Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 45 of 135
Found at i:11667725 original size:53 final size:53
Alignment explanation
Indices: 11667595--11667843 Score: 374
Period size: 53 Copynumber: 4.7 Consensus size: 53
11667585 TTCGCATTTG
* *
11667595 ATAACTCACGATGACACAAAGTTATCGGACCTTTAATCCATGAT-GGCTTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCATGATAGGATTCAT
* * * * *
11667647 GTAACTCACGATGACACAAACTCATCGGACCCTTAATCCGTAATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCATGATAGGATTCAT
*
11667700 ATAACTCACGATGACACATAGTCATCGGACCTTTAATCCATGATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCATGATAGGATTCAT
* *
11667753 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTGATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCATGATAGGATTCAT
* * *
11667806 ATAACTCACTATGACATAGAGTCATCGGACCTTTAATC
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATC
11667844 TTTGGCACAA
Statistics
Matches: 179, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
52 38 0.21
53 141 0.79
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (53 bp):
ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCATGATAGGATTCAT
Found at i:11671337 original size:12 final size:12
Alignment explanation
Indices: 11671320--11671360 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
11671310 AAACATAAGC
11671320 AATTAAAATAAA
1 AATTAAAATAAA
*
11671332 AATTAAAAGAAA
1 AATTAAAATAAA
*
11671344 CAATAAAAATAAA
1 -AATTAAAATAAA
11671357 AATT
1 AATT
11671361 TCAAAGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (12 bp):
AATTAAAATAAA
Found at i:11674485 original size:3 final size:3
Alignment explanation
Indices: 11674471--11674503 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
11674461 CATTTGGATT
11674471 TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT
11674504 TTGTTTTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11674932 original size:18 final size:20
Alignment explanation
Indices: 11674897--11674933 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11674887 AATTATTTAA
11674897 AGGTTTGACTATCTTAGGTT
1 AGGTTTGACTATCTTAGGTT
11674917 AGGTTTGAC-A-CTTAGGT
1 AGGTTTGACTATCTTAGGT
11674934 GTTCCTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.41
Consensus pattern (20 bp):
AGGTTTGACTATCTTAGGTT
Found at i:11676151 original size:33 final size:33
Alignment explanation
Indices: 11676109--11676176 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
11676099 AGAAAACTTG
11676109 GTACGTAAAGGGTACGAAGCATTTTTGGCTTAT
1 GTACGTAAAGGGTACGAAGCATTTTTGGCTTAT
* *
11676142 GTACGTAAAGGGTGCGAAGCGTTTTTGGCTTAT
1 GTACGTAAAGGGTACGAAGCATTTTTGGCTTAT
11676175 GT
1 GT
11676177 CCAAGATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.34
Consensus pattern (33 bp):
GTACGTAAAGGGTACGAAGCATTTTTGGCTTAT
Found at i:11677067 original size:139 final size:139
Alignment explanation
Indices: 11676817--11677088 Score: 481
Period size: 139 Copynumber: 2.0 Consensus size: 139
11676807 AGATACTTCG
* *
11676817 TGAAAAGCAACTCTTTGCTAAACTCAGAAAATGTGAATTCTGGTTGAAGGAAGTGATGTTTTTGG
1 TGAAAAGCAACTCTTTACTAAACTCAGAAAATGTGAATTCTAGTTGAAGGAAGTGATGTTTTTGG
* * *
11676882 GTCACGTGGTATCGACTGAGGGTATTCGTGTAGATCTTGAAAAGGTTGAAGTTGTCCTAGATTTG
66 GTCACGTGGTATCGACTGAGGGTATTCGTGTAGATCTTAAAAAGGTTGAAGTTGACCTAGATTGG
11676947 AAGTAACCA
131 AAGTAACCA
* *
11676956 TGAAAAGCAACTCTTTACTAAACTTAGTAAATGTGAATTCTAGTTGAAGGAAGTGATGTTTTTGG
1 TGAAAAGCAACTCTTTACTAAACTCAGAAAATGTGAATTCTAGTTGAAGGAAGTGATGTTTTTGG
11677021 GTCACGTGGTATCGACTGAGGGTATTCGTGTAGATCTTAAAAAGGTTGAAGTTGACCTAGATTGG
66 GTCACGTGGTATCGACTGAGGGTATTCGTGTAGATCTTAAAAAGGTTGAAGTTGACCTAGATTGG
11677086 AAG
131 AAG
11677089 CAACAGATGA
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
139 126 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.32
Consensus pattern (139 bp):
TGAAAAGCAACTCTTTACTAAACTCAGAAAATGTGAATTCTAGTTGAAGGAAGTGATGTTTTTGG
GTCACGTGGTATCGACTGAGGGTATTCGTGTAGATCTTAAAAAGGTTGAAGTTGACCTAGATTGG
AAGTAACCA
Found at i:11678340 original size:15 final size:16
Alignment explanation
Indices: 11678317--11678355 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
11678307 TCTAAAGTAT
11678317 CTAAATTAAATTAA-A
1 CTAAATTAAATTAAGA
* *
11678332 CTAAGTTAAGTTAAGA
1 CTAAATTAAATTAAGA
11678348 CTAAATTA
1 CTAAATTA
11678356 TATTTCAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (16 bp):
CTAAATTAAATTAAGA
Found at i:11678982 original size:17 final size:18
Alignment explanation
Indices: 11678960--11678996 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
11678950 AGCCTATAAC
*
11678960 AATATAAACATG-AATTA
1 AATATAAACAAGCAATTA
11678977 AATATAAACAAGCAATTA
1 AATATAAACAAGCAATTA
11678995 AA
1 AA
11678997 CACAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (18 bp):
AATATAAACAAGCAATTA
Found at i:11681856 original size:18 final size:18
Alignment explanation
Indices: 11681833--11681903 Score: 73
Period size: 18 Copynumber: 4.3 Consensus size: 18
11681823 CTCCAAAGGA
11681833 TCTTCCTCAGGATCTTCT
1 TCTTCCTCAGGATCTTCT
11681851 TCTTCCTCAGGATC--C-
1 TCTTCCTCAGGATCTTCT
*
11681866 TC-TACT-A-GATCTTCT
1 TCTTCCTCAGGATCTTCT
* *
11681881 TCTTCTTCAGGGTCTTCT
1 TCTTCCTCAGGATCTTCT
11681899 TCTTC
1 TCTTC
11681904 TTTTTTAGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
12 4 0.09
13 1 0.02
14 4 0.09
15 4 0.09
16 3 0.07
17 1 0.02
18 26 0.60
ACGTcount: A:0.11, C:0.32, G:0.11, T:0.45
Consensus pattern (18 bp):
TCTTCCTCAGGATCTTCT
Found at i:11689554 original size:15 final size:16
Alignment explanation
Indices: 11689531--11689569 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
11689521 TCTAAAGTAT
*
11689531 CTAAATTAAATTAA-A
1 CTAAATTAAACTAACA
*
11689546 CTAAGTTAAACTAACA
1 CTAAATTAAACTAACA
11689562 CTAAATTA
1 CTAAATTA
11689570 TATTTCAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (16 bp):
CTAAATTAAACTAACA
Found at i:11693889 original size:43 final size:43
Alignment explanation
Indices: 11693840--11693966 Score: 155
Period size: 43 Copynumber: 3.0 Consensus size: 43
11693830 GACATTGAGA
* **
11693840 GGAACATTGTTTCCTAAAATTGAAAGTATGTGATTGATTGTGT
1 GGAACATTGTTTCCTAATATTGAAAGTATGTGATTGATTGAAT
* * * * *
11693883 GGAACATTGTTTCTTATTATTGAAAGTATGTCAATGAATGAAT
1 GGAACATTGTTTCCTAATATTGAAAGTATGTGATTGATTGAAT
* * *
11693926 AGAACACTGTTTCCTAATATTGATAGTATGTGATTGATTGA
1 GGAACATTGTTTCCTAATATTGAAAGTATGTGATTGATTGA
11693967 GAGCATGATA
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (43 bp):
GGAACATTGTTTCCTAATATTGAAAGTATGTGATTGATTGAAT
Found at i:11694212 original size:28 final size:28
Alignment explanation
Indices: 11694155--11694213 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
11694145 TACCAAGGGG
* **
11694155 ATTGGCAATCTTTATCGCATTATTTGTT
1 ATTGGCAATCTCTATCGCATTATTCATT
*
11694183 ATTGGTAATCTCTATCGCATTATTCATT
1 ATTGGCAATCTCTATCGCATTATTCATT
11694211 ATT
1 ATT
11694214 TGATAGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (28 bp):
ATTGGCAATCTCTATCGCATTATTCATT
Found at i:11697526 original size:13 final size:13
Alignment explanation
Indices: 11697505--11697538 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11697495 ACAATATAAT
11697505 AATAATAATCCTA
1 AATAATAATCCTA
*
11697518 AATATTAATCCTA
1 AATAATAATCCTA
*
11697531 AAAAATAA
1 AATAATAA
11697539 AGTTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:11698493 original size:19 final size:20
Alignment explanation
Indices: 11698446--11698510 Score: 64
Period size: 19 Copynumber: 3.3 Consensus size: 20
11698436 GCTAGGCGTG
11698446 GAATGAAGAGA-GAAATGAGA
1 GAATGAAGAGATG-AATGAGA
*
11698466 GAATAGAAGAGATGAATGA-T
1 GAAT-GAAGAGATGAATGAGA
* *
11698486 GAATGAAGGGATGATTGAGA
1 GAATGAAGAGATGAATGAGA
11698506 -AATGA
1 GAATGA
11698511 GGTTGAGGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 17 0.45
20 8 0.21
21 12 0.32
22 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (20 bp):
GAATGAAGAGATGAATGAGA
Found at i:11706558 original size:19 final size:19
Alignment explanation
Indices: 11706534--11706586 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
11706524 CAAGCATACG
11706534 ACAAAACAAAAATTCAAAA
1 ACAAAACAAAAATTCAAAA
*
11706553 ACAAAAGCAAACAA-TGAAAA
1 ACAAAA-CAAA-AATTCAAAA
* *
11706573 GCAAAGCAAAAATT
1 ACAAAACAAAAATT
11706587 TCTATGTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 2 0.07
19 11 0.39
20 13 0.46
21 2 0.07
ACGTcount: A:0.68, C:0.15, G:0.08, T:0.09
Consensus pattern (19 bp):
ACAAAACAAAAATTCAAAA
Found at i:11721394 original size:43 final size:43
Alignment explanation
Indices: 11721347--11721601 Score: 115
Period size: 43 Copynumber: 5.9 Consensus size: 43
11721337 CATAAATGCC
* **
11721347 GCTAAAGAACATGATATTTAGTGACGCTTTTCCCACAAACCCA
1 GCTAAAAAACATGATATTTAACGACGCTTTTCCCACAAACCCA
* * ** * *
11721390 GCTAAAAAATATGATCTTTAACGGTGCTTTTCTCACAAACCCC
1 GCTAAAAAACATGATATTTAACGACGCTTTTCCCACAAACCCA
* * * ** **
11721433 GTTAAAAAACATGGTCTTTAACGGTGCTTTTATCACAAACGCCA
1 GCTAAAAAACATGATATTTAACGACGCTTTTCCCACAAAC-CCA
* * * * *** *
11721477 -CTAAAGAACACGGA-CTTTAGCGACGCTTCAACCATAAACACC-
1 GCTAAAAAACA-TGATATTTAACGACGCTTTTCCCACAAAC-CCA
* * * ** * *
11721519 GCTAAAGAACATGATCTTTAGCGGTGTTTTTCCCACAAATGCCA
1 GCTAAAAAACATGATATTTAACGACGCTTTTCCCACAAA-CCCA
* * * *
11721563 -CTAAAAAATATGATCTTTAGCGA-GCCTTTTCTCACAAAC
1 GCTAAAAAACATGATATTTAACGACG-CTTTTCCCACAAAC
11721602 GTCGTTTTTC
Statistics
Matches: 164, Mismatches: 41, Indels: 15
0.75 0.19 0.07
Matches are distributed among these distances:
42 3 0.02
43 158 0.96
44 3 0.02
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
GCTAAAAAACATGATATTTAACGACGCTTTTCCCACAAACCCA
Found at i:11721462 original size:86 final size:84
Alignment explanation
Indices: 11721345--11721601 Score: 212
Period size: 86 Copynumber: 3.0 Consensus size: 84
11721335 TGCATAAATG
* * ** **
11721345 CCGCTAAAGAACATGATATTTAGTGACGCTTTTCCCACAAACCCAGCTAAAAAATATGATCTTTA
1 CCGCTAAAAAACATGATCTTTAACGGTGCTTTTCCCACAAACCCA-CTAAAAAATATGATCTTTA
* *
11721410 ACGGTGCTTTTCTCACAAACC
65 GCGG-GCTTTTCTCACAAACA
* * ** * * *
11721431 CCGTTAAAAAACATGGTCTTTAACGGTGCTTTTATCACAAACGCCACTAAAGAACACGGA-CTTT
1 CCGCTAAAAAACATGATCTTTAACGGTGCTTTTCCCACAAAC-CCACTAAAAAATA-TGATCTTT
* ** *
11721495 AGCGACGCTTCAAC-CATAAACA
64 AGCG-GGCTT-TTCTCACAAACA
* * * *
11721517 CCGCTAAAGAACATGATCTTTAGCGGTGTTTTTCCCACAAATGCCACTAAAAAATATGATCTTTA
1 CCGCTAAAAAACATGATCTTTAACGGTGCTTTTCCCACAAA-CCCACTAAAAAATATGATCTTTA
*
11721582 GCGAGCCTTTTCTCACAAAC
65 GCG-GGCTTTTCTCACAAAC
11721602 GTCGTTTTTC
Statistics
Matches: 129, Mismatches: 35, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
85 3 0.02
86 120 0.93
87 6 0.05
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (84 bp):
CCGCTAAAAAACATGATCTTTAACGGTGCTTTTCCCACAAACCCACTAAAAAATATGATCTTTAG
CGGGCTTTTCTCACAAACA
Found at i:11721703 original size:104 final size:104
Alignment explanation
Indices: 11721512--11721709 Score: 238
Period size: 104 Copynumber: 1.9 Consensus size: 104
11721502 CTTCAACCAT
* ** **
11721512 AAACACCGCTAAAGAACATGATCTTTAGCGGTGTTTTTCCCACAAATGCCACTAAAAAATATGAT
1 AAACACCGCTAAAGAACATGATCTTTAACGACGTTTTTCCCACAAACACCACTAAAAAATATGAT
*
11721577 CTTTAGCGAGCCTTTTCTCACAAACGTCGTTTTTCTCAC
66 CTTTAACGAGCCTTTTCTCACAAACGTCGTTTTTCTCAC
* * * * * *
11721616 AAACCCCGCTAAAGAGCATGATCTTTAATGACGTTTTTCCCACAAACACCA-TTATAAATAATGT
1 AAACACCGCTAAAGAACATGATCTTTAACGACGTTTTTCCCACAAACACCACTAAAAAAT-ATGA
* *
11721680 TCTTTAACGA-CGTTTTTTCCACAAACGTCG
65 TCTTTAACGAGCCTTTTCT-CACAAACGTCG
11721710 CTAAAATTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
103 12 0.15
104 66 0.85
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.31
Consensus pattern (104 bp):
AAACACCGCTAAAGAACATGATCTTTAACGACGTTTTTCCCACAAACACCACTAAAAAATATGAT
CTTTAACGAGCCTTTTCTCACAAACGTCGTTTTTCTCAC
Found at i:11724519 original size:37 final size:37
Alignment explanation
Indices: 11724469--11724580 Score: 224
Period size: 37 Copynumber: 3.0 Consensus size: 37
11724459 GAGAAAATAC
11724469 CTTAAAAGGAAAAATAAAAACCATTAAACCATATCAT
1 CTTAAAAGGAAAAATAAAAACCATTAAACCATATCAT
11724506 CTTAAAAGGAAAAATAAAAACCATTAAACCATATCAT
1 CTTAAAAGGAAAAATAAAAACCATTAAACCATATCAT
11724543 CTTAAAAGGAAAAATAAAAACCATTAAACCATATCAT
1 CTTAAAAGGAAAAATAAAAACCATTAAACCATATCAT
11724580 C
1 C
11724581 CCAGATAGCT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.56, C:0.17, G:0.05, T:0.21
Consensus pattern (37 bp):
CTTAAAAGGAAAAATAAAAACCATTAAACCATATCAT
Found at i:11728438 original size:41 final size:41
Alignment explanation
Indices: 11728377--11728613 Score: 225
Period size: 41 Copynumber: 5.8 Consensus size: 41
11728367 TGTAAATAAA
* * * * *
11728377 TTAGCCGCG-TTTCCCATAAACGCCACTATTGCT-TAACCT
1 TTAGCGGCGTTTTCCTATAAACGCCGCTAATGCTCTTACCT
* *
11728416 TTAGCGGCGTTTTTCCTATAAACGCCGCTAATGCTTTTACTT
1 TTAGCGGCG-TTTTCCTATAAACGCCGCTAATGCTCTTACCT
* * * *
11728458 TTAGTGGTGTTTT-CTCATAAACGTCGCTAATGCTCTTATCT
1 TTAGCGGCGTTTTCCT-ATAAACGCCGCTAATGCTCTTACCT
*
11728499 TTAGCGGCGTTTTCTCT-TAAACGCCGCTAATGCTCTGACCT
1 TTAGCGGCGTTTTC-CTATAAACGCCGCTAATGCTCTTACCT
* * *
11728540 TTAGCGGCGTTTT-CTCACAAACGCCGCTAGTGCTCTGACCT
1 TTAGCGGCGTTTTCCT-ATAAACGCCGCTAATGCTCTTACCT
* * *
11728581 TTAGTGGCATTTT-CTCATAAATGCCGCTAATGC
1 TTAGCGGCGTTTTCCT-ATAAACGCCGCTAATGC
11728614 GCTAAAGGTC
Statistics
Matches: 166, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
39 10 0.06
40 2 0.01
41 141 0.85
42 11 0.07
43 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (41 bp):
TTAGCGGCGTTTTCCTATAAACGCCGCTAATGCTCTTACCT
Found at i:11728528 original size:82 final size:82
Alignment explanation
Indices: 11728377--11728613 Score: 255
Period size: 82 Copynumber: 2.9 Consensus size: 82
11728367 TGTAAATAAA
* * * * * *
11728377 TTAGCCGCG-TTTCCCATAAACGCCACTATTGCT-TAACCTTTAGCGGCGTTTT-TCCTATAAAC
1 TTAGCGGCGTTTTCTCACAAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCT-CT-TAAAC
* * *
11728439 GCCGCTAATGCTTTTACTT
64 GCCGCTAATGCTCTGACCT
* * * * * *
11728458 TTAGTGGTGTTTTCTCATAAACGTCGCTAATGCTCTTATCTTTAGCGGCGTTTTCTCTTAAACGC
1 TTAGCGGCGTTTTCTCACAAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCTCTTAAACGC
11728523 CGCTAATGCTCTGACCT
66 CGCTAATGCTCTGACCT
* * * * *
11728540 TTAGCGGCGTTTTCTCACAAACGCCGCTAGTGCTCTGACCTTTAGTGGCATTTTCTCATAAATGC
1 TTAGCGGCGTTTTCTCACAAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCTCTTAAACGC
11728605 CGCTAATGC
66 CGCTAATGC
11728614 GCTAAAGGTC
Statistics
Matches: 130, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
81 6 0.05
82 104 0.80
83 19 0.15
84 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (82 bp):
TTAGCGGCGTTTTCTCACAAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCTCTTAAACGC
CGCTAATGCTCTGACCT
Found at i:11728931 original size:31 final size:32
Alignment explanation
Indices: 11728895--11728959 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
11728885 CACAAAAATT
**
11728895 ATAAAAATA-TTAATTAA-ATTATAAAAATGAA
1 ATAAAAATATTTAAAAAATATTA-AAAAATGAA
11728926 ATAAAAATATTTAAAAAATATTAAAAAATGAA
1 ATAAAAATATTTAAAAAATATTAAAAAATGAA
11728958 AT
1 AT
11728960 TAATTCTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 9 0.30
32 17 0.57
33 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (32 bp):
ATAAAAATATTTAAAAAATATTAAAAAATGAA
Found at i:11728933 original size:20 final size:20
Alignment explanation
Indices: 11728888--11728952 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
11728878 CTATTCACAC
11728888 AAAAATTATAAAAATATTAAT
1 AAAAATTATAAAAATA-TAAT
*
11728909 -TAAATTATAAAAATGA-AAT
1 AAAAATTATAAAAAT-ATAAT
* *
11728928 AAAAATATTTAAAAA-ATATT
1 AAAAAT-TATAAAAATATAAT
11728948 AAAAA
1 AAAAA
11728953 ATGAAATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
19 4 0.11
20 24 0.67
21 8 0.22
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAATTATAAAAATATAAT
Found at i:11735699 original size:18 final size:20
Alignment explanation
Indices: 11735668--11735705 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
11735658 TGTAGATCAC
11735668 CTTTAATGGAAGG-TGAGGT
1 CTTTAATGGAAGGTTGAGGT
*
11735687 CTTT-ATGGCAGGTTGAGGT
1 CTTTAATGGAAGGTTGAGGT
11735706 TGGTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.21, C:0.08, G:0.37, T:0.34
Consensus pattern (20 bp):
CTTTAATGGAAGGTTGAGGT
Found at i:11740070 original size:21 final size:21
Alignment explanation
Indices: 11740040--11740088 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
11740030 TAATTAATCA
*
11740040 TAAACAAAAACAAATATTTTTT
1 TAAA-AAAAACAAATATGTTTT
*
11740062 TAAAAAAAAGAAATATGTTTT
1 TAAAAAAAACAAATATGTTTT
11740083 TAAAAA
1 TAAAAA
11740089 TTGACTGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (21 bp):
TAAAAAAAACAAATATGTTTT
Found at i:11743258 original size:13 final size:13
Alignment explanation
Indices: 11743240--11743293 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
11743230 CAAAACAAAA
11743240 TAAATTTAAGTTT
1 TAAATTTAAGTTT
*
11743253 TAAATTTAAG-CT
1 TAAATTTAAGTTT
*
11743265 TCAATTTAAGTTT
1 TAAATTTAAGTTT
11743278 TCAAAATTTAA-TTT
1 T--AAATTTAAGTTT
11743292 TA
1 TA
11743294 TTAGGACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
12 11 0.32
13 12 0.35
14 4 0.12
15 7 0.21
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (13 bp):
TAAATTTAAGTTT
Found at i:11743800 original size:32 final size:31
Alignment explanation
Indices: 11743764--11743845 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 31
11743754 TTTGGGTTAG
11743764 GACTAAAATT-TCAAAATTCAAAAAAATAAAGA
1 GACTAAAATTGTC-AAATTC-AAAAAATAAAGA
*
11743796 GACTAAAATTGTCCAATTCAAAAAATAAA-A
1 GACTAAAATTGTCAAATTCAAAAAATAAAGA
*
11743826 GAATTAAAATTGATCAAATT
1 G-ACTAAAATTG-TCAAATT
11743846 AAAGTATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
30 2 0.05
31 19 0.43
32 21 0.48
33 2 0.05
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (31 bp):
GACTAAAATTGTCAAATTCAAAAAATAAAGA
Found at i:11743822 original size:31 final size:32
Alignment explanation
Indices: 11743764--11743843 Score: 94
Period size: 31 Copynumber: 2.5 Consensus size: 32
11743754 TTTGGGTTAG
11743764 GACTAAAATT-TCAAAATTCAAAAAAATAAAGA
1 GACTAAAATTGTCAAAATTCAAAAAAATAAA-A
*
11743796 GACTAAAATTGTC-CAATTC-AAAAAATAAAA
1 GACTAAAATTGTCAAAATTCAAAAAAATAAAA
*
11743826 GAATTAAAATTGATCAAA
1 G-ACTAAAATTG-TCAAA
11743844 TTAAAGTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 2 0.05
31 19 0.46
32 17 0.41
33 3 0.07
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (32 bp):
GACTAAAATTGTCAAAATTCAAAAAAATAAAA
Found at i:11745555 original size:16 final size:17
Alignment explanation
Indices: 11745536--11745570 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11745526 TTAAAAATGT
*
11745536 AAAATAT-TAATAAATA
1 AAAATATATAAAAAATA
11745552 AAAATATATAAAAAATA
1 AAAATATATAAAAAATA
11745569 AA
1 AA
11745571 TTAATTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATATATAAAAAATA
Found at i:11746619 original size:36 final size:36
Alignment explanation
Indices: 11746572--11746646 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
11746562 AAACCTTGAC
*
11746572 AAGAAGAAGACATTGATATACCTTAATAAGACTAGA
1 AAGAAGAAGACATTGATATACCTTAATAAGACTACA
11746608 AAGAAGAAGACATTGATATACCTTAATAAGACTACA
1 AAGAAGAAGACATTGATATACCTTAATAAGACTACA
11746644 AAG
1 AAG
11746647 TTTGACTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (36 bp):
AAGAAGAAGACATTGATATACCTTAATAAGACTACA
Found at i:11751596 original size:26 final size:26
Alignment explanation
Indices: 11751567--11751619 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
11751557 TCTTTCAAAA
11751567 ATTTTAGCTCAAACGAGCCCAAACAG
1 ATTTTAGCTCAAACGAGCCCAAACAG
*** *
11751593 ATTTTAGCTTTTATGAGCCCAAACAG
1 ATTTTAGCTCAAACGAGCCCAAACAG
11751619 A
1 A
11751620 ATATCACTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (26 bp):
ATTTTAGCTCAAACGAGCCCAAACAG
Found at i:11751651 original size:25 final size:25
Alignment explanation
Indices: 11751600--11751724 Score: 117
Period size: 25 Copynumber: 5.0 Consensus size: 25
11751590 CAGATTTTAG
*
11751600 CTTTTATGAGCCCAAACAGAATATCA
1 CTTTTATGAG-CCAGACAGAATATCA
*
11751626 CTTTTATGAGCCAGATAGAATATCA
1 CTTTTATGAGCCAGACAGAATATCA
* ** * *
11751651 CTCTTACAAGTCAGACAGAATATCG
1 CTTTTATGAGCCAGACAGAATATCA
*
11751676 CTTTTACT-AGCCAGACAGAATATCG
1 CTTTTA-TGAGCCAGACAGAATATCA
* * * *
11751701 CTATAACGAGCCAAACAGAATATC
1 CTTTTATGAGCCAGACAGAATATC
11751725 TTATACGCCT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
25 72 0.88
26 10 0.12
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (25 bp):
CTTTTATGAGCCAGACAGAATATCA
Found at i:11751719 original size:50 final size:50
Alignment explanation
Indices: 11751611--11751724 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
11751601 TTTTATGAGC
* * *
11751611 CCAAACAGAATATCACTTTTATGAGCCAGATAGAATATCACTCTTACAAG
1 CCAAACAGAATATCACTTTTATGAGCCAGACAGAATATCACTATAACAAG
* * * * *
11751661 TCAGACAGAATATCGCTTTTACT-AGCCAGACAGAATATCGCTATAACGAG
1 CCAAACAGAATATCACTTTTA-TGAGCCAGACAGAATATCACTATAACAAG
11751711 CCAAACAGAATATC
1 CCAAACAGAATATC
11751725 TTATACGCCT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 52 0.98
51 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (50 bp):
CCAAACAGAATATCACTTTTATGAGCCAGACAGAATATCACTATAACAAG
Found at i:11754817 original size:16 final size:17
Alignment explanation
Indices: 11754785--11754826 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
11754775 ACAGAATTAG
11754785 AATTGAATTGAGAAAATT
1 AATT-AATTGAGAAAATT
*
11754803 ATTTAATTG-GAAAATT
1 AATTAATTGAGAAAATT
11754819 AATTAATT
1 AATTAATT
11754827 TAATTAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 5 0.23
18 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (17 bp):
AATTAATTGAGAAAATT
Found at i:11758377 original size:2 final size:2
Alignment explanation
Indices: 11758372--11758406 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11758362 ACACACACAC
11758372 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11758407 ATTTTTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11759885 original size:20 final size:22
Alignment explanation
Indices: 11759862--11759915 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
11759852 AAAACGTATA
*
11759862 AAAAATAACATCCAAACA-A-C
1 AAAAATAACAACCAAACAGAGC
*
11759882 AAAAACAACAACCAAACAGTAGC
1 AAAAATAACAACCAAACAG-AGC
11759905 AAAAATAACAA
1 AAAAATAACAA
11759916 TAAAAATAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 16 0.57
22 1 0.04
23 11 0.39
ACGTcount: A:0.67, C:0.22, G:0.04, T:0.07
Consensus pattern (22 bp):
AAAAATAACAACCAAACAGAGC
Found at i:11759893 original size:12 final size:12
Alignment explanation
Indices: 11759876--11759988 Score: 52
Period size: 12 Copynumber: 9.4 Consensus size: 12
11759866 ATAACATCCA
11759876 AACAACAAAAAC
1 AACAACAAAAAC
*
11759888 AACAAC-CAAAC
1 AACAACAAAAAC
** * *
11759899 AGTAGCAAAAAT
1 AACAACAAAAAC
* *
11759911 AACAATAAAAAT
1 AACAACAAAAAC
* *
11759923 AGCAGCAAAAAC
1 AACAACAAAAAC
*
11759935 AACACCAAAAAAC
1 AACAAC-AAAAAC
*
11759948 AACAAAAAAAAGC
1 AACAACAAAAA-C
* * *
11759961 ACACACCAGAGAC
1 A-ACAACAAAAAC
11759974 AAC-A-AAAAAC
1 AACAACAAAAAC
11759984 AACAA
1 AACAA
11759989 TATAATGTTT
Statistics
Matches: 71, Mismatches: 25, Indels: 11
0.66 0.23 0.10
Matches are distributed among these distances:
10 7 0.10
11 8 0.11
12 36 0.51
13 14 0.20
14 6 0.08
ACGTcount: A:0.67, C:0.23, G:0.06, T:0.04
Consensus pattern (12 bp):
AACAACAAAAAC
Found at i:11759944 original size:23 final size:24
Alignment explanation
Indices: 11759881--11759944 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 24
11759871 ATCCAAACAA
*
11759881 CAAAAACAACAACC-AAACAGTAG
1 CAAAAACAACAACCAAAACAGCAG
* ** *
11759904 CAAAAATAACAATAAAAATAGCAG
1 CAAAAACAACAACCAAAACAGCAG
11759928 CAAAAACAAC-ACCAAAA
1 CAAAAACAACAACCAAAA
11759945 AACAACAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 16 0.50
24 16 0.50
ACGTcount: A:0.66, C:0.22, G:0.06, T:0.06
Consensus pattern (24 bp):
CAAAAACAACAACCAAAACAGCAG
Found at i:11759944 original size:24 final size:24
Alignment explanation
Indices: 11759881--11759945 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
11759871 ATCCAAACAA
*
11759881 CAAAAACAACAACC--AAACAGTAG
1 CAAAAACAAC-ACCAAAAACAGCAG
* ** *
11759904 CAAAAATAACAATAAAAATAGCAG
1 CAAAAACAACACCAAAAACAGCAG
11759928 CAAAAACAACACCAAAAA
1 CAAAAACAACACCAAAAA
11759946 ACAACAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
22 1 0.03
23 9 0.28
24 22 0.69
ACGTcount: A:0.66, C:0.22, G:0.06, T:0.06
Consensus pattern (24 bp):
CAAAAACAACACCAAAAACAGCAG
Found at i:11761533 original size:30 final size:30
Alignment explanation
Indices: 11761492--11761552 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
11761482 AAAAAACACA
* *
11761492 TAAACCTTAAAAAAGGTTTGGATCGAGTTT
1 TAAACCCTAAAAAAGGTTTGAATCGAGTTT
*
11761522 TAAACCCTAAAAAAGGTTTGAATTGAGTTT
1 TAAACCCTAAAAAAGGTTTGAATCGAGTTT
11761552 T
1 T
11761553 CGGGTCATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (30 bp):
TAAACCCTAAAAAAGGTTTGAATCGAGTTT
Found at i:11764116 original size:294 final size:294
Alignment explanation
Indices: 11763587--11764175 Score: 1133
Period size: 294 Copynumber: 2.0 Consensus size: 294
11763577 ATTTCGTTGA
*
11763587 GTACTCTTGATTCAAAAGGACACAGGTACACAATTGAAAGTGGGGTTCTAAAGATTAGCAATGGC
1 GTACTCTTGATTCAAAAGGACACAGGTACACAATTGAAAGTGGGGTTCTAAAGATTAGCAAGGGC
*
11763652 TCCCTCATTGTGATGAAAAGGCAGAGAAAGACTGCCAAAGTATATGTTTTGCAAGGTTTAACTAT
66 TCCCTCATTGTGATGAAAAGGCAGAGAAAGACTACCAAAGTATATGTTTTGCAAGGTTTAACTAT
11763717 TACTAGTGATGCTGCAGTTGCTTCCTCTTCCTTATCAGATGATGATATTACTAGACTTTGGCATA
131 TACTAGTGATGCTGCAGTTGCTTCCTCTTCCTTATCAGATGATGATATTACTAGACTTTGGCATA
*
11763782 TGCGTCTAGGGCATATGAGTGAAAATGACATGCCAGAATTGAGTAAAAGAGGACTTCTTGATGGG
196 TGCGTCTAGGGCATATGAGTGAAAATGACATGCCAGAATTGAGTAAAAGAGGACTTCTTAATGGG
11763847 CAAGGCATTAGCAAACTGAAGTTCTGTGTGCATT
261 CAAGGCATTAGCAAACTGAAGTTCTGTGTGCATT
11763881 GTACTCTTGATTCAAAAGGACACAGGTACACAATTGAAAGTGGGGTTCTAAAGATTAGCAAGGGC
1 GTACTCTTGATTCAAAAGGACACAGGTACACAATTGAAAGTGGGGTTCTAAAGATTAGCAAGGGC
*
11763946 TCCCTCATTGTGATGAAAAGGCAGAGAAAGACTACCAAATTATATGTTTTGCAAGGTTTAACTAT
66 TCCCTCATTGTGATGAAAAGGCAGAGAAAGACTACCAAAGTATATGTTTTGCAAGGTTTAACTAT
11764011 TACTAGTGATGCTGCAGTTGCTTCCTCTTCCTTATCAGATGATGATATTACTAGACTTTGGCATA
131 TACTAGTGATGCTGCAGTTGCTTCCTCTTCCTTATCAGATGATGATATTACTAGACTTTGGCATA
*
11764076 TGCGTCTAGGGCATATGAGTGAAAATGGCATGCCAGAATTGAGTAAAAGAGGACTTCTTAATGGG
196 TGCGTCTAGGGCATATGAGTGAAAATGACATGCCAGAATTGAGTAAAAGAGGACTTCTTAATGGG
11764141 CAAGGCATTAGCAAACTGAAGTTCTGTGTGCATT
261 CAAGGCATTAGCAAACTGAAGTTCTGTGTGCATT
11764175 G
1 G
11764176 CGTTTTTGGG
Statistics
Matches: 290, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
294 290 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (294 bp):
GTACTCTTGATTCAAAAGGACACAGGTACACAATTGAAAGTGGGGTTCTAAAGATTAGCAAGGGC
TCCCTCATTGTGATGAAAAGGCAGAGAAAGACTACCAAAGTATATGTTTTGCAAGGTTTAACTAT
TACTAGTGATGCTGCAGTTGCTTCCTCTTCCTTATCAGATGATGATATTACTAGACTTTGGCATA
TGCGTCTAGGGCATATGAGTGAAAATGACATGCCAGAATTGAGTAAAAGAGGACTTCTTAATGGG
CAAGGCATTAGCAAACTGAAGTTCTGTGTGCATT
Found at i:11765446 original size:17 final size:17
Alignment explanation
Indices: 11765424--11765479 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
11765414 AGGTGAAAAA
** *
11765424 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAAAGAATT
11765441 CTTGTTCGTAAAGAATT
1 CTTGTTCGTAAAGAATT
11765458 CTTGTTCGTAAAGAATT
1 CTTGTTCGTAAAGAATT
11765475 CTTGT
1 CTTGT
11765480 CAATGTGGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.45
Consensus pattern (17 bp):
CTTGTTCGTAAAGAATT
Found at i:11767813 original size:17 final size:17
Alignment explanation
Indices: 11767791--11767860 Score: 50
Period size: 18 Copynumber: 3.9 Consensus size: 17
11767781 CAATTTCACA
11767791 TTTTATTTTAAAATAAT
1 TTTTATTTTAAAATAAT
**
11767808 TTTTATTAAAAAATTATAT
1 TTTTATTTTAAAA-TA-AT
* * *
11767827 TTTTACATTTAATATATT
1 TTTTA-TTTTAAAATAAT
*
11767845 TTTTAATTTCAAAATA
1 TTTT-ATTTTAAAATA
11767861 CATAGTGACA
Statistics
Matches: 39, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
17 11 0.28
18 14 0.36
19 10 0.26
20 4 0.10
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATTTTAAAATAAT
Found at i:11770915 original size:15 final size:15
Alignment explanation
Indices: 11770893--11770928 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11770883 TATGAAGTTT
*
11770893 TAATTATTTATTTAA
1 TAATTATTAATTTAA
*
11770908 TTATTATTAATTTAA
1 TAATTATTAATTTAA
11770923 TAATTA
1 TAATTA
11770929 AATTAATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATTATTAATTTAA
Found at i:11773844 original size:215 final size:213
Alignment explanation
Indices: 11773501--11773974 Score: 655
Period size: 215 Copynumber: 2.2 Consensus size: 213
11773491 TTTTATTTTA
* * * * *
11773501 GGGAATTCTAGAAATTGTTTCCTAACGTGTTGGGTATGGTTTTTCTTGAACTTAAATAATCGAGT
1 GGGAATTCGAGAAATTGTGTCCTAACGTGTTGGGTATGATTTTTCTTAAACCTAAATAATCGAGT
* * *
11773566 ATCCTATTTAAAATCGATAATTGATGTTTTCATTTGTAAATTTCATGAACATTTATCCGTTTTGT
66 ATCCTATTTAAAATCGATAATTGATGTTTTCATTTGCAAATTACATAAACATTTATCCGTTTTGT
* * *
11773631 AAAACATTTTAACAAAATAAATGTGTCTTGTTTTT-AAAATACATAGATTGTTTAAATATATCAA
131 AAAACATTTTAACAAAATAAAT-TATCTTGTTTTTAAAAATACATAAATTGTTTAAA-AAATCAA
11773695 GACAATGTTATTTTATTTTA
194 GACAATGTTATTTTATTTTA
* * ** * *
11773715 GGGAATTCGAAAAATTGTGACCTAATATGTTGGGTACGATTTTTCTTTAAACCTAAATGATCGAG
1 GGGAATTCGAGAAATTGTGTCCTAACGTGTTGGGTATGATTTTTC-TTAAACCTAAATAATCGAG
* * *
11773780 TATCCTATTTAAAATTGATAATTGATGTTTAT-ATTTGCAAATTACATAAACATTTCTTCGTTTT
65 TATCCTATTTAAAATCGATAATTGATGTTT-TCATTTGCAAATTACATAAACATTTATCCGTTTT
*
11773844 GTAAAACATTTTAACAAAATAAATTATCTTTTTTTTAAAAAAATACATAAATTGTTTAAAAAATC
129 GTAAAACATTTTAACAAAATAAATTATCTTGTTTTT--AAAAATACATAAATTGTTTAAAAAATC
* *
11773909 AAGGCAATGTTTTTTTATTTTA
192 AAGACAATGTTATTTTATTTTA
**
11773931 GGGAACCCGAGAAATTGTGTCCTAACGTGTTGGGTATGATTTTT
1 GGGAATTCGAGAAATTGTGTCCTAACGTGTTGGGTATGATTTTT
11773975 TTCCTTGAAC
Statistics
Matches: 225, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
214 47 0.21
215 96 0.43
216 62 0.28
217 20 0.09
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (213 bp):
GGGAATTCGAGAAATTGTGTCCTAACGTGTTGGGTATGATTTTTCTTAAACCTAAATAATCGAGT
ATCCTATTTAAAATCGATAATTGATGTTTTCATTTGCAAATTACATAAACATTTATCCGTTTTGT
AAAACATTTTAACAAAATAAATTATCTTGTTTTTAAAAATACATAAATTGTTTAAAAAATCAAGA
CAATGTTATTTTATTTTA
Found at i:11779992 original size:46 final size:46
Alignment explanation
Indices: 11779929--11780521 Score: 620
Period size: 46 Copynumber: 13.0 Consensus size: 46
11779919 ATTGAAACCG
* **
11779929 TCCAATCTTTTACCCCTAAGTCAAGATGGTTAGATTGAAGCCACCA
1 TCCAATCTTTTACCCCTAAGTCAAGAGGGACAGATTGAAGCCACCA
* * * * *
11779975 TCCAATCATTTAGCCCTAA-TCAAAAGGGTCAGATTAAAGCCACCA
1 TCCAATCTTTTACCCCTAAGTCAAGAGGGACAGATTGAAGCCACCA
* *
11780020 TCCAATCTTTTACCCCTAAGTCAATAGAGG-TAGATTG--GCCACC-
1 TCCAATCTTTTACCCCTAAGTCAAGAG-GGACAGATTGAAGCCACCA
* * * * *
11780063 GCAAAATCTTTTACTCCTAAGTCAAAAGGGCCA-ATTTGAAGCCACCA
1 TC-CAATCTTTTACCCCTAAGTCAAGAGGGACAGA-TTGAAGCCACCA
* *
11780110 CCCAATCTTTTACCCCTAA-TCAAGAAGGACAGATTGAAGCCACCA
1 TCCAATCTTTTACCCCTAAGTCAAGAGGGACAGATTGAAGCCACCA
* *
11780155 -CCTAATATTTTACCCCTAA-TCAAGAGAGACAGATTGAAGCCACCA
1 TCC-AATCTTTTACCCCTAAGTCAAGAGGGACAGATTGAAGCCACCA
* * * **
11780200 TTCAATCTTTTACCCTTAAGTTAAGAGGGGTAGATTGAAGCCACCA
1 TCCAATCTTTTACCCCTAAGTCAAGAGGGACAGATTGAAGCCACCA
* * * *
11780246 TCCAATCTTTTAACCCAAAGTTAAGAGGTG-CAGATTGAAGCCACAA
1 TCCAATCTTTTACCCCTAAGTCAAGAGG-GACAGATTGAAGCCACCA
* *
11780292 CCCAATCTTTTACCCCTAAGTCAAGAAGGG-CAGATTGAAGCCACTA
1 TCCAATCTTTTACCCCTAAGTCAAG-AGGGACAGATTGAAGCCACCA
* * * * *
11780338 TCTAATCTTTTACCCCTAAGTCAAGAGGGATAGATTGGAGTCACTA
1 TCCAATCTTTTACCCCTAAGTCAAGAGGGACAGATTGAAGCCACCA
* * * *
11780384 TCCAATATTTTACCCTTAA-TCAAGAGGGGCAGATTGAAGCAACCA
1 TCCAATCTTTTACCCCTAAGTCAAGAGGGACAGATTGAAGCCACCA
*
11780429 TCCAATCTTTTACCCCTAA-TCAAGAGAGGA-AGATTAAAGCCACCA
1 TCCAATCTTTTACCCCTAAGTCAAGAG-GGACAGATTGAAGCCACCA
** * * *
11780474 TCCAATCTTTTACCTTTAAATCAAGAAGGACAGATTGAAGCTACCA
1 TCCAATCTTTTACCCCTAAGTCAAGAGGGACAGATTGAAGCCACCA
11780520 TC
1 TC
11780522 TCATAAAAGT
Statistics
Matches: 462, Mismatches: 67, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
43 4 0.01
44 34 0.07
45 194 0.42
46 223 0.48
47 7 0.02
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (46 bp):
TCCAATCTTTTACCCCTAAGTCAAGAGGGACAGATTGAAGCCACCA
Found at i:11780054 original size:91 final size:92
Alignment explanation
Indices: 11779885--11780521 Score: 607
Period size: 91 Copynumber: 7.0 Consensus size: 92
11779875 TACATCACCT
* * * *
11779885 CATCTAATCTTTTACCCCTAA-TCAAAAAGGGT-TGATTGAA---ACCGTCCAATCTTTTACCCC
1 CATCCAATCTTTTACCCCTAAGTC-AAGAGGGTCAGATTGAAGCCACCATCCAATCTTTTACCCC
**
11779945 TAAGTCAAGATG-GTTAGATTGAAGCCAC
65 TAAGTCAAGA-GAGGCAGATTGAAGCCAC
* * * *
11779973 CATCCAATCATTTAGCCCTAA-TCAAAAGGGTCAGATTAAAGCCACCATCCAATCTTTTACCCCT
1 CATCCAATCTTTTACCCCTAAGTCAAGAGGGTCAGATTGAAGCCACCATCCAATCTTTTACCCCT
* *
11780037 AAGTCAATAGAGGTAGATTG--GCCAC
66 AAGTCAAGAGAGGCAGATTGAAGCCAC
* * * * * *
11780062 C-GCAAAATCTTTTACTCCTAAGTCAAAAGGGCCA-ATTTGAAGCCACCACCCAATCTTTTACCC
1 CATC-CAATCTTTTACCCCTAAGTCAAGAGGGTCAGA-TTGAAGCCACCATCCAATCTTTTACCC
11780125 CTAA-TCAAGA-AGGACAGATTGAAGCCAC
64 CTAAGTCAAGAGAGG-CAGATTGAAGCCAC
* * * * *
11780153 CA-CCTAATATTTTACCCCTAA-TCAAGAGAGACAGATTGAAGCCACCATTCAATCTTTTACCCT
1 CATCC-AATCTTTTACCCCTAAGTCAAGAGGGTCAGATTGAAGCCACCATCCAATCTTTTACCCC
* * *
11780216 TAAGTTAAGAGGGGTAGATTGAAGCCAC
65 TAAGTCAAGAGAGGCAGATTGAAGCCAC
* * * * *
11780244 CATCCAATCTTTTAACCCAAAGTTAAGA-GGTGCAGATTGAAGCCACAACCCAATCTTTTACCCC
1 CATCCAATCTTTTACCCCTAAGTCAAGAGGGT-CAGATTGAAGCCACCATCCAATCTTTTACCCC
11780308 TAAGTCAAGA-AGGGCAGATTGAAGCCAC
65 TAAGTCAAGAGA-GGCAGATTGAAGCCAC
* * * * * * *
11780336 TATCTAATCTTTTACCCCTAAGTCAAGAGGGAT-AGATTGGAGTCACTATCCAATATTTTACCCT
1 CATCCAATCTTTTACCCCTAAGTCAAGAGGG-TCAGATTGAAGCCACCATCCAATCTTTTACCCC
* *
11780400 TAA-TCAAGAGGGGCAGATTGAAGCAAC
65 TAAGTCAAGAGAGGCAGATTGAAGCCAC
* * **
11780427 CATCCAATCTTTTACCCCTAA-TCAAGAGAGG-AAGATTAAAGCCACCATCCAATCTTTTACCTT
1 CATCCAATCTTTTACCCCTAAGTCAAGAG-GGTCAGATTGAAGCCACCATCCAATCTTTTACCCC
* *
11780490 TAAATCAAGA-AGGACAGATTGAAGCTAC
65 TAAGTCAAGAGAGG-CAGATTGAAGCCAC
11780518 CATC
1 CATC
11780522 TCATAAAAGT
Statistics
Matches: 456, Mismatches: 66, Indels: 51
0.80 0.12 0.09
Matches are distributed among these distances:
87 8 0.02
88 30 0.07
89 31 0.07
90 115 0.25
91 157 0.34
92 112 0.25
93 2 0.00
94 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (92 bp):
CATCCAATCTTTTACCCCTAAGTCAAGAGGGTCAGATTGAAGCCACCATCCAATCTTTTACCCCT
AAGTCAAGAGAGGCAGATTGAAGCCAC
Found at i:11782621 original size:43 final size:43
Alignment explanation
Indices: 11782588--11782878 Score: 437
Period size: 43 Copynumber: 6.8 Consensus size: 43
11782578 AGAACATGGC
*
11782588 CTTTAGCGGCGCTTTTCCCACAAGCGTCGCTAAAGGCCATGTT
1 CTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGGCCATGTT
* *
11782631 CTTTAACGGCGCTTTTCCCACAAACGCCGCTAAAGGCCATGTT
1 CTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGGCCATGTT
11782674 CTTTAGCGGCGC-TTTCTCCACAAGCGCCGCTAAAGGCCATGTT
1 CTTTAGCGGCGCTTTTC-CCACAAGCGCCGCTAAAGGCCATGTT
11782717 CTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGGCCATGTT
1 CTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGGCCATGTT
* *
11782760 CTTTAGCTGCGCTTTAT-CCACAAGCGCCGCTAAAGG-CATATT
1 CTTTAGCGGCGCTTT-TCCCACAAGCGCCGCTAAAGGCCATGTT
* * *
11782802 TTTTAGCGGCGCTTTTCTCCACAAGCGCCGCTAAAGCCCTTGTT
1 CTTTAGCGGCGCTTTTC-CCACAAGCGCCGCTAAAGGCCATGTT
*
11782846 CTTTAGCGGCGC-TTTCTCCAAAAGCGCCGCTAA
1 CTTTAGCGGCGCTTTTC-CCACAAGCGCCGCTAA
11782879 TATAACAGAT
Statistics
Matches: 228, Mismatches: 14, Indels: 12
0.90 0.06 0.05
Matches are distributed among these distances:
41 1 0.00
42 22 0.10
43 185 0.81
44 20 0.09
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGGCCATGTT
Found at i:11783207 original size:24 final size:21
Alignment explanation
Indices: 11783160--11783212 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
11783150 CTTGTAGCCT
* *
11783160 CTGCTTCCTTCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
11783181 CTGCTGCCTCCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
*
11783202 TTGCTGCCTCC
1 CTGCTGCCTCC
11783213 ACTTTAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.21, T:0.34
Consensus pattern (21 bp):
CTGCTGCCTCCGCTTGCCTCG
Found at i:11783283 original size:65 final size:66
Alignment explanation
Indices: 11783207--11783354 Score: 235
Period size: 66 Copynumber: 2.3 Consensus size: 66
11783197 CCTCGTTGCT
* *
11783207 GCCTCCACTTTAAGTTGTAGATGGAGTTCTTCAT-TTTTTTTTGAGACTCTGCTTCTCTCACTAC
1 GCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTAC
11783271 A
66 A
* * * *
11783272 GCCTCCTCTTTAAGTTTTAGATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGCTGC
1 GCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTAC
11783337 A
66 A
11783338 GCCTCCTCTTTAAGTTG
1 GCCTCCTCTTTAAGTTG
11783355 AGCAATTTGC
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
65 31 0.41
66 44 0.59
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.43
Consensus pattern (66 bp):
GCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTAC
A
Found at i:11788757 original size:8 final size:8
Alignment explanation
Indices: 11788744--11788823 Score: 67
Period size: 8 Copynumber: 9.8 Consensus size: 8
11788734 TTGTTTTCAT
11788744 TAATTAAA
1 TAATTAAA
11788752 TAATTAAA
1 TAATTAAA
*
11788760 T-ATTTAA
1 TAATTAAA
*
11788767 T--TTAGTA
1 TAATTA-AA
11788774 TAATTAAA
1 TAATTAAA
11788782 TAATTAAA
1 TAATTAAA
11788790 TAATTAATTA
1 TAATTAA--A
*
11788800 AAATTAAA
1 TAATTAAA
11788808 TAATTATATA
1 TAATTA-A-A
11788818 TAATTA
1 TAATTA
11788824 TTTACGAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
6 2 0.03
7 8 0.14
8 31 0.53
9 4 0.07
10 14 0.24
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (8 bp):
TAATTAAA
Found at i:11788780 original size:30 final size:27
Alignment explanation
Indices: 11788744--11788818 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 27
11788734 TTGTTTTCAT
11788744 TAATTAAATAATTAAATATTTAATTTAGTA
1 TAATTAAATAATTAAATATTTAA-TTA--A
*
11788774 TAATTAAATAATTAAATAATTAATTAA
1 TAATTAAATAATTAAATATTTAATTAA
*
11788801 -AATTAAATAATTATATAT
1 TAATTAAATAATTAAATAT
11788819 AATTATTTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 16 0.38
27 1 0.02
29 3 0.07
30 22 0.52
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (27 bp):
TAATTAAATAATTAAATATTTAATTAA
Found at i:11788799 original size:4 final size:4
Alignment explanation
Indices: 11788742--11788823 Score: 51
Period size: 4 Copynumber: 20.0 Consensus size: 4
11788732 GGTTGTTTTC
* * * * * *
11788742 ATTA ATTA AATA ATTA AATA TTTA ATTTA GTATA ATTA AATA ATTA AATA
1 ATTA ATTA ATTA ATTA ATTA ATTA A-TTA AT-TA ATTA ATTA ATTA ATTA
*
11788792 ATTA ATTA A--A ATTA AATA ATTA TATATA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA -AT-TA ATTA
11788824 TTTACGAAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
2 2 0.03
4 44 0.76
5 10 0.17
6 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (4 bp):
ATTA
Found at i:11788804 original size:26 final size:29
Alignment explanation
Indices: 11788774--11788827 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 29
11788764 TAATTTAGTA
11788774 TAATTAAATAATTAAATAATTAA-TTA-A
1 TAATTAAATAATTAAATAATTAATTTAGA
11788801 -AATTAAATAATTATATATAATT-ATTTA
1 TAATTAAATAATTA-A-ATAATTAATTTA
11788828 CGAAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 13 0.54
27 2 0.08
28 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TAATTAAATAATTAAATAATTAATTTAGA
Found at i:11788907 original size:19 final size:19
Alignment explanation
Indices: 11788839--11788908 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
11788829 GAAAATATTT
*
11788839 TAAATTAAATATTTTAA-A
1 TAAATTAAATACTTTAATA
* *
11788857 CATAATTAAATAATTTAATA
1 TA-AATTAAATACTTTAATA
**
11788877 T-AATTATTTACTTTAATA
1 TAAATTAAATACTTTAATA
11788895 TAAATTAAATACTT
1 TAAATTAAATACTT
11788909 AAATCTTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
18 16 0.39
19 24 0.59
20 1 0.02
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAATTAAATACTTTAATA
Found at i:11788991 original size:112 final size:113
Alignment explanation
Indices: 11788852--11789754 Score: 528
Period size: 105 Copynumber: 8.4 Consensus size: 113
11788842 ATTAAATATT
*
11788852 TTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAATTAAATACTTAAATCTTT
1 TTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAATTAAATAATTAAATCTTT
* * * *
11788917 -TAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATAA
66 CAAATTAAATATTTAATTAACTAATAATGTTTACAATTAAATACATAA
* * *
11788964 TTAAACATAATTAATTGATTTGATATAATTATTTACTTTAATATAAATTAAATAATTAAATCTTT
1 TTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAATTAAATAATTAAATCTTT
* *
11789029 CAAATTAAATATTTAATTAACTAATAATGTTTATAATTAAATATATAA
66 CAAATTAAATATTTAATTAACTAATAATGTTTACAATTAAATACATAA
* * * * *
11789077 TTAAACATAATTAAATAATTAAATATAATTATTTA-ATTAA-AT-ATTTCAA-AA-TAAATATTT
1 TTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAATTAAATAATTAAATCTTT
* * *
11789137 --AATTAAATA--TAATTAAATAATTAAATCTTT-CAAATTAAATA-TTAAA
66 CAAATTAAATATTTAATTAACTAA-T-AATGTTTAC-AATTAAATACAT-AA
* * ** * * * * *
11789183 TT-AAC-TGA-T-ACTGTTTATAAT-TAAATATTTAATTAAACAT-AATTAAATAATTAAATATT
1 TTAAACATAATTAAATAATT-TAATATAATTATTTACTTTAATATAAATTAAATAATTAAATCTT
* * * * **
11789242 TTAAATTAAATATTAAATTAACTAATACTGTTTATAATTAAATATTTAA
65 TCAAATTAAATATTTAATTAACTAATAATGTTTACAATTAAATACATAA
** *
11789291 TTAAACATAATTAAATAA-TTAA-AT-A-T-TTTAAATTAA-AT--ATTAAATAACT-AATACTG
1 TTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAATTAAATAATTAAAT-CT-
* * * *
11789347 TTTATAATTAAATATATAATTAA--ACAT-A-GTTAAATAATTAAAT--ATAA
64 TTCA-AATTAAATATTTAATTAACTA-ATAATGTT-TACAATTAAATACATAA
** * * * *
11789394 TT--ATTTACTTTAATATTTTAAT-T--TTATTCA-TTTAA-ATATAATTAAATAATTAAATCTT
1 TTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATA-AATTAAATAATTAAATCTT
* * * * * **
11789452 TCAAATTAAATATTAAATTAATTGATACTGTTTATAATTAAATATTTAA
65 TCAAATTAAATATTTAATTAACTAATAATGTTTACAATTAAATACATAA
* ** *
11789501 TTAAACATAATTAAATAA-TTAA-AT--CT-TTTAAATTAA-AT--ATTAAATAACT-AATACTG
1 TTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAATTAAATAATTAAAT-CT-
* * *
11789557 TAT-ATAATTAAATATATAATTAA--ACAT-A-GTTAAATAATTAAAT--ATAA
64 T-TCA-AATTAAATATTTAATTAACTA-ATAATGTT-TACAATTAAATACATAA
** * * * *
11789604 TT--ATTTACTTTAATATTTTAAT-T--TTATTCA-TTTAA-ATATAATTAAATAATTAAATCTT
1 TTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATA-AATTAAATAATTAAATCTT
* * * * *
11789662 TCAAATTAAATATTTAATTAGCTGATACTGTTTATAATTAAATATATAA
65 TCAAATTAAATATTTAATTAACTAATAATGTTTACAATTAAATACATAA
* * * *
11789711 TTAAACATAGTTAAATAATTAAATATAATTATTTAATTAAATAT
1 TTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATAT
11789755 TTCAAAATAA
Statistics
Matches: 618, Mismatches: 102, Indels: 140
0.72 0.12 0.16
Matches are distributed among these distances:
101 18 0.03
102 37 0.06
103 56 0.09
104 40 0.06
105 95 0.15
106 61 0.10
107 55 0.09
108 48 0.08
109 32 0.05
110 21 0.03
111 4 0.01
112 73 0.12
113 76 0.12
114 2 0.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (113 bp):
TTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAATTAAATAATTAAATCTTT
CAAATTAAATATTTAATTAACTAATAATGTTTACAATTAAATACATAA
Found at i:11789086 original size:10 final size:9
Alignment explanation
Indices: 11789073--11789161 Score: 53
Period size: 8 Copynumber: 10.0 Consensus size: 9
11789063 AATTAAATAT
11789073 ATAATTAAA
1 ATAATTAAA
11789082 CATAATT-AA
1 -ATAATTAAA
11789091 ATAATTAAA
1 ATAATTAAA
*
11789100 TATAATT-AT
1 -ATAATTAAA
*
11789109 TTAATT-AA
1 ATAATTAAA
*
11789117 ATATTTCAAA
1 ATAATT-AAA
* *
11789127 ATAAAT-AT
1 ATAATTAAA
*
11789135 TTAATTAAA
1 ATAATTAAA
11789144 TATAATT-AA
1 -ATAATTAAA
11789153 ATAATTAAA
1 ATAATTAAA
11789162 TCTTTCAAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
8 27 0.45
9 10 0.17
10 23 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAATTAAA
Found at i:11789118 original size:26 final size:26
Alignment explanation
Indices: 11789084--11789183 Score: 96
Period size: 26 Copynumber: 3.7 Consensus size: 26
11789074 TAATTAAACA
*
11789084 TAATTAAATAATTAAATATAATTATT
1 TAATTAAATAATTAAATATAAATATT
*
11789110 TAATTAAATATTTCAAA-ATAAATATT
1 TAATTAAATAATT-AAATATAAATATT
*
11789136 TAATTAAATATAATTAAATAATTAAATCTT
1 TAATT-AA-ATAATTAAAT-A-TAAATATT
11789166 TCAAATTAAAT-ATTAAAT
1 T--AATTAAATAATTAAAT
11789184 TAACTGATAC
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
26 25 0.40
27 8 0.13
28 5 0.08
29 8 0.13
30 10 0.16
31 2 0.03
32 4 0.06
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
TAATTAAATAATTAAATATAAATATT
Found at i:11789153 original size:22 final size:22
Alignment explanation
Indices: 11789060--11789262 Score: 73
Period size: 22 Copynumber: 9.0 Consensus size: 22
11789050 TAATAATGTT
*
11789060 TATAATTAAATATATAATTAAA
1 TATAATTAAATATTTAATTAAA
* *
11789082 CATAATTAAATAATTAAATATAATTA
1 TATAATTAAAT-ATTTAAT-TAA--A
* *
11789108 TTTAATTAAATATTTCAAAATAAA
1 TATAATTAAATATTT--AATTAAA
11789132 TATTTAATTAAATA--TAATT-AA
1 TA--TAATTAAATATTTAATTAAA
*
11789153 -ATAATTAAATCTTTCAAATTAAA
1 TATAATTAAATATTT--AATTAAA
* * *
11789176 TATTAAATTAACTGA--TACTGT--T
1 TA-T-AATTAAAT-ATTTAAT-TAAA
11789198 TATAATTAAATATTTAATTAAA
1 TATAATTAAATATTTAATTAAA
* * * *
11789220 CATAATTAAATAATTAAAT-AT
1 TATAATTAAATATTTAATTAAA
* *
11789241 TTTAAATTAAATATTAAATTAA
1 TAT-AATTAAATATTTAATTAA
11789263 CTAATACTGT
Statistics
Matches: 131, Mismatches: 26, Indels: 47
0.64 0.13 0.23
Matches are distributed among these distances:
18 9 0.07
19 1 0.01
20 10 0.08
21 8 0.06
22 48 0.37
23 10 0.08
24 8 0.06
25 5 0.04
26 30 0.23
27 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (22 bp):
TATAATTAAATATTTAATTAAA
Found at i:11789159 original size:18 final size:18
Alignment explanation
Indices: 11788744--11789396 Score: 104
Period size: 18 Copynumber: 35.3 Consensus size: 18
11788734 TTGTTTTCAT
11788744 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
*
11788762 TTTAATTTAGTATAATT-AA-A
1 --TAA-TTA-AATAATTAAATA
*
11788782 TAATTAAATAATTAATTA
1 TAATTAAATAATTAAATA
* *
11788800 AAATTAAATAATTATATA
1 TAATTAAATAATTAAATA
** ***
11788818 TAATTATTTACGAAAATA
1 TAATTAAATAATTAAATA
* *
11788836 TTTTAAATTAAATATTTTAAACA
1 ---T-AATTAAATA-ATTAAATA
*
11788859 TAATTAAATAATTTAATA
1 TAATTAAATAATTAAATA
** * *
11788877 TAATTATTTACTTTAATA
1 TAATTAAATAATTAAATA
* *
11788895 TAAATTAAATACTTAAATCTTT
1 T-AATTAAATAATTAAA---TA
*
11788917 TAATTAAAT-ATTTAAT-
1 TAATTAAATAATTAAATA
* **
11788933 TAATTGATACTGTTTACAAT-
1 TAATT-A-AATAATTA-AATA
* * *
11788953 TAAATACATAATTAAACA
1 TAATTAAATAATTAAATA
* * **
11788971 TAATTAATTGATTTGATA
1 TAATTAAATAATTAAATA
** * *
11788989 TAATTATTTACTTTAATA
1 TAATTAAATAATTAAATA
*
11789007 TAAATTAAATAATTAAATCTT
1 T-AATTAAATAATTAAA--TA
*
11789028 TCAAATTAAAT-ATTTAAT-
1 T--AATTAAATAATTAAATA
*
11789046 TAACT-AATAATGTTTATAAT-
1 TAATTAAATAA---TTA-AATA
* * *
11789066 TAAATATATAATTAAACA
1 TAATTAAATAATTAAATA
11789084 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
**
11789102 TAATTATTTAATTAAATA
1 TAATTAAATAATTAAATA
*
11789120 T--TTCAA-AA-T-AA-A
1 TAATTAAATAATTAAATA
11789132 T-ATT---TAATTAAATA
1 TAATTAAATAATTAAATA
*
11789146 TAATTAAATAATTAAATCTT
1 TAATTAAATAATTAAA--TA
11789166 TCAAATTAAAT-ATTAAAT-
1 T--AATTAAATAATTAAATA
* * **
11789184 TAACTGATACTGTTTATAAT-
1 TAA-TTA-AATAATTA-AATA
* ** *
11789204 TAAATATTTAATTAAACA
1 TAATTAAATAATTAAATA
11789222 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
11789240 TTTTAAATTAAAT-ATTAAAT-
1 ---T-AATTAAATAATTAAATA
* **
11789260 TAACTAATACTGTTTATAAT-
1 TAATTAA-A-TAATTA-AATA
* ** *
11789280 TAAATATTTAATTAAACA
1 TAATTAAATAATTAAATA
11789298 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
11789316 TTTTAAATTAAAT-ATTAAATAA
1 ---T-AATTAAATAATTAAAT-A
* **
11789338 CTAA-T-ACTGTTTATAAT-
1 -TAATTAAATAATTA-AATA
* * *
11789355 TAAATATATAATTAAACA
1 TAATTAAATAATTAAATA
*
11789373 TAGTTAAATAATTAAATA
1 TAATTAAATAATTAAATA
11789391 TAATTA
1 TAATTA
11789397 TTTACTTTAA
Statistics
Matches: 457, Mismatches: 110, Indels: 134
0.65 0.16 0.19
Matches are distributed among these distances:
11 2 0.00
12 3 0.01
13 6 0.01
14 3 0.01
15 8 0.02
16 27 0.06
17 23 0.05
18 194 0.42
19 51 0.11
20 40 0.09
21 47 0.10
22 49 0.11
23 4 0.01
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
TAATTAAATAATTAAATA
Found at i:11789173 original size:76 final size:76
Alignment explanation
Indices: 11789128--11789601 Score: 585
Period size: 76 Copynumber: 6.5 Consensus size: 76
11789118 TATTTCAAAA
* * * *
11789128 TAAATATTTAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTGATA
1 TAAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATTAACTAATA
11789193 CTGTTTATAAT
66 CTGTTTATAAT
11789204 TAAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATTAACTAATA
1 TAAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATTAACTAATA
11789269 CTGTTTATAAT
66 CTGTTTATAAT
11789280 TAAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAA-TAACTAATA
1 TAAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATTAACTAATA
11789344 CTGTTTATAAT
66 CTGTTTATAAT
* * * * * *
11789355 TAAATATATAATTAAACATAGTTAAATAATTAAATATAATT--ATTTACT-TTAATATT--TTAA
1 TAAATATTTAATTAAACATAATTAAATAATTAAATAT-TTTAAATTAAATATTAA-ATTAACTAA
** * *
11789415 TTTTATTCAT--T
64 TACTGTTTATAAT
* * * *
11789426 TAAATA--T----------AATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAATTGATA
1 TAAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATTAACTAATA
11789479 CTGTTTATAAT
66 CTGTTTATAAT
*
11789490 TAAATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAA-TAACTAATA
1 TAAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATTAACTAATA
*
11789554 CTGTATATAAT
66 CTGTTTATAAT
* *
11789565 TAAATATATAATTAAACATAGTTAAATAATTAAATAT
1 TAAATATTTAATTAAACATAATTAAATAATTAAATAT
11789602 AATTATTTAC
Statistics
Matches: 344, Mismatches: 32, Indels: 45
0.82 0.08 0.11
Matches are distributed among these distances:
58 1 0.00
59 16 0.05
60 8 0.02
61 4 0.01
62 9 0.03
64 7 0.02
66 1 0.00
69 1 0.00
71 7 0.02
73 13 0.04
74 6 0.02
75 107 0.31
76 164 0.48
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (76 bp):
TAAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATTAACTAATA
CTGTTTATAAT
Found at i:11789482 original size:210 final size:210
Alignment explanation
Indices: 11789003--11789736 Score: 1002
Period size: 210 Copynumber: 3.5 Consensus size: 210
11788993 TATTTACTTT
* *
11789003 AATATAAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTAATAATGTTTATAATTA
1 AATAT-AATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTTTATAATTA
* *
11789068 AATATATAATTAAACATAATTAAATAATTAAATATAATTATTTAATTAAATATTTCAA-AA-TAA
65 AATATATAATTAAACATAATTAAATAATT-AA-AT-ATT-TTAAATTAAATA-TTAAATAACTAA
* * ** * *
11789131 -A-T-ATT-TAATT-AA-ATATAATT-AA-ATAATTAAATCTTTCAAATTAAATATTAAATTAAC
125 TACTGTTTATAATTAAATATATAATTAAACATAGTTAAATAATT-AAA-TATA-ATT--ATTTAC
* * * * * *
11789188 TGATACTGTTTATAATTAAATATTTAATTA
185 T-TTAATATTT-TAATT--TTATTCATTTA
* * *
11789218 AACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATTAACTAATACTGTTTATAATTAA
1 AATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTTTATAATTAA
*
11789283 ATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATAACTAATACTGT
66 ATATATAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATAACTAATACTGT
11789348 TTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTT
131 TTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTT
11789413 AATTTTATTCATTTA
196 AATTTTATTCATTTA
* *
11789428 AATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAATTGATACTGTTTATAATTAA
1 AATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTTTATAATTAA
* *
11789493 ATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATAACTAATACTGT
66 ATATATAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATAACTAATACTGT
*
11789558 ATATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTT
131 TTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTT
11789623 AATTTTATTCATTTA
196 AATTTTATTCATTTA
* * *
11789638 AATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAGCTGATACTGTTTATAATTAA
1 AATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTTTATAATTAA
*
11789703 ATATATAATTAAACATAGTTAAATAATTAAATAT
66 ATATATAATTAAACATAATTAAATAATTAAATAT
11789737 AATTATTTAA
Statistics
Matches: 476, Mismatches: 33, Indels: 25
0.89 0.06 0.05
Matches are distributed among these distances:
209 4 0.01
210 317 0.67
211 6 0.01
212 8 0.02
213 9 0.02
214 91 0.19
215 9 0.02
216 5 0.01
217 11 0.02
218 5 0.01
219 11 0.02
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (210 bp):
AATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTTTATAATTAA
ATATATAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATAACTAATACTGT
TTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTT
AATTTTATTCATTTA
Found at i:11789496 original size:286 final size:288
Alignment explanation
Indices: 11789009--11789601 Score: 994
Period size: 286 Copynumber: 2.1 Consensus size: 288
11788999 CTTTAATATA
* *
11789009 AATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTAATAATGTTTATAATTAAATATA
1 AATTAAATAATTAAATATTTCAAATTAAATATTTAAATAACTAATAATGTTTATAATTAAATATA
*
11789074 TAATTAAACATAATTAAATAATTAAATATAATTATTTAATTAAATATTTCAAAATAAATATTTAA
66 TAATTAAACATAATTAAATAATTAAATATAATTATTTAATTAAATATTT-AAAATAAATATTCAA
11789139 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTGATACTGTTTATAAT
130 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTGATACTGTTTATAAT
11789204 TAAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATTAACTAATA
195 TAAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAA-TAACTAATA
* *
11789269 CTGTTTATAATTAAATATTTAATTAAACAT
259 CTGTATATAATTAAATATATAATTAAACAT
* *
11789299 AATTAAATAATTAAATATTTTAAATTAAATA-TTAAATAACTAATACTGTTTATAATTAAATATA
1 AATTAAATAATTAAATATTTCAAATTAAATATTTAAATAACTAATAATGTTTATAATTAAATATA
* * * * ** *
11789363 TAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTT-TAAT-TTTATTCATT
66 TAATTAAACATAATTAAATAATTAAATATAATTATTTAATTAAATATTTAAAATAAATATTCAAT
*
11789426 TAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAATTGATACTGTTTATAATT
131 TAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTGATACTGTTTATAATT
*
11789491 AAATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATAACTAATACT
196 AAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATAACTAATACT
11789556 GTATATAATTAAATATATAATTAAACAT
261 GTATATAATTAAATATATAATTAAACAT
*
11789584 AGTTAAATAATTAAATAT
1 AATTAAATAATTAAATAT
11789602 AATTATTTAC
Statistics
Matches: 286, Mismatches: 17, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
285 54 0.19
286 123 0.43
287 3 0.01
289 77 0.27
290 29 0.10
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (288 bp):
AATTAAATAATTAAATATTTCAAATTAAATATTTAAATAACTAATAATGTTTATAATTAAATATA
TAATTAAACATAATTAAATAATTAAATATAATTATTTAATTAAATATTTAAAATAAATATTCAAT
TAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTGATACTGTTTATAATT
AAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATAACTAATACT
GTATATAATTAAATATATAATTAAACAT
Found at i:11789727 original size:286 final size:284
Alignment explanation
Indices: 11789009--11789829 Score: 981
Period size: 286 Copynumber: 2.9 Consensus size: 284
11788999 CTTTAATATA
* *
11789009 AATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTAATAATGTTTATAATTAAATATA
1 AATTAAATAATTAAAT-ATT-AAATTAAATA-TTAAATAACTAATAATGTTTATAATTAAATATA
* * * *
11789074 TAATTAAACATAATTAAATAATTAAATATAATTATTTAATTAAATATTTCAAAATAAATATTTAA
63 TAATTAAACATAATTAAATAATTAAATATAAATATTTAATTTAATATTT-TAATTAAATA-TTAA
11789139 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTGATACTGTTTATAAT
126 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAA-TGATACTGTTTATAAT
*
11789204 TAAATATTTAATTAAACATAATTAAATAATTAAATATTTTAAATTAAATATTAAATTAACTAATA
190 TAAATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATTAACTAATA
* *
11789269 CTGTTTATAATTAAATATTTAATTAAACAT
255 CTGTATATAATTAAATATATAATTAAACAT
*
11789299 AATTAAATAATTAAATATTTTAAATTAAATATTAAATAACTAATACTGTTTATAATTAAATATAT
1 AATTAAATAATTAAATA--TTAAATTAAATATTAAATAACTAATAATGTTTATAATTAAATATAT
* * * * *
11789364 AATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTTAATT--TTATTCATTT
64 AATTAAACATAATTAAATAATTAAATATAAATATTTAATTTAATATTTTAATTAAATATT-AATT
11789427 AAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAATTGATACTGTTTATAATTA
128 AAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAA-TGATACTGTTTATAATTA
11789492 AATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAA-TAACTAATACT
192 AATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATTAACTAATACT
11789556 GTATATAATTAAATATATAATTAAACAT
257 GTATATAATTAAATATATAATTAAACAT
* ** * ** * *
11789584 AGTTAAATAATTAAATA-T-AATTATTTACTTTAAT-A-TTTTAAT-TTTATTCATTTAA-ATAT
1 AATTAAATAATTAAATATTAAATTAAATA-TTAAATAACTAATAATGTTTA-TAATTAAATATAT
** *
11789643 AATT-AA-ATAATTAAATCTTTCAAAT-TAAATATTTAATTAGCTGATACTGTTTATAATTAAAT
64 AATTAAACATAATTAAATAATT-AAATATAAATATTTAATT---T-A-A-TATTT-TAATTAAAT
* * * *
11789705 ATATAATTAAACATAGTTAAATAATTAAA--TAT--AATT--AT-TT-AATTAA--ATA-T-TTC
121 AT-TAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAATGATACTGTTT
* * *
11789758 A-AAATAAATATTTAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAAC
185 ATAATTAAATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATTAAC
11789822 TAATACTG
250 TAATACTG
11789830 ATTGTTTAAA
Statistics
Matches: 476, Mismatches: 38, Indels: 51
0.84 0.07 0.09
Matches are distributed among these distances:
272 55 0.12
273 15 0.03
274 1 0.00
275 3 0.01
277 22 0.05
278 12 0.03
279 14 0.03
280 13 0.03
281 9 0.02
282 11 0.02
283 4 0.01
284 7 0.01
285 55 0.12
286 146 0.31
287 1 0.00
288 3 0.01
289 77 0.16
290 26 0.05
291 2 0.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (284 bp):
AATTAAATAATTAAATATTAAATTAAATATTAAATAACTAATAATGTTTATAATTAAATATATAA
TTAAACATAATTAAATAATTAAATATAAATATTTAATTTAATATTTTAATTAAATATTAATTAAA
TATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAATGATACTGTTTATAATTAAATA
TTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATTAACTAATACTGTAT
ATAATTAAATATATAATTAAACAT
Found at i:11789764 original size:26 final size:26
Alignment explanation
Indices: 11789721--11789817 Score: 90
Period size: 26 Copynumber: 3.5 Consensus size: 26
11789711 TTAAACATAG
* *
11789721 TTAAATAATTAAATATAATTATTTAA
1 TTAAATATTTAAATATAAATATTTAA
11789747 TTAAATATTTCAAA-ATAAATATTTAA
1 TTAAATATTT-AAATATAAATATTTAA
*
11789773 TTAAATATAATTAAATAATTAAATCTTTCAAA
1 TTAAATAT--TTAAAT-A-TAAATATTT--AA
11789805 TTAAATA-TTAAAT
1 TTAAATATTTAAAT
11789818 TAACTAATAC
Statistics
Matches: 60, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
26 28 0.47
27 6 0.10
28 2 0.03
29 7 0.12
30 8 0.13
32 9 0.15
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
TTAAATATTTAAATATAAATATTTAA
Found at i:11790106 original size:18 final size:18
Alignment explanation
Indices: 11790085--11790133 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
11790075 AAATTAAACT
11790085 TAATTAAATAATTTAATA
1 TAATTAAATAATTTAATA
** *
11790103 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
11790121 TAATTAAATAATT
1 TAATTAAATAATT
11790134 AAATCTTTCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATTAAATAATTTAATA
Found at i:11790197 original size:44 final size:44
Alignment explanation
Indices: 11790128--11790270 Score: 132
Period size: 44 Copynumber: 3.5 Consensus size: 44
11790118 ATATAATTAA
*
11790128 ATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTTT
1 ATAATTAAATATTT--AATTAAATATTAAATTAACTAATACTGTTT
*
11790174 ATAATTAAATATTTAATTAAATA-T-AATTAAATAATAAC-----
1 ATAATTAAATATTTAATTAAATATTAAATTAACTAAT-ACTGTTT
* *
11790212 AT--CT---T-TTAAATTAAATATTAAATTAACTAATACTGTTT
1 ATAATTAAATATTTAATTAAATATTAAATTAACTAATACTGTTT
11790250 ATAATTAAATATTTAATTAAA
1 ATAATTAAATATTTAATTAAA
11790271 CATAATTAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 30
0.67 0.06 0.27
Matches are distributed among these distances:
32 11 0.14
33 4 0.05
34 10 0.13
36 1 0.01
38 4 0.05
40 1 0.01
42 10 0.13
43 4 0.05
44 18 0.24
46 13 0.17
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (44 bp):
ATAATTAAATATTTAATTAAATATTAAATTAACTAATACTGTTT
Found at i:11790202 original size:10 final size:10
Alignment explanation
Indices: 11790173--11790206 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
11790163 TAATACTGTT
11790173 TATAATTAAA
1 TATAATTAAA
11790183 TATTTAATTAAA
1 TA--TAATTAAA
11790195 TATAATTAAA
1 TATAATTAAA
11790205 TA
1 TA
11790207 ATAACATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 12 0.55
12 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TATAATTAAA
Found at i:11790247 original size:765 final size:765
Alignment explanation
Indices: 11789425--11790845 Score: 2700
Period size: 765 Copynumber: 1.9 Consensus size: 765
11789415 TTTTATTCAT
* *
11789425 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAATTGATACTGTTTATAAT
1 TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTTTATAAT
11789490 TAAATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATAACTAATAC
66 TAAATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATAACTAATAC
11789555 TGTATATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATAT
131 TGTATATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATAT
11789620 TTTAATTTTATTCATTTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAGCT
196 TTTAATTTTATTCATTTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAGCT
11789685 GATACTGTTTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTAATTA
261 GATACTGTTTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTAATTA
11789750 AATATTTCAAAATAAATATTTAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTA
326 AATATTTCAAAATAAATATTTAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTA
11789815 AATTAACTAATACTGATTGTTTAAATTAAATATAATTATTTACTTTAATATTTTAATTTTATTCA
391 AATTAACTAATACTGATTGTTTAAATTAAATATAATTATTTACTTTAATATTTTAATTTTATTCA
11789880 TCAAAAGGAAGGCCATGGAAGCTAATTGTTTTGAACCCATTTTGATCTTAGTGGCCTACTTTTTT
456 TCAAAAGGAAGGCCATGGAAGCTAATTGTTTTGAACCCATTTTGATCTTAGTGGCCTACTTTTTT
11789945 GGTGGGTTAATGGATCAAATTGTAGAATAAAATCAGTAAAATCAAATTAAGGTGGACAGTGAAAT
521 GGTGGGTTAATGGATCAAATTGTAGAATAAAATCAGTAAAATCAAATTAAGGTGGACAGTGAAAT
*
11790010 TTGGATGTTTGTGATTTGTGAGGTAAAAATCGAACATTACCATATTACCATTGCTCCTAAAGAAT
586 TTGGATGTTTGTGATTTGTGAGATAAAAATCGAACATTACCATATTACCATTGCTCCTAAAGAAT
11790075 AAATTAAACTTAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
651 AAATTAAACTTAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
11790140 TTCAAATTAAATATTAAATTAACTAATACTGTTTATAATTAAATATTTAA
716 TTCAAATTAAATATTAAATTAACTAATACTGTTTATAATTAAATATTTAA
*
11790190 TTAAATATAATTAAATAA-TAACATCTTTTAAATTAAATATTAAATTAACTAATACTGTTTATAA
1 TTAAATATAATTAAATAATTAA-ATCTTTCAAATTAAATATTAAATTAACTAATACTGTTTATAA
11790254 TTAAATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATAACTAATA
65 TTAAATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATAACTAATA
11790319 CTGTATATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATA
130 CTGTATATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATA
11790384 TTTTAATTTTATTCATTTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAGC
195 TTTTAATTTTATTCATTTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAGC
11790449 TGATACTGTTTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTAATT
260 TGATACTGTTTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTAATT
11790514 AAATATTTCAAAATAAATATTTAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATT
325 AAATATTTCAAAATAAATATTTAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATT
11790579 AAATTAACTAATACTGATTGTTTAAATTAAATATAATTATTTACTTTAATATTTTAATTTTATTC
390 AAATTAACTAATACTGATTGTTTAAATTAAATATAATTATTTACTTTAATATTTTAATTTTATTC
11790644 ATCAAAAGGAAGGCCATGGAAGCTAATTGTTTTGAACCCATTTTGATCTTAGTGGCCTACTTTTT
455 ATCAAAAGGAAGGCCATGGAAGCTAATTGTTTTGAACCCATTTTGATCTTAGTGGCCTACTTTTT
* * *
11790709 TGGTGGGTTAATGGATCAAATTGTAGAATAAAATCAGTAAAATCAAATTAAGGTGGGCGGTGAAG
520 TGGTGGGTTAATGGATCAAATTGTAGAATAAAATCAGTAAAATCAAATTAAGGTGGACAGTGAAA
** ** * * *
11790774 TTTGGATGTTTGTGATTTGTGAGATGGAAATCGAACATTGTCATGTTACCATTGCTCCTATAGGA
585 TTTGGATGTTTGTGATTTGTGAGATAAAAATCGAACATTACCATATTACCATTGCTCCTAAAGAA
11790839 TAAATTA
650 TAAATTA
11790846 TATGATTTGA
Statistics
Matches: 641, Mismatches: 14, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
764 3 0.00
765 638 1.00
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.42
Consensus pattern (765 bp):
TTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTTTATAAT
TAAATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATAACTAATAC
TGTATATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATAT
TTTAATTTTATTCATTTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAGCT
GATACTGTTTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTAATTA
AATATTTCAAAATAAATATTTAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTA
AATTAACTAATACTGATTGTTTAAATTAAATATAATTATTTACTTTAATATTTTAATTTTATTCA
TCAAAAGGAAGGCCATGGAAGCTAATTGTTTTGAACCCATTTTGATCTTAGTGGCCTACTTTTTT
GGTGGGTTAATGGATCAAATTGTAGAATAAAATCAGTAAAATCAAATTAAGGTGGACAGTGAAAT
TTGGATGTTTGTGATTTGTGAGATAAAAATCGAACATTACCATATTACCATTGCTCCTAAAGAAT
AAATTAAACTTAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
TTCAAATTAAATATTAAATTAACTAATACTGTTTATAATTAAATATTTAA
Found at i:11790347 original size:75 final size:76
Alignment explanation
Indices: 11790120--11790364 Score: 422
Period size: 76 Copynumber: 3.2 Consensus size: 76
11790110 TTACTTTAAT
*
11790120 ATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATACTGTTTATAATTAAATA
1 ATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATTAACTAATACTGTTTATAATTAAATA
*
11790185 TTTAATTAAAT
66 TTTAATTAAAC
11790196 ATAATTAAATAA-TAACATCTTTTAAATTAAATATTAAATTAACTAATACTGTTTATAATTAAAT
1 ATAATTAAATAATTAA-ATCTTTTAAATTAAATATTAAATTAACTAATACTGTTTATAATTAAAT
11790260 ATTTAATTAAAC
65 ATTTAATTAAAC
*
11790272 ATAATTAAATAATTAAATCTTTTAAATTAAATATTAAA-TAACTAATACTGTATATAATTAAATA
1 ATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATTAACTAATACTGTTTATAATTAAATA
*
11790336 TATAATTAAAC
66 TTTAATTAAAC
*
11790347 ATAGTTAAATAATTAAAT
1 ATAATTAAATAATTAAAT
11790365 ATAATTATTT
Statistics
Matches: 162, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
75 55 0.34
76 104 0.64
77 3 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (76 bp):
ATAATTAAATAATTAAATCTTTTAAATTAAATATTAAATTAACTAATACTGTTTATAATTAAATA
TTTAATTAAAC
Found at i:11790490 original size:135 final size:137
Alignment explanation
Indices: 11790255--11790613 Score: 517
Period size: 135 Copynumber: 2.6 Consensus size: 137
11790245 TGTTTATAAT
* * * *
11790255 TAAATATTTAATTAAACATAATTAAATAATTAAATCTTTTAAATTAAATA-TTAAATAACTAATA
1 TAAATATTCAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTAATA
* * *
11790319 CTGTATATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATA
66 CTGTTTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTAATTAAATA
*
11790384 TTT-TAA
131 TTTAAAA
** * * *
11790390 T-TTTATTCATTTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAGCTGATA
1 TAAATATTCAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTAATA
11790454 CTGTTTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTAATTAAATA
66 CTGTTTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTAATTAAATA
11790519 TTTCAAAA
131 TTT-AAAA
* *
11790527 TAAATATTTAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTAAATTAACTAATA
1 TAAATATTCAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTAATA
*
11790592 CTGATTGTTTAAATTAAATATA
66 CTG-TT-TAT-AATTAAATATA
11790614 ATTATTTACT
Statistics
Matches: 196, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
134 42 0.21
135 77 0.39
137 3 0.02
138 59 0.30
139 2 0.01
140 2 0.01
141 11 0.06
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (137 bp):
TAAATATTCAATTAAATATAATTAAATAATTAAATCTTTCAAATTAAATATTTAATTAACTAATA
CTGTTTATAATTAAATATATAATTAAACATAGTTAAATAATTAAATATAATTATTTAATTAAATA
TTTAAAA
Found at i:11790529 original size:26 final size:26
Alignment explanation
Indices: 11790486--11790582 Score: 90
Period size: 26 Copynumber: 3.5 Consensus size: 26
11790476 TTAAACATAG
* *
11790486 TTAAATAATTAAATATAATTATTTAA
1 TTAAATATTTAAATATAAATATTTAA
11790512 TTAAATATTTCAAA-ATAAATATTTAA
1 TTAAATATTT-AAATATAAATATTTAA
*
11790538 TTAAATATAATTAAATAATTAAATCTTTCAAA
1 TTAAATAT--TTAAAT-A-TAAATATTT--AA
11790570 TTAAATA-TTAAAT
1 TTAAATATTTAAAT
11790583 TAACTAATAC
Statistics
Matches: 60, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
26 28 0.47
27 6 0.10
28 2 0.03
29 7 0.12
30 8 0.13
32 9 0.15
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
TTAAATATTTAAATATAAATATTTAA
Found at i:11804615 original size:23 final size:23
Alignment explanation
Indices: 11804589--11804632 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11804579 TTTACTCGAC
*
11804589 AAATTTAAATAGTAAAATAAAAA
1 AAATTCAAATAGTAAAATAAAAA
* *
11804612 AAATTCATATATTAAAATAAA
1 AAATTCAAATAGTAAAATAAA
11804633 TCTAATTCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATTCAAATAGTAAAATAAAAA
Found at i:11817555 original size:23 final size:23
Alignment explanation
Indices: 11817489--11817555 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
11817479 AGTGCTGGGG
*
11817489 AAACAGTAAGCACACGCAGTACA
1 AAACAGTAAGCACACGCAGTGCA
* * *
11817512 AAACAGTAGGCAAACGTAGTGCA
1 AAACAGTAAGCACACGCAGTGCA
** *
11817535 AATTAGTAAGCACACACAGTG
1 AAACAGTAAGCACACGCAGTG
11817556 TTGAACAACA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (23 bp):
AAACAGTAAGCACACGCAGTGCA
Found at i:11819218 original size:21 final size:21
Alignment explanation
Indices: 11819176--11819226 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11819166 TGCAGATTTG
*
11819176 TACCGATACAAGTGACAGTTC
1 TACCGATACAAGTGACACTTC
***
11819197 TACCGATACAAGTTTTACTTC
1 TACCGATACAAGTGACACTTC
11819218 TACCGATAC
1 TACCGATAC
11819227 TAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (21 bp):
TACCGATACAAGTGACACTTC
Found at i:11820514 original size:42 final size:42
Alignment explanation
Indices: 11820401--11820580 Score: 217
Period size: 42 Copynumber: 4.3 Consensus size: 42
11820391 TGATGTATAA
*
11820401 AAAGGAAGACTCATGTCTCAGGTTGA-ACATGAGAATT-T-ATAT
1 AAAGGAAGACTCATGTCTCAGGATGAGA-ATGAG-ATTATGAT-T
*
11820443 AAATGGAAGACTCATGTCT-TGAGATGAGAATGAGATTATGATT
1 AAA-GGAAGACTCATGTCTCAG-GATGAGAATGAGATTATGATT
*
11820486 AAAGGAAGACTCATGTCT-AGAGAAGAGAATGAGATTATGATT
1 AAAGGAAGACTCATGTCTCAG-GATGAGAATGAGATTATGATT
* *
11820528 AAAGGAAGACTCATGTCTCAGGATGAGAATGAGAATATAATT
1 AAAGGAAGACTCATGTCTCAGGATGAGAATGAGATTATGATT
*
11820570 TAAGGAAGACT
1 AAAGGAAGACT
11820581 TATGACTCGA
Statistics
Matches: 124, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
42 90 0.73
43 31 0.25
44 3 0.02
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCAGGATGAGAATGAGATTATGATT
Found at i:11824147 original size:21 final size:21
Alignment explanation
Indices: 11824080--11824154 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
11824070 GAAGTTTTTA
*
11824080 GTATCGGTAGAAGCA-TGACTT
1 GTATCGGTAGAA-CAGTCACTT
* * *
11824101 GTTTCGGTAGAAGAGTCTCTT
1 GTATCGGTAGAACAGTCACTT
*
11824122 GTATCGGTAGAACTGTCACTT
1 GTATCGGTAGAACAGTCACTT
* *
11824143 TTATCGATAGAA
1 GTATCGGTAGAA
11824155 GTCTTACTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 1 0.02
21 42 0.98
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAACAGTCACTT
Found at i:11829908 original size:23 final size:23
Alignment explanation
Indices: 11829874--11829919 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11829864 CCGACTTGCT
* *
11829874 TAATAGTTGATTACCATCAATGA
1 TAATAGTAGATTACCATAAATGA
*
11829897 TAATAGTAGATTACGATAAATGA
1 TAATAGTAGATTACCATAAATGA
11829920 GAGCTGAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (23 bp):
TAATAGTAGATTACCATAAATGA
Found at i:11830466 original size:87 final size:87
Alignment explanation
Indices: 11830306--11830468 Score: 319
Period size: 86 Copynumber: 1.9 Consensus size: 87
11830296 GGACTGAAGC
11830306 GAATAGGACAATGAAAAAACAAGATTTTTTTATTTGATAATAATGACCATACTTTTATCTATGAT
1 GAATAGGACAATGAAAAAACAAGATTTTTTTATTTGATAATAATGACCATACTTTTATCTATGAT
11830371 TTCCTTTTTTTTTGGACCTCCA
66 TTCCTTTTTTTTTGGACCTCCA
11830393 GAATAGGACAATGAAAAAACAAGA-TTTTTTATTTGATAATAATGACCATACTTTTATCTATGAT
1 GAATAGGACAATGAAAAAACAAGATTTTTTTATTTGATAATAATGACCATACTTTTATCTATGAT
11830457 TTCCTTTTTTTT
66 TTCCTTTTTTTT
11830469 ATCCTTAAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 52 0.68
87 24 0.32
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (87 bp):
GAATAGGACAATGAAAAAACAAGATTTTTTTATTTGATAATAATGACCATACTTTTATCTATGAT
TTCCTTTTTTTTTGGACCTCCA
Found at i:11844703 original size:32 final size:32
Alignment explanation
Indices: 11844643--11844823 Score: 220
Period size: 32 Copynumber: 5.7 Consensus size: 32
11844633 GTAAATTCGC
* **
11844643 AGTATGCTCATAAGAGCTAATCAATCAGTGTAT
1 AGTATGCTCGTAAGAGCT-ATCAATCAGTAAAT
* *
11844676 AATATGCTCGTAAGATCTATCAATCAGTAAA-
1 AGTATGCTCGTAAGAGCTATCAATCAGTAAAT
* * *
11844707 ATTATGCTCGTAAGAGTTATCAATCAGCAAAT
1 AGTATGCTCGTAAGAGCTATCAATCAGTAAAT
* * *
11844739 AGCATGCTCGTAAGAGCTATCAATCAATAAAC
1 AGTATGCTCGTAAGAGCTATCAATCAGTAAAT
* * *
11844771 AGTATGCTCATAAGAGCTATCAATTAGTAATT
1 AGTATGCTCGTAAGAGCTATCAATCAGTAAAT
11844803 AGTATGCTCGTAAGAGCTATC
1 AGTATGCTCGTAAGAGCTATC
11844824 CAACCAACAC
Statistics
Matches: 125, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
31 27 0.22
32 83 0.66
33 15 0.12
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (32 bp):
AGTATGCTCGTAAGAGCTATCAATCAGTAAAT
Found at i:11853388 original size:23 final size:23
Alignment explanation
Indices: 11853374--11853524 Score: 221
Period size: 23 Copynumber: 6.6 Consensus size: 23
11853364 TTTACACATT
11853374 AATCACATTAACATTTAAGCATA
1 AATCACATTAACATTTAAGCATA
* *
11853397 AATCGCATTAACTTTTAAGCATA
1 AATCACATTAACATTTAAGCATA
*
11853420 AATCCCATTAACATTTAAGCATA
1 AATCACATTAACATTTAAGCATA
* * *
11853443 AACCGCATTAACTTTTAAGCATA
1 AATCACATTAACATTTAAGCATA
* *
11853466 AATCATATTAACATTTAAACATA
1 AATCACATTAACATTTAAGCATA
*
11853489 AATCATATTAACATTTAAGCATA
1 AATCACATTAACATTTAAGCATA
11853512 AATCACATTAACA
1 AATCACATTAACA
11853525 CATATAAATG
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 114 1.00
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.32
Consensus pattern (23 bp):
AATCACATTAACATTTAAGCATA
Found at i:11853541 original size:25 final size:26
Alignment explanation
Indices: 11853513--11853697 Score: 185
Period size: 25 Copynumber: 7.4 Consensus size: 26
11853503 TTAAGCATAA
*
11853513 ATCACATTAACACATATAA-ATGTTT
1 ATCACATTAACACATATAAGATGTAT
11853538 ATCACATTAACACCA-ATAAGCATG--T
1 ATCACATTAACA-CATATAAG-ATGTAT
11853563 ATCACATTAACACATATAAGA-GTAT
1 ATCACATTAACACATATAAGATGTAT
*
11853588 ATCACATTAACACAT-TTA-ATCGTAT
1 ATCACATTAACACATATAAGAT-GTAT
*
11853613 ATCACATGAACACATATAAGA-GTAT
1 ATCACATTAACACATATAAGATGTAT
*
11853638 ATCACATTAACACAT-TTA-ATCGTAT
1 ATCACATTAACACATATAAGAT-GTAT
* * * *
11853663 ATCACATGAACACATAT-TGGTATAT
1 ATCACATTAACACATATAAGATGTAT
11853688 ATCACATTAA
1 ATCACATTAA
11853698 TCAATAGTCA
Statistics
Matches: 136, Mismatches: 10, Indels: 28
0.78 0.06 0.16
Matches are distributed among these distances:
23 3 0.02
24 7 0.05
25 116 0.85
26 6 0.04
27 4 0.03
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCACATTAACACATATAAGATGTAT
Found at i:11853567 original size:50 final size:51
Alignment explanation
Indices: 11853504--11853697 Score: 218
Period size: 50 Copynumber: 3.9 Consensus size: 51
11853494 TATTAACATT
* *
11853504 TAAGCATAAATCACATTAACACATATAA-ATGTTTATCACATTAACACCA-A
1 TAAGCATATATCACATTAACACATATAAGA-GTATATCACATTAACACCATA
* *
11853554 TAAGCATGTATCACATTAACACATATAAGAGTATATCACATTAACA-CATT
1 TAAGCATATATCACATTAACACATATAAGAGTATATCACATTAACACCATA
* * * *
11853604 TAATCGTATATCACATGAACACATATAAGAGTATATCACATTAACA-CATT
1 TAAGCATATATCACATTAACACATATAAGAGTATATCACATTAACACCATA
* * * **
11853654 TAATCGTATATCACATGAACACATATTGGTA-TATATCACATTAA
1 TAAGCATATATCACATTAACACATATAAG-AGTATATCACATTAA
11853698 TCAATAGTCA
Statistics
Matches: 131, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
49 2 0.02
50 127 0.97
51 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.30
Consensus pattern (51 bp):
TAAGCATATATCACATTAACACATATAAGAGTATATCACATTAACACCATA
Found at i:11853599 original size:75 final size:76
Alignment explanation
Indices: 11853513--11853679 Score: 216
Period size: 75 Copynumber: 2.2 Consensus size: 76
11853503 TTAAGCATAA
* * *
11853513 ATCACATTAACACATATAAAT-GTTTATCACATTAACACCA-ATAAGCA-TGTATCACATTAACA
1 ATCACATTAACACATATAAATCGTATATCACATGAACA-CATATAAG-AGTATATCACATTAACA
11853575 CATATAAGAGTAT
64 CATATAAGAGTAT
*
11853588 ATCACATTAACACAT-TTAATCGTATATCACATGAACACATATAAGAGTATATCACATTAACACA
1 ATCACATTAACACATATAAATCGTATATCACATGAACACATATAAGAGTATATCACATTAACACA
* **
11853652 TTTAATCGTAT
66 TATAAGAGTAT
*
11853663 ATCACATGAACACATAT
1 ATCACATTAACACATAT
11853680 TGGTATATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
74 7 0.09
75 72 0.90
76 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (76 bp):
ATCACATTAACACATATAAATCGTATATCACATGAACACATATAAGAGTATATCACATTAACACA
TATAAGAGTAT
Found at i:11855889 original size:16 final size:16
Alignment explanation
Indices: 11855870--11855911 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
11855860 TAGTTTATAA
11855870 TTATTTTTTAAAATTT
1 TTATTTTTTAAAATTT
* *
11855886 TTATTTTTATATATTTT
1 TTATTTTT-TAAAATTT
11855903 TTATTTTTT
1 TTATTTTTT
11855912 TAGAATCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTTTAAAATTT
Found at i:11856520 original size:31 final size:32
Alignment explanation
Indices: 11856483--11856563 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
11856473 TTTTTGATCC
11856483 AATTTGGTACTCAAACTT-A-ACAC-TTTTTCCT
1 AATTTGGTACTCAAACTTGATACACATTTTT--T
11856514 AATTTGGTAC-CTAAACTTGATACACATTTTTT
1 AATTTGGTACTC-AAACTTGATACACATTTTTT
*
11856546 AAGTTGGTACTCAAACTT
1 AATTTGGTACTCAAACTT
11856564 TTTAGGGTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
30 1 0.02
31 16 0.36
32 17 0.39
33 5 0.11
34 5 0.11
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (32 bp):
AATTTGGTACTCAAACTTGATACACATTTTTT
Found at i:11856591 original size:91 final size:91
Alignment explanation
Indices: 11856449--11856614 Score: 208
Period size: 91 Copynumber: 1.8 Consensus size: 91
11856439 ATTTGACATT
* **
11856449 TTTTTTAATTTGGTACCTAAACTTTTTTTGATCCAATTTGGTACTCAAACTTAACACTTTTTCCT
1 TTTTTTAAGTTGGTACCTAAACTTTTTAGGATCCAATTTGGTACTCAAACTTAACACTTTTTCCT
*
11856514 AATTTGGTACCTAAACTTGATACACA
66 AATTTAGTACCTAAACTTGATACACA
* * ** * ***
11856540 TTTTTTAAGTTGGTA-CTCAAACTTTTTAGGGTCTAATTTGGTACTTGAACTTGATTTTTTTTCC
1 TTTTTTAAGTTGGTACCT-AAACTTTTTAGGATCCAATTTGGTACTCAAACTTAACACTTTTTCC
11856604 TAATTTAGTAC
65 TAATTTAGTAC
11856615 ATAATATTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
90 2 0.03
91 60 0.97
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (91 bp):
TTTTTTAAGTTGGTACCTAAACTTTTTAGGATCCAATTTGGTACTCAAACTTAACACTTTTTCCT
AATTTAGTACCTAAACTTGATACACA
Found at i:11857546 original size:70 final size:67
Alignment explanation
Indices: 11857424--11857556 Score: 187
Period size: 70 Copynumber: 1.9 Consensus size: 67
11857414 GTAAACAATA
* * *
11857424 TAATGGTTTTGCCTTTTAACTTAATTAATAAACATTTATCAAAACGAAGTAGTTTTGTCTTTTAA
1 TAATGGTTTTGACTTTTAACTTAATAAATAAACATTTATCAAAACGAAGTAGTTTTGCCTTTTAA
11857489 CT
66 CT
*
11857491 TAATGGTTTTGACTTTTAACTTTAGA-AAAGGTAAACATTTATCAAAACGATGTAGTTTTGCCTT
1 TAATGGTTTTGACTTTTAAC-TTA-ATAAA--TAAACATTTATCAAAACGAAGTAGTTTTGCCTT
11857555 TT
62 TT
11857557 TTTTATTTGG
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
67 19 0.33
68 5 0.09
69 1 0.02
70 33 0.57
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAATAAATAAACATTTATCAAAACGAAGTAGTTTTGCCTTTTAA
CT
Found at i:11870818 original size:20 final size:20
Alignment explanation
Indices: 11870793--11870832 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11870783 TTGATAGTTA
*
11870793 ACCGTTGACCGTTGACTTTT
1 ACCGTTGACCATTGACTTTT
*
11870813 ACCGTTGATCATTGACTTTT
1 ACCGTTGACCATTGACTTTT
11870833 TTCGAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (20 bp):
ACCGTTGACCATTGACTTTT
Found at i:11877282 original size:14 final size:14
Alignment explanation
Indices: 11877253--11877330 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
11877243 ACTATTGATC
* *
11877253 GACCGTTGGCTATT
1 GACCGTTGACCATT
* *
11877267 GACCATTGACCGTT
1 GACCGTTGACCATT
11877281 GACCGTTGACCATT
1 GACCGTTGACCATT
*
11877295 GA-CTTTGACCGA-T
1 GACCGTTGACC-ATT
* *
11877308 AACCGTTGA-CTTT
1 GACCGTTGACCATT
11877321 GACCGTTGAC
1 GACCGTTGAC
11877331 TTTTTTCGAA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
13 19 0.39
14 30 0.61
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (14 bp):
GACCGTTGACCATT
Found at i:11877304 original size:20 final size:20
Alignment explanation
Indices: 11877265--11877330 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
11877255 CCGTTGGCTA
*
11877265 TTGACCATTGACCGTTGACCG
1 TTGACCATTGA-CTTTGACCG
11877286 TTGACCATTGACTTTGACCG
1 TTGACCATTGACTTTGACCG
* * *
11877306 ATAACCGTTGACTTTGACCG
1 TTGACCATTGACTTTGACCG
11877326 TTGAC
1 TTGAC
11877331 TTTTTTCGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 28 0.72
21 11 0.28
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (20 bp):
TTGACCATTGACTTTGACCG
Found at i:11877327 original size:13 final size:13
Alignment explanation
Indices: 11877309--11877333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11877299 TTGACCGATA
11877309 ACCGTTGACTTTG
1 ACCGTTGACTTTG
11877322 ACCGTTGACTTT
1 ACCGTTGACTTT
11877334 TTTCGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (13 bp):
ACCGTTGACTTTG
Found at i:11877329 original size:7 final size:7
Alignment explanation
Indices: 11877265--11877330 Score: 64
Period size: 7 Copynumber: 9.7 Consensus size: 7
11877255 CCGTTGGCTA
*
11877265 TTGACCA
1 TTGACCG
11877272 TTGACCG
1 TTGACCG
11877279 TTGACCG
1 TTGACCG
*
11877286 TTGACCA
1 TTGACCG
*
11877293 TTGA-CT
1 TTGACCG
11877299 TTGACCG
1 TTGACCG
* *
11877306 ATAACCG
1 TTGACCG
*
11877313 TTGA-CT
1 TTGACCG
11877319 TTGACCG
1 TTGACCG
11877326 TTGAC
1 TTGAC
11877331 TTTTTTCGAA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
6 10 0.21
7 37 0.79
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (7 bp):
TTGACCG
Found at i:11881159 original size:15 final size:14
Alignment explanation
Indices: 11881141--11881190 Score: 73
Period size: 14 Copynumber: 3.4 Consensus size: 14
11881131 TTTCATTTCA
11881141 TTTCTTTTCGTTTTT
1 TTTCTTTTC-TTTTT
*
11881156 TTTCGTTTCTTTTT
1 TTTCTTTTCTTTTT
11881170 TTTCTTTTCTTTTCT
1 TTTCTTTTCTTTT-T
11881185 TTTCTT
1 TTTCTT
11881191 CCAAACAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 17 0.53
15 15 0.47
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (14 bp):
TTTCTTTTCTTTTT
Found at i:11881177 original size:5 final size:5
Alignment explanation
Indices: 11881125--11881190 Score: 73
Period size: 5 Copynumber: 13.4 Consensus size: 5
11881115 AATCTGATAT
* * * *
11881125 TTTTC ATTTC ATTTC ATTTC TTTTC GTTTT- TTTTC GTTTC TTTT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC
11881174 TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TT
11881191 CCAAACAGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
4 8 0.15
5 42 0.78
6 4 0.07
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:11883342 original size:16 final size:17
Alignment explanation
Indices: 11883305--11883344 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11883295 TCCAAGTGTT
* *
11883305 TTTATTTTATTTTTTTG
1 TTTATTTTACTTTTGTG
11883322 TTTATTTTACTTTTGTG
1 TTTATTTTACTTTTGTG
11883339 -TTATTT
1 TTTATTT
11883345 AAAAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (17 bp):
TTTATTTTACTTTTGTG
Found at i:11883865 original size:17 final size:17
Alignment explanation
Indices: 11883819--11883862 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
11883809 AACCAAAGTG
*
11883819 ATTTCATTTAATTTTAT
1 ATTTTATTTAATTTTAT
*
11883836 TTTTTATTTAATTTTA-
1 ATTTTATTTAATTTTAT
11883852 ATTTTATTTAA
1 ATTTTATTTAA
11883863 ATTATCGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTATTTAATTTTAT
Found at i:11894311 original size:2 final size:2
Alignment explanation
Indices: 11894304--11894349 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
11894294 GCCAACAGAA
11894304 AG AG AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11894345 AG AG A
1 AG AG A
11894350 AACAACGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11897570 original size:30 final size:31
Alignment explanation
Indices: 11897509--11897577 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
11897499 AGTAGATGAT
*
11897509 TGTTTTGTCACTTTTCGATAACTTTAGTGAC
1 TGTTTTGTCACTTTTCGATAACTTGAGTGAC
*
11897540 TGTTTTGTCACATTTTC-A-AAGTTGAGTGAC
1 TGTTTTGTCAC-TTTTCGATAACTTGAGTGAC
*
11897570 TGCTTTGT
1 TGTTTTGT
11897578 TAAATGTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 17 0.50
31 12 0.35
32 5 0.15
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (31 bp):
TGTTTTGTCACTTTTCGATAACTTGAGTGAC
Found at i:11899784 original size:196 final size:197
Alignment explanation
Indices: 11899432--11899810 Score: 697
Period size: 196 Copynumber: 1.9 Consensus size: 197
11899422 TGAAAAGGCA
* *
11899432 CAAAGCCTGTTGCCCCAATTACTTCACTTCATTGTGCTTGTAATGTATCATTTGGAATCTGTGGG
1 CAAAGCCTGTTGCCCCAATTACTTCACTTCATTGTGCTTGAAATGTATCAGTTGGAATCTGTGGG
*
11899497 CTTTTGGCTCTATAGAAAAATGAGAGTGGGGGAAATTTGAGATTCTTATTGGTTATGGTTTATGC
66 CTTCTGGCTCTATAGAAAAATGAGAGTGGGGGAAATTTGAGATTCTTATTGGTTATGGTTTATGC
*
11899562 ATTGGAGCACAATTTGGAAGCTCCATAGATAATTGGCAAAAGGAAAATAGATAATTGGCAAAAGC
131 ATTGGAGCACAATTTGGAAGCTCCATAGATAATTGGCAAAACGAAAATAGATAATTGGCAAAAGC
11899627 TG
196 TG
11899629 CAAAGCCTGTTGCCCCAATTACTTCACTTCATTGTGCTTGAAATGTATCAGTTGGAATCTGTGGG
1 CAAAGCCTGTTGCCCCAATTACTTCACTTCATTGTGCTTGAAATGTATCAGTTGGAATCTGTGGG
* *
11899694 CTTCTGGCTTTATAG-AAAATGAGAGTGGGGGAAGTTTGAGATTCTTATTGGTTATGGTTTATGC
66 CTTCTGGCTCTATAGAAAAATGAGAGTGGGGGAAATTTGAGATTCTTATTGGTTATGGTTTATGC
11899758 ATTGGAGCACAATTTGGAAGCTCCATAGATAATTGGCAAAACGAAAATAGATA
131 ATTGGAGCACAATTTGGAAGCTCCATAGATAATTGGCAAAACGAAAATAGATA
11899811 GCATTTTTCT
Statistics
Matches: 176, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
196 100 0.57
197 76 0.43
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (197 bp):
CAAAGCCTGTTGCCCCAATTACTTCACTTCATTGTGCTTGAAATGTATCAGTTGGAATCTGTGGG
CTTCTGGCTCTATAGAAAAATGAGAGTGGGGGAAATTTGAGATTCTTATTGGTTATGGTTTATGC
ATTGGAGCACAATTTGGAAGCTCCATAGATAATTGGCAAAACGAAAATAGATAATTGGCAAAAGC
TG
Found at i:11900647 original size:21 final size:20
Alignment explanation
Indices: 11900623--11900662 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11900613 TGTGATACTT
*
11900623 ATATTTGAAAATGTTAATATG
1 ATATTT-AAAATATTAATATG
*
11900644 ATATTTAAATTATTAATAT
1 ATATTTAAAATATTAATAT
11900663 TTATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
ATATTTAAAATATTAATATG
Found at i:11901856 original size:20 final size:21
Alignment explanation
Indices: 11901822--11901862 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
11901812 ATGCTTTTAC
11901822 AAGTTCAATTGATAGTATGAT
1 AAGTTCAATTGATAGTATGAT
*
11901843 AAGTTCAA-TGATAGTGTGAT
1 AAGTTCAATTGATAGTATGAT
11901863 GATCCAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (21 bp):
AAGTTCAATTGATAGTATGAT
Found at i:11910742 original size:41 final size:38
Alignment explanation
Indices: 11910642--11910745 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
11910632 TTCGAAGCAA
* *
11910642 TAAAGTGACACCCAATGTCTCATCG-ACCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
11910679 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
11910717 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
11910746 TTTAAGGTCA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 20 0.39
38 11 0.22
40 2 0.04
41 18 0.35
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:11911587 original size:2 final size:2
Alignment explanation
Indices: 11911580--11911636 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
11911570 TCTTTTATTT
11911580 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11911621 TA TA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA T
11911637 TAGTTAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11911652 original size:27 final size:27
Alignment explanation
Indices: 11911580--11911636 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
11911570 TCTTTTATTT
11911580 TATATATATATATATATATATATAATA
1 TATATATATATATATATATATATAATA
11911607 TATATATATATATATATATATATAATA
1 TATATATATATATATATATATATAATA
11911634 TAT
1 TAT
11911637 TAGTTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TATATATATATATATATATATATAATA
Found at i:11914126 original size:18 final size:19
Alignment explanation
Indices: 11914105--11914156 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
11914095 TAAAAATATA
11914105 TAAAAATGTTTTTAAAA-T-
1 TAAAAAT-TTTTTAAAATTG
* *
11914123 TAAAAATTATTCAAAATTG
1 TAAAAATTTTTTAAAATTG
11914142 TAAAAATATTTTTAA
1 TAAAAAT-TTTTTAA
11914157 TACTTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 7 0.26
18 8 0.30
19 7 0.26
20 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (19 bp):
TAAAAATTTTTTAAAATTG
Found at i:11914129 original size:36 final size:37
Alignment explanation
Indices: 11914082--11914156 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
11914072 TAATTTTCTA
* *
11914082 AAAATTTAAAA-T-TTAAAAATATATAAAAATGTTTTT
1 AAAATTAAAAATTATTAAAAAT-TATAAAAATATTTTT
* *
11914118 AAAATTAAAAATTATTCAAAATTGTAAAAATATTTTT
1 AAAATTAAAAATTATTAAAAATTATAAAAATATTTTT
11914155 AA
1 AA
11914157 TACTTTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 10 0.30
37 16 0.48
38 7 0.21
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (37 bp):
AAAATTAAAAATTATTAAAAATTATAAAAATATTTTT
Found at i:11920452 original size:17 final size:17
Alignment explanation
Indices: 11920430--11920464 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11920420 ACATATTGTG
*
11920430 TAATTTGGGTTTTTTTT
1 TAATTTGGCTTTTTTTT
*
11920447 TAATTTTGCTTTTTTTT
1 TAATTTGGCTTTTTTTT
11920464 T
1 T
11920465 TTTGTGACAT
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:0.11, C:0.03, G:0.11, T:0.74
Consensus pattern (17 bp):
TAATTTGGCTTTTTTTT
Found at i:11921203 original size:26 final size:25
Alignment explanation
Indices: 11921153--11921205 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
11921143 TTAAAAATAC
* * *
11921153 ATAAAAAAAAATAAAGATTATAAAA
1 ATAAAAAAAAATAAAAATCAGAAAA
11921178 ATAAAAAAAATATAAAAATCAGAAAA
1 ATAAAAAAAA-ATAAAAATCAGAAAA
11921204 AT
1 AT
11921206 TATTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (25 bp):
ATAAAAAAAAATAAAAATCAGAAAA
Found at i:11921212 original size:19 final size:17
Alignment explanation
Indices: 11921153--11921215 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 17
11921143 TTAAAAATAC
*
11921153 ATAAAAAAAAATAAAGATT
1 ATAAAAATAAA-AAA-ATT
*
11921172 ATAAAAATAAAAAAAAT
1 ATAAAAATAAAAAAATT
*
11921189 ATAAAAATCAGAAAAATT
1 ATAAAAAT-AAAAAAATT
11921207 ATTAAAAAT
1 A-TAAAAAT
11921216 TTAAAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 10 0.26
18 11 0.29
19 17 0.45
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (17 bp):
ATAAAAATAAAAAAATT
Found at i:11921318 original size:9 final size:9
Alignment explanation
Indices: 11921247--11921320 Score: 59
Period size: 8 Copynumber: 8.4 Consensus size: 9
11921237 ATACTTATAA
11921247 AAAATATAAT
1 AAAAT-TAAT
11921257 AAAA-TAAT
1 AAAATTAAT
*
11921265 AAAAATAA-
1 AAAATTAAT
*
11921273 AAACTT-AT
1 AAAATTAAT
*
11921281 AAATATTAAA
1 AAA-ATTAAT
11921291 AAAATCTAAT
1 AAAAT-TAAT
11921301 -AAATT-AT
1 AAAATTAAT
11921308 AAAATTAAT
1 AAAATTAAT
11921317 AAAA
1 AAAA
11921321 CGTATTTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
7 3 0.06
8 21 0.40
9 17 0.33
10 11 0.21
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATTAAT
Found at i:11921383 original size:20 final size:21
Alignment explanation
Indices: 11921336--11921383 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
11921326 TTAAAATTTT
* *
11921336 ATAAAAACCGTATAAAAATTC
1 ATAAAAACCATATAAAAAATC
* *
11921357 TTTAAAA-CATATAAAAAATC
1 ATAAAAACCATATAAAAAATC
11921377 ATAAAAA
1 ATAAAAA
11921384 TTTGAATTGG
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.25
Consensus pattern (21 bp):
ATAAAAACCATATAAAAAATC
Found at i:11921979 original size:29 final size:28
Alignment explanation
Indices: 11921947--11922006 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
11921937 TTTTATAAGT
11921947 TTTTATAAAATTT-TAAATTTTTAAATATA
1 TTTTAT-AAATTTATAAATTTTTAAATA-A
* *
11921976 TTTTATTAATTTATAATTTTTTAAATAA
1 TTTTATAAATTTATAAATTTTTAAATAA
11922004 TTT
1 TTT
11922007 ATTAGATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTATAAATTTATAAATTTTTAAATAA
Found at i:11922017 original size:29 final size:29
Alignment explanation
Indices: 11921955--11922018 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
11921945 GTTTTTATAA
11921955 AATTTTA-AATTTTTAAATATATTTTATT
1 AATTTTATAATTTTTAAATATATTTTATT
11921983 AA-TTTATAATTTTTTAAATA-A-TTTATT
1 AATTTTATAA-TTTTTAAATATATTTTATT
11922010 AGATTTTAT
1 A-ATTTTAT
11922019 TAGAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
27 11 0.34
28 6 0.19
29 15 0.47
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
AATTTTATAATTTTTAAATATATTTTATT
Found at i:11922028 original size:11 final size:11
Alignment explanation
Indices: 11922004--11922049 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
11921994 TTTTAAATAA
11922004 TTTATTAG-AT
1 TTTATTAGAAT
11922014 TTTATTAGAAT
1 TTTATTAGAAT
*
11922025 TTTATTAGGAT
1 TTTATTAGAAT
* *
11922036 TTTTTTATAAT
1 TTTATTAGAAT
11922047 TTT
1 TTT
11922050 TATAATATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 8 0.26
11 23 0.74
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (11 bp):
TTTATTAGAAT
Found at i:11922059 original size:11 final size:9
Alignment explanation
Indices: 11922037--11922070 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
11922027 TATTAGGATT
11922037 TTTTTATAA
1 TTTTTATAA
11922046 TTTTTATAA
1 TTTTTATAA
*
11922055 TATTTTATGA
1 T-TTTTATAA
11922065 TTTTTA
1 TTTTTA
11922071 ATGATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTTTATAA
Found at i:11922060 original size:10 final size:10
Alignment explanation
Indices: 11921934--11922062 Score: 58
Period size: 10 Copynumber: 12.9 Consensus size: 10
11921924 ATGATTTTTC
11921934 ATATTTTATA
1 ATATTTTATA
11921944 AGT-TTTTATA
1 A-TATTTTATA
*
11921954 AAATTTTA-A
1 ATATTTTATA
11921963 AT-TTTTA-A
1 ATATTTTATA
11921971 ATATATTT-TA
1 ATAT-TTTATA
* *
11921981 TTAATTTATA
1 ATATTTTATA
*
11921991 ATTTTTTA-A
1 ATATTTTATA
* *
11922000 ATAATTTATT
1 ATATTTTATA
*
11922010 AGATTTTATTA
1 ATATTTTA-TA
11922021 GA-ATTTTATTA
1 -ATATTTTA-TA
*
11922032 GGATTTTTTTATA
1 --A-TATTTTATA
11922045 AT-TTTTATA
1 ATATTTTATA
11922054 ATATTTTAT
1 ATATTTTAT
11922063 GATTTTTAAT
Statistics
Matches: 92, Mismatches: 14, Indels: 26
0.70 0.11 0.20
Matches are distributed among these distances:
8 8 0.09
9 22 0.24
10 40 0.43
11 12 0.13
12 3 0.03
13 2 0.02
14 5 0.05
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (10 bp):
ATATTTTATA
Found at i:11922074 original size:10 final size:9
Alignment explanation
Indices: 11922037--11922079 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
11922027 TATTAGGATT
*
11922037 TTTTTATAA
1 TTTTTATGA
*
11922046 TTTTTATAA
1 TTTTTATGA
11922055 TATTTTATGA
1 T-TTTTATGA
11922065 TTTTTAATGA
1 TTTTT-ATGA
11922075 TTTTT
1 TTTTT
11922080 TTTAAGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
9 14 0.45
10 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (9 bp):
TTTTTATGA
Found at i:11922089 original size:21 final size:21
Alignment explanation
Indices: 11922037--11922120 Score: 54
Period size: 20 Copynumber: 4.2 Consensus size: 21
11922027 TATTAGGATT
*
11922037 TTTTTATAA-TTTTT--ATAA
1 TTTTTATAAGTTTTTAAAGAA
* * *
11922055 TATTTTATGA-TTTTTAATGAT
1 T-TTTTATAAGTTTTTAAAGAA
*
11922076 TTTTTTTAAG-TTTTAAAGAA
1 TTTTTATAAGTTTTTAAAGAA
*
11922096 TTTTTATACGTTTTTATAA-AA
1 TTTTTATAAGTTTTTA-AAGAA
11922117 TTTT
1 TTTT
11922121 AAATATATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 22 0.44
21 13 0.26
22 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (21 bp):
TTTTTATAAGTTTTTAAAGAA
Found at i:11922130 original size:2 final size:2
Alignment explanation
Indices: 11922123--11922160 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11922113 AAAATTTTAA
11922123 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11922161 TAAATATACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.