Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 416 of 433
Found at i:127795178 original size:54 final size:55
Alignment explanation
Indices: 127795087--127795218 Score: 180
Period size: 54 Copynumber: 2.5 Consensus size: 55
127795077 GAATATGATA
* * *
127795087 TTTAA-AA-TGGAATTTGATTCTGAGAATATGATCATTAGAATAGGATTTGATTC
1 TTTAATAATTGGAATTTGATTCTCAGAATATGATAATTAGAATAGAATTTGATTC
** *
127795140 TTTAATGTTTGGAATTTAATTCTCA-AATATGATAATTAGAATAGAATTTGATTC
1 TTTAATAATTGGAATTTGATTCTCAGAATATGATAATTAGAATAGAATTTGATTC
*
127795194 TTTGATAATTGGAATTTGATTCTCA
1 TTTAATAATTGGAATTTGATTCTCA
127795219 TTTAGAATGG
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 5 0.07
54 48 0.72
55 14 0.21
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (55 bp):
TTTAATAATTGGAATTTGATTCTCAGAATATGATAATTAGAATAGAATTTGATTC
Found at i:127795820 original size:26 final size:26
Alignment explanation
Indices: 127795786--127795836 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
127795776 TTAATTTTTT
127795786 AAATTTTTAAAAATATATAAAATTTG
1 AAATTTTTAAAAATATATAAAATTTG
* * *
127795812 AAATTTTTATAAATATTTTAAATTT
1 AAATTTTTAAAAATATATAAAATTT
127795837 TTTTGTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
AAATTTTTAAAAATATATAAAATTTG
Found at i:127795822 original size:18 final size:19
Alignment explanation
Indices: 127795801--127795838 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
127795791 TTTAAAAATA
127795801 TATAAA-ATTTGAAATTTT
1 TATAAATATTTGAAATTTT
*
127795819 TATAAATATTTTAAATTTT
1 TATAAATATTTGAAATTTT
127795838 T
1 T
127795839 TTGTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TATAAATATTTGAAATTTT
Found at i:127796376 original size:17 final size:17
Alignment explanation
Indices: 127796354--127796387 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
127796344 TTGTAAGATA
127796354 GCCATCCGTTTCTTATC
1 GCCATCCGTTTCTTATC
127796371 GCCATCCGTTTCTTATC
1 GCCATCCGTTTCTTATC
127796388 CGTGTGGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.12, T:0.41
Consensus pattern (17 bp):
GCCATCCGTTTCTTATC
Found at i:127803846 original size:21 final size:20
Alignment explanation
Indices: 127803807--127803846 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
127803797 AAGTCATTGT
*
127803807 AAATACATTAATTATATTAC
1 AAATACATTAATAATATTAC
*
127803827 AAATGCATTAAATAATATTA
1 AAATACATT-AATAATATTA
127803847 TTGTTTTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATACATTAATAATATTAC
Found at i:127804776 original size:68 final size:68
Alignment explanation
Indices: 127804663--127804803 Score: 201
Period size: 68 Copynumber: 2.1 Consensus size: 68
127804653 ACCAAGGTTT
* ** * * *
127804663 ATGTATAGCATTGTGTCCCGGGCCACGGATTTCTAACCTCGTGACAATTGCACGTTCAATCAAAG
1 ATGTATAGCATTGTGTCACGGGCCACAAATTTCTAACCTCATGACAATCGCACATTCAATCAAAG
127804728 TTC
66 TTC
**
127804731 ATGTATAGCATTGTGTCATTGGCCACAAATTTCTAACCTCATGACAATCGCACATTCAATCAAAG
1 ATGTATAGCATTGTGTCACGGGCCACAAATTTCTAACCTCATGACAATCGCACATTCAATCAAAG
*
127804796 TTT
66 TTC
127804799 ATGTA
1 ATGTA
127804804 CAGTTTTGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (68 bp):
ATGTATAGCATTGTGTCACGGGCCACAAATTTCTAACCTCATGACAATCGCACATTCAATCAAAG
TTC
Found at i:127805389 original size:23 final size:23
Alignment explanation
Indices: 127805362--127805407 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
127805352 TGTTGATGAC
127805362 ATTTTGGAGATAAAAAGTTGAAG
1 ATTTTGGAGATAAAAAGTTGAAG
127805385 ATTTTGGAGATAAAAAGTTGAAG
1 ATTTTGGAGATAAAAAGTTGAAG
127805408 TTTACTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.30
Consensus pattern (23 bp):
ATTTTGGAGATAAAAAGTTGAAG
Found at i:127805755 original size:75 final size:75
Alignment explanation
Indices: 127805632--127805782 Score: 293
Period size: 75 Copynumber: 2.0 Consensus size: 75
127805622 TGGCACATGA
127805632 TTACCTATCAAAGGAAATGGTGACCATTTGCCTATGGTAGAATTTGAACTAATAGATCCTTCAAT
1 TTACCTATCAAAGGAAATGGTGACCATTTGCCTATGGTAGAATTTGAACTAATAGATCCTTCAAT
127805697 AAGTTGGCAT
66 AAGTTGGCAT
*
127805707 TTACCTATCAAAGGAAATGGTGACCATTTGCCTATGGTAGAATTTGAACTAATCGATCCTTCAAT
1 TTACCTATCAAAGGAAATGGTGACCATTTGCCTATGGTAGAATTTGAACTAATAGATCCTTCAAT
127805772 AAGTTGGCAT
66 AAGTTGGCAT
127805782 T
1 T
127805783 GTCCCCATGT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (75 bp):
TTACCTATCAAAGGAAATGGTGACCATTTGCCTATGGTAGAATTTGAACTAATAGATCCTTCAAT
AAGTTGGCAT
Found at i:127807943 original size:53 final size:53
Alignment explanation
Indices: 127807802--127807952 Score: 196
Period size: 53 Copynumber: 2.8 Consensus size: 53
127807792 ATAAGTGCGC
* **
127807802 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATATGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATATGACT
* * *
127807855 CCGTATAAGACCATCGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATATGACT
* *
127807908 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
127807953 ACCGTGTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATATGACT
Found at i:127810622 original size:46 final size:46
Alignment explanation
Indices: 127810572--127810747 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
127810562 TGGTTGAGCA
127810572 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
127810618 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
127810663 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
127810711 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
127810748 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:127810728 original size:93 final size:93
Alignment explanation
Indices: 127810569--127810740 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
127810559 GGATGGTTGA
* *
127810569 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
127810634 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
127810662 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
127810727 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
127810741 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:127818168 original size:46 final size:46
Alignment explanation
Indices: 127818118--127818293 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
127818108 TGGTTGAGCA
127818118 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
127818164 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
127818209 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
127818257 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
127818294 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:127818274 original size:93 final size:93
Alignment explanation
Indices: 127818115--127818286 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
127818105 GGATGGTTGA
* *
127818115 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
127818180 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
127818208 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
127818273 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
127818287 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:127822234 original size:35 final size:35
Alignment explanation
Indices: 127822190--127822356 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
127822180 TCCTCATTGA
** *
127822190 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
127822225 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
127822265 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
127822300 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
127822335 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
127822357 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:127822275 original size:75 final size:73
Alignment explanation
Indices: 127822185--127822356 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
127822175 TGTTTTCCTC
** * * **
127822185 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
127822249 TCAGTATGG
65 TCAGTATGG
*
127822258 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
127822323 CTCAGTATGG
64 CTCAGTATGG
127822333 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
127822357 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:127825989 original size:14 final size:14
Alignment explanation
Indices: 127825972--127826004 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
127825962 AACCTAACCC
127825972 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
*
127825986 AAAAAAAAGAAAAG
1 AAAAAAAAAAAAAG
127826000 AAAAA
1 AAAAA
127826005 CCTACCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:127826016 original size:13 final size:15
Alignment explanation
Indices: 127826000--127826032 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
127825990 AAAAGAAAAG
127826000 AAAAACCT-A-CCAA
1 AAAAACCTAACCCAA
127826013 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
127826028 AAAAA
1 AAAAA
127826033 AAAAAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 1 0.06
15 9 0.50
ACGTcount: A:0.67, C:0.27, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:127828621 original size:12 final size:12
Alignment explanation
Indices: 127828601--127828636 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
127828591 ATTCATTTAA
127828601 CATTCATGCATT
1 CATTCATGCATT
*
127828613 CATTTATGCATT
1 CATTCATGCATT
*
127828625 CATTCATTCATT
1 CATTCATGCATT
127828637 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:127835631 original size:70 final size:69
Alignment explanation
Indices: 127835512--127835933 Score: 403
Period size: 70 Copynumber: 6.2 Consensus size: 69
127835502 GAGTTAAGCC
*
127835512 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
127835576 TGAGGTA
63 TGAGGTA
* * ** * *
127835583 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
127835648 AGGTA
65 AGGTA
* *
127835653 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
127835718 GAGGTA
64 GAGGTA
* * ** * * *
127835724 TTTT-AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
127835779 ---A
66 GGTA
*** ** *
127835780 TTTTTGTTTTTCA----AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
127835841 GGTA
66 GGTA
* * *
127835845 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
127835910 TGAGGTA
63 TGAGGTA
*
127835917 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
127835934 CAATTTACGT
Statistics
Matches: 283, Mismatches: 44, Indels: 49
0.75 0.12 0.13
Matches are distributed among these distances:
53 31 0.11
56 5 0.02
57 3 0.01
59 2 0.01
62 2 0.01
65 5 0.02
66 4 0.01
68 31 0.11
69 3 0.01
70 74 0.26
71 59 0.21
72 64 0.23
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (69 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
GGTA
Found at i:127835819 original size:121 final size:123
Alignment explanation
Indices: 127835654--127835899 Score: 390
Period size: 121 Copynumber: 2.0 Consensus size: 123
127835644 GTTGAGGTAT
127835654 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
*
127835719 AGGTATTTT-A-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
127835774 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
127835839 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTT-AATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
127835899 T
1 T
127835900 CAGGTCACGC
Statistics
Matches: 114, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
120 12 0.11
121 60 0.53
123 1 0.01
124 13 0.11
125 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (123 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:127835858 original size:262 final size:257
Alignment explanation
Indices: 127835345--127835936 Score: 1049
Period size: 262 Copynumber: 2.3 Consensus size: 257
127835335 TTTCAAGGAA
*
127835345 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
127835410 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
127835475 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
127835540 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
127835602 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
127835667 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTAGTT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA--TT--TT
127835732 TATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAT
127 TA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAT
127835797 CAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
191 CAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
127835862 TT
256 TT
* * * * * *
127835864 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
127835929 GTTTTCAA
64 GTTTTCAA
127835937 TTTACGTTGT
Statistics
Matches: 320, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
257 120 0.38
259 2 0.01
261 4 0.01
262 131 0.41
264 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:127835895 original size:72 final size:71
Alignment explanation
Indices: 127835774--127835939 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
127835764 GAGTTAAGCC
** * *
127835774 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
127835838 TGAGGTA
65 TGAGGTA
*
127835845 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
127835910 TGAGGTA
65 TGAGGTA
* *
127835917 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
127835940 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:127836043 original size:140 final size:140
Alignment explanation
Indices: 127835872--127836359 Score: 888
Period size: 140 Copynumber: 3.5 Consensus size: 140
127835862 TTAATTTCAA
127835872 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
127835937 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
127836002 TCAAAATCAG
131 TCAAAATCAG
* *
127836012 CTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
127836077 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
127836142 TCAAAATCAG
131 TCAAAATCAG
127836152 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
127836217 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
127836282 TCAAAATCAG
131 TCAAAATCAG
*
127836292 CTAATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
127836356 TCAA
62 TCAA
127836360 AAAAAAAATT
Statistics
Matches: 337, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
139 2 0.01
140 306 0.91
142 23 0.07
143 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:127836215 original size:13 final size:13
Alignment explanation
Indices: 127836197--127836230 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
127836187 CGCTGAGGTA
*
127836197 TTTTCAATTTCTG
1 TTTTCAATTTATG
127836210 TTTTCAATTTATG
1 TTTTCAATTTATG
127836223 TTGTTCAA
1 TT-TTCAA
127836231 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:127836478 original size:72 final size:70
Alignment explanation
Indices: 127836364--127836510 Score: 240
Period size: 72 Copynumber: 2.1 Consensus size: 70
127836354 TTTCAAAAAA
* * * *
127836364 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAAGTAATCTCAATTTC
127836429 TGATTTC
66 TG--TTC
127836436 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAAGTAATCTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAAGTAATCTCAATTTC
127836501 TGTTC
66 TGTTC
127836506 AAAAT
1 AAAAT
127836511 GAGTTGAGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
70 8 0.11
72 63 0.89
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (70 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAAGTAATCTCAATTTC
TGTTC
Found at i:127836573 original size:14 final size:14
Alignment explanation
Indices: 127836542--127836575 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
127836532 GCCGAGGTAT
*
127836542 TTTCAATTTCTATT
1 TTTCAATTTCTATC
*
127836556 TTTCAATTTCTGTC
1 TTTCAATTTCTATC
127836570 TTTCAA
1 TTTCAA
127836576 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTATC
Found at i:127836847 original size:77 final size:75
Alignment explanation
Indices: 127836580--127836927 Score: 459
Period size: 74 Copynumber: 4.6 Consensus size: 75
127836570 TTTCAAAAAA
* * *
127836580 AAAAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTA--TTTT
* * *
127836645 CAATTTATATTTTTC
61 CAATTTCTGTTGTTC
* *
127836660 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
127836725 TCTGTTG-TC
66 TCTGTTGTTC
* * *
127836734 AAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
*
127836799 TTTCGTATGTTTC
66 TCT-GT-TG-TTC
*
127836812 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
*
127836876 TCTGTTG-TA
66 TCTGTTGTTC
* *
127836885 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGG
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
127836928 TCACACGTCA
Statistics
Matches: 241, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
73 1 0.00
74 104 0.43
75 17 0.07
76 4 0.02
77 74 0.31
78 2 0.01
79 33 0.14
80 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
TCTGTTGTTC
Found at i:127836857 original size:151 final size:152
Alignment explanation
Indices: 127836579--127836926 Score: 506
Period size: 151 Copynumber: 2.3 Consensus size: 152
127836569 CTTTCAAAAA
* * * *
127836579 AAAAAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTT
1 AAAAAAA-ATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACACTGAGGTA-TTTG
* *
127836644 TCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCAGGACACGC
64 TCAATTTATATGTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
127836709 TGAGGTATTTTCAATTTCTGTTGT
129 TGAGGTATTTTCAATTTCTGTTGT
* * *
127836733 CAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA-TTGTC
1 AAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACACTGAGGTATTTGTC
* *
127836795 AATTTTTCGTATGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
66 AA--TTT-ATATGTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
127836859 CTGAGGTATTTTTAATTTCTGTTGT
128 CTGAGGTATTTTCAATTTCTGTTGT
*
127836884 AAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAG
1 AAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAG
127836927 GTCACACGTC
Statistics
Matches: 176, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
149 6 0.03
151 123 0.70
152 9 0.05
153 32 0.18
154 6 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (152 bp):
AAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACACTGAGGTATTTGTC
AATTTATATGTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
AGGTATTTTCAATTTCTGTTGT
Found at i:127837603 original size:12 final size:13
Alignment explanation
Indices: 127837571--127837608 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
127837561 ACCTAACCCA
*
127837571 AAAAAAAAACAAAG
1 AAAAAAGAA-AAAG
127837585 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
127837598 -AAAAAGAAAAA
1 AAAAAAGAAAAA
127837609 CCTACCCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 4 0.17
14 8 0.35
ACGTcount: A:0.87, C:0.03, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:127837625 original size:16 final size:18
Alignment explanation
Indices: 127837604--127837643 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
127837594 AAAGAAAAAG
127837604 AAAAACCT-A-CCCCAAA
1 AAAAACCTAACCCCCAAA
127837620 AAAAACCTAACCCCCCAAA
1 AAAAACCTAA-CCCCCAAA
127837639 AAAAA
1 AAAAA
127837644 GAAGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 1 0.05
19 12 0.57
ACGTcount: A:0.60, C:0.35, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAACCTAACCCCCAAA
Found at i:127838224 original size:2 final size:2
Alignment explanation
Indices: 127838219--127838249 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
127838209 TAAATACTAT
*
127838219 TA TA TA CA 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 T
127838250 TTTAAATACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:127841129 original size:13 final size:13
Alignment explanation
Indices: 127841111--127841149 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
127841101 AATTTGAGAC
127841111 TATAACTTTAATA
1 TATAACTTTAATA
*
127841124 TATAACTTTTATA
1 TATAACTTTAATA
*
127841137 CATTAACTTTAAT
1 TA-TAACTTTAAT
127841150 CTCTAATTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (13 bp):
TATAACTTTAATA
Found at i:127845082 original size:26 final size:26
Alignment explanation
Indices: 127845040--127845148 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
127845030 TGATACAAAT
*
127845040 TGATAATAGG-TAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127845065 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127845091 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127845117 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127845143 TGATAA
1 TGATAA
127845149 GAATTCATGT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 9 0.11
26 72 0.89
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:127848479 original size:18 final size:18
Alignment explanation
Indices: 127848456--127848493 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
127848446 TGTGATAGAA
127848456 TTTCTAGTATCAATAATG
1 TTTCTAGTATCAATAATG
127848474 TTTCTAGTATCAATAATG
1 TTTCTAGTATCAATAATG
127848492 TT
1 TT
127848494 ATTGAGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
TTTCTAGTATCAATAATG
Found at i:127848752 original size:22 final size:20
Alignment explanation
Indices: 127848709--127848752 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
127848699 TTTTTTATCT
*
127848709 TATTTTTAAACATATTTCTA
1 TATTTTAAAACATATTTCTA
*
127848729 TATTTTAAATACATTATTTTTA
1 TATTTTAAA-ACA-TATTTCTA
127848751 TA
1 TA
127848753 CGCATACGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 9 0.45
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTTAAAACATATTTCTA
Found at i:127849213 original size:17 final size:15
Alignment explanation
Indices: 127849178--127849229 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 15
127849168 AACCTAACCC
* *
127849178 AAAAAAAAAAGAA-G
1 AAAAAAAAAAAAACT
* *
127849192 AAAAAAGAAAAACCT
1 AAAAAAAAAAAAACT
127849207 AACAAAAAAAAAAACT
1 AA-AAAAAAAAAAACT
127849223 AAAAAAA
1 AAAAAAA
127849230 CCCTAGCCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 10 0.33
15 7 0.23
16 13 0.43
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAAAACT
Found at i:127851794 original size:12 final size:12
Alignment explanation
Indices: 127851777--127851812 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
127851767 ATTCATTTGA
127851777 CATTCATGCATT
1 CATTCATGCATT
127851789 CATTCATGCATT
1 CATTCATGCATT
*
127851801 CATTCATACATT
1 CATTCATGCATT
127851813 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:127856908 original size:78 final size:74
Alignment explanation
Indices: 127856793--127857568 Score: 358
Period size: 78 Copynumber: 9.9 Consensus size: 74
127856783 GTTTTATTTT
* * *
127856793 AAAATTAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
127856858 GTTGTCAAAAAAA
66 GTTTTC----AAA
* * * * * **
127856871 AAAATCAACTCGTATTGCGAGCGGTGAGTTGAGCCTCAAGACATGTTGAATTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
127856936 GTTTTTCAAA
66 G-TTTTCAAA
* * * * * * *
127856946 AAAATCAGCTCATATTGCGAGAGATGAGTTGAACCTCA--AGACGCTGAGGTGTTTTCCATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* *
127857009 GTTCTTTAATTTCTGTGTTTC
66 GTT-TTCAA-----------A
* * * * * * * * *
127857030 AAAA--AAATCA-ACT-C-ATATTGCGAATGGTGAG-TTGAGCCTCGGGACACGCTGAGGTAATT
1 AAAATCAACTCATATTGCGAGA-GGTG-A-GTTGAGCCT------CAGGACACGCTGAGGTATTT
*
127857089 TCAATTTCTATTTTC--A
57 TCAATTTCTGTTTTCAAA
* ** * *
127857105 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
127857170 ATTTTCAAAAAAA
66 GTTTTC----AAA
* * * * * *
127857183 AAAACCAACTTATATTGCGAGAGGTAAGTTGAGCCTCAGTTCACATGCTGAGGTATTTTTAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTATTTTCAATTT
127857248 CTGTCTTTCAAA
64 CTGT-TTTCAAA
* * * *
127857260 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTTTTTTTTTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGG------TATTTT
* *
127857325 CAATTTATATTTTTC--A
58 CAATTTCT-GTTTTCAAA
* * ** * **
127857341 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGAGTCACATATCGAGGCATTTTCAAAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACAC-GCT-GAGGTATTTTCAATT
127857405 TCTGCTTTTCAAGTTAAGTTTCA
63 TCTG-TTTTC-----AA-----A
* *
127857428 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
127857493 GTTTTTTAAA
66 G-TTTTCAAA
* * * * * *
127857503 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGATGCTGAGGTGTTTTCCATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
127857566 GTT
66 GTT
127857569 CTTTAATTTC
Statistics
Matches: 525, Mismatches: 111, Indels: 130
0.69 0.14 0.17
Matches are distributed among these distances:
72 35 0.07
73 43 0.08
75 90 0.17
77 59 0.11
78 93 0.18
79 11 0.02
80 31 0.06
81 48 0.09
82 8 0.02
83 15 0.03
84 5 0.01
85 20 0.04
86 1 0.00
87 42 0.08
88 2 0.00
89 22 0.04
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTCAAA
Found at i:127857325 original size:150 final size:147
Alignment explanation
Indices: 127857030--127857327 Score: 318
Period size: 150 Copynumber: 2.0 Consensus size: 147
127857020 TCTGTGTTTC
* * *
127857030 AAAAAAATCAACTCATATTGCGAATGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAACCAACTCATATTGCGAATGGTAAGTTGAGCCTCGGCACACGCTGAGGTAATTTCAATT
* * **
127857095 TCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATT
66 TCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGG-ATT
127857160 TTCAATTTCTATTTTCAAAA
130 TT--ATTTCTATTTTCAAAA
* * * * *
127857180 AAAAAAACCAACTTATATTGCGAGA-GGTAAGTTGAGCCTCAGTTCACATGCTGAGGTATTTTTA
1 AAAAAAACCAACTCATATTGCGA-ATGGTAAGTTGAGCCTC-G-GCACACGCTGAGGTAATTTCA
* ** *
127857244 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACT
63 ATTTCTAT-TTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-CACACACT
127857309 GAGG-TTTT-TTT-T-TTTTCAA
123 GAGGATTTTATTTCTATTTTCAA
127857328 TTTATATTTT
Statistics
Matches: 124, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
150 42 0.34
151 3 0.02
152 26 0.21
153 4 0.03
155 39 0.31
156 1 0.01
157 9 0.07
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (147 bp):
AAAAAAACCAACTCATATTGCGAATGGTAAGTTGAGCCTCGGCACACGCTGAGGTAATTTCAATT
TCTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGATTT
TATTTCTATTTTCAAAA
Found at i:127857506 original size:75 final size:73
Alignment explanation
Indices: 127857427--127857574 Score: 215
Period size: 75 Copynumber: 2.0 Consensus size: 73
127857417 GTTAAGTTTC
* *
127857427 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTATTTTCAATTTC
*
127857492 TGTTTTTTAA
64 TGTTCTTTAA
* * * *
127857502 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGATGCTGAGGTGTTTTCCATTTCTG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTTCAATTTCTG
127857567 TTCTTTAA
66 TTCTTTAA
127857575 TTTCTGTGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 27 0.41
75 39 0.59
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTTCAATTTCTG
TTCTTTAA
Found at i:127857568 original size:73 final size:74
Alignment explanation
Indices: 127857016--127857574 Score: 312
Period size: 72 Copynumber: 7.2 Consensus size: 74
127857006 TTTGTTCTTT
* * **
127857016 AATTTCTGTGT-TTCAAAAAAATCAACTCATATTGCGA-ATGGTGAGTTGAGCCTCGGGACACGC
1 AATTTCTGT-TCTTTAAAAAAATCAACTCATATTGCGAGA-GGTGAGTTGAACCTCAAGA-ACGC
*
127857079 TGAGGTAATTTC
63 TGAGGTATTTTC
* * * ** * *
127857091 AATTTCT-AT-TTT-CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
1 AATTTCTGTTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-ACGCTG
127857153 AGGTATTTTC
65 AGGTATTTTC
* * * * * *
127857163 AATTTCTATT-TTCAAAAAAAAAAACCAACTTATATTGCGAGAGGTAAGTTGAGCCTC-AGTTCA
1 AATTTCTGTTCTT----TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG---A
* *
127857226 CATGCTGAGGTATTTTT
59 -ACGCTGAGGTATTTTC
* * * *
127857243 AATTTCTG-TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACA
1 AATTTCTGTTCTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA-A-GA-ACG
*
127857307 CTGAGGTTTTTTTTTTTTC
62 CTGAGG------TATTTTC
* * * * ** * **
127857326 AATTTATATT-TTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATAT
1 AATTTCTGTTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG-AAC-GCT
*
127857389 CGAGGCATTTTC
64 -GAGGTATTTTC
* * * *
127857401 AAAATCTGCTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
1 --AAT-TTCTGTTC--TTTAA-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
*
127857466 AGACACGTTGAGGTATTTTC
56 AGA-ACGCTGAGGTATTTTC
* * *
127857486 AATTTCTGTTTTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG-ATGCTGA
1 AATTTCTGTTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGA
*
127857550 GGTGTTTTC
66 GGTATTTTC
*
127857559 CATTTCTGTTCTTTAA
1 AATTTCTGTTCTTTAA
127857575 TTTCTGTGTT
Statistics
Matches: 379, Mismatches: 67, Indels: 78
0.72 0.13 0.15
Matches are distributed among these distances:
72 57 0.15
73 34 0.09
75 51 0.13
77 50 0.13
78 36 0.09
79 4 0.01
80 30 0.08
81 42 0.11
82 5 0.01
83 17 0.04
84 1 0.00
85 10 0.03
86 1 0.00
87 41 0.11
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (74 bp):
AATTTCTGTTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGA
GGTATTTTC
Found at i:127857726 original size:92 final size:90
Alignment explanation
Indices: 127857481--127857740 Score: 259
Period size: 92 Copynumber: 2.9 Consensus size: 90
127857471 CGTTGAGGTA
* * * *
127857481 TTTTCAATTTCTGTTTTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAT-
1 TTTTCAATTTCTG-CTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCTTC-AGATC
* * *
127857545 ----GCTGAGGTGTTTTCCATTTCTGT
64 ACACGCTGAGGTATTTTCAATTTCCGT
* * *
127857568 TCTTT-AATTTCTGTGTTTCAAAAAGATCAGCTCATATTGCGA-ATGGTGAATTGAGCCTT-A-A
1 T-TTTCAATTTCTG-CTTTCAAAAAAATCAGCTCATATTGCGAGA-GGTGAGTTGAG-CTTCAGA
*
127857629 CTCACACGCCGAGGTATTTTCAATTTCCGT
62 -TCACACGCTGAGGTATTTTCAATTTCCGT
*
127857659 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 TTTTCAATTTCTG-CTTTC-AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
*
127857724 ACACACTGAGGTATTTT
64 ACACGCTGAGGTATTTT
127857741 TTTCAATTTA
Statistics
Matches: 142, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 44 0.31
88 5 0.04
90 3 0.02
91 35 0.25
92 49 0.35
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (90 bp):
TTTTCAATTTCTGCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
ACGCTGAGGTATTTTCAATTTCCGT
Found at i:127857928 original size:557 final size:527
Alignment explanation
Indices: 127856793--127858265 Score: 1325
Period size: 557 Copynumber: 2.7 Consensus size: 527
127856783 GTTTTATTTT
* ** * * * * *
127856793 AAAATTAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGATGAGGCAATTTCAATTTCA
* * * * **
127856858 GTTGTCAAAAAAAAAAATCAACTCGTATTGCGAGCGGTGAGTTGAGCCTCAAGACATGTTGAATT
66 GTTTTC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
*
127856923 ATTTTCAATTTCTGTTTTTCAAAAAAATCAGCTCATATTGCGAGAGATGAGTTGAACCTCAAGAC
125 ATTTTCAATTTCTGTTTTTTAAAAAAATCAGCTCATATTGCGAGAGATGAGTTGAACCTCAAGAC
*
127856988 GCTGAGGTGTTTTCCATTTTTGTTCTTTAATTTCTGTGTTTCAAAAAAATCAACTCATATTGCGA
190 GCTGAGGTGTTTTCCATTTCTGTTCTTTAATTTCTGTGTTTCAAAAAAATCAACTCATATTGCGA
* * * *
127857053 ATGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTATTTTCAAAATTCAACTCAT
255 ATGGTGAATTGAGCCTCGGCACACGCCGAGGTAATTTCAATTTCTATTTTCAAAAATCAACTCAT
* ** *
127857118 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTATTTTCAAAAAAA
320 ATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGTATTTTCAATTTATATTTTC-----AA
* * *
127857183 AAAACCAACTTATATTGCGAGAGGTAAGTTGAGCCTCAGTTCACATGCTGAGGTATTTTTAATTT
380 AAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAG-T-ACA-GCTGAGGTAATTTCAATTT
* *
127857248 CTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGG
442 CTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACACTGAGG
**
127857313 TTTTTTTTTTTTCAATTTATATTTTTCA
506 -----TTAATTTCAA-TTATATTTTTCA
** ** * * *
127857341 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATATCGAGGCATTTTCAAAAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC-GAT-GAGGCAATTTC--AA-
127857406 CTGCTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
61 -----TTTC-AG-T---TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
127857471 CGTTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAA
116 CGTTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAATCAGCTCATATTGCGAGAGATGAGTTGAA
* * *
127857536 CCTCAAGATGCTGAGGTGTTTTCCATTTCTGTTCTTTAATTTCTGTGTTTCAAAAAGATCAGCTC
181 CCTCAAGACGCTGAGGTGTTTTCCATTTCTGTTCTTTAATTTCTGTGTTTCAAAAAAATCAACTC
* *
127857601 ATATTGCGAATGGTGAATTGAGCCTTAAC-TCACACGCCGAGGTATTTTCAATTTCCGTTTTTCA
246 ATATTGCGAATGGTGAATTGAGCC-T--CGGCACACGCCGAGGTAATTTCAATTT-C-----T--
** *
127857665 ATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACAC
300 A----T---TTTC---AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-CACACAC
* *
127857730 TGAGGTATTTTTTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
353 TGAGGTA---TTTTCAATTTATA-TTTTCAAAAAACCAACTCATATTGCGAGAGGTAAGTTGAGC
**
127857794 CTC-G-GGA-CTGAGGTAATTTCAATTTCTGT-TTTC-AAAAATCAACTCATATTGCGAGAGGTG
414 CTCAGTACAGCTGAGGTAATTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTG
* * * *
127857854 AGTTGAGCCTC-G-GGACACGCTGAGG-TAATTTCAA-TCTGTTTTT-A
479 AGTTGAGCCTCAGAGCACACACTGAGGTTAATTTCAATTATATTTTTCA
* * * *
127857898 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGATGAGGCAATTTCAATTTCA
* ** * *
127857963 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTC
66 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
* * * * * *
127858028 AATTTCTG--TTTT-CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
131 AATTTCTGTTTTTTAAAAAAATCAGCTCATATTGCGAGAGATGAGTTGAACCTCAAG--ACGCTG
*
127858090 A-G-G---T--A--T-T-TTC---AATTTCTGT-TTTCAAAAAAATCAACTTATATTGCGAGA-G
194 AGGTGTTTTCCATTTCTGTTCTTTAATTTCTGTGTTTCAAAAAAATCAACTCATATTGCGA-ATG
* * * * *
127858139 GTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTC
258 GTGAATTGAGCCTCGG--CACACGCCGAGGTAATTTCAATTTCTAT-TTTC--AAAAATCAACTC
** * *
127858204 ATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTTTTCAATTTATATT
318 ATATTGCGAGAAATGAGTTGAGCCTCA-A-CACACACTGAGGTA---TTTTCAATTTATATT
127858266 GCGAAAGGTG
Statistics
Matches: 793, Mismatches: 84, Indels: 134
0.78 0.08 0.13
Matches are distributed among these distances:
510 2 0.00
511 73 0.09
512 5 0.01
514 1 0.00
520 1 0.00
523 1 0.00
525 2 0.00
526 58 0.07
527 10 0.01
530 3 0.00
531 1 0.00
532 1 0.00
534 1 0.00
536 1 0.00
539 37 0.05
540 5 0.01
541 5 0.01
542 66 0.08
545 1 0.00
546 1 0.00
547 4 0.01
548 38 0.05
549 1 0.00
550 9 0.01
552 2 0.00
553 2 0.00
555 9 0.01
556 1 0.00
557 225 0.28
558 12 0.02
559 22 0.03
560 10 0.01
563 3 0.00
565 1 0.00
566 10 0.01
567 2 0.00
568 37 0.05
570 4 0.01
571 21 0.03
573 1 0.00
574 4 0.01
576 1 0.00
577 70 0.09
578 1 0.00
579 11 0.01
582 12 0.02
583 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (527 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGATGAGGCAATTTCAATTTCA
GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
AATTTCTGTTTTTTAAAAAAATCAGCTCATATTGCGAGAGATGAGTTGAACCTCAAGACGCTGAG
GTGTTTTCCATTTCTGTTCTTTAATTTCTGTGTTTCAAAAAAATCAACTCATATTGCGAATGGTG
AATTGAGCCTCGGCACACGCCGAGGTAATTTCAATTTCTATTTTCAAAAATCAACTCATATTGCG
AGAAATGAGTTGAGCCTCAACACACACTGAGGTATTTTCAATTTATATTTTCAAAAAACCAACTC
ATATTGCGAGAGGTAAGTTGAGCCTCAGTACAGCTGAGGTAATTTCAATTTCTGTCTTTCAAAAA
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACACTGAGGTTAATTTCAATTATA
TTTTTCA
Found at i:127857995 original size:72 final size:72
Alignment explanation
Indices: 127857681--127858226 Score: 665
Period size: 72 Copynumber: 7.5 Consensus size: 72
127857671 GCCTTTCAAA
* * * *
127857681 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTCA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACGCTGAGGTA---ATTTCA
* *
127857746 ATTTATATTTTTC
61 ATTTCT-GTTTTC
**
127857759 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGGA--CTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
127857820 TGTTTTC
66 TGTTTTC
**
127857827 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA--TC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
*
127857890 TGTTTTT
66 TGTTTTC
* **
127857897 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
127857962 TGTTTTC
66 TGTTTTC
* ** * *
127857969 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
127858034 TGTTTTC
66 TGTTTTC
* ** * *
127858041 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
127858106 TGTTTTC
66 TGTTTTC
* * * *
127858113 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGGTAATTTCA
127858177 ATTTCTGTCTTTC
61 ATTTCTGT-TTTC
127858190 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
127858227 TTCAGATCAC
Statistics
Matches: 428, Mismatches: 28, Indels: 25
0.89 0.06 0.05
Matches are distributed among these distances:
68 43 0.10
69 10 0.02
70 66 0.15
72 171 0.40
73 1 0.00
74 35 0.08
76 25 0.06
77 40 0.09
78 37 0.09
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:127858057 original size:214 final size:212
Alignment explanation
Indices: 127857679--127858224 Score: 675
Period size: 214 Copynumber: 2.5 Consensus size: 212
127857669 CTGCCTTTCA
* * *
127857679 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACGCTGAGGTA---TTTT
* * * **
127857744 CAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACTGAGGTA
61 CAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGACACTGAGGTA
** **
127857809 ATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
125 ATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
127857874 TGAGGTAATTTCAA-TCTGTTTT
190 TGAGGTAATTTCAATTCTGTTTT
* * ** *
127857896 -TAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATT
* **
127857960 TCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAAT
66 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC--GACAC--TGAGGTAAT
* *
127858025 TTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
127 TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
*
127858090 AGGTATTTTCAATTTCTGTTTT
192 AGGTAATTTCAA-TTCTGTTTT
* * *
127858112 CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTC
1 -AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTC
127858176 AATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
62 AATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
127858225 GCTTCAGATC
Statistics
Matches: 281, Mismatches: 34, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
210 39 0.14
211 10 0.04
212 3 0.01
214 91 0.32
215 1 0.00
216 43 0.15
217 1 0.00
218 34 0.12
220 25 0.09
221 4 0.01
223 30 0.11
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (212 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATT
TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGACACTGAGGTAATTTCA
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
AATTTCAATTCTGTTTT
Found at i:127859113 original size:17 final size:17
Alignment explanation
Indices: 127859093--127859162 Score: 76
Period size: 18 Copynumber: 4.2 Consensus size: 17
127859083 TTAAGCCCCC
127859093 AAAAAAAAAACCTAACCA
1 AAAAAAAAAACCTAA-CA
* *
127859111 AAAAAAAAAA--GAAGA
1 AAAAAAAAAACCTAACA
127859126 AAAAAGAAAAACCTAACA
1 AAAAA-AAAAACCTAACA
127859144 AAAAAAAAAA-CTAA-A
1 AAAAAAAAAACCTAACA
127859159 AAAA
1 AAAA
127859163 CCCTAGCCAC
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
15 11 0.24
16 11 0.24
17 5 0.11
18 18 0.40
ACGTcount: A:0.80, C:0.11, G:0.04, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAACCTAACA
Found at i:127859146 original size:16 final size:15
Alignment explanation
Indices: 127859110--127859162 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
127859100 AAACCTAACC
*
127859110 AAAAAAAAAAAGAA-G
1 AAAAAAAAAAA-AACT
* *
127859125 AAAAAAGAAAAACCT
1 AAAAAAAAAAAAACT
127859140 AACAAAAAAAAAAACT
1 AA-AAAAAAAAAAACT
127859156 AAAAAAA
1 AAAAAAA
127859163 CCCTAGCCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 1 0.03
15 17 0.55
16 13 0.42
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAAAACT
Found at i:127861832 original size:2 final size:2
Alignment explanation
Indices: 127861825--127861851 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
127861815 ATTGGAGGAT
127861825 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 T
127861852 TAGTTGCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:127862433 original size:13 final size:13
Alignment explanation
Indices: 127862415--127862446 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
127862405 GAATAAGTAA
127862415 TTCGAGTTTCGAG
1 TTCGAGTTTCGAG
127862428 TTCGAG-TTCGAG
1 TTCGAGTTTCGAG
127862440 TT-GAGTT
1 TTCGAGTT
127862447 GAACTAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 9 0.50
13 6 0.33
ACGTcount: A:0.16, C:0.12, G:0.31, T:0.41
Consensus pattern (13 bp):
TTCGAGTTTCGAG
Found at i:127863916 original size:30 final size:30
Alignment explanation
Indices: 127863882--127863972 Score: 164
Period size: 30 Copynumber: 3.0 Consensus size: 30
127863872 TAAATCTTAG
127863882 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
127863912 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* *
127863942 CCTTTTCCACTACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
127863972 C
1 C
127863973 TTGCTCCATT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.27, C:0.48, G:0.03, T:0.21
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:127863920 original size:18 final size:18
Alignment explanation
Indices: 127863899--127863953 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
127863889 CACCACCAAC
127863899 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
*
127863917 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
127863929 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
127863947 TCCACTA
1 TCCACTA
127863954 CCAAATCCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
12 6 0.21
13 3 0.10
14 1 0.03
15 2 0.07
16 1 0.03
17 3 0.10
18 13 0.45
ACGTcount: A:0.25, C:0.47, G:0.04, T:0.24
Consensus pattern (18 bp):
TCCACTAGCCACACCTTT
Found at i:127863993 original size:30 final size:30
Alignment explanation
Indices: 127863887--127864008 Score: 131
Period size: 30 Copynumber: 4.1 Consensus size: 30
127863877 CTTAGCCTTT
* * *
127863887 TCCACCACCAACTCCACTAGCCACACCTT-T
1 TCCACTACCAAATCCACTAGCCACA-CTTGC
* * *
127863917 TCCACCACCAACTCCACTAGCCACACCTT-T
1 TCCACTACCAAATCCACTAGCCACA-CTTGC
127863947 TCCACTACCAAATCCACTAGCCACACTTGC
1 TCCACTACCAAATCCACTAGCCACACTTGC
* * *
127863977 TCCATTACCTATTCCACTAGCCACACTTGC
1 TCCACTACCAAATCCACTAGCCACACTTGC
127864007 TC
1 TC
127864009 TACCACCACT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
29 3 0.04
30 82 0.96
ACGTcount: A:0.26, C:0.46, G:0.05, T:0.23
Consensus pattern (30 bp):
TCCACTACCAAATCCACTAGCCACACTTGC
Found at i:127863993 original size:60 final size:60
Alignment explanation
Indices: 127863882--127864002 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 60
127863872 TAAATCTTAG
* *
127863882 CCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAAATCCACTAGCCACACCTTCTCCACCACCAACTCCACTAGCCACA
* ** * *
127863942 CCTTTTCCACTACCAAATCCACTAGCCACA-CTTGCTCCATTACCTATTCCACTAGCCACA
1 CCTTTTCCACCACCAAATCCACTAGCCACACCTT-CTCCACCACCAACTCCACTAGCCACA
127864002 C
1 C
127864003 TTGCTCTACC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
59 3 0.06
60 50 0.94
ACGTcount: A:0.26, C:0.46, G:0.04, T:0.23
Consensus pattern (60 bp):
CCTTTTCCACCACCAAATCCACTAGCCACACCTTCTCCACCACCAACTCCACTAGCCACA
Found at i:127864640 original size:25 final size:25
Alignment explanation
Indices: 127864516--127864647 Score: 84
Period size: 25 Copynumber: 5.5 Consensus size: 25
127864506 CTTTTTTTGT
* *
127864516 TATTAT-TATATTTC-TTAATATTA
1 TATTATGTATATATCTTTAATACTA
*
127864539 TATTA--TATATATCCTTT--TAATA
1 TATTATGTATATAT-CTTTAATACTA
* * *
127864561 TATTAGGTATAT-T-TTAAATTCTA
1 TATTATGTATATATCTTTAATACTA
* *
127864584 TATTACGTATAAATAT-TTTTATACTA
1 TATTATGTAT--ATATCTTTAATACTA
*
127864610 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATCTTTAATACTA
*
127864635 TATTATTTATATA
1 TATTATGTATATA
127864648 CATGTATATT
Statistics
Matches: 85, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
21 2 0.02
22 15 0.18
23 19 0.22
24 11 0.13
25 22 0.26
26 16 0.19
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (25 bp):
TATTATGTATATATCTTTAATACTA
Found at i:127864657 original size:19 final size:20
Alignment explanation
Indices: 127864633--127864685 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
127864623 TCTTTAATAC
127864633 TATATTATTTATATACATG-
1 TATATTATTTATATACATGT
* *
127864652 TATATT-TTTTTCTACATGT
1 TATATTATTTATATACATGT
* *
127864671 TATCTTATGTATATA
1 TATATTATTTATATA
127864686 TTTTAACTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 10 0.38
19 11 0.42
20 5 0.19
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.57
Consensus pattern (20 bp):
TATATTATTTATATACATGT
Found at i:127864725 original size:25 final size:24
Alignment explanation
Indices: 127864675--127864739 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
127864665 ACATGTTATC
127864675 TTATGTATATA-TTTT-AACTATA
1 TTATGTATATATTTTTAAACTATA
*
127864697 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAA-ACTATA
127864722 TTATGTATATATTTTTAA
1 TTATGTATATATTTTTAA
127864740 TATTATCACG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 10 0.26
23 4 0.11
24 1 0.03
25 23 0.61
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATGTATATATTTTTAAACTATA
Found at i:127864833 original size:2 final size:2
Alignment explanation
Indices: 127864826--127864851 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
127864816 ATTATTTCTA
127864826 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
127864852 TATGTACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127864939 original size:24 final size:24
Alignment explanation
Indices: 127864907--127864966 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
127864897 TAATTATTAT
*
127864907 TATTCTAATATTTTGATATTTT-GA
1 TATTTTAATATTTT-ATATTTTAGA
*
127864931 TATTTTAATATTTTATATTTTATA
1 TATTTTAATATTTTATATTTTAGA
*
127864955 TATTTTATTATT
1 TATTTTAATATT
127864967 CACATCATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 7 0.22
24 25 0.78
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (24 bp):
TATTTTAATATTTTATATTTTAGA
Found at i:127864950 original size:7 final size:8
Alignment explanation
Indices: 127864914--127864955 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
127864904 TATTATTCTA
127864914 ATATTTTG
1 ATATTTTG
127864922 ATATTTTG
1 ATATTTTG
*
127864930 ATATTTTA
1 ATATTTTG
127864938 ATATTTT-
1 ATATTTTG
127864945 ATATTTT-
1 ATATTTTG
127864952 ATAT
1 ATAT
127864956 ATTTTATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 11 0.33
8 22 0.67
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (8 bp):
ATATTTTG
Found at i:127864957 original size:16 final size:16
Alignment explanation
Indices: 127864914--127864962 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
127864904 TATTATTCTA
*
127864914 ATATTTTGATAT-TTTG
1 ATATTTT-ATATATTTT
127864930 ATATTTTA-ATATTTT
1 ATATTTTATATATTTT
127864945 ATATTTTATATATTTT
1 ATATTTTATATATTTT
127864961 AT
1 AT
127864963 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 2 0.07
15 12 0.40
16 16 0.53
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
ATATTTTATATATTTT
Found at i:127873968 original size:76 final size:76
Alignment explanation
Indices: 127873860--127874003 Score: 198
Period size: 76 Copynumber: 1.9 Consensus size: 76
127873850 GATGTTTTTA
* * * **
127873860 TTTCAAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTAAGGTATTGTCAA
1 TTTCAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTAAGGTATTGTCAA
127873925 TTTTTTGTATG
66 TTTTTTGTATG
* * * * *
127873936 TTTCAAAACTCAACTCATATTGTGAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAA
1 TTTCAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTAAGGTATTGTCAA
127874001 TTT
66 TTT
127874004 CTGCTCACAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (76 bp):
TTTCAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTAAGGTATTGTCAA
TTTTTTGTATG
Found at i:127874033 original size:58 final size:58
Alignment explanation
Indices: 127873949--127874064 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 58
127873939 CAAAACTCAA
* * *
127873949 CTCATATTGTGAGAAGTGAGTTGAGCCTTAAG-ACACGTTGAGGT-ATTTTCAATTTCTG
1 CTCACATTGCGAGAAGTGAGTTGAGCC-TAAGAACACGCTGAGGTAATTTT-AATTTCTG
* * *
127874007 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGAACGCGCTGAGGTAATTTTAATTTCTG
1 CTCACATTGCGAGAAGTGAGTTGAGCCTAAGAACACGCTGAGGTAATTTTAATTTCTG
127874065 TTTTTCAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
57 3 0.06
58 42 0.84
59 5 0.10
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (58 bp):
CTCACATTGCGAGAAGTGAGTTGAGCCTAAGAACACGCTGAGGTAATTTTAATTTCTG
Found at i:127874129 original size:133 final size:134
Alignment explanation
Indices: 127873878--127874139 Score: 361
Period size: 133 Copynumber: 2.0 Consensus size: 134
127873868 TTCAATTCAT
* * *
127873878 ATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTAAGGTATTGTCAATTTTTTGTATGTTTCAAA
1 ATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTAAGGTATTGTCAATTTTCTGTATGTTTCAAA
* * *
127873943 ACTCAACTCATATTGTGAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTTCTGC
66 ACTCAACTCATATTGCGAGAAGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGC
127874008 TCAC
131 TCAC
* * *
127874012 ATTGCGAGAGGTGAGTTGAGCCTCAGAACGCGCTGAGGTAATT-TTAA-TTTCTGT-T-TTTCAA
1 ATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTAAGGT-ATTGTCAATTTTCTGTATGTTTC--
* * *
127874073 AAAAGTCAACTCATATTGCGAGAGGTAAGTTGAGTCTCAAGACACGTTGAGGTATTTTCAATTTC
63 AAAACTCAACTCATATTGCGAGAAGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
127874138 TG
128 TG
127874140 TCTTTAAAAA
Statistics
Matches: 113, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
131 4 0.04
132 1 0.01
133 67 0.59
134 38 0.34
135 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (134 bp):
ATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTAAGGTATTGTCAATTTTCTGTATGTTTCAAA
ACTCAACTCATATTGCGAGAAGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGC
TCAC
Found at i:127874136 original size:75 final size:74
Alignment explanation
Indices: 127874007--127874472 Score: 330
Period size: 88 Copynumber: 5.9 Consensus size: 74
127873997 TCAATTTCTG
* *
127874007 CTCACATTGCGAGAGGTGAGTTGAGCCTC-AGAACGCGCTGAGGTAATTTT-AATTTCTGTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACG-TGAGGT-ATTTTCAATTTCTGTTTTT
*
127874070 CAAAAAAGTCAA
63 CAAAAAAATCAA
* * **
127874082 CTCATATTGCGAGAGGTAAGTTGAGTCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG-TGAGGTATTTTCAATTTCTGT-TTTTC
127874147 AAAAAAATCAA
64 AAAAAAATCAA
* * *
127874158 CTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACAC-TGAGGTATTTTCAATTTCCGTTTGTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTGAGGTATTTTCAATTTCTGTTTTTC-A
127874222 TTTATTTTTCAAAAATCCAA
65 ---A------AAAAAT-CAA
* * *
127874242 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCATGTGCTGAGGTATTTTCAATTTCTGTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACA--CG-TGAGGTATTTTCAATTTCTGTTTT
* *
127874306 TTAATTTCTGTTCGTCAAAATCAA
62 TCAA-----------AAAAATCAA
* * * * *
127874330 CTCATATTGTGAGAGGTGAGTTGAGCCTC-GGAACACGCTGAGATATTTTCAAATTCTATTTTTA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACG-TGAGGTATTTTCAATTTCT-GTTTT-
127874394 TCAAAAAAATCAA
62 TCAAAAAAATCAA
* * * ** * *
127874407 CTTACATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTAAGGTATTTTCAATTTCTGCTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG-TGAGGTATTTTCAATTTCTGTTTTTCA
127874472 A
65 A
127874473 TTTCCACTTT
Statistics
Matches: 321, Mismatches: 43, Indels: 54
0.77 0.10 0.13
Matches are distributed among these distances:
73 2 0.01
74 26 0.08
75 49 0.15
76 51 0.16
77 58 0.18
78 2 0.01
83 7 0.02
84 34 0.11
86 19 0.06
87 5 0.02
88 61 0.19
89 7 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (74 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTGAGGTATTTTCAATTTCTGTTTTTCAA
AAAAATCAA
Found at i:127874333 original size:88 final size:82
Alignment explanation
Indices: 127874149--127874526 Score: 292
Period size: 88 Copynumber: 4.5 Consensus size: 82
127874139 GTCTTTAAAA
*
127874149 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACTGAGGTATTTTCAATTTCCG
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC-GGACACTGAGGTATTTTCAATTTCCG
*
127874214 TTTGTCAATTTATTTTTC
65 TTTGTCAATTTATTTGTC
* *
127874232 AAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCATGTGCTGAGGTATTTTCAAT
1 AAAAAT-CAACTCATATTGTGAGAGGTGAGTTGAGCCTCGG-ACA----CTGAGGTATTTTCAAT
* * * *
127874297 TTCTGTTTTTTAATTTCTGTTCGTC
60 TTCCGTTTGTCAATTTAT-TT-GTC
* *
127874322 -AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGATATTTTCAAATT-
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGG-ACA--CTGAGGTATTTTCAATTTC
* ***
127874385 C-TAT-T---TTTA--TCAA
63 CGTTTGTCAATTTATTTGTC
* * *
127874398 AAAAATCAACTTACATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC-GGACA--CTGAGGTATTTTCAATTTC
*
127874463 TGCTTT-TCAATTTCCACTTT-TC
63 CG-TTTGTCAATTT--A-TTTGTC
** * *
127874485 AAAAGAATCAACTCATATTGCAAGAGTTGAGTTAAGCCTCGG
1 -AAA-AATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGG
127874527 GTCACACGCT
Statistics
Matches: 237, Mismatches: 35, Indels: 41
0.76 0.11 0.13
Matches are distributed among these distances:
77 56 0.24
78 2 0.01
80 6 0.03
83 11 0.05
84 35 0.15
85 1 0.00
86 17 0.07
88 71 0.30
89 36 0.15
90 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (82 bp):
AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGACACTGAGGTATTTTCAATTTCCGT
TTGTCAATTTATTTGTC
Found at i:127874471 original size:14 final size:14
Alignment explanation
Indices: 127874452--127874486 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
127874442 CGCTAAGGTA
**
127874452 TTTTCAATTTCTGC
1 TTTTCAATTTCCAC
127874466 TTTTCAATTTCCAC
1 TTTTCAATTTCCAC
127874480 TTTTCAA
1 TTTTCAA
127874487 AAGAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (14 bp):
TTTTCAATTTCCAC
Found at i:127874559 original size:254 final size:250
Alignment explanation
Indices: 127874053--127874560 Score: 639
Period size: 254 Copynumber: 2.0 Consensus size: 250
127874043 GCTGAGGTAA
** *
127874053 TTTTAATTTCTGTTTTTCAAAAAAGTCAACTCATATTGCGAGAGGTAAGTTGAGTCTCAAGACAC
1 TTTTAATTTCTGTTCGTC-AAAAAGTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACAC
* * * * *
127874118 GTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAG
65 GCTGAGATATTTTCAAATTCTATCTTTAAAAAAAAATCAACTCACATTGTGAGAGGTGAGTTGAG
* *
127874183 CCTCAAGACACTGAGGTATTTTCAATTTCCGTTTGTCAATTTATTTTTCAAAAATCCAACTCATA
130 CCTCAAGACACTAAGGTATTTTCAATTTCCGTTTGTCAATTTACTTTTCAAAAATCCAACTCATA
* * *** *
127874248 TTGCGAGAGGTGAGTTGAGCCTCGGCTCATGTGCTGAGGTATTTTCAATTTCTGTT
195 TTGCAAGAGGTGAGTTAAGCCTCGGCTCACACGCTGAGGCATTTTCAATTTCTGTT
* * *
127874304 TTTTAATTTCTGTTCGTC-AAAA-TCAACTCATATTGTGAGAGGTGAGTTGAGCCTC-GGAACAC
1 TTTTAATTTCTGTTCGTCAAAAAGTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAG-ACAC
* * *
127874366 GCTGAGATATTTTCAAATTCTATTTTTATCAAAAAAATCAACTTACATTGTGAGAGGTGAGTTGA
65 GCTGAGATATTTTCAAATTCTATCTTTA-AAAAAAAATCAACTCACATTGTGAGAGGTGAGTTGA
** *
127874431 GCCTCGGGACACGCTAAGGTATTTTCAATTTCTGCTTT-TCAATTTCCACTTTTCAAAAGAAT-C
129 GCCTCAAGACA--CTAAGGTATTTTCAATTTCCG-TTTGTCAATTT--ACTTTTC-AAA-AATCC
* * *
127874494 AACTCATATTGCAAGAGTTGAGTTAAGCCTCGGGTCACACGCTGAGGCGTTTTCAATTTCTGTT
187 AACTCATATTGCAAGAGGTGAGTTAAGCCTCGGCTCACACGCTGAGGCATTTTCAATTTCTGTT
127874558 TTT
1 TTT
127874561 CAAAAATCAA
Statistics
Matches: 220, Mismatches: 28, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
247 1 0.00
248 57 0.26
249 46 0.21
251 42 0.19
252 3 0.01
253 6 0.03
254 62 0.28
255 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (250 bp):
TTTTAATTTCTGTTCGTCAAAAAGTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACG
CTGAGATATTTTCAAATTCTATCTTTAAAAAAAAATCAACTCACATTGTGAGAGGTGAGTTGAGC
CTCAAGACACTAAGGTATTTTCAATTTCCGTTTGTCAATTTACTTTTCAAAAATCCAACTCATAT
TGCAAGAGGTGAGTTAAGCCTCGGCTCACACGCTGAGGCATTTTCAATTTCTGTT
Found at i:127874561 original size:91 final size:89
Alignment explanation
Indices: 127874394--127874563 Score: 223
Period size: 89 Copynumber: 1.9 Consensus size: 89
127874384 TCTATTTTTA
* ** * *
127874394 TCAAAAAAATCAACTTACATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTAAGGTATTTTCAA
1 TCAAAAAAATCAACTCACATTGCAAGAGGTGAGTTAAGCCTCGGGACACGCTAAGGCATTTTCAA
127874459 TTTCTGCTTTTCAATTTCCACTTT
66 TTTCTGCTTTTCAATTTCCACTTT
* * * * *
127874483 TCAAAAGAATCAACTCATATTGCAAGAGTTGAGTTAAGCCTCGGGTCACACGCTGAGGCGTTTTC
1 TCAAAAAAATCAACTCACATTGCAAGAGGTGAGTTAAGCCTCGGG--ACACGCTAAGGCATTTTC
*
127874548 AATTTCTGTTTTTCAA
64 AATTTCTGCTTTTCAA
127874564 AAATCAACTC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
89 38 0.56
91 30 0.44
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (89 bp):
TCAAAAAAATCAACTCACATTGCAAGAGGTGAGTTAAGCCTCGGGACACGCTAAGGCATTTTCAA
TTTCTGCTTTTCAATTTCCACTTT
Found at i:127874591 original size:75 final size:77
Alignment explanation
Indices: 127874465--127874631 Score: 214
Period size: 75 Copynumber: 2.2 Consensus size: 77
127874455 TCAATTTCTG
*** * *
127874465 CTTTTCAATTTCCACTTTTCAAAAGAATCAACTCATATTGCAAGAGTTGAGTTAAGCCTCGGGTC
1 CTTTTCAATTTCTGTTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGCC
*
127874530 ACACGCTGAGG-
66 ACACGCCGAGGT
* * *
127874541 CGTTTTCAATTTCTGTTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGC
1 C-TTTTCAATTTCTGTTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGC
127874604 CACACGCCGAGGT
65 CACACGCCGAGGT
*
127874617 CTTTTCAAATTCTGT
1 CTTTTCAATTTCTGT
127874632 CTTTAATTTC
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
75 58 0.73
76 5 0.06
77 16 0.20
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (77 bp):
CTTTTCAATTTCTGTTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGCC
ACACGCCGAGGT
Found at i:127874739 original size:14 final size:14
Alignment explanation
Indices: 127874720--127874751 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
127874710 CGTTGAGGTA
127874720 TTTTCAATTTATGC
1 TTTTCAATTTATGC
*
127874734 TTTTCAATTTCTGC
1 TTTTCAATTTATGC
127874748 TTTT
1 TTTT
127874752 TAAGAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.16, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTCAATTTATGC
Found at i:127874752 original size:104 final size:100
Alignment explanation
Indices: 127874543--127874745 Score: 248
Period size: 102 Copynumber: 2.0 Consensus size: 100
127874533 CGCTGAGGCG
* * *
127874543 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACA
1 TTTTCAATTTCTGTGTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGG-C-CA
* *
127874608 CGCCGAGGTCTTTTCAAATTCTGTCTTTAATTTCTAT
64 CGCCGAGGTATTTTCAAATTATGTCTTTAATTTCTAT
*
127874645 TTTTTAATTTCTGTGTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGG-C
1 TTTTCAATTTCTGTGTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGGCC
** *
127874709 ACGTTGAGGTATTTTCAATTTATG-CTTTTCAATTTCT
63 ACGCCGAGGTATTTTCAAATTATGTC-TTT-AATTTCT
127874746 GCTTTTTAAG
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
101 1 0.01
102 40 0.46
103 7 0.08
104 36 0.41
105 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (100 bp):
TTTTCAATTTCTGTGTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCCACG
CCGAGGTATTTTCAAATTATGTCTTTAATTTCTAT
Found at i:127874839 original size:87 final size:87
Alignment explanation
Indices: 127874669--127874839 Score: 204
Period size: 87 Copynumber: 2.0 Consensus size: 87
127874659 GTTTCAAAAA
*** *
127874669 AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCAATTTATGC
1 AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCCAAGGTATTTTCAAATTATGC
*
127874734 TTTTCAATTTCTGCTTTTTAAG
66 TTTTCAATTTCTGATTTTTAAG
* * * *
127874756 AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTC-GGGCCACACGCCAAGGTCTTTTCAAATTC
1 AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGG---CACGCCAAGGTATTTTCAAATTA
*
127874820 TG-TTTTTAATTTCT-ATTTTT
63 TGCTTTTCAATTTCTGATTTTT
127874840 TTTTAATTTC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
86 3 0.04
87 38 0.54
88 11 0.15
89 19 0.27
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (87 bp):
AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCCAAGGTATTTTCAAATTATGC
TTTTCAATTTCTGATTTTTAAG
Found at i:127874844 original size:17 final size:18
Alignment explanation
Indices: 127874822--127874856 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
127874812 TCAAATTCTG
127874822 TTTTTAATTTCTA-TTTT
1 TTTTTAATTTCTACTTTT
127874839 TTTTTAATTTCTACTTTT
1 TTTTTAATTTCTACTTTT
127874857 CAAAAGAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTAATTTCTACTTTT
Found at i:127874974 original size:75 final size:77
Alignment explanation
Indices: 127874839--127875002 Score: 244
Period size: 75 Copynumber: 2.2 Consensus size: 77
127874829 TTTCTATTTT
* *
127874839 TTTTTAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTCA
1 TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGCCA
127874904 CACGCTGAGG-C
66 CACGCTGAGGTC
* * *
127874915 ATTTTCAATTTCTACTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCC
1 -TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGCC
127874978 ACACGCTGAGGTC
65 ACACGCTGAGGTC
*
127874991 TTTTCAAATTCT
1 TTTTCAATTTCT
127875003 GTCTTTAATT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
75 58 0.73
76 4 0.05
77 18 0.22
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (77 bp):
TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGCCA
CACGCTGAGGTC
Found at i:127875115 original size:14 final size:14
Alignment explanation
Indices: 127875096--127875127 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
127875086 CGTTGAGGTA
127875096 TTTTCAATTTATGC
1 TTTTCAATTTATGC
127875110 TTTTCAATTTATGC
1 TTTTCAATTTATGC
127875124 TTTT
1 TTTT
127875128 TAAGAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTCAATTTATGC
Found at i:127875128 original size:107 final size:105
Alignment explanation
Indices: 127874935--127875128 Score: 248
Period size: 107 Copynumber: 1.8 Consensus size: 105
127874925 TCTACTTTTC
* * *
127874935 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACGCTGAGGTCTTTTCAAAT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGG-C-CACGCTGAGGTATTTTCAAAT
* * *
127875000 TCTGTCTTTAATTTCTTTTTTTTTTTAATTTTTGTGTTTCAA
64 TATGTCTTTAATTTATCTTTTTTTTTAATTTTTGTGTTTCAA
* *
127875042 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGG-CACGTTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGGCCACGCTGAGGTATTTTCAAATT
127875106 ATG-CTTTTCAATTTATGCTTTTT
65 ATGTC-TTT-AATTTAT-CTTTTT
127875129 AAGAATCAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
104 1 0.01
105 24 0.32
106 6 0.08
107 41 0.55
108 3 0.04
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (105 bp):
AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCCACGCTGAGGTATTTTCAAATTA
TGTCTTTAATTTATCTTTTTTTTTAATTTTTGTGTTTCAA
Found at i:127875182 original size:376 final size:373
Alignment explanation
Indices: 127874466--127875302 Score: 1410
Period size: 376 Copynumber: 2.2 Consensus size: 373
127874456 CAATTTCTGC
* * *
127874466 TTTTCAATTTCCACTTTTCAAAAGAATCAACTCATATTGCAAGAGTTGAGTTAAGCCTCGGGTCA
1 TTTTTAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTCA
* **
127874531 CACGCTGAGGCGTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 CACGCTGAGGCATTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
127874596 TCTCGGGCCACACGCCGAGGTCTTTTCAAATTCTGTCTTTAATTTCTATTTTTTAATTTCTGTGT
131 TCTCGGGCCACACGCCGAGGTCTTTTCAAATTCTGTCTTTAATTTCTATTTTTTAATTTCTGTGT
127874661 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCA
196 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCA
* *
127874726 ATTTATGCTTTTCAATTTCTGCTTTTTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTC
261 ATTTATGCTTTTCAATTTATGCTTTTTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTA
127874791 GGGCCACACGCCAAGGTCTTTTCAAATTCTGTTTTTAATTTCTATTTT
326 GGGCCACACGCCAAGGTCTTTTCAAATTCTGTTTTTAATTTCTATTTT
127874839 TTTTTAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTCA
1 TTTTTAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTCA
127874904 CACGCTGAGGCATTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 CACGCTGAGGCATTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
127874969 TCTCGGGCCACACGCTGAGGTCTTTTCAAATTCTGTCTTTAATTTCTTTTTTTTTTTAATTTTTG
131 TCTCGGGCCACACGCCGAGGTCTTTTCAAATTCTGTCTTTAATTTC---TATTTTTTAATTTCTG
127875034 TGTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTT
193 TGTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTT
127875099 TCAATTTATGCTTTTCAATTTATGCTTTTTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGT
258 TCAATTTATGCTTTTCAATTTATGCTTTTTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGT
127875164 CTAGGGCCACACGCCAAGGTCTTTTCAAATTCTGTTTTTAATTTCTATTTT
323 CTAGGGCCACACGCCAAGGTCTTTTCAAATTCTGTTTTTAATTTCTATTTT
* ** * * * * *
127875215 TTTTTAATTTCT-GTGTTTCAAAA-AAAAAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTC
1 TTTTTAATTTCTACT-TTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTC
** *
127875278 ACGTGCTGA-GCTATTTTTAATTTCT
65 ACACGCTGAGGC-ATTTTCAATTTCT
127875303 GTTTTAATGT
Statistics
Matches: 437, Mismatches: 22, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
373 169 0.39
374 2 0.00
375 53 0.12
376 213 0.49
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (373 bp):
TTTTTAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTCA
CACGCTGAGGCATTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
TCTCGGGCCACACGCCGAGGTCTTTTCAAATTCTGTCTTTAATTTCTATTTTTTAATTTCTGTGT
TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCA
ATTTATGCTTTTCAATTTATGCTTTTTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTA
GGGCCACACGCCAAGGTCTTTTCAAATTCTGTTTTTAATTTCTATTTT
Found at i:127876042 original size:30 final size:30
Alignment explanation
Indices: 127876013--127876112 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
127876003 CTTAGCCTTT
*
127876013 TCCACCACCAACTCCACTAGCCACACCTT-T
1 TCCACCACCAACTCCACTAGCCACA-CTTGC
*
127876043 TCCACCACCAAATCCACTAGCCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
** * *
127876073 TCCATTACCTACTCCACTAACCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
127876103 TCCACCACCA
1 TCCACCACCA
127876113 CTTGTACCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 3 0.05
30 56 0.95
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.20
Consensus pattern (30 bp):
TCCACCACCAACTCCACTAGCCACACTTGC
Found at i:127876315 original size:16 final size:17
Alignment explanation
Indices: 127876296--127876327 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
127876286 TATTGTGAAG
127876296 GCTAG-TTTTTGGAGAA
1 GCTAGTTTTTTGGAGAA
127876312 GCTAGTTTTTTGGAGA
1 GCTAGTTTTTTGGAGA
127876328 TTAATCAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.41
Consensus pattern (17 bp):
GCTAGTTTTTTGGAGAA
Found at i:127876732 original size:25 final size:25
Alignment explanation
Indices: 127876609--127876739 Score: 98
Period size: 25 Copynumber: 5.5 Consensus size: 25
127876599 TCTTTTTTGT
* *
127876609 TATTAT-TATATTTC-TTAATATTA
1 TATTATGTATATATCTTTAATACTA
*
127876632 TATTA--TATATATCCTTT--TAATA
1 TATTATGTATATAT-CTTTAATACTA
* * *
127876654 TATTAGGTATAT-T-TTAAATTCTA
1 TATTATGTATATATCTTTAATACTA
* * *
127876677 TATTACGTATATATATTTTATACTA
1 TATTATGTATATATCTTTAATACTA
*
127876702 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATCTTTAATACTA
*
127876727 TATTATTTATATA
1 TATTATGTATATA
127876740 CATATATTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
21 2 0.02
22 15 0.18
23 21 0.25
24 8 0.09
25 39 0.46
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (25 bp):
TATTATGTATATATCTTTAATACTA
Found at i:127876738 original size:50 final size:48
Alignment explanation
Indices: 127876626--127876739 Score: 113
Period size: 50 Copynumber: 2.3 Consensus size: 48
127876616 ATATTTCTTA
*
127876626 ATATTATATTATATATATCCTTTTAATATATTAGGTATATTTTAAATTCT
1 ATATTAT-TTATATATAT-CTTTTAATATATTAGGTATATTTTAAATACT
** * * * *
127876676 ATATTACGTATATATAT-TTTATACTATTTTATGTATATATCTTTAATACT
1 ATATTATTTATATATATCTTT-TAATATATTAGGTATAT-T-TTAAATACT
127876726 ATATTATTTATATA
1 ATATTATTTATATA
127876740 CATATATTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
47 3 0.06
48 14 0.27
49 10 0.19
50 25 0.48
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (48 bp):
ATATTATTTATATATATCTTTTAATATATTAGGTATATTTTAAATACT
Found at i:127876747 original size:14 final size:14
Alignment explanation
Indices: 127876687--127876748 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
127876677 TATTACGTAT
127876687 ATATATTT-TATAC
1 ATATATTTATATAC
* *
127876700 -TAT-TTTATGTAT
1 ATATATTTATATAC
*
127876712 ATATCTTTA-ATAC
1 ATATATTTATATAC
127876725 TATATTATTTATATAC
1 -ATA-TATTTATATAC
127876741 ATATATTT
1 ATATATTT
127876749 TTTTTCTACA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
11 3 0.08
12 6 0.16
13 5 0.13
14 12 0.32
15 8 0.21
16 4 0.11
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (14 bp):
ATATATTTATATAC
Found at i:127876816 original size:25 final size:24
Alignment explanation
Indices: 127876766--127876830 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
127876756 ACATGTTATC
127876766 TTATGTATATA-TTTT-AACTATA
1 TTATGTATATATTTTTAAACTATA
*
127876788 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAA-ACTATA
127876813 TTATGTATATATTTTTAA
1 TTATGTATATATTTTTAA
127876831 TATTATCACG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 10 0.26
23 4 0.11
24 1 0.03
25 23 0.61
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATGTATATATTTTTAAACTATA
Found at i:127877009 original size:16 final size:15
Alignment explanation
Indices: 127876985--127877032 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
127876975 TATTAATTAT
*
127876985 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
127877001 TATTTTAATATTTTA
1 TATTTTAATATTTTA
127877016 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
127877032 T
1 T
127877033 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:127877020 original size:7 final size:8
Alignment explanation
Indices: 127876985--127877036 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
127876975 TATTAATTAT
*
127876985 TATTCTAA
1 TATTTTAA
*
127876993 TATTTTGA
1 TATTTTAA
127877001 TATTTTAA
1 TATTTTAA
127877009 TATTTT-A
1 TATTTTAA
127877016 TATTTTATA
1 TATTTTA-A
*
127877025 TATTTTAT
1 TATTTTAA
127877033 TATT
1 TATT
127877037 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:127881515 original size:24 final size:24
Alignment explanation
Indices: 127881481--127881542 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
127881471 TTTTATAGTT
* * *
127881481 CACTATCACTATCATCATAGTTTG
1 CACTATTACTATCATCATAGCTTC
127881505 CACTATTACTATCATCATAGCTTC
1 CACTATTACTATCATCATAGCTTC
*
127881529 CACTATTATTATCA
1 CACTATTACTATCA
127881543 ACTTCTTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.39
Consensus pattern (24 bp):
CACTATTACTATCATCATAGCTTC
Found at i:127891972 original size:15 final size:15
Alignment explanation
Indices: 127891954--127891983 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
127891944 CAAATAATCC
127891954 AATACTCAATATTTA
1 AATACTCAATATTTA
127891969 AATACTCAATATTTA
1 AATACTCAATATTTA
127891984 TATCAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (15 bp):
AATACTCAATATTTA
Found at i:127894891 original size:14 final size:14
Alignment explanation
Indices: 127894872--127894898 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
127894862 TAAAATATAT
127894872 AATAAATAAAATAG
1 AATAAATAAAATAG
127894886 AATAAATAAAATA
1 AATAAATAAAATA
127894899 TATATTTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
AATAAATAAAATAG
Found at i:127900901 original size:18 final size:17
Alignment explanation
Indices: 127900871--127900904 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
127900861 TATGGTACTA
*
127900871 AAAATTATTAAAAAATT
1 AAAATTATAAAAAAATT
127900888 AAAATATATAAAAAAAT
1 AAAAT-TATAAAAAAAT
127900905 CCGGGAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATTATAAAAAAATT
Found at i:127901218 original size:19 final size:19
Alignment explanation
Indices: 127901194--127901284 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
127901184 AATCATATCT
*
127901194 TCTAAGATTGCATATTATA
1 TCTAAGATTGCATATCATA
127901213 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
127901231 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
127901248 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
127901267 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
127901285 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.22
19 37 0.54
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:127901254 original size:35 final size:37
Alignment explanation
Indices: 127901187--127901284 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
127901177 ATTATAAAAT
*
127901187 CATATC-T-TCTAAGATTGCATATTATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
127901223 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
127901258 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
127901285 TGAAGATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 21 0.38
36 19 0.34
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:127901912 original size:20 final size:20
Alignment explanation
Indices: 127901887--127901926 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
127901877 TAATTCTAGG
*
127901887 ATTTATTTTCATTTATCTTT
1 ATTTATTTGCATTTATCTTT
127901907 ATTTATTTGCATTTATCTTT
1 ATTTATTTGCATTTATCTTT
127901927 TAGAATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTATTTGCATTTATCTTT
Found at i:127902626 original size:17 final size:18
Alignment explanation
Indices: 127902604--127902639 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
127902594 GCCACATAAG
127902604 AAACTTTCTTTATT-TTC
1 AAACTTTCTTTATTCTTC
*
127902621 AAACTTTGTTTATTCTTC
1 AAACTTTCTTTATTCTTC
127902639 A
1 A
127902640 TTTTAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.25, C:0.17, G:0.03, T:0.56
Consensus pattern (18 bp):
AAACTTTCTTTATTCTTC
Found at i:127905544 original size:6 final size:6
Alignment explanation
Indices: 127905533--127905638 Score: 56
Period size: 6 Copynumber: 16.8 Consensus size: 6
127905523 CAACCCAATT
127905533 TTTTTA TTTTTA TTAATTTAA TTTAATTA -TTTTA -TTTTA TTTTAGTA
1 TTTTTA TTTTTA TT--TTT-A TTT--TTA TTTTTA TTTTTA TTTT--TA
* * * * * *
127905580 TTTATTA -TTTTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
1 TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
127905628 TTATTA TTTTT
1 TTTTTA TTTTT
127905639 TGGATGTTGA
Statistics
Matches: 88, Mismatches: 2, Indels: 20
0.80 0.02 0.18
Matches are distributed among these distances:
5 11 0.12
6 57 0.65
7 5 0.06
8 9 0.10
9 6 0.07
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (6 bp):
TTTTTA
Found at i:127905595 original size:3 final size:3
Alignment explanation
Indices: 127905558--127905635 Score: 110
Period size: 3 Copynumber: 27.0 Consensus size: 3
127905548 ATTTAATTTA
*
127905558 ATT ATT -TT ATT -TT ATT -TT AGT ATTT ATT ATT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
127905600 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
127905636 TTTTGGATGT
Statistics
Matches: 68, Mismatches: 2, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
2 8 0.12
3 58 0.85
4 2 0.03
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:127907223 original size:10 final size:10
Alignment explanation
Indices: 127907208--127907257 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
127907198 TAATTCTAGG
127907208 ATTTAT-TTT
1 ATTTATCTTT
127907217 CATTTATCTTT
1 -ATTTATCTTT
127907228 ATTTATCTTT
1 ATTTATCTTT
*
127907238 ATTTAT-TTGC
1 ATTTATCTT-T
127907248 ATTTATCTTT
1 ATTTATCTTT
127907258 TAGAATTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:127907956 original size:17 final size:18
Alignment explanation
Indices: 127907934--127907969 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
127907924 GCCACATAAG
127907934 AAACTTTCTTTATT-TTC
1 AAACTTTCTTTATTCTTC
*
127907951 AAACTTTGTTTATTCTTC
1 AAACTTTCTTTATTCTTC
127907969 A
1 A
127907970 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.25, C:0.17, G:0.03, T:0.56
Consensus pattern (18 bp):
AAACTTTCTTTATTCTTC
Found at i:127910034 original size:13 final size:13
Alignment explanation
Indices: 127910016--127910078 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
127910006 CACAGATACC
127910016 AAATTAGATAAAA
1 AAATTAGATAAAA
**
127910029 AAATTAGAT-ACC
1 AAATTAGATAAAA
*
127910041 AAATTAGAAAAAGAA
1 AAATTAG-ATAA-AA
*
127910056 AAAGTAGATAAAA
1 AAATTAGATAAAA
127910069 AAATTAGATA
1 AAATTAGATA
127910079 CCAAATTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 8 0.21
13 21 0.54
14 4 0.10
15 6 0.15
ACGTcount: A:0.65, C:0.03, G:0.11, T:0.21
Consensus pattern (13 bp):
AAATTAGATAAAA
Found at i:127910044 original size:12 final size:12
Alignment explanation
Indices: 127910009--127910048 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
127909999 AAAGTATCAC
127910009 AGATACCAAATT
1 AGATACCAAATT
**
127910021 AGATAAAAAAATT
1 AGAT-ACCAAATT
127910034 AGATACCAAATT
1 AGATACCAAATT
127910046 AGA
1 AGA
127910049 AAAAGAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (12 bp):
AGATACCAAATT
Found at i:127910067 original size:40 final size:40
Alignment explanation
Indices: 127910020--127910100 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
127910010 GATACCAAAT
127910020 TAGATAAAAAAATTAGATACCAAATTAGAAAAAGAAAAAG
1 TAGATAAAAAAATTAGATACCAAATTAGAAAAAGAAAAAG
127910060 TAGATAAAAAAATTAGATACCAAATTAGAAAAAGAAAAAG
1 TAGATAAAAAAATTAGATACCAAATTAGAAAAAGAAAAAG
127910100 T
1 T
127910101 GTTAAGTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.64, C:0.05, G:0.12, T:0.19
Consensus pattern (40 bp):
TAGATAAAAAAATTAGATACCAAATTAGAAAAAGAAAAAG
Found at i:127910195 original size:23 final size:23
Alignment explanation
Indices: 127910150--127910198 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
127910140 ACTAATTAGA
* * * *
127910150 AAAAAAGTATCAATTTTTTTACC
1 AAAAAAGTATAAATCTATATACC
127910173 AAAAAAGTATAAATCTATATACC
1 AAAAAAGTATAAATCTATATACC
127910196 AAA
1 AAA
127910199 TATTATATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (23 bp):
AAAAAAGTATAAATCTATATACC
Found at i:127910885 original size:3 final size:3
Alignment explanation
Indices: 127910877--127910913 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
127910867 TGTATAAAGC
127910877 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
127910914 AATGAGTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:127915894 original size:26 final size:26
Alignment explanation
Indices: 127915858--127915941 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
127915848 CATGAAATTC
127915858 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
127915884 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
127915910 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
127915936 TTATCA
1 TTATCA
127915942 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:127918598 original size:3 final size:3
Alignment explanation
Indices: 127918590--127918654 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
127918580 AGATATTAAC
127918590 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
127918638 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
127918655 TATCAACTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:127918885 original size:17 final size:16
Alignment explanation
Indices: 127918845--127918886 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
127918835 AAAAGAAACG
*
127918845 AAATAAAAAGAAAGAA
1 AAATGAAAAGAAAGAA
127918861 AGAA-GAAAAGAAAAGAA
1 A-AATGAAAAG-AAAGAA
127918878 AAATGAAAA
1 AAATGAAAA
127918887 ATTAGGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.05
Consensus pattern (16 bp):
AAATGAAAAGAAAGAA
Found at i:127921595 original size:26 final size:26
Alignment explanation
Indices: 127921559--127921617 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
127921549 ACATGAATTC
127921559 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
127921585 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
127921611 TTATCAT
1 TTATCAT
127921618 CATACCTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:127921625 original size:20 final size:19
Alignment explanation
Indices: 127921600--127921654 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
127921590 ATGAAACATT
127921600 TACCTAACCCATTATCATCA
1 TACCTAACCCATTATCAT-A
* *
127921620 TACCTAACCTATTA-CATT
1 TACCTAACCCATTATCATA
127921638 TACCTAA-CCATTATCAT
1 TACCTAACCCATTATCAT
127921655 GGAACATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 5 0.16
18 10 0.32
19 3 0.10
20 13 0.42
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (19 bp):
TACCTAACCCATTATCATA
Found at i:127925369 original size:25 final size:26
Alignment explanation
Indices: 127925332--127925383 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
127925322 TCAAACATGC
127925332 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
127925358 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
127925383 A
1 A
127925384 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:127926913 original size:26 final size:26
Alignment explanation
Indices: 127926855--127926989 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
127926845 ACATGATTTC
127926855 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
127926880 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
127926906 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
127926932 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
127926958 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
127926984 TTATCA
1 TTATCA
127926990 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 22 0.21
26 81 0.79
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:127926953 original size:52 final size:52
Alignment explanation
Indices: 127926855--127926989 Score: 254
Period size: 52 Copynumber: 2.6 Consensus size: 52
127926845 ACATGATTTC
*
127926855 TTATCATGAAACATTTACCTAACC-ATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
127926906 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
127926958 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
127926990 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
51 23 0.28
52 59 0.72
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:127932717 original size:26 final size:26
Alignment explanation
Indices: 127932681--127932815 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
127932671 ACATGAATTC
127932681 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
127932707 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
127932733 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
127932759 TTATCATGAAATATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
127932784 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
127932810 TTATCA
1 TTATCA
127932816 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 22 0.22
26 78 0.78
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:127938547 original size:26 final size:26
Alignment explanation
Indices: 127938511--127938645 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
127938501 ACATGAATTC
127938511 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
127938537 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
127938563 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
127938589 TTATCATG-AACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
127938614 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
127938640 TTATCA
1 TTATCA
127938646 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:127938622 original size:51 final size:52
Alignment explanation
Indices: 127938511--127938645 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
127938501 ACATGAATTC
* *
127938511 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
127938563 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
127938614 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
127938646 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 49 0.60
52 32 0.40
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:127939139 original size:22 final size:22
Alignment explanation
Indices: 127939114--127939156 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
127939104 AACTAATAAT
127939114 GAAATTATGAGTTT-AATTGATA
1 GAAATTATGA-TTTGAATTGATA
*
127939136 GAAATTTTGATTTGAATTGAT
1 GAAATTATGATTTGAATTGAT
127939157 TAAAGGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (22 bp):
GAAATTATGATTTGAATTGATA
Found at i:127941068 original size:5 final size:5
Alignment explanation
Indices: 127941058--127941113 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
127941048 TTACTTATTT
* *
127941058 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
127941106 ATATA ATA
1 ATATA ATA
127941114 ACAATTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 33 0.75
6 7 0.16
7 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:127941074 original size:12 final size:12
Alignment explanation
Indices: 127941057--127941110 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
127941047 TTTACTTATT
127941057 TATATAATATAA
1 TATATAATATAA
127941069 TATATAATATAATA
1 TATATAATAT-A-A
127941083 TACTATAATATAA
1 TA-TATAATATAA
*
127941096 TA-ATAATATCA
1 TATATAATATAA
127941107 TATA
1 TATA
127941111 ATAACAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.27
12 11 0.30
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATATAA
Found at i:127941245 original size:21 final size:22
Alignment explanation
Indices: 127941206--127941256 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
127941196 CATACAATTG
*
127941206 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
127941228 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
127941248 ATAAAATAA
1 TTAAAATAA
127941257 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:127945739 original size:5 final size:5
Alignment explanation
Indices: 127945729--127945784 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
127945719 TTACTTATTT
* *
127945729 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
127945777 ATATA ATA
1 ATATA ATA
127945785 ACAATTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 33 0.75
6 7 0.16
7 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:127945745 original size:12 final size:12
Alignment explanation
Indices: 127945728--127945781 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
127945718 TTTACTTATT
127945728 TATATAATATAA
1 TATATAATATAA
127945740 TATATAATATAATA
1 TATATAATAT-A-A
127945754 TACTATAATATAA
1 TA-TATAATATAA
*
127945767 TA-ATAATATCA
1 TATATAATATAA
127945778 TATA
1 TATA
127945782 ATAACAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.27
12 11 0.30
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATATAA
Found at i:127945916 original size:21 final size:22
Alignment explanation
Indices: 127945877--127945927 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
127945867 CATACAATTG
*
127945877 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
127945899 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
127945919 ATAAAATAA
1 TTAAAATAA
127945928 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Done.