Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold216
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: 469096
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 3
Found at i:57 original size:39 final size:39
Alignment explanation
Indices: 1--79 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
* * *
1 CCCCCACCTAGAGTATTCATCCTTATTCCTATCATCTTT
1 CCCCCACCTAGAATATTCATCCCTATTCCGATCATCTTT
40 CCCCCACCTAGAATATTCATCCCTATTCCGATCATCTTT
1 CCCCCACCTAGAATATTCATCCCTATTCCGATCATCTTT
79 C
1 C
80 TCCCTATAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.22, C:0.38, G:0.05, T:0.35
Consensus pattern (39 bp):
CCCCCACCTAGAATATTCATCCCTATTCCGATCATCTTT
Found at i:1788 original size:81 final size:81
Alignment explanation
Indices: 1646--1806 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
1636 TGCGTTTATC
* * *** *
1646 ATGCTTCTTAGTTGATTTTTTCTGCTTCCTGCCACTTTCATAGTCATCAGAATCACCACTTTCGC
1 ATGCTTCGTAGCTGATTTTTTCTGCTTCCTGCCACGGGCATAGTCATCAGAATCACCACTTTCAC
*
1711 TGTCATAAACCTTACA
66 TATCATAAACCTTACA
* *
1727 ATGCTTCGTAGCTGATTTTTTCTGCTTCCTGCCACGGGCATAGTCATCAGAATTACTACTTTCAC
1 ATGCTTCGTAGCTGATTTTTTCTGCTTCCTGCCACGGGCATAGTCATCAGAATCACCACTTTCAC
*
1792 TATCATAACCCTTAC
66 TATCATAAACCTTAC
1807 GACTCTTCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.38
Consensus pattern (81 bp):
ATGCTTCGTAGCTGATTTTTTCTGCTTCCTGCCACGGGCATAGTCATCAGAATCACCACTTTCAC
TATCATAAACCTTACA
Found at i:3061 original size:24 final size:23
Alignment explanation
Indices: 3030--3076 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
3020 ATAAAAAAAA
3030 ATTATATATTTTAAATTT-ATTTT
1 ATTATATATTTT-AATTTAATTTT
3053 ATTATTATATTTTAATTTAATTTT
1 ATTA-TATATTTTAATTTAATTTT
3077 TATATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTATATATTTTAATTTAATTTT
Found at i:3088 original size:23 final size:20
Alignment explanation
Indices: 3031--3088 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 20
3021 TAAAAAAAAA
*
3031 TTATATATTTTAAATTTATT
1 TTATATATTTTTAATTTATT
3051 TTATTATTATATTTTAATTTAATTT
1 TTA-TA-TAT-TTTTAATTT-A-TT
3076 TTATATAATTTTT
1 TTATAT-ATTTTT
3089 GATCAAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
20 3 0.10
21 2 0.06
22 3 0.10
23 13 0.42
24 5 0.16
25 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATATATTTTTAATTTATT
Found at i:4457 original size:64 final size:66
Alignment explanation
Indices: 4376--4503 Score: 165
Period size: 66 Copynumber: 2.0 Consensus size: 66
4366 TTTTTATAAA
* ** *
4376 TTAATTAAATTTAAAAAATTTA-ATAAAT-AA-TAATGTATTAATTATTATTTT-TAATAAAAAA
1 TTAATTAAA-TTAAAAAAATTACATAAATAAATTAAAATATTAATTATT-TTTTAAAATAAAAAA
4437 TAT
64 TAT
*
4440 TTAATTAACTTAAAAAAATTACATAAATAAATTAAAATATTAATTATTTTTTAAAATAAAAAAT
1 TTAATTAAATTAAAAAAATTACATAAATAAATTAAAATATTAATTATTTTTTAAAATAAAAAAT
4504 TAAATTAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
63 11 0.20
64 14 0.25
65 6 0.11
66 24 0.44
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (66 bp):
TTAATTAAATTAAAAAAATTACATAAATAAATTAAAATATTAATTATTTTTTAAAATAAAAAATA
T
Found at i:4510 original size:64 final size:62
Alignment explanation
Indices: 4373--4511 Score: 149
Period size: 64 Copynumber: 2.2 Consensus size: 62
4363 CTTTTTTTAT
* * **
4373 AAATTAATTAAATTTAAAAAATTTAATAAATAATAATGTATTAATTATTATTTTTAATAAAAA
1 AAATTAATT-AACTTAAAAAAATTAATAAATAATAAAATATTAATTATTATTTTTAATAAAAA
*
4436 ATATTTAATTAACTTAAAAAAATTACATAAATAAATTAAAATATTAATTA-T-TTTTTAA-AATA
1 A-AATTAATTAACTTAAAAAAATTA-ATAAAT-AA-TAAAATATTAATTATTATTTTTAATAA-A
4498 AA
61 AA
4500 AAATTAAATTAA
1 AAATT-AATTAA
4512 AAAGCGTTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
63 19 0.30
64 30 0.47
65 3 0.05
66 12 0.19
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (62 bp):
AAATTAATTAACTTAAAAAAATTAATAAATAATAAAATATTAATTATTATTTTTAATAAAAA
Found at i:4586 original size:117 final size:114
Alignment explanation
Indices: 4431--4662 Score: 419
Period size: 117 Copynumber: 2.0 Consensus size: 114
4421 TATTTTTAAT
4431 AAAAAATATTTAATTAACTTAAAAAAATTACATAAATAAATTAAAATATTAATTATTTTTTAAAA
1 AAAAAATATTTAATTAACTTAAAAAAATTACATAAATAAATTAAAATATTAATTATTTTTTAAAA
*
4496 TAAAAAATTAAATTAAAAAGCGTTTATTATTATTTTTTTAATAAAATTA
66 TAAAAAATTAAATTAAAAAGAGTTTATTATTATTTTTTTAATAAAATTA
*
4545 AAAATAATATTTAATTAACTTTAAAAAAATTTACATTAATAAATTAAAATATTAATTATTTTTTA
1 AAAA-AATATTTAATTAAC-TTAAAAAAA-TTACATAAATAAATTAAAATATTAATTATTTTTTA
4610 AAATAAAAAATTAAATTAAAAAGAGTTTATTATTATTTTTTTAATAAAATTA
63 AAATAAAAAATTAAATTAAAAAGAGTTTATTATTATTTTTTTAATAAAATTA
4662 A
1 A
4663 GTAAATTTAA
Statistics
Matches: 113, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
114 4 0.04
115 14 0.12
116 9 0.08
117 86 0.76
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (114 bp):
AAAAAATATTTAATTAACTTAAAAAAATTACATAAATAAATTAAAATATTAATTATTTTTTAAAA
TAAAAAATTAAATTAAAAAGAGTTTATTATTATTTTTTTAATAAAATTA
Found at i:4700 original size:29 final size:30
Alignment explanation
Indices: 4652--4736 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 30
4642 TTATTTTTTT
*
4652 AATAA-AATTAAGTAAA-TTTAATAAATAA
1 AATAATAATTAATTAAATTTTAATAAATAA
* *
4680 AATATTAATT-ATTATATTTT-ATAAATTAA
1 AATAATAATTAATTAAATTTTAATAAA-TAA
* *
4709 AATAATATTTAATTAAATTTTAAAAAAT
1 AATAATAATTAATTAAATTTTAATAAAT
4737 TAAGCTATGA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
28 13 0.29
29 18 0.40
30 10 0.22
31 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (30 bp):
AATAATAATTAATTAAATTTTAATAAATAA
Found at i:5035 original size:11 final size:11
Alignment explanation
Indices: 5019--5055 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
5009 TTATTACTTT
5019 TTATTTATAAA
1 TTATTTATAAA
* *
5030 TTATTTTTAAT
1 TTATTTATAAA
5041 TTATTTATAAA
1 TTATTTATAAA
5052 TTAT
1 TTAT
5056 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:8448 original size:3 final size:3
Alignment explanation
Indices: 8442--8471 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8432 TTAATTCAAA
8442 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8472 TGTCCATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9872 original size:77 final size:78
Alignment explanation
Indices: 9779--9927 Score: 212
Period size: 77 Copynumber: 1.9 Consensus size: 78
9769 TGGATCACTC
* * * * *
9779 ATTTTGTTTTAATTACTCATTTACTGTTTATTACGAGTTTAATTTCATCTTT-GAAAGTTG-AAA
1 ATTTTCTTTTAATTACTCATTTACTATATATCACGAGTCTAATTTCATCTTTAG-AAGTTGAAAA
9842 AAATGTTATAAATT
65 AAATGTTATAAATT
* *
9856 ATTTTCTTTTAATTACTCATTTACTATATATCATGAGTCTAATTTCTTCTTTAGAAGTTGAAAAA
1 ATTTTCTTTTAATTACTCATTTACTATATATCACGAGTCTAATTTCATCTTTAGAAGTTGAAAAA
9921 AATGTTA
66 AATGTTA
9928 ATCAATACTT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
77 51 0.81
78 12 0.19
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (78 bp):
ATTTTCTTTTAATTACTCATTTACTATATATCACGAGTCTAATTTCATCTTTAGAAGTTGAAAAA
AATGTTATAAATT
Found at i:11697 original size:15 final size:15
Alignment explanation
Indices: 11677--11705 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11667 AGAACCTTTC
11677 GCATTCTCTGAATTT
1 GCATTCTCTGAATTT
11692 GCATTCTCTGAATT
1 GCATTCTCTGAATT
11706 GGTCTCAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.45
Consensus pattern (15 bp):
GCATTCTCTGAATTT
Found at i:23065 original size:52 final size:52
Alignment explanation
Indices: 23006--23117 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
22996 GATGATGTCA
** * *
23006 AATAATATCATAGATAT-TTACATCTAATATTTTAAAAAT-TTATTTTAATA-TT
1 AATAATATCATA-ATATCTTA-ATAAAATA-TTTAAAAATAATAATTTAATATTT
*
23058 AATAATATCTTAATATCTTAATAAAATATTTAAAAATAATAATTTAATATTT
1 AATAATATCATAATATCTTAATAAAATATTTAAAAATAATAATTTAATATTT
23110 AATAATAT
1 AATAATAT
23118 ATTATAACTA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
50 9 0.17
51 19 0.37
52 24 0.46
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (52 bp):
AATAATATCATAATATCTTAATAAAATATTTAAAAATAATAATTTAATATTT
Found at i:23100 original size:21 final size:21
Alignment explanation
Indices: 23076--23116 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23066 CTTAATATCT
23076 TAATAAAATATTTAAAAATAA
1 TAATAAAATATTTAAAAATAA
** *
23097 TAATTTAATATTTAATAATA
1 TAATAAAATATTTAAAAATA
23117 TATTATAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATAAAATATTTAAAAATAA
Found at i:23514 original size:29 final size:29
Alignment explanation
Indices: 23478--23548 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
23468 GTTTAAAAAT
23478 ATTTTAATAATATATATGAAAATAAT-AAC
1 ATTTTAATAATATATATGAAAAT-ATGAAC
* *
23507 ATTTTAATAATATATTTGAAAATATGAAT
1 ATTTTAATAATATATATGAAAATATGAAC
23536 ATTTTAATAATAT
1 ATTTTAATAATAT
23549 TTAGTATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 2 0.05
29 37 0.95
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (29 bp):
ATTTTAATAATATATATGAAAATATGAAC
Found at i:23998 original size:13 final size:13
Alignment explanation
Indices: 23980--24004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23970 CATGGCATAT
23980 TGTATCGATACAA
1 TGTATCGATACAA
23993 TGTATCGATACA
1 TGTATCGATACA
24005 TGAAGAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:23999 original size:33 final size:32
Alignment explanation
Indices: 23960--24024 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
23950 TATCACTGTT
23960 TGTATCGATACATG-GCATATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
23993 TGTATCGATACATGAAGAATTGTATCGATACA
1 TGTATCGATACATG-AGAATTGTATCGATACA
24025 CTATGCCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:26042 original size:16 final size:15
Alignment explanation
Indices: 26016--26063 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
26006 GGAAGAAAAT
26016 AAATCAAAATTTGTTGA
1 AAAT-AAAA-TTGTTGA
*
26033 AAATAAAATTCTTGA
1 AAATAAAATTGTTGA
*
26048 AAAGAAAATTGTTGA
1 AAATAAAATTGTTGA
26063 A
1 A
26064 CTAAAAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 20 0.71
16 4 0.14
17 4 0.14
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.31
Consensus pattern (15 bp):
AAATAAAATTGTTGA
Found at i:27717 original size:20 final size:19
Alignment explanation
Indices: 27671--27748 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
27661 TTTTACACAG
* **
27671 ATGTATCGATACATTTTTCT
1 ATGTATCGATACA-TTATGA
*
27691 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TATGA
* * *
27711 ATGTATCGATATATTCTTTA
1 ATGTATCGATACATT-ATGA
27731 ATGTATCGATACATTATG
1 ATGTATCGATACATTATG
27749 TCTTCTTAAC
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
19 3 0.07
20 42 0.93
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.44
Consensus pattern (19 bp):
ATGTATCGATACATTATGA
Found at i:27738 original size:40 final size:39
Alignment explanation
Indices: 27671--27748 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
27661 TTTTACACAG
*
27671 ATGTATCGATACATTTTTCTATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCAATATATCGATACAT-TATGA
* *
27711 ATGTATCGATATATTCTTT-AATGTATCGATACATTATG
1 ATGTATCGATACATT-TTTCAATATATCGATACATTATG
27749 TCTTCTTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 27 0.79
41 3 0.09
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.44
Consensus pattern (39 bp):
ATGTATCGATACATTTTTCAATATATCGATACATTATGA
Found at i:41283 original size:10 final size:10
Alignment explanation
Indices: 41263--41316 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
41253 CCTTTACACC
41263 AAAAAAA-AA
1 AAAAAAACAA
*
41272 AACAAAACAA
1 AAAAAAACAA
41282 AAAAAAACAA
1 AAAAAAACAA
*
41292 AAAACAAAGAA
1 AAAA-AAACAA
* *
41303 AAAATAGCAA
1 AAAAAAACAA
41313 AAAA
1 AAAA
41317 GAAAAGGGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
9 6 0.16
10 22 0.59
11 9 0.24
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:41284 original size:17 final size:17
Alignment explanation
Indices: 41262--41306 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
41252 TCCTTTACAC
41262 CAAAAAAAAA-AACAAAA
1 CAAAAAAAAACAA-AAAA
41279 CAAAAAAAAACAAAAAA
1 CAAAAAAAAACAAAAAA
41296 CAAAGAAAAAA
1 CAAA-AAAAAA
41307 TAGCAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAACAAAAAA
Found at i:41285 original size:15 final size:15
Alignment explanation
Indices: 41265--41293 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
41255 TTTACACCAA
41265 AAAAAAAAACAAAAC
1 AAAAAAAAACAAAAC
41280 AAAAAAAAACAAAA
1 AAAAAAAAACAAAA
41294 AACAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAACAAAAC
Found at i:41304 original size:21 final size:22
Alignment explanation
Indices: 41263--41321 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
41253 CCTTTACACC
41263 AAAAA-AAAAAACAAAACAAAA
1 AAAAACAAAAAACAAAACAAAA
*
41284 AAAAACAAAAAAC-AAAGAAAA
1 AAAAACAAAAAACAAAACAAAA
* * *
41305 AATAGCAAAAAAGAAAA
1 AAAAACAAAAAACAAAA
41322 GGGTCTAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.85, C:0.08, G:0.05, T:0.02
Consensus pattern (22 bp):
AAAAACAAAAAACAAAACAAAA
Found at i:42575 original size:29 final size:29
Alignment explanation
Indices: 42534--43320 Score: 1056
Period size: 29 Copynumber: 27.1 Consensus size: 29
42524 TGTTCATCCC
42534 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
42563 TTTCAAAGTCCACGAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
42591 TTTCAAAGCCTACAAGTCAGTGACACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
42620 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
42649 TTTCAAAGCCTATAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
42677 TTTTAAAGCCCACAAGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
42706 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
42735 TTTCAAAGCTCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
42764 TTTCAAAGCCTACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
42793 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
42821 TTTAAAAGCCCACAATTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
42850 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
42878 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
42907 TTTTAAAGCCCACACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
* *
42939 TTTCAAAGCCCATAAGTCAGTGGCACTAT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
42968 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
42996 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
43024 TTTCAAAGCCCATGCAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
*
43054 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
43083 TTTCAAAGCCCACAAGTTAGCGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
43111 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
43139 TTTCAAAGCCCACGTAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACTCT
*
43169 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
43198 TTTCAAAGCCCACAAGTCAGTGACACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
43227 TTT-AAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
**
43255 TTTCAAAGCCCACACGAGTTGGTGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
* *
43287 TTTCAAAGCCCACACAAGTTAGTGGCACTAT
1 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
43318 TTT
1 TTT
43321 TTTAAAAAAA
Statistics
Matches: 673, Mismatches: 66, Indels: 36
0.87 0.09 0.05
Matches are distributed among these distances:
28 229 0.34
29 311 0.46
30 64 0.10
31 24 0.04
32 39 0.06
33 2 0.00
34 4 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:42619 original size:57 final size:57
Alignment explanation
Indices: 42531--43320 Score: 1109
Period size: 57 Copynumber: 13.6 Consensus size: 57
42521 GAATGTTCAT
* *
42531 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGTCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
42588 CCCTTTCAAAGCCTACAAGTCAGTGACACTCTTTTCAAAGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
42645 CTCTTTTCAAAGCCTATAAGTCAGTGGCAC-CTTTTTAAAGCCCACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
*
42702 CTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
42760 CTCTTTTCAAAGCCTACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
42818 CCCTTTAAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
42875 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACACGAGTCGGTGGCAA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-A
* * *
42935 CTCTTTTCAAAGCCCATAAGTCAGTGGCACTATTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
*
42993 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCATGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCA
* * *
43051 CCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGCGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
43108 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACGTAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC--AAGTCAGTGGCA
* *
43166 CCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGACA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* **
43223 CCCTTTTAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCAA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-A
* * *
43283 CTCTTTTCAAAGCCCACACAAGTTAGTGGCACTATTTT
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGCACTCTTTT
43321 TTTAAAAAAA
Statistics
Matches: 659, Mismatches: 56, Indels: 30
0.88 0.08 0.04
Matches are distributed among these distances:
56 27 0.04
57 319 0.48
58 185 0.28
59 53 0.08
60 4 0.01
61 49 0.07
62 2 0.00
63 20 0.03
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (57 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:42736 original size:115 final size:114
Alignment explanation
Indices: 42531--43320 Score: 1109
Period size: 115 Copynumber: 6.8 Consensus size: 114
42521 GAATGTTCAT
* *
42531 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGTCCACGAGTCAGTGGCACCCTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
* * *
42596 AAGCCTACAAGTCAGTGACACTCTTTTCAAAGCCCACAAATCAGTGGCA
66 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
42645 CTCTTTTCAAAGCCTATAAGTCAGTGGCAC-CTTTTTAAAGCCCACAAGTTAGTGGCACTCCTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTT
*
42709 CAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCA
64 CAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
42760 CTCTTTTCAAAGCCTACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
*
42825 AAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
42875 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACACGAGTCGGTGGCAACTCTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
* *
42940 TTCAAAGCCCATAAGTCAGTGGCACTATTTTCAAAGCCCACAAGTCAGTGGCA
62 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
*
42993 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCATGCAAGTCAGTGGCACCCTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTT
* * *
43057 CAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGCGGCA
64 CAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
43108 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACGTAAGTCAGTGGCACCCTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC--AAGTCAGTGGCACCCTTT
* *
43172 CAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGACA
64 CAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* ** *
43223 CCCTTTTAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCAACTCTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
* *
43288 TTCAAAGCCCACACAAGTTAGTGGCACTATTTT
62 TTCAAAG-CC-CACAAGTCAGTGGCACTCTTTT
43321 TTTAAAAAAA
Statistics
Matches: 610, Mismatches: 48, Indels: 30
0.89 0.07 0.04
Matches are distributed among these distances:
113 1 0.00
114 67 0.11
115 343 0.56
116 60 0.10
117 25 0.04
118 89 0.15
119 4 0.01
120 21 0.03
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (114 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:43937 original size:20 final size:19
Alignment explanation
Indices: 43875--43940 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
43865 TTTTACCCAG
43875 ATGTATCGATACATTTTTCA
1 ATGTATCGATACA-TTTTCA
* * *
43895 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TTTCA
*
43915 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATT-TTCA
43935 ATGTAT
1 ATGTAT
43941 ACATTATGTC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.05
20 35 0.95
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:49848 original size:20 final size:20
Alignment explanation
Indices: 49823--49889 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
49813 TTTCAACGAT
49823 TTGTATCGATACATAAACTA
1 TTGTATCGATACATAAACTA
49843 TTGTATCG----AT--AC-A
1 TTGTATCGATACATAAACTA
49856 TTGTATCGATACATAAACTA
1 TTGTATCGATACATAAACTA
49876 TTGTATCGATACAT
1 TTGTATCGATACAT
49890 TGTATCGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.22
14 2 0.05
16 2 0.05
17 2 0.05
19 2 0.05
20 23 0.57
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATAAACTA
Found at i:49860 original size:13 final size:13
Alignment explanation
Indices: 49842--49934 Score: 74
Period size: 13 Copynumber: 7.2 Consensus size: 13
49832 TACATAAACT
49842 ATTGTATCGATAC
1 ATTGTATCGATAC
49855 ATTGTATCGATAC
1 ATTGTATCGATAC
49868 A---TA---A-AC
1 ATTGTATCGATAC
49874 TATTGTATCGATAC
1 -ATTGTATCGATAC
49888 ATTGTATCGATAC
1 ATTGTATCGATAC
49901 ATAAATTTTGTATCGATAC
1 ----A--TTGTATCGATAC
49920 ATTGTATCGATAC
1 ATTGTATCGATAC
49933 AT
1 AT
49935 AAATTTTGTA
Statistics
Matches: 66, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
10 4 0.06
13 42 0.64
14 2 0.03
15 1 0.02
17 1 0.02
19 12 0.18
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:49917 original size:32 final size:33
Alignment explanation
Indices: 49823--49952 Score: 228
Period size: 33 Copynumber: 4.0 Consensus size: 33
49813 TTTCAACGAT
49823 TTGTATCGATACATAAACTATTGTATCGATACA
1 TTGTATCGATACATAAACTATTGTATCGATACA
49856 TTGTATCGATACATAAACTATTGTATCGATACA
1 TTGTATCGATACATAAACTATTGTATCGATACA
*
49889 TTGTATCGATACATAAA-TTTTGTATCGATACA
1 TTGTATCGATACATAAACTATTGTATCGATACA
*
49921 TTGTATCGATACATAAA-TTTTGTATCGATACA
1 TTGTATCGATACATAAACTATTGTATCGATACA
49953 ATTTAAGCTA
Statistics
Matches: 96, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 46 0.48
33 50 0.52
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATAAACTATTGTATCGATACA
Found at i:49978 original size:65 final size:65
Alignment explanation
Indices: 49823--49985 Score: 172
Period size: 65 Copynumber: 2.5 Consensus size: 65
49813 TTTCAACGAT
* * *
49823 TTGTATCGATACATAAACTATTGTATCGATACATTGTATCGATACATAAACTATTGTATCGATAC
1 TTGTATAGATACATAAA-AAATGTATCGATACATTGTATCGATACATAAACTATTGTATCGATAC
49888 A
65 A
* *** *
49889 TTGTATCGATACATAAATTTTGTATCGATACATTGTATCGATACATAAA-TTTTGTATCGATACA
1 TTGTATAGATACATAAAAAATGTATCGATACATTGTATCGATACATAAACTATTGTATCGATAC-
49953 A
65 A
*
49954 TT-TA-AGCTAC-TGCCAAAAAATGTATCGATACA
1 TTGTATAGATACAT---AAAAAATGTATCGATACA
49986 ATACTCAAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
62 1 0.01
63 4 0.05
64 15 0.17
65 49 0.57
66 17 0.20
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (65 bp):
TTGTATAGATACATAAAAAATGTATCGATACATTGTATCGATACATAAACTATTGTATCGATACA
Found at i:63925 original size:19 final size:19
Alignment explanation
Indices: 63902--63944 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
63892 GCGTCCTCCG
63902 CAAAAAAAAACAA-AAAAA
1 CAAAAAAAAACAACAAAAA
*
63920 CAAAAAAAAACAACAACAA
1 CAAAAAAAAACAACAAAAA
63939 CAAAAA
1 CAAAAA
63945 GGGTCCGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (19 bp):
CAAAAAAAAACAACAAAAA
Found at i:65413 original size:29 final size:29
Alignment explanation
Indices: 65373--65697 Score: 212
Period size: 29 Copynumber: 10.9 Consensus size: 29
65363 ATTCCTCACC
65373 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCTT
65403 TTTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCATCTT
* *
65432 TTTCAAAGTCCACAAGTCAGTGGCAAC--
1 TTTCAAAGCCCACAAGTCAGTGGCATCTT
* * *
65459 CTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCTT
* * * *
65489 TTCCGAAGCCCACAAGTCGGTAGCATC-T
1 TTTCAAAGCCCACAAGTCAGTGGCATCTT
* * * *
65517 TTTCTAAAGTCCACAACTCCGTGGCACTTTT
1 TTTC-AAAGCCCACAAGTCAGTGGCA-TCTT
* * * * * *
65548 TTTCTTTTGTAAGCTCACAACTCCGTAGCACTATT
1 TTTC-----AAAGCCCACAAGTCAGTGGCA-TCTT
* * * *
65583 TTTCCTTTTAAGCCCACAAGTTAGTGGCACCCT
1 TTT-C---AAAGCCCACAAGTCAGTGGCATCTT
* *
65616 TTTCAAAAGCCCACAAGTCAGTGGCAAC-C
1 TTTC-AAAGCCCACAAGTCAGTGGCATCTT
* *
65645 TTTAAAAGCCCACAAGTCAGTAGCAATC--
1 TTTCAAAGCCCACAAGTCAGTGGC-ATCTT
*
65673 TTTAAAAGCCCACAAGTCAGTGGCA
1 TTTCAAAGCCCACAAGTCAGTGGCA
65698 ACCTTCAAAA
Statistics
Matches: 239, Mismatches: 44, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
27 23 0.10
28 47 0.20
29 72 0.30
30 44 0.18
31 5 0.02
32 1 0.00
33 4 0.02
34 18 0.08
35 24 0.10
36 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCTT
Found at i:65479 original size:56 final size:58
Alignment explanation
Indices: 65373--65715 Score: 187
Period size: 56 Copynumber: 5.7 Consensus size: 58
65363 ATTCCTCACC
* * * *
65373 TTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCA-TCTT
1 TTTC-AAAGCCCACAAGTCAGTGGCAAC-TCTTCAAAGCCCACAAATCAGTGGCACCCTT
*
65432 TTTCAAAGTCCACAAGTCAGTGGCAAC-CTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAGCCCACAAATCAGTGGCACCCTT
* * * * * * * * * **
65489 TTCCGAAGCCCACAAGTCGGTAGCATCTTTTCTAAAGTCCACAACTCCGTGGCACTTTT
1 TTTCAAAGCCCACAAGTCAGTGGCAACTCTTC-AAAGCCCACAAATCAGTGGCACCCTT
* * * * * * ** * *
65548 TTTCTTTTGTAAGCTCACAACTCCGTAGCACTATTTTTCCTTTTAAGCCCACAAGTTAGTGGCAC
1 TTTC-----AAAGCCCACAAGTCAGTGGCA--A---CT-CTTCAAAGCCCACAAATCAGTGGCAC
65613 CC-T
55 CCTT
* * * * *
65616 TTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTTAAAAGCCCACAAGTCAGTAGCA--ATC
1 TTTC-AAAGCCCACAAGTCAGTGGCAACTC-TTCAAAGCCCACAAATCAGTGGCACCCTT
* *
65673 TTTAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCACACAA
1 TTTCAAAGCCCACAAGTCAGTGGCAACTCTTC-AAAGCCCACAA
65716 GTTGATGCAA
Statistics
Matches: 218, Mismatches: 49, Indels: 37
0.72 0.16 0.12
Matches are distributed among these distances:
55 2 0.01
56 57 0.26
57 28 0.13
58 44 0.20
59 28 0.13
62 1 0.00
64 33 0.15
68 5 0.02
69 18 0.08
70 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (58 bp):
TTTCAAAGCCCACAAGTCAGTGGCAACTCTTCAAAGCCCACAAATCAGTGGCACCCTT
Found at i:65502 original size:86 final size:85
Alignment explanation
Indices: 65378--65542 Score: 233
Period size: 86 Copynumber: 1.9 Consensus size: 85
65368 TCACCTTTCA
* * * *
65378 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTT-TCAAAGTC
1 AAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTAGCATCTTTTCT-AAAGTC
*
65442 CACAAGTCAGTGGCAACCTTC
65 CACAACTCAGTGGCAACCTTC
* *
65463 AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTAGCATCTTTTCTAAAGTC
1 AAAGCCCACAAATCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTAGCATCTTTTCTAAAGTC
*
65528 CACAACTCCGTGGCA
65 CACAACTCAGTGGCA
65543 CTTTTTTTCT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 20 0.29
86 49 0.70
87 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (85 bp):
AAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTAGCATCTTTTCTAAAGTCC
ACAACTCAGTGGCAACCTTC
Found at i:65601 original size:34 final size:35
Alignment explanation
Indices: 65527--65601 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
65517 TTTCTAAAGT
* * *
65527 CCACAACTCCGTGGCACTTTTTTTCTTTTGTAAGC
1 CCACAACTCCGTAGCACTATTTTTCCTTTGTAAGC
*
65562 TCACAACTCCGTAGCACTATTTTTCCTTT-TAAGC
1 CCACAACTCCGTAGCACTATTTTTCCTTTGTAAGC
65596 CCACAA
1 CCACAA
65602 GTTAGTGGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 10 0.29
35 25 0.71
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.36
Consensus pattern (35 bp):
CCACAACTCCGTAGCACTATTTTTCCTTTGTAAGC
Found at i:65660 original size:28 final size:28
Alignment explanation
Indices: 65592--65743 Score: 182
Period size: 28 Copynumber: 5.3 Consensus size: 28
65582 TTTTCCTTTT
* *
65592 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
65622 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
65650 AAGCCCACAAGTCAGTAGCAATCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
65678 AAGCCCACAAGTCAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
65706 AAGCACACAAGT-TGAT-GCAAACCTTTCAA
1 AAGCCCACAAGTCAG-TGGC-AACCTTT-AA
65735 AAGCCCACA
1 AAGCCCACA
65744 CAAGTTGGTG
Statistics
Matches: 108, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
27 3 0.03
28 71 0.66
29 13 0.12
30 21 0.19
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:65831 original size:48 final size:49
Alignment explanation
Indices: 65763--66102 Score: 427
Period size: 48 Copynumber: 7.0 Consensus size: 49
65753 GGCGTCTTCT
* * *
65763 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
65811 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
65859 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT--CATC
*
65911 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
65960 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGTACC-TCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
66008 TTTAAGCCCAATATCGCTGGCCTTGAAACAGCATATTGGCACCTT-GTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
66056 TTTAAGACCAATGTCGCCGGCCTTGAATCAGCACATTGTCACCTTCA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
66103 AGTCTAACTG
Statistics
Matches: 252, Mismatches: 33, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
47 3 0.01
48 158 0.63
49 43 0.17
50 2 0.01
51 2 0.01
52 44 0.17
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:66032 original size:149 final size:145
Alignment explanation
Indices: 65763--66102 Score: 493
Period size: 149 Copynumber: 2.3 Consensus size: 145
65753 GGCGTCTTCT
* * *
65763 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGTCCAATGTAG
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
* * * *
65827 CTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
66 CTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAAACAGCA
*
65892 TATTGGCGCCTTTGGCACC
131 TATTGGCACC-TT-G--CC
* *
65911 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
65976 CTGGCCTTGAATCAGCACATTGGTACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAAACAGCA
66 CTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAAACAGCA
*
66041 TATTGGCACCTTGTC
131 TATTGGCACCTTGCC
* * * *
66056 TTTAAGACCAATGTCGCCGGCCTTGAATCAGCACATTGTCACCTTCA
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
66103 AGTCTAACTG
Statistics
Matches: 174, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
145 42 0.24
147 1 0.01
148 44 0.25
149 87 0.50
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (145 bp):
TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAAACAGCA
TATTGGCACCTTGCC
Found at i:66876 original size:13 final size:13
Alignment explanation
Indices: 66858--66885 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
66848 TACATAAACT
66858 ATTGTATTGATAC
1 ATTGTATTGATAC
66871 ATTGTATTGATAC
1 ATTGTATTGATAC
66884 AT
1 AT
66886 AAATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (13 bp):
ATTGTATTGATAC
Found at i:66881 original size:33 final size:32
Alignment explanation
Indices: 66839--66903 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
66829 TTTCAACGAT
*
66839 TTGTATTGATACATAAACTATTGTATTGATACA
1 TTGTATTGATACATAAA-TATTGTATCGATACA
*
66872 TTGTATTGATACATAAATTTTGTATCGATACA
1 TTGTATTGATACATAAATATTGTATCGATACA
66904 ATTTAAGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (32 bp):
TTGTATTGATACATAAATATTGTATCGATACA
Found at i:67035 original size:52 final size:52
Alignment explanation
Indices: 66979--67107 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
66969 CACTGATCTT
* *
66979 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATGGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
67031 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
67083 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
67108 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:73959 original size:33 final size:33
Alignment explanation
Indices: 73922--74001 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
73912 CCTCACTATT
**
73922 TGTATCGATACATGGCACATTATATCGATACCG
1 TGTATCGATACATGGCACATTATATCGATACAA
*
73955 TGTATTGATACATGGCACATTATATCGATACAA
1 TGTATCGATACATGGCACATTATATCGATACAA
*
73988 TGTATCAATACATG
1 TGTATCGATACATG
74002 AAGAATTGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTATATCGATACAA
Found at i:74782 original size:18 final size:18
Alignment explanation
Indices: 74759--74793 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74749 GAACTTACAT
*
74759 TAATAATATTAAATATTA
1 TAATAAAATTAAATATTA
74777 TAATAAAATTAAATATT
1 TAATAAAATTAAATATT
74794 TTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAAATTAAATATTA
Found at i:74810 original size:25 final size:26
Alignment explanation
Indices: 74782--74832 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
74772 TATTATAATA
74782 AAATTAAATATTTTAAAT-ATATTTT
1 AAATTAAATATTTTAAATAATATTTT
* * *
74807 AAATTTAATTTTTTTAATAATATTTT
1 AAATTAAATATTTTAAATAATATTTT
74833 CTCTCTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
AAATTAAATATTTTAAATAATATTTT
Found at i:77423 original size:15 final size:16
Alignment explanation
Indices: 77398--77427 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77388 ATTAATTGAT
77398 TAAATATATTTAAATG
1 TAAATATATTTAAATG
77414 TAAA-ATATTTAAAT
1 TAAATATATTTAAAT
77428 ATTTATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAATATATTTAAATG
Found at i:81287 original size:79 final size:78
Alignment explanation
Indices: 81177--81405 Score: 257
Period size: 79 Copynumber: 2.9 Consensus size: 78
81167 CAAACCAGGG
* * *
81177 TTGGAGTATCCTCTCAGAAATAACGGGGTTGGAGTATTCCCAATTGTGAAAAATCAATATTTTAG
1 TTGGAGTATCCCCTCAGAAATAA-GGGGTTGGAGTATTCCCGATTGTGAAAAATCGATATTTTAG
81242 AAATAAAATCGAGA
65 AAATAAAATCGAGA
* * *
81256 TTGGAGTACCCCCTC-GAAAATAATGGGGTTGGAGTA-TCCCTGATAGTGAAAAATCGATGTTTT
1 TTGGAGTATCCCCTCAG-AAATAA-GGGGTTGGAGTATTCCC-GATTGTGAAAAATCGATATTTT
* *
81319 -GAAAATAAAATCGGGG
63 AG-AAATAAAATCGAGA
* * * * * *
81335 CTGGAATATCTCCTCAGAAATAAGGGCATTAGAGTATCCCCGATTGTGAAAAATCGATATTTTAG
1 TTGGAGTATCCCCTCAGAAATAAGGG-GTTGGAGTATTCCCGATTGTGAAAAATCGATATTTTAG
81400 AAATAA
65 AAATAA
81406 GTTCAGGGTT
Statistics
Matches: 125, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
78 9 0.07
79 111 0.89
80 5 0.04
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (78 bp):
TTGGAGTATCCCCTCAGAAATAAGGGGTTGGAGTATTCCCGATTGTGAAAAATCGATATTTTAGA
AATAAAATCGAGA
Found at i:81447 original size:130 final size:130
Alignment explanation
Indices: 81281--81518 Score: 320
Period size: 131 Copynumber: 1.8 Consensus size: 130
81271 GAAAATAATG
* * * *
81281 GGGTTGGAGTATCCCTGATAGTGAAAAATCGATGTTTT-GAAAATAAAA-TCGGGGCTGGAATAT
1 GGGTTAGAGTATCCCTGATAGTGAAAAATCGATGTTTTGGAAAAAAAAACT-AGAGCTGGAATAT
* *
81344 CTCCTCAGAAATAA-GGGCATTAGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAGT
65 CCCCTCAGAAATAACGGG-ATTAGAGTATCCCCGATTAT-AAAAATCGATATTTTAGAAATAAGT
81408 TCA
128 TCA
* * * * *
81411 GGGTTAGAGTATCCTTGATTGTGAAAAATCGGTGTTTTGGAAAAAAAAACTAGAGTTGGAGTATC
1 GGGTTAGAGTATCCCTGATAGTGAAAAATCGATGTTTTGGAAAAAAAAACTAGAGCTGGAATATC
*
81476 CCCTCAGAAATAACGGGGTTAGAGTATCCCCGATTATAAAAAT
66 CCCTCAGAAATAACGGGATTAGAGTATCCCCGATTATAAAAAT
81519 TTTGGCATCT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
130 40 0.43
131 49 0.53
132 4 0.04
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (130 bp):
GGGTTAGAGTATCCCTGATAGTGAAAAATCGATGTTTTGGAAAAAAAAACTAGAGCTGGAATATC
CCCTCAGAAATAACGGGATTAGAGTATCCCCGATTATAAAAATCGATATTTTAGAAATAAGTTCA
Found at i:83780 original size:43 final size:43
Alignment explanation
Indices: 83692--83785 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
83682 AGAAGAGTGA
* * * *
83692 TAAATATGCCAATATGCTGATTTAAGACTAGCGATATTAGGCT
1 TAAAGATGCCAATATGCTGATTCAAGACTAGCAACATTAGGCT
* * *
83735 TAAAGATGCCAATGTGCTGATTCAAGGCTGGCAACATT-GGACT
1 TAAAGATGCCAATATGCTGATTCAAGACTAGCAACATTAGG-CT
83778 TAAAGATG
1 TAAAGATG
83786 ACAGGTGCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.05
43 41 0.95
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (43 bp):
TAAAGATGCCAATATGCTGATTCAAGACTAGCAACATTAGGCT
Found at i:84017 original size:49 final size:49
Alignment explanation
Indices: 83745--84669 Score: 267
Period size: 52 Copynumber: 18.5 Consensus size: 49
83735 TAAAGATGCC
** * *
83745 AATGTGCTGATTCAAGGCTGGCAACATTGGACTTAAAGATGACAGGTGCC-
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGA-AGGT-CCT
* * * * * * * *
83795 AATATGCTTATTCAAGGCTAGGGATATTGGGCTTAAAGGTGCGAAGAATGT-C-
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAT--GAAG---GTCCT
* * * * *
83847 AATGTGCTAATTCACGACCAGCGACATTAGACTTAAAGATGAGAAGAATACT
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAT--GAAG-GTCCT
* * ** * * * * *
83899 CACGTGCTGATTTGAGGCCAACGACATTGGGCTTAGAGATGTTAAAGATGCC-
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATG---AAGGT-CCT
* * * **
83951 AATATGCTGATTTAAGGCCAGCGATATCGGACTTAAAGATGAAGGTCCT
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTCCT
* *
84000 AATGGGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGAAGGTGCC-
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGT-CCT
* * * * *
84049 AATGTGCTAATTCAAGGCTAGTGACATTGGACTTAAATG-TGGTAAAGGTGCT
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAA-GAT-G--AAGGTCCT
* * * *
84101 AATATGCTGATTCAAGGCCAACGATATTAGACTTAAAG--G--TG-CC-
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTCCT
* * * *
84144 AATGTGCTGATTTAAGGCCAGCGACATTGGACTTTAACATGAAAAGGATGAGAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTAGAC--T----T--AAA-GAT--G-AAGGTCCT
* * * * * * * * * **
84205 AATATGCTGATTTAAGGCCAACGATATTTGGCCTAAAGATACAAAGAATGTT
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAT--GAAG-GTCCT
* * * * * * **
84257 AATGTGCTGATCCATGACTAGCGACATTAGATTTGAAGATGAGAATAATGCC-
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAT--GAA-GGT-CCT
* * * *
84309 AATGTGCTAATTTAAGGCCATCGACATTAGACTTAAAGATGGAGGTGCC-
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGT-CCT
* * * *
84358 AATGTGCTAATTCAAGGCTAGCGACATTGGACTTAAATG-TGGTAAAGATGCC-
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAA-GAT-G--AAGGT-CCT
* ** * * * * *
84410 AATATATTGATTTAAGACCAGCGATATT-GCATTTAAAG--G--TG-CC-
1 AATGTGCTGATTCAAGGCCAGCGACATTAG-ACTTAAAGATGAAGGTCCT
* * * *
84453 AATGTGCTGATCCAAGGCTAGCGATATCAGACTTAAAGATGAAGGTGCC-
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGT-CCT
* * * * *
84502 AATGAGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATAAAGGTGCT
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTCCT
* * * *
84551 AATGTGCTAATTCAA-GCCTAGCGACATTGGACTTAAATG-TGGTAAAGATGCT
1 AATGTGCTGATTCAAGGCC-AGCGACATTAGACTTAAA-GAT-G--AAGGTCCT
* ** * * *
84603 AATATGCCAATTCAAGGCCAGCGATATTGGACTTAAAG--G--TG-CC-
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTCCT
84646 AATGTGCTGATTCAAGGCCAGCGA
1 AATGTGCTGATTCAAGGCCAGCGA
84670 AACTGGACTT
Statistics
Matches: 651, Mismatches: 166, Indels: 123
0.69 0.18 0.13
Matches are distributed among these distances:
43 77 0.12
44 3 0.00
45 3 0.00
47 1 0.00
48 6 0.01
49 188 0.29
50 43 0.07
51 14 0.02
52 273 0.42
53 10 0.02
54 2 0.00
55 1 0.00
56 1 0.00
59 1 0.00
60 1 0.00
61 27 0.04
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTCCT
Found at i:84141 original size:43 final size:43
Alignment explanation
Indices: 84091--84177 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
84081 TTAAATGTGG
* *
84091 TAAAGGTGCTAATATGCTGATTCAAGGCCAACGATATTAGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACT
* * * *
84134 TAAAGGTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACT
84177 T
1 T
84178 TAACATGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACT
Found at i:84589 original size:193 final size:193
Alignment explanation
Indices: 84305--84669 Score: 541
Period size: 193 Copynumber: 1.9 Consensus size: 193
84295 ATGAGAATAA
* * * * **
84305 TGCCAATGTGCTAATTTAAGGCCATCGACATTAGACTTAAAGATGGAGGTGCCAATGTGCTAATT
1 TGCCAATGAGCTAATTCAAGGCCAGCAACATTAGACTTAAAGATAAAGGTGCCAATGTGCTAATT
* *** *
84370 CAAGGCTAGCGACATTGGACTTAAATGTGGTAAAGATGCCAATATATTGATTTAAGACCAGCGAT
66 CAAGCCTAGCGACATTGGACTTAAATGTGGTAAAGATGCCAATATACCAATTCAAGACCAGCGAT
* *
84435 ATTGCATTTAAAGGTGCCAATGTGCTGATCCAAGGCTAGCGATATCAGACTTAAAGATGAAGG
131 ATTGCACTTAAAGGTGCCAATGTGCTGATCCAAGGCCAGCGATATCAGACTTAAAGATGAAGG
* * *
84498 TGCCAATGAGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATAAAGGTGCTAATGTGCTAATT
1 TGCCAATGAGCTAATTCAAGGCCAGCAACATTAGACTTAAAGATAAAGGTGCCAATGTGCTAATT
* * *
84563 CAAGCCTAGCGACATTGGACTTAAATGTGGTAAAGATGCTAATATGCCAATTCAAGGCCAGCGAT
66 CAAGCCTAGCGACATTGGACTTAAATGTGGTAAAGATGCCAATATACCAATTCAAGACCAGCGAT
* *
84628 ATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
131 ATTGCACTTAAAGGTGCCAATGTGCTGATCCAAGGCCAGCGA
84670 AACTGGACTT
Statistics
Matches: 151, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
193 151 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (193 bp):
TGCCAATGAGCTAATTCAAGGCCAGCAACATTAGACTTAAAGATAAAGGTGCCAATGTGCTAATT
CAAGCCTAGCGACATTGGACTTAAATGTGGTAAAGATGCCAATATACCAATTCAAGACCAGCGAT
ATTGCACTTAAAGGTGCCAATGTGCTGATCCAAGGCCAGCGATATCAGACTTAAAGATGAAGG
Found at i:84659 original size:95 final size:95
Alignment explanation
Indices: 84351--84680 Score: 330
Period size: 95 Copynumber: 3.4 Consensus size: 95
84341 TTAAAGATGG
* *
84351 AGGTGCCAATGTGCTAATTCAAGGCTAGCGACATTGGACTTAAATGTGGTAAAGATGCCAATATA
1 AGGTGCCAATGTGCTAATTCAAGCCTAGCGACATTGGACTTAAATGTGGTAAAGATGCCAATATG
* * * * *
84416 TTGATTTAAGACCAGCGATATTGCATTTAA
66 CTGATTCAAGGCCAGCGATATTGGACTTAA
* * * * ** *
84446 AGGTGCCAATGTGCTGATCCAAGGCTAGCGATATCAGACTTAAA-GAT-G--AAGGTGCCAATGA
1 AGGTGCCAATGTGCTAATTCAAGCCTAGCGACATTGGACTTAAATG-TGGTAAAGATGCCAAT-A
* *
84507 -GCTGATTCAAGGCCAGCAACATTGGACTTAAAGATAA
64 TGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAA
* *
84544 AGGTGCTAATGTGCTAATTCAAGCCTAGCGACATTGGACTTAAATGTGGTAAAGATGCTAATATG
1 AGGTGCCAATGTGCTAATTCAAGCCTAGCGACATTGGACTTAAATGTGGTAAAGATGCCAATATG
**
84609 CCAATTCAAGGCCAGCGATATTGGACTTAA
66 CTGATTCAAGGCCAGCGATATTGGACTTAA
* * *
84639 AGGTGCCAATGTGCTGATTCAAGGCC-AGCGAAACTGGACTTA
1 AGGTGCCAATGTGCTAATTCAA-GCCTAGCGACATTGGACTTA
84681 GAAAGAGATA
Statistics
Matches: 190, Mismatches: 31, Indels: 28
0.76 0.12 0.11
Matches are distributed among these distances:
92 29 0.15
93 2 0.01
94 2 0.01
95 77 0.41
96 3 0.02
98 41 0.22
99 2 0.01
100 2 0.01
101 32 0.17
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (95 bp):
AGGTGCCAATGTGCTAATTCAAGCCTAGCGACATTGGACTTAAATGTGGTAAAGATGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTTAA
Found at i:84786 original size:32 final size:32
Alignment explanation
Indices: 84748--84906 Score: 140
Period size: 32 Copynumber: 4.9 Consensus size: 32
84738 TAGAAGGAGA
* * * *
84748 TGCCACCAACTTGTATAGGCTTTTGAAATGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGT
* * * *
84780 TGCCACCAGCTCGTGCGGGCTTTAAAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGT
**
84812 TGCCACTGACTTGTGTGGGCTTTAGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGT
* * *
84844 CGCCACTAACTTGTGTGGGCTTT-GAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAA-AGGGT
* * * *
84876 TGCCACTAGCTTATGTAGGCTTTAGAGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAGA-AAGG
84907 TTCCTCCACT
Statistics
Matches: 102, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
31 3 0.03
32 94 0.92
33 4 0.04
34 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAGGGT
Found at i:84849 original size:64 final size:63
Alignment explanation
Indices: 84756--84906 Score: 160
Period size: 64 Copynumber: 2.3 Consensus size: 63
84746 GATGCCACCA
* * * * *
84756 ACTTGTATAGGCTTTTGAAATGGTTGCCACCAGCTCGTGCGGGCTTT-AAAAAGGGTTGCCACT
1 ACTTGTGTAGGCTTTAGAAAGGGTCGCCACCAACTCGTGCGGGCTTTGAAAAA-GGTTGCCACT
* * * * *
84819 GACTTGTGTGGGCTTTAGAAAGGGTCGCCACTAACTTGTGTGGGCTTTGAAGAAGGTTGCCACT
1 -ACTTGTGTAGGCTTTAGAAAGGGTCGCCACCAACTCGTGCGGGCTTTGAAAAAGGTTGCCACT
*
84883 AGCTTATGTAGGCTTTAGAGAAGG
1 A-CTTGTGTAGGCTTTAGA-AAGG
84907 TTCCTCCACT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
63 1 0.01
64 63 0.88
65 8 0.11
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (63 bp):
ACTTGTGTAGGCTTTAGAAAGGGTCGCCACCAACTCGTGCGGGCTTTGAAAAAGGTTGCCACT
Found at i:85223 original size:13 final size:13
Alignment explanation
Indices: 85172--85244 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 13
85162 GGGATTCGTG
*
85172 TTGACAAACATTTC
1 TTGACAAA-AGTTC
* *
85186 TTGAC-GAAGTTT
1 TTGACAAAAGTTC
* *
85198 TTGACACACGTTC
1 TTGACAAAAGTTC
*
85211 TCGACAAAAGTTC
1 TTGACAAAAGTTC
*
85224 TTGACGAAAATTTC
1 TTGAC-AAAAGTTC
85238 TTGACAA
1 TTGACAA
85245 CAATTTTGTT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
12 8 0.17
13 21 0.46
14 17 0.37
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (13 bp):
TTGACAAAAGTTC
Found at i:85249 original size:14 final size:13
Alignment explanation
Indices: 85172--85250 Score: 61
Period size: 14 Copynumber: 5.9 Consensus size: 13
85162 GGGATTCGTG
85172 TTGACAAACATTTC
1 TTGACAAA-ATTTC
* *
85186 TTGACGAAGTTT-
1 TTGACAAAATTTC
* **
85198 TTGACACACGTTC
1 TTGACAAAATTTC
* *
85211 TCGACAAAAGTTC
1 TTGACAAAATTTC
85224 TTGACGAAAATTTC
1 TTGAC-AAAATTTC
85238 TTGACAACAATTT
1 TTGACAA-AATTT
85251 TGTTGACAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
12 8 0.16
13 19 0.37
14 24 0.47
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (13 bp):
TTGACAAAATTTC
Found at i:86510 original size:12 final size:11
Alignment explanation
Indices: 86495--86535 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
86485 CCCTCTTTTC
*
86495 TTTTATTGTTT
1 TTTTTTTGTTT
86506 GTTTTTTTGTTT
1 -TTTTTTTGTTT
86518 TTTTTTTGTGTT
1 TTTTTTTGT-TT
86530 TTTTTT
1 TTTTTT
86536 ACGAAGGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.85
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:86523 original size:11 final size:11
Alignment explanation
Indices: 86490--86535 Score: 56
Period size: 11 Copynumber: 3.9 Consensus size: 11
86480 TTCTTCCCTC
86490 TTTTCTTTTATTG
1 TTTT-TTTT-TTG
86503 TTTGTTTTTTTG
1 TTT-TTTTTTTG
86515 TTTTTTTTTTG
1 TTTTTTTTTTG
*
86526 TGTTTTTTTT
1 TTTTTTTTTT
86536 ACGAAGGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 17 0.55
12 6 0.19
13 7 0.23
14 1 0.03
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:88352 original size:51 final size:53
Alignment explanation
Indices: 88283--88396 Score: 137
Period size: 51 Copynumber: 2.2 Consensus size: 53
88273 GAAATAACGA
* * ** *
88283 GGTTGGAGTA-TCCTCGATTGTGGAAAA-TCGATGTTTT-AAAAATAAGGCTGG
1 GGTTGGAGTATTCCTCGATTAT-GAAAAGTCGATGTTTTGAAAAAAAAAACTAG
*
88334 GGTTGGAGTATTCC-CGATTATGAAAAGTCGGTGTTTTGAAAAAAAAAACTAG
1 GGTTGGAGTATTCCTCGATTATGAAAAGTCGATGTTTTGAAAAAAAAAACTAG
88386 GGTTGGAGTAT
1 GGTTGGAGTAT
88397 CCTATCAGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
50 5 0.09
51 25 0.46
52 24 0.44
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (53 bp):
GGTTGGAGTATTCCTCGATTATGAAAAGTCGATGTTTTGAAAAAAAAAACTAG
Found at i:89943 original size:9 final size:9
Alignment explanation
Indices: 89929--89997 Score: 59
Period size: 9 Copynumber: 7.7 Consensus size: 9
89919 ATTATCAGTC
89929 ATTTTTTTT
1 ATTTTTTTT
89938 ATTTTTTTT
1 ATTTTTTTT
* *
89947 ATTATTATT
1 ATTTTTTTT
*
89956 A-TTTTTTG
1 ATTTTTTTT
* *
89964 ATTCTTTTG
1 ATTTTTTTT
89973 ATCTTTTTTT
1 AT-TTTTTTT
* *
89983 ATTTCTTTG
1 ATTTTTTTT
89992 ATTTTT
1 ATTTTT
89998 AATTTTTTTA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
8 5 0.11
9 35 0.74
10 7 0.15
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.77
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:101086 original size:15 final size:16
Alignment explanation
Indices: 101065--101100 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
101055 TTTTATATTC
*
101065 ATATTAAAATTAATAT
1 ATATTAAAATAAATAT
101081 -TATTAAAATAAATAT
1 ATATTAAAATAAATAT
101096 ATATT
1 ATATT
101101 TTTATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATTAAAATAAATAT
Found at i:101142 original size:20 final size:20
Alignment explanation
Indices: 101111--101158 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 20
101101 TTTATTAATT
* *
101111 ATATTTAATATT-TATTT-A
1 ATATTTAAAATTATTTTTAA
101129 ATA-TTAAAATTATTTTTAA
1 ATATTTAAAATTATTTTTAA
101148 ATATTTAAAAT
1 ATATTTAAAAT
101159 CTCATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 7 0.28
18 7 0.28
19 4 0.16
20 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATTTAAAATTATTTTTAA
Found at i:102609 original size:17 final size:19
Alignment explanation
Indices: 102589--102630 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
102579 ATATATATAT
102589 ATATTTA-A-CATATTTAA
1 ATATTTACATCATATTTAA
*
102606 ATATTTACATCATATTTAT
1 ATATTTACATCATATTTAA
102625 ATATTT
1 ATATTT
102631 TTTAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 1 0.05
19 14 0.64
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATTTACATCATATTTAA
Found at i:103573 original size:2 final size:2
Alignment explanation
Indices: 103566--103600 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
103556 TAGAACTATT
*
103566 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
103601 CATTCCAGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:107370 original size:2 final size:2
Alignment explanation
Indices: 107363--107395 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
107353 AACATTTTGA
107363 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 A
107396 AGACTCTCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107586 original size:17 final size:17
Alignment explanation
Indices: 107560--107594 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
107550 AAGAAAGTTC
107560 TTTTCTTTTTT-TGTTA
1 TTTTCTTTTTTATGTTA
107576 TTTTCCTTTTTTATGTTA
1 TTTT-CTTTTTTATGTTA
107594 T
1 T
107595 AAATCAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 7 0.41
18 6 0.35
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTCTTTTTTATGTTA
Found at i:111906 original size:15 final size:16
Alignment explanation
Indices: 111886--111921 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
111876 ATGTATTTGA
111886 TTAAATAATATAAT-T
1 TTAAATAATATAATCT
*
111901 TTAAATAGTATAATCT
1 TTAAATAATATAATCT
111917 TTAAA
1 TTAAA
111922 GGATTAGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAAATAATATAATCT
Found at i:112746 original size:4 final size:4
Alignment explanation
Indices: 112737--112767 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
112727 GGTAATGATT
112737 TTTA TTTA TTTA TTTA TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
112768 CTCTTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:115099 original size:29 final size:30
Alignment explanation
Indices: 115030--115101 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
115020 ATTTTATATT
* *
115030 TAAATAAACTCTTAACTTTTAAATTGTACCC
1 TAAATACAC-CTTAACTTTTAAATTGTAACC
* *
115061 AAAAAACACCTTAACTTTT-AATT-TAAACC
1 TAAATACACCTTAACTTTTAAATTGT-AACC
115090 TAAATACACCTT
1 TAAATACACCTT
115102 TTAACATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 1 0.03
29 17 0.50
30 10 0.29
31 6 0.18
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.35
Consensus pattern (30 bp):
TAAATACACCTTAACTTTTAAATTGTAACC
Found at i:115281 original size:23 final size:23
Alignment explanation
Indices: 115236--115287 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
115226 AAAATAAAAA
* *
115236 AAATTATTTTTATATTGATATTT
1 AAATAATTTTTATATTGAAATTT
*
115259 ATATAATTTTTATAATT-AAATTT
1 AAATAATTTTTAT-ATTGAAATTT
115282 AAATAA
1 AAATAA
115288 AAATATCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
AAATAATTTTTATATTGAAATTT
Found at i:119064 original size:62 final size:63
Alignment explanation
Indices: 118960--119086 Score: 220
Period size: 62 Copynumber: 2.0 Consensus size: 63
118950 TGTCTAATAA
* *
118960 AAGTTCTCAAGTAATTGAAGCTGGCTTTTCCCTTAAAAATAAATATACTCTGTACAGCAAATG
1 AAGTTCTCAAGTAATTGAAGCTGGCTTTTCCCCTAAAAATAAATATACTCTATACAGCAAATG
*
119023 AAGTTC-CAAGTAATTGAAGCTGGTTTTTCCCCTAAAAATAAATATACTCTATACAGCAAATG
1 AAGTTCTCAAGTAATTGAAGCTGGCTTTTCCCCTAAAAATAAATATACTCTATACAGCAAATG
119085 AA
1 AA
119087 ATCGATCTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
62 55 0.90
63 6 0.10
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (63 bp):
AAGTTCTCAAGTAATTGAAGCTGGCTTTTCCCCTAAAAATAAATATACTCTATACAGCAAATG
Found at i:120413 original size:6 final size:6
Alignment explanation
Indices: 120402--120433 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
120392 AGAAACAGAT
*
120402 AATAAC AATAAC AATAAC AATAAT AATAAC AA
1 AATAAC AATAAC AATAAC AATAAC AATAAC AA
120434 CAATTTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAC
Found at i:121235 original size:2 final size:2
Alignment explanation
Indices: 121228--121264 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
121218 TTACTTTATG
121228 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
121265 TCGTTTGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:121705 original size:10 final size:10
Alignment explanation
Indices: 121660--121749 Score: 69
Period size: 10 Copynumber: 8.7 Consensus size: 10
121650 TAACAATTTT
121660 AAATATAATA
1 AAATATAATA
121670 TAAATATTATATA
1 -AAATA-TA-ATA
*
121683 AAAAATAATTA
1 AAATATAA-TA
*
121694 AAATATGATA
1 AAATATAATA
121704 AAATATAATA
1 AAATATAATA
* *
121714 TAATATTA-A
1 AAATATAATA
121723 AAAT-TAATA
1 AAATATAATA
121732 TAAATAT-ATCA
1 -AAATATAAT-A
121743 AAATATA
1 AAATATA
121750 TATTATATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
8 2 0.03
9 5 0.08
10 30 0.48
11 17 0.27
12 6 0.10
13 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
AAATATAATA
Found at i:121725 original size:38 final size:37
Alignment explanation
Indices: 121662--121792 Score: 106
Period size: 38 Copynumber: 3.3 Consensus size: 37
121652 ACAATTTTAA
* * *
121662 ATATAATATA-AATATTATATAAAAAATAATTAAAAT
1 ATATAAAATATAATATAATATTAAAAATAATTAAAAT
121698 ATGATAAAATATAATATAATATTAAAAATTAA-TATAAAT
1 AT-ATAAAATATAATATAATATTAAAAA-TAATTA-AAAT
*
121737 ATATCAAAATATATATTATATAAATTATTAAAAT-ATTAAAATTT
1 ATAT-AAAATATA-A-TATA-ATATTA--AAAATAATTAAAA--T
121781 ATATAAAATATA
1 ATATAAAATATA
121793 TAATGATCAT
Statistics
Matches: 78, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
36 2 0.03
37 7 0.09
38 18 0.23
39 17 0.22
40 1 0.01
41 4 0.05
42 9 0.12
43 11 0.14
44 9 0.12
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (37 bp):
ATATAAAATATAATATAATATTAAAAATAATTAAAAT
Found at i:121784 original size:32 final size:33
Alignment explanation
Indices: 121710--121788 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 33
121700 GATAAAATAT
121710 AATATAATATTAAAAATTAATATAAATATATCAA
1 AATAT-ATATTAAAAATTAATATAAATATATCAA
*
121744 AATATATATTATATAAATT-AT-TAAA-ATATTAA
1 AATATATATTA-A-AAATTAATATAAATATATCAA
*
121776 AATTTATA-TAAAA
1 AATATATATTAAAA
121789 TATATAATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 2 0.05
30 1 0.02
31 2 0.05
32 13 0.32
33 10 0.24
34 8 0.20
35 5 0.12
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
AATATATATTAAAAATTAATATAAATATATCAA
Found at i:121787 original size:11 final size:11
Alignment explanation
Indices: 121660--121794 Score: 67
Period size: 11 Copynumber: 12.8 Consensus size: 11
121650 TAACAATTTT
121660 AAATATA-ATA
1 AAATATATATA
121670 TAAATATTATATA
1 -AAATA-TATATA
*
121683 AAAAATA-ATTA
1 AAATATATA-TA
*
121694 AAATAT-GATA
1 AAATATATATA
121704 AAATATA-ATA
1 AAATATATATA
*
121714 TAATAT-TA-A
1 AAATATATATA
121723 AAAT-TA-ATA
1 AAATATATATA
*
121732 TAAATATAT-CA
1 -AAATATATATA
*
121743 AAATATATATT
1 AAATATATATA
* * *
121754 ATATAAATTATT
1 AAATATA-TATA
121766 AAA-ATAT-TA
1 AAATATATATA
*
121775 AAATTTATATA
1 AAATATATATA
121786 AAATATATA
1 AAATATATA
121795 ATGATCATTA
Statistics
Matches: 95, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
8 2 0.02
9 9 0.09
10 34 0.36
11 35 0.37
12 12 0.13
13 3 0.03
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (11 bp):
AAATATATATA
Found at i:123085 original size:14 final size:14
Alignment explanation
Indices: 123066--123093 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
123056 ACAGACTGAC
123066 ATAATATAAAAATT
1 ATAATATAAAAATT
123080 ATAATATAAAAATT
1 ATAATATAAAAATT
123094 TGTCCTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATATAAAAATT
Found at i:123366 original size:13 final size:14
Alignment explanation
Indices: 123343--123371 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
123333 ATTAAATTAT
123343 TTTTTATATTTAAA
1 TTTTTATATTTAAA
123357 TTTTTA-ATTTAAA
1 TTTTTATATTTAAA
123370 TT
1 TT
123372 GATTTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTATATTTAAA
Found at i:123391 original size:15 final size:16
Alignment explanation
Indices: 123362--123404 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
123352 TTAAATTTTT
*
123362 AATTTAAATTGATTTG
1 AATTTTAATTGATTTG
* *
123378 ATTTTTAATT-ATTTT
1 AATTTTAATTGATTTG
123393 AATTTTAATTGA
1 AATTTTAATTGA
123405 GTTAGATTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (16 bp):
AATTTTAATTGATTTG
Found at i:124278 original size:15 final size:16
Alignment explanation
Indices: 124248--124281 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
124238 GAGAATTTAT
*
124248 ATTTTTTAATTTAAAA
1 ATTTTTTAATTAAAAA
124264 ATTTTTTAA-TAAAAA
1 ATTTTTTAATTAAAAA
124279 ATT
1 ATT
124282 AATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTTTAATTAAAAA
Found at i:125598 original size:2 final size:2
Alignment explanation
Indices: 125591--125621 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
125581 TCAAAAACAA
125591 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125622 GAGGATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:126026 original size:19 final size:19
Alignment explanation
Indices: 126002--126049 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
125992 ACAGTAATTG
126002 TATCGATACATAAGTGTTC
1 TATCGATACATAAGTGTTC
*
126021 TATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTC
126040 TATCGATACA
1 TATCGATACA
126050 ATGTATCGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (19 bp):
TATCGATACATAAGTGTTC
Found at i:126119 original size:13 final size:13
Alignment explanation
Indices: 126101--126128 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
126091 CATTACTCAA
126101 TGTATCGATACAT
1 TGTATCGATACAT
126114 TGTATCGATACAT
1 TGTATCGATACAT
126127 TG
1 TG
126129 ATCTTTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:129737 original size:18 final size:17
Alignment explanation
Indices: 129692--129739 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
129682 ACTGTAAACT
129692 TATTT-TATGATTTAAAA
1 TATTTATAT-ATTTAAAA
* *
129709 TATTAAAATATTTAAAAA
1 TATTTATATATTT-AAAA
129727 TATTTATATATTT
1 TATTTATATATTT
129740 TATAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TATTTATATATTTAAAA
Found at i:133378 original size:22 final size:19
Alignment explanation
Indices: 133348--133389 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
133338 TATTTTTATT
133348 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAA-ATA
133369 TAAATATTAATATAAAAATA
1 TAAAT-TTAATATAAAAATA
133389 T
1 T
133390 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATTTAATATAAAAATA
Found at i:133912 original size:19 final size:21
Alignment explanation
Indices: 133888--133930 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
133878 AGAATTATGT
133888 AATAATAT-ATATTTAAT-TA
1 AATAATATAATATTTAATATA
*
133907 AATAATATAATCTTTAATATA
1 AATAATATAATATTTAATATA
133928 AAT
1 AAT
133931 TTAAGCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 8 0.38
21 5 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AATAATATAATATTTAATATA
Found at i:134583 original size:2 final size:2
Alignment explanation
Indices: 134576--134603 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
134566 AATATGGTAC
134576 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
134604 AACATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:135560 original size:3 final size:3
Alignment explanation
Indices: 135552--135583 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
135542 TTGCATGCTT
135552 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
135584 GCCAACTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:137507 original size:23 final size:24
Alignment explanation
Indices: 137481--137527 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
137471 TATCTAACTT
*
137481 ATATTATTA-TTTAACTAATAAAA
1 ATATTATTATTTTAAATAATAAAA
*
137504 ATATTTTTATTTTAAATAATAAAA
1 ATATTATTATTTTAAATAATAAAA
137528 TAAGTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATTATTATTTTAAATAATAAAA
Found at i:138150 original size:14 final size:15
Alignment explanation
Indices: 138133--138163 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
138123 TTTATGTAAG
138133 AAACTAAAAT-AATC
1 AAACTAAAATCAATC
138147 AAACTAAAATCAATC
1 AAACTAAAATCAATC
138162 AA
1 AA
138164 TCCGATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (15 bp):
AAACTAAAATCAATC
Found at i:140299 original size:38 final size:38
Alignment explanation
Indices: 140218--140313 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 38
140208 TATTTTTTTA
* *
140218 AATATAGATATAATTTTAATAATTTTTAATCATAATTT
1 AATATAAATATAATTTTAATAATTTTTAATCATAATAT
*
140256 AATATAAATATAATTTTTAATTATTTGTT-AT-ATATATAT
1 AATATAAATATAA-TTTTAATAATTT-TTAATCATA-ATAT
*
140295 ATATATACATAT-ATTTTAA
1 A-ATATAAATATAATTTTAA
140314 ACTAATATCC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
38 21 0.42
39 18 0.36
40 11 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (38 bp):
AATATAAATATAATTTTAATAATTTTTAATCATAATAT
Found at i:141700 original size:35 final size:33
Alignment explanation
Indices: 141661--141731 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 33
141651 TTTTACCTCA
*
141661 TTCTTCTCTTTT-TCTCTTCCCTCTTTTATTTCTCT
1 TTCTTCTCTTTTCT-TC-CCCCTCTTTT-TTTCTCT
*
141696 TTCTTTTCTTTTCTTCCCCCTCTTTTTTTCTCT
1 TTCTTCTCTTTTCTTCCCCCTCTTTTTTTCTCT
141729 TTC
1 TTC
141732 ACTTTTAGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 10 0.30
34 9 0.27
35 13 0.39
36 1 0.03
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.66
Consensus pattern (33 bp):
TTCTTCTCTTTTCTTCCCCCTCTTTTTTTCTCT
Found at i:141908 original size:26 final size:26
Alignment explanation
Indices: 141879--141931 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
141869 TTGTAATTTT
* *
141879 TTTTAATTAATT-TTATGTATATTATA
1 TTTT-ATTAATTAATATATATATTATA
*
141905 TTTTATTTATTAATATATATATTATA
1 TTTTATTAATTAATATATATATTATA
141931 T
1 T
141932 AATTTTTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTATTAATTAATATATATATTATA
Found at i:143020 original size:21 final size:21
Alignment explanation
Indices: 142968--143021 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
142958 ACCAAGATGT
** *
142968 ATCGATACATACACATAATAT
1 ATCGATACATTTACATAATAC
*
142989 ATCGATACATTTACATAATGC
1 ATCGATACATTTACATAATAC
143010 ATCGATACATTT
1 ATCGATACATTT
143022 TCACTTGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (21 bp):
ATCGATACATTTACATAATAC
Found at i:143035 original size:20 final size:20
Alignment explanation
Indices: 142964--143036 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
142954 TACCACCAAG
**
142964 ATGTATCGATACATACACAT
1 ATGTATCGATACATTTACAT
*
142984 AATATATCGATACATTTACAT
1 -ATGTATCGATACATTTACAT
* *
143005 AATGCATCGATACATTTTCACT
1 -ATGTATCGATACATTTACA-T
143027 -TGTATCGATA
1 ATGTATCGATA
143037 AAAATATGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 9 0.20
21 34 0.77
22 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTTACAT
Found at i:143235 original size:12 final size:13
Alignment explanation
Indices: 143218--143246 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
143208 ACAAGAAAAT
143218 AAATATTTTC-CA
1 AAATATTTTCACA
143230 AAATATTTTCACA
1 AAATATTTTCACA
143243 AAAT
1 AAAT
143247 CAAGGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATATTTTCACA
Found at i:148660 original size:13 final size:13
Alignment explanation
Indices: 148642--148698 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
148632 CATAAAGTGT
148642 TGTATCGATACAA
1 TGTATCGATACAA
148655 TGTATCGATACATAA
1 TGTATCGATAC--AA
148670 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
148687 TGTATTGATACA
1 TGTATCGATACA
148699 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:148675 original size:32 final size:32
Alignment explanation
Indices: 148629--148722 Score: 161
Period size: 32 Copynumber: 2.9 Consensus size: 32
148619 ATTTGTAACA
148629 ATACATAAAGTGTTGTATCGATACAATGTATCG
1 ATACAT-AAGTGTTGTATCGATACAATGTATCG
*
148662 ATACATAAGTGTTGTATCGATACAATGTATTG
1 ATACATAAGTGTTGTATCGATACAATGTATCG
*
148694 ATACATAAGTTTTGTATCGATACAATGTA
1 ATACATAAGTGTTGTATCGATACAATGTA
148723 AGCTACTGCC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 53 0.90
33 6 0.10
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (32 bp):
ATACATAAGTGTTGTATCGATACAATGTATCG
Found at i:148679 original size:19 final size:18
Alignment explanation
Indices: 148655--148717 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
148645 ATCGATACAA
148655 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
148674 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
148687 TGTATTGATACATAAGTTT
1 TGTATCGATACATAAG-TT
148706 TGTATCGATACA
1 TGTATCGATACA
148718 ATGTAAGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:148757 original size:13 final size:13
Alignment explanation
Indices: 148739--148765 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
148729 TGCCAAAAAA
148739 TGTATCGATACAT
1 TGTATCGATACAT
148752 TGTATCGATACAT
1 TGTATCGATACAT
148765 T
1 T
148766 ACTCAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:148833 original size:52 final size:52
Alignment explanation
Indices: 148752--148900 Score: 244
Period size: 52 Copynumber: 2.8 Consensus size: 52
148742 ATCGATACAT
* * *
148752 TGTATCGATACATTACTCAAATGTATCGATACATGCAAGCAAATTTGCCCAGA
1 TGTATCGATACACTA-TAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
148805 TGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATTTGCCCAGA
1 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
148857 TGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATT
1 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATT
148901 CTCATATTTC
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
52 76 0.84
53 14 0.16
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (52 bp):
TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:156459 original size:12 final size:12
Alignment explanation
Indices: 156442--156466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
156432 AAGAAAGCTT
156442 AAGCTCAGGCTC
1 AAGCTCAGGCTC
156454 AAGCTCAGGCTC
1 AAGCTCAGGCTC
156466 A
1 A
156467 GATAATGCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (12 bp):
AAGCTCAGGCTC
Found at i:160941 original size:21 final size:21
Alignment explanation
Indices: 160917--160965 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
160907 AAAATATTCG
160917 GGGTAACATATCAACGGGCCA
1 GGGTAACATATCAACGGGCCA
* *
160938 GGGTAACATATTAACTGGCCA
1 GGGTAACATATCAACGGGCCA
*
160959 TGGTAAC
1 GGGTAAC
160966 CTTGTTCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (21 bp):
GGGTAACATATCAACGGGCCA
Found at i:163667 original size:5 final size:5
Alignment explanation
Indices: 163653--163686 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
163643 GTGTCATTCG
163653 CAAAA C-AAA CAAAA CAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA
163687 AAGAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:163714 original size:9 final size:9
Alignment explanation
Indices: 163653--163717 Score: 67
Period size: 10 Copynumber: 6.9 Consensus size: 9
163643 GTGTCATTCG
*
163653 CAAAACAAA
1 CAAAAAAAA
163662 CAAAACAAAA
1 CAAAA-AAAA
163672 CAAAACAAAA
1 CAAAA-AAAA
163682 CAAAAAAGAA
1 CAAAAAA-AA
* *
163692 TAAAAAGAA
1 CAAAAAAAA
*
163701 TAAAAAAAA
1 CAAAAAAAA
163710 CAAAAAAA
1 CAAAAAAA
163718 TGGTCTGGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
9 24 0.49
10 25 0.51
ACGTcount: A:0.82, C:0.12, G:0.03, T:0.03
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:167860 original size:21 final size:21
Alignment explanation
Indices: 167782--167860 Score: 104
Period size: 21 Copynumber: 3.8 Consensus size: 21
167772 TGCTAACAAG
* **
167782 ATGTATCGATACATAAACATA
1 ATGTATCAATACATTTACATA
167803 ATGTATCAATACATTTACATA
1 ATGTATCAATACATTTACATA
*
167824 ATGTATCAATACATTTACGTA
1 ATGTATCAATACATTTACATA
* *
167845 ATGTATTAATAAATTT
1 ATGTATCAATACATTT
167861 TCACTTGTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (21 bp):
ATGTATCAATACATTTACATA
Found at i:167922 original size:134 final size:135
Alignment explanation
Indices: 167722--167975 Score: 350
Period size: 134 Copynumber: 1.9 Consensus size: 135
167712 GTATCGATAC
* ** * * *
167722 ATTTTCATGTGTATCGATATAAATAAGGGTTTTAGGATTTGTTTAGCTACTGCTAACAAGATGTA
1 ATTTTCATGTGTATCGATAAAAATAAGGGTTTTAACATTTGTGTAGCTACTACCAACAAGATGTA
* *
167787 TCGATACATAAACATAATGTATCAATACATTTACATAATGTATCAATACATTTACGTAATGTATT
66 TCGATACATAAACAAAATGTATCAATACATTTACAAAATGTATCAATACATTTACGTAATGTATT
167852 AATAA
131 AATAA
* * *
167857 ATTTTCACT-TGTATCGATAAAAATAAGGTTTTTAACATTT-TGTAGCTACTACCAACCATATGT
1 ATTTTCA-TGTGTATCGATAAAAATAAGGGTTTTAACATTTGTGTAGCTACTACCAACAAGATGT
** * *
167920 ATCGATACATTTACAAAATGTATCCATACATTTACAAAATGTATCCATACATTTAC
65 ATCGATACATAAACAAAATGTATCAATACATTTACAAAATGTATCAATACATTTAC
167976 ATTTGAACTT
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
134 68 0.66
135 34 0.33
136 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (135 bp):
ATTTTCATGTGTATCGATAAAAATAAGGGTTTTAACATTTGTGTAGCTACTACCAACAAGATGTA
TCGATACATAAACAAAATGTATCAATACATTTACAAAATGTATCAATACATTTACGTAATGTATT
AATAA
Found at i:167942 original size:21 final size:21
Alignment explanation
Indices: 167916--167976 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
167906 TACCAACCAT
*
167916 ATGTATCGATACATTTACAAA
1 ATGTATCCATACATTTACAAA
167937 ATGTATCCATACATTTACAAA
1 ATGTATCCATACATTTACAAA
167958 ATGTATCCATACATTTACA
1 ATGTATCCATACATTTACA
167977 TTTGAACTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (21 bp):
ATGTATCCATACATTTACAAA
Found at i:168957 original size:15 final size:14
Alignment explanation
Indices: 168939--169005 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 14
168929 CTTTTAACAC
168939 AAGTACTTTTGGAAT
1 AAGTACTTTTGG-AT
* * *
168954 AAGTACTTTAGTAC
1 AAGTACTTTTGGAT
*
168968 AGGTAC-TTTGGCAT
1 AAGTACTTTTGG-AT
*
168982 AAGTATTTTTAGGAT
1 AAGTACTTTT-GGAT
168997 AAGTACTTT
1 AAGTACTTT
169006 GGCACAAGTA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
13 3 0.08
14 11 0.28
15 23 0.59
16 2 0.05
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (14 bp):
AAGTACTTTTGGAT
Found at i:168992 original size:29 final size:28
Alignment explanation
Indices: 168937--169020 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
168927 TACTTTTAAC
* *
168937 ACAAGTACTTTTGGAATAAGTACTTTAGT
1 ACAAGTAC-TTTGGCATAAGTACTTTAGG
* *
168966 ACAGGTACTTTGGCATAAGTATTTTTAGG
1 ACAAGTACTTTGGCATAAGTA-CTTTAGG
* * *
168995 ATAAGTACTTTGGCACAAGTAATTTA
1 ACAAGTACTTTGGCATAAGTACTTTA
169021 ACATAGGTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 16 0.35
29 30 0.65
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (28 bp):
ACAAGTACTTTGGCATAAGTACTTTAGG
Found at i:169035 original size:43 final size:44
Alignment explanation
Indices: 168931--169052 Score: 115
Period size: 43 Copynumber: 2.8 Consensus size: 44
168921 TAGAGGTACT
* * * *
168931 TTTAACACAAGTACTTTT-GGAATAAGTACTTTAGTACAGGTAC
1 TTTAACATAAGTACTTTTAGGAATAAGTACTTTAGCACAAGTAA
** * *
168974 TTTGGCATAAGTATTTTTAGG-ATAAGTACTTTGGCACAAGTAA
1 TTTAACATAAGTACTTTTAGGAATAAGTACTTTAGCACAAGTAA
* ** *
169017 TTTAACATAGGTACTTTTA-TCATAGGTACTTTAGCA
1 TTTAACATAAGTACTTTTAGGAATAAGTACTTTAGCA
169053 TACCTCTGGC
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
43 60 0.97
44 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (44 bp):
TTTAACATAAGTACTTTTAGGAATAAGTACTTTAGCACAAGTAA
Found at i:169040 original size:15 final size:15
Alignment explanation
Indices: 169017--169048 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
169007 GCACAAGTAA
169017 TTTAACATAGGTACT
1 TTTAACATAGGTACT
*
169032 TTTATCATAGGTACT
1 TTTAACATAGGTACT
169047 TT
1 TT
169049 AGCATACCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (15 bp):
TTTAACATAGGTACT
Found at i:169054 original size:14 final size:14
Alignment explanation
Indices: 168952--169054 Score: 71
Period size: 14 Copynumber: 7.2 Consensus size: 14
168942 TACTTTTGGA
*
168952 ATAAGTACTTTAGT
1 ATAAGTACTTTAGC
* * *
168966 ACAGGTACTTTGGC
1 ATAAGTACTTTAGC
* *
168980 ATAAGTATTTTTAGG
1 ATAAGTA-CTTTAGC
*
168995 ATAAGTACTTTGGC
1 ATAAGTACTTTAGC
* * *
169009 ACAAGTAATTTAAC
1 ATAAGTACTTTAGC
* *
169023 ATAGGTACTTTTATC
1 ATAAGTAC-TTTAGC
*
169038 ATAGGTACTTTAGC
1 ATAAGTACTTTAGC
169052 ATA
1 ATA
169055 CCTCTGGCAT
Statistics
Matches: 66, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
14 42 0.64
15 24 0.36
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (14 bp):
ATAAGTACTTTAGC
Found at i:169088 original size:14 final size:14
Alignment explanation
Indices: 169066--169115 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
169056 CTCTGGCATG
*
169066 AGTATTTTGGCAAA
1 AGTACTTTGGCAAA
* *
169080 ATTACTTTGGCGAA
1 AGTACTTTGGCAAA
* *
169094 AGTACTTTGCCAGA
1 AGTACTTTGGCAAA
169108 AGTACTTT
1 AGTACTTT
169116 TAACACGGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (14 bp):
AGTACTTTGGCAAA
Found at i:169285 original size:15 final size:14
Alignment explanation
Indices: 169253--169331 Score: 54
Period size: 15 Copynumber: 5.5 Consensus size: 14
169243 ACACAAATAC
169253 TTTGGCA-AAGGTACT
1 TTTGGCATAA-GTA-T
169268 TTTGGCATAAGTATT
1 TTTGGCATAAGTA-T
* * *
169283 TTTGACATTA-TAC
1 TTTGGCATAAGTAT
*
169296 TTCGGCATAAGTAGT
1 TTTGGCATAAGTA-T
* *
169311 TTTGGCATAAATAC
1 TTTGGCATAAGTAT
169325 TTTGGCA
1 TTTGGCA
169332 CAGATACTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
13 7 0.14
14 11 0.22
15 30 0.60
16 2 0.04
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (14 bp):
TTTGGCATAAGTAT
Found at i:169296 original size:43 final size:42
Alignment explanation
Indices: 169244--169491 Score: 155
Period size: 43 Copynumber: 5.8 Consensus size: 42
169234 AGCACTTTAA
* * * *
169244 CACAAATACTTTGGCAAAGGTACTTTTGGCATAAGTATTTTTG
1 CACAGATACTTTGGCAAA-GTACTTTTGGCATAAATACTTTGG
* * *
169287 -ACATTATACTTCGGCATAAGTAGTTTTGGCATAAATACTTTGG
1 CACA-GATACTTTGGCA-AAGTACTTTTGGCATAAATACTTTGG
* ** *
169330 CACAGATACTTTGGCAAAAGTAC-TTTGACCCAACTACTTGTGG
1 CACAGATACTTTGGC-AAAGTACTTTTGGCATAAATACTT-TGG
* * ** *
169373 CACAAATACTTTGGCAAAAGTAC-TTTGACCCAACTACTTGTGG
1 CACAGATACTTTGGC-AAAGTACTTTTGGCATAAATACTT-TGG
* * *
169416 CACAGATATTTTGGCACAGGTACTTTT-GCA-AATATATTTTTGG
1 CACAGATACTTTGGCA-AAGTACTTTTGGCATAA-ATA-CTTTGG
* * * *
169459 CATAGATGCTTTGGCATAACTACTTTTAGCATA
1 CACAGATACTTTGGCA-AAGTACTTTTGGCATA
169492 GGTAATCTAA
Statistics
Matches: 167, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
42 18 0.11
43 134 0.80
44 14 0.08
45 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (42 bp):
CACAGATACTTTGGCAAAGTACTTTTGGCATAAATACTTTGG
Found at i:169324 original size:29 final size:28
Alignment explanation
Indices: 169271--169331 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
169261 AGGTACTTTT
* *
169271 GGCATAAGTATTTTTGACATTATACTTC
1 GGCATAAGTAGTTTTGACATAATACTTC
* *
169299 GGCATAAGTAGTTTTGGCATAAATACTTT
1 GGCATAAGTAGTTTTGACAT-AATACTTC
169328 GGCA
1 GGCA
169332 CAGATACTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.38
Consensus pattern (28 bp):
GGCATAAGTAGTTTTGACATAATACTTC
Done.