Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 209 of 276
Found at i:69337491 original size:48 final size:48
Alignment explanation
Indices: 69337420--69337721 Score: 595
Period size: 48 Copynumber: 6.3 Consensus size: 48
69337410 GGTAGGAAGC
*
69337420 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
1 CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
69337468 CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
1 CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
69337516 CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
1 CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
69337564 CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
1 CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
69337612 CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
1 CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
69337660 CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
1 CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
69337708 CGATGCTATGTCCC
1 CGATGCTATGTCCC
69337722 TTGACTATCA
Statistics
Matches: 253, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 253 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
CGATGCTATGTCCCAAACATGGTCTTACACTAGCTCACGTATCAAAGA
Found at i:69337813 original size:50 final size:50
Alignment explanation
Indices: 69337736--69337831 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
69337726 CTATCATGTA
* * *
69337736 TCGAGGCCGACGCCATGTCCTAGACATGGTCTTGCACTAGCTCTCGTATG
1 TCGAGGCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTATG
* *
69337786 TCGAGGCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCG
1 TCGAGGCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCG
69337832 AATAACCCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TCGAGGCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTATG
Found at i:69340875 original size:15 final size:15
Alignment explanation
Indices: 69340855--69340894 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
69340845 TTTGAATCGC
69340855 TTCAGGTTCAGGTCA
1 TTCAGGTTCAGGTCA
*
69340870 TTCAGGTT-GGGTCA
1 TTCAGGTTCAGGTCA
69340884 TCTCAGGTTCA
1 T-TCAGGTTCA
69340895 AATATCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (15 bp):
TTCAGGTTCAGGTCA
Found at i:69344938 original size:20 final size:21
Alignment explanation
Indices: 69344896--69344940 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
69344886 AGCCCAAAAT
*
69344896 ATTTTAATGTCGAAAATTTTG
1 ATTTTAATGTCGAAAATTATG
69344917 ATTTT-ATGTC-AAAATTGATG
1 ATTTTAATGTCGAAAATT-ATG
69344937 ATTT
1 ATTT
69344941 GAGTCCTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 11 0.50
21 5 0.23
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (21 bp):
ATTTTAATGTCGAAAATTATG
Found at i:69354601 original size:66 final size:66
Alignment explanation
Indices: 69354523--69354649 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
69354513 AATTAATTTC
*
69354523 ATAATTAATTTTGATGAATTTTGGTTATTTTCGACAGATTTGCACAAAGGGAGAAAAATGGTTCA
1 ATAATTAATTTTGATGAATTTTGGTTATTTTCGACAAATTTGCACAAAGGGAGAAAAATGGTTCA
69354588 T
66 T
* *
69354589 ATAATTAATTTTGATGAATTTTGGTTATTTTTGACAAATTTGCACAAAGGGCGAAAAATGG
1 ATAATTAATTTTGATGAATTTTGGTTATTTTCGACAAATTTGCACAAAGGGAGAAAAATGG
69354650 CTCGGCAGAC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (66 bp):
ATAATTAATTTTGATGAATTTTGGTTATTTTCGACAAATTTGCACAAAGGGAGAAAAATGGTTCA
T
Found at i:69354774 original size:22 final size:22
Alignment explanation
Indices: 69354748--69354789 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
69354738 ATATGTATTT
69354748 ATTTATAATATAA-TTAATTTTA
1 ATTTAT-ATATAATTTAATTTTA
*
69354770 ATTTATATCTAATTTAATTT
1 ATTTATATATAATTTAATTT
69354790 GGGTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTATATATAATTTAATTTTA
Found at i:69357468 original size:27 final size:26
Alignment explanation
Indices: 69357408--69357469 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
69357398 AGAAGACTCT
69357408 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
69357434 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
69357462 ATTTTATT
1 ATTTTATT
69357470 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:69363829 original size:5 final size:6
Alignment explanation
Indices: 69363814--69363893 Score: 62
Period size: 6 Copynumber: 13.7 Consensus size: 6
69363804 CCAATCTTTC
** * *
69363814 TTTTTA TTTTTA TTTTTA TTTATTA -TTTT- CCTTTC TTTTTA CTTATTA
1 TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA -TTTTTA
69363862 TTTATTA -TTTTA -TTTTA TTTTTA -TTTTA TTTT
1 TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
69363894 AGTTAAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
5 18 0.30
6 32 0.52
7 11 0.18
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:69363883 original size:30 final size:28
Alignment explanation
Indices: 69363815--69363892 Score: 102
Period size: 30 Copynumber: 2.7 Consensus size: 28
69363805 CAATCTTTCT
*
69363815 TTTTATTTTTATTTTTATTTATTATTTTC
1 TTTTATTTTTA-TTTTATTTATTATTTTA
* *
69363844 CTTTCTTTTTACTTATTATTTATTATTTTA
1 TTTTATTTTTA-TT-TTATTTATTATTTTA
69363874 TTTTATTTTTATTTTATTT
1 TTTTATTTTTATTTTATTT
69363893 TAGTTAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 6 0.14
29 13 0.31
30 23 0.55
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTATTTTTATTTTATTTATTATTTTA
Found at i:69365219 original size:8 final size:8
Alignment explanation
Indices: 69365208--69365245 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
69365198 ATAAAATTTA
69365208 AAAAAAAG
1 AAAAAAAG
69365216 AAAAAAAG
1 AAAAAAAG
69365224 AAAAAAA-
1 AAAAAAAG
*
69365231 AAAAGAA-
1 AAAAAAAG
69365238 AAAAAAAG
1 AAAAAAAG
69365246 TACTAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 12 0.44
8 15 0.56
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:69365231 original size:12 final size:12
Alignment explanation
Indices: 69365207--69365244 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
69365197 AATAAAATTT
*
69365207 AAAAA-AAAGAA
1 AAAAAGAAAAAA
69365218 AAAAAGAAAAAA
1 AAAAAGAAAAAA
69365230 AAAAAGAAAAAA
1 AAAAAGAAAAAA
69365242 AAA
1 AAA
69365245 GTACTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:69370740 original size:28 final size:28
Alignment explanation
Indices: 69370700--69370778 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
69370690 GCAATCAAAT
* * *
69370700 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
**
69370728 ATGGCACTTAGTGTGCGAGGTATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
69370756 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
69370779 CGAATGATTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:69374950 original size:17 final size:17
Alignment explanation
Indices: 69374928--69374963 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
69374918 TAAAGTTTCA
69374928 TAGCTAATAGATACTTC
1 TAGCTAATAGATACTTC
69374945 TAGCTAATAGATACTTC
1 TAGCTAATAGATACTTC
69374962 TA
1 TA
69374964 ACTACTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (17 bp):
TAGCTAATAGATACTTC
Found at i:69374972 original size:17 final size:17
Alignment explanation
Indices: 69374931--69374972 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
69374921 AGTTTCATAG
*
69374931 CTAATAGATACTTCTAG
1 CTAATAGATACTTCTAA
69374948 CTAATAGATACTTCTAA
1 CTAATAGATACTTCTAA
*
69374965 CTACTAGA
1 CTAATAGA
69374973 ACTCCACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (17 bp):
CTAATAGATACTTCTAA
Found at i:69375485 original size:38 final size:38
Alignment explanation
Indices: 69375443--69375518 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
69375433 CGTCATAACA
69375443 TAGATACGTGAAATACATTGTGAATCTTTTCTAACTCT
1 TAGATACGTGAAATACATTGTGAATCTTTTCTAACTCT
69375481 TAGATACGTGAAATACATTGTGAATCTTTTCTAACTCT
1 TAGATACGTGAAATACATTGTGAATCTTTTCTAACTCT
69375519 AACGACAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (38 bp):
TAGATACGTGAAATACATTGTGAATCTTTTCTAACTCT
Found at i:69376702 original size:20 final size:20
Alignment explanation
Indices: 69376677--69376716 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
69376667 ATAAACATCA
69376677 GTCTAGCTTTCAACTCAGCG
1 GTCTAGCTTTCAACTCAGCG
*
69376697 GTCTAGCTTTCAATTCAGCG
1 GTCTAGCTTTCAACTCAGCG
69376717 AACCACCATT
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:0.28, G:0.20, T:0.33
Consensus pattern (20 bp):
GTCTAGCTTTCAACTCAGCG
Found at i:69379356 original size:13 final size:14
Alignment explanation
Indices: 69379335--69379367 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
69379325 GTTATTAATG
69379335 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
69379349 AAATTATTAAATAT
1 AAATTATTAAATAT
69379363 AAATT
1 AAATT
69379368 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:69382032 original size:42 final size:43
Alignment explanation
Indices: 69381927--69382045 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 43
69381917 CTGAGATATC
* *
69381927 GTGTAAGACCGTGTCTGGGACATAGGCCTCGATTTGAGATTTAT
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATTT-AGATTTAT
* *
69381971 GTGTAAGACCATGTTTGGGACATAGGCATTGTATTT-GATTT-T
1 GTGTAAGACCATGTCTGGGACATAGGCATCG-ATTTAGATTTAT
* * *
69382013 GTGTAAGACCCTGTCTGGGATAGAGGCATCGAT
1 GTGTAAGACCATGTCTGGGACATAGGCATCGAT
69382046 ACTAAATTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 2 0.03
42 27 0.42
43 5 0.08
44 27 0.42
45 4 0.06
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATAGGCATCGATTTAGATTTAT
Found at i:69388723 original size:25 final size:25
Alignment explanation
Indices: 69388695--69388742 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
69388685 TTATATTATG
* * *
69388695 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
69388720 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
69388743 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:69388803 original size:20 final size:20
Alignment explanation
Indices: 69388778--69388824 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
69388768 GTTTTGATAT
69388778 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
69388798 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
69388818 ACATGAT
1 ACATGAT
69388825 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:69388947 original size:23 final size:25
Alignment explanation
Indices: 69388897--69388951 Score: 87
Period size: 23 Copynumber: 2.3 Consensus size: 25
69388887 TAGTTTACCG
*
69388897 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGAGCTTTTGCCCCAGTTTATT
69388922 AAAAGAGC-TTTGCCCCAG-TTATT
1 AAAAGAGCTTTTGCCCCAGTTTATT
69388945 AAAAGAG
1 AAAAGAG
69388952 GCTAGGCCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 12 0.41
24 10 0.34
25 7 0.24
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (25 bp):
AAAAGAGCTTTTGCCCCAGTTTATT
Found at i:69395517 original size:34 final size:34
Alignment explanation
Indices: 69395474--69395585 Score: 97
Period size: 34 Copynumber: 3.3 Consensus size: 34
69395464 TGCATGGATT
*
69395474 AAGGAGGGATAAGGGGAGAGATTTTAAGGATTTTA
1 AAGG-GGGATAAGGGGAGAGATTTTAGGGATTTTA
* * *
69395509 AAGGGGGAT-AGGGTTAGCTGATTTGAGGGGA--TTA
1 AAGGGGGATAAGGG-GAG-AGATTTTA-GGGATTTTA
* * *
69395543 GA-GAGGATAAGGGGAGAGATTTTAGGGATTTGA
1 AAGGGGGATAAGGGGAGAGATTTTAGGGATTTTA
69395576 AAGGGGGATA
1 AAGGGGGATA
69395586 GGGTTAGCCG
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
31 4 0.07
32 6 0.10
33 14 0.24
34 21 0.36
35 10 0.17
36 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.42, T:0.24
Consensus pattern (34 bp):
AAGGGGGATAAGGGGAGAGATTTTAGGGATTTTA
Found at i:69395588 original size:67 final size:67
Alignment explanation
Indices: 69395480--69395615 Score: 245
Period size: 67 Copynumber: 2.0 Consensus size: 67
69395470 GATTAAGGAG
* *
69395480 GGATAAGGGGAGAGATTTTAAGGATTTTAAAGGGGGATAGGGTTAGCTGATTTGAGGGGATTAGA
1 GGATAAGGGGAGAGATTTTAAGGATTTGAAAGGGGGATAGGGTTAGCCGATTTGAGGGGATTAGA
69395545 GA
66 GA
*
69395547 GGATAAGGGGAGAGATTTTAGGGATTTGAAAGGGGGATAGGGTTAGCCGATTTGAGGGGATTAGA
1 GGATAAGGGGAGAGATTTTAAGGATTTGAAAGGGGGATAGGGTTAGCCGATTTGAGGGGATTAGA
69395612 GA
66 GA
69395614 GG
1 GG
69395616 GGATTTCGGC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.30, C:0.02, G:0.43, T:0.25
Consensus pattern (67 bp):
GGATAAGGGGAGAGATTTTAAGGATTTGAAAGGGGGATAGGGTTAGCCGATTTGAGGGGATTAGA
GA
Found at i:69395618 original size:35 final size:35
Alignment explanation
Indices: 69395512--69395619 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
69395502 GATTTTAAAG
*
69395512 GGGGATAGGGTTAGCTGATTTGAGGGGATTAGAGA
1 GGGGATAGGGTTAGCAGATTTGAGGGGATTAGAGA
* * * *
69395547 --GGATAAGGG-GAG-AGATTTTA-GGGATTTGAAA
1 GGGGAT-AGGGTTAGCAGATTTGAGGGGATTAGAGA
*
69395578 GGGGGATAGGGTTAGCCGATTTGAGGGGATTAGAGA
1 -GGGGATAGGGTTAGCAGATTTGAGGGGATTAGAGA
69395614 GGGGAT
1 GGGGAT
69395620 TTCGGCAGAG
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
31 9 0.16
32 6 0.11
33 10 0.18
34 10 0.18
35 12 0.21
36 9 0.16
ACGTcount: A:0.28, C:0.03, G:0.45, T:0.24
Consensus pattern (35 bp):
GGGGATAGGGTTAGCAGATTTGAGGGGATTAGAGA
Found at i:69396009 original size:73 final size:73
Alignment explanation
Indices: 69395888--69396033 Score: 256
Period size: 73 Copynumber: 2.0 Consensus size: 73
69395878 GTTGTCGAAA
* * *
69395888 TCTTGTTGACCAGTAACCCTTTGTTTTCTTTCACTTTTTGGTGCCCAATCCCTTTATTTTTTAAG
1 TCTTGTTGACCACTAACCCTCTGTTTTCTTTCACTTTTTGGTGCCCAATCCCTTTAATTTTTAAG
69395953 CTTCACAC
66 CTTCACAC
*
69395961 TCTTGTTGACCACTAACCCTCTGTTTTCTTTCACTTTTTGGTGGCCAATCCCTTTAATTTTTAAG
1 TCTTGTTGACCACTAACCCTCTGTTTTCTTTCACTTTTTGGTGCCCAATCCCTTTAATTTTTAAG
69396026 CTTCACAC
66 CTTCACAC
69396034 GGATTCAAGA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.17, C:0.27, G:0.11, T:0.45
Consensus pattern (73 bp):
TCTTGTTGACCACTAACCCTCTGTTTTCTTTCACTTTTTGGTGCCCAATCCCTTTAATTTTTAAG
CTTCACAC
Found at i:69397288 original size:46 final size:47
Alignment explanation
Indices: 69397182--69397297 Score: 137
Period size: 50 Copynumber: 2.4 Consensus size: 47
69397172 TGTCTTCGAC
** * *
69397182 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
*
69397232 ATAGG-CTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 AT-GGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
69397278 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
69397298 TATGTCCTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
45 2 0.03
46 27 0.46
50 28 0.47
51 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:69397352 original size:66 final size:65
Alignment explanation
Indices: 69397269--69397400 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 65
69397259 CCAAAGCCAT
69397269 ATATCTGATATGGACTTACATGGCTCATTTATGTCCTGTCCTGTCCTGTCAACCCCAATATCCTA
1 ATATCTGATATGGACTTACATGGCTCATTTATGTCCTGTCCTGTCCTGTCAACCCCAATATCCTA
* *
69397334 ANTATCTGATATGGACTTACATGGCTCATTTTTGTCCTGTCCTGTCCTGTTAACCCCAATATCCT
1 A-TATCTGATATGGACTTACATGGCTCATTTATGTCCTGTCCTGTCCTGTCAACCCCAATATCCT
69397399 A
65 A
69397400 A
1 A
69397401 CAATCCTAAG
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 1 0.02
66 63 0.98
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (65 bp):
ATATCTGATATGGACTTACATGGCTCATTTATGTCCTGTCCTGTCCTGTCAACCCCAATATCCTA
Found at i:69399547 original size:20 final size:20
Alignment explanation
Indices: 69399522--69399566 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
69399512 GTTTTGATAT
69399522 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
69399542 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
69399562 ACATG
1 ACATG
69399567 TTGTATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:69399655 original size:26 final size:25
Alignment explanation
Indices: 69399614--69399685 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
69399604 GGAGGAAGTG
*
69399614 CAAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
*
69399639 CAAAAAGGGCTTTTGCCCCAGTTTAT
1 CAAAAAGGGC-TTTGCCCCAGTTTAC
*
69399665 C-AAAAGGGCTTTACCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
69399686 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 11 0.26
25 18 0.42
26 14 0.33
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:69399698 original size:24 final size:24
Alignment explanation
Indices: 69399616--69399698 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
69399606 AGGAAGTGCA
* * *
69399616 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTACCCCAGTTTATC
*
69399640 AAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGC-TTTACCCCAGTTTATC
*
69399666 AAAAGGGCTTTACCCCAG-TTATT
1 AAAAGGGCTTTACCCCAGTTTATC
69399689 AAAAGAGGCT
1 AAAAG-GGCT
69399699 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 9 0.17
24 13 0.25
25 16 0.31
26 14 0.27
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTACCCCAGTTTATC
Found at i:69399945 original size:31 final size:31
Alignment explanation
Indices: 69399907--69399993 Score: 111
Period size: 38 Copynumber: 2.6 Consensus size: 31
69399897 CATTTACAGT
69399907 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
69399938 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCA--G---T--AATATGAAATATGA
69399976 AAAGGCTTCGGCCCAGTA
1 AAAGGCTTCGGCCCAGTA
69399994 TACGCTGAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
31 16 0.33
33 2 0.04
36 2 0.04
38 29 0.59
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:69406816 original size:15 final size:15
Alignment explanation
Indices: 69406773--69406816 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
69406763 GTGTTGTAAA
69406773 TTGGATTTCCTTATC
1 TTGGATTTCCTTATC
* * **
69406788 ATGGTTTTTTTTATC
1 TTGGATTTCCTTATC
69406803 TTGGATTTCCTTAT
1 TTGGATTTCCTTAT
69406817 TCTGGGCTTC
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TTGGATTTCCTTATC
Found at i:69413356 original size:44 final size:44
Alignment explanation
Indices: 69413291--69413417 Score: 145
Period size: 44 Copynumber: 2.9 Consensus size: 44
69413281 GTTGACATTA
* *
69413291 ATCTGAGATATCGTGTAAGACCGTGTCTGGGACACAGGCCTCG-
1 ATCTGAGATTTCGTGTAAGACCGTGTCTGGGACACAGGCATCGT
* *
69413334 ATTTGAGATTTACGTGTAAGACCAG-GTCTGGGACATAGGCATCGT
1 ATCTGAGATTT-CGTGTAAGACC-GTGTCTGGGACACAGGCATCGT
* * *
69413379 ATCT--GATTTCATGTAAGACCCTGTCTGGGACAGAGGCAT
1 ATCTGAGATTTCGTGTAAGACCGTGTCTGGGACACAGGCAT
69413418 TGATACTAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 26 0.36
43 14 0.19
44 28 0.39
45 4 0.06
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (44 bp):
ATCTGAGATTTCGTGTAAGACCGTGTCTGGGACACAGGCATCGT
Found at i:69413405 original size:42 final size:43
Alignment explanation
Indices: 69413304--69413417 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
69413294 TGAGATATCG
* * * *
69413304 TGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGATCT-AGATTTACA
* *
69413348 TGTAAGACCAGGTCTGGGACATAGGCATCGTATCT-GATTT-CA
1 TGTAAGACCATGTCTGGGACACAGGCATCG-ATCTAGATTTACA
* *
69413390 TGTAAGACCCTGTCTGGGACAGAGGCAT
1 TGTAAGACCATGTCTGGGACACAGGCAT
69413418 TGATACTAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 26 0.43
43 5 0.08
44 26 0.43
45 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATCTAGATTTACA
Found at i:69419913 original size:43 final size:42
Alignment explanation
Indices: 69419817--69419922 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
69419807 GACTTATGAT
**
69419817 TTACATGTAAGACCATGTCTAGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCATGTCTAGGACAGAGGCATCGTATTTGA
*** * *
69419859 TTTTGTGTAAGACCCTGTCTGGGACAGAGGCATCGGTATTTGA
1 TTACATGTAAGACCATGTCTAGGACAGAGGCATC-GTATTTGA
* *
69419902 TTACATCTAAGACCACGTCTA
1 TTACATGTAAGACCATGTCTA
69419923 AGACGTTGGC
Statistics
Matches: 49, Mismatches: 14, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
42 27 0.55
43 22 0.45
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTAGGACAGAGGCATCGTATTTGA
Found at i:69419934 original size:43 final size:42
Alignment explanation
Indices: 69419776--69419934 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 42
69419766 ACTGTGTTAT
* * * * *
69419776 CATGTAAGACCACATCTGGGACATTGGCGTTG-ACTTATGATTTA
1 CATGTAAGACCACGTCTAGGACGTTGGCATCGTA-TT-TGA-TTA
* * *
69419820 CATGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTT
1 CATGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGATTA
** * *
69419862 TGTGTAAGACC-CTGTCTGGGACAG-AGGCATCGGTATTTGATTA
1 CATGTAAGACCAC-GTCTAGGAC-GTTGGCATC-GTATTTGATTA
* *
69419905 CATCTAAGACCACGTCTAAGACGTTGGCAT
1 CATGTAAGACCACGTCTAGGACGTTGGCAT
69419935 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
42 26 0.29
43 33 0.37
44 30 0.33
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGATTA
Found at i:69441450 original size:46 final size:46
Alignment explanation
Indices: 69441393--69441608 Score: 230
Period size: 46 Copynumber: 4.7 Consensus size: 46
69441383 GCTGTTATGT
* *
69441393 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGACATTAAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTAAGATGA
* * **
69441439 GAGCTAGTGTAAGACAGGTCTGGGACATGCATCGACCTCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTAAGATG-A
* *
69441486 -AGCCAGTGTAAGACATGTCTGGGACATGCATCG--GTTAAGA-GA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTAAGATGA
* *
69441528 TGTGCTAGTGTAAGACATGTC-GAGGACATGCATCAGCACGGA-T-ATATGA
1 -GAGCTAGTGTAAGACATGTCTG-GGACATGCATC-G-AC--ATTAAGATGA
69441577 GAGCTAGTGTAAGACATGTCTGGGACATGCAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAT
69441609 TGGCACGGAT
Statistics
Matches: 142, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 32 0.23
45 1 0.01
46 70 0.49
47 1 0.01
48 31 0.22
49 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTAAGATGA
Found at i:69441586 original size:92 final size:93
Alignment explanation
Indices: 69441388--69441608 Score: 274
Period size: 92 Copynumber: 2.4 Consensus size: 93
69441378 ACATTGCTGT
* *
69441388 TATGTGAGCCAGTGTAAGACATGTTTGGGACATGCATCGACATTAAGATGAGAGCTAGTGTAAGA
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGA-ATTAAGATGAGAGCTAGTGTAAGA
*
69441453 CAGGTCTGGGACATGCATCGACCTCGAGA
65 CAGGTCTGGGACATGCATCGACCACGAGA
* * *
69441482 TGT-A-AGCCAGTGTAAGACATGTCTGGGACATGCATCG-GTTAAGA-GATGTGCTAGTGTAAGA
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGAATTAAGATGA-GAGCTAGTGTAAGA
* * *
69441543 CATGTC-GAGGACATGCATC-AGCACGGATA
65 CAGGTCTG-GGACATGCATCGACCAC-GAGA
*
69441572 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCAT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCAT
69441609 TGGCACGGAT
Statistics
Matches: 111, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
89 6 0.05
90 40 0.36
91 1 0.01
92 62 0.56
94 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (93 bp):
TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGAATTAAGATGAGAGCTAGTGTAAGAC
AGGTCTGGGACATGCATCGACCACGAGA
Found at i:69441592 original size:48 final size:48
Alignment explanation
Indices: 69441388--69441639 Score: 201
Period size: 46 Copynumber: 5.4 Consensus size: 48
69441378 ACATTGCTGT
* * *
69441388 TATGTGAGCCAGTGTAAGACATGTTTGGGACATGCATC-G-AC--ATTAA
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGGA-T-A
* * * * *
69441434 GATGAGAGCTAGTGTAAGACAGGTCTGGGACATGCATCGACCTC-GAGA
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATC-AGCACGGATA
* *
69441482 TGT-A-AGCCAGTGTAAGACATGTCTGGGACATGCAT-----CGG-T-
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGGATA
*
69441521 TAAGAGATGTGCTAGTGTAAGACATGTC-GAGGACATGCATCAGCACGGATA
1 TATGAGA---GCTAGTGTAAGACATGTCTG-GGACATGCATCAGCACGGATA
**
69441572 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCACGGATA
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGGATA
* *
69441620 TATGAGAGCCAATGTAAGAC
1 TATGAGAGCTAGTGTAAGAC
69441640 CATATCTAGG
Statistics
Matches: 166, Mismatches: 21, Indels: 36
0.74 0.09 0.16
Matches are distributed among these distances:
39 1 0.01
40 2 0.01
41 2 0.01
43 1 0.01
44 27 0.16
46 62 0.37
47 1 0.01
48 57 0.34
49 5 0.03
50 2 0.01
51 6 0.04
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGGATA
Found at i:69449943 original size:24 final size:24
Alignment explanation
Indices: 69449916--69449992 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
69449906 AGTGATTTGT
* *
69449916 GGAGAGAATCATGGAGAGGATTGG
1 GGAGAGAATCAAGGAGAGGATTAG
* *
69449940 GGAGAAAATCAAGGAGAGGATTAT
1 GGAGAGAATCAAGGAGAGGATTAG
* **
69449964 GGAGAGATTGTAGGAGAGGATTAAG
1 GGAGAGAATCAAGGAGAGGATT-AG
69449989 GGAG
1 GGAG
69449993 TTTGAGGGGG
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 38 0.88
25 5 0.12
ACGTcount: A:0.38, C:0.03, G:0.43, T:0.17
Consensus pattern (24 bp):
GGAGAGAATCAAGGAGAGGATTAG
Found at i:69453552 original size:64 final size:64
Alignment explanation
Indices: 69453471--69453651 Score: 172
Period size: 67 Copynumber: 2.8 Consensus size: 64
69453461 AGACATTATG
* *
69453471 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
69453535 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTATGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
69453599 TAA
62 TAA
* * * *
69453602 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAG
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAG
69453652 GGCCGAACTA
Statistics
Matches: 94, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
62 1 0.01
63 16 0.17
64 23 0.24
65 4 0.04
66 18 0.19
67 32 0.34
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:69457995 original size:27 final size:27
Alignment explanation
Indices: 69457964--69458141 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
69457954 TAAATTGTAC
69457964 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
69457991 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69458017 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
69458045 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
69458073 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69458100 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69458127 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69458142 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:69458078 original size:82 final size:81
Alignment explanation
Indices: 69457965--69458120 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
69457955 AAATTGTACA
*
69457965 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
69458029 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
69458046 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
69458111 TGCGAGTTGA
65 TGCGAATTGA
69458121 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:69458132 original size:82 final size:81
Alignment explanation
Indices: 69457961--69458141 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
69457951 GATTAAATTG
*
69457961 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
69458026 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
69458042 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
69458106 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
69458124 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
69458142 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:69465208 original size:47 final size:46
Alignment explanation
Indices: 69465098--69465269 Score: 133
Period size: 47 Copynumber: 3.7 Consensus size: 46
69465088 ACTTGTGTGA
* * *
69465098 GCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCACCTTATGA-A-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCA--TTAAGAGAGT
* * *
69465144 GCCAATGTTAGACCATGTCTGGGACATAGCATCGGCATTAAGACGAGT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTAAGA-GAGT
* * *
69465192 GCTAGTGTAAGA-CATGTTTGGGACATGCATTGGC--TACGAGAGGT
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTAAGAGA-GT
*
69465236 G-TCAGTGTAAGACCATGTCTGGGATATGGCATCG
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCG
69465270 ACACAGATAT
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 3 0.03
44 16 0.16
45 17 0.17
46 21 0.21
47 31 0.30
48 14 0.14
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTAAGAGAGT
Found at i:69469548 original size:46 final size:46
Alignment explanation
Indices: 69469393--69469614 Score: 173
Period size: 46 Copynumber: 4.8 Consensus size: 46
69469383 TCACTTGTGT
* * * *** *
69469393 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACCTTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACGA
* * * * *
69469439 GAGCCAATGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGACGA
* * * *
69469487 GTGCTAGTCTAAGACATGTCTGGGACATGCTTCGACCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACG-A
* * *
69469534 -AGCCAGTGTAAGACATATATAGGACATGCATCGA-CTACGAGA--A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGACGA
* *
69469577 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
69469615 ACAGATATGC
Statistics
Matches: 137, Mismatches: 31, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
43 1 0.01
44 11 0.08
45 13 0.09
46 64 0.47
47 27 0.20
48 21 0.15
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACGA
Found at i:69475392 original size:38 final size:38
Alignment explanation
Indices: 69475333--69475459 Score: 159
Period size: 38 Copynumber: 3.3 Consensus size: 38
69475323 AACCGTACTA
69475333 TTATTCAGGCTTAGTGCCTAGCAGGCTTAATGTCGATG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAATGTCGATG
* * *
69475371 TTCTTCTA-GCTTAGTGCCTAGCAGGCTTAGTGTCGGTG
1 TTATTC-AGGCTTAGTGCCTAGCAGGCTTAATGTCGATG
** * *
69475409 TTATTCAGGCTTAGTGTTTAGTAGGCTTACTG-CTGATG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAATGTC-GATG
69475447 TTATTCAGGCTTA
1 TTATTCAGGCTTA
69475460 TTGTCAGTGA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
37 2 0.03
38 74 0.96
39 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (38 bp):
TTATTCAGGCTTAGTGCCTAGCAGGCTTAATGTCGATG
Found at i:69475900 original size:15 final size:15
Alignment explanation
Indices: 69475880--69475909 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69475870 TAGTCATTTG
*
69475880 TAATGTTTTGGTATA
1 TAATGTTTTAGTATA
69475895 TAATGTTTTAGTATA
1 TAATGTTTTAGTATA
69475910 ATTGTGGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (15 bp):
TAATGTTTTAGTATA
Found at i:69477740 original size:39 final size:39
Alignment explanation
Indices: 69477697--69477808 Score: 143
Period size: 39 Copynumber: 2.9 Consensus size: 39
69477687 ATTCACTTTT
* * *
69477697 AAGCATATAACATATTACACATATAATCACATAACATTC
1 AAGCATATAACACAATACACATATAATCACATAACATCC
**
69477736 AAGCATATGTCACAATACACATATAATCACATAACATCC
1 AAGCATATAACACAATACACATATAATCACATAACATCC
* ** *
69477775 AAGCATATATCACAATATTCATATAATAACATAA
1 AAGCATATAACACAATACACATATAATCACATAA
69477809 TGTAACACCC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.27
Consensus pattern (39 bp):
AAGCATATAACACAATACACATATAATCACATAACATCC
Found at i:69479648 original size:11 final size:11
Alignment explanation
Indices: 69479619--69479667 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
69479609 GATTTTGATA
*
69479619 TACATGATTTG
1 TACATGATATG
*
69479630 -ATATGATATG
1 TACATGATATG
69479640 TACATGATATG
1 TACATGATATG
69479651 T--ATGATATG
1 TACATGATATG
*
69479660 CACATGAT
1 TACATGAT
69479668 GTATTCATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
9 8 0.26
10 8 0.26
11 15 0.48
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (11 bp):
TACATGATATG
Found at i:69479656 original size:20 final size:21
Alignment explanation
Indices: 69479619--69479667 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
69479609 GATTTTGATA
*
69479619 TACATGATTTGATATGATATG
1 TACATGATATGATATGATATG
69479640 TACATGATATG-TATGATATG
1 TACATGATATGATATGATATG
*
69479660 CACATGAT
1 TACATGAT
69479668 GTATTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (21 bp):
TACATGATATGATATGATATG
Found at i:69479749 original size:25 final size:25
Alignment explanation
Indices: 69479715--69479784 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
69479705 GAGGAAGTGC
*
69479715 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
69479740 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
69479765 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
69479785 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:69479797 original size:24 final size:24
Alignment explanation
Indices: 69479714--69479811 Score: 76
Period size: 25 Copynumber: 4.0 Consensus size: 24
69479704 GGAGGAAGTG
* *
69479714 CAAAAG-GGCTTTGCCCTAGTTTAC
1 CAAAAGAGGCTTTGCCCCAG-TTAT
*
69479738 CGAAAAG-GGCTTTGCCCTAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAG-TTAT
69479763 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
69479787 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
69479812 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
24 20 0.31
25 44 0.69
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:69487623 original size:11 final size:11
Alignment explanation
Indices: 69487605--69487642 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
69487595 ACAAGATTTG
69487605 ATATGATATGC
1 ATATGATATGC
*
69487616 ACATGATATG-
1 ATATGATATGC
69487626 -TATGATATGC
1 ATATGATATGC
69487636 ATATGAT
1 ATATGAT
69487643 GTATTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (11 bp):
ATATGATATGC
Found at i:69487724 original size:25 final size:25
Alignment explanation
Indices: 69487690--69487760 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
69487680 GAGGAAGTGC
* *
69487690 AAAAGGGCTTTGCCCTAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
69487715 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
69487740 AAAAGGGCTTTGCCCCAGTTT
1 AAAAGGGCTTTGCCCCAGTTT
69487761 TTAAAAGAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:69487783 original size:50 final size:50
Alignment explanation
Indices: 69487690--69487784 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
69487680 GAGGAAGTGC
* **
69487690 AAAAGGGCTTTGCCCTAGTTTATCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCGAAAAGGGCTAGGCCCCAGTTTATCA
*
69487740 AAAAGGGCTTTGCCCCAGTTT-T-TAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTATCGAAAAG-GGCTAGGCC-CCAGTT
69487785 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 5 0.13
49 8 0.21
50 26 0.67
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTATCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:69488042 original size:30 final size:32
Alignment explanation
Indices: 69488006--69488070 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
69487996 TGATATGATT
*
69488006 TGTGAATTAT-AAAAGGCTTCGGCCTAGTA-A
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
*
69488036 TGTGAATTATGAAGAGGCTTCGGCCCAGTATA
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
69488068 TGT
1 TGT
69488071 TGAGATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 10 0.32
31 17 0.55
32 4 0.13
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (32 bp):
TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
Found at i:69490600 original size:52 final size:56
Alignment explanation
Indices: 69490552--69490831 Score: 336
Period size: 61 Copynumber: 4.8 Consensus size: 56
69490542 TCACATAACA
69490552 TACATAATACATAAATATATATCATAACATAAATGTCATAACTTACATAACTTACATAAC
1 TACATAATACATAAATATATATCATAACATAAATGTCATAACTTACATAA--TAC--AAC
69490612 TTACATAATACATAAATATATATCATAACATAAATGTCATAACTTACATAACTTACATAAC
1 -TACATAATACATAAATATATATCATAACATAAATGTCATAACTTACATAA--TAC--AAC
69490673 TTACATAATACATAAATATATATCATAACATAAATGTCATAACTTACATAACTTACATAAC
1 -TACATAATACATAAATATATATCATAACATAAATGTCATAACTTACATAA--TAC--AAC
* *
69490734 TTACATAATACATAAATATATATCATAACATAAATGTCATAGCTTACAT-A-AC--T
1 -TACATAATACATAAATATATATCATAACATAAATGTCATAACTTACATAATACAAC
* * *
69490787 TACATAATACATAAATAGATATCATATCAT-AATTTACATAACTTA
1 TACATAATACATAAATATATATCATAACATAAATGT-CATAACTTA
69490832 ATTATACTTA
Statistics
Matches: 212, Mismatches: 6, Indels: 11
0.93 0.03 0.05
Matches are distributed among these distances:
51 4 0.02
52 36 0.17
57 2 0.01
60 1 0.00
61 169 0.80
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (56 bp):
TACATAATACATAAATATATATCATAACATAAATGTCATAACTTACATAATACAAC
Found at i:69490765 original size:43 final size:43
Alignment explanation
Indices: 69490718--69490831 Score: 120
Period size: 52 Copynumber: 2.4 Consensus size: 43
69490708 GTCATAACTT
*
69490718 ACATAACTTACATAACTTACATAATACATAAATATATATCATA
1 ACATAACTTACATAACTTACATAATACATAAATAGATATCATA
69490761 ACATAAATGTCATAGCTTACATAACTTACATAATACATAAATAGATATCATA
1 AC----A--T-A-A-CTTACATAACTTACATAATACATAAATAGATATCATA
* *
69490813 TCATAATTTACATAACTTA
1 ACATAACTTACATAACTTA
69490832 ATTATACTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
43 14 0.24
44 1 0.02
45 1 0.02
46 1 0.02
47 1 0.02
48 1 0.02
49 1 0.02
50 1 0.02
51 1 0.02
52 37 0.63
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (43 bp):
ACATAACTTACATAACTTACATAATACATAAATAGATATCATA
Found at i:69490827 original size:61 final size:61
Alignment explanation
Indices: 69490526--69490800 Score: 509
Period size: 61 Copynumber: 4.5 Consensus size: 61
69490516 TGTTGGCATA
* *
69490526 TCATAACTTACATAACTCACATAACATACATAATACATAAATATATATCATAACATAAATG
1 TCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATAACATAAATG
69490587 TCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATAACATAAATG
1 TCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATAACATAAATG
69490648 TCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATAACATAAATG
1 TCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATAACATAAATG
69490709 TCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATAACATAAATG
1 TCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATAACATAAATG
*
69490770 TCATAGCTTACATAACTTACATAA--TACATAA
1 TCATAACTTACATAACTTACATAACTTACATAA
69490801 ATAGATATCA
Statistics
Matches: 211, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
59 7 0.03
61 204 0.97
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (61 bp):
TCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATAACATAAATG
Found at i:69494561 original size:47 final size:47
Alignment explanation
Indices: 69494477--69494975 Score: 908
Period size: 47 Copynumber: 10.6 Consensus size: 47
69494467 TATTTGAATA
* *
69494477 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
69494526 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
69494573 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
69494620 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
69494667 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
69494714 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
69494761 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
69494808 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
69494855 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
69494902 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
69494949 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
69494976 TCCCGAAGGG
Statistics
Matches: 440, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
47 428 0.97
49 12 0.03
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:69501236 original size:21 final size:21
Alignment explanation
Indices: 69501186--69501247 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
69501176 ACTTAAAGGA
*
69501186 AGGCAGTAGTGAGGGAAGCAG
1 AGGCAGCAGTGAGGGAAGCAG
** * *
69501207 AGGTGGCAGTGAAGGAAGTAG
1 AGGCAGCAGTGAGGGAAGCAG
*
69501228 AGGCAGCAGCGAGGGAAGCA
1 AGGCAGCAGTGAGGGAAGCA
69501248 AGGGAAGCAA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.34, C:0.11, G:0.47, T:0.08
Consensus pattern (21 bp):
AGGCAGCAGTGAGGGAAGCAG
Found at i:69501631 original size:43 final size:43
Alignment explanation
Indices: 69501578--69501670 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
69501568 CACAAACGCT
* * * *
69501578 GCTAAAGAACAAT-AATTTTAGCGGCGCTTTTACCAAAAATACC
1 GCTAAAGAAC-ATGAACTTTAGCAGCGCTTCTACCAAAAACACC
* *
69501621 GCTATAGAACATGACCTTTAGCAGCGCTTCTACCAAAAACACC
1 GCTAAAGAACATGAACTTTAGCAGCGCTTCTACCAAAAACACC
69501664 GCTAAAG
1 GCTAAAG
69501671 GTCATGTTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.05
43 40 0.95
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (43 bp):
GCTAAAGAACATGAACTTTAGCAGCGCTTCTACCAAAAACACC
Found at i:69501708 original size:42 final size:44
Alignment explanation
Indices: 69501655--69501771 Score: 168
Period size: 42 Copynumber: 2.7 Consensus size: 44
69501645 CGCTTCTACC
* *
69501655 AAAAACACCGCTAAAGGTCATGTTCTATAGCGA-CGTTTG-TGG
1 AAAAACACCGCTAAAGGTCACGTTCTATAGCGATCGTTTGTTGA
* *
69501697 AAAAACGCCGCTAAAGGTCACGTTCTGTAGC-ATCGTTTGTTGA
1 AAAAACACCGCTAAAGGTCACGTTCTATAGCGATCGTTTGTTGA
*
69501740 AAAAACACCACTAAAGGTCACGTTCTATAGCG
1 AAAAACACCGCTAAAGGTCACGTTCTATAGCG
69501772 GGTGTTTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.02
42 34 0.52
43 30 0.46
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (44 bp):
AAAAACACCGCTAAAGGTCACGTTCTATAGCGATCGTTTGTTGA
Found at i:69505655 original size:33 final size:33
Alignment explanation
Indices: 69505618--69505737 Score: 134
Period size: 33 Copynumber: 3.6 Consensus size: 33
69505608 TCCCAAATGT
**
69505618 AATTCAATCAAATTGTTTCAAACAATTCCATGC
1 AATTCAATCAAATCATTTCAAACAATTCCATGC
* *
69505651 AATTCAATTAGATCATTTCAAACAATTCCATGC
1 AATTCAATCAAATCATTTCAAACAATTCCATGC
** * * *
69505684 AATTTTATTAGATCATTTCAAACAATTCCATGT
1 AATTCAATCAAATCATTTCAAACAATTCCATGC
*
69505717 AATTTAATCAAAAT-ATTTCAA
1 AATTCAATC-AAATCATTTCAA
69505738 GCCGCCTCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
33 73 0.96
34 3 0.04
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (33 bp):
AATTCAATCAAATCATTTCAAACAATTCCATGC
Found at i:69508844 original size:44 final size:44
Alignment explanation
Indices: 69508795--69508878 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
69508785 GCGTTCCTAT
* *
69508795 AGAACAAGCTGCCACTAAAATTGAAGGATCTAGGAAGCTTCTGC
1 AGAACAAGCTGCCACCAAAATTGAAGGATCCAGGAAGCTTCTGC
*
69508839 AGAACAAGCTGCCACCGAAATTGAAGGATCCAGGAAGCTT
1 AGAACAAGCTGCCACCAAAATTGAAGGATCCAGGAAGCTT
69508879 TACGATACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (44 bp):
AGAACAAGCTGCCACCAAAATTGAAGGATCCAGGAAGCTTCTGC
Found at i:69529550 original size:21 final size:21
Alignment explanation
Indices: 69529524--69529565 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
69529514 GTACTGAAAA
*
69529524 CCTGTCAGCCAATTACAATGT
1 CCTGTCAGCCAATTAAAATGT
*
69529545 CCTGTCAGCTAATTAAAATGT
1 CCTGTCAGCCAATTAAAATGT
69529566 TATTTGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (21 bp):
CCTGTCAGCCAATTAAAATGT
Found at i:69532767 original size:42 final size:42
Alignment explanation
Indices: 69532704--69532789 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
69532694 AACTACACAA
* *
69532704 ACACACATACAGAGAACTTCCTACTTATACACAGCAAACTTT
1 ACACACATACAGAGAACTTCCTACTAACACACAGCAAACTTT
* * *
69532746 ACACACATACAGAGCATTTCCTACTAACACACAGCGAACTTT
1 ACACACATACAGAGAACTTCCTACTAACACACAGCAAACTTT
69532788 AC
1 AC
69532790 CTTTTTGGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.40, C:0.30, G:0.08, T:0.22
Consensus pattern (42 bp):
ACACACATACAGAGAACTTCCTACTAACACACAGCAAACTTT
Found at i:69537612 original size:36 final size:36
Alignment explanation
Indices: 69537572--69537661 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 36
69537562 GATTAGCGCT
* *
69537572 GGGCACATAAC-ATTGTCAGTTTATCCGACCACTGTG
1 GGGCACA-AACTATTGTCAGTTTATCCAACCACTGTA
*
69537608 GGGCAC-AACTATTGTCAGTTTATCCAACCAGTGTA
1 GGGCACAAACTATTGTCAGTTTATCCAACCACTGTA
*
69537643 GGGCAC-AATTATTGTCAGT
1 GGGCACAAACTATTGTCAGT
69537662 ATATTTGACT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
34 3 0.06
35 40 0.82
36 6 0.12
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (36 bp):
GGGCACAAACTATTGTCAGTTTATCCAACCACTGTA
Found at i:69537629 original size:35 final size:35
Alignment explanation
Indices: 69537583--69537661 Score: 122
Period size: 35 Copynumber: 2.3 Consensus size: 35
69537573 GGCACATAAC
* *
69537583 ATTGTCAGTTTATCCGACCACTGTGGGGCACAACT
1 ATTGTCAGTTTATCCAACCACTGTAGGGCACAACT
* *
69537618 ATTGTCAGTTTATCCAACCAGTGTAGGGCACAATT
1 ATTGTCAGTTTATCCAACCACTGTAGGGCACAACT
69537653 ATTGTCAGT
1 ATTGTCAGT
69537662 ATATTTGACT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (35 bp):
ATTGTCAGTTTATCCAACCACTGTAGGGCACAACT
Found at i:69541351 original size:79 final size:81
Alignment explanation
Indices: 69541215--69541399 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
69541205 TTGAATGATG
*
69541215 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
69541279 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
69541294 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
69541356 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
69541374 ACCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69541400 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:69541406 original size:40 final size:40
Alignment explanation
Indices: 69541215--69541399 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
69541205 TTGAATGATG
* * * *
69541215 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
69541255 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
69541295 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69541334 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
69541375 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69541400 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69541421 original size:79 final size:79
Alignment explanation
Indices: 69541268--69541432 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
69541258 GGACTAAGAT
* * **
69541268 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
*
69541333 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
69541347 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-C
* *
69541410 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
69541426 CCGAAGG
1 CCGAAGG
69541433 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:69552824 original size:11 final size:11
Alignment explanation
Indices: 69552810--69552839 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
69552800 TTTATTCATT
69552810 TTTTAATTTTG
1 TTTTAATTTTG
69552821 TTTTAATTTTG
1 TTTTAATTTTG
*
69552832 TTTAAATT
1 TTTTAATT
69552840 ACAAAATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (11 bp):
TTTTAATTTTG
Found at i:69562717 original size:69 final size:69
Alignment explanation
Indices: 69562606--69562741 Score: 263
Period size: 69 Copynumber: 2.0 Consensus size: 69
69562596 AGACTATATC
*
69562606 GCCCTACCACCACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACCT
1 GCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACCT
69562671 GTCA
66 GTCA
69562675 GCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACCT
1 GCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACCT
69562740 GT
66 GT
69562742 TTTTCCTATC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.26
Consensus pattern (69 bp):
GCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAACCT
GTCA
Found at i:69565839 original size:45 final size:45
Alignment explanation
Indices: 69565755--69565841 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
69565745 AACCTTAATT
* * *
69565755 CTATTAACCCTCTAGTAGGGTATTTCTCCTAAAAGTCTTACTGTC
1 CTATTAACCCTCTAGTAGGGTATTTATACTAAAACTCTTACTGTC
* *
69565800 CTATTAACCTTCTAGT-GGAGTATTTATACTAGAACTCTTACT
1 CTATTAACCCTCTAGTAGG-GTATTTATACTAAAACTCTTACT
69565842 ATTAACAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (45 bp):
CTATTAACCCTCTAGTAGGGTATTTATACTAAAACTCTTACTGTC
Found at i:69573170 original size:9 final size:9
Alignment explanation
Indices: 69573156--69573181 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
69573146 TTTTAATGTG
69573156 AAAATAAAA
1 AAAATAAAA
69573165 AAAATAAAA
1 AAAATAAAA
69573174 AAAATAAA
1 AAAATAAA
69573182 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAA
Found at i:69577595 original size:5 final size:5
Alignment explanation
Indices: 69577585--69577628 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
69577575 CCAATTTGTG
*
69577585 AAAAT AAAAT AAAAT AAAA- AATA- AAAAT -AAA- AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
69577629 GAACACACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 12 0.35
5 22 0.65
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:69577613 original size:13 final size:13
Alignment explanation
Indices: 69577590--69577628 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
69577580 TTGTGAAAAT
69577590 AAAAT-AAAATAA
1 AAAATAAAAATAA
69577602 AAAATAAAAATAA
1 AAAATAAAAATAA
69577615 AAAA-ATAAAATAA
1 AAAATA-AAAATAA
69577628 A
1 A
69577629 GAACACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:69579353 original size:46 final size:45
Alignment explanation
Indices: 69579247--69579469 Score: 158
Period size: 46 Copynumber: 4.9 Consensus size: 45
69579237 ATAATGAATC
* * * * * * * *
69579247 ATAGTGCTTGGTTACCCATCAGGGTTAAACCTAAACGAATCGGATG
1 ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAAT-AGATA
* * * *
69579293 ATAATGCCTAGTCACCCATTAGGGTTGAACTTACACAAATCAGATA
1 ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAAT-AGATA
* * * * * *
69579339 ATAGTGAATGGTCACTCGTCAGGGTTGAACCTACACGAATAATATA
1 ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAAT-AGATA
* * * * * * *
69579385 ATAATGCCTAGTCACTCGTTAGGGTTAAACCTACACGAATAGGATA
1 ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAATA-GATA
* * *
69579431 ATAGTGCTTGGTTACCCATTAAGGTTGAACCTACACAAA
1 ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAA
69579470 AAATAGCCTA
Statistics
Matches: 138, Mismatches: 38, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
45 1 0.01
46 137 0.99
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (45 bp):
ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAATAGATA
Found at i:69579457 original size:92 final size:93
Alignment explanation
Indices: 69579212--69579466 Score: 280
Period size: 92 Copynumber: 2.8 Consensus size: 93
69579202 GCGTTTGGTT
* * * * *
69579212 ACTCGTTTGGGTTAAACCTATACGAATAATGAATCATAGTGCTTGGTTACCCATCAGGGTTAAAC
1 ACTCGTTAGGGTTAAACCTACACGAATAA-GGATAATAGTGCTTGGTTACCCATCAGGGTTGAAC
* ** *
69579277 CTAAACGAATCGGATGATAATGCCTAGTC
65 CTACACGAATAAGATAATAATGCCTAGTC
* * * * * * ** * * *
69579306 ACCCATTAGGGTTGAACTTACACAAATCA-GATAATAGTGAATGGTCACTCGTCAGGGTTGAACC
1 ACTCGTTAGGGTTAAACCTACACGAATAAGGATAATAGTGCTTGGTTACCCATCAGGGTTGAACC
*
69579370 TACACGAATAATATAATAATGCCTAGTC
66 TACACGAATAAGATAATAATGCCTAGTC
* *
69579398 ACTCGTTAGGGTTAAACCTACACGAAT-AGGATAATAGTGCTTGGTTACCCATTAAGGTTGAACC
1 ACTCGTTAGGGTTAAACCTACACGAATAAGGATAATAGTGCTTGGTTACCCATCAGGGTTGAACC
69579462 TACAC
66 TACAC
69579467 AAAAAATAGC
Statistics
Matches: 127, Mismatches: 33, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
91 1 0.01
92 105 0.83
94 21 0.17
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (93 bp):
ACTCGTTAGGGTTAAACCTACACGAATAAGGATAATAGTGCTTGGTTACCCATCAGGGTTGAACC
TACACGAATAAGATAATAATGCCTAGTC
Found at i:69583960 original size:46 final size:45
Alignment explanation
Indices: 69583904--69584079 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
69583894 ATTTTGGGCA
69583904 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
69583950 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * * *
69583997 TCCGAGCTCATTGAGTTGAGTCCGATTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
69584043 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69584080 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 66 0.63
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:69584059 original size:93 final size:93
Alignment explanation
Indices: 69583900--69584071 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
69583890 AGGAATTTTG
* * * * *
69583900 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
69583965 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
69583993 GGCATCCGAGCTCATTGAGTTGAGTCCGATTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
69584058 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
69584072 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:69589824 original size:27 final size:26
Alignment explanation
Indices: 69589776--69589827 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
69589766 GCGAGGCTAC
*
69589776 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
69589802 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
69589828 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:69593361 original size:55 final size:55
Alignment explanation
Indices: 69593295--69593400 Score: 187
Period size: 55 Copynumber: 1.9 Consensus size: 55
69593285 CCCCTAGGGT
*
69593295 TAAGGTTGACCTGAATGCATGTTTGACT-TTACTATTTACTGCATGCCATGTCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTT-CTACATGCCATGTCTGA
69593350 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTCTACATGCCATGT
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTCTACATGCCATGT
69593401 TATTATTATT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
55 40 0.82
56 9 0.18
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.39
Consensus pattern (55 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTCTACATGCCATGTCTGA
Found at i:69596712 original size:28 final size:28
Alignment explanation
Indices: 69596680--69596735 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
69596670 CTATACACAT
69596680 AACTAACCATTCATCATTTACAAGCCAA
1 AACTAACCATTCATCATTTACAAGCCAA
69596708 AACTAACCATTCATCATTTACAAGCCAA
1 AACTAACCATTCATCATTTACAAGCCAA
69596736 CTTAAATAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.29, G:0.04, T:0.25
Consensus pattern (28 bp):
AACTAACCATTCATCATTTACAAGCCAA
Found at i:69600600 original size:18 final size:17
Alignment explanation
Indices: 69600559--69600602 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
69600549 CATATATATC
69600559 AAAATTAT-AATATTAA
1 AAAATTATAAATATTAA
*
69600575 ATAA-TATAAATATTATA
1 AAAATTATAAATATTA-A
69600592 AAAATTATAAA
1 AAAATTATAAA
69600603 ACAAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.13
16 10 0.43
17 4 0.17
18 6 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTATAAATATTAA
Found at i:69629371 original size:48 final size:46
Alignment explanation
Indices: 69629284--69629409 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 46
69629274 ATGTCCCGAG
* * *
69629284 GCCGATGCATGTCGCAGACATGTCTTACACTAGCACTCGT-CTCAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAACACTCGTAATCAA
* ** **
69629329 TGCCGATGCCATGTCTCAGACATGGTCTTACACTAATTCTCGTAATGTA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACACTCGTAATCAA
*
69629378 GCCGATGCGTGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTA
69629410 GCTCACACAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 18 0.26
47 25 0.37
48 23 0.34
49 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAACACTCGTAATCAA
Found at i:69637450 original size:47 final size:47
Alignment explanation
Indices: 69637393--69637520 Score: 168
Period size: 47 Copynumber: 2.7 Consensus size: 47
69637383 CTCAATCGAT
* *
69637393 AAGTATCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCCCG
* * * *
69637440 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGCAACTTCTCTCT
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCCCG
* *
69637487 AAATACCTATACCATGGCCCT-TAACCAAATCAAG
1 AAGTACCTATACCATGG-CCTGTAGCCAAATCAAG
69637521 CTATTATTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 69 0.97
48 2 0.03
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCCCG
Found at i:69640571 original size:25 final size:25
Alignment explanation
Indices: 69640541--69640588 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
69640531 AATTAATTAT
*
69640541 GACACATAACAAAATGACCAAGTTC
1 GACACAAAACAAAATGACCAAGTTC
69640566 GACACAAAACAAAATGACCAAGT
1 GACACAAAACAAAATGACCAAGT
69640589 CCCTATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.23, G:0.12, T:0.12
Consensus pattern (25 bp):
GACACAAAACAAAATGACCAAGTTC
Found at i:69641082 original size:42 final size:41
Alignment explanation
Indices: 69641036--69641189 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 41
69641026 TATCGTACCA
*
69641036 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AATCTCATATCG
* *
69641078 ATGCCAATAGCCCA-ACTATGGTCTTACATGAAATCTCATATCA
1 ATGCC-ATATCCCAGA-TATGGTCTTACATG-AATCTCATATCG
* * * * *
69641121 ATGTCATATCCTAGATATGGTCTGACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAA-TCTCATATCG
*
69641163 ATCCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
69641190 CATAGTCTTA
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.02
42 55 0.59
43 36 0.39
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGAATCTCATATCG
Found at i:69649206 original size:79 final size:79
Alignment explanation
Indices: 69649056--69649270 Score: 276
Period size: 79 Copynumber: 2.7 Consensus size: 79
69649046 GGATGATAAT
** **
69649056 CGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCG-AGGCATTTTT
1 CGGGCTAAGTCCCGAAGGCATTTGTACGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTGGT
**
69649120 TTGAGTTACTATATC
65 GCGAGTTACTATATC
69649135 CGGGCTAAGTCCCG-AGGCATTTGTACGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTGGT
1 CGGGCTAAGTCCCGAAGGCATTTGTACGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTGGT
69649199 GCGAGTTACTATATC
65 GCGAGTTACTATATC
* * * *
69649214 CGGGCTATGTCCCGAAGGCATTCG-AGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTA-CTATATCCGGGCTAAGTCCCGAAGG
69649271 TACTTGGCTT
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
78 36 0.30
79 65 0.54
80 20 0.17
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTTGTACGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTGGTG
CGAGTTACTATATC
Found at i:69649209 original size:40 final size:40
Alignment explanation
Indices: 69649056--69649270 Score: 285
Period size: 39 Copynumber: 5.5 Consensus size: 40
69649046 GGATGATAAT
*
69649056 CGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* **
69649096 CGGGCTAAGTCCCG-AGGCATTTTTTTGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
69649135 CGGGCTAAGTCCCG-AGGCATTTGTACGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
69649174 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
69649214 CGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
69649254 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
69649271 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 87 0.55
40 71 0.45
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:69656985 original size:40 final size:40
Alignment explanation
Indices: 69656786--69656990 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
69656776 NNNNNNNNNN
* *
69656786 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * *
69656826 TCCGAGCTAAGTCCCAAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
69656866 TCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
69656906 TCCGGGCTAAGCCCCGAAGGCATTGGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
69656946 TCCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
69656986 TCCGG
1 TCCGG
69656991 TAAAATCCCG
Statistics
Matches: 148, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 2 0.01
40 146 0.99
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:69668297 original size:42 final size:42
Alignment explanation
Indices: 69668186--69668341 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
69668176 TACCATACCA
* * *
69668186 ATGCCATATCTCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * * *
69668228 ACGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* *
69668271 ATGCCATATCCCAGGTATGGTCTTACATGAAGTCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
69668313 ATGCCATATCCCAGATATGCTCTTACATG
1 ATGCCATATCCCAGATATGGTCTTACATG
69668342 TAGTTTTAGT
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 63 0.65
43 34 0.35
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:69670145 original size:9 final size:9
Alignment explanation
Indices: 69670131--69670157 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
69670121 AAGTAACTAA
69670131 ATGTTTGAT
1 ATGTTTGAT
69670140 ATGTTTGAT
1 ATGTTTGAT
69670149 ATGTTTGAT
1 ATGTTTGAT
69670158 TTTTCATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
ATGTTTGAT
Found at i:69672230 original size:15 final size:16
Alignment explanation
Indices: 69672210--69672241 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
69672200 TCAATACACC
69672210 GGCAC-AAGCCTACTA
1 GGCACAAAGCCTACTA
69672225 GGCACAAAGCCTACTA
1 GGCACAAAGCCTACTA
69672241 G
1 G
69672242 CACTAGCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.34, C:0.31, G:0.22, T:0.12
Consensus pattern (16 bp):
GGCACAAAGCCTACTA
Found at i:69672266 original size:22 final size:22
Alignment explanation
Indices: 69672221--69672262 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
69672211 GCACAAGCCT
69672221 ACTAGGCACAAAGCCTACTAGC
1 ACTAGGCACAAAGCCTACTAGC
*
69672243 ACTA-GCACAAAGCCTGCTAG
1 ACTAGGCACAAAGCCTACTAG
69672263 GCACAGAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (22 bp):
ACTAGGCACAAAGCCTACTAGC
Found at i:69680682 original size:27 final size:27
Alignment explanation
Indices: 69680651--69680828 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
69680641 TAAATTGTAC
69680651 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
69680678 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69680704 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
69680732 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
69680760 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69680787 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69680814 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69680829 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:69680765 original size:82 final size:81
Alignment explanation
Indices: 69680652--69680807 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
69680642 AAATTGTACA
* *
69680652 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
69680716 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
69680733 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
69680798 TGCGAGTTGA
65 TGCGAATTGA
69680808 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:69680819 original size:82 final size:81
Alignment explanation
Indices: 69680648--69680828 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
69680638 GATTAAATTG
* *
69680648 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
69680713 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
69680729 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
69680793 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
69680811 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
69680829 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:69688276 original size:12 final size:12
Alignment explanation
Indices: 69688259--69688284 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69688249 CATTCCGAAG
69688259 TATATATATACA
1 TATATATATACA
69688271 TATATATATACA
1 TATATATATACA
69688283 TA
1 TA
69688285 AGTATGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:69688797 original size:27 final size:27
Alignment explanation
Indices: 69688766--69688943 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
69688756 TAAATTGTAC
69688766 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
69688793 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69688819 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
69688847 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
69688875 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69688902 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69688929 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69688944 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:69688880 original size:82 final size:81
Alignment explanation
Indices: 69688767--69688922 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
69688757 AAATTGTACA
* *
69688767 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
69688831 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
69688848 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
69688913 TGCGAGTTGA
65 TGCGAATTGA
69688923 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:69688934 original size:82 final size:81
Alignment explanation
Indices: 69688763--69688943 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
69688753 GATTAAATTG
* *
69688763 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
69688828 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
69688844 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
69688908 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
69688926 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
69688944 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:69691949 original size:27 final size:27
Alignment explanation
Indices: 69691919--69691980 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
69691909 GGATGTTACA
* *
69691919 AATGTCCTATCGAACTATCCCGTGTTT
1 AATGTCCCATCGAACTATCCCGTATTT
* *
69691946 AATGTCCCATCGGACTATCTCGTATTT
1 AATGTCCCATCGAACTATCCCGTATTT
*
69691973 TATGTCCC
1 AATGTCCC
69691981 GCCAAACTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (27 bp):
AATGTCCCATCGAACTATCCCGTATTT
Found at i:69692984 original size:67 final size:67
Alignment explanation
Indices: 69692876--69693145 Score: 522
Period size: 67 Copynumber: 4.0 Consensus size: 67
69692866 GTCGGCCCAA
*
69692876 ATGTATACCACAACTCGGTGGATGTTGATTATGAGAATTTTTTTCATGGTGGGAATTTTGACTCA
1 ATGTATGCCACAACTCGGTGGATGTTGATTATGAGAATTTTTTTCATGGTGGGAATTTTGACTCA
69692941 TC
66 TC
69692943 ATGTATGCCACAACTCGGTGGATGTTGATTATGAGAATTTTTTTCATGGTGGGAATTTTGACTCA
1 ATGTATGCCACAACTCGGTGGATGTTGATTATGAGAATTTTTTTCATGGTGGGAATTTTGACTCA
69693008 TC
66 TC
69693010 ATGTATGCCACAACTCGGTGGATGTTGATTATGAGAATTTTTTTCATGGTGGGAATTTTGACTCA
1 ATGTATGCCACAACTCGGTGGATGTTGATTATGAGAATTTTTTTCATGGTGGGAATTTTGACTCA
69693075 TC
66 TC
*
69693077 ATGTATGCCACAACTCGGTGGATGTTGATTATGAGAATTTTTTTCATGGTTGGAATTTTGACTCA
1 ATGTATGCCACAACTCGGTGGATGTTGATTATGAGAATTTTTTTCATGGTGGGAATTTTGACTCA
69693142 TC
66 TC
69693144 AT
1 AT
69693146 TTTCATATTC
Statistics
Matches: 201, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 201 1.00
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.39
Consensus pattern (67 bp):
ATGTATGCCACAACTCGGTGGATGTTGATTATGAGAATTTTTTTCATGGTGGGAATTTTGACTCA
TC
Found at i:69695441 original size:38 final size:37
Alignment explanation
Indices: 69695399--69695471 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
69695389 ACGTTATTCG
* *
69695399 GGCTCTATGCCTAGCACGCTTTGTGCCGGTGATATTTA
1 GGCTCTATGCCTAGCACGCTTCGTGCCAGT-ATATTTA
* *
69695437 GGCTCTGTGCCTAGCAGGCTTCGTGCCAGTATATT
1 GGCTCTATGCCTAGCACGCTTCGTGCCAGTATATT
69695472 ATATTAGGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 5 0.16
38 26 0.84
ACGTcount: A:0.15, C:0.25, G:0.27, T:0.33
Consensus pattern (37 bp):
GGCTCTATGCCTAGCACGCTTCGTGCCAGTATATTTA
Found at i:69698750 original size:22 final size:20
Alignment explanation
Indices: 69698725--69698765 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
69698715 AAACATAAAA
69698725 AACTAAAAAATAATATATTAAC
1 AACTAAAAAAT--TATATTAAC
*
69698747 AACTAAATAATTATATTAA
1 AACTAAAAAATTATATTAA
69698766 TTAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
AACTAAAAAATTATATTAAC
Found at i:69707041 original size:47 final size:46
Alignment explanation
Indices: 69706985--69707079 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 46
69706975 TTCCCTTGTA
* *
69706985 ACTCTTTCCCTCGGTACCATGGATACAAGAGTATTCCACCACTGAT
1 ACTCTTTCCCTCGATACCATGGATACAAAAGTATTCCACCACTGAT
69707031 ACNTCTTTCCCTCGATACCATGGATACAAAAGTATTCCACCACTGAT
1 AC-TCTTTCCCTCGATACCATGGATACAAAAGTATTCCACCACTGAT
69707078 AC
1 AC
69707080 GCTATGTCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 2 0.04
47 44 0.96
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.27
Consensus pattern (46 bp):
ACTCTTTCCCTCGATACCATGGATACAAAAGTATTCCACCACTGAT
Found at i:69708452 original size:15 final size:17
Alignment explanation
Indices: 69708434--69708465 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
69708424 TAGCATATTT
69708434 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
69708449 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
69708466 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:69715445 original size:26 final size:26
Alignment explanation
Indices: 69715416--69715522 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
69715406 TGGTACAAAT
69715416 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
69715442 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
69715468 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
69715494 TG-TAACGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
69715519 TGAT
1 TGAT
69715523 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 23 0.31
26 51 0.69
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:69722465 original size:26 final size:26
Alignment explanation
Indices: 69722436--69722543 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
69722426 TGGTACAAAT
*
69722436 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
69722462 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
69722488 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
*
69722514 TGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
69722540 TGAT
1 TGAT
69722544 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:69727244 original size:18 final size:18
Alignment explanation
Indices: 69727221--69727257 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
69727211 ACTTACTAAG
*
69727221 CATTTATGCTTTCTCCCT
1 CATTTATGCTTACTCCCT
69727239 CATTTATGCTTACTCCCT
1 CATTTATGCTTACTCCCT
69727257 C
1 C
69727258 CTTTTCATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.35, G:0.05, T:0.46
Consensus pattern (18 bp):
CATTTATGCTTACTCCCT
Found at i:69728909 original size:15 final size:15
Alignment explanation
Indices: 69728889--69728921 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
69728879 CATAGCCTGG
69728889 CACACGGGCGTCTGA
1 CACACGGGCGTCTGA
69728904 CACACGGGCGTCTGA
1 CACACGGGCGTCTGA
69728919 CAC
1 CAC
69728922 GACCGTGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.30, T:0.12
Consensus pattern (15 bp):
CACACGGGCGTCTGA
Found at i:69729720 original size:36 final size:36
Alignment explanation
Indices: 69729662--69729731 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
69729652 AGAGGAGCAC
*
69729662 ATCAGTTAGAATAGATCTGAAAGGCTGT-TGAACTGA
1 ATCAGTCAGAATAGATCTGAAAGGCT-TCTGAACTGA
*
69729698 ATCAGTCAGAATAGGT-TCGAAAGGCTTCTGAACT
1 ATCAGTCAGAATAGATCT-GAAAGGCTTCTGAACT
69729732 AATTATAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 2 0.07
36 28 0.93
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCTGAAAGGCTTCTGAACTGA
Found at i:69738671 original size:18 final size:18
Alignment explanation
Indices: 69738648--69738684 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
69738638 AATAAAAGAC
69738648 TTAATTTGCACATTTTAT
1 TTAATTTGCACATTTTAT
69738666 TTAATTTGCACATTTTAT
1 TTAATTTGCACATTTTAT
69738684 T
1 T
69738685 AACTTAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (18 bp):
TTAATTTGCACATTTTAT
Found at i:69744800 original size:9 final size:9
Alignment explanation
Indices: 69744786--69744819 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
69744776 TCGTATCGTT
69744786 AAAAAAATA
1 AAAAAAATA
69744795 AAAAAAATA
1 AAAAAAATA
69744804 AAAAAATAGTA
1 AAAAAA-A-TA
69744815 AAAAA
1 AAAAA
69744820 TAGTGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.65
10 1 0.04
11 7 0.30
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (9 bp):
AAAAAAATA
Found at i:69744828 original size:11 final size:11
Alignment explanation
Indices: 69744804--69744841 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
69744794 AAAAAAAATA
69744804 AAAAAATAGT-
1 AAAAAATAGTG
69744814 AAAAAATAGTG
1 AAAAAATAGTG
* *
69744825 AAAAAAGAGAG
1 AAAAAATAGTG
69744836 AAAAAA
1 AAAAAA
69744842 ATCAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (11 bp):
AAAAAATAGTG
Found at i:69744890 original size:10 final size:10
Alignment explanation
Indices: 69744786--69744891 Score: 57
Period size: 10 Copynumber: 10.8 Consensus size: 10
69744776 TCGTATCGTT
69744786 AAAAAAA-T-
1 AAAAAAAGTG
* *
69744794 AAAAAAAATA
1 AAAAAAAGTG
69744804 AAAAAATAGT-
1 AAAAAA-AGTG
69744814 AAAAAATAGTG
1 AAAAAA-AGTG
*
69744825 AAAAAAGAGAG
1 AAAAAA-AGTG
*
69744836 AAAAAAA-TC
1 AAAAAAAGTG
*
69744845 AAAATTAA---
1 AAAA-AAAGTG
69744853 AAAAAAAGTTG
1 AAAAAAAG-TG
69744864 AAAAAAAGTCG
1 AAAAAAAGT-G
69744875 -AAAAAAGTG
1 AAAAAAAGTG
69744884 AAAAAAAG
1 AAAAAAAG
69744892 AAAGAGAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 20
0.75 0.07 0.19
Matches are distributed among these distances:
7 2 0.03
8 11 0.14
9 6 0.08
10 35 0.44
11 26 0.32
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (10 bp):
AAAAAAAGTG
Done.