Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 356 of 362
Found at i:117700531 original size:11 final size:12
Alignment explanation
Indices: 117700495--117700539 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
117700485 AAGTTTGAAC
117700495 ATATTTGTAGGA
1 ATATTTGTAGGA
117700507 ATATTCTGTA--A
1 ATATT-TGTAGGA
117700518 ATATTT-TAGGA
1 ATATTTGTAGGA
117700529 ATATTTTGTAG
1 ATA-TTTGTAG
117700540 ATATTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
9 2 0.07
10 1 0.04
11 10 0.36
12 8 0.29
13 7 0.25
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (12 bp):
ATATTTGTAGGA
Found at i:117704305 original size:22 final size:22
Alignment explanation
Indices: 117704277--117704321 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
117704267 AGGGGGAGTG
117704277 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
117704299 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
117704321 T
1 T
117704322 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:117705401 original size:13 final size:14
Alignment explanation
Indices: 117705385--117705420 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
117705375 CAATCTCATA
117705385 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
117705398 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
117705411 TCTC-ATTTCA
1 TCTCAATTTCA
117705421 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:117705410 original size:18 final size:19
Alignment explanation
Indices: 117705372--117705412 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
117705362 TGGTTCATGT
117705372 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
117705391 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
117705409 TTTC
1 TTTC
117705413 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:117705602 original size:39 final size:38
Alignment explanation
Indices: 117705535--117705669 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
117705525 ACCAATATGG
* * *
117705535 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
117705574 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
117705612 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
117705653 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
117705670 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:117705935 original size:18 final size:19
Alignment explanation
Indices: 117705909--117705947 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
117705899 TTTCAATTCA
117705909 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
117705928 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
117705946 AT
1 AT
117705948 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:117707273 original size:5 final size:5
Alignment explanation
Indices: 117707263--117707319 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
117707253 TTACTTATTT
* *
117707263 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
117707311 ATAT- ATATA
1 ATATA ATATA
117707320 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:117707279 original size:12 final size:12
Alignment explanation
Indices: 117707262--117707317 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
117707252 TTTACTTATT
117707262 TATATAATATAA
1 TATATAATATAA
117707274 TATATAATATAATA
1 TATATAATAT-A-A
117707288 TACTATAATATAA
1 TA-TATAATATAA
*
117707301 TA-ATAATTTAA
1 TATATAATATAA
117707312 TATATA
1 TATATA
117707318 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:117707332 original size:26 final size:26
Alignment explanation
Indices: 117707264--117707319 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
117707254 TACTTATTTA
*
117707264 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
117707291 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
117707316 TATA
1 TATA
117707320 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:117714624 original size:7 final size:7
Alignment explanation
Indices: 117714612--117714663 Score: 77
Period size: 7 Copynumber: 7.1 Consensus size: 7
117714602 TCTCTCTCTC
117714612 TCTGTTT
1 TCTGTTT
117714619 TCTGTTT
1 TCTGTTT
117714626 TCTGTTT
1 TCTGTTT
117714633 TCTGTTT
1 TCTGTTT
117714640 TCTGTTT
1 TCTGTTT
*
117714647 TCCTTTTTT
1 T-C-TGTTT
117714656 TCTGTTT
1 TCTGTTT
117714663 T
1 T
117714664 ATTTCCTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
7 34 0.83
8 2 0.05
9 5 0.12
ACGTcount: A:0.00, C:0.15, G:0.12, T:0.73
Consensus pattern (7 bp):
TCTGTTT
Found at i:117716626 original size:27 final size:27
Alignment explanation
Indices: 117716596--117716650 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
117716586 ATTTATAAAG
117716596 TAAAACACCAAATAATGTTGTAAATTT
1 TAAAACACCAAATAATGTTGTAAATTT
117716623 TAAAACACCAAATAATGTTGTAAATTT
1 TAAAACACCAAATAATGTTGTAAATTT
117716650 T
1 T
117716651 TAGTATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (27 bp):
TAAAACACCAAATAATGTTGTAAATTT
Found at i:117717796 original size:10 final size:10
Alignment explanation
Indices: 117717781--117717812 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
117717771 CCTTAAATGG
117717781 TCAACCCAAC
1 TCAACCCAAC
117717791 TCAACCCAAC
1 TCAACCCAAC
117717801 TCAACCCAAC
1 TCAACCCAAC
117717811 TC
1 TC
117717813 TCCTCTCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.38, C:0.50, G:0.00, T:0.12
Consensus pattern (10 bp):
TCAACCCAAC
Found at i:117723572 original size:24 final size:24
Alignment explanation
Indices: 117723521--117723588 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 24
117723511 CTTTTTCCTT
* *
117723521 GTTTTTA-ATTTTTATATATTT-TA
1 GTTTTTATAATTTAATAT-TTTATA
117723544 G-TTTTATAATTTAATATTTTATA
1 GTTTTTATAATTTAATATTTTATA
*
117723567 GTTTTTGTAATTTAAT-TTTTAT
1 GTTTTTATAATTTAATATTTTAT
117723589 TTCATAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 8 0.21
23 18 0.46
24 13 0.33
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (24 bp):
GTTTTTATAATTTAATATTTTATA
Found at i:117724877 original size:30 final size:30
Alignment explanation
Indices: 117724820--117724878 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
117724810 CTCATTCAAC
* * *
117724820 TAATTTTTTTATATATATTTTAATACATTT
1 TAATTTTATTATACATACTTTAATACATTT
* *
117724850 TAATTTTATTATGCATACTTTATTACATT
1 TAATTTTATTATACATACTTTAATACATT
117724879 CATTAGTTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (30 bp):
TAATTTTATTATACATACTTTAATACATTT
Found at i:117726083 original size:17 final size:19
Alignment explanation
Indices: 117726063--117726103 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
117726053 ATAATTTTAG
*
117726063 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
117726080 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
117726098 AAAATA
1 AAAATA
117726104 AATATTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:117726221 original size:30 final size:30
Alignment explanation
Indices: 117726186--117726247 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
117726176 CTTAACAAGT
117726186 AAATGTCTCTAAAACAATAACAAAATTAAC
1 AAATGTCTCTAAAACAATAACAAAATTAAC
* * *
117726216 AAATGTCTTTAAAATAATAATAAAATTAAC
1 AAATGTCTCTAAAACAATAACAAAATTAAC
117726246 AA
1 AA
117726248 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGTCTCTAAAACAATAACAAAATTAAC
Found at i:117726839 original size:335 final size:339
Alignment explanation
Indices: 117726216--117726841 Score: 800
Period size: 340 Copynumber: 1.8 Consensus size: 339
117726206 CAAAATTAAC
* * *
117726216 AAATGTCTTTAAAATAATAATAAAATTAACAATAAAATAAGTTTTATATAATATCCAGATAATAA
1 AAATGTCTTTAAAATAATAACAAAATTAACAATAAAACAAGTTTTATACAATATCC----AATAA
* * * * * *
117726281 CGACAAAATAATAGTAACATAATATTAAAATAGTAGCAAAATAGGGAGAAAATAACAAGAAAATA
62 CAACAAAATAATAATAACATAATAGTAAAATAGTAGCAAAATAGAGAGAAAAAAACAAGAAAAAA
* **
117726346 ATATTAAAAAACTTAAATTTTTTTTGTCCTTTAGTGAATTCATGCCAGGCCGGGGCTGGGCCAAA
127 ATATTAAAAAACATAAATTTTTTTTGTCCTTTAGTGAATT-ATG-C-GGCCGAAGCTGGGCCAAA
* * *** *
117726411 AATGTCTTACCCGAGGCCCGTTTGTTTTTAAATGGGCCTTATTTTTTTGTCCAAACTCATTTTTC
189 AATGCCTTACCCGAGCCCCCCATGTTTTTAAATGGACCTTATTTTTTTGTCCAAACTCATTTTTC
* * *
117726476 GAGCCTATATTTTTGCCCAAATCCTCCCACATTTTGGGCGGGCATTCACCTCTAAATAAAATTAA
254 GAACCTATATTTTTACCCAAACCCTCCCACATTTTGGGCGGGCATTCACCTCTAAATAAAATTAA
117726541 GATAGATACAACTTAACAAGT
319 GATAGATACAACTTAACAAGT
*
117726562 AAATGTCTTTAAAATAATAACAAAATTAACAATAAAACAAGTTTTATACAATATCC-A-AACAAT
1 AAATGTCTTTAAAATAATAACAAAATTAACAATAAAACAAGTTTTATACAATATCCAATAACAAC
* * *
117726625 AAAATAGTAATAACATAATAGTAACATAGTAGCAAAATAGAGAGAAAAAAATAAGAAAAAAATAT
66 AAAATAATAATAACATAATAGTAAAATAGTAGCAAAATAGAGAGAAAAAAACAAGAAAAAAATAT
* *
117726690 TAAAAAA-ATAGA-TTTTTTTGTCCTTTAGTGGATT-TG-GGCC-AAGCTCGGGCCAAAAATGCC
131 TAAAAAACATAAATTTTTTTTGTCCTTTAGTGAATTATGCGGCCGAAGCT-GGGCCAAAAATGCC
** * * *
117726750 TTACTTGAAGCCCAACCCAT-TTTTTAAATGGATCTTATTTTTTTGTCCAAGCTCATTTTTTGAA
195 TTACCCG-AGCCC--CCCATGTTTTTAAATGGACCTTATTTTTTTGTCCAAACTCATTTTTCGAA
*
117726814 CCTATATTTTTATCCAAACCCTCCCACA
257 CCTATATTTTTACCCAAACCCTCCCACA
117726842 GTTCGGGCAG
Statistics
Matches: 243, Mismatches: 33, Indels: 19
0.82 0.11 0.06
Matches are distributed among these distances:
332 3 0.01
333 22 0.09
334 4 0.02
335 64 0.26
336 4 0.02
338 21 0.09
339 3 0.01
340 68 0.28
341 1 0.00
346 53 0.22
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (339 bp):
AAATGTCTTTAAAATAATAACAAAATTAACAATAAAACAAGTTTTATACAATATCCAATAACAAC
AAAATAATAATAACATAATAGTAAAATAGTAGCAAAATAGAGAGAAAAAAACAAGAAAAAAATAT
TAAAAAACATAAATTTTTTTTGTCCTTTAGTGAATTATGCGGCCGAAGCTGGGCCAAAAATGCCT
TACCCGAGCCCCCCATGTTTTTAAATGGACCTTATTTTTTTGTCCAAACTCATTTTTCGAACCTA
TATTTTTACCCAAACCCTCCCACATTTTGGGCGGGCATTCACCTCTAAATAAAATTAAGATAGAT
ACAACTTAACAAGT
Found at i:117729657 original size:42 final size:43
Alignment explanation
Indices: 117729598--117729690 Score: 122
Period size: 42 Copynumber: 2.2 Consensus size: 43
117729588 GCTGGTTAAC
* *
117729598 AAGTGTTTGTGGAAATGTCA-C-TGAGGTTAATATA-ATCAATAA
1 AAGTGTTTGTGAAAATGTCACCGTGA-GTT-ATAAAGATCAATAA
117729640 AAGTGTTTGTGAAAATGTCACCGTGAGTTATAAAGATCAATAA
1 AAGTGTTTGTGAAAATGTCACCGTGAGTTATAAAGATCAATAA
117729683 AA-TGTTTG
1 AAGTGTTTG
117729691 CTACTGCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
42 29 0.63
43 14 0.30
44 3 0.07
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.33
Consensus pattern (43 bp):
AAGTGTTTGTGAAAATGTCACCGTGAGTTATAAAGATCAATAA
Found at i:117737729 original size:191 final size:191
Alignment explanation
Indices: 117737405--117737812 Score: 565
Period size: 191 Copynumber: 2.1 Consensus size: 191
117737395 ACCTTCAGAT
* *
117737405 GTTCAAAGGCCAAAATGAACCTACTTGTCACATTCAAGTACCAAAGTGAACCTAATTACCATAAA
1 GTTCAAAGACCAAAATGAACCTAATTGTCACATTCAAGTACCAAAGTGAACCTAATTACCATAAA
* * **
117737470 ATTGACAACTAAATCCATTTTGATCCTTGCAATTAACAAATGTATACGTTCAATGACGTAACACT
66 ATTGACAACTAAATCCATTTTGATCCTTGAAATTAACAAATGCATAAATTCAATGACGTAACACT
* *
117737535 ATAAGATTGTACC-CTGTCATCACCTTTAGGTGTCACATTATCAAACTTTGATGAAATACAA
131 ATAAGATTGTACCAGT-TCATCACCTTTAGGAGTCACATTATCAAACTTTGATGAAATACAA
* * *
117737596 GTTCAAAGACCAAAATGAGCCTAATTGTCA-AGTTC-AGATACCAAAGTGAACCTACTTGCCAT-
1 GTTCAAAGACCAAAATGAACCTAATTGTCACA-TTCAAG-TACCAAAGTGAACCTAATTACCATA
* * * *
117737658 AAATGTGACAACTAAATCCATTTTGA-CACTTGAAATTGACAAATGCATAAATTTAATGATGTGA
64 AAAT-TGACAACTAAATCCATTTTGATC-CTTGAAATTAACAAATGCATAAATTCAATGACGTAA
* *
117737722 CACTATAAGATTGTACCAGTTCATCACCTTTAGGAGTCACATTATCAAATTTTGATGAAATTCAA
127 CACTATAAGATTGTACCAGTTCATCACCTTTAGGAGTCACATTATCAAACTTTGATGAAATACAA
* *
117737787 GTTCAAACACCAAAATGAACATAATT
1 GTTCAAAGACCAAAATGAACCTAATT
117737813 ACCATAAACT
Statistics
Matches: 192, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
190 8 0.04
191 183 0.95
192 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (191 bp):
GTTCAAAGACCAAAATGAACCTAATTGTCACATTCAAGTACCAAAGTGAACCTAATTACCATAAA
ATTGACAACTAAATCCATTTTGATCCTTGAAATTAACAAATGCATAAATTCAATGACGTAACACT
ATAAGATTGTACCAGTTCATCACCTTTAGGAGTCACATTATCAAACTTTGATGAAATACAA
Found at i:117737888 original size:160 final size:160
Alignment explanation
Indices: 117737623--117737920 Score: 406
Period size: 160 Copynumber: 1.9 Consensus size: 160
117737613 AGCCTAATTG
* * * * * *
117737623 TCAAGTTCAGATACCAAAGTGAACCTACTTGCCATAAATGTGACAACTAAATCCATTTTGACACT
1 TCAAGTTCAAACACCAAAATGAACATAATTACCATAAATGTGACAACTAAATCCATTTTGACACT
* * **
117737688 TGAAATTGACAAATGCATAAATTTAATGATGTGACACTATAAGATTGTACCA-GTTCATCACCTT
66 TCAAATTGACAAATGCATAAATTAAATGACATGACACTATAAGATTGTACCATG-TCATCACCTT
117737752 TAGGAGTCACATTATCAAATTTTGATGAAAT
130 TAGGAGTCACATTATCAAATTTTGATGAAAT
117737783 TCAAGTTCAAACACCAAAATGAACATAATTACCATAAACT-TGACAACTAAATCCATTTTGATC-
1 TCAAGTTCAAACACCAAAATGAACATAATTACCATAAA-TGTGACAACTAAATCCATTTTGA-CA
* * *
117737846 C-TCAAATTTGACAAATGTATAAGTTAAATGACATGGCACTATAAGATTGTACCATGTCATCACC
64 CTTCAAA-TTGACAAATGCATAAATTAAATGACATGACACTATAAGATTGTACCATGTCATCACC
*
117737910 TTTAGGTGTCA
128 TTTAGGAGTCA
117737921 GTTATCTTCA
Statistics
Matches: 120, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
159 4 0.03
160 113 0.94
161 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (160 bp):
TCAAGTTCAAACACCAAAATGAACATAATTACCATAAATGTGACAACTAAATCCATTTTGACACT
TCAAATTGACAAATGCATAAATTAAATGACATGACACTATAAGATTGTACCATGTCATCACCTTT
AGGAGTCACATTATCAAATTTTGATGAAAT
Found at i:117739738 original size:13 final size:13
Alignment explanation
Indices: 117739722--117739748 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
117739712 TGATATCTAA
117739722 ATTTGATAAAAAT
1 ATTTGATAAAAAT
117739735 ATTTGATAAAAAT
1 ATTTGATAAAAAT
117739748 A
1 A
117739749 AAGTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
ATTTGATAAAAAT
Found at i:117739786 original size:17 final size:17
Alignment explanation
Indices: 117739766--117739798 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
117739756 ATAAATGCAA
117739766 TATCTAAATATAAATAG
1 TATCTAAATATAAATAG
*
117739783 TATCTAAATATTAATA
1 TATCTAAATATAAATA
117739799 TGGTGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
TATCTAAATATAAATAG
Found at i:117741670 original size:3 final size:3
Alignment explanation
Indices: 117741662--117741710 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
117741652 TAAATACATG
117741662 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
117741710 A
1 A
117741711 AAGGAGTATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:117742337 original size:13 final size:14
Alignment explanation
Indices: 117742306--117742337 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
117742296 ATTCGTGATA
117742306 TAAATTTAATATTG
1 TAAATTTAATATTG
117742320 T-AATTTAATATT-
1 TAAATTTAATATTG
117742332 TAAATT
1 TAAATT
117742338 ATTATTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.06
13 15 0.88
14 1 0.06
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TAAATTTAATATTG
Found at i:117751679 original size:23 final size:23
Alignment explanation
Indices: 117751621--117751679 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
117751611 TTAATCACTC
* *
117751621 AATTTAAAAATGATTAAAAATATT
1 AATTTAAAAA-AATAAAAAATATT
** * *
117751645 TTTTTTATAAAATAAAAAATATT
1 AATTTAAAAAAATAAAAAATATT
117751668 AATTTAAAAAAA
1 AATTTAAAAAAA
117751680 GTATTTTTAT
Statistics
Matches: 25, Mismatches: 10, Indels: 1
0.69 0.28 0.03
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AATTTAAAAAAATAAAAAATATT
Found at i:117752516 original size:18 final size:19
Alignment explanation
Indices: 117752495--117752534 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
117752485 AAAAACTAAA
*
117752495 AAATCTTTAAA-AATATAT
1 AAATCTATAAAGAATATAT
*
117752513 AAATCTATAAAGTATATAT
1 AAATCTATAAAGAATATAT
117752532 AAA
1 AAA
117752535 AGCTCAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (19 bp):
AAATCTATAAAGAATATAT
Found at i:117758077 original size:17 final size:16
Alignment explanation
Indices: 117758055--117758097 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 16
117758045 TATAAAAAAA
117758055 TAAAAAATATAATTATTT
1 TAAAAAATATAA-T-TTT
117758073 TAAAAAA-ATAATTTT
1 TAAAAAATATAATTTT
117758088 TAAAAAATAT
1 TAAAAAATAT
117758098 CTACGTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.42
16 3 0.12
17 4 0.17
18 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAAAATATAATTTT
Found at i:117760409 original size:2 final size:2
Alignment explanation
Indices: 117760404--117760437 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
117760394 TGAATTGGGA
*
117760404 AT AT AT AT AT AT AT AA AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117760438 AAACACATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:117776962 original size:3 final size:3
Alignment explanation
Indices: 117776954--117776982 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
117776944 AGCTTGAGAT
117776954 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
117776983 GTCCAAGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:117778496 original size:2 final size:2
Alignment explanation
Indices: 117778491--117778517 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
117778481 TGAGATTGTA
117778491 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
117778518 AATTAATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:117785317 original size:29 final size:30
Alignment explanation
Indices: 117785266--117785347 Score: 112
Period size: 29 Copynumber: 2.7 Consensus size: 30
117785256 AGAATTGAAT
*
117785266 CAAATCAAAATTTCATATATAAAATTACTTA
1 CAAATCAAAA-TTCATATATAAAATTACATA
*
117785297 C-AATCAAAATTCATATGTAAAATTACATA
1 CAAATCAAAATTCATATATAAAATTACATA
*
117785326 CTAAACCAAAATTCATATATAA
1 C-AAATCAAAATTCATATATAA
117785348 TTTTGAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 19 0.42
30 8 0.18
31 18 0.40
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (30 bp):
CAAATCAAAATTCATATATAAAATTACATA
Found at i:117790767 original size:29 final size:29
Alignment explanation
Indices: 117790705--117790767 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
117790695 CCCCCAATTT
**
117790705 AAAAATAAATTAAAAAAAGTATTAATTTT
1 AAAAATAAATTAAAAAAAGTATTAATTGG
* **
117790734 TAAAATAAATTTTAAAAAGTATTAATTGG
1 AAAAATAAATTAAAAAAAGTATTAATTGG
117790763 AAAAA
1 AAAAA
117790768 AAGTTGTGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (29 bp):
AAAAATAAATTAAAAAAAGTATTAATTGG
Found at i:117790948 original size:30 final size:30
Alignment explanation
Indices: 117790914--117790975 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
117790904 AGAGTGGAGT
117790914 AAGAAATTTTATTTAGAAGATGGAGATAAA
1 AAGAAATTTTATTTAGAAGATGGAGATAAA
117790944 AAGAAATTTTATTTAGAAGATGGAGATAAA
1 AAGAAATTTTATTTAGAAGATGGAGATAAA
117790974 AA
1 AA
117790976 AATAACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (30 bp):
AAGAAATTTTATTTAGAAGATGGAGATAAA
Found at i:117802135 original size:53 final size:53
Alignment explanation
Indices: 117802077--117802183 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
117802067 TAATATTGTG
*
117802077 AAAATTTTACTCGAGATTAAATTCGATTCTAAATTTAATTAAGATTTAATGTA
1 AAAATTTTACTCGAGATTAAATTCGATTCTAAATTTAATTAAGATGTAATGTA
117802130 AAAATTTTACTCGAGATTAAATTCGATTCTAAATTTAATTAAGATGTAATGTA
1 AAAATTTTACTCGAGATTAAATTCGATTCTAAATTTAATTAAGATGTAATGTA
117802183 A
1 A
117802184 TTATAATTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (53 bp):
AAAATTTTACTCGAGATTAAATTCGATTCTAAATTTAATTAAGATGTAATGTA
Found at i:117804603 original size:19 final size:19
Alignment explanation
Indices: 117804579--117804615 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
117804569 TATTATTAAT
*
117804579 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
117804598 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
117804616 TTAATATTGA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:117804738 original size:22 final size:22
Alignment explanation
Indices: 117804698--117804753 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
117804688 AATAAAATTG
*
117804698 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
117804718 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
117804740 TATTAATAATTTAT
1 AAATAATAAATTAT
117804754 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:117808653 original size:21 final size:21
Alignment explanation
Indices: 117808629--117808687 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
117808619 GACACATAAA
*
117808629 GTGCTTAAAACGACATACGAG
1 GTGCCTAAAACGACATACGAG
* * *
117808650 GTGCCTGATACGATATACGAG
1 GTGCCTAAAACGACATACGAG
117808671 GTGCCTGAAATACGACA
1 GTGCCT-AAA-ACGACA
117808688 CAAAGTGCCT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 23 0.79
22 1 0.03
23 5 0.17
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (21 bp):
GTGCCTAAAACGACATACGAG
Found at i:117809119 original size:15 final size:15
Alignment explanation
Indices: 117809064--117809121 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
117809054 ATATATATAT
117809064 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
*
117809080 TATAAATTTAATCAA
1 TATAAATTCAATCAA
* *
117809095 AATAATTTCAATCAA
1 TATAAATTCAATCAA
117809110 TATAAATTCAAT
1 TATAAATTCAAT
117809122 AAATTCATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:117810399 original size:5 final size:5
Alignment explanation
Indices: 117810391--117810417 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
117810381 TTTAGTTTAT
117810391 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
117810418 TAAATCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:117810453 original size:8 final size:8
Alignment explanation
Indices: 117810440--117810468 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
117810430 TATCTTTATT
117810440 ATATAATA
1 ATATAATA
117810448 ATATAATA
1 ATATAATA
117810456 ATATAATA
1 ATATAATA
117810464 ATATA
1 ATATA
117810469 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:117814359 original size:45 final size:45
Alignment explanation
Indices: 117814273--117814381 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
117814263 ACAAATTCGG
* *
117814273 AACAGTAACAAG-AACAATATTCAACACACAAAGTGCTGAATCGAT
1 AACAGTAAC-AGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
* * * *
117814318 AACGGTAATAGTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
*
117814363 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
117814382 ACAGTAGTCG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 2 0.04
45 52 0.96
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
Found at i:117814376 original size:12 final size:12
Alignment explanation
Indices: 117814359--117814383 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
117814349 AGTGCCGAAT
117814359 CGGTAACAGTAA
1 CGGTAACAGTAA
117814371 CGGTAACAGTAA
1 CGGTAACAGTAA
117814383 C
1 C
117814384 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:117816162 original size:31 final size:32
Alignment explanation
Indices: 117816106--117816168 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
117816096 TACACTTGTC
*
117816106 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
117816138 ATAATATAA-ATATTTAATTA-ATAAAAATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
117816169 TTATAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:117831242 original size:11 final size:11
Alignment explanation
Indices: 117831228--117831264 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
117831218 AAATTGTGAT
117831228 AAAACAACAAG
1 AAAACAACAAG
* *
117831239 AAAATAACAAC
1 AAAACAACAAG
117831250 AAAACAACAAG
1 AAAACAACAAG
117831261 AAAA
1 AAAA
117831265 TGGTAAATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.76, C:0.16, G:0.05, T:0.03
Consensus pattern (11 bp):
AAAACAACAAG
Found at i:117836639 original size:25 final size:25
Alignment explanation
Indices: 117836594--117836642 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
117836584 AAGGTTTGTA
*
117836594 ATACGTGAAAGAATTTCTTAAAACT
1 ATACGTGAAAGAATTTATTAAAACT
*
117836619 ATACGTGAAA-TATTTAATTAAAAC
1 ATACGTGAAAGAATTT-ATTAAAAC
117836643 ATGAAACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (25 bp):
ATACGTGAAAGAATTTATTAAAACT
Found at i:117837242 original size:28 final size:27
Alignment explanation
Indices: 117837175--117837242 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
117837165 AATATAAAAT
*
117837175 ATTTATTTTTATATAAAAATTAAAATTA
1 ATTTA-TTTTAAATAAAAATTAAAATTA
*
117837203 ATTATATATTAAATAAAAA-TAAAATTTA
1 ATT-TATTTTAAATAAAAATTAAAA-TTA
*
117837231 GTTTAGTTTTAA
1 ATTTA-TTTTAA
117837243 GTAACCACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 7 0.21
28 24 0.73
29 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
ATTTATTTTAAATAAAAATTAAAATTA
Found at i:117840658 original size:3 final size:3
Alignment explanation
Indices: 117840650--117840737 Score: 56
Period size: 3 Copynumber: 29.0 Consensus size: 3
117840640 TTTTTTATAT
* * * *
117840650 TTA TTA TTA TTA -TG TTA TTTA TTG TTA TTA TTA -CA TTT TTA TGTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * *
117840695 TATA ATA TT- TATA TTA TTA CTA CTA TTA TTA TTA TTA TTA TTA
1 T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
117840738 GCATATTTCT
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
2 3 0.05
3 54 0.82
4 9 0.14
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:117840775 original size:16 final size:16
Alignment explanation
Indices: 117840754--117840785 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
117840744 TTCTCAATTA
117840754 ATACTTACATATATAT
1 ATACTTACATATATAT
*
117840770 ATACTTTCATATATAT
1 ATACTTACATATATAT
117840786 TTATAGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (16 bp):
ATACTTACATATATAT
Found at i:117840955 original size:24 final size:25
Alignment explanation
Indices: 117840928--117840989 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
117840918 ATATATCATC
117840928 TTATGTATATATTCTTAAATA-C-TA
1 TTATGTATATATT-TTAAATACCATA
* *
117840952 TTATATATATATTTTTAATACCATA
1 TTATGTATATATTTTAAATACCATA
*
117840977 TTGTGTATATATT
1 TTATGTATATATT
117840990 ATTATTACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 6 0.19
24 13 0.41
25 13 0.41
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.53
Consensus pattern (25 bp):
TTATGTATATATTTTAAATACCATA
Found at i:117841175 original size:16 final size:17
Alignment explanation
Indices: 117841135--117841178 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
117841125 GCTTTTGTAT
117841135 TTTA-ATATTATTATTA
1 TTTATATATTATTATTA
117841151 TTTAT-TATTATT-TT-
1 TTTATATATTATTATTA
117841165 TTGTATATATTATT
1 TT-TATATATTATT
117841179 CATACTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.08
15 5 0.20
16 18 0.72
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTATATATTATTATTA
Found at i:117841378 original size:17 final size:17
Alignment explanation
Indices: 117841356--117841405 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 17
117841346 CTATTATTAC
117841356 ATATTATTTTATTTTTA
1 ATATTATTTTATTTTTA
*
117841373 ATATTATTAAATTATTTTTT
1 ATATTATT---TTATTTTTA
*
117841393 ATATTCTTTTATT
1 ATATTATTTTATT
117841406 ATCATTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 13 0.46
20 15 0.54
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
ATATTATTTTATTTTTA
Found at i:117841392 original size:27 final size:27
Alignment explanation
Indices: 117841340--117841394 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
117841330 ATATTTACCC
* *
117841340 TTTTTACTATTATTACATATTATTTTA
1 TTTTTAATATTATTAAATATTATTTTA
117841367 TTTTTAATATTATTAAATTATT-TTTTA
1 TTTTTAATATTATTAAA-TATTATTTTA
117841394 T
1 T
117841395 ATTCTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTTAATATTATTAAATATTATTTTA
Found at i:117841474 original size:28 final size:24
Alignment explanation
Indices: 117841443--117841505 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 24
117841433 ATACATATAC
117841443 ATATATATTTTGTACATATCATTATTTT
1 ATATATATTTTGTA-A-AT-ATT-TTTT
117841471 ATAT-TATTGTTGTAAATATTTTTT
1 ATATATATT-TTGTAAATATTTTTT
117841495 ATATATATTTT
1 ATATATATTTT
117841506 ATGTACATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
24 10 0.30
25 7 0.21
26 2 0.06
27 5 0.15
28 9 0.27
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (24 bp):
ATATATATTTTGTAAATATTTTTT
Found at i:117842898 original size:34 final size:34
Alignment explanation
Indices: 117842855--117842922 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
117842845 TCAGCAAAGG
117842855 ACTTAATAAATAGTATAGATAAAAATAATTTATT
1 ACTTAATAAATAGTATAGATAAAAATAATTTATT
117842889 ACTTAATAAATAGTATAGATAAAAATAATTTATT
1 ACTTAATAAATAGTATAGATAAAAATAATTTATT
117842923 TCTTTTGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (34 bp):
ACTTAATAAATAGTATAGATAAAAATAATTTATT
Found at i:117845343 original size:38 final size:38
Alignment explanation
Indices: 117845291--117845367 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
117845281 CGAATGGAGT
117845291 TAAGCTCGCAAGAGCTAACAGCTATTGTAGTTAATCAG
1 TAAGCTCGCAAGAGCTAACAGCTATTGTAGTTAATCAG
*
117845329 TAAGCTCGCGAGAGCTAACAGCTATTGTAGTTAATCAG
1 TAAGCTCGCAAGAGCTAACAGCTATTGTAGTTAATCAG
117845367 T
1 T
117845368 GCGGGATCGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (38 bp):
TAAGCTCGCAAGAGCTAACAGCTATTGTAGTTAATCAG
Found at i:117850674 original size:21 final size:20
Alignment explanation
Indices: 117850650--117850689 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
117850640 ATAAAAGAAT
*
117850650 AATATATTAATATTTTATTAA
1 AATATATTAA-AATTTATTAA
*
117850671 AATATTTTAAAATTTATTA
1 AATATATTAAAATTTATTA
117850690 CATTTTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATATTAAAATTTATTAA
Found at i:117854324 original size:17 final size:17
Alignment explanation
Indices: 117854302--117854335 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
117854292 TTGACCTGGA
*
117854302 TTTTTAATATTTTTTAT
1 TTTTTAAAATTTTTTAT
117854319 TTTTTAAAATTTTTTAT
1 TTTTTAAAATTTTTTAT
117854336 GATTTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTAAAATTTTTTAT
Found at i:117855337 original size:19 final size:19
Alignment explanation
Indices: 117855315--117855354 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
117855305 ATCAAATGAC
*
117855315 TTTAAATT-ATTGCTTGAAT
1 TTTAAATTGATT-CTTAAAT
117855334 TTTAAATTGATTCTTAAAT
1 TTTAAATTGATTCTTAAAT
117855353 TT
1 TT
117855355 CAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTAAATTGATTCTTAAAT
Found at i:117856190 original size:62 final size:60
Alignment explanation
Indices: 117856085--117856206 Score: 181
Period size: 62 Copynumber: 2.0 Consensus size: 60
117856075 AAAGTATAAT
* * *
117856085 TTTACAGAAAATAATTTGTAATTTTATCAGGAGACTGAGAAACAAAGTTCCAGGCTGTGC
1 TTTACAGAAAATAATTTGTAATATTATCAGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
* *
117856145 TTTACAGAAAATAATATTTTTAATATTATCGGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
1 TTTACAGAAAAT-A-ATTTGTAATATTATCAGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
117856207 CCAAAATCAC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 12 0.22
61 1 0.02
62 42 0.76
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (60 bp):
TTTACAGAAAATAATTTGTAATATTATCAGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
Found at i:117858659 original size:38 final size:38
Alignment explanation
Indices: 117858607--117858683 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
117858597 CGAATGGAGT
117858607 TAAGCTCGCAAGAGCTAACAGCTATTGTAGTTAATCAG
1 TAAGCTCGCAAGAGCTAACAGCTATTGTAGTTAATCAG
*
117858645 TAAGCTCGCGAGAGCTAACAGCTATTGTAGTTAATCAG
1 TAAGCTCGCAAGAGCTAACAGCTATTGTAGTTAATCAG
117858683 T
1 T
117858684 GCGGGATCGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (38 bp):
TAAGCTCGCAAGAGCTAACAGCTATTGTAGTTAATCAG
Found at i:117859599 original size:33 final size:33
Alignment explanation
Indices: 117859557--117859625 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
117859547 AAATATAATT
* *
117859557 AAGTAATTTTGGATTTTTGGGTTTTTTTTTACA
1 AAGTAATTTTGGATTTTTGGGTTTATTTTGACA
* **
117859590 AAGTGATTTTTTATTTTTGGGTTTATTTTGACA
1 AAGTAATTTTGGATTTTTGGGTTTATTTTGACA
117859623 AAG
1 AAG
117859626 CAAACTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.03, G:0.19, T:0.55
Consensus pattern (33 bp):
AAGTAATTTTGGATTTTTGGGTTTATTTTGACA
Found at i:117862968 original size:16 final size:16
Alignment explanation
Indices: 117862935--117862968 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
117862925 AGGGAGTGTT
* *
117862935 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
117862951 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
117862967 AA
1 AA
117862969 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:117865791 original size:21 final size:21
Alignment explanation
Indices: 117865765--117865805 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
117865755 AGACGAGCAA
* *
117865765 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
117865786 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
117865806 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:117867744 original size:16 final size:16
Alignment explanation
Indices: 117867711--117867744 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
117867701 GGAGATTGTT
* *
117867711 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
117867727 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
117867743 AA
1 AA
117867745 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:117869330 original size:21 final size:20
Alignment explanation
Indices: 117869306--117869345 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
117869296 ATAAAAGAAT
*
117869306 AATATATTAATATTTTATTAA
1 AATATATTAA-AATTTATTAA
*
117869327 AATATTTTAAAATTTATTA
1 AATATATTAAAATTTATTA
117869346 CATTTTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATATTAAAATTTATTAA
Found at i:117872984 original size:17 final size:17
Alignment explanation
Indices: 117872962--117872995 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
117872952 TTGACCTGGA
*
117872962 TTTTTAATATTTTTTAT
1 TTTTTAAAATTTTTTAT
117872979 TTTTTAAAATTTTTTAT
1 TTTTTAAAATTTTTTAT
117872996 GATTTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTAAAATTTTTTAT
Found at i:117873997 original size:19 final size:19
Alignment explanation
Indices: 117873975--117874014 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
117873965 ATCAAATGAC
*
117873975 TTTAAATT-ATTGCTTGAAT
1 TTTAAATTGATT-CTTAAAT
117873994 TTTAAATTGATTCTTAAAT
1 TTTAAATTGATTCTTAAAT
117874013 TT
1 TT
117874015 CAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTAAATTGATTCTTAAAT
Found at i:117874851 original size:62 final size:60
Alignment explanation
Indices: 117874746--117874867 Score: 181
Period size: 62 Copynumber: 2.0 Consensus size: 60
117874736 AAAGTATAAT
* * *
117874746 TTTACAGAAAATAATTTGTAATTTTATCAGGAGACTGAGAAACAAAGTTCCAGGCTGTGC
1 TTTACAGAAAATAATTTGTAATATTATCAGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
* *
117874806 TTTACAGAAAATAATATTTTTAATATTATCGGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
1 TTTACAGAAAAT-A-ATTTGTAATATTATCAGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
117874868 CCAAAATCAC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 12 0.22
61 1 0.02
62 42 0.76
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (60 bp):
TTTACAGAAAATAATTTGTAATATTATCAGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
Found at i:117887112 original size:15 final size:15
Alignment explanation
Indices: 117887092--117887122 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
117887082 TTCTGCTTTT
117887092 TTCTTCGTCGTCTTC
1 TTCTTCGTCGTCTTC
*
117887107 TTCTTCGTCTTCTTC
1 TTCTTCGTCGTCTTC
117887122 T
1 T
117887123 CTTGCCTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.32, G:0.10, T:0.58
Consensus pattern (15 bp):
TTCTTCGTCGTCTTC
Found at i:117887122 original size:12 final size:12
Alignment explanation
Indices: 117887092--117887122 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
117887082 TTCTGCTTTT
*
117887092 TTCTTCGTCGTC
1 TTCTTCTTCGTC
117887104 TTCTTCTTCGTC
1 TTCTTCTTCGTC
117887116 TTCTTCT
1 TTCTTCT
117887123 CTTGCCTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.32, G:0.10, T:0.58
Consensus pattern (12 bp):
TTCTTCTTCGTC
Found at i:117888739 original size:17 final size:17
Alignment explanation
Indices: 117888696--117888740 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
117888686 TTGAATTTAC
*
117888696 AAAATTATTATAAATTT
1 AAAATAATTATAAATTT
*
117888713 AAAATTATTATAAATTT
1 AAAATAATTATAAATTT
*
117888730 AAAGTAATTAT
1 AAAATAATTAT
117888741 GTTAAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAATAATTATAAATTT
Found at i:117888740 original size:20 final size:17
Alignment explanation
Indices: 117888696--117888732 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
117888686 TTGAATTTAC
117888696 AAAATTATTATAAATTT
1 AAAATTATTATAAATTT
117888713 AAAATTATTATAAATTT
1 AAAATTATTATAAATTT
117888730 AAA
1 AAA
117888733 GTAATTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATTATTATAAATTT
Found at i:117892703 original size:25 final size:25
Alignment explanation
Indices: 117892675--117892727 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
117892665 ACAAGTAATG
117892675 AAGACTCCAAACATTTTTGTTCAAC
1 AAGACTCCAAACATTTTTGTTCAAC
117892700 AAGACTCCAAACATTTTTGTTCAAC
1 AAGACTCCAAACATTTTTGTTCAAC
117892725 AAG
1 AAG
117892728 TACTTAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (25 bp):
AAGACTCCAAACATTTTTGTTCAAC
Found at i:117895243 original size:20 final size:19
Alignment explanation
Indices: 117895213--117895250 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
117895203 GATTTATAAA
117895213 ATTAAAATTAATAAAAATG
1 ATTAAAATTAATAAAAATG
*
117895232 ATTAATAATTAATTAAAAT
1 ATTAA-AATTAATAAAAAT
117895251 ATAATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
ATTAAAATTAATAAAAATG
Found at i:117895256 original size:15 final size:16
Alignment explanation
Indices: 117895235--117895270 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
117895225 AAAAATGATT
117895235 AATAATTA-ATTAAAA
1 AATAATTATATTAAAA
*
117895250 TATAATTATATTAAAA
1 AATAATTATATTAAAA
117895266 AATAA
1 AATAA
117895271 AATCCAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATTATATTAAAA
Found at i:117896263 original size:57 final size:57
Alignment explanation
Indices: 117896166--117896275 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
117896156 GTATCAAACT
* * * *
117896166 GAAAAAAACTCACATACCAATTTGAATATTGAAGTCAAACTCAAGTATTAAATTAAG
1 GAAAAAAACTCACATACCAAATTGAACATTGAACTCAAACTCAAGTACTAAATTAAG
* *
117896223 GAAAAAAGCTCA-AGTACCAAATTGAACATTGAAACT-AAACTTAAGTACTAAAT
1 GAAAAAAACTCACA-TACCAAATTGAACATTG-AACTCAAACTCAAGTACTAAAT
117896276 AGGATATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 1 0.02
57 41 0.91
58 3 0.07
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.25
Consensus pattern (57 bp):
GAAAAAAACTCACATACCAAATTGAACATTGAACTCAAACTCAAGTACTAAATTAAG
Found at i:117897697 original size:20 final size:20
Alignment explanation
Indices: 117897672--117897717 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
117897662 CTGATTTTTT
117897672 ATATTTAATAATTTTTTAAA
1 ATATTTAATAATTTTTTAAA
** *
117897692 ATATTTTTTTATTTTTTAAA
1 ATATTTAATAATTTTTTAAA
117897712 AT-TTTA
1 ATATTTA
117897718 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATATTTAATAATTTTTTAAA
Found at i:117897701 original size:31 final size:31
Alignment explanation
Indices: 117897666--117897725 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
117897656 TTTCAACTGA
117897666 TTTTTTA-TATTTAATAATTTT-TTAAAATAT
1 TTTTTTATTATTTAA-AATTTTATTAAAATAT
*
117897696 TTTTTTATTTTTTAAAATTTTATTAAAATA
1 TTTTTTATTATTTAAAATTTTATTAAAATA
117897726 ATATGTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
TTTTTTATTATTTAAAATTTTATTAAAATAT
Found at i:117901499 original size:30 final size:31
Alignment explanation
Indices: 117901449--117901509 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
117901439 CTAACACGGT
117901449 TAAATTATGATCTCAAA-TTTTAAAATATTC
1 TAAATTATGATCTCAAATTTTTAAAATATTC
* *
117901479 TAAATT-TGATCTACATATTTTTAATATATTC
1 TAAATTATGATCT-CAAATTTTTAAAATATTC
117901510 AATATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 6 0.22
30 9 0.33
31 12 0.44
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (31 bp):
TAAATTATGATCTCAAATTTTTAAAATATTC
Found at i:117902888 original size:3 final size:3
Alignment explanation
Indices: 117902880--117902904 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
117902870 ATATTTCAAC
117902880 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
117902905 CCAATGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:117903393 original size:25 final size:22
Alignment explanation
Indices: 117903362--117903419 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
117903352 ATTATATGTG
117903362 TATATATTATGTAAAATGTTTTAA
1 TATATATTATGT-AAATGTTTT-A
* *
117903386 TATTATATTATATATATGTTTTA
1 TA-TATATTATGTAAATGTTTTA
117903409 TATATATTATG
1 TATATATTATG
117903420 AACATGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 8 0.27
23 3 0.10
24 10 0.33
25 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
TATATATTATGTAAATGTTTTA
Found at i:117903426 original size:22 final size:23
Alignment explanation
Indices: 117903362--117903426 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
117903352 ATTATATGTG
117903362 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AAAATGTTTTAA
*
117903386 TATTATATTAT-ATATATGTTTT-A
1 TA-TATATTATGA-AAATGTTTTAA
*
117903409 TATATATTATGAACATGT
1 TATATATTATGAAAATGT
117903427 ATTTTCAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 13 0.36
23 5 0.14
24 10 0.28
25 8 0.22
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAAAATGTTTTAA
Found at i:117903442 original size:47 final size:46
Alignment explanation
Indices: 117903362--117903463 Score: 104
Period size: 47 Copynumber: 2.2 Consensus size: 46
117903352 ATTATATGTG
*
117903362 TATATATTATGTAAAATGTTTTAATATTATATTA-TATATATGTTTTA
1 TATATATTATGTAAAATGTTTTAATATTATATTAGT-TAAAT-TTTTA
* *
117903409 TATATATTATG-AACATGTATTTTCAATA-T-TATTAGTTAAATTTTTG
1 TATATATTATGTAAAATG--TTTT-AATATTATATTAGTTAAATTTTTA
117903455 TATATATTA
1 TATATATTA
117903464 CCCTATGTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
46 18 0.38
47 20 0.42
48 6 0.12
49 4 0.08
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (46 bp):
TATATATTATGTAAAATGTTTTAATATTATATTAGTTAAATTTTTA
Found at i:117918193 original size:43 final size:43
Alignment explanation
Indices: 117918128--117918328 Score: 140
Period size: 43 Copynumber: 4.7 Consensus size: 43
117918118 GAGAATTTCA
*
117918128 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACAC
1 GATCCTATCTCCCTGAAG-TTACAGCGGAGCAGATCGAAGACAC
* * * * * ** * * *
117918171 TATCCTATTTCCCTGAAGTTACAGTGGAACGGATTAAAATAAAG
1 GATCCTATCTCCCTGAAGTTACAGCGGAGCAGA-TCGAAGACAC
* * * * * * *
117918215 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCA-TCA-
1 GATCCTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAC
* * *
117918256 GGTCTTATCTCCTTG-AGATTACAGCGGAGCAGATCGAAGACAC
1 GATCCTATCTCCCTGAAG-TTACAGCGGAGCAGATCGAAGACAC
* *
117918299 TATCCTATCTCCCTGAAGTTACAGTGGAGC
1 GATCCTATCTCCCTGAAGTTACAGCGGAGC
117918329 GGATTAAAAT
Statistics
Matches: 113, Mismatches: 39, Indels: 12
0.69 0.24 0.07
Matches are distributed among these distances:
40 2 0.02
41 28 0.25
42 3 0.03
43 47 0.42
44 33 0.29
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (43 bp):
GATCCTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAC
Found at i:117918283 original size:128 final size:126
Alignment explanation
Indices: 117918125--117918397 Score: 465
Period size: 128 Copynumber: 2.2 Consensus size: 126
117918115 CCGGAGAATT
* *
117918125 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATTTCCCTGAAGT
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
117918190 TACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCA
66 TACAGTGGAACGGATTAAAATAAAGGATCTTA--TCTCTGAAGTTACAGCAGAGTAGACCGCA
*
117918253 TCAGGTCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
* * *
117918318 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTGAGGTTACAGCAGAGTAGATCGCA
66 TACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTGAAGTTACAGCAGAGTAGACCGCA
*
117918379 TCAAGTCTTATCTCCCTGA
1 TCAGGTCTTATCTCCCTGA
117918398 AGATGCAGTG
Statistics
Matches: 137, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
126 44 0.32
128 93 0.68
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (126 bp):
TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
TACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTGAAGTTACAGCAGAGTAGACCGCA
Found at i:117918353 original size:44 final size:43
Alignment explanation
Indices: 117918128--117918399 Score: 128
Period size: 43 Copynumber: 6.4 Consensus size: 43
117918118 GAGAATTTCA
** * * *
117918128 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACAC
1 GATCTTATCTCCCTGAAG-TTACAGCGGAGCAGATAAAATAAAG
* * * * * *
117918171 TATCCTATTTCCCTGAAGTTACAGTGGAACGGATTAAAATAAAG
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGA-TAAAATAAAG
* * * **** *
117918215 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCAT-CAG
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATAAAATAAAG
* ** * * *
117918257 G-TCTTATCTCCTTG-AGATTACAGCGGAGCAGATCGAAGACAC
1 GATCTTATCTCCCTGAAG-TTACAGCGGAGCAGATAAAATAAAG
* * * *
117918299 TATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGA-TAAAATAAAG
* * * *** *
117918343 GATCTTATCT--CTGAGGTTACAGCAGAGTAGATCGCATCAA-
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATAAAATAAAG
117918383 G-TCTTATCTCCCTGAAG
1 GATCTTATCTCCCTGAAG
117918400 ATGCAGTGGA
Statistics
Matches: 165, Mismatches: 55, Indels: 20
0.69 0.23 0.08
Matches are distributed among these distances:
39 8 0.05
40 3 0.02
41 37 0.22
42 21 0.13
43 50 0.30
44 46 0.28
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATAAAATAAAG
Found at i:117918456 original size:128 final size:127
Alignment explanation
Indices: 117918130--117918456 Score: 363
Period size: 128 Copynumber: 2.6 Consensus size: 127
117918120 GAATTTCAGA
* * * * * *
117918130 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATTTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAACAGATCGAAAACAATAGCCTATCTCCCTAAAGTTACAG
* * *
117918195 TGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCATCAGG
66 CGGAGCGGATTAAAATAAAGGATCTTA-CTCTCTGAAGTTACAGCAGAGTAGACCGCATCAAG
* * * * * *
117918258 TCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAACAGATCGAAAACAATAGCCTATCTCCCTAAAGTTACAG
* * *
117918323 TGGAGCGGATTAAAATAAAGGATCTTA-TCTCTGAGGTTACAGCAGAGTAGATCGCATCAAG
66 CGGAGCGGATTAAAATAAAGGATCTTACTCTCTGAAGTTACAGCAGAGTAGACCGCATCAAG
* * * * *
117918384 TCTTATCTCCCTGAAGA-TGCAGTGGAACAG-GCTGAAAACAATAAGGCGTGTCTCCCTAAAGTT
1 TCTTATCTCCCTG-AGATTACAGCGGAACAGATC-GAAAACAAT-A-GCCTATCTCCCTAAAGTT
**
117918447 GTAGCGGAGC
62 ACAGCGGAGC
117918457 AGACAGAAGA
Statistics
Matches: 175, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
125 1 0.01
126 60 0.34
127 4 0.02
128 110 0.63
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (127 bp):
TCTTATCTCCCTGAGATTACAGCGGAACAGATCGAAAACAATAGCCTATCTCCCTAAAGTTACAG
CGGAGCGGATTAAAATAAAGGATCTTACTCTCTGAAGTTACAGCAGAGTAGACCGCATCAAG
Found at i:117924392 original size:140 final size:138
Alignment explanation
Indices: 117924135--117924631 Score: 518
Period size: 140 Copynumber: 3.6 Consensus size: 138
117924125 ACTTAGGAAA
* * * * * *
117924135 GTGTTGGCATAGTCTTGGACAAAACCGACTCTTATTTAAACGTTGCCTTAGGCATGCATATCCCA
1 GTGTAGGCATAGTGTT-GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCA
**
117924200 ACCCTTATACAAAGAGTTGGCCAAAGTGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT
65 ACCCTTATACAAAGAGTTGGCCAAAAAGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT
117924265 TGACCCAAAT
130 TG-CCCAAAT
* * *
117924275 GTGTAGGCATAGTGTTCGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAAGCATGCATATCCCA
1 GTGTAGGCATAGTGTT-GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCA
* * * * *
117924340 ACCCTTATACAAAAAGTTGACCAAAAAGTATGTCGACAAGTCTATCCCAACACTTAGGAAAATG-
65 ACCCTTATACAAAGAGTTGGCCAAAAAGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT
*
117924404 T---C--GT
130 TGCCCAAAT
* * * *
117924408 CT-TAGG---ACTG--GACAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATACATATCGCAA
1 GTGTAGGCATAGTGTTGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAA
* * *
117924467 CTCTTATGCAAAGAGTTGGCCAAAGCA-TATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT
66 CCCTTATACAAAGAGTTGGCCAAA-AAGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT
* *
117924531 CGCCCCAAAA
130 TG-CCCAAAT
* * * * * * *
117924541 ATGTCGTCTTAG-GACTAGACAAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATACATATCA
1 GTGTAGGCATAGTG--TTGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCC
*
117924605 CAACCCTTATGCAAAGAGTTGGCCAAA
63 CAACCCTTATACAAAGAGTTGGCCAAA
117924632 GCATACAACA
Statistics
Matches: 302, Mismatches: 38, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
126 97 0.32
127 1 0.00
129 3 0.01
131 1 0.00
132 4 0.01
133 3 0.01
134 2 0.01
135 1 0.00
136 1 0.00
137 1 0.00
139 1 0.00
140 119 0.39
141 68 0.23
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (138 bp):
GTGTAGGCATAGTGTTGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAA
CCCTTATACAAAGAGTTGGCCAAAAAGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTT
GCCCAAAT
Found at i:117924500 original size:266 final size:266
Alignment explanation
Indices: 117924026--117924937 Score: 1022
Period size: 266 Copynumber: 3.4 Consensus size: 266
117924016 CATACTATTG
* * * * * *
117924026 GACAAAGCTAACTCTTATTTAAGTGTTGCCTTAGGCATGCATATACCATCTCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAAGCATGCATATCCCAACCCTTATACAAAGAGT
* * * * * *
117924091 TGGCCAAAGCA-TATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATA-GTCTTGGA
66 TGGCCAAA-AAGTATGTTGACAAGTCTATCCCAACACTTAGGAAAATGTCGTCTTAGGAC-TGGA
* * * *
117924154 CAAAACCGACTCTTATTTAAACGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTG
129 CAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTG
* * * * *
117924219 GCCAAAGTGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGACCCAAATGTGTAGGCA
194 GCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGACCCAAAAGTGTCGCCT
* *
117924284 TAGTG-TTC
259 TAG-GACTA
* *
117924292 GACAAAGCCGACTCTTATTTAAGCGTTGCCTTAAGCATGCATATCCCAACCCTTATACAAAAAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAAGCATGCATATCCCAACCCTTATACAAAGAGT
* *
117924357 TGACCAAAAAGTATGTCGACAAGTCTATCCCAACACTTAGGAAAATGTCGTCTTAGGACTGGACA
66 TGGCCAAAAAGTATGTTGACAAGTCTATCCCAACACTTAGGAAAATGTCGTCTTAGGACTGGACA
* * * *
117924422 AAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATACATATCGCAACTCTTATGCAAAGAGTTGGC
131 AAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGC
* * * * *
117924487 CAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCCAAAAATGTCGTCTTA
196 CAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGACCCAAAAGTGTCGCCTTA
117924552 GGACTA
261 GGACTA
* * * * *
117924558 GACAAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATACATATCACAACCCTTATGCAAAGAG
1 GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAAGCATGCATATCCCAACCCTTATACAAAGAG
* ** *** * * *
117924623 TTGGCC--AAAGCA---T-ACAACACT-TAGGAA-AGTGTCGCCCCAAAAGTGTCGTCTTAGGAC
65 TTGGCCAAAAAGTATGTTGACAAGTCTATCCCAACACT-TAG---GAAAA-TGTCGTCTTAGGAC
** * **
117924680 TACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATTTAAAG
125 TGGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAG
* * *
117924745 AGTTGGCGAAAGCGTATGTTGGCAAGTCTATCCCAACACTTACGAAAGTG-TCACCCCAAAAGTG
189 AGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGA-CCCAAAAGTG
117924809 TCGCCTTAGGACTA
253 TCGCCTTAGGACTA
* * *
117924823 GACAAAGACAACTCTTATTTAAGCGTTGCCTT-AGTCATGCATATCCCAACCTTTATACAAATAG
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAAG-CATGCATATCCCAACCCTTATACAAAGAG
** * * * *
117924887 TTGGCCAAAGCGTATATTGGCCAGTCTATCCCAACACTTAGGAAAGTGTCG
65 TTGGCCAAAAAGTATGTTGACAAGTCTATCCCAACACTTAGGAAAATGTCG
117924938 CCACAAAAGT
Statistics
Matches: 535, Mismatches: 91, Indels: 39
0.80 0.14 0.06
Matches are distributed among these distances:
259 2 0.00
260 5 0.01
261 6 0.01
263 5 0.01
264 74 0.14
265 132 0.25
266 230 0.43
267 66 0.12
268 3 0.01
269 1 0.00
270 4 0.01
271 5 0.01
272 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (266 bp):
GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAAGCATGCATATCCCAACCCTTATACAAAGAGT
TGGCCAAAAAGTATGTTGACAAGTCTATCCCAACACTTAGGAAAATGTCGTCTTAGGACTGGACA
AAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGC
CAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGACCCAAAAGTGTCGCCTTA
GGACTA
Found at i:117924733 original size:124 final size:124
Alignment explanation
Indices: 117924513--117924757 Score: 418
Period size: 124 Copynumber: 2.0 Consensus size: 124
117924503 AAGTCTATCC
*
117924513 CAACACTTAGGAAAGTGTCGCCCCAAAAATGTCGTCTTAGGACTAGACAAAAGCCAACTCTTATT
1 CAACACTTAGGAAAGTGTCGCCCCAAAAATGTCGTCTTAGGACTACACAAAAGCCAACTCTTATT
* *
117924578 TAAGCGTTGTCTTAGGCATACATATCACAACCCTTATGCAAAGAGTTGGCCAAAGCATA
66 CAAGCGTTGCCTTAGGCATACATATCACAACCCTTATGCAAAGAGTTGGCCAAAGCATA
*
117924637 CAACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTATT
1 CAACACTTAGGAAAGTGTCGCCCCAAAAATGTCGTCTTAGGACTACACAAAAGCCAACTCTTATT
* ** *
117924702 CAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATTTAAAGAGTTGGCGAAAGC
66 CAAGCGTTGCCTTAGGCATACATATCACAACCCTTATGCAAAGAGTTGGCCAAAGC
117924758 GTATGTTGGC
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
124 113 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (124 bp):
CAACACTTAGGAAAGTGTCGCCCCAAAAATGTCGTCTTAGGACTACACAAAAGCCAACTCTTATT
CAAGCGTTGCCTTAGGCATACATATCACAACCCTTATGCAAAGAGTTGGCCAAAGCATA
Found at i:117924889 original size:140 final size:141
Alignment explanation
Indices: 117924637--117924962 Score: 492
Period size: 140 Copynumber: 2.3 Consensus size: 141
117924627 CCAAAGCATA
*
117924637 CAACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTATT
1 CAACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTAGGACTACACAAAAGACAACTCTTATT
** * *
117924702 CAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATTTAAAGAGTTGGCGAAAGCGTATGTTGG
66 CAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATATTGG
117924767 CAAGTCTATCC
131 CAAGTCTATCC
* * * *
117924778 CAACACTTACGAAAGTGTCACCCCAAAAGTGTCGCCTTAGGACTAGAC-AAAGACAACTCTTATT
1 CAACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTAGGACTACACAAAAGACAACTCTTATT
* * * * *
117924842 TAAGCGTTGCCTTAGTCATGCATATCCCAACCTTTATACAAATAGTTGGCCAAAGCGTATATTGG
66 CAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATATTGG
*
117924907 CCAGTCTATCC
131 CAAGTCTATCC
* *
117924918 CAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAAGACTA
1 CAACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTAGGACTA
117924963 TTTTGTTGTA
Statistics
Matches: 165, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
140 121 0.73
141 44 0.27
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (141 bp):
CAACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTAGGACTACACAAAAGACAACTCTTATT
CAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATATTGG
CAAGTCTATCC
Found at i:117930024 original size:91 final size:91
Alignment explanation
Indices: 117929550--117930051 Score: 289
Period size: 93 Copynumber: 5.6 Consensus size: 91
117929540 ATATTCTTAG
* * ** * * *
117929550 GCACCATACTCAAAGTCCAAGTGTCCCGAAAATGGAACATAACAAATAATAATTTTTACAATTA-
1 GCACCATACTC-AAGCCCAAGTCTCCCGAAAATAAAATATAATAAATAATAATTTTTATAATTAT
*
117929614 TCT-TAAA-A--AAAAATAT-TTTTGCA
65 TCTGAAAATATTAAAAATATATTTTG-A
* * * *
117929637 CCACCATACTCAAGGACC---T-T---GAAAAT-GAATATAATAAATAAT-TTTTTTATAATTAT
1 GCACCATACTCAA-GCCCAAGTCTCCCGAAAATAAAATATAATAAATAATAATTTTTATAATTAT
* *
117929693 TCCGAAAA-ATTAAGAATATATTTTGTA
65 TCTGAAAATATTAAAAATATATTTTG-A
* * * * *
117929720 -CTACTATACTCAAACCCAAGTATCCCGAAAATGAAATATAATAAATAATAATTTTTACAATTA-
1 GC-ACCATACTCAAGCCCAAGTCTCCCGAAAATAAAATATAATAAATAATAATTTTTATAATTAT
* *
117929783 TCTCCAAAA-ATTTAAAATATATGTTCAT-A
65 TCT-GAAAATATTAAAAATATAT-TT--TGA
* * ** * * * * *
117929812 GCATCATACTCAAGTCCAAGTGCT-TTGAAAAATGATATATAGTAAACAATAATTTTCATAATTA
1 GCACCATACTCAAGCCCAAGT-CTCCCG-AAAATAAAATATAATAAATAATAATTTTTATAATTA
* * *
117929876 TCCTGAAAA-AGTAAAAAAAATATTTTTGCA
64 TTCTGAAAATA-TTAAAAATATA-TTTTG-A
* *** * * *
117929906 CCACCATACTCAAGTTAAAAT-TACCCGAAGATAAAATATTATAAATAATAATTTTTATAATTAT
1 GCACCATACTCAAGCCCAAGTCT-CCCGAAAATAAAATATAATAAATAATAATTTTTATAATTAT
* *
117929970 TCTGAAAATTTTAAAAATAT-TTTTCGG
65 TCTGAAAATATTAAAAATATATTTT-GA
* *
117929997 GCACCATACTCAAGCCCAAGTCTCCCGAAAATAAAATGTAAAAAATAA-AATTTTT
1 GCACCATACTCAAGCCCAAGTCTCCCGAAAATAAAATATAATAAATAATAATTTTT
117930052 TATATATAGT
Statistics
Matches: 317, Mismatches: 65, Indels: 63
0.71 0.15 0.14
Matches are distributed among these distances:
78 11 0.03
79 16 0.05
80 10 0.03
82 10 0.03
83 17 0.05
84 1 0.00
85 1 0.00
86 3 0.01
87 13 0.04
89 6 0.02
90 24 0.08
91 67 0.21
92 23 0.07
93 83 0.26
94 31 0.10
95 1 0.00
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (91 bp):
GCACCATACTCAAGCCCAAGTCTCCCGAAAATAAAATATAATAAATAATAATTTTTATAATTATT
CTGAAAATATTAAAAATATATTTTGA
Found at i:117930655 original size:19 final size:19
Alignment explanation
Indices: 117930628--117930664 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
117930618 TCTTCATTGA
*
117930628 ATTTATAAAAATATTTAAT
1 ATTTATAAAAAAATTTAAT
*
117930647 ATTTGTAAAAAAATTTAA
1 ATTTATAAAAAAATTTAA
117930665 AGTAGAAACT
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:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
ATTTATAAAAAAATTTAAT
Found at i:117938854 original size:14 final size:15
Alignment explanation
Indices: 117938827--117938863 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
117938817 AAAAGATTAA
*
117938827 TAATAATTATAATAG
1 TAATAATAATAATAG
117938842 TAA-AATAATAATAG
1 TAATAATAATAATAG
117938856 TAATAATA
1 TAATAATA
117938864 GCTAAGTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:117938962 original size:15 final size:15
Alignment explanation
Indices: 117938944--117938974 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
117938934 AAAAATATTA
117938944 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
117938959 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
117938974 A
1 A
117938975 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:117939325 original size:19 final size:17
Alignment explanation
Indices: 117939290--117939368 Score: 68
Period size: 19 Copynumber: 4.4 Consensus size: 17
117939280 AAAAATAGTG
117939290 ATAATATAACAAGAATA
1 ATAATATAACAAGAATA
*
117939307 GTAATATAACAAGAGAATA
1 ATAATATAAC-A-AGAATA
* *
117939326 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
* *
117939344 ATAATAATAAATAATAATA
1 ATAAT-AT-AACAAGAATA
117939363 ATAATA
1 ATAATA
117939369 ATAATAGTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
17 9 0.17
18 15 0.28
19 26 0.48
20 4 0.07
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (17 bp):
ATAATATAACAAGAATA
Found at i:117939330 original size:3 final size:3
Alignment explanation
Indices: 117939322--117939416 Score: 118
Period size: 3 Copynumber: 30.3 Consensus size: 3
117939312 ATAACAAGAG
117939322 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * * *
117939368 AAT AAT AGT AAT GGAGAT AAT AAT AAT AAT AAT GAT ACT AAC AAT AAT
1 AAT AAT AAT AAT --A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
117939416 A
1 A
117939417 TAAATAAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
3 73 0.91
4 4 0.05
5 1 0.01
6 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:117940349 original size:20 final size:19
Alignment explanation
Indices: 117940324--117940372 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
117940314 GCGAAGAGAA
117940324 AAAAAAAGAAAATACAAAAG
1 AAAAAAAGAAAATA-AAAAG
** *
117940344 AAAAAAACTAAATAAAAAT
1 AAAAAAAGAAAATAAAAAG
117940363 AAAAAAAGAA
1 AAAAAAAGAA
117940373 CCAAGAACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.82, C:0.04, G:0.06, T:0.08
Consensus pattern (19 bp):
AAAAAAAGAAAATAAAAAG
Found at i:117940690 original size:21 final size:22
Alignment explanation
Indices: 117940642--117940693 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
117940632 GGTGTCAGAC
*
117940642 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGGGCTGTTGTAGTGGA
117940664 GGTATGGGGCTGTTGTAGTGG-
1 GGTATGGGGCTGTTGTAGTGGA
117940685 GGTATGGGG
1 GGTATGGGG
117940694 TTTGGTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 9 0.31
22 20 0.69
ACGTcount: A:0.13, C:0.04, G:0.52, T:0.31
Consensus pattern (22 bp):
GGTATGGGGCTGTTGTAGTGGA
Found at i:117941293 original size:46 final size:46
Alignment explanation
Indices: 117941195--117941296 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 46
117941185 CCACTTCCTA
* * * * * * **
117941195 CCAATATAGGGAGGCAGGATCTGCTATCTTCGATCTATTTCGTTGC
1 CCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
*
117941241 CGAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
1 CCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
117941287 CCAATACAGG
1 CCAATACAGG
117941297 GAGATAGAGT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (46 bp):
CCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
Found at i:117941441 original size:229 final size:229
Alignment explanation
Indices: 117941027--117941464 Score: 732
Period size: 229 Copynumber: 1.9 Consensus size: 229
117941017 TTAGGGAGAT
* * *
117941027 AAGACCTGAAATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTCATCGGCTTCAATG
1 AAGACCTGAAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTCATCAGCTTCAACG
* * * * *
117941092 TACTCCATTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTGTTCCACTGCCAAA
66 TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCAATCTATTCCACTGCCAAA
*
117941157 TACAGGGAGATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGGAGGCAGGATCTGCTAT
131 TACAGGGAGATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTAT
117941222 CTTCGATCTATTTCGTTGCCGAATACAGGAAGGC
196 CTTCGATCTATTTCGTTGCCGAATACAGGAAGGC
* * * *
117941256 AAGATCTGCAATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTATCAGCTTCAACG
1 AAGACCTGAAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTCATCAGCTTCAACG
* * *
117941321 TACTCCACTGTAGTCAGGGAGGTAAAGTCTGCCTTCTTCGACCTGCAATCTATTCCACTGCTAAA
66 TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCAATCTATTCCACTGCCAAA
117941386 TACAGGGAGATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTAT
131 TACAGGGAGATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTAT
117941451 CTTCGATCTATTTC
196 CTTCGATCTATTTC
117941465 ACATCAATAT
Statistics
Matches: 193, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
229 193 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (229 bp):
AAGACCTGAAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTCATCAGCTTCAACG
TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGACCTGCAATCTATTCCACTGCCAAA
TACAGGGAGATAGAGTCTGTTTTTCAATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTAT
CTTCGATCTATTTCGTTGCCGAATACAGGAAGGC
Found at i:117941489 original size:44 final size:44
Alignment explanation
Indices: 117941423--117941902 Score: 301
Period size: 44 Copynumber: 10.9 Consensus size: 44
117941413 TCCACTTCCT
* * * *
117941423 ACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTATTTCAC
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * * *
117941467 ATCAATATATGAAAATAAGATCTGCTTTCTTTGATCTAATTCGCC
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* ** * * *
117941512 ACCAGTATGGGAAGACAAGATCTGC-GTCGTCGATCCACTTC-C
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * *
117941554 TACCAATATAGGAAGACCAGACCTGTTATCTTTGATCTACTTCAC
1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
117941599 GCCAATACATGAAGACAAGATCTGCTTTCTTCGGTCTACTTC-C
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
117941642 TACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTTCAC
1 -ACC-AATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
117941688 ATCAATATATGAAAATAAGATCTGCTTTCTTCGATCTAATTCGCC
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* ** * *
117941733 ACCAGTATGGGAAGACAAGATCTGC-GTCGTT-GATCCACTTC-C
1 ACCAATATATGAAGACAAGATCTGCTATC-TTCGATCTACTTCAC
* ** * * *
117941775 TACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCAC
1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
117941820 GCCAATACATGAAGACAAGATCTGCTTTCTTC-AGTCTACTTC-C
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGA-TCTACTTCAC
* * * * *
117941863 TACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTA
1 -ACC-AATATATGAAGACAAGATCTGCTATCTTCGATCTA
117941903 TTCCACTGCC
Statistics
Matches: 330, Mismatches: 89, Indels: 33
0.73 0.20 0.07
Matches are distributed among these distances:
42 2 0.01
43 44 0.13
44 175 0.53
45 107 0.32
46 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (44 bp):
ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
Found at i:117941687 original size:89 final size:88
Alignment explanation
Indices: 117941522--117941906 Score: 228
Period size: 89 Copynumber: 4.4 Consensus size: 88
117941512 ACCAGTATGG
* * * * * * **
117941522 GAAGACAAGATCTGC-GTCGTCGATCCACTTCCTACCAATATAGGAAGACCAGACCTGTTATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACCAATACAAGAAGACAAGACCTGCAATCTT
** *
117941586 TGATCTACTTCACGCCAATACAT
66 CAATCTACTTCACACCAATACAT
* * *
117941609 GAAGACAAGATCTGCTTTCTTCGGTCTACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACC-AATACAAGAAGACAAGACCTGCAATCT
* * *
117941674 TCAATCTATTTCACATCAATATAT
65 TCAATCTACTTCACACCAATACAT
* * * * * *** * *
117941698 GAAAATAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGC-GTCG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-CTACCAATACAAGAAGACAAGACCTGCAATC-
* * * *
117941762 TT-GATCCACTTC-CTACCAATATAG
64 TTCAATCTACTTCAC-ACCAATACAT
** * * * * * **
117941786 GAAGACCGGACCTG-TTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTC
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTC-CTACCAATACAAGAAGACAAGACCTGCAATC
* *
117941849 TTCAGTCTACTTC-CTACCTAATACAA
64 TTCAATCTACTTCAC-ACC-AATACAT
* ** *
117941875 GAAGGCAAGATCTGCAATCTTCAATCTA-TTCC
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCC
117941907 ACTGCCCGAT
Statistics
Matches: 228, Mismatches: 60, Indels: 20
0.74 0.19 0.06
Matches are distributed among these distances:
87 41 0.18
88 74 0.32
89 109 0.48
90 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (88 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACCAATACAAGAAGACAAGACCTGCAATCTT
CAATCTACTTCACACCAATACAT
Found at i:117941692 original size:221 final size:221
Alignment explanation
Indices: 117941416--117941904 Score: 890
Period size: 221 Copynumber: 2.2 Consensus size: 221
117941406 TTTTCAATCC
* * * * *
117941416 ACTTCCTACC-AATATAGGAAGGCAGGATCTGCTATCTTCGATCTATTTCACATCAATATATGAA
1 ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTTCACATCAATATATGAA
*
117941480 AATAAGATCTGCTTTCTTTGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGCGTCGTCGA
66 AATAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGCGTCGTCGA
117941545 TCCACTTCCTACCAATATAGGAAGACCAGACCTGTTATCTTTGATCTACTTCACGCCAATACATG
131 TCCACTTCCTACCAATATAGGAAGACCAGACCTGTTATCTTTGATCTACTTCACGCCAATACATG
*
117941610 AAGACAAGATCTGCTTTCTTCGGTCT
196 AAGACAAGATCTGCTTTCTTCAGTCT
117941636 ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTTCACATCAATATATGAA
1 ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTTCACATCAATATATGAA
*
117941701 AATAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGCGTCGTTGA
66 AATAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGCGTCGTCGA
*
117941766 TCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATG
131 TCCACTTCCTACCAATATAGGAAGACCAGACCTGTTATCTTTGATCTACTTCACGCCAATACATG
117941831 AAGACAAGATCTGCTTTCTTCAGTCT
196 AAGACAAGATCTGCTTTCTTCAGTCT
117941857 ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATT
1 ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATT
117941905 CCACTGCCCG
Statistics
Matches: 259, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
220 10 0.04
221 249 0.96
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (221 bp):
ACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTTCACATCAATATATGAA
AATAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGCGTCGTCGA
TCCACTTCCTACCAATATAGGAAGACCAGACCTGTTATCTTTGATCTACTTCACGCCAATACATG
AAGACAAGATCTGCTTTCTTCAGTCT
Found at i:117941887 original size:45 final size:45
Alignment explanation
Indices: 117941602--117941906 Score: 175
Period size: 45 Copynumber: 6.9 Consensus size: 45
117941592 ACTTCACGCC
*
117941602 AATACATGAAGACAAGATCTGCTTTCTTCGGTCTACTTCCTACCT
1 AATACATGAAGACAAGATCTGCTTTCTTCAGTCTACTTCCTACCT
* * ** * * *
117941647 AATACAAGAAGGCAAGATCTGCAATCTTCAATCTA-TTTC-ACAT
1 AATACATGAAGACAAGATCTGCTTTCTTCAGTCTACTTCCTACCT
* * * * *
117941690 CAATATATGAAAATAAGATCTGCTTTCTTC-GATCTAATTCGCCACC-
1 -AATACATGAAGACAAGATCTGCTTTCTTCAG-TCTACTTC-CTACCT
* *** * * *
117941736 AGTATGGGAAGACAAGATCTGC-GTCGTTGA-TCCACTTCCTACC-
1 AATACATGAAGACAAGATCTGCTTTC-TTCAGTCTACTTCCTACCT
* * ** * * *
117941779 AATATAGGAAGACCGGACCTG-TTATCTT-TGATCTACTT-C-ACGCC
1 AATACATGAAGACAAGATCTGCTT-TCTTCAG-TCTACTTCCTAC-CT
117941823 AATACATGAAGACAAGATCTGCTTTCTTCAGTCTACTTCCTACCT
1 AATACATGAAGACAAGATCTGCTTTCTTCAGTCTACTTCCTACCT
* * ** *
117941868 AATACAAGAAGGCAAGATCTGCAATCTTCAATCTA-TTCC
1 AATACATGAAGACAAGATCTGCTTTCTTCAGTCTACTTCC
117941907 ACTGCCCGAT
Statistics
Matches: 195, Mismatches: 48, Indels: 35
0.70 0.17 0.13
Matches are distributed among these distances:
42 2 0.01
43 27 0.14
44 76 0.39
45 85 0.44
46 3 0.02
47 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (45 bp):
AATACATGAAGACAAGATCTGCTTTCTTCAGTCTACTTCCTACCT
Found at i:117942031 original size:46 final size:46
Alignment explanation
Indices: 117941836--117942328 Score: 184
Period size: 46 Copynumber: 11.0 Consensus size: 46
117941826 ACATGAAGAC
** * * * * * *
117941836 AAGATCTGCTTTCTTCAGTCTACTTC-CTACCTAATACAAGAAGGC
1 AAGATCTGCAATCTTCAATCTGCTTCACTGCCTAATACAGGGAGGT
* ** *
117941881 AAGATCTGCAATCTTCAATCT-ATTCCACTGCCCGATACAGGGAGAT
1 AAGATCTGCAATCTTCAATCTGCTT-CACTGCCTAATACAGGGAGGT
* * ** * * * *
117941927 AGAGTTAT-C-GGCTTCAATGTACTCCACTG--TAGTCACAGGGAGGT
1 A-AGATCTGCAATCTTCAATCTGCTTCACTGCCTAAT-ACAGGGAGGT
* * * * * *
117941971 AAAATCTGCCATCTTCGATCTGCTTCGCTGCCTAATACAGGAAGGC
1 AAGATCTGCAATCTTCAATCTGCTTCACTGCCTAATACAGGGAGGT
* *
117942017 AAGATCTGCAATCTTCAATCT-ATTCCACTGCC-AGATACAGGGAGAT
1 AAGATCTGCAATCTTCAATCTGCTT-CACTGCCTA-ATACAGGGAGGT
* * ** * * * *
117942063 AGAGTTAT-C-GGCTTCAATGTACTCCACTG--TAGT-CAGGGAGGT
1 A-AGATCTGCAATCTTCAATCTGCTTCACTGCCTAATACAGGGAGGT
* * * * * * *
117942105 AAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGC
1 AAGATCTGCAATCTTCAATCTGCTTCACTGCCTAATACAGGGAGGT
* *
117942151 AAGATCTGCAATCTTCAATCT-ATTCCACTGCC-AGATACAGGGAGAT
1 AAGATCTGCAATCTTCAATCTGCTT-CACTGCCTA-ATACAGGGAGGT
* * ** * * * *
117942197 AGAGTTAT-C-GGCTTCAATGTACTCCACTG--TAGT-CAGGGAGGT
1 A-AGATCTGCAATCTTCAATCTGCTTCACTGCCTAATACAGGGAGGT
* * * * * * *
117942239 AAAATCTACCATCTTCGATCTGCTTCGCTGCCTAATACAGGAAGGC
1 AAGATCTGCAATCTTCAATCTGCTTCACTGCCTAATACAGGGAGGT
*
117942285 AAGATCTGCAATCTTCAATCT-ATTCCACTGCC-AGATACAGGGAG
1 AAGATCTGCAATCTTCAATCTGCTT-CACTGCCTA-ATACAGGGAG
117942329 ATAGAGTTAT
Statistics
Matches: 314, Mismatches: 103, Indels: 61
0.66 0.22 0.13
Matches are distributed among these distances:
41 6 0.02
42 20 0.06
43 32 0.10
44 15 0.05
45 85 0.27
46 141 0.45
47 15 0.05
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (46 bp):
AAGATCTGCAATCTTCAATCTGCTTCACTGCCTAATACAGGGAGGT
Found at i:117942182 original size:134 final size:134
Alignment explanation
Indices: 117941868--117942424 Score: 1037
Period size: 134 Copynumber: 4.2 Consensus size: 134
117941858 CTTCCTACCT
* *
117941868 AATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCCGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
117941933 ATCGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
66 ATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
*
117941998 CTGCCT
129 CTGCCA
117942004 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
117942069 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
117942134 GCCA
131 GCCA
117942138 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
*
117942203 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTACCATCTTCGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
*
117942268 GCCT
131 GCCA
117942272 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
117942337 ATCGGCTTCAATGTACTCCACTGTAGTCA-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
117942401 G-CA
131 GCCA
117942404 AATACAGGAAGGCAAGATCTG
1 AATACAGGAAGGCAAGATCTG
117942425 ATAACTTCAA
Statistics
Matches: 414, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
132 22 0.05
133 35 0.08
134 267 0.64
136 90 0.22
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (134 bp):
AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
GCCA
Found at i:117948418 original size:15 final size:15
Alignment explanation
Indices: 117948398--117948427 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
117948388 AATAATAATT
117948398 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
117948413 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
117948428 GCTAAGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:117948526 original size:15 final size:15
Alignment explanation
Indices: 117948508--117948538 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
117948498 AAAAATATTA
117948508 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
117948523 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
117948538 A
1 A
117948539 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:117948889 original size:19 final size:17
Alignment explanation
Indices: 117948854--117948931 Score: 75
Period size: 18 Copynumber: 4.4 Consensus size: 17
117948844 AAAAATAGTG
117948854 ATAATATAACAAGAATA
1 ATAATATAACAAGAATA
*
117948871 GTAATATAACAAGAGAATA
1 ATAATATAAC-A-AGAATA
* *
117948890 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
* *
117948908 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
117948926 ATAATA
1 ATAATA
117948932 ATAATAATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
17 10 0.19
18 29 0.54
19 11 0.20
20 4 0.07
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (17 bp):
ATAATATAACAAGAATA
Found at i:117948894 original size:3 final size:3
Alignment explanation
Indices: 117948886--117948982 Score: 131
Period size: 3 Copynumber: 31.3 Consensus size: 3
117948876 ATAACAAGAG
117948886 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
117948934 AAT AAT AGT AAT GGAGAT AAT AAT AAT AAT AAT GAT ACT AAC AAT AAT
1 AAT AAT AAT AAT --A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
117948982 A
1 A
117948983 TAAAAAAAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
3 79 0.95
4 1 0.01
5 1 0.01
6 2 0.02
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:117949918 original size:20 final size:19
Alignment explanation
Indices: 117949893--117949938 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
117949883 CGAAGAGAAA
*
117949893 AAAAAAAGAAAATACAAAAG
1 AAAAAAACAAAATA-AAAAG
* *
117949913 AAAAAAACTAAATAAAAAT
1 AAAAAAACAAAATAAAAAG
117949932 AAAAAAA
1 AAAAAAA
117949939 AAGAACCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.83, C:0.04, G:0.04, T:0.09
Consensus pattern (19 bp):
AAAAAAACAAAATAAAAAG
Found at i:117950266 original size:22 final size:22
Alignment explanation
Indices: 117950214--117950266 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
117950204 GGTGTCAGAC
*
117950214 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGGGCTGTTGTAGTGGA
*
117950236 GGTATGGGGCTGTTGTAGTGGG
1 GGTATGGGGCTGTTGTAGTGGA
117950258 GGTATGGGG
1 GGTATGGGG
117950267 TTTGGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.04, G:0.53, T:0.30
Consensus pattern (22 bp):
GGTATGGGGCTGTTGTAGTGGA
Found at i:117952628 original size:21 final size:21
Alignment explanation
Indices: 117952604--117952643 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
117952594 TAATATTTAT
*
117952604 ATATTTTATAATAA-AATTAGA
1 ATATATTATAA-AATAATTAGA
117952625 ATATATTATAAAATAATTA
1 ATATATTATAAAATAATTA
117952644 TTTAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
ATATATTATAAAATAATTAGA
Found at i:117962597 original size:23 final size:24
Alignment explanation
Indices: 117962552--117962599 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
117962542 TAATTTTATT
* *
117962552 ATTTAAAAAAATTTAAAGGGATTA
1 ATTTAAAAAAATTAAAAGAGATTA
*
117962576 ATTT-AAAAAATTAAAATAGATTA
1 ATTTAAAAAAATTAAAAGAGATTA
117962599 A
1 A
117962600 AAATAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (24 bp):
ATTTAAAAAAATTAAAAGAGATTA
Found at i:117973089 original size:4 final size:4
Alignment explanation
Indices: 117973080--117973104 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
117973070 AATAAGTAAC
117973080 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
117973105 AATTTGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:117979499 original size:30 final size:31
Alignment explanation
Indices: 117979463--117979520 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
117979453 AATTCAACTT
* *
117979463 TTTTTTTTAA-AGTTGATGATCCAATTTGAC
1 TTTTTTTAAATAGTTGATGATCAAATTTGAC
117979493 TTTTTTTAAATAGTTGATGATCAAATTT
1 TTTTTTTAAATAGTTGATGATCAAATTT
117979521 AGCTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (31 bp):
TTTTTTTAAATAGTTGATGATCAAATTTGAC
Found at i:117982398 original size:27 final size:26
Alignment explanation
Indices: 117982367--117982424 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
117982357 AAAAAATGTC
*
117982367 AAATTCAAATACCAATTTAGTCAAAAA
1 AAATTCAAATACCAAATTAG-CAAAAA
* * * *
117982394 AAATTTAACTACTAAATTAGGAAAAA
1 AAATTCAAATACCAAATTAGCAAAAA
117982420 AAATT
1 AAATT
117982425 GTTAAAATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (26 bp):
AAATTCAAATACCAAATTAGCAAAAA
Found at i:117985023 original size:31 final size:31
Alignment explanation
Indices: 117984985--117985059 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
117984975 ACGGTTACTG
117984985 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
117985016 GGCCGAAGCCTTTTCATAAATCATTTCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
117985047 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
117985060 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:117985155 original size:42 final size:42
Alignment explanation
Indices: 117985083--117985174 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
117985073 TGGCCCATAG
** *
117985083 GCCCATTTCAATATCACATATAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATATAATACCAATGAATGTATGCAA
*
117985125 GCCCATTTCAATATCATATGA-AATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACAT-ATAATACCAATGAATGTATGCAA
117985167 GCCCATTT
1 GCCCATTT
117985175 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATATAATACCAATGAATGTATGCAA
Done.