
Alignment explanation
Indices: 27530704--27530743 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
27530694 ATTGGCCTAT
27530704 TACAGTAAC-AATAAT-CAG
1 TACAGTAACAAATAATACAG
27530722 TACAGTAACAAATAATACAG
1 TACAGTAACAAATAATACAG
27530742 TA
1 TA
27530744 TACAGGTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 6 0.30
20 5 0.25
ACGTcount: A:0.53, C:0.15, G:0.10, T:0.23
Consensus pattern (20 bp):
TACAGTAACAAATAATACAG
Found at i:27535356 original size:26 final size:26
Alignment explanation
Indices: 27535326--27535402 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 26
27535316 GCCAACACAC
27535326 CAATATCATAGCAAAGCTGCCAGTAAT
1 CAATATCA-AGCAAAGCTGCCAGTAAT
27535353 -AATAATGCAA-CAAAGCTGCCAGT-AT
1 CAAT-AT-CAAGCAAAGCTGCCAGTAAT
* *
27535378 CAGTATCGCAGCAAAGCTGCCAGTA
1 CAATATC-AAGCAAAGCTGCCAGTA
27535403 CAGTATACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
24 1 0.02
25 5 0.12
26 31 0.74
27 3 0.07
28 2 0.05
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (26 bp):
CAATATCAAGCAAAGCTGCCAGTAAT
Found at i:27541112 original size:26 final size:27
Alignment explanation
Indices: 27541083--27541148 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
27541073 AATATTGGAA
* *
27541083 CAAAGCTACCAGTAAT-AGCACCGTAG
1 CAAAGCTGCCAGTAATCAGCACCGCAG
* * *
27541109 CAAAGTTGCCAGT-ATCAGTATCGCAG
1 CAAAGCTGCCAGTAATCAGCACCGCAG
27541135 CAAAGCTGCCAGTA
1 CAAAGCTGCCAGTA
27541149 TAGTATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.06
26 30 0.94
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (27 bp):
CAAAGCTGCCAGTAATCAGCACCGCAG
Found at i:27542921 original size:29 final size:29
Alignment explanation
Indices: 27542884--27542962 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
27542874 AAATCAAAAA
**
27542884 TCAAAAACCCTAAATGAAAATCCCCAAAT
1 TCAAAAACCCTAAACCAAAATCCCCAAAT
* * * *
27542913 TCAACAACCTTGAACCAAAATCCCCAAAC
1 TCAAAAACCCTAAACCAAAATCCCCAAAT
* *
27542942 TCTAAAACCCAAAACCAAAAT
1 TCAAAAACCCTAAACCAAAAT
27542963 TGAAATAACA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.51, C:0.32, G:0.03, T:0.15
Consensus pattern (29 bp):
TCAAAAACCCTAAACCAAAATCCCCAAAT
Found at i:27543588 original size:25 final size:25
Alignment explanation
Indices: 27543554--27543612 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
27543544 CGGCGTTTAT
27543554 TCTTAAGCGCCGCTAAAGAACATGG
1 TCTTAAGCGCCGCTAAAGAACATGG
27543579 TCTTAAGCGCCGCTAAAGAACATGG
1 TCTTAAGCGCCGCTAAAGAACATGG
*
27543604 TCTTTAGCG
1 TCTTAAGCG
27543613 GCGTTTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (25 bp):
TCTTAAGCGCCGCTAAAGAACATGG
Found at i:27543628 original size:67 final size:67
Alignment explanation
Indices: 27543520--27543649 Score: 199
Period size: 67 Copynumber: 1.9 Consensus size: 67
27543510 AAACAAAAAT
* * *
27543520 GCCGCTAAAGACCATGTTCTTTAGCGGCGTTTATTCTTAAGCGCCGCTAAAGAACATGGTCTTAA
1 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTATTCTTAAGCACCGCTAAAGAACATGGTCTTAA
27543585 GC
66 GC
* *
27543587 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTCTTC-TAAGCACTGCTAAAGAACATGGTCTT
1 GCCGCTAAAGAACATGGTCTTTAGCGGCG-TTTATTCTTAAGCACCGCTAAAGAACATGGTCTT
27543650 TAGTGGCCTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 51 0.89
68 6 0.11
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (67 bp):
GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTATTCTTAAGCACCGCTAAAGAACATGGTCTTAA
GC
Found at i:27543719 original size:41 final size:41
Alignment explanation
Indices: 27543581--27543745 Score: 213
Period size: 42 Copynumber: 4.0 Consensus size: 41
27543571 GAACATGGTC
27543581 TTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTCTT
1 TTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTT-TT
* * * * *
27543623 CTAAGCACTGCTAAAGAACATGGTCTTTAGTGGCCTTTTTT
1 TTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
** *
27543664 TCTAAGCGCCGCTAAAGAACATTATCTTTAGCAGCGTTTTTT
1 T-TAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
* * *
27543706 TTAAGCGCAGCTAAAGAACATGTTCTTTAGCGGCGCTTTT
1 TTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
27543746 ATACAAAAAC
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
41 36 0.35
42 68 0.65
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (41 bp):
TTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
Found at i:27543745 original size:84 final size:84
Alignment explanation
Indices: 27543582--27543745 Score: 240
Period size: 84 Copynumber: 2.0 Consensus size: 84
27543572 AACATGGTCT
* * *
27543582 TAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTCTTCTAAGCACTGCTAAAGAACATGGT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTCTTCTAAGCACAGCTAAAGAACATGGT
*
27543647 CTTTAGTGGCCTTTTTTTC
66 CTTTAGCGGCCTTTTTTTC
* * * *
27543666 TAAGCGCCGCTAAAGAACATTATCTTTAGCAGCGTTTT-TTTTAAGCGCAGCTAAAGAACATGTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTCTTCTAAGCACAGCTAAAGAACATGGT
27543730 CTTTAGCGGCGCTTTT
66 CTTTAGCGGC-CTTTT
27543746 ATACAAAAAC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
83 31 0.44
84 40 0.56
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTCTTCTAAGCACAGCTAAAGAACATGGT
CTTTAGCGGCCTTTTTTTC
Found at i:27544094 original size:21 final size:21
Alignment explanation
Indices: 27544065--27544114 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
27544055 CTCTGCTCTG
* *
27544065 CTTCTCTCGCTGCAGCCTCCA
1 CTTCCCTCGCTGCAGCCGCCA
*
27544086 CTTCCCTCGCTGCAGCCGCTA
1 CTTCCCTCGCTGCAGCCGCCA
27544107 CTTCCCTC
1 CTTCCCTC
27544115 ACTGTCGCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.08, C:0.50, G:0.14, T:0.28
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCGCCA
Found at i:27549667 original size:9 final size:9
Alignment explanation
Indices: 27549650--27549909 Score: 174
Period size: 9 Copynumber: 29.8 Consensus size: 9
27549640 TATGTATTAA
*
27549650 GTAAATTAT
1 GTAAGTTAT
27549659 GTAAGTTAT
1 GTAAGTTAT
27549668 GTACA-TGTA-
1 GTA-AGT-TAT
27549677 -TAAGTTAT
1 GTAAGTTAT
27549685 GTAAGTTAT
1 GTAAGTTAT
*
27549694 GT-A-TTAA
1 GTAAGTTAT
*
27549701 GTAAGCTAT
1 GTAAGTTAT
* *
27549710 TTAAGTTGT
1 GTAAGTTAT
27549719 GT-A-TTAT
1 GTAAGTTAT
27549726 GTAAGTTAT
1 GTAAGTTAT
27549735 GTAAGTTAT
1 GTAAGTTAT
** *
27549744 CAAAGTAAT
1 GTAAGTTAT
*
27549753 GTATGTTAT
1 GTAAGTTAT
27549762 GTAAG-T-T
1 GTAAGTTAT
27549769 GTAAGTTAT
1 GTAAGTTAT
*
27549778 -TATGTATTAT
1 GTAAG--TTAT
*
27549788 GTAGGTTAT
1 GTAAGTTAT
27549797 GTAAGTTAT
1 GTAAGTTAT
*
27549806 GTAAGTTTT
1 GTAAGTTAT
27549815 GT-A-TTAT
1 GTAAGTTAT
*
27549822 GTAAGTTGT
1 GTAAGTTAT
27549831 GTAAGTTAT
1 GTAAGTTAT
* *
27549840 GTATGCTAT
1 GTAAGTTAT
*
27549849 GTAAGTAAT
1 GTAAGTTAT
27549858 GT-A-TTAT
1 GTAAGTTAT
27549865 GTAAGTTTAT
1 GTAAG-TTAT
*
27549875 ATAAGTTAATAT
1 GTAAG-T--TAT
*
27549887 GTAAGTAAT
1 GTAAGTTAT
27549896 GT-A-TTAT
1 GTAAGTTAT
27549903 GTAAGTT
1 GTAAGTT
27549910 TATATAAAAA
Statistics
Matches: 194, Mismatches: 34, Indels: 46
0.71 0.12 0.17
Matches are distributed among these distances:
7 34 0.18
8 18 0.09
9 114 0.59
10 17 0.09
11 4 0.02
12 7 0.04
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:27549667 original size:25 final size:25
Alignment explanation
Indices: 27549639--27549743 Score: 113
Period size: 25 Copynumber: 4.2 Consensus size: 25
27549629 TGATATATAT
27549639 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* *
27549664 TTATGTA-CATGTATAAGTTATGTAAG
1 TTATGTATTAAGTA-AA-TTATGTAAG
** *
27549690 TTATGTATTAAGTAAGCTATTTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
27549715 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
27549740 TTAT
1 TTAT
27549744 CAAAGTAATG
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
24 4 0.06
25 40 0.62
26 17 0.26
27 4 0.06
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:27549739 original size:34 final size:34
Alignment explanation
Indices: 27549654--27549909 Score: 138
Period size: 34 Copynumber: 7.4 Consensus size: 34
27549644 TATTAAGTAA
27549654 ATTATGTAAGTTATGT-A-C-ATGTATAAGTTATGT
1 ATTATGTAAGTTATGTAAGCTAT-T-TAAGTTATGT
* *
27549687 AAGTTATGT-A-TTAAGTAAGCTATTTAAGTTGTGT
1 -A-TTATGTAAGTTATGTAAGCTATTTAAGTTATGT
* ** *
27549721 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGT
1 ATTATGTAAGTTATGTAAGCTATTTAAGTTATGT
* *
27549755 ATGTTATGTAAG-T-TGTAAGTTA-TTATGTATTATGT
1 A--TTATGTAAGTTATGTAAGCTATTTAAG--TTATGT
*
27549790 AGGTTATGTAAGTTATGTAAG-T-TTTGTA-TTATGT
1 A--TTATGTAAGTTATGTAAGCTATTT-AAGTTATGT
* * * *
27549824 AAGTTGTGTAAGTTATGTATGCTATGTAAGTAATGT
1 -A-TTATGTAAGTTATGTAAGCTATTTAAGTTATGT
* * *
27549860 ATTATGTAAGTTTATATAAGTTAATATGTAAGTAATGT
1 ATTATGTAAG-TTATGTAAGCT-AT-T-TAAGTTATGT
27549898 ATTATGTAAGTT
1 ATTATGTAAGTT
27549910 TATATAAAAA
Statistics
Matches: 175, Mismatches: 25, Indels: 41
0.73 0.10 0.17
Matches are distributed among these distances:
32 6 0.03
33 9 0.05
34 71 0.41
35 37 0.21
36 24 0.14
37 8 0.05
38 20 0.11
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.46
Consensus pattern (34 bp):
ATTATGTAAGTTATGTAAGCTATTTAAGTTATGT
Found at i:27549767 original size:18 final size:18
Alignment explanation
Indices: 27549650--27549909 Score: 174
Period size: 16 Copynumber: 14.9 Consensus size: 18
27549640 TATGTATTAA
*
27549650 GTAAATTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
27549668 GTACA-TGTA--TAAGTTAT
1 GTA-AGT-TATGTAAGTTAT
*
27549685 GTAAGTTATGT-A-TTAA
1 GTAAGTTATGTAAGTTAT
* * *
27549701 GTAAGCTATTTAAGTTGT
1 GTAAGTTATGTAAGTTAT
27549719 GT-A-TTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
** *
27549735 GTAAGTTATCAAAGTAAT
1 GTAAGTTATGTAAGTTAT
*
27549753 GTATGTTATGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
*
27549769 GTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAG--TTAT
*
27549788 GTAGGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
27549806 GTAAGTTTTGT-A-TTAT
1 GTAAGTTATGTAAGTTAT
*
27549822 GTAAGTTGTGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* * *
27549840 GTATGCTATGTAAGTAAT
1 GTAAGTTATGTAAGTTAT
27549858 GT-A-TTATGTAAGTTTAT
1 GTAAGTTATGTAAG-TTAT
* *
27549875 ATAAGTTAATATGTAAGTAAT
1 GTAAG-T--TATGTAAGTTAT
27549896 GT-A-TTATGTAAGTT
1 GTAAGTTATGTAAGTT
27549910 TATATAAAAA
Statistics
Matches: 187, Mismatches: 33, Indels: 46
0.70 0.12 0.17
Matches are distributed among these distances:
15 3 0.02
16 67 0.36
17 22 0.12
18 66 0.35
19 12 0.06
20 5 0.03
21 4 0.02
22 8 0.04
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:27549786 original size:87 final size:87
Alignment explanation
Indices: 27549690--27549854 Score: 199
Period size: 87 Copynumber: 1.9 Consensus size: 87
27549680 GTTATGTAAG
* *
27549690 TTATGTATTAAGTAAGCTATTTAAGTTGTGT-A-TTATGTAAGTTATGTAAGTTATCAAAGTAAT
1 TTATGTATTAAGTAAGCTATGTAAGTTATGTAAGTTATGT-A-TTATGTAAGTTATCAAAGTAAT
*
27549753 GTATGTTATGTAAGTTGTAAGTTA
64 GTATGCTATGTAAGTTGTAAGTTA
* * * * * ** *
27549777 TTATGTATTATGTAGGTTATGTAAGTTATGTAAGTTTTGTATTATGTAAGTTGTGTAAGTTATGT
1 TTATGTATTAAGTAAGCTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATCAAAGTAATGT
27549842 ATGCTATGTAAGT
66 ATGCTATGTAAGT
27549855 AATGTATTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
87 58 0.89
88 2 0.03
89 5 0.08
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (87 bp):
TTATGTATTAAGTAAGCTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATCAAAGTAATGT
ATGCTATGTAAGTTGTAAGTTA
Found at i:27549800 original size:62 final size:63
Alignment explanation
Indices: 27549718--27549871 Score: 170
Period size: 62 Copynumber: 2.4 Consensus size: 63
27549708 ATTTAAGTTG
27549718 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG-T-TGTAAGTTAT-TA
1 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTA--TTATGTAAGTTGTGTAAGTTATGTA
* ** **
27549780 TGTATTATGTAGGTTATGTAAGTTATGTAAGTTTTGTATTATGTAAGTTGTGTAAGTTATGTA
1 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATTATGTAAGTTGTGTAAGTTATGTA
*
27549843 TGCTATGTAAGTAATGTATTATGTAAGTT
1 TG-TAT-TATGTAA-G--TTATGTAAGTT
27549872 TATATAAGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
60 9 0.12
61 1 0.01
62 43 0.56
63 4 0.05
64 3 0.04
65 5 0.06
66 1 0.01
68 11 0.14
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (63 bp):
TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATTATGTAAGTTGTGTAAGTTATGTA
Done.