Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 38 of 311
Found at i:10870501 original size:20 final size:20
Alignment explanation
Indices: 10870478--10870525 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
10870468 AATACTAAAA
10870478 AATAATTTTAA-ATTTTATGT
1 AATAATTTTAATATTTTAT-T
10870498 AAT-ATTCTTAATATTTTATT
1 AATAATT-TTAATATTTTATT
*
10870518 AAAAATTT
1 AATAATTT
10870526 ATATTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 10 0.42
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
AATAATTTTAATATTTTATT
Found at i:10877300 original size:52 final size:50
Alignment explanation
Indices: 10877216--10877319 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 50
10877206 TGAAGAACTT
* *
10877216 AACCGGATTTTAAATGCATTGTAATCCGTTATATATGAGATATTCTTATGAA
1 AACCAGATTTTAAATGCATTGTAATCCATTATATATGAG--ATTCTTATGAA
* *
10877268 AACCAGATTTTAATTGCCTTGTAATCCATTATATATGAGATTCTTATGAA
1 AACCAGATTTTAAATGCATTGTAATCCATTATATATGAGATTCTTATGAA
10877318 AA
1 AA
10877320 AGGGCATACT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 13 0.27
52 35 0.73
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (50 bp):
AACCAGATTTTAAATGCATTGTAATCCATTATATATGAGATTCTTATGAA
Found at i:10879968 original size:36 final size:36
Alignment explanation
Indices: 10879927--10879999 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
10879917 ACACAGTTTC
10879927 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
1 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
10879963 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
1 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
10879999 A
1 A
10880000 CTCCTATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (36 bp):
AACCAAAATTATCATTCAAAGTAAACACATTCATTA
Found at i:10882990 original size:21 final size:20
Alignment explanation
Indices: 10882944--10882991 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
10882934 TTTTCACCCT
* * *
10882944 TATTTTGTTATTGTTTGTTG
1 TATTTTGGTATTATTTGTTA
10882964 TCATTTTGGTATTATATTGTTA
1 T-ATTTTGGTATTAT-TTGTTA
10882986 TATTTT
1 TATTTT
10882992 ATTATTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.70
22 6 0.26
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.67
Consensus pattern (20 bp):
TATTTTGGTATTATTTGTTA
Found at i:10893018 original size:480 final size:480
Alignment explanation
Indices: 10892113--10893552 Score: 2801
Period size: 480 Copynumber: 3.0 Consensus size: 480
10892103 TAAAATTTTG
*
10892113 TTATTTGTACAAATAGCATCTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
1 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
10892178 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
66 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
10892243 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
131 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
10892308 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
196 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
10892373 ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
261 ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
10892438 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCTATTTCTC
326 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCTATTTCTC
10892503 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
391 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
10892568 TCTAATCTCTTTCACCTACTTGTTCT
456 TCT-ATCTCTTTCACCTACTTGTTCT
* *
10892594 TTA-TTGTACAAATAGCATGTAGTATTGCTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
1 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
10892658 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
66 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
10892723 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
131 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
10892788 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
196 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
10892853 ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
261 ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
10892918 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCTATTTCTC
326 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCTATTTCTC
10892983 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
391 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
10893048 TCTATCTCTTTCACCTACTTGTTCT
456 TCTATCTCTTTCACCTACTTGTTCT
* *
10893073 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACGACTGCAGTTCTATGTAATTAGCAGTTGTT
1 TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
10893138 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
66 TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
10893203 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
131 TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
10893268 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
196 TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
*
10893333 ATAAATATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
261 ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
*
10893398 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCAATTTCTC
326 TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCTATTTCTC
10893463 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
391 CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
10893528 TCTATCTCTTTCACCTACTTGTTCT
456 TCTATCTCTTTCACCTACTTGTTCT
10893553 GCATGAAGTA
Statistics
Matches: 949, Mismatches: 9, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
479 25 0.03
480 921 0.97
481 3 0.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (480 bp):
TTATTTGTACAAATAGCATGTAGTGTTACTGAAACTACTGTAGTTCTATGTAATTAGCAGTTGTT
TATGTTTGGATGAATCTGCTGTAACAATGTTGAACAATGGAGTCATGCTAGTTGAGAGATTAATT
TTTCTAGGAATTTCTTTTATATTTTATTGGTTTAATCATCGTATAGATGAGATATTTTAGAATGG
TTAGGTTAAAATAGTTTTAGGGTTAAATTTGGTATTGGCATTTTATTAAGGTTTTGGGTTTAGCC
ATAAGTATCTTCTTATTTTAGTTTTAATTAGGTTTTAGATGATGAATAGTTGAGATTTTGAGATA
TCAATTATTGAGATGCTCACGCTCTTAATGATTCTTGTTGGGTTTTCTCCTTTCTTCTATTTCTC
CCTTTATTTCCTCACTTCCTCTGTAATTGTTTCTGCCTATTTGTGATTATCATATAAACTTATTT
TCTATCTCTTTCACCTACTTGTTCT
Found at i:10894609 original size:6 final size:6
Alignment explanation
Indices: 10894598--10894629 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
10894588 GAAAATTAGA
10894598 GGGGAG GGGGAG GGGGAG GGGGA- GGGGAG GGG
1 GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGG
10894630 AGGAAAGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.16, C:0.00, G:0.84, T:0.00
Consensus pattern (6 bp):
GGGGAG
Found at i:10894615 original size:12 final size:11
Alignment explanation
Indices: 10894596--10894629 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
10894586 TAGAAAATTA
10894596 GAGGGGAGGGG
1 GAGGGGAGGGG
10894607 GAGGGGGAGGGG
1 GA-GGGGAGGGG
10894619 GAGGGGAGGGG
1 GAGGGGAGGGG
10894630 AGGAAAGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.18, C:0.00, G:0.82, T:0.00
Consensus pattern (11 bp):
GAGGGGAGGGG
Found at i:10894742 original size:2 final size:2
Alignment explanation
Indices: 10894735--10894779 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
10894725 CAGTGCTCCT
10894735 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10894777 TC T
1 TC T
10894780 GTTCACTTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10897522 original size:17 final size:17
Alignment explanation
Indices: 10897500--10897532 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10897490 ACTATTTGTC
10897500 TATATTCATTCTAGATA
1 TATATTCATTCTAGATA
10897517 TATATTCATTCTAGAT
1 TATATTCATTCTAGAT
10897533 GTATTTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (17 bp):
TATATTCATTCTAGATA
Found at i:10897779 original size:27 final size:26
Alignment explanation
Indices: 10897749--10897839 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 26
10897739 TTTTAGTTAT
* *
10897749 TTTATATATTTATACTTTTTTTATAAA
1 TTTATATATTTTTA-TATTTTTATAAA
* ** **
10897776 TTTATAAATTTTTAGTCCTTTTATATG
1 TTTATATATTTTTA-TATTTTTATAAA
* *
10897803 CTTATATATTTTTATAATTTTTATTAA
1 TTTATATATTTTTAT-ATTTTTATAAA
10897830 TTTATATATT
1 TTTATATATT
10897840 ATAAAATTTT
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTATATATTTTTATATTTTTATAAA
Found at i:10897787 original size:19 final size:19
Alignment explanation
Indices: 10897748--10897788 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10897738 TTTTTAGTTA
* **
10897748 TTTTATATATTTATACTTT
1 TTTTATAAATTTATAAATT
10897767 TTTTATAAATTTATAAATT
1 TTTTATAAATTTATAAATT
10897786 TTT
1 TTT
10897789 AGTCCTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATAAATTTATAAATT
Found at i:10903848 original size:5 final size:5
Alignment explanation
Indices: 10903838--10903870 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
10903828 TTTGTGTGTT
10903838 TTTTA TTTTA TTTTA -TTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
10903871 TCACAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:10903858 original size:14 final size:14
Alignment explanation
Indices: 10903839--10903869 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
10903829 TTGTGTGTTT
10903839 TTTATTTTATTTTA
1 TTTATTTTATTTTA
10903853 TTTATTTTATTTTA
1 TTTATTTTATTTTA
10903867 TTT
1 TTT
10903870 TTCACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:10908293 original size:5 final size:5
Alignment explanation
Indices: 10908283--10908314 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10908273 ATTTGTGTTC
10908283 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
10908315 TCACAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:10908297 original size:9 final size:9
Alignment explanation
Indices: 10908283--10908313 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
10908273 ATTTGTGTTC
10908283 TTTATTTTA
1 TTTATTTTA
10908292 TTTATTTTA
1 TTTATTTTA
10908301 TTTTATTTTA
1 -TTTATTTTA
10908311 TTT
1 TTT
10908314 TTCACAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:10910874 original size:9 final size:10
Alignment explanation
Indices: 10910854--10910885 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
10910844 AGCTGATGAT
10910854 AAAT-AAGAA
1 AAATGAAGAA
10910863 AAATGAAGAA
1 AAATGAAGAA
10910873 AAATGAAGAA
1 AAATGAAGAA
10910883 AAA
1 AAA
10910886 CCTAGATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (10 bp):
AAATGAAGAA
Found at i:10920577 original size:39 final size:39
Alignment explanation
Indices: 10920531--10920670 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
10920521 ATCGTGATCT
** * * *
10920531 AAAGCCCGAAGTTTAGCTGAAGTACATAAGTGCTAAAAG
1 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
* * *
10920570 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
1 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
*
10920609 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
*
10920648 AAATCCCGAAGGCTAACTGAAGC
1 AAAGCCCGAAGGCTAACTGAAGC
10920671 TCATCAGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.14
Consensus pattern (39 bp):
AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
Found at i:10922257 original size:40 final size:40
Alignment explanation
Indices: 10922212--10922291 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
10922202 TCTATTTTCC
*
10922212 CACCATCTTTTATATTCTTAGATT-GTTCTATAAAGAATTA
1 CACCATCTTTTATATTCTTAGATTAG-TATATAAAGAATTA
10922252 CACCATCTTTTATATTCTTAGATTAGTATATAAAGAATTA
1 CACCATCTTTTATATTCTTAGATTAGTATATAAAGAATTA
10922292 TTGTAGAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 37 0.97
41 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (40 bp):
CACCATCTTTTATATTCTTAGATTAGTATATAAAGAATTA
Found at i:10922838 original size:23 final size:22
Alignment explanation
Indices: 10922803--10922855 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
10922793 GTTAACAATA
10922803 TTAACAATGTTAAA-ATAATTTAAT
1 TTAA-AATGTTAAACAT-A-TTAAT
*
10922827 TTAAAATTTTAAACATATTAAT
1 TTAAAATGTTAAACATATTAAT
*
10922849 TAAAAAT
1 TTAAAAT
10922856 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 11 0.42
23 9 0.35
24 6 0.23
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAATGTTAAACATATTAAT
Found at i:10923754 original size:19 final size:19
Alignment explanation
Indices: 10923730--10923773 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10923720 TGAAAGCAAC
10923730 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
10923749 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
10923768 ACAACA
1 ACAACA
10923774 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:10926653 original size:91 final size:89
Alignment explanation
Indices: 10926399--10926692 Score: 426
Period size: 95 Copynumber: 3.2 Consensus size: 89
10926389 ATTAAAAATT
** *
10926399 AATTAATATAATAGTACAGCAGCATAAATTAAACAAAAAAAGTATGTTAAACTACATTTTAAACT
1 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAGTATGTTAAACTACAGTTTAAACT
*
10926464 TTAAACTTAGTTAATTGAAGCCTA
66 TTAAAGTTAGTTAATTGAAGCCTA
* * *
10926488 AATTAATAGAATAGTACAAGTACAATAGCATAAATTAAACAAAAAAAGTATCTTAAACTATAGTT
1 AATTAAT---ATA--A-TAGTACAATAGCATAAATTAAACAAAAAAAGTATGTTAAACTACAGTT
10926553 TAAACTTTAAAGTTAGTTAATTGAAGCCTA
60 TAAACTTTAAAGTTAGTTAATTGAAGCCTA
* * *
10926583 AATTAATATAATAGTACAATAGCATAAAGTAAACAAAAAAAAAGTCTGTTAAACCACAGTTTAAA
1 AATTAATATAATAGTACAATAGCATAAATTAAAC--AAAAAAAGTATGTTAAACTACAGTTTAAA
10926648 CTTTAAAGTTAGTTAATTGAAGCCTA
64 CTTTAAAGTTAGTTAATTGAAGCCTA
10926674 AATTAATATAATAGTACAA
1 AATTAATATAATAGTACAA
10926693 CAACTTAAAT
Statistics
Matches: 184, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
89 28 0.15
90 1 0.01
91 70 0.38
92 6 0.03
94 1 0.01
95 78 0.42
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (89 bp):
AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAGTATGTTAAACTACAGTTTAAACT
TTAAAGTTAGTTAATTGAAGCCTA
Found at i:10926715 original size:91 final size:91
Alignment explanation
Indices: 10926399--10926715 Score: 395
Period size: 91 Copynumber: 3.5 Consensus size: 91
10926389 ATTAAAAATT
* * * *
10926399 AATTAATATAATAGTACAGCAGCATAAATTAA--ACAAAAAAAGTATGTTAAACTACATTTTAAA
1 AATTAATATAATAGTACAACAACATAAATTAATTAAAAAAAAAGTATGTTAAACTACAGTTTAAA
*
10926462 CTTTAAACTTAGTTAATTGAAGCCTA
66 CTTTAAAGTTAGTTAATTGAAGCCTA
* ** * * * *
10926488 AATTAATAGAATAGTACAAGTACAATAGCATAAATTAAACAAAAAAAGTATCTTAAACTATAGTT
1 AATTAATATAATAGTACAACAAC-ATA-AATTAATT-AA-AAAAAAAGTATGTTAAACTACAGTT
10926553 TAAACTTTAAAGTTAGTTAATTGAAGCCTA
62 TAAACTTTAAAGTTAGTTAATTGAAGCCTA
* * * ** * *
10926583 AATTAATATAATAGTACAATAGCATAAAGTAAACAAAAAAAAAGTCTGTTAAACCACAGTTTAAA
1 AATTAATATAATAGTACAACAACATAAATTAATTAAAAAAAAAGTATGTTAAACTACAGTTTAAA
10926648 CTTTAAAGTTAGTTAATTGAAGCCTA
66 CTTTAAAGTTAGTTAATTGAAGCCTA
* *
10926674 AATTAATATAATAGTACAACAACTTAAATTAATTAATAAAAA
1 AATTAATATAATAGTACAACAACATAAATTAATTAAAAAAAA
10926716 TCTGGTTGAG
Statistics
Matches: 190, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
89 18 0.09
90 3 0.02
91 90 0.47
92 2 0.01
93 3 0.02
94 4 0.02
95 70 0.37
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.30
Consensus pattern (91 bp):
AATTAATATAATAGTACAACAACATAAATTAATTAAAAAAAAAGTATGTTAAACTACAGTTTAAA
CTTTAAAGTTAGTTAATTGAAGCCTA
Found at i:10926914 original size:17 final size:17
Alignment explanation
Indices: 10926892--10926926 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10926882 TTTTCTCTAT
*
10926892 TAATATTACGTTATTAC
1 TAATATTACATTATTAC
*
10926909 TAATATTATATTATTAC
1 TAATATTACATTATTAC
10926926 T
1 T
10926927 TTGGGAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:10931611 original size:20 final size:20
Alignment explanation
Indices: 10931577--10931622 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
10931567 TAGTTTACAA
*
10931577 CAATACCAAAGAAAAATTAT
1 CAATACCAAAGAAAAAGTAT
* * *
10931597 CAATACCATATAAAAGGTAT
1 CAATACCAAAGAAAAAGTAT
10931617 CAATAC
1 CAATAC
10931623 TTTTTGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.22
Consensus pattern (20 bp):
CAATACCAAAGAAAAAGTAT
Found at i:10931635 original size:21 final size:21
Alignment explanation
Indices: 10931609--10931650 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10931599 ATACCATATA
10931609 AAAGGTATCAATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
*
10931630 AAAGGTATCGATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
10931651 GTAAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (21 bp):
AAAGGTATCAATACTTTTTGT
Found at i:10931851 original size:22 final size:24
Alignment explanation
Indices: 10931823--10931866 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
10931813 ATTTTGTTCA
10931823 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
10931845 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
10931867 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:10932039 original size:39 final size:40
Alignment explanation
Indices: 10931967--10932055 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 40
10931957 AATGAGATAT
* *
10931967 TGAAAGTATG-GAAGACATGCCACTGAATTGAAATTGAAA
1 TGAAAGCATGTGAAGACATGCCACTGAATAGAAATTGAAA
* *
10932006 TGGAAGCATGTGAAG-CATGCCACT-ATATAGAAATTGTAA
1 TGAAAGCATGTGAAGACATGCCACTGA-ATAGAAATTGAAA
10932045 TGAAAGCATGT
1 TGAAAGCATGT
10932056 ACTTAAGGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
38 1 0.02
39 38 0.88
40 4 0.09
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (40 bp):
TGAAAGCATGTGAAGACATGCCACTGAATAGAAATTGAAA
Found at i:10934799 original size:17 final size:16
Alignment explanation
Indices: 10934751--10934805 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
10934741 TAGGAAATTC
*
10934751 TATTTTAAGTTTAT-T
1 TATTTTAATTTTATAT
*
10934766 TATTTTTAATTAT-TAT
1 TA-TTTTAATTTTATAT
10934782 TATTTTAGATTTTATAT
1 TATTTTA-ATTTTATAT
10934799 TAATTTT
1 T-ATTTT
10934806 CTTAAGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 4 0.12
18 5 0.16
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
TATTTTAATTTTATAT
Found at i:10945097 original size:15 final size:15
Alignment explanation
Indices: 10945077--10945123 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
10945067 CTATTTTAAG
10945077 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
10945092 TTTATTTTAATTATTA
1 TTTATTTTAATT-TTA
10945108 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
10945123 T
1 T
10945124 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 23 0.79
16 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:10946354 original size:20 final size:21
Alignment explanation
Indices: 10946331--10946393 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 21
10946321 GTCTTTATTT
*
10946331 TAATTTAT-TTTTAATAATAA
1 TAATTTATAATTTAATAATAA
*
10946351 TAA-TCATAATTTAATAAT-A
1 TAATTTATAATTTAATAATAA
*
10946370 TAAATTATAATTTAATAA-AA
1 TAATTTATAATTTAATAATAA
10946390 TAAT
1 TAAT
10946394 AAATAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 7 0.19
20 29 0.81
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTTATAATTTAATAATAA
Found at i:10946402 original size:23 final size:21
Alignment explanation
Indices: 10946340--10946402 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
10946330 TTAATTTATT
*
10946340 TTTAATAATAAT-AATCATAA
1 TTTAATAATAATAAATAATAA
*
10946360 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAATAAATAATAA
10946380 TTTAATAAAATAATAAATAATAA
1 TTTAAT--AATAATAAATAATAA
10946403 ATATCTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.05
20 22 0.59
22 3 0.08
23 10 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAATAATAATAAATAATAA
Found at i:10946450 original size:38 final size:37
Alignment explanation
Indices: 10946386--10946460 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
10946376 ATAATTTAAT
*
10946386 AAAATAATAAATAATAAATATCTATATACTTAAATAA
1 AAAATAATAAATAATAAATATATATATACTTAAATAA
* * *
10946423 AAAAGTAATTAATAATTAAAT-TATATATATTTACATAA
1 AAAA-TAATAAATAA-TAAATATATATATACTTAAATAA
10946461 TTAAAATCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 4 0.12
38 23 0.72
39 5 0.16
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (37 bp):
AAAATAATAAATAATAAATATATATATACTTAAATAA
Found at i:10948114 original size:60 final size:60
Alignment explanation
Indices: 10948049--10948166 Score: 209
Period size: 60 Copynumber: 2.0 Consensus size: 60
10948039 ACCTTAGGTT
* *
10948049 ACATTTTAGTTACTTATATTTGAAATGTTAAGTTTTAGTCACTAACGTTATCGTGTTATA
1 ACATTTTAGTCACTTATATTTGAAATGTTAAGTTTTAGTCACTAACATTATCGTGTTATA
*
10948109 ACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACATTATCGTGTTA
1 ACATTTTAGTCACTTATATTTGAAATGTTAAGTTTTAGTCACTAACATTATCGTGTTA
10948167 ACGTTATCGT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.46
Consensus pattern (60 bp):
ACATTTTAGTCACTTATATTTGAAATGTTAAGTTTTAGTCACTAACATTATCGTGTTATA
Found at i:10948151 original size:29 final size:29
Alignment explanation
Indices: 10948046--10948151 Score: 88
Period size: 29 Copynumber: 3.6 Consensus size: 29
10948036 TGAACCTTAG
*
10948046 GTTACATTTTAGTTACTTATATTTGAAAT
1 GTTACATTTTAGTCACTTATATTTGAAAT
* ** ***
10948075 GTTA-AGTTTTAGTCACTAACGTTATCGTGTT
1 GTTACA-TTTTAGTCACTTATATT-T-GAAAT
* *
10948106 ATAACATTTTAGTCACTTATATTTGAAAT
1 GTTACATTTTAGTCACTTATATTTGAAAT
*
10948135 GTTACGTTTTAGTCACT
1 GTTACATTTTAGTCACT
10948152 AACATTATCG
Statistics
Matches: 55, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
28 1 0.02
29 33 0.60
30 2 0.04
31 18 0.33
32 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.47
Consensus pattern (29 bp):
GTTACATTTTAGTCACTTATATTTGAAAT
Found at i:10948170 original size:29 final size:29
Alignment explanation
Indices: 10948074--10948171 Score: 87
Period size: 29 Copynumber: 3.3 Consensus size: 29
10948064 ATATTTGAAA
*
10948074 TGTTAA-GTTTTAGTCACTAACGTTATCG
1 TGTTAACGTTTTAGTCACTAACATTATCG
* * *
10948102 TGTTATAACATTTTAGTCACTTATATT-T-G
1 TG-T-TAACGTTTTAGTCACTAACATTATCG
10948131 AAATGTT-ACGTTTTAGTCACTAACATTATCG
1 ---TGTTAACGTTTTAGTCACTAACATTATCG
10948162 TGTTAACGTT
1 TGTTAACGTT
10948172 ATCGTGTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
28 6 0.11
29 24 0.44
30 6 0.11
31 16 0.30
32 2 0.04
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (29 bp):
TGTTAACGTTTTAGTCACTAACATTATCG
Found at i:10948173 original size:14 final size:14
Alignment explanation
Indices: 10948151--10948180 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10948141 TTTTAGTCAC
10948151 TAACATTATCGTGT
1 TAACATTATCGTGT
*
10948165 TAACGTTATCGTGT
1 TAACATTATCGTGT
10948179 TA
1 TA
10948181 TAACATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (14 bp):
TAACATTATCGTGT
Found at i:10948179 original size:74 final size:74
Alignment explanation
Indices: 10948091--10948239 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
10948081 TTTTAGTCAC
10948091 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACA
1 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACA
*
10948156 TTATCGTGT
66 TTAACGTGT
10948165 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACA
1 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACA
10948230 TTAACGTGT
66 TTAACGTGT
10948239 T
1 T
10948240 GTAACATTTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (74 bp):
TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACA
TTAACGTGT
Found at i:10948434 original size:22 final size:21
Alignment explanation
Indices: 10948409--10948473 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
10948399 TTTAACTTTT
10948409 TTTTTCTTTATTTTCCATTATG
1 TTTTTCTTTATTTT-CATTATG
* * *
10948431 TTTTACTTTCTTTTAACTTA-G
1 TTTTTCTTTATTTTCA-TTATG
*
10948452 TTTTTCTATATTTTCATT-TG
1 TTTTTCTTTATTTTCATTATG
10948472 TT
1 TT
10948474 AAAATTAGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 5 0.15
21 14 0.41
22 15 0.44
ACGTcount: A:0.15, C:0.12, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTCTTTATTTTCATTATG
Found at i:10948434 original size:26 final size:26
Alignment explanation
Indices: 10948378--10948428 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10948368 TTTTGAGCAA
**
10948378 TTTTTTTTTCTTTTATGTTCTTTTAAC
1 TTTTTTTTTC-TTTATGTTCCATTAAC
*
10948405 TTTTTTTTTCTTTATTTTCCATTA
1 TTTTTTTTTCTTTATGTTCCATTA
10948429 TGTTTTACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTTTTTTTCTTTATGTTCCATTAAC
Found at i:10949133 original size:3 final size:3
Alignment explanation
Indices: 10949125--10949150 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10949115 TAGTCGTTTC
10949125 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
10949151 ACTGTTGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:10953903 original size:2 final size:2
Alignment explanation
Indices: 10953896--10953956 Score: 104
Period size: 2 Copynumber: 30.0 Consensus size: 2
10953886 TGGGAACATG
10953896 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
10953938 GA GA GA GA GG GA GA TGA GA
1 GA GA GA GA GA GA GA -GA GA
10953957 CATGGTCTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 54 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.51, T:0.02
Consensus pattern (2 bp):
GA
Found at i:10958989 original size:20 final size:20
Alignment explanation
Indices: 10958964--10959006 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
10958954 CAGAAAATGG
10958964 TTTCTGAAAAATGATTTA-TT
1 TTTCTG-AAAATGATTTACTT
*
10958984 TTTCTGGAAATGATTTACTT
1 TTTCTGAAAATGATTTACTT
10959004 TTT
1 TTT
10959007 TGGTGTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTCTGAAAATGATTTACTT
Found at i:10959453 original size:46 final size:46
Alignment explanation
Indices: 10959379--10959504 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
10959369 AATTAATAAT
* * *
10959379 ATTATCCAAATGCATAATTAGTAGTACACCACATGATAACAACAAC
1 ATTATCCAAATGCATAACTAATATTACACCACATGATAACAACAAC
*
10959425 ATTATCCAAGTGCATAACTAATATTACACCACATGATAACAACAAC
1 ATTATCCAAATGCATAACTAATATTACACCACATGATAACAACAAC
*
10959471 ATTGTCCAAATGCATAACTAATATTACACCACAT
1 ATTATCCAAATGCATAACTAATATTACACCACAT
10959505 TAAAAGTATT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.25
Consensus pattern (46 bp):
ATTATCCAAATGCATAACTAATATTACACCACATGATAACAACAAC
Found at i:10966287 original size:24 final size:24
Alignment explanation
Indices: 10966260--10966316 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
10966250 TTTCAAAACT
10966260 TAAGTACATAATTTATACAATACC
1 TAAGTACATAATTTATACAATACC
*
10966284 TAAGTACACAATTTATACAATACC
1 TAAGTACATAATTTATACAATACC
*
10966308 AAAGTACAT
1 TAAGTACAT
10966317 GCCACTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.30
Consensus pattern (24 bp):
TAAGTACATAATTTATACAATACC
Found at i:10966802 original size:23 final size:23
Alignment explanation
Indices: 10966776--10966836 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
10966766 TGAATTCCAA
10966776 CCAAACACACCAGAATAAACCAC
1 CCAAACACACCAGAATAAACCAC
*
10966799 CCAAACACACCAAAATAAACCAC
1 CCAAACACACCAGAATAAACCAC
10966822 CCAAACACACCAGAA
1 CCAAACACACCAGAA
10966837 CGGCACTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.54, C:0.39, G:0.03, T:0.03
Consensus pattern (23 bp):
CCAAACACACCAGAATAAACCAC
Found at i:10967853 original size:3 final size:3
Alignment explanation
Indices: 10967845--10967883 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
10967835 TTTATACTTT
10967845 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10967884 AAATTAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10967873 original size:20 final size:20
Alignment explanation
Indices: 10967848--10967892 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
10967838 ATACTTTATA
*
10967848 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAAAAAT
10967868 ATAATAATAATAATAAAAAT
1 ATAATAATAATAATAAAAAT
10967888 -TAATA
1 ATAATA
10967893 TAAATATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATAATAATAATAAAAAT
Found at i:10969753 original size:3 final size:3
Alignment explanation
Indices: 10969740--10969779 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
10969730 AAGATATTTA
10969740 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10969780 AAAGTATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10970794 original size:11 final size:11
Alignment explanation
Indices: 10970778--10970808 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
10970768 TCTACATGTG
10970778 TAATAATTATA
1 TAATAATTATA
10970789 TAATAATTATA
1 TAATAATTATA
10970800 TAATAATTA
1 TAATAATTA
10970809 ATTAACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATAATTATA
Found at i:10978964 original size:6 final size:6
Alignment explanation
Indices: 10978935--10978989 Score: 67
Period size: 6 Copynumber: 9.3 Consensus size: 6
10978925 ATTAAAGTTC
* * *
10978935 AAAATA GAAA-A AAAATA AACATA AAAATA AAAATA AAAATA AACATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
10978982 AAGATA AA
1 AAAATA AA
10978990 TGGACTCAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
5 4 0.10
6 38 0.90
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:10978972 original size:24 final size:23
Alignment explanation
Indices: 10978935--10978989 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
10978925 ATTAAAGTTC
*
10978935 AAAATAGAAAAAAAATAAACATA
1 AAAATAAAAAAAAAATAAACATA
10978958 AAAATAAAAATAAAAATAAACATA
1 AAAATAAAAA-AAAAATAAACATA
*
10978982 AAGATAAA
1 AAAATAAA
10978990 TGGACTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.15
Consensus pattern (23 bp):
AAAATAAAAAAAAAATAAACATA
Found at i:10980668 original size:3 final size:3
Alignment explanation
Indices: 10980662--10980774 Score: 113
Period size: 3 Copynumber: 37.7 Consensus size: 3
10980652 ATATTAAAGA
* * * * *
10980662 AAT AAT AAG AAT AAA AAT AAA AAT AAT AAT AAT AAG AAT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** *
10980710 ATT GACC AAT AAT AGAT AA- AAT AAT AAT AAT AAT AAT AAT AAG AA-
1 AAT -AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10980755 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
10980775 AGAAAAATAT
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
2 4 0.04
3 82 0.91
4 4 0.04
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:10980957 original size:23 final size:22
Alignment explanation
Indices: 10980911--10980960 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
10980901 ACGGAATGGT
10980911 AAGGG-GAAAGGAAAGAAGAAA
1 AAGGGAGAAAGGAAAGAAGAAA
*
10980932 AAGGGAGAAAGGGGAAGAA-AAGA
1 AAGGGAGAAA-GGAAAGAAGAA-A
10980955 AAGGGA
1 AAGGGA
10980961 AGAGAATGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 5 0.20
22 6 0.24
23 14 0.56
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (22 bp):
AAGGGAGAAAGGAAAGAAGAAA
Found at i:10985860 original size:30 final size:30
Alignment explanation
Indices: 10985824--10985881 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
10985814 CACGGGCTAC
*
10985824 CACATGGGCGTGTGGCT-AGCTCGTGTGGCT
1 CACATGGGCGTGT-GCTCAGCCCGTGTGGCT
*
10985854 CACATGGGCTTGTGCTCAGCCCGTGTGG
1 CACATGGGCGTGTGCTCAGCCCGTGTGG
10985882 AAATGGTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.10, C:0.26, G:0.38, T:0.26
Consensus pattern (30 bp):
CACATGGGCGTGTGCTCAGCCCGTGTGGCT
Found at i:10986521 original size:115 final size:116
Alignment explanation
Indices: 10986319--10986531 Score: 374
Period size: 115 Copynumber: 1.8 Consensus size: 116
10986309 TAGGGTGTTA
*
10986319 TAGAAATCATTAACAAATGGACTTAATTGATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
1 TAGAAATCATTAACAAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
10986384 AATTATATCAAGTAGCTTAATTGATTTT-TTTTAAAATTTCTCTCGAGAAT
66 AATTATATCAAGTAGCTTAATTGATTTTATTTTAAAATTTCTCTCGAGAAT
* *
10986434 TAGAAATCATTGACGAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
1 TAGAAATCATTAACAAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
* *
10986499 AATTATATCAAGTGGGTTAATTGATTTTATTTT
66 AATTATATCAAGTAGCTTAATTGATTTTATTTT
10986532 TTTTTTAAAT
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
115 88 0.96
116 4 0.04
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (116 bp):
TAGAAATCATTAACAAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
AATTATATCAAGTAGCTTAATTGATTTTATTTTAAAATTTCTCTCGAGAAT
Found at i:10986801 original size:29 final size:29
Alignment explanation
Indices: 10986763--10986821 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
10986753 ATGTTTGGAG
10986763 CAAAAAAATTAACATGAATTGGTAAACCT
1 CAAAAAAATTAACATGAATTGGTAAACCT
10986792 CAAAAAAATTAACATGAATTGGTAAACCT
1 CAAAAAAATTAACATGAATTGGTAAACCT
10986821 C
1 C
10986822 CCCCCCCCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (29 bp):
CAAAAAAATTAACATGAATTGGTAAACCT
Found at i:10994486 original size:2 final size:2
Alignment explanation
Indices: 10994479--10994508 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10994469 TCTTAACCAG
10994479 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10994509 CTTACCATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11002738 original size:12 final size:12
Alignment explanation
Indices: 11002721--11002754 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11002711 CGACCCACTC
11002721 ATATTAATTTTT
1 ATATTAATTTTT
*
11002733 ATATTATTTTTT
1 ATATTAATTTTT
11002745 ATA-TAATTTT
1 ATATTAATTTT
11002755 AAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:11002847 original size:14 final size:13
Alignment explanation
Indices: 11002814--11002846 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
11002804 TCCTAACAAA
11002814 TTAAAAATAAATT
1 TTAAAAATAAATT
*
11002827 TTGAAAATAAATT
1 TTAAAAATAAATT
11002840 TTAAAAA
1 TTAAAAA
11002847 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (13 bp):
TTAAAAATAAATT
Found at i:11002938 original size:30 final size:30
Alignment explanation
Indices: 11002894--11002956 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11002884 ATTTAACAAG
*
11002894 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
* *
11002924 CAAATATCTTTAAAATAATAACAAAATTTA
1 CAAATATCTCTAAAATAATAACAAAATTAA
11002954 CAA
1 CAA
11002957 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.29
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:11003011 original size:22 final size:22
Alignment explanation
Indices: 11002986--11003028 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11002976 TATCCAAACA
11002986 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
11003008 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
11003029 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:11003032 original size:11 final size:11
Alignment explanation
Indices: 11002993--11003033 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11002983 ACAATAACAA
11002993 CAAAATAGTAG
1 CAAAATAGTAG
* *
11003004 CAACATAATAG
1 CAAAATAGTAG
*
11003015 TAAAATAGTAG
1 CAAAATAGTAG
11003026 CAAAATAG
1 CAAAATAG
11003034 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:11008037 original size:24 final size:26
Alignment explanation
Indices: 11007983--11008034 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
11007973 TATCATTTAT
**
11007983 TTATT-TTAAAAA-ACTATACATATA
1 TTATTATTAAAAATACTATTTATATA
11008007 TTATTATTAAAAATACTATTTATATA
1 TTATTATTAAAAATACTATTTATATA
11008033 TT
1 TT
11008035 TATATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATTAAAAATACTATTTATATA
Found at i:11008044 original size:26 final size:25
Alignment explanation
Indices: 11007971--11008044 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 25
11007961 ATTTTTTATA
* *
11007971 TATATCATTTATTTATTTTAAAAAAC
1 TATA-CATATATTTATATTAAAAAAC
11007997 TATACATATA-TTATTATTAAAAATAC
1 TATACATATATTTA-TATTAAAAA-AC
**
11008023 TATTTATATATTTATA-TAAAAA
1 TATACATATATTTATATTAAAAA
11008045 TTTTATTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 3 0.07
25 19 0.46
26 16 0.39
27 3 0.07
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (25 bp):
TATACATATATTTATATTAAAAAAC
Found at i:11008084 original size:19 final size:21
Alignment explanation
Indices: 11008060--11008107 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
11008050 TTTATCATAC
*
11008060 ATTATTTTCCTATATATA-TT
1 ATTATTTTACTATATATACTT
*
11008080 A-TATTTTATTATATATACTT
1 ATTATTTTACTATATATACTT
11008100 ATTATTTT
1 ATTATTTT
11008108 TTTTATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 14 0.58
20 4 0.17
21 6 0.25
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATTTTACTATATATACTT
Found at i:11008114 original size:20 final size:19
Alignment explanation
Indices: 11008070--11008120 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
11008060 ATTATTTTCC
11008070 TATATATATTATATTTTAT
1 TATATATATTATATTTTAT
11008089 TATATATACTTATTATTTT-T
1 TATATATA-TTA-TATTTTAT
* *
11008109 TTTATATGTTAT
1 TATATATATTAT
11008121 GTATATCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 1 0.04
19 11 0.39
20 10 0.36
21 6 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TATATATATTATATTTTAT
Found at i:11008214 original size:14 final size:13
Alignment explanation
Indices: 11008195--11008234 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
11008185 TTAAAATTTG
11008195 TAAATCATTATTAT
1 TAAATCA-TATTAT
*
11008209 TAAATCATATTTT
1 TAAATCATATTAT
*
11008222 TAACTCATATTAT
1 TAAATCATATTAT
11008235 ATACACATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAATCATATTAT
Found at i:11008224 original size:13 final size:13
Alignment explanation
Indices: 11008190--11008232 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
11008180 TAATTTTAAA
*
11008190 ATTTGTAAATCATT
1 ATTTTTAAATCA-T
*
11008204 ATTATTAAATCAT
1 ATTTTTAAATCAT
*
11008217 ATTTTTAACTCAT
1 ATTTTTAAATCAT
11008230 ATT
1 ATT
11008233 ATATACACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.51
Consensus pattern (13 bp):
ATTTTTAAATCAT
Found at i:11008377 original size:22 final size:21
Alignment explanation
Indices: 11008349--11008405 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
11008339 CTTTTTATTT
11008349 ATATATTATTATTTTTAAACCA
1 ATATATTATTATTTTTAAA-CA
* *
11008371 ATATATTATTATTTTTATATA
1 ATATATTATTATTTTTAAACA
11008392 AT-TATTATTATTTT
1 ATATATTATTATTTT
11008406 ATTATATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.36
21 3 0.09
22 18 0.55
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTATTATTTTTAAACA
Found at i:11008380 original size:3 final size:3
Alignment explanation
Indices: 11008374--11008423 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
11008364 TAAACCAATA
* *
11008374 TAT TAT TAT TTT TA- TAT AAT TAT TAT TAT T-T TAT TAT ATAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
11008418 ATAT TA
1 -TAT TA
11008424 AATACTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 4 0.10
3 29 0.74
4 6 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:11008447 original size:25 final size:26
Alignment explanation
Indices: 11008413--11008461 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
11008403 TTTATTATAT
11008413 ATTATATATTAAATA-CTATTTTTAAA
1 ATTATATATTAAATATC-ATTTTTAAA
11008439 ATTAT-TATTAAATATCATTTTTA
1 ATTATATATTAAATATCATTTTTA
11008462 TTTGTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (26 bp):
ATTATATATTAAATATCATTTTTAAA
Found at i:11008449 original size:12 final size:13
Alignment explanation
Indices: 11008373--11008453 Score: 60
Period size: 14 Copynumber: 6.3 Consensus size: 13
11008363 TTAAACCAAT
**
11008373 ATATTATTATTTTT
1 ATATTATTA-TTAA
*
11008387 ATATAATTATT-A
1 ATATTATTATTAA
* *
11008399 TTATT-TTATTAT
1 ATATTATTATTAA
11008411 ATATTATATATTAA
1 ATATTAT-TATTAA
* *
11008425 ATACTATTTTTAA
1 ATATTATTATTAA
11008438 A-ATTATTATTAA
1 ATATTATTATTAA
11008450 ATAT
1 ATAT
11008454 CATTTTTATT
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
11 5 0.10
12 17 0.33
13 11 0.21
14 19 0.37
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (13 bp):
ATATTATTATTAA
Found at i:11011292 original size:46 final size:44
Alignment explanation
Indices: 11011233--11011347 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
11011223 ACAGGACAGA
* *
11011233 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
11011279 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
11011323 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
11011348 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:11011328 original size:44 final size:45
Alignment explanation
Indices: 11011233--11011366 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
11011223 ACAGGACAGA
* *
11011233 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
11011279 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
11011323 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
11011367 TAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:11022986 original size:50 final size:50
Alignment explanation
Indices: 11022862--11023110 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
11022852 GATAATAACA
* * ** * *
11022862 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
11022913 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
11022963 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
11023013 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
11023068 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
11023111 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:11023040 original size:100 final size:104
Alignment explanation
Indices: 11022861--11023110 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
11022851 TGATAATAAC
**
11022861 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
11022926 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
11022963 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11023026 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
11023068 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11023111 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:11023226 original size:13 final size:13
Alignment explanation
Indices: 11023205--11023236 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11023195 GCTTGGATCA
*
11023205 TCATCAAATAAAT
1 TCATAAAATAAAT
11023218 TCATAAAATAAAT
1 TCATAAAATAAAT
11023231 TCATAA
1 TCATAA
11023237 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11023483 original size:30 final size:30
Alignment explanation
Indices: 11023448--11023505 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11023438 CCTCGACTCT
*
11023448 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
11023478 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
11023506 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:11030543 original size:50 final size:50
Alignment explanation
Indices: 11030419--11030667 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
11030409 GATAATAACA
* * ** * *
11030419 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
11030470 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
11030520 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
11030570 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
11030625 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
11030668 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:11030597 original size:100 final size:104
Alignment explanation
Indices: 11030418--11030667 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
11030408 TGATAATAAC
**
11030418 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
11030483 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
11030520 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11030583 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
11030625 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11030668 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:11030783 original size:13 final size:13
Alignment explanation
Indices: 11030762--11030793 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11030752 GCTTGGATCA
*
11030762 TCATCAAATAAAT
1 TCATAAAATAAAT
11030775 TCATAAAATAAAT
1 TCATAAAATAAAT
11030788 TCATAA
1 TCATAA
11030794 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11031040 original size:30 final size:30
Alignment explanation
Indices: 11031005--11031062 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11030995 CCTCGACTCT
*
11031005 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
11031035 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
11031063 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:11033231 original size:205 final size:206
Alignment explanation
Indices: 11032570--11033495 Score: 1415
Period size: 206 Copynumber: 4.5 Consensus size: 206
11032560 GTAGATCTGG
*
11032570 CTGAAGCAAGATCCAAGATGGTTTGGCATCTTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* * * *
11032635 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAAATAATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* ** * * *
11032700 AGAACAAATCGAAGTTTGGCGTCTTCATATTCGACAAAGGGCAGACACATAGCATATCCAACCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCCAGCCTT
11032765 CAGATGTTTATA
195 CAGATGTTTATA
* * *
11032777 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAATGAGCAAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * *
11032842 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
11032907 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAGCCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCCAGCCTTC
11032972 AGATGTTTATA
196 AGATGTTTATA
* * * *
11032983 CTGAAGCAGATCCAATATGGTTTGGTATCCTTGTACTTACAAGGAGCAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * *
11033048 ATTTGGCTTTCACGTGATTACGTTGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * * * * *
11033113 GAACAAATCAAAGTCTGGCATCTCCA-CTTCGATGGAGAACAGATACATAGCAGATCCAGCCTTT
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCCAGCCTTC
11033177 AGATGTTTATA
196 AGATGTTTATA
*
11033188 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* *
11033253 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGGTGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
11033318 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACTTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCCAGCCTTC
* * *
11033383 AGACGATTAGA
196 AGATGTTTATA
* * *
11033394 CTGAAGGAGAT-CAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCAG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
11033458 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAG
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAG
11033496 CATCTCTATA
Statistics
Matches: 660, Mismatches: 58, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
205 276 0.42
206 377 0.57
207 7 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCCAGCCTTC
AGATGTTTATA
Found at i:11033341 original size:411 final size:412
Alignment explanation
Indices: 11032570--11033495 Score: 1415
Period size: 411 Copynumber: 2.2 Consensus size: 412
11032560 GTAGATCTGG
*
11032570 CTGAAGCAAGATCCAAGATGGTTTGGCATCTTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* * * * *
11032635 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAAATAATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGATTACGCTGAAGCAAATCTAAGATAATTTGACATCTCTGTATTGTCAG
* * * * ** *
11032700 AGAACAAATCGAAGTTTGGCGTCTTCATATTCGACAAAGGGCAGACACATAGCATATCCAACCTT
130 AGAACAAATCAAAGTCTGGCATCTCCATATTCGACAAAGAACAGACACATAGCAGATCCAACCTT
*
11032765 CAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAATGAGCAAATCA
195 CAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAGCAAATCA
* *
11032830 AAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATC
260 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATC
*
11032895 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
325 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCA
* * * *
11032960 GATCCAGCCTTCAGATGTTTATA
390 GATCCAACCTTCAGACGATTAGA
* * * *
11032983 CTGAAGCAGATCCAATATGGTTTGGTATCCTTGTACTTACAAGGAGCAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* *
11033048 ATTTGGCTTTCACGTGATTACGTTGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGATTACGCTGAAGCAAATCTAAGATAATTTGACATCTCTGTATTGTCAGA
* *** * * *
11033113 GAACAAATCAAAGTCTGGCATCTCCA-CTTCGATGGAGAACAGATACATAGCAGATCCAGCCTTT
131 GAACAAATCAAAGTCTGGCATCTCCATATTCGACAAAGAACAGACACATAGCAGATCCAACCTTC
* * *
11033177 AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGA
196 AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAGCAAATCAA
* * *
11033242 AGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGGTGATTTGGCATCTCT
261 AGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATCT
11033307 GTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAG
326 GTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAG
* *
11033372 ATCTAACTTTCAGACGATTAGA
391 ATCCAACCTTCAGACGATTAGA
* * *
11033394 CTGAAGGAGAT-CAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCAG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
11033458 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAG
66 ATTTGGCTTTCACGTGATTACGCTGAAGCAAATCTAAG
11033496 CATCTCTATA
Statistics
Matches: 462, Mismatches: 51, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
410 83 0.18
411 239 0.52
412 133 0.29
413 7 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (412 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGATTACGCTGAAGCAAATCTAAGATAATTTGACATCTCTGTATTGTCAGA
GAACAAATCAAAGTCTGGCATCTCCATATTCGACAAAGAACAGACACATAGCAGATCCAACCTTC
AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAGCAAATCAA
AGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATCT
GTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAG
ATCCAACCTTCAGACGATTAGA
Found at i:11035252 original size:16 final size:16
Alignment explanation
Indices: 11035231--11035263 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11035221 AATCTAACCC
11035231 TATAT-ATTTATTTATA
1 TATATAATTT-TTTATA
11035247 TATATAATTTTTTATA
1 TATATAATTTTTTATA
11035263 T
1 T
11035264 TGTTATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATAATTTTTTATA
Found at i:11035316 original size:8 final size:7
Alignment explanation
Indices: 11035295--11035503 Score: 50
Period size: 7 Copynumber: 29.1 Consensus size: 7
11035285 ACCCTATTTT
11035295 TATATT-
1 TATATTA
11035301 TATATTA
1 TATATTA
11035308 TATAGTTA
1 TATA-TTA
*
11035316 TTCTATTA
1 -TATATTA
*
11035324 TGTATTA
1 TATATTA
*
11035331 TTTA-TA
1 TATATTA
11035337 T-TATTA
1 TATATTA
11035343 TATTATTA
1 TA-TATTA
*
11035351 T-TTTTCA
1 TATATT-A
11035358 CTA-ATTA
1 -TATATTA
11035365 T-TATTA
1 TATATTA
*
11035371 TTTACATTA
1 --TATATTA
11035380 T-TATTTA
1 TATA-TTA
11035387 TATATTA
1 TATATTA
*
11035394 T-TGTTA
1 TATATTA
*
11035400 TATTTTTA
1 TA-TATTA
*
11035408 CTTGTATTA
1 --TATATTA
11035417 TATATT-
1 TATATTA
11035423 TATTAATTA
1 TA-T-ATTA
*
11035432 TTTA-TA
1 TATATTA
*
11035438 TGTATTA
1 TATATTA
11035445 TATATTA
1 TATATTA
*
11035452 TATTCACATA
1 TA-T-A-TTA
11035462 TATACTT-
1 TATA-TTA
11035469 TCATATTA
1 T-ATATTA
11035477 TATATTA
1 TATATTA
11035484 TA-ATTA
1 TATATTA
11035490 T-T-TTA
1 TATATTA
11035495 TATTATTA
1 TA-TATTA
11035503 T
1 T
11035504 GTCATTTTTT
Statistics
Matches: 154, Mismatches: 17, Indels: 62
0.66 0.07 0.27
Matches are distributed among these distances:
5 6 0.04
6 38 0.25
7 53 0.34
8 38 0.25
9 14 0.09
10 5 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (7 bp):
TATATTA
Found at i:11035324 original size:27 final size:24
Alignment explanation
Indices: 11035294--11035447 Score: 82
Period size: 25 Copynumber: 6.0 Consensus size: 24
11035284 AACCCTATTT
*
11035294 TTATATTTATATTATATAGTTATTCTA
1 TTATATTT-TATT-TATA-TTATTATA
* *
11035321 TTATGTATTATTTATATTATTATA
1 TTATATTTTATTTATATTATTATA
* *
11035345 TTATTATTTTTCACTAATTATTATTAT-
1 TTA-TA-TTTT-ATTTA-TATTATTATA
* *
11035372 TTACATTATTATTTATA-TATTATTG
1 TTATATT-TTATTTATATTATTA-TA
* *
11035397 TTATATTTTTACTTGTATTA-TATA
1 TTATA-TTTTATTTATATTATTATA
11035421 TT-TATTAATTATTTATATGTATTATA
1 TTATATT--TTATTTATAT-TATTATA
11035447 T
1 T
11035448 ATTATATTCA
Statistics
Matches: 98, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
22 2 0.02
23 7 0.07
24 24 0.24
25 25 0.26
26 19 0.19
27 12 0.12
28 9 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (24 bp):
TTATATTTTATTTATATTATTATA
Found at i:11035344 original size:40 final size:40
Alignment explanation
Indices: 11035289--11035395 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
11035279 TTTTTAACCC
11035289 TATT-TTTATA-T-TTATATTATATAGTTATT-CT-ATTAT
1 TATTATTTATATTATTATATTATATA-TTATTACTAATTAT
*
11035325 GTATTATTTATATTATTATATTAT-TATTTTTCACTAATTAT
1 -TATTATTTATATTATTATATTATATATTATT-ACTAATTAT
*
11035366 TATTATTTACATTATTAT-TTATATATTATT
1 TATTATTTATATTATTATATTATATATTATT
11035396 GTTATATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
37 4 0.07
38 10 0.17
39 7 0.12
40 34 0.57
41 5 0.08
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (40 bp):
TATTATTTATATTATTATATTATATATTATTACTAATTAT
Found at i:11035348 original size:17 final size:17
Alignment explanation
Indices: 11035297--11035544 Score: 73
Period size: 16 Copynumber: 14.2 Consensus size: 17
11035287 CCTATTTTTA
11035297 TATTTATATTA-TATAGT
1 TATTTATATTATTATA-T
* *
11035314 TA-TTCTATTA-TGTAT
1 TATTTATATTATTATAT
11035329 TATTTATATTATTATAT
1 TATTTATATTATTATAT
* *
11035346 TA-TTAT-TT-TT-CAC
1 TATTTATATTATTATAT
* *
11035359 TAATTATTATTATTTACAT
1 TATTTA-TATTA-TTATAT
11035378 TA-TTAT-TTA-TATAT
1 TATTTATATTATTATAT
*
11035392 TATTGTTATATTTTTACT-T
1 TA-T-TTATATTATTA-TAT
11035411 GTATTATATATTTATTA-AT
1 -TATT-TATA-TTATTATAT
11035430 TATTTATATGTATTATA-
1 TATTTATAT-TATTATAT
11035447 TA-TTATATTCACATATATACTT
1 TATTTATATT---AT-TATA--T
11035469 TCATATTATA-TATTATAAT
1 T-AT-TTATATTATTAT-AT
11035488 TATTTTATATTATTATGTCAT
1 TA-TTTATATTATTA--T-AT
* *
11035509 TTTTTATACTATTATAT
1 TATTTATATTATTATAT
11035526 T-TTT-TATCTA-TATAT
1 TATTTATAT-TATTATAT
11035541 TATT
1 TATT
11035545 ATCATTTAAT
Statistics
Matches: 180, Mismatches: 14, Indels: 75
0.67 0.05 0.28
Matches are distributed among these distances:
13 3 0.02
14 11 0.06
15 15 0.08
16 40 0.22
17 27 0.15
18 22 0.12
19 25 0.14
20 22 0.12
21 7 0.04
22 1 0.01
23 1 0.01
24 1 0.01
25 5 0.03
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTTATATTATTATAT
Found at i:11035351 original size:20 final size:20
Alignment explanation
Indices: 11035289--11035546 Score: 100
Period size: 20 Copynumber: 12.9 Consensus size: 20
11035279 TTTTTAACCC
11035289 TATT-TTTATA-T-TTATAT
1 TATTATTTATATTATTATAT
* *
11035306 TATATAGTTAT-TCTATTAT-G
1 TAT-TATTTATAT-TATTATAT
11035326 TATTATTTATATTATTATAT
1 TATTATTTATATTATTATAT
* * *
11035346 TATTATTTTTCACTAAT-TAT
1 TATTATTTAT-ATTATTATAT
*
11035366 TATTATTTACATTATTAT-T
1 TATTATTTATATTATTATAT
* *
11035385 TA-TATAT-TATTGTTATAT
1 TATTATTTATATTATTATAT
*
11035403 TTTTACTTGTATTATATATT-TAT
1 TATTA-TT-TA-TAT-TATTATAT
11035426 TAATTATTTATATGTATTATA-
1 T-ATTATTTATAT-TATTATAT
*
11035447 TATTATATTCACA-TA-TATACT
1 TATTAT-TT-ATATTATTATA-T
*
11035468 T-TCATATTATA-TATTATA-
1 TATTAT-TTATATTATTATAT
*
11035486 -ATTATTTTATATTATTATGT
1 TATTA-TTTATATTATTATAT
* * *
11035506 CATTTTTTATACTATTATATT
1 TATTATTTATATTATTATA-T
*
11035527 TTTTATCTATATATTATTAT
1 TATTAT-T-TATATTATTAT
11035547 CATTTAATTT
Statistics
Matches: 179, Mismatches: 31, Indels: 56
0.67 0.12 0.21
Matches are distributed among these distances:
17 10 0.06
18 14 0.08
19 40 0.22
20 56 0.31
21 27 0.15
22 7 0.04
23 19 0.11
24 6 0.03
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTATTTATATTATTATAT
Found at i:11035401 original size:11 final size:11
Alignment explanation
Indices: 11035289--11035544 Score: 71
Period size: 12 Copynumber: 22.6 Consensus size: 11
11035279 TTTTTAACCC
11035289 TATT-TTTATA
1 TATTATTTATA
11035299 T-TTATATTATA
1 TATTAT-TTATA
11035310 TAGTTATTCTAT-
1 TA-TTATT-TATA
*
11035322 TATGTATTATTTA
1 TAT-TATT-TATA
11035335 TATTA-TTATA
1 TATTATTTATA
11035345 TTATTATTT-T-
1 -TATTATTTATA
* *
11035355 TCACTAATTAT-
1 T-ATTATTTATA
*
11035366 TATTATTTACA
1 TATTATTTATA
11035377 TTATTATTTATA
1 -TATTATTTATA
11035389 TATTATTGTTATA
1 TATTA-T-TTATA
*
11035402 TTTTTACTTGTAT-
1 -TATTA-TT-TATA
11035415 TATATATTTAT-
1 TAT-TATTTATA
11035426 TAATTATTTATA
1 T-ATTATTTATA
*
11035438 T-GTA-TTATA
1 TATTATTTATA
*
11035447 TATTATATTCACA
1 TATTAT-TT-ATA
11035460 TATATACTTTCATA
1 TAT-TA-TTT-ATA
11035474 T-TATATATTATA
1 TAT-TAT-TTATA
11035486 -ATTATTT-TA
1 TATTATTTATA
*
11035495 TATTA-TTATG
1 TATTATTTATA
*
11035505 TCATTTTTTATA
1 T-ATTATTTATA
11035517 CTATTATATT-T-
1 -TATTAT-TTATA
*
11035528 T-TTATCTATA
1 TATTATTTATA
11035538 TATTATT
1 TATTATT
11035545 ATCATTTAAT
Statistics
Matches: 187, Mismatches: 22, Indels: 73
0.66 0.08 0.26
Matches are distributed among these distances:
8 1 0.01
9 18 0.10
10 30 0.16
11 42 0.22
12 47 0.25
13 32 0.17
14 16 0.09
15 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (11 bp):
TATTATTTATA
Found at i:11035453 original size:52 final size:50
Alignment explanation
Indices: 11035326--11035455 Score: 144
Period size: 49 Copynumber: 2.6 Consensus size: 50
11035316 TTCTATTATG
11035326 TATTATTTATATTATTATATTATTAT-TTTTCACTAATTATTATTATTTACAT
1 TATTATTTATATTATTATA-TATTATATTTTCACT-ATTATTATTATTTA-AT
* *
11035378 TATTATTTATA-TATTAT-TGTTATATTTTTACT-TGTATTATATATTT-AT
1 TATTATTTATATTATTATATATTATATTTTCACTAT-TATTAT-TATTTAAT
11035426 TAATTATTTATATGTATTATATATTATATT
1 T-ATTATTTATAT-TATTATATATTATATT
11035456 CACATATATA
Statistics
Matches: 68, Mismatches: 3, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
48 4 0.06
49 21 0.31
50 12 0.18
51 12 0.18
52 19 0.28
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (50 bp):
TATTATTTATATTATTATATATTATATTTTCACTATTATTATTATTTAAT
Found at i:11035465 original size:28 final size:28
Alignment explanation
Indices: 11035410--11035465 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
11035400 TATTTTTACT
* *
11035410 TGTATTATATATTTATTAATTATTTATA
1 TGTATTATATATTTATTAATCATATATA
*
11035438 TGTATTATATATTATATTCA-CATATATA
1 TGTATTATATATT-TATTAATCATATATA
11035466 CTTTCATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (28 bp):
TGTATTATATATTTATTAATCATATATA
Found at i:11035824 original size:17 final size:16
Alignment explanation
Indices: 11035801--11035859 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
11035791 CCAATATATT
11035801 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
11035817 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
11035833 -TATACTTTTTATTATATA
1 TTATA-TTTTTA-TATA-A
11035851 TTATATTTT
1 TTATATTTT
11035860 AAATCTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 2 0.06
15 7 0.20
16 7 0.20
17 10 0.29
18 5 0.14
19 4 0.11
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:11041203 original size:21 final size:21
Alignment explanation
Indices: 11041179--11041218 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11041169 ACTTGAGGGA
*
11041179 AAAGTTTGAGTGAATACTTCC
1 AAAGTTTGAGTGAACACTTCC
11041200 AAAGTTTGAGTGAACACTT
1 AAAGTTTGAGTGAACACTT
11041219 GAGAGACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (21 bp):
AAAGTTTGAGTGAACACTTCC
Found at i:11054566 original size:5 final size:5
Alignment explanation
Indices: 11054556--11054587 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11054546 AAAGGTGTGA
11054556 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11054588 GAACATACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:11054581 original size:9 final size:9
Alignment explanation
Indices: 11054557--11054587 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11054547 AAGGTGTGAA
11054557 AAATAAAAT
1 AAATAAAAT
11054566 AAAATAAAAT
1 -AAATAAAAT
11054576 AAATAAAAT
1 AAATAAAAT
11054585 AAA
1 AAA
11054588 GAACATACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:11059019 original size:5 final size:5
Alignment explanation
Indices: 11059009--11059049 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
11058999 CAATTTGTGA
11059009 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11059050 GAACACACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.24
5 26 0.76
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:11059029 original size:9 final size:9
Alignment explanation
Indices: 11059010--11059049 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
11059000 AATTTGTGAA
11059010 AAATAAAAT
1 AAATAAAAT
11059019 AAA-ATAAAT
1 AAATA-AAAT
11059028 AAAATAAAAT
1 -AAATAAAAT
11059038 AAATAAAAT
1 AAATAAAAT
11059047 AAA
1 AAA
11059050 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.04
9 19 0.68
10 7 0.25
11 1 0.04
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:11059029 original size:14 final size:14
Alignment explanation
Indices: 11059010--11059049 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
11059000 AATTTGTGAA
11059010 AAATAAAATAAAAT
1 AAATAAAATAAAAT
11059024 AAATAAAATAAAAT
1 AAATAAAATAAAAT
11059038 AAATAAAATAAA
1 AAATAAAATAAA
11059050 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:11061332 original size:56 final size:56
Alignment explanation
Indices: 11061246--11061359 Score: 183
Period size: 56 Copynumber: 2.0 Consensus size: 56
11061236 ATAATTATGA
* *
11061246 TATTAAATTATATCTATCATTGGGTGTGAAATTTTACAGAAGCATTTTGAGTATAT
1 TATTAAATTATATCTATCATTGGGTATGAAATTGTACAGAAGCATTTTGAGTATAT
* * *
11061302 TATTGAATTATATTTGTCATTGGGTATGAAATTGTACAGAAGCATTTTGAGTATAT
1 TATTAAATTATATCTATCATTGGGTATGAAATTGTACAGAAGCATTTTGAGTATAT
11061358 TA
1 TA
11061360 GTCGACATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (56 bp):
TATTAAATTATATCTATCATTGGGTATGAAATTGTACAGAAGCATTTTGAGTATAT
Found at i:11065788 original size:41 final size:41
Alignment explanation
Indices: 11065716--11065795 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
11065706 GTTTACTGAT
* ** ** *
11065716 TAATGTATATCTGATACTGTTACTGTGATGGGCTCAGGCTC
1 TAATGCATATCTGATACTGAAACTGAAATGGGCTAAGGCTC
11065757 TAATGCATATCTGATACTGAAACTGAAATGGGCTAAGGC
1 TAATGCATATCTGATACTGAAACTGAAATGGGCTAAGGC
11065796 CCGAACTGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (41 bp):
TAATGCATATCTGATACTGAAACTGAAATGGGCTAAGGCTC
Found at i:11078462 original size:27 final size:27
Alignment explanation
Indices: 11078401--11078462 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
11078391 GTTCGACAGG
* * *
11078401 ACATTAAACACGGGATAGTCAGCCGAG
1 ACATTAAACAAGGGATAGTCAGCCCAA
* *
11078428 ACACTAAACATAGGG-TAGTCTGCCCAA
1 ACATTAAACA-AGGGATAGTCAGCCCAA
11078455 ACATTAAA
1 ACATTAAA
11078463 TATGTGAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (27 bp):
ACATTAAACAAGGGATAGTCAGCCCAA
Found at i:11080543 original size:16 final size:16
Alignment explanation
Indices: 11080524--11080556 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11080514 TTTTTTTAAA
11080524 TTATTATTTAATTGAT
1 TTATTATTTAATTGAT
11080540 TTATTATTTAATTGAT
1 TTATTATTTAATTGAT
11080556 T
1 T
11080557 GCAATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (16 bp):
TTATTATTTAATTGAT
Found at i:11091225 original size:5 final size:5
Alignment explanation
Indices: 11091215--11091239 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11091205 ACAAATTTTG
11091215 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
11091240 TATCCCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:11091395 original size:25 final size:25
Alignment explanation
Indices: 11091367--11091417 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
11091357 CGTACGAGGA
11091367 TTCAAACACAAGACCTCCAACAAGC
1 TTCAAACACAAGACCTCCAACAAGC
11091392 TTCAAACACAAGACCTCCAACAAGC
1 TTCAAACACAAGACCTCCAACAAGC
11091417 T
1 T
11091418 AAGTCCTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.35, G:0.08, T:0.14
Consensus pattern (25 bp):
TTCAAACACAAGACCTCCAACAAGC
Found at i:11092608 original size:45 final size:45
Alignment explanation
Indices: 11092552--11092637 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
11092542 TCCTTGACCA
* *
11092552 AGTATAAATAATTAATAGA-AAATATTATGCAATTTAGTTAAATTT
1 AGTACAAATAATTAATA-ATAAATACTATGCAATTTAGTTAAATTT
* *
11092597 AGTACAAATAATTTATAATAAATACTATGTAATTTAGTTAA
1 AGTACAAATAATTAATAATAAATACTATGCAATTTAGTTAA
11092638 TTATTTAGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (45 bp):
AGTACAAATAATTAATAATAAATACTATGCAATTTAGTTAAATTT
Found at i:11094248 original size:30 final size:30
Alignment explanation
Indices: 11094213--11094303 Score: 182
Period size: 30 Copynumber: 3.0 Consensus size: 30
11094203 ATGTTTCAAA
11094213 ATTTTCAGTCATATATCAGATATGTACCAT
1 ATTTTCAGTCATATATCAGATATGTACCAT
11094243 ATTTTCAGTCATATATCAGATATGTACCAT
1 ATTTTCAGTCATATATCAGATATGTACCAT
11094273 ATTTTCAGTCATATATCAGATATGTACCAT
1 ATTTTCAGTCATATATCAGATATGTACCAT
11094303 A
1 A
11094304 CACATGTAGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (30 bp):
ATTTTCAGTCATATATCAGATATGTACCAT
Found at i:11103932 original size:40 final size:40
Alignment explanation
Indices: 11103720--11103925 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
11103710 AACCCAAGTA
* * *
11103720 CCTTCGGGATTTAG-CCGGTTATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
11103759 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
11103799 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
11103839 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
11103879 CCTTCGAGACTTAGCCCGGATATGGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
11103919 CCTTCGG
1 CCTTCGG
11103926 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.08
40 143 0.92
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:11112040 original size:40 final size:40
Alignment explanation
Indices: 11111828--11112033 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
11111818 AACCCAAGTA
* * *
11111828 CCTTCGGGATTTAG-CCGGTTATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
11111867 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
11111907 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
11111947 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
11111987 CCTTCGAGACTTAGCCCGGATATGGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
11112027 CCTTCGG
1 CCTTCGG
11112034 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.08
40 143 0.92
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:11117322 original size:49 final size:49
Alignment explanation
Indices: 11117244--11117489 Score: 294
Period size: 49 Copynumber: 5.0 Consensus size: 49
11117234 GTAGTCGAAG
* * *
11117244 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
11117293 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * *
11117343 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * * *
11117393 GTTATCAGGTACGCATAGTAGCCCGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
11117443 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACATACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
11117490 TCACAATAGC
Statistics
Matches: 164, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 79 0.48
50 48 0.29
51 37 0.23
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:11117480 original size:100 final size:99
Alignment explanation
Indices: 11117246--11117489 Score: 337
Period size: 100 Copynumber: 2.5 Consensus size: 99
11117236 AGTCGAAGCT
* * * * * *
11117246 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
* * *
11117311 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCCGCACTTAGTACTACACACGCGACCTAACA
* * *
11117345 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATA
*
11117410 GTAGCCCGCACTTAGTACTACACATGCGACC-AACA
64 GTAGCCCGCACTTAGTACTACACACGCGACCTAACA
*
11117445 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACATACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
11117490 TCACAATAGC
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 39 0.31
100 47 0.37
101 41 0.32
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
AGCCCGCACTTAGTACTACACACGCGACCTAACA
Found at i:11118384 original size:99 final size:99
Alignment explanation
Indices: 11118213--11118412 Score: 400
Period size: 99 Copynumber: 2.0 Consensus size: 99
11118203 GGAATTAAAC
11118213 TTCATCCCTTATTCTTATGTTTTATGACATGCTGATCATTTTTCCCTTCTATGACAACATCAAAT
1 TTCATCCCTTATTCTTATGTTTTATGACATGCTGATCATTTTTCCCTTCTATGACAACATCAAAT
11118278 TCTCACTCTAACATGCACTTATGACTATTAGGTA
66 TCTCACTCTAACATGCACTTATGACTATTAGGTA
11118312 TTCATCCCTTATTCTTATGTTTTATGACATGCTGATCATTTTTCCCTTCTATGACAACATCAAAT
1 TTCATCCCTTATTCTTATGTTTTATGACATGCTGATCATTTTTCCCTTCTATGACAACATCAAAT
11118377 TCTCACTCTAACATGCACTTATGACTATTAGGTA
66 TCTCACTCTAACATGCACTTATGACTATTAGGTA
11118411 TT
1 TT
11118413 TTTACCGATT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 101 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (99 bp):
TTCATCCCTTATTCTTATGTTTTATGACATGCTGATCATTTTTCCCTTCTATGACAACATCAAAT
TCTCACTCTAACATGCACTTATGACTATTAGGTA
Found at i:11121813 original size:23 final size:23
Alignment explanation
Indices: 11121785--11121832 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
11121775 ATCTTGCACA
*
11121785 CTCAGTTAACTTGTTAGTTCTTC
1 CTCAGTCAACTTGTTAGTTCTTC
11121808 CTCAGTCAACTTGTTAGTTCTTC
1 CTCAGTCAACTTGTTAGTTCTTC
11121831 CT
1 CT
11121833 TAGGCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.25, G:0.12, T:0.46
Consensus pattern (23 bp):
CTCAGTCAACTTGTTAGTTCTTC
Found at i:11122935 original size:18 final size:17
Alignment explanation
Indices: 11122908--11122947 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11122898 ATATTTTAAG
*
11122908 TATAAGATATTTATTATA
1 TATAATATA-TTATTATA
11122926 TATAATATATTATTATA
1 TATAATATATTATTATA
11122943 T-TAAT
1 TATAAT
11122948 TAATAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 9 0.43
18 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATAATATATTATTATA
Found at i:11122977 original size:9 final size:9
Alignment explanation
Indices: 11122963--11122988 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11122953 ATTAATTAAA
11122963 AAATAAAAG
1 AAATAAAAG
11122972 AAATAAAAG
1 AAATAAAAG
11122981 AAATAAAA
1 AAATAAAA
11122989 TAAAGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAATAAAAG
Found at i:11122995 original size:13 final size:14
Alignment explanation
Indices: 11122972--11123001 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
11122962 AAAATAAAAG
11122972 AAATAAAAGAAATA
1 AAATAAAAGAAATA
11122986 AAAT-AAAGAAATA
1 AAATAAAAGAAATA
11122999 AAA
1 AAA
11123002 AAACAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (14 bp):
AAATAAAAGAAATA
Found at i:11124143 original size:22 final size:21
Alignment explanation
Indices: 11124108--11124183 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
11124098 AAAAGGTATC
* *
11124108 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
11124129 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
11124152 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
11124171 TGC-AATCATATCT
1 TACAAATCATATCT
11124184 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:11124168 original size:19 final size:19
Alignment explanation
Indices: 11124144--11124234 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
11124134 AATCATATCT
11124144 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11124163 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
11124181 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
**
11124198 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
11124217 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11124235 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.24
19 35 0.53
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11124222 original size:36 final size:36
Alignment explanation
Indices: 11124121--11124234 Score: 131
Period size: 35 Copynumber: 3.0 Consensus size: 36
11124111 AAATTAAATC
11124121 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC--AATCATA---TCTAAGATTG-ATATCATA
*
11124163 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTACAATCATATCTAAGATTGATATCATA
*
11124198 TCTAAGATTATATATCATATCTAAGATTGCATATCAT
1 TCTAAGATTACA-ATCATATCTAAGATTG-ATATCAT
11124235 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
35 17 0.26
36 16 0.24
37 10 0.15
38 6 0.09
40 7 0.11
42 10 0.15
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.38
Consensus pattern (36 bp):
TCTAAGATTACAATCATATCTAAGATTGATATCATA
Done.