Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 114 of 133
Found at i:22221889 original size:17 final size:17
Alignment explanation
Indices: 22221868--22221901 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22221858 TCAATTCTAT
*
22221868 TTTTTTCTTTTTTCTTTC
1 TTTTTT-TTTTTACTTTC
22221886 TTTTTTTTTTTACTTT
1 TTTTTTTTTTTACTTT
22221902 TTATTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTTTTTACTTTC
Found at i:22224320 original size:8 final size:8
Alignment explanation
Indices: 22224307--22224332 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
22224297 ATATTTATGT
22224307 ATGAATGC
1 ATGAATGC
22224315 ATGAATGC
1 ATGAATGC
22224323 ATGAATGC
1 ATGAATGC
22224331 AT
1 AT
22224333 TAAAGAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (8 bp):
ATGAATGC
Found at i:22227471 original size:34 final size:33
Alignment explanation
Indices: 22227407--22227493 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 33
22227397 TAACAATGTC
* *
22227407 AATCATGCAAAT-AA-ACATGCTTTAAATATAT
1 AATCATGCAAATAAATATATGCATTAAATATAT
22227438 AATCATGCAAATAAATATATGCGATTAAATATAT
1 AATCATGCAAATAAATATATGC-ATTAAATATAT
*
22227472 AATCATACAAATAGTAATATAT
1 AATCATGCAAATA--AATATAT
22227494 AAACTATGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
31 12 0.25
32 2 0.04
33 5 0.10
34 22 0.46
36 7 0.15
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (33 bp):
AATCATGCAAATAAATATATGCATTAAATATAT
Found at i:22227539 original size:55 final size:55
Alignment explanation
Indices: 22227431--22227761 Score: 227
Period size: 55 Copynumber: 6.0 Consensus size: 55
22227421 ACATGCTTTA
* * * *
22227431 AATATATAATC-ATGCAAATAAATATATGCGATTAAATATATAATCATACAAATAGT
1 AATATATAAACTATGCAAATAAATATA--CAATTAAATATATAATCATAAAAATAAT
* *
22227487 AATATATAAACTATGCAAACAAATATACCATTAAATATATAATCATAAAAATAAT
1 AATATATAAACTATGCAAATAAATATACAATTAAATATATAATCATAAAAATAAT
* * * **
22227542 AATATATAAATTGTGCAAATAAATATGCAATTAAATATATAATCATGTAAATAAT
1 AATATATAAACTATGCAAATAAATATACAATTAAATATATAATCATAAAAATAAT
* * * * *
22227597 AATACATAAA-TCATGC-AAT-TATGT-GAATAATAATATATAAATCATACAAAATATGCAATT
1 AATATATAAACT-ATGCAAATAAATATACAATTA-AATATAT-AATCAT--AAAA-AT--AA-T
* ** **
22227657 AAATATATAATC-ATGCAAAT-AATAATAC-A-TAAATCATGCAATCATGTAAATAAT
1 -AATATATAAACTATGCAAATAAAT-ATACAATTAAAT-ATATAATCATAAAAATAAT
* * * *
22227711 AATATATAAACCAAGC--A-AAATATGCAATTAAATATATAATCATACAAATAA
1 AATATATAAACTATGCAAATAAATATACAATTAAATATATAATCATAAAAATAA
22227762 ACATGCAATT
Statistics
Matches: 218, Mismatches: 37, Indels: 44
0.73 0.12 0.15
Matches are distributed among these distances:
51 3 0.01
52 23 0.11
53 25 0.11
54 14 0.06
55 87 0.40
56 12 0.06
57 18 0.08
58 2 0.01
59 2 0.01
60 14 0.06
61 16 0.07
62 2 0.01
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (55 bp):
AATATATAAACTATGCAAATAAATATACAATTAAATATATAATCATAAAAATAAT
Found at i:22227627 original size:31 final size:31
Alignment explanation
Indices: 22227586--22227720 Score: 112
Period size: 31 Copynumber: 4.7 Consensus size: 31
22227576 ATATATAATC
*
22227586 ATGTAAATAATAATACATAAATCATGCAATT
1 ATGTAAATAATAATATATAAATCATGCAATT
* * *
22227617 ATGTGAATAATAATATATAAATCATACAAAAT
1 ATGTAAATAATAATATATAAATCATGC-AATT
* *
22227649 ATG-CAATTA-AATATAT-AATCATGC----
1 ATGTAAATAATAATATATAAATCATGCAATT
* *
22227673 ----AAATAATAATACATAAATCATGCAATC
1 ATGTAAATAATAATATATAAATCATGCAATT
22227700 ATGTAAATAATAATATATAAA
1 ATGTAAATAATAATATATAAA
22227721 CCAAGCAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
21 4 0.05
22 6 0.07
23 8 0.10
29 7 0.09
30 7 0.09
31 44 0.54
32 6 0.07
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (31 bp):
ATGTAAATAATAATATATAAATCATGCAATT
Found at i:22227628 original size:83 final size:81
Alignment explanation
Indices: 22227539--22227761 Score: 290
Period size: 83 Copynumber: 2.7 Consensus size: 81
22227529 TCATAAAAAT
* *
22227539 AATAATATATAAATTGTGCAA-ATAAATATGCAATTAAATATATAATCATGTAAATAATAATACA
1 AATAATATATAAA-TAT-CAACA-AAATATGCAATTAAATATATAATCATGCAAATAATAATACA
* *
22227603 TAAATCATGCAATTATGTG
63 TAAATCATGCAATCATGTA
22227622 AATAATAATATATAA-ATCATACAAAATATGCAATTAAATATATAATCATGCAAATAATAATACA
1 AATAAT-ATATA-AATATCA-ACAAAATATGCAATTAAATATATAATCATGCAAATAATAATACA
22227686 TAAATCATGCAATCATGTA
63 TAAATCATGCAATCATGTA
* *
22227705 AATAATAATATATAA-ACCAAGCAAAATATGCAATTAAATATATAATCATACAAATAA
1 AATAAT-ATATA-AATATCAA-CAAAATATGCAATTAAATATATAATCATGCAAATAA
22227762 ACATGCAATT
Statistics
Matches: 129, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
82 3 0.02
83 118 0.91
84 6 0.05
85 2 0.02
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.30
Consensus pattern (81 bp):
AATAATATATAAATATCAACAAAATATGCAATTAAATATATAATCATGCAAATAATAATACATAA
ATCATGCAATCATGTA
Found at i:22227674 original size:20 final size:22
Alignment explanation
Indices: 22227640--22227698 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
22227630 TATATAAATC
*
22227640 ATACA-AAAT-ATGCAATTA-A
1 ATACATAAATCATGCAATAATA
*
22227659 ATATAT-AATCATGCAAATAATA
1 ATACATAAATCATGC-AATAATA
22227681 ATACATAAATCATGCAAT
1 ATACATAAATCATGCAAT
22227699 CATGTAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 7 0.22
20 4 0.12
21 4 0.12
22 9 0.28
23 8 0.25
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (22 bp):
ATACATAAATCATGCAATAATA
Found at i:22227780 original size:33 final size:32
Alignment explanation
Indices: 22227732--22227795 Score: 110
Period size: 33 Copynumber: 2.0 Consensus size: 32
22227722 CAAGCAAAAT
22227732 ATGCAATTAAATATATAATCATACAAATAAAC
1 ATGCAATTAAATATATAATCATACAAATAAAC
*
22227764 ATGCAATTTAAATATATAATCATGCAAATAAA
1 ATGCAA-TTAAATATATAATCATACAAATAAA
22227796 TATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 6 0.20
33 24 0.80
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (32 bp):
ATGCAATTAAATATATAATCATACAAATAAAC
Found at i:22227787 original size:21 final size:24
Alignment explanation
Indices: 22227757--22227939 Score: 149
Period size: 24 Copynumber: 8.0 Consensus size: 24
22227747 TAATCATACA
* *
22227757 AATAAACATGCAATTTAA-ATA-T
1 AATAATCATGCAATTAAATATATT
*
22227779 -ATAATCATGCAAATAAATATATT
1 AATAATCATGCAATTAAATATATT
*
22227802 AATAATCAAGCAATTAAATATATT
1 AATAATCATGCAATTAAATATATT
* *
22227826 AATAATCATGCAATAAAAGTA-AAT
1 AATAATCATGCAATTAAA-TATATT
* *
22227850 -ATAATCATACAAATAAATATATT
1 AATAATCATGCAATTAAATATATT
22227873 AATAATCATGC----AAATATATT
1 AATAATCATGCAATTAAATATATT
*
22227893 AATAAATCA--CAA--AAATAAATAT
1 AAT-AATCATGCAATTAAATATAT-T
* *
22227915 ATTAATCATGCAAATAAATATATT
1 AATAATCATGCAATTAAATATATT
22227939 A
1 A
22227940 GGCAAATAAA
Statistics
Matches: 131, Mismatches: 16, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.01
20 12 0.09
21 31 0.24
22 8 0.06
23 20 0.15
24 50 0.38
25 9 0.07
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.32
Consensus pattern (24 bp):
AATAATCATGCAATTAAATATATT
Found at i:22227800 original size:83 final size:83
Alignment explanation
Indices: 22227562--22227761 Score: 294
Period size: 83 Copynumber: 2.4 Consensus size: 83
22227552 TTGTGCAAAT
** * * **
22227562 AAATATGCAATTAAATATATAATCATGTAAATAATAATACATAAATCATGCAATTATGTGAATAA
1 AAATATGCAATTAAATATATAATCATACAAATAATAATACATAAATCATACAATCATGCAAATAA
*
22227627 TAATATATAAATCATACA
66 TAATATATAAACCATACA
* * *
22227645 AAATATGCAATTAAATATATAATCATGCAAATAATAATACATAAATCATGCAATCATGTAAATAA
1 AAATATGCAATTAAATATATAATCATACAAATAATAATACATAAATCATACAATCATGCAAATAA
22227710 TAATATATAAACCA-AGCA
66 TAATATATAAACCATA-CA
22227728 AAATATGCAATTAAATATATAATCATACAAATAA
1 AAATATGCAATTAAATATATAATCATACAAATAA
22227762 ACATGCAATT
Statistics
Matches: 111, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
82 1 0.01
83 110 0.99
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.30
Consensus pattern (83 bp):
AAATATGCAATTAAATATATAATCATACAAATAATAATACATAAATCATACAATCATGCAAATAA
TAATATATAAACCATACA
Found at i:22227814 original size:24 final size:24
Alignment explanation
Indices: 22227779--22227939 Score: 162
Period size: 24 Copynumber: 7.0 Consensus size: 24
22227769 ATTTAAATAT
22227779 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
22227803 ATAATCAAGCAATTAAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
22227827 ATAATCATGC-AATAAA-AGTA-AA
1 ATAATCATGCAAATAAATA-TATTA
*
22227849 TATAATCATACAAATAAATATATTA
1 -ATAATCATGCAAATAAATATATTA
22227874 ATAATCATGC----AAATATATTA
1 ATAATCATGCAAATAAATATATTA
***
22227894 ATAAATCACAAAAATAAATATA-T-
1 AT-AATCATGCAAATAAATATATTA
22227917 -TAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
22227940 GGCAAATAAA
Statistics
Matches: 111, Mismatches: 14, Indels: 25
0.74 0.09 0.17
Matches are distributed among these distances:
20 12 0.11
21 21 0.19
22 4 0.04
23 16 0.14
24 49 0.44
25 9 0.08
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.32
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:22227863 original size:71 final size:67
Alignment explanation
Indices: 22227777--22227939 Score: 206
Period size: 71 Copynumber: 2.4 Consensus size: 67
22227767 CAATTTAAAT
*
22227777 ATATAATCATGCAAATAAATATATTAATAATCAAGCAATTAAATATATTAAT-AATCATGCAATA
1 ATATAATCATGCAAATAAATATATTAATAATCAAGC----AAATATATTAATAAATCA--CAAAA
*
22227841 A-AAGTAA
60 ATAAATAA
* *
22227848 ATATAATCATACAAATAAATATATTAATAATCATGCAAATATATTAATAAATCACAAAAATAAAT
1 ATATAATCATGCAAATAAATATATTAATAATCAAGCAAATATATTAATAAATCACAAAAATAAAT
*
22227913 AT
66 AA
22227915 AT-TAATCATGCAAATAAATATATTA
1 ATATAATCATGCAAATAAATATATTA
22227940 GGCAAATAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
66 27 0.32
67 18 0.21
68 5 0.06
71 34 0.40
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.32
Consensus pattern (67 bp):
ATATAATCATGCAAATAAATATATTAATAATCAAGCAAATATATTAATAAATCACAAAAATAAAT
AA
Found at i:22227929 original size:17 final size:17
Alignment explanation
Indices: 22227909--22227965 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
22227899 TCACAAAAAT
22227909 AAATATATTAATCATGC
1 AAATATATTAATCATGC
* * *
22227926 AAATA-AATATATTAGGC
1 AAATATATTA-ATCATGC
*
22227943 AAATAAATT-ATCATGC
1 AAATATATTAATCATGC
22227959 AAATATA
1 AAATATA
22227966 ATATTAGTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
16 14 0.45
17 15 0.48
18 2 0.06
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.32
Consensus pattern (17 bp):
AAATATATTAATCATGC
Found at i:22227948 original size:71 final size:68
Alignment explanation
Indices: 22227772--22227939 Score: 186
Period size: 66 Copynumber: 2.5 Consensus size: 68
22227762 ACATGCAATT
*
22227772 TAAATATA-TAATCATGCAAATAAATATATTAATAATCAAGCAATTAAATATATTAATAATCATG
1 TAAATATATTAATCATGCAAATAAATATATTAA-AAT-AAGCAATCAAATATATTAATAATCA-G
*
22227836 CAATAA
63 CAAAAA
* * * *
22227842 -AAGTAAATATAATCATACAAATAAATATATT--AATAATC-ATGCAAATATATTAATAAATCA-
1 TAAATATAT-TAATCATGCAAATAAATATATTAAAATAAGCAAT-CAAATATATTAAT-AATCAG
22227902 CAAAAA
63 CAAAAA
22227908 TAAATATATTAATCATGCAAATAAATATATTA
1 TAAATATATTAATCATGCAAATAAATATATTA
22227940 GGCAAATAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
66 28 0.34
67 21 0.25
68 8 0.10
69 5 0.06
71 21 0.25
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (68 bp):
TAAATATATTAATCATGCAAATAAATATATTAAAATAAGCAATCAAATATATTAATAATCAGCAA
AAA
Found at i:22230606 original size:14 final size:13
Alignment explanation
Indices: 22230589--22230629 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
22230579 TGAAATTTTC
22230589 TTAAAAAAATAATT
1 TTAAAAAAA-AATT
*
22230603 TTAAAAAAAATTT
1 TTAAAAAAAAATT
*
22230616 TTAATAAAAAATT
1 TTAAAAAAAAATT
22230629 T
1 T
22230630 AAATTGATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAAAAAAAAATT
Found at i:22231186 original size:12 final size:11
Alignment explanation
Indices: 22231161--22231199 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
22231151 TATTTATGTA
22231161 TTTTCTTTTTC
1 TTTTCTTTTTC
22231172 TTTTCTTTCTTC
1 TTTTCTTT-TTC
*
22231184 TTTGTATTTTTC
1 TTT-TCTTTTTC
22231196 TTTT
1 TTTT
22231200 TGAATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 9 0.36
12 12 0.48
13 4 0.16
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:22232462 original size:17 final size:18
Alignment explanation
Indices: 22232440--22232489 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
22232430 AAAGAAAATG
22232440 ATAAAATA-GAAATTATA
1 ATAAAATATGAAATTATA
*
22232457 ATAAAAAATGAAATTATA
1 ATAAAATATGAAATTATA
22232475 A-AAAATTAT-AAATTA
1 ATAAAA-TATGAAATTA
22232490 ATAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAAAATATGAAATTATA
Found at i:22232469 original size:18 final size:18
Alignment explanation
Indices: 22232442--22232479 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
22232432 AGAAAATGAT
22232442 AAAATAGAAATTATAATAA
1 AAAATAGAAATTATAA-AA
22232461 AAAAT-GAAATTATAAAA
1 AAAATAGAAATTATAAAA
22232478 AA
1 AA
22232480 TTATAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 10 0.53
19 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAATAGAAATTATAAAA
Found at i:22232514 original size:5 final size:5
Alignment explanation
Indices: 22232504--22232529 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22232494 ATTATTATAC
22232504 TTAAA TTAAA TTAAA TTAAA TTAAA T
1 TTAAA TTAAA TTAAA TTAAA TTAAA T
22232530 ATAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TTAAA
Found at i:22234180 original size:24 final size:24
Alignment explanation
Indices: 22234148--22234193 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22234138 ACTATTTTTG
* *
22234148 TGTTTTATTTTTGTATCATATTAA
1 TGTTATATTATTGTATCATATTAA
*
22234172 TGTTATATTATTGTATCGTATT
1 TGTTATATTATTGTATCATATT
22234194 TTAAATTACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (24 bp):
TGTTATATTATTGTATCATATTAA
Found at i:22236141 original size:21 final size:22
Alignment explanation
Indices: 22236090--22236141 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
22236080 TCTTAGCTGG
* *
22236090 CATTATATGCCCAATTAACCTT
1 CATTATATGGCCAATGAACCTT
22236112 -ATTATATGGCCAATGAACCTT
1 CATTATATGGCCAATGAACCTT
22236133 CATTA-ATGG
1 CATTATATGG
22236142 ACAGATTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (22 bp):
CATTATATGGCCAATGAACCTT
Found at i:22238567 original size:6 final size:6
Alignment explanation
Indices: 22238558--22238797 Score: 90
Period size: 6 Copynumber: 39.3 Consensus size: 6
22238548 TAATAATAAG
* *
22238558 TAAAAA TAAAAAA TCTAAAAA T-AAAA TGAAAA TAAAATA GAAAAA GT-AAAA
1 TAAAAA T-AAAAA --TAAAAA TAAAAA TAAAAA TAAAA-A TAAAAA -TAAAAA
* * * * *
22238609 T-AAAA TAATAAT TAAAGA TGAAAA TAATAA TAATAAG TAAAAA TAAAAAAA
1 TAAAAA TAA-AAA TAAAAA TAAAAA TAAAAA TAA-AAA TAAAAA T--AAAAA
* * * *
22238660 TGAAAA T-AAAA TAAAGAA GT-AAAA T-AAAA TAATAAT TAAAGA TGAAAA
1 TAAAAA TAAAAA TAAA-AA -TAAAAA TAAAAA TAA-AAA TAAAAA TAAAAA
* * * * **
22238708 TAATAA TAATAA TAATAA T--AAG TAAAAA T-AAAA TAAATC TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
*
22238753 T-AAAA TAAAAA TGGAAAAA GT-AAAA T-AAAA TCAAAA TAGAAAA TA
1 TAAAAA TAAAAA T--AAAAA -TAAAAA TAAAAA TAAAAA TA-AAAA TA
22238798 GGATGAAAGA
Statistics
Matches: 180, Mismatches: 29, Indels: 49
0.70 0.11 0.19
Matches are distributed among these distances:
4 2 0.01
5 38 0.21
6 87 0.48
7 34 0.19
8 17 0.09
9 2 0.01
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (6 bp):
TAAAAA
Found at i:22238602 original size:19 final size:18
Alignment explanation
Indices: 22238580--22238797 Score: 75
Period size: 19 Copynumber: 11.7 Consensus size: 18
22238570 ATCTAAAAAT
22238580 AAAATGAAAATAAAATAGA
1 AAAATGAAAATAAAATA-A
22238599 AAAA-GTAAAATAAAAT-A
1 AAAATG-AAAATAAAATAA
* *
22238616 ATAATTAAAGATGAAAATAA
1 AAAATGAAA-AT-AAAATAA
*
22238636 TAATAAT--AAGTAAAAATAAA
1 -AA-AATGAAAAT-AAAAT-AA
22238656 AAAATGAAAATAAAATAA
1 AAAATGAAAATAAAATAA
*
22238674 AGAA-GTAAAATAAAAT-A
1 AAAATG-AAAATAAAATAA
* *
22238691 ATAATTAAAGATGAAAATAA
1 AAAATGAAA-AT-AAAATAA
22238711 TAATAAT-AATAATAATAAGT-A
1 -AA-AATGAA-AATAA-AA-TAA
*
22238732 AAAAT-AAAAT-AAATCTA
1 AAAATGAAAATAAAAT-AA
*
22238749 AAAAT-AAAATAAAAATGGA
1 AAAATGAAAAT-AAAAT-AA
*
22238768 AAAA-GTAAAATAAAAT-C
1 AAAATG-AAAATAAAATAA
22238785 AAAATAGAAAATA
1 AAAAT-GAAAATA
22238798 GGATGAAAGA
Statistics
Matches: 158, Mismatches: 13, Indels: 57
0.69 0.06 0.25
Matches are distributed among these distances:
15 1 0.01
16 2 0.01
17 31 0.20
18 32 0.20
19 57 0.36
20 18 0.11
21 9 0.06
22 8 0.05
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (18 bp):
AAAATGAAAATAAAATAA
Found at i:22238637 original size:3 final size:3
Alignment explanation
Indices: 22238631--22238743 Score: 62
Period size: 3 Copynumber: 37.7 Consensus size: 3
22238621 TAAAGATGAA
* * *
22238631 AAT AAT AAT AAT AAGT AAA AAT AA- AAA AAT GAA- AAT AA- AAT AAAG
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT
22238676 AAGT AA- AAT AA- AAT AAT AATT AA- AGAT GAA- AAT AAT AAT AAT AAT
1 AA-T AAT AAT AAT AAT AAT AA-T AAT A-AT -AAT AAT AAT AAT AAT AAT
*
22238721 AAT AAT AAGT AAA AAT AA- AAT AA
1 AAT AAT AA-T AAT AAT AAT AAT AA
22238744 ATCTAAAAAT
Statistics
Matches: 87, Mismatches: 7, Indels: 32
0.69 0.06 0.25
Matches are distributed among these distances:
2 15 0.17
3 55 0.63
4 16 0.18
5 1 0.01
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:22238663 original size:33 final size:32
Alignment explanation
Indices: 22238626--22238688 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
22238616 ATAATTAAAG
*
22238626 ATGAAAATAATAAT-AATAAGTAAAAATAAAAAA
1 ATGAAAATAA-AATAAAGAAGT-AAAATAAAAAA
22238659 ATGAAAATAAAATAAAGAAGTAAAATAAAA
1 ATGAAAATAAAATAAAGAAGTAAAATAAAA
22238689 TAATAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (32 bp):
ATGAAAATAAAATAAAGAAGTAAAATAAAAAA
Found at i:22238691 original size:75 final size:74
Alignment explanation
Indices: 22238524--22238762 Score: 243
Period size: 75 Copynumber: 3.1 Consensus size: 74
22238514 AAGTAATGAG
* * * *
22238524 TAAAATAATAATTAAAGAAGAAAATAATAATAAGTAAAAATAAAAAATCTAAAAAT-AAAATGAA
1 TAAAATAATAATTAAAGATGAAAATAATAATAA-TAATAA-AAATAA--GAAAAATGAAAAT-AA
*
22238588 AATAAAATAGAAAAA
61 AATAAAA-AGTAAAA
22238603 GTAAAATAAAATAATAATTAAAGATGAAAATAATAATAATAAGTAAAAATAA-AAAAATGAAAAT
1 -T--AA-A--ATAATAATTAAAGATGAAAATAATAATAATAA-TAAAAATAAGAAAAATGAAAAT
22238667 AAAATAAAGAAGTAAAA
59 AAAATAAA-AAGTAAAA
* *
22238684 TAAAATAATAATTAAAGATGAAAATAATAATAATAATAATAATAAGTAAAAAT-AAAATAAATCT
1 TAAAATAATAATTAAAGATGAAAATAATAATAATAATAAAAATAAG-AAAAATGAAAATAAA-AT
22238748 AAAAA-TAAAA
64 AAAAAGTAAAA
22238758 TAAAA
1 TAAAA
22238763 ATGGAAAAAG
Statistics
Matches: 142, Mismatches: 6, Indels: 28
0.81 0.03 0.16
Matches are distributed among these distances:
74 18 0.13
75 42 0.30
76 10 0.07
77 1 0.01
78 2 0.01
80 2 0.01
81 20 0.14
82 8 0.06
83 1 0.01
84 8 0.06
85 30 0.21
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.22
Consensus pattern (74 bp):
TAAAATAATAATTAAAGATGAAAATAATAATAATAATAAAAATAAGAAAAATGAAAATAAAATAA
AAAGTAAAA
Found at i:22238764 original size:75 final size:75
Alignment explanation
Indices: 22238580--22238762 Score: 275
Period size: 75 Copynumber: 2.4 Consensus size: 75
22238570 ATCTAAAAAT
*
22238580 AAAATGAAAATAAAATAGAAAAAGTAAAATAAAATAATAATTAAAGATGAAAATAATAATAATAA
1 AAAATGAAAAT-AAATATAAAAAGTAAAATAAAATAATAATTAAAGATGAAAATAATAATAATAA
22238645 GTAAAAATAAA
65 GTAAAAATAAA
22238656 AAAATGAAAATAAA-ATAAAGAAGTAAAATAAAATAATAATTAAAGATGAAAATAATAATAATAA
1 AAAATGAAAATAAATATAAA-AAGTAAAATAAAATAATAATTAAAGATGAAAATAATAATAATAA
*
22238720 -TAATAATAAGTA
65 GTAAAAATAA--A
*
22238732 AAAAT-AAAATAAATCTAAAAA-TAAAATAAAA
1 AAAATGAAAATAAATATAAAAAGTAAAATAAAA
22238763 ATGGAAAAAG
Statistics
Matches: 100, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
74 22 0.22
75 57 0.57
76 21 0.21
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.22
Consensus pattern (75 bp):
AAAATGAAAATAAATATAAAAAGTAAAATAAAATAATAATTAAAGATGAAAATAATAATAATAAG
TAAAAATAAA
Found at i:22239958 original size:65 final size:65
Alignment explanation
Indices: 22239888--22240044 Score: 192
Period size: 65 Copynumber: 2.4 Consensus size: 65
22239878 AAATAAACTC
* * **
22239888 TAGGTCTAAAAAATAAAATGATCTAGAATGAATCAAGATTAAAAAGGGTGA-TTGGAATTGAATC
1 TAGGTCTAAAAAATAAAATGATCTAGAATGAATCAAGATCAAAAAGAGTGACTAAG-ATTGAATC
22239952 G
65 G
* * * * *
22239953 TAGGTCCAAAAAATAAAATGATCTAGATTGAGTTAAGATCAAAACGAGTGACTAAGATTGAATCG
1 TAGGTCTAAAAAATAAAATGATCTAGAATGAATCAAGATCAAAAAGAGTGACTAAGATTGAATCG
*
22240018 TAGGT-TAAAAAAATAAAATTATCTAGA
1 TAGGTCT-AAAAAATAAAATGATCTAGA
22240045 CTAACCCGAG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 77 0.97
66 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.26
Consensus pattern (65 bp):
TAGGTCTAAAAAATAAAATGATCTAGAATGAATCAAGATCAAAAAGAGTGACTAAGATTGAATCG
Found at i:22243388 original size:2 final size:2
Alignment explanation
Indices: 22243371--22243409 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
22243361 TTGTCTAAGC
* *
22243371 AT AT AA AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22243410 CTTCAGACCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:22243902 original size:37 final size:37
Alignment explanation
Indices: 22243852--22243922 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
22243842 ATTATACTGA
*
22243852 AGTTGTATTATCACTTGCATTCACACTTGCATGTAAT
1 AGTTGTATTATCACTTGCATTCACACTTCCATGTAAT
*
22243889 AGTTGTATTATCACTTGCATTCGCACTTCCATGT
1 AGTTGTATTATCACTTGCATTCACACTTCCATGT
22243923 GCATCATGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (37 bp):
AGTTGTATTATCACTTGCATTCACACTTCCATGTAAT
Found at i:22243966 original size:32 final size:32
Alignment explanation
Indices: 22243925--22243985 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
22243915 TTCCATGTGC
22243925 ATCATGAGAAAAACATTTGCATTCACATTTGT
1 ATCATGAGAAAAACATTTGCATTCACATTTGT
* *
22243957 ATCATGAGAAAGACATTTGCATTTACATT
1 ATCATGAGAAAAACATTTGCATTCACATT
22243986 ATCTACATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (32 bp):
ATCATGAGAAAAACATTTGCATTCACATTTGT
Found at i:22244282 original size:19 final size:18
Alignment explanation
Indices: 22244254--22244289 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
22244244 TTTAAGTAGT
*
22244254 AAAAAAAAAGTGAAAAAC
1 AAAAAAAAAGAGAAAAAC
22244272 AAAAAAGAAAGAGAAAAA
1 AAAAAA-AAAGAGAAAAA
22244290 TAATGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAGAGAAAAAC
Found at i:22244592 original size:21 final size:21
Alignment explanation
Indices: 22244540--22244598 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
22244530 CAAATTAAGC
22244540 CCAAATTAG-TTGGCACCCAAG
1 CCAAATTAGCTT-GCACCCAAG
* *
22244561 CCTAGATTAGCTTGTACCCAAG
1 CC-AAATTAGCTTGCACCCAAG
22244583 CCAAATTAGCTTGCAC
1 CCAAATTAGCTTGCAC
22244599 TTTAGCTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 14 0.44
22 16 0.50
23 2 0.06
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
CCAAATTAGCTTGCACCCAAG
Found at i:22245270 original size:22 final size:21
Alignment explanation
Indices: 22245245--22245348 Score: 82
Period size: 22 Copynumber: 4.8 Consensus size: 21
22245235 AGACCTCCAA
22245245 GCATAATCTCTAAGACTTTCGG
1 GCATAATCTCTAAGACTTT-GG
* * *
22245267 GCATAATCTTTAAGATTTTTGA
1 GCATAATCTCTAAGA-CTTTGG
* *
22245289 ACATAATCTCTAATACTTATGG
1 GCATAATCTCTAAGACTT-TGG
* * **
22245311 GCATAATCTTTAAGATCCTTAA
1 GCATAATCTCTAAGA-CTTTGG
*
22245333 GCATAATCTTTAAGAC
1 GCATAATCTCTAAGAC
22245349 CTCTAGATAA
Statistics
Matches: 65, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
21 3 0.05
22 57 0.88
23 5 0.08
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (21 bp):
GCATAATCTCTAAGACTTTGG
Found at i:22245294 original size:44 final size:44
Alignment explanation
Indices: 22245243--22245348 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
22245233 TAAGACCTCC
**
22245243 AAGCATAATCTCTAAGACTT-TCGGGCATAATCTTTAAGATTTTT
1 AAGCATAATCTCTAAGACTTAT-GGGCATAATCTTTAAGATCCTT
*
22245287 GAA-CATAATCTCTAATACTTATGGGCATAATCTTTAAGATCCTT
1 -AAGCATAATCTCTAAGACTTATGGGCATAATCTTTAAGATCCTT
*
22245331 AAGCATAATCTTTAAGAC
1 AAGCATAATCTCTAAGAC
22245349 CTCTAGATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.04
44 49 0.91
45 3 0.06
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (44 bp):
AAGCATAATCTCTAAGACTTATGGGCATAATCTTTAAGATCCTT
Found at i:22245557 original size:82 final size:81
Alignment explanation
Indices: 22245357--22245596 Score: 279
Period size: 82 Copynumber: 2.9 Consensus size: 81
22245347 ACCTCTAGAT
* * * * * *
22245357 AAAACATTTTAAATTTTTAAAGTTTCGAGGCCTT-AAATTAGAGGAGCTTTCATACATGACAAGT
1 AAAACATTTTAAAATTTTAAAGTTTCAAGG-CTTCTAA-TAAAAGAGCTTTCATACATGACAAGA
* *
22245421 TCTTTAAGACCTCCGAGC
64 TCTCTAAGACCTCCAAGC
* *
22245439 AAAACATTTT-AAATCTTTAAAGTTTCAA-GATCTCTAATAAAAGAAGCCTTCATACATGACAAG
1 AAAACATTTTAAAAT-TTTAAAGTTTCAAGGCT-TCTAATAAAAG-AGCTTTCATACATGACAAG
22245502 ATCTCTAAGACCTCCAAGC
63 ATCTCTAAGACCTCCAAGC
* * **
22245521 AAAATATTTTAAAATTTTAAAGTTTCAAGGCTTCTAATCAAATGAGCTTTCATACACAACAAGAT
1 AAAACATTTTAAAATTTTAAAGTTTCAAGGCTTCTAAT-AAAAGAGCTTTCATACATGACAAGAT
22245586 CTCTAAGACCT
65 CTCTAAGACCT
22245597 TTAGACATAA
Statistics
Matches: 135, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
80 1 0.01
81 9 0.07
82 115 0.85
83 10 0.07
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (81 bp):
AAAACATTTTAAAATTTTAAAGTTTCAAGGCTTCTAATAAAAGAGCTTTCATACATGACAAGATC
TCTAAGACCTCCAAGC
Found at i:22245614 original size:22 final size:22
Alignment explanation
Indices: 22245584--22245664 Score: 108
Period size: 22 Copynumber: 3.7 Consensus size: 22
22245574 ACACAACAAG
**
22245584 ATCTCTAAGACCTTTAGACATA
1 ATCTCTAAGACCTTCGGACATA
* *
22245606 ATCTTTAAGACCTTCGGGCATA
1 ATCTCTAAGACCTTCGGACATA
* *
22245628 ATCTTTAAGATCTTCGGACATA
1 ATCTCTAAGACCTTCGGACATA
22245650 ATCTCTAAGACCTTC
1 ATCTCTAAGACCTTC
22245665 AAGCAAAACA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCTCTAAGACCTTCGGACATA
Found at i:22245983 original size:14 final size:14
Alignment explanation
Indices: 22245943--22245984 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
22245933 CAAAATCACA
*
22245943 AAATCAAAAAATAAA
1 AAATCAAAAAA-AAC
22245958 AAAT-AAAAAAAAC
1 AAATCAAAAAAAAC
*
22245971 AAATCAAGAAAAAC
1 AAATCAAAAAAAAC
22245985 CAAAAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 6 0.25
14 14 0.58
15 4 0.17
ACGTcount: A:0.79, C:0.10, G:0.02, T:0.10
Consensus pattern (14 bp):
AAATCAAAAAAAAC
Found at i:22248686 original size:2 final size:2
Alignment explanation
Indices: 22248641--22248668 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22248631 CATGATTGGA
22248641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22248669 CCATATTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22253947 original size:53 final size:53
Alignment explanation
Indices: 22253847--22254002 Score: 212
Period size: 53 Copynumber: 3.0 Consensus size: 53
22253837 ATAACCACTT
* * *
22253847 AAACTTGCCTGTTAA-AATCCATTTTCTT-TTAGAATTCTTCTCCTGCAAGTC
1 AAACTTGCCTATTAAGAATCCCTTTTCTTCTTAGAATTCTTCTCTTGCAAGTC
* *
22253898 AAACTTGCTTATTAAGAATCCCTTTTCTTCTTAAAATTCTTCTCTTGCAAGTC
1 AAACTTGCCTATTAAGAATCCCTTTTCTTCTTAGAATTCTTCTCTTGCAAGTC
* *
22253951 AAACTTTCCTATTAAGAAT-CCTCTTTC-TCTTAGAATTCTTCTTTTGCAAGTC
1 AAACTTGCCTATTAAGAATCCCT-TTTCTTCTTAGAATTCTTCTCTTGCAAGTC
22254003 TTCTTATCCA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
51 13 0.14
52 38 0.41
53 42 0.45
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (53 bp):
AAACTTGCCTATTAAGAATCCCTTTTCTTCTTAGAATTCTTCTCTTGCAAGTC
Found at i:22255384 original size:2 final size:2
Alignment explanation
Indices: 22255377--22255410 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
22255367 TTGCCTAAGC
*
22255377 AT AT AT AT AT AT AT AT AT AT AT CAT CT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT A
22255411 AAAGTGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22255663 original size:153 final size:154
Alignment explanation
Indices: 22255417--22255730 Score: 434
Period size: 153 Copynumber: 2.0 Consensus size: 154
22255407 TATAAAAGTG
* * * * * *
22255417 TAAACTCTAAAAGTATTAAAAGTGAATGACATAAATACCCTTATGAATTTTAAGAAATAACAAAG
1 TAAA-TCTAAAAATATTAAAAATAAATAACATAAATACCCTTATAAATTTTAAAAAATAACAAAG
* * *
22255482 TTATCTTTAAATTTCTAGCATTTTTTATTTATTTAATAAAGATTATTTGTCATTAAATATATAAC
65 TTATATTTAAATTTCTAGCATTATTTATTTATTTAATAAAGATTATTTGACATTAAATATATAAC
22255547 -TTCTATT-AGTTAGTTATTTAAATT
130 TTTCTATTCA-TTAGTTATTTAAATT
* * *
22255571 TAAATCTAAAAATGTTAAAAATAAATAACATAAATACCCTTATAAATTTTAAAAAATAGCAAATT
1 TAAATCTAAAAATATTAAAAATAAATAACATAAATACCCTTATAAATTTTAAAAAATAACAAAGT
* * * * *
22255636 TATATTTCAATTTTTAGCATTATTTATTTATTTAATAATGATTATTTGACATTAACTTTATAACT
66 TATATTTAAATTTCTAGCATTATTTATTTATTTAATAAAGATTATTTGACATTAAATATATAACT
*
22255701 TTTTATTCATTAGTTATTTAAATT
131 TTCTATTCATTAGTTATTTAAATT
22255725 TAAATC
1 TAAATC
22255731 AATTAAAAAT
Statistics
Matches: 140, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
153 108 0.77
154 31 0.22
155 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (154 bp):
TAAATCTAAAAATATTAAAAATAAATAACATAAATACCCTTATAAATTTTAAAAAATAACAAAGT
TATATTTAAATTTCTAGCATTATTTATTTATTTAATAAAGATTATTTGACATTAAATATATAACT
TTCTATTCATTAGTTATTTAAATT
Found at i:22257547 original size:16 final size:16
Alignment explanation
Indices: 22257510--22257613 Score: 95
Period size: 15 Copynumber: 6.5 Consensus size: 16
22257500 TTAAAGGTTT
* *
22257510 GGGATTTCGAATTTTAA
1 GGGATTTTGGATTTT-A
* *
22257527 GGGGTTTCGGATTTTA
1 GGGATTTTGGATTTTA
* *
22257543 GGG-GTTTGGATTTAA
1 GGGATTTTGGATTTTA
22257558 GGGATTTTGGATTTTA
1 GGGATTTTGGATTTTA
22257574 -GGATTTTGGATTTTAA
1 GGGATTTTGGATTTT-A
* *
22257590 GGAATTTTGAATTTTA
1 GGGATTTTGGATTTTA
*
22257606 GGGGTTTT
1 GGGATTTT
22257614 AGAAACCTAG
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
15 26 0.36
16 22 0.30
17 25 0.34
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (16 bp):
GGGATTTTGGATTTTA
Found at i:22257555 original size:15 final size:15
Alignment explanation
Indices: 22257520--22257612 Score: 78
Period size: 16 Copynumber: 5.9 Consensus size: 15
22257510 GGGATTTCGA
22257520 ATTTTAAGGGGTTTCGG
1 ATTTT-AGGGGTTT-GG
22257537 ATTTTAGGGGTTTGG
1 ATTTTAGGGGTTTGG
* *
22257552 ATTTAAGGGATTTTGG
1 ATTTTAGGG-GTTTGG
**
22257568 ATTTTAGGATTTTGG
1 ATTTTAGGGGTTTGG
** *
22257583 ATTTTAAGGAATTTTGA
1 ATTTT-AGG-GGTTTGG
22257600 ATTTTAGGGGTTT
1 ATTTTAGGGGTTT
22257613 TAGAAACCTA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
15 24 0.36
16 26 0.39
17 16 0.24
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (15 bp):
ATTTTAGGGGTTTGG
Found at i:22257557 original size:31 final size:32
Alignment explanation
Indices: 22257520--22257612 Score: 125
Period size: 31 Copynumber: 2.9 Consensus size: 32
22257510 GGGATTTCGA
* *
22257520 ATTTTAAGGGGTTTCGGATTTTAGGGGTTTGG
1 ATTTTAAGGGATTTTGGATTTTAGGGGTTTGG
**
22257552 A-TTTAAGGGATTTTGGATTTTAGGATTTTGG
1 ATTTTAAGGGATTTTGGATTTTAGGGGTTTGG
* *
22257583 ATTTTAAGGAATTTTGAATTTTAGGGGTTT
1 ATTTTAAGGGATTTTGGATTTTAGGGGTTT
22257613 TAGAAACCTA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 27 0.52
32 25 0.48
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (32 bp):
ATTTTAAGGGATTTTGGATTTTAGGGGTTTGG
Found at i:22258661 original size:21 final size:20
Alignment explanation
Indices: 22258637--22258683 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
22258627 GAGGACTGTG
22258637 TTGTTTTT-TTTTTCTTATGTT
1 TTGTTTTTGTTTTT-TTAT-TT
22258658 TTGTTTTTGTTTTTTTATTT
1 TTGTTTTTGTTTTTTTATTT
22258678 TT-TTTT
1 TTGTTTT
22258684 GTTCTAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.16
20 4 0.16
21 12 0.48
22 5 0.20
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.85
Consensus pattern (20 bp):
TTGTTTTTGTTTTTTTATTT
Found at i:22259276 original size:38 final size:38
Alignment explanation
Indices: 22259234--22259320 Score: 95
Period size: 39 Copynumber: 2.3 Consensus size: 38
22259224 CATTTTTTTA
* * *
22259234 ACCACAAGTCAAATGATAAA-GAAAACGATCGGGACAAC
1 ACCACAAGTCAAA-CATAAACAAAAACGACCGGGACAAC
* *
22259272 ACCACAAGTTGAGACATAAACAAAAACGACCGGGACAAC
1 ACCACAAG-TCAAACATAAACAAAAACGACCGGGACAAC
*
22259311 ACCGCAAGTC
1 ACCACAAGTC
22259321 GAGAAGTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
38 14 0.35
39 26 0.65
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.09
Consensus pattern (38 bp):
ACCACAAGTCAAACATAAACAAAAACGACCGGGACAAC
Found at i:22259386 original size:37 final size:37
Alignment explanation
Indices: 22259305--22259396 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 37
22259295 AAACGACCGG
* * *
22259305 GACAACACCGC-AAGTCGAGAAGTAAAGAATCGATCAA
1 GACAACACCGCGAA-TCAAGAAATAAAGAATCAATCAA
* * **
22259342 GATAACACTGCGAATCAAGAAATAAAGAATCAATTGA
1 GACAACACCGCGAATCAAGAAATAAAGAATCAATCAA
*
22259379 GACAACACCACGAATCAA
1 GACAACACCGCGAATCAA
22259397 AATCATGCCC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
37 42 0.95
38 2 0.05
ACGTcount: A:0.49, C:0.21, G:0.17, T:0.13
Consensus pattern (37 bp):
GACAACACCGCGAATCAAGAAATAAAGAATCAATCAA
Found at i:22259565 original size:87 final size:86
Alignment explanation
Indices: 22259419--22259614 Score: 234
Period size: 87 Copynumber: 2.3 Consensus size: 86
22259409 AGGTCTTACA
* * * * * ***
22259419 AAAATCATGGCTAGAGGTCTTATAGAATTGACTGGGACAACACTGTAAGTTAAGAATAATGAATC
1 AAAATTATGCCTAGAGGTCTTACAGAATCGACTAGGACAACACCACAAGTTAAGAATAATGAATC
* *
22259484 GATATC-GATAACACTGTGAATC
66 -A-ATCGGATAACACCGCGAATC
*
22259506 AAAATTATGCCTAGAGGTCTTACAGAATCGACTAGGACAACACCACAAGTTGAGAATAATGAATC
1 AAAATTATGCCTAGAGGTCTTACAGAATCGACTAGGACAACACCACAAGTTAAGAATAATGAATC
22259571 AATCGGGATAACACCGCGAATC
66 AATC-GGATAACACCGCGAATC
*
22259593 AAAATTATGTCC-GGAGGTCTTA
1 AAAATTATG-CCTAGAGGTCTTA
22259615 GAAATCATGC
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
85 3 0.03
86 1 0.01
87 88 0.94
88 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (86 bp):
AAAATTATGCCTAGAGGTCTTACAGAATCGACTAGGACAACACCACAAGTTAAGAATAATGAATC
AATCGGATAACACCGCGAATC
Found at i:22259679 original size:109 final size:109
Alignment explanation
Indices: 22259522--22259723 Score: 291
Period size: 109 Copynumber: 1.9 Consensus size: 109
22259512 ATGCCTAGAG
* * *
22259522 GTCTTACAGAATCGACTAGGACAACACCACAAGTTGAGAATAATGAATCAATCGGGATAACACCG
1 GTCTTACAGAATCGACTAGGACAACACCACAAGTTCAAAATAAAGAATCAATCGGGATAACACCG
* *
22259587 CGAATCAAAATTATGTCCGGAGGTCTTAGAAATCATGCTCGAAA
66 CGAATCAAAATCATGCCCGGAGGTCTTAGAAATCATGCTCGAAA
* * *
22259631 GTCTTACAGAATCGACT-GGAATAACACCGCAAG-TCAAAATTAAAGAATCGATCGGGATAACAC
1 GTCTTACAGAATCGACTAGG-ACAACACCACAAGTTCAAAA-TAAAGAATCAATCGGGATAACAC
*
22259694 CGCGAATCGAAATCATGCCCGGAGGTCTTA
64 CGCGAATCAAAATCATGCCCGGAGGTCTTA
22259724 TAGAATCGAC
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
108 6 0.07
109 76 0.93
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (109 bp):
GTCTTACAGAATCGACTAGGACAACACCACAAGTTCAAAATAAAGAATCAATCGGGATAACACCG
CGAATCAAAATCATGCCCGGAGGTCTTAGAAATCATGCTCGAAA
Found at i:22259721 original size:196 final size:196
Alignment explanation
Indices: 22259362--22259810 Score: 542
Period size: 196 Copynumber: 2.3 Consensus size: 196
22259352 CGAATCAAGA
* * * * * * *
22259362 AATAAAGAATCAATTGAGACAACACCACGAATCAAAATCATGCCCGAAGGTCTTACAAAAATCAT
1 AATAATGAATCAATCGGGATAACACCGCGAATCAAAATTATGTCCGAAGGTCTT--AAAAATCAT
* * * * * * * * *
22259427 GGCTAGAGGTCTTATAGAATTGACTGGGACAACACTGTAAGTTAAGAATAATGAATCGATATCGA
64 GGCTAGAAGTCTTACAGAATCGACTGGAACAACACCGCAAGTCAAGAATAAAGAATCGATAGCGA
* * * * *
22259492 TAACACTGTGAATCAAAATTATGCCTAGAGGTCTTACAGAATCGACTAGGACAACACCACAAGTT
129 TAACACCGCGAATCAAAATCATGCCCAGAGGTCTTACAGAATCGACTAGGACAACACCACAAGTC
22259557 GAG
194 GAG
* *
22259560 AATAATGAATCAATCGGGATAACACCGCGAATCAAAATTATGTCCGGAGGTCTTAGAAATCAT-G
1 AATAATGAATCAATCGGGATAACACCGCGAATCAAAATTATGTCCGAAGGTCTTAAAAATCATGG
* * * *
22259624 CTCGAAAGTCTTACAGAATCGACTGGAATAACACCGCAAGTCAA-AATTAAAGAATCGATCGGGA
66 CTAG-AAGTCTTACAGAATCGACTGGAACAACACCGCAAGTCAAGAA-TAAAGAATCGATAGCGA
* * * *
22259688 TAACACCGCGAATCGAAATCATGCCCGGAGGTCTTATAGAATCGACTAGGACAACACCGCAAGTC
129 TAACACCGCGAATCAAAATCATGCCCAGAGGTCTTACAGAATCGACTAGGACAACACCACAAGTC
22259753 GAG
194 GAG
* * *
22259756 AATAATGAATCAATCGGGATAACACCGTGAATCGAAATTATGTTCGAAGGTCTTA
1 AATAATGAATCAATCGGGATAACACCGCGAATCAAAATTATGTCCGAAGGTCTTA
22259811 CAGAATCGAC
Statistics
Matches: 214, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
195 6 0.03
196 162 0.76
198 46 0.21
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (196 bp):
AATAATGAATCAATCGGGATAACACCGCGAATCAAAATTATGTCCGAAGGTCTTAAAAATCATGG
CTAGAAGTCTTACAGAATCGACTGGAACAACACCGCAAGTCAAGAATAAAGAATCGATAGCGATA
ACACCGCGAATCAAAATCATGCCCAGAGGTCTTACAGAATCGACTAGGACAACACCACAAGTCGA
G
Found at i:22259883 original size:87 final size:87
Alignment explanation
Indices: 22259615--22259880 Score: 372
Period size: 87 Copynumber: 3.1 Consensus size: 87
22259605 GGAGGTCTTA
* * * *
22259615 GAAATCATGCTCGAAAGTCTTACAGAATCGACTGGAATAACACCGCAAGTCAA-AATTAAAGAAT
1 GAAATCATGCTCGAAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCAAGAA-TAATGAAT
22259679 CGATCGGGATAACACCGCGAATC
65 CGATCGGGATAACACCGCGAATC
* * * * *
22259702 GAAATCATGCCCGGAGGTCTTATAGAATCGACTAGGACAACACCGCAAGTCGAGAATAATGAATC
1 GAAATCATGCTCGAAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCAAGAATAATGAATC
* *
22259767 AATCGGGATAACACCGTGAATC
66 GATCGGGATAACACCGCGAATC
* * * *
22259789 GAAATTATGTTCGAAGGTCTTACAGAATCGACTGGGACAACACCGTAAGTCAAGAAGAATGAATC
1 GAAATCATGCTCGAAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCAAGAATAATGAATC
*
22259854 GATCGGGATAACATCGCGAATC
66 GATCGGGATAACACCGCGAATC
22259876 GAAAT
1 GAAAT
22259881 TATACCTGAA
Statistics
Matches: 155, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
87 153 0.99
88 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.19
Consensus pattern (87 bp):
GAAATCATGCTCGAAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCAAGAATAATGAATC
GATCGGGATAACACCGCGAATC
Found at i:22260515 original size:32 final size:32
Alignment explanation
Indices: 22260473--22261292 Score: 393
Period size: 33 Copynumber: 24.7 Consensus size: 32
22260463 TTCATTTAGA
* *
22260473 GCCAAATAAACTGGGCTTAAATTTTATTGAAG
1 GCCAGATAAACTGGGCTTAAATTTCATTGAAG
* **
22260505 GCCAGCTAAACTGGGCTTAAAACCTCATTTG-AG
1 GCCAGATAAACTGGGCTT-AAATTTCA-TTGAAG
* * * *
22260538 GTCGGATAAACTGGGCTTAAAACTTCATTGATG
1 GCCAGATAAACTGGGCTT-AAATTTCATTGAAG
* * *
22260571 GCCAGATAAACTAGGCTTAAATGTCATTGATG
1 GCCAGATAAACTGGGCTTAAATTTCATTGAAG
* * *
22260603 GCCAGATAAACTTGGTTTAAAGTTTCATTGATG
1 GCCAGATAAACTGGGCTTAAA-TTTCATTGAAG
* * *
22260636 GCTAGATAAACTAGGCTTAAAACTTCATTTG-AG
1 GCCAGATAAACTGGGCTT-AAATTTCA-TTGAAG
* *
22260669 GCCGGATAAACTAGGCTTAAATCTTCATT-AATG
1 GCCAGATAAACTGGGCTTAAAT-TTCATTGAA-G
*
22260702 GCCAGATAAACTGGGCTTAAATTTTATTGAAG
1 GCCAGATAAACTGGGCTTAAATTTCATTGAAG
* * *
22260734 GTCAGTTAAACTGGGCTTAAATTTTATTGAAG
1 GCCAGATAAACTGGGCTTAAATTTCATTGAAG
* * * **
22260766 GTCAGCTAAACTGGGCTTAAAACTTCATTTCAG
1 GCCAGATAAACTGGGCTT-AAATTTCATTGAAG
* * * *
22260799 GCCAAATAAAACTGGGCTTAAAGCTTCATTTAAA
1 GCCAGAT-AAACTGGGCTTAAA-TTTCATTGAAG
*** * * * *** * *
22260833 GCTTCATTAA-TGGCCAGATAAATTGGGTTTAAA
1 GCCAGATAAACTGGGC--TTAAATTTCATTGAAG
**** * * * * * **
22260866 GTTTCATTAA-TGGCCAGATAAACTGGGCTTAAAACTTCATTTA
1 GCCAGATAAACTGGGC--TTAAA-T----TT--CA-TTGA--AG
** * * *
22260909 AGGCTCGATAAACTAGGCTTAAAGCTTT-ATTGATG
1 GC-C-AGATAAACTGGGCTTAAA--TTTCATTGAAG
* * *
22260944 GACAGATAAACTAGGCTTAAAGCTTCATT-AATG
1 GCCAGATAAACTGGGCTTAAA-TTTCATTGAA-G
* *
22260977 GCCAGATAAACTAGGCTTAAATTTTATTGAAG
1 GCCAGATAAACTGGGCTTAAATTTCATTGAAG
* *
22261009 GCCAGCTAAACTGGGCTTAAAGTTTCATTGATG
1 GCCAGATAAACTGGGCTTAAA-TTTCATTGAAG
* * *
22261042 GCTAGATAAACTAGGCTTAAAGCTTT-ATTGATG
1 GCCAGATAAACTGGGCTTAAA--TTTCATTGAAG
** * *
22261075 GATAGATAAACTGAGCTTAAAACTTCATTTG-AG
1 GCCAGATAAACTGGGCTT-AAATTTCA-TTGAAG
*
22261108 GCCAGATAAACTGGGCTTAAAGTTTCATTGATG
1 GCCAGATAAACTGGGCTTAAA-TTTCATTGAAG
* * *
22261141 GCCAGATTAACTGGGCTTAAAGCTTCATTGATG
1 GCCAGATAAACTGGGCTTAAA-TTTCATTGAAG
* * *
22261174 GCCAGATTAACTGGGCTGAAAGCTTCATT-AATG
1 GCCAGATAAACTGGGCTTAAA-TTTCATTGAA-G
* *
22261207 GCCAGATAAACTGGGCTTAAATTTTATTGAAT
1 GCCAGATAAACTGGGCTTAAATTTCATTGAAG
* ** **
22261239 GCCAGTTAAACTGGATTTAAAACCTCATTTG-AG
1 GCCAGATAAACTGGGCTT-AAATTTCA-TTGAAG
22261272 GCCAGATAAACTGGGCTTAAA
1 GCCAGATAAACTGGGCTTAAA
22261293 GCTTCATTTA
Statistics
Matches: 631, Mismatches: 114, Indels: 86
0.76 0.14 0.10
Matches are distributed among these distances:
32 173 0.27
33 382 0.61
34 51 0.08
35 1 0.00
37 3 0.00
38 2 0.00
41 5 0.01
43 1 0.00
44 4 0.01
45 6 0.01
46 3 0.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (32 bp):
GCCAGATAAACTGGGCTTAAATTTCATTGAAG
Found at i:22260703 original size:66 final size:65
Alignment explanation
Indices: 22260457--22261404 Score: 677
Period size: 66 Copynumber: 14.1 Consensus size: 65
22260447 CTTAAAACTC
* * * *
22260457 TAAAACTTCATTTAGAGCCAAATAAACTGGGCTTAAAT-TTTATTGAA-GGCCAGCTAAACTGGG
1 TAAAACTTCATTGAG-GCCAGATAAACTGGGCTTAAATCTTCATT-AATGGCCAGATAAACTGGG
22260520 CT
64 CT
* * * * * *
22260522 TAAAACCTCATTTGAGGTCGGATAAACTGGGCTTAAAACTTCATTGATGGCCAGATAAACTAGGC
1 TAAAACTTCA-TTGAGGCCAGATAAACTGGGCTTAAATCTTCATTAATGGCCAGATAAACTGGGC
22260587 T
65 T
* * * * *
22260588 T-AAA-TGTCATTGATGGCCAGATAAACTTGGTTTAAAGT-TTCATTGATGGCTAGATAAACTAG
1 TAAAACT-TCATTGA-GGCCAGATAAACTGGGCTTAAA-TCTTCATTAATGGCCAGATAAACTGG
22260650 GCT
63 GCT
* *
22260653 TAAAACTTCATTTGAGGCCGGATAAACTAGGCTTAAATCTTCATTAATGGCCAGATAAACTGGGC
1 TAAAACTTCA-TTGAGGCCAGATAAACTGGGCTTAAATCTTCATTAATGGCCAGATAAACTGGGC
22260718 T
65 T
* * * * * * *
22260719 T-AAATTTTATTGAAGGTCAGTTAAACTGGGCTTAAAT-TTTATTGAA-GGTCAGCTAAACTGGG
1 TAAAACTTCATTG-AGGCCAGATAAACTGGGCTTAAATCTTCATT-AATGGCCAGATAAACTGGG
22260781 CT
64 CT
* *
22260783 TAAAACTTCATTTCAGGCCAAATAAAACTGGGCTTAAAGCTTCATTTAAAGCTTCATTAATGGCC
1 TAAAACTTCA-TTGAGGCCAGAT-AAACTGGGCTT-AA-----A--T----CTTCATTAATGGCC
* *
22260848 AGATAAATTGGGTT
52 AGATAAACTGGGCT
** * * *
22260862 TAAAGTTTCATTAATGGCCAGATAAACTGGGCTTAAAACTTCATTTAA-GGCTC-GATAAACTAG
1 TAAAACTTCATTGA-GGCCAGATAAACTGGGCTTAAATCTTCA-TTAATGGC-CAGATAAACTGG
22260925 GCT
63 GCT
* * * * * *
22260928 TAAAGCTTTATTGATGGACAGATAAACTAGGCTTAAAGCTTCATTAATGGCCAGATAAACTAGGC
1 TAAAACTTCATTGA-GGCCAGATAAACTGGGCTTAAATCTTCATTAATGGCCAGATAAACTGGGC
22260993 T
65 T
* * * * * *
22260994 T-AAATTTTATTGAAGGCCAGCTAAACTGGGCTTAAAGT-TTCATTGATGGCTAGATAAACTAGG
1 TAAAACTTCATTG-AGGCCAGATAAACTGGGCTTAAA-TCTTCATTAATGGCCAGATAAACTGGG
22261057 CT
64 CT
* * ** * * *
22261059 TAAAGCTTTATTGATGGATAGATAAACTGAGCTTAAAACTTCATTTGA-GGCCAGATAAACTGGG
1 TAAAACTTCATTGA-GGCCAGATAAACTGGGCTTAAATCTTCA-TTAATGGCCAGATAAACTGGG
22261123 CT
64 CT
** * * * *
22261125 TAAAGTTTCATTGATGGCCAGATTAACTGGGCTTAAAGCTTCATTGATGGCCAGATTAACTGGGC
1 TAAAACTTCATTGA-GGCCAGATAAACTGGGCTTAAATCTTCATTAATGGCCAGATAAACTGGGC
22261190 T
65 T
* * * * * *
22261191 GAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAT-TTTATTGAAT-GCCAGTTAAACTGGA
1 TAAAACTTCATTGA-GGCCAGATAAACTGGGCTTAAATCTTCATT-AATGGCCAGATAAACTGGG
*
22261254 TT
64 CT
* *
22261256 TAAAACCTCATTTGAGGCCAGATAAACTGGGCTTAAAGCTTCATTTAAAGCTTCATTAATGGTCA
1 TAAAACTTCA-TTGAGGCCAGATAAACTGGGCTT-AA-----A--T----CTTCATTAATGGCCA
*
22261321 AATAAACTGGGCT
53 GATAAACTGGGCT
** * * *
22261334 TAAAGTTTCATTGATGGCCAAATAAACTGGGCTTAAAACTTCATGTGA-GGCCAGATAAACTGGG
1 TAAAACTTCATTGA-GGCCAGATAAACTGGGCTTAAATCTTCAT-TAATGGCCAGATAAACTGGG
*
22261398 TT
64 CT
22261400 TAAAA
1 TAAAA
22261405 ATTTTTTTTT
Statistics
Matches: 711, Mismatches: 113, Indels: 117
0.76 0.12 0.12
Matches are distributed among these distances:
64 29 0.04
65 228 0.32
66 327 0.46
67 18 0.03
71 1 0.00
72 3 0.00
73 1 0.00
74 1 0.00
77 11 0.02
78 58 0.08
79 34 0.05
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (65 bp):
TAAAACTTCATTGAGGCCAGATAAACTGGGCTTAAATCTTCATTAATGGCCAGATAAACTGGGCT
Found at i:22260744 original size:131 final size:131
Alignment explanation
Indices: 22260473--22261403 Score: 779
Period size: 131 Copynumber: 6.9 Consensus size: 131
22260463 TTCATTTAGA
* * * * * *
22260473 GCCAAATAAACTGGGCTTAAA-TTTTATTGAAGGCCAGCTAAACTGGGCTTAAAACCTCATTTGA
1 GCCAGATAAACTGGGCTTAAAGTTTCATTGAAGGCTAGATAAACTAGGCTTAAAACTTCA-TTGA
* * * * * *
22260537 -GGTCGGATAAACTGGGCTTAAAACTTCATTGATGGCCAGATAAACTAGGCTTAAATGTCATTGA
65 TGGCCAGATAAACTGGGCTTAAATCTTCATTAATGGCCAGATAAACTGGGCTTAAATTTCATTGA
*
22260601 TG
130 AG
* * *
22260603 GCCAGATAAACTTGGTTTAAAGTTTCATTGATGGCTAGATAAACTAGGCTTAAAACTTCATTTGA
1 GCCAGATAAACTGGGCTTAAAGTTTCATTGAAGGCTAGATAAACTAGGCTTAAAACTTCA-TTGA
* * *
22260668 -GGCCGGATAAACTAGGCTTAAATCTTCATTAATGGCCAGATAAACTGGGCTTAAATTTTATTGA
65 TGGCCAGATAAACTGGGCTTAAATCTTCATTAATGGCCAGATAAACTGGGCTTAAATTTCATTGA
22260732 AG
130 AG
* * * * * *
22260734 GTCAGTTAAACTGGGCTTAAA-TTTTATTGAAGG-TCAGCTAAACTGGGCTTAAAACTTCATTTC
1 GCCAGATAAACTGGGCTTAAAGTTTCATTGAAGGCT-AGATAAACTAGGCTTAAAACTTCA-TTG
* * *
22260797 A-GGCCAAATAAAACTGGGCTTAAAGCTTCATTTAAAGCTTCATTAATGGCCAGATAAATTGGGT
64 ATGGCCAGAT-AAACTGGGCTT-AA-----A--T----CTTCATTAATGGCCAGATAAACTGGGC
22260861 TTAAAGTTTCATT-AATG
116 TTAAA-TTTCATTGAA-G
** * * * *
22260878 GCCAGATAAACTGGGCTTAAAACTTCATTTAAGGCTCGATAAACTAGGCTTAAAGCTTTATTGAT
1 GCCAGATAAACTGGGCTTAAAGTTTCATTGAAGGCTAGATAAACTAGGCTTAAAACTTCATTGAT
* * * * *
22260943 GGACAGATAAACTAGGCTTAAAGCTTCATTAATGGCCAGATAAACTAGGCTTAAATTTTATTGAA
66 GGCCAGATAAACTGGGCTTAAATCTTCATTAATGGCCAGATAAACTGGGCTTAAATTTCATTGAA
22261008 G
131 G
* * * *
22261009 GCCAGCTAAACTGGGCTTAAAGTTTCATTGATGGCTAGATAAACTAGGCTTAAAGCTTTATTGAT
1 GCCAGATAAACTGGGCTTAAAGTTTCATTGAAGGCTAGATAAACTAGGCTTAAAACTTCATTGAT
** * * *
22261074 GGATAGATAAACTGAGCTTAAAACTTCATTTGA-GGCCAGATAAACTGGGCTTAAAGTTTCATTG
66 GGCCAGATAAACTGGGCTTAAATCTTCA-TTAATGGCCAGATAAACTGGGCTTAAA-TTTCATTG
*
22261138 ATG
129 AAG
* * * * * * * * *
22261141 GCCAGATTAACTGGGCTTAAAGCTTCATTGATGGCCAGATTAACTGGGCTGAAAGCTTCATTAAT
1 GCCAGATAAACTGGGCTTAAAGTTTCATTGAAGGCTAGATAAACTAGGCTTAAAACTTCATTGAT
* * ** **
22261206 GGCCAGATAAACTGGGCTTAAAT-TTTATTGAAT-GCCAGTTAAACTGGATTTAAAACCTCATTT
66 GGCCAGATAAACTGGGCTTAAATCTTCATT-AATGGCCAGATAAACTGGGCTT-AAATTTCA-TT
22261269 G-AG
128 GAAG
* * * *
22261272 GCCAGATAAACTGGGCTTAAAGCTTCATTTAAAGCTTCATTAATGGTCAAATAAACTGGGCTTAA
1 GCCAGATAAACTGGGCTTAAAGTTTCA-TTGAAG--GC--T-A--G----ATAAACTAGGCTTAA
** * * * *
22261337 AGTTTCATTGATGGCCAAATAAACTGGGCTTAAAACTTCATGTGA-GGCCAGATAAACTGGGTTT
54 AACTTCATTGATGGCCAGATAAACTGGGCTTAAATCTTCAT-TAATGGCCAGATAAACTGGGCTT
22261401 AAA
118 AAA
22261404 AATTTTTTTT
Statistics
Matches: 658, Mismatches: 101, Indels: 71
0.79 0.12 0.09
Matches are distributed among these distances:
129 1 0.00
130 62 0.09
131 282 0.43
132 130 0.20
134 1 0.00
137 2 0.00
138 1 0.00
139 2 0.00
143 81 0.12
144 60 0.09
145 35 0.05
146 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (131 bp):
GCCAGATAAACTGGGCTTAAAGTTTCATTGAAGGCTAGATAAACTAGGCTTAAAACTTCATTGAT
GGCCAGATAAACTGGGCTTAAATCTTCATTAATGGCCAGATAAACTGGGCTTAAATTTCATTGAA
G
Found at i:22260831 original size:12 final size:12
Alignment explanation
Indices: 22260816--22260840 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22260806 AAAACTGGGC
22260816 TTAAAGCTTCAT
1 TTAAAGCTTCAT
22260828 TTAAAGCTTCAT
1 TTAAAGCTTCAT
22260840 T
1 T
22260841 AATGGCCAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TTAAAGCTTCAT
Found at i:22261231 original size:230 final size:230
Alignment explanation
Indices: 22260877--22261296 Score: 619
Period size: 230 Copynumber: 1.8 Consensus size: 230
22260867 TTTCATTAAT
* *
22260877 GGCCAGATAAACTGGGCTTAAAACTTCATTTAAGGCTCGATAAACTAGGCTTAAAGCTTTATTGA
1 GGCCAGATAAACTGGGCTTAAAACTTCATTGAAGGCTCGATAAACTAGGCTTAAAGCTTCATTGA
*
22260942 TGGACAGATAAACTAGGCTTAAAGCTTCATTAATGGCCAGATAAACTAGGCTTAAATTTTATTGA
66 TGGACAGATAAACTAGGCTGAAAGCTTCATTAATGGCCAGATAAACTAGGCTTAAATTTTATTGA
* *** *
22261007 AGGCCAGCTAAACTGGGCTTAAAGTTTCA-TTGATGGCTAGATAAACTAGGCTTAAAGCTTTATT
131 AGGCCAGCTAAACTGGACTTAAAACCTCATTTGA-GGCCAGATAAACTAGGCTTAAAGCTTTATT
22261071 GATGGATAGATAAACTGAGCTTAAAACTTCATTTGA
195 GATGGATAGATAAACTGAGCTTAAAACTTCATTTGA
** * * *
22261107 GGCCAGATAAACTGGGCTTAAAGTTTCATTGATGGC-CAGATTAACTGGGCTTAAAGCTTCATTG
1 GGCCAGATAAACTGGGCTTAAAACTTCATTGAAGGCTC-GATAAACTAGGCTTAAAGCTTCATTG
* * * *
22261171 ATGGCCAGATTAACTGGGCTGAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAATTTTATTG
65 ATGGACAGATAAACTAGGCTGAAAGCTTCATTAATGGCCAGATAAACTAGGCTTAAATTTTATTG
* * * *
22261236 AATGCCAGTTAAACTGGATTTAAAACCTCATTTGAGGCCAGATAAACTGGGCTTAAAGCTT
130 AAGGCCAGCTAAACTGGACTTAAAACCTCATTTGAGGCCAGATAAACTAGGCTTAAAGCTT
22261297 CATTTAAAGC
Statistics
Matches: 167, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
229 1 0.01
230 162 0.97
231 4 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (230 bp):
GGCCAGATAAACTGGGCTTAAAACTTCATTGAAGGCTCGATAAACTAGGCTTAAAGCTTCATTGA
TGGACAGATAAACTAGGCTGAAAGCTTCATTAATGGCCAGATAAACTAGGCTTAAATTTTATTGA
AGGCCAGCTAAACTGGACTTAAAACCTCATTTGAGGCCAGATAAACTAGGCTTAAAGCTTTATTG
ATGGATAGATAAACTGAGCTTAAAACTTCATTTGA
Found at i:22261301 original size:33 final size:33
Alignment explanation
Indices: 22260828--22261300 Score: 526
Period size: 33 Copynumber: 14.4 Consensus size: 33
22260818 AAAGCTTCAT
* * *
22260828 TTAAAGCTTCATTAATGGCCAGATAAATTGGGT
1 TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
* *
22260861 TTAAAGTTTCATTAATGGCCAGATAAACTGGGC
1 TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
* * * *
22260894 TTAAAACTTCATTTAAGGCTC-GATAAACTAGGC
1 TTAAAGCTTCATTGATGGC-CAGATAAACTGGGC
* * *
22260927 TTAAAGCTTTATTGATGGACAGATAAACTAGGC
1 TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
* *
22260960 TTAAAGCTTCATTAATGGCCAGATAAACTAGGC
1 TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
* * * *
22260993 TTAAA-TTTTATTGAAGGCCAGCTAAACTGGGC
1 TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
* * *
22261025 TTAAAGTTTCATTGATGGCTAGATAAACTAGGC
1 TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
* ** *
22261058 TTAAAGCTTTATTGATGGATAGATAAACTGAGC
1 TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
*
22261091 TTAAAACTTCATTTGA-GGCCAGATAAACTGGGC
1 TTAAAGCTTCA-TTGATGGCCAGATAAACTGGGC
* *
22261124 TTAAAGTTTCATTGATGGCCAGATTAACTGGGC
1 TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
*
22261157 TTAAAGCTTCATTGATGGCCAGATTAACTGGGC
1 TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
* *
22261190 TGAAAGCTTCATTAATGGCCAGATAAACTGGGC
1 TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
* * * **
22261223 TTAAA-TTTTATTGAAT-GCCAGTTAAACTGGAT
1 TTAAAGCTTCATTG-ATGGCCAGATAAACTGGGC
* *
22261255 TTAAAACCTCATTTGA-GGCCAGATAAACTGGGC
1 TTAAAGCTTCA-TTGATGGCCAGATAAACTGGGC
22261288 TTAAAGCTTCATT
1 TTAAAGCTTCATT
22261301 TAAAGCTTCA
Statistics
Matches: 372, Mismatches: 59, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
32 56 0.15
33 308 0.83
34 8 0.02
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (33 bp):
TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
Found at i:22261305 original size:12 final size:12
Alignment explanation
Indices: 22261288--22261312 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22261278 TAAACTGGGC
22261288 TTAAAGCTTCAT
1 TTAAAGCTTCAT
22261300 TTAAAGCTTCAT
1 TTAAAGCTTCAT
22261312 T
1 T
22261313 AATGGTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TTAAAGCTTCAT
Found at i:22261312 original size:45 final size:45
Alignment explanation
Indices: 22261253--22261345 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
22261243 GTTAAACTGG
* *
22261253 ATTTAAAACCTCATTTGA-GGCCAGATAAACTGGGCTTAAAGCTTC
1 ATTTAAAACCTCA-TTAATGGCCAAATAAACTGGGCTTAAAGCTTC
* * * *
22261298 ATTTAAAGCTTCATTAATGGTCAAATAAACTGGGCTTAAAGTTTC
1 ATTTAAAACCTCATTAATGGCCAAATAAACTGGGCTTAAAGCTTC
22261343 ATT
1 ATT
22261346 GATGGCCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 3 0.07
45 38 0.93
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (45 bp):
ATTTAAAACCTCATTAATGGCCAAATAAACTGGGCTTAAAGCTTC
Found at i:22261390 original size:111 final size:110
Alignment explanation
Indices: 22261192--22261403 Score: 309
Period size: 111 Copynumber: 1.9 Consensus size: 110
22261182 AACTGGGCTG
* * ** *
22261192 AAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAATTTTATTGAATGCCAGTTAAACTGGATTT
1 AAAGCTTCATTAATGGCCAAATAAACTGGGCTTAAATTTCATTGAATGCCAAATAAACTGGACTT
*
22261257 AAAACCTCATTTGAGGCCAGATAAACTGGGCTTAAAGCTTCATTT
66 AAAACCTCATGTGAGGCCAGATAAACTGGGCTTAAAGCTTCATTT
* *
22261302 AAAGCTTCATTAATGGTCAAATAAACTGGGCTTAAAGTTTCATTG-ATGGCCAAATAAACTGGGC
1 AAAGCTTCATTAATGGCCAAATAAACTGGGCTTAAA-TTTCATTGAAT-GCCAAATAAACTGGAC
* *
22261366 TTAAAACTTCATGTGAGGCCAGATAAACTGGGTTTAAA
64 TTAAAACCTCATGTGAGGCCAGATAAACTGGGCTTAAA
22261404 AATTTTTTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
110 36 0.40
111 54 0.60
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (110 bp):
AAAGCTTCATTAATGGCCAAATAAACTGGGCTTAAATTTCATTGAATGCCAAATAAACTGGACTT
AAAACCTCATGTGAGGCCAGATAAACTGGGCTTAAAGCTTCATTT
Found at i:22261404 original size:33 final size:33
Alignment explanation
Indices: 22261300--22261404 Score: 131
Period size: 33 Copynumber: 3.2 Consensus size: 33
22261290 AAAGCTTCAT
* * *
22261300 TTAAAGCTTCATTAATGGTCAAATAAACTGGGC
1 TTAAAACTTCATTGATGGCCAAATAAACTGGGC
**
22261333 TTAAAGTTTCATTGATGGCCAAATAAACTGGGC
1 TTAAAACTTCATTGATGGCCAAATAAACTGGGC
* *
22261366 TTAAAACTTCATGTGA-GGCCAGATAAACTGGGT
1 TTAAAACTTCAT-TGATGGCCAAATAAACTGGGC
22261399 TTAAAA
1 TTAAAA
22261405 ATTTTTTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
33 61 0.95
34 3 0.05
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (33 bp):
TTAAAACTTCATTGATGGCCAAATAAACTGGGC
Found at i:22262732 original size:18 final size:16
Alignment explanation
Indices: 22262698--22262763 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 16
22262688 GTCATAACAA
22262698 TTTTTTTTTTTGCCTT
1 TTTTTTTTTTTGCCTT
*
22262714 TTTTTTTCTTTTTCTCTT
1 TTTTTTT-TTTTGC-CTT
**
22262732 TTTGTTGTTGTTGTTGTTTT
1 TTT-TT-TT-TT-TTGCCTT
22262752 TTTTTTTTTTTG
1 TTTTTTTTTTTG
22262764 TCCCCATAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
16 10 0.25
17 7 0.17
18 8 0.20
19 4 0.10
20 9 0.22
21 2 0.05
ACGTcount: A:0.00, C:0.08, G:0.11, T:0.82
Consensus pattern (16 bp):
TTTTTTTTTTTGCCTT
Found at i:22263426 original size:14 final size:14
Alignment explanation
Indices: 22263406--22263441 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
22263396 AGACTTAAAA
*
22263406 CTTTTTTTTTTTAC
1 CTTTTTTTTGTTAC
*
22263420 TTTTTTTTTGTTAC
1 CTTTTTTTTGTTAC
22263434 CTTTTTTT
1 CTTTTTTT
22263442 CCAAGACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.11, G:0.03, T:0.81
Consensus pattern (14 bp):
CTTTTTTTTGTTAC
Found at i:22263427 original size:15 final size:15
Alignment explanation
Indices: 22263406--22263441 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
22263396 AGACTTAAAA
22263406 CTTTTTTTTT-TTA-
1 CTTTTTTTTTGTTAC
22263419 CTTTTTTTTTGTTAC
1 CTTTTTTTTTGTTAC
22263434 CTTTTTTT
1 CTTTTTTT
22263442 CCAAGACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
14 3 0.14
15 8 0.38
ACGTcount: A:0.06, C:0.11, G:0.03, T:0.81
Consensus pattern (15 bp):
CTTTTTTTTTGTTAC
Found at i:22268904 original size:15 final size:15
Alignment explanation
Indices: 22268884--22268915 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22268874 TATTATTCTT
22268884 TTTTATTATAAAATA
1 TTTTATTATAAAATA
*
22268899 TTTTATTATCAAATA
1 TTTTATTATAAAATA
22268914 TT
1 TT
22268916 AAATGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTATTATAAAATA
Found at i:22269386 original size:21 final size:20
Alignment explanation
Indices: 22269335--22269387 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
22269325 AAGATTCAGA
22269335 TTTTAGGGTTTTGGTTTGAG
1 TTTTAGGGTTTTGGTTTGAG
22269355 TTTTGAGGGTTTTAGGGTTTG-G
1 TTTT-AGGGTTTT--GGTTTGAG
*
22269377 TTTTAAGGTTT
1 TTTTAGGGTTT
22269388 AAAAAGTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.14
21 14 0.48
22 5 0.17
23 6 0.21
ACGTcount: A:0.11, C:0.00, G:0.34, T:0.55
Consensus pattern (20 bp):
TTTTAGGGTTTTGGTTTGAG
Found at i:22269454 original size:15 final size:14
Alignment explanation
Indices: 22269406--22269602 Score: 61
Period size: 16 Copynumber: 12.7 Consensus size: 14
22269396 TTAAGGCTTT
*
22269406 GATTTTAGGGTATG
1 GATTTTAGGGTTTG
* *
22269420 GAAGGTTTAGGGTTTT
1 G-A-TTTTAGGGTTTG
22269436 GATTTTAGAGGTTTG
1 GATTTTAG-GGTTTG
* *
22269451 GATTTCAGGAATTTTG
1 GATTTTAGG--GTTTG
* * *
22269467 GATTTAAGAGTTTA
1 GATTTTAGGGTTTG
* * * *
22269481 AAGGTTTCGGATTTCG
1 GA-TTTTAGGGTTT-G
22269497 GATTTTAAGGGGTTTTG
1 GATTTT-A-GGG-TTTG
22269514 GATTTTAGGGGTTTCG
1 GATTTTA-GGGTTT-G
* *
22269530 AATTTTAAAGGTTTG
1 GATTTT-AGGGTTTG
* *
22269545 AATTTAAGGGATTTTG
1 GATTTTAGGG--TTTG
*
22269561 GATTTTAGGATTTTG
1 GATTTTAGG-GTTTG
*
22269576 TATTTTAGGGGATTTTG
1 GATTTTA-GGG--TTTG
22269593 GATTTTAGGG
1 GATTTTAGGG
22269603 ATTTTAGAAA
Statistics
Matches: 133, Mismatches: 32, Indels: 34
0.67 0.16 0.17
Matches are distributed among these distances:
14 14 0.11
15 42 0.32
16 54 0.41
17 20 0.15
18 3 0.02
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.45
Consensus pattern (14 bp):
GATTTTAGGGTTTG
Found at i:22269525 original size:16 final size:16
Alignment explanation
Indices: 22269496--22269607 Score: 102
Period size: 16 Copynumber: 7.0 Consensus size: 16
22269486 TTCGGATTTC
22269496 GGATTTTAAGGGGTTTT
1 GGATTTT-AGGGGTTTT
*
22269513 GGATTTTAGGGGTTTC
1 GGATTTTAGGGGTTTT
* **
22269529 GAATTTTAAAGG-TTT
1 GGATTTTAGGGGTTTT
* * *
22269544 GAATTTAAGGGATTTT
1 GGATTTTAGGGGTTTT
*
22269560 GGATTTTA-GGATTTT
1 GGATTTTAGGGGTTTT
*
22269575 GTATTTTAGGGGATTTT
1 GGATTTTAGGGG-TTTT
*
22269592 GGATTTTAGGGATTTT
1 GGATTTTAGGGGTTTT
22269608 AGAAACCTAG
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
15 24 0.31
16 32 0.42
17 21 0.27
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.48
Consensus pattern (16 bp):
GGATTTTAGGGGTTTT
Found at i:22269600 original size:17 final size:17
Alignment explanation
Indices: 22269489--22269607 Score: 101
Period size: 17 Copynumber: 7.4 Consensus size: 17
22269479 TAAAGGTTTC
*
22269489 GGATTTCGGATTTTAAGG
1 GGATTTTGGATTTT-AGG
22269507 GG-TTTTGGATTTTAGG
1 GGATTTTGGATTTTAGG
* * **
22269523 GG-TTTCGAATTTTAAA
1 GGATTTTGGATTTTAGG
* *
22269539 GG--TTT-GAATTTAAG
1 GGATTTTGGATTTTAGG
22269553 GGATTTTGGATTTTA--
1 GGATTTTGGATTTTAGG
*
22269568 GGATTTTGTATTTTAGG
1 GGATTTTGGATTTTAGG
22269585 GGATTTTGGATTTTA-G
1 GGATTTTGGATTTTAGG
22269601 GGATTTT
1 GGATTTT
22269608 AGAAACCTAG
Statistics
Matches: 84, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 16 0.19
16 28 0.33
17 30 0.36
18 2 0.02
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (17 bp):
GGATTTTGGATTTTAGG
Found at i:22273563 original size:22 final size:22
Alignment explanation
Indices: 22273535--22273596 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
22273525 ATTAATCAAT
*
22273535 GATAAC-TATATATTAAATTATG
1 GATAACTTAT-TAGTAAATTATG
*
22273557 GATAACTTATTAGTAAATTATT
1 GATAACTTATTAGTAAATTATG
* * *
22273579 AATAACATAATAGTAAAT
1 GATAACTTATTAGTAAAT
22273597 AAATAATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 31 0.91
23 3 0.09
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (22 bp):
GATAACTTATTAGTAAATTATG
Found at i:22273603 original size:22 final size:22
Alignment explanation
Indices: 22273558--22273705 Score: 86
Period size: 22 Copynumber: 6.8 Consensus size: 22
22273548 TAAATTATGG
* * * *
22273558 ATAACTTATTAGTAAATTATTA
1 ATAACATAATAGTAAATAAATA
22273580 ATAACATAATAGTAAATAAATA
1 ATAACATAATAGTAAATAAATA
** * *
22273602 ATAATTTAATAGTAAATAATTG
1 ATAACATAATAGTAAATAAATA
* ** * * *
22273624 ATAAGATAGAT-GTATGTCACTG
1 ATAACATA-ATAGTAAATAAATA
* * *
22273646 A-AACATAATAATAAATACACA
1 ATAACATAATAGTAAATAAATA
*
22273667 ATAATATAATAGTAAATAACA-A
1 ATAACATAATAGTAAATAA-ATA
*
22273689 ATAACTTAATAGTAAAT
1 ATAACATAATAGTAAAT
22273706 CATTTATGCA
Statistics
Matches: 94, Mismatches: 28, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
20 2 0.02
21 9 0.10
22 80 0.85
23 3 0.03
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.32
Consensus pattern (22 bp):
ATAACATAATAGTAAATAAATA
Found at i:22273800 original size:22 final size:22
Alignment explanation
Indices: 22273775--22273835 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
22273765 AAAATAAGTG
*
22273775 ATAACTTAATAGTAAATCAATA
1 ATAACTTAATAGTAAATCAACA
* * *
22273797 ATAACTTAGTAATAAATTAACA
1 ATAACTTAATAGTAAATCAACA
* *
22273819 ATAAGTTAAAAGTAAAT
1 ATAACTTAATAGTAAAT
22273836 GAGATTCAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCAACA
Found at i:22274398 original size:137 final size:134
Alignment explanation
Indices: 22274241--22274530 Score: 517
Period size: 137 Copynumber: 2.1 Consensus size: 134
22274231 GTAATCATTG
* * *
22274241 ATAAATTAATAGTTAATCAGTGATAATTTAGTATAGTAAATTAGTGATAACTTAATAGTATATCA
1 ATAATTTAATAGTTAATCAGTAATAATTTAATATAGTAAATTAGTGATAACTTAATAGTATATCA
22274306 ATAATAATTTAATACTAAATAATAATTGATAACTTGTTAGTAAATTAATAATAATATAATAATAA
66 ATAATAATTTAATACT--A-AATAATTGATAACTTGTTAGTAAATTAATAATAATATAATAATAA
22274371 ATGCATA
128 ATGCATA
22274378 ATAATTTAATAGTTAATCAGTAATAATTTAATATAGTAAATTAGTGATAACTTAATAGTATATCA
1 ATAATTTAATAGTTAATCAGTAATAATTTAATATAGTAAATTAGTGATAACTTAATAGTATATCA
22274443 ATAATAATTTAATACTAAATAATTGATAACTTGTTAGTAAATTAATAATAATATAATAATAAATG
66 ATAATAATTTAATACTAAATAATTGATAACTTGTTAGTAAATTAATAATAATATAATAATAAATG
22274508 CATA
131 CATA
*
22274512 ATAATTTAATAGTAAATCA
1 ATAATTTAATAGTTAATCA
22274531 ATTTAATAGT
Statistics
Matches: 149, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
134 70 0.47
135 1 0.01
137 78 0.52
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.38
Consensus pattern (134 bp):
ATAATTTAATAGTTAATCAGTAATAATTTAATATAGTAAATTAGTGATAACTTAATAGTATATCA
ATAATAATTTAATACTAAATAATTGATAACTTGTTAGTAAATTAATAATAATATAATAATAAATG
CATA
Found at i:22274449 original size:22 final size:22
Alignment explanation
Indices: 22274211--22274853 Score: 269
Period size: 22 Copynumber: 29.3 Consensus size: 22
22274201 AAATTAAAAA
*
22274211 TAAATCAAT-ATAACTTAATAG
1 TAAATCAATAATAATTTAATAG
* * *
22274232 T-AATCATTGATAAATTAATAG
1 TAAATCAATAATAATTTAATAG
* * *
22274253 TTAATCAGTGATAATTTAGTATAG
1 TAAATCAATAATAATTTA--ATAG
* * * *
22274277 TAAATTAGTGATAACTTAATAG
1 TAAATCAATAATAATTTAATAG
* *
22274299 TATATCAATAATAATTTAATAC
1 TAAATCAATAATAATTTAATAG
* **
22274321 TAAAT-AATAATTGATAACTTGTTAG
1 TAAATCAAT-A---ATAATTTAATAG
* * *
22274346 TAAATTAATAATAATATAATAA
1 TAAATCAATAATAATTTAATAG
22274368 TAAATGC-ATAATAATTTAATAG
1 TAAAT-CAATAATAATTTAATAG
* *
22274390 TTAATCAGTAATAATTTAATATAG
1 TAAATCAATAATAATTT-A-ATAG
* * * *
22274414 TAAATTAGTGATAACTTAATAG
1 TAAATCAATAATAATTTAATAG
* *
22274436 TATATCAATAATAATTTAATAC
1 TAAATCAATAATAATTTAATAG
* * **
22274458 TAAAT-AATTGATAACTTGTTAG
1 TAAATCAA-TAATAATTTAATAG
* * *
22274480 TAAATTAATAATAATATAATAA
1 TAAATCAATAATAATTTAATAG
22274502 TAAATGC-ATAATAATTTAATAG
1 TAAAT-CAATAATAATTTAATAG
22274524 TAAATC------AATTTAATAG
1 TAAATCAATAATAATTTAATAG
22274540 TAAATGC-ATAATAATTTAATAG
1 TAAAT-CAATAATAATTTAATAG
* * * *
22274562 TTAATTATTGATAATTTAATAG
1 TAAATCAATAATAATTTAATAG
* * *
22274584 TAAATCAATGAA-AACTTAGTAA
1 TAAATCAAT-AATAATTTAATAG
* * * * *
22274606 TAAGTTACTGATAACTTAATAG
1 TAAATCAATAATAATTTAATAG
* **
22274628 TAAATCTATTTTAATTTAATAG
1 TAAATCAATAATAATTTAATAG
* * * **
22274650 TAATTAAATTATAAATTTAGCAG
1 TAAATCAATAAT-AATTTAATAG
* * *
22274673 TAAATC-ATAAATAACTTAGTAA
1 TAAATCAAT-AATAATTTAATAG
* *
22274695 TAAATCAATGATAATTTAGTAG
1 TAAATCAATAATAATTTAATAG
* * *
22274717 TTAATCACTAA-AATTCAATAG
1 TAAATCAATAATAATTTAATAG
* * ** *
22274738 CAAATCAATGATAACATAGTAG
1 TAAATCAATAATAATTTAATAG
* * *
22274760 CAAATGC-ATAATAGTAT-ATAG
1 TAAAT-CAATAATAATTTAATAG
*** *
22274781 TAAATTGTTGATAATTTAATAG
1 TAAATCAATAATAATTTAATAG
* * * *
22274803 TAAATTATTGATAATTTAGTAG
1 TAAATCAATAATAATTTAATAG
* * ** *
22274825 TAAATGACTAATAACATCATAG
1 TAAATCAATAATAATTTAATAG
22274847 TAAATCA
1 TAAATCA
22274854 TTGATAACTT
Statistics
Matches: 465, Mismatches: 125, Indels: 63
0.71 0.19 0.10
Matches are distributed among these distances:
16 15 0.03
17 1 0.00
20 6 0.01
21 49 0.11
22 319 0.69
23 22 0.05
24 36 0.08
25 14 0.03
26 3 0.01
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (22 bp):
TAAATCAATAATAATTTAATAG
Found at i:22274456 original size:11 final size:11
Alignment explanation
Indices: 22274350--22274522 Score: 55
Period size: 11 Copynumber: 15.5 Consensus size: 11
22274340 TGTTAGTAAA
22274350 TTAATAATAAT
1 TTAATAATAAT
* *
22274361 ATAATAATAAA
1 TTAATAATAAT
**
22274372 TGCATAATAAT
1 TTAATAATAAT
*
22274383 TTAATAGTTAA-
1 TTAATA-ATAAT
* *
22274394 TCAGTAATAAT
1 TTAATAATAAT
*
22274405 TTAATATAGTAAA
1 TTAATA-A-TAAT
* * *
22274418 TTAGTGATAAC
1 TTAATAATAAT
*
22274429 TTAATAGT-AT
1 TTAATAATAAT
*
22274439 ATCAATAATAAT
1 -TTAATAATAAT
*
22274451 TTAATACTAA-
1 TTAATAATAAT
* * *
22274461 ATAATTGATAAC
1 TTAA-TAATAAT
** * *
22274473 TTGTTAGTAAA
1 TTAATAATAAT
22274484 TTAATAATAAT
1 TTAATAATAAT
* *
22274495 ATAATAATAAA
1 TTAATAATAAT
**
22274506 TGCATAATAAT
1 TTAATAATAAT
22274517 TTAATA
1 TTAATA
22274523 GTAAATCAAT
Statistics
Matches: 107, Mismatches: 47, Indels: 16
0.63 0.28 0.09
Matches are distributed among these distances:
10 7 0.07
11 85 0.79
12 8 0.07
13 7 0.07
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (11 bp):
TTAATAATAAT
Found at i:22274535 original size:16 final size:16
Alignment explanation
Indices: 22274514--22274544 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22274504 AATGCATAAT
22274514 AATTTAATAGTAAATC
1 AATTTAATAGTAAATC
22274530 AATTTAATAGTAAAT
1 AATTTAATAGTAAAT
22274545 GCATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
AATTTAATAGTAAATC
Found at i:22274551 original size:60 final size:60
Alignment explanation
Indices: 22274477--22274592 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
22274467 GATAACTTGT
*
22274477 TAGTAAATTAATAATAATATAATAATAAATGCA-TAATAATTTAATAGTAAATCAATTTAA
1 TAGTAAATGAATAATAATATAATAATAAAT-CATTAATAATTTAATAGTAAATCAATTTAA
* * * * * *
22274537 TAGTAAATGCATAATAATTTAATAGTTAATTATTGATAATTTAATAGTAAATCAAT
1 TAGTAAATGAATAATAATATAATAATAAATCATTAATAATTTAATAGTAAATCAAT
22274593 GAAAACTTAG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.02
60 47 0.98
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (60 bp):
TAGTAAATGAATAATAATATAATAATAAATCATTAATAATTTAATAGTAAATCAATTTAA
Found at i:22274707 original size:89 final size:87
Alignment explanation
Indices: 22274533--22274737 Score: 211
Period size: 89 Copynumber: 2.3 Consensus size: 87
22274523 GTAAATCAAT
* *
22274533 TTAATAGTAAATGCATAATAATTTAATAGTTAATTATTGATAATTTAATAGTAAATCAATGAAAA
1 TTAATAGTAAAT-CATAATAATTTAATAGTTAATTATTGATAATTTAACAGTAAATCAATAAAAA
* * *
22274598 CTTAGTAATAAGTTACTGATAAC
65 CTTAGTAATAAATCAATGATAAC
** *
22274621 TTAATAGTAAATCTATTTTAATTTAATAG-TAATTAAATT-ATAAATTTAGCAGTAAATC-ATAA
1 TTAATAGTAAATC-ATAATAATTTAATAGTTAATT--ATTGAT-AATTTAACAGTAAATCAATAA
*
22274683 ATAACTTAGTAATAAATCAATGATAAT
62 A-AACTTAGTAATAAATCAATGATAAC
* * *
22274710 TTAGTAGTTAATCACTAA-AATTCAATAG
1 TTAATAGTAAATCA-TAATAATTTAATAG
22274738 CAAATCAATG
Statistics
Matches: 97, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
87 6 0.06
88 41 0.42
89 50 0.52
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (87 bp):
TTAATAGTAAATCATAATAATTTAATAGTTAATTATTGATAATTTAACAGTAAATCAATAAAAAC
TTAGTAATAAATCAATGATAAC
Found at i:22274860 original size:22 final size:22
Alignment explanation
Indices: 22274799--22274861 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
22274789 TGATAATTTA
* * *
22274799 ATAGTAAATTATTGATAA-TTT
1 ATAGTAAATCATTGATAACATC
* * *
22274820 AGTAGTAAATGACTAATAACATC
1 A-TAGTAAATCATTGATAACATC
22274843 ATAGTAAATCATTGATAAC
1 ATAGTAAATCATTGATAAC
22274862 TTAGCTATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
21 1 0.03
22 29 0.91
23 2 0.06
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (22 bp):
ATAGTAAATCATTGATAACATC
Found at i:22274905 original size:22 final size:22
Alignment explanation
Indices: 22274855--22274919 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
22274845 AGTAAATCAT
* * *
22274855 TGATAACTTAGCTATAAATTAG
1 TGATAATTTAGTTATAAATTAA
22274877 TGATAATTTAGTTATAAATTAA
1 TGATAATTTAGTTATAAATTAA
* *
22274899 TGATAATTTAATTGTAAATTA
1 TGATAATTTAGTTATAAATTA
22274920 GTTAATTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (22 bp):
TGATAATTTAGTTATAAATTAA
Found at i:22274991 original size:44 final size:44
Alignment explanation
Indices: 22274918--22275015 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
22274908 AATTGTAAAT
* * * *
22274918 TAGTTAATTATTAATAACTTCATAGTAAATCATCAAAAACTTCA
1 TAGTAAATTAGTAATAACTTCATAATAAATCATCAAAAACTTAA
* * * *
22274962 TAGTAAATTAGTAATAACTTTATAATAAATTATCTACAACTTAA
1 TAGTAAATTAGTAATAACTTCATAATAAATCATCAAAAACTTAA
22275006 TAGTAAATTA
1 TAGTAAATTA
22275016 TCATTAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (44 bp):
TAGTAAATTAGTAATAACTTCATAATAAATCATCAAAAACTTAA
Found at i:22275006 original size:96 final size:95
Alignment explanation
Indices: 22274833--22275015 Score: 210
Period size: 96 Copynumber: 1.9 Consensus size: 95
22274823 AGTAAATGAC
** * * *
22274833 TAATAACATCATAGTAAATCATTGATAACTTAGCTATAAATTAGTGATAATTTAGTTATAAATTA
1 TAATAACATCATAGTAAATCATCAAAAACTTA-CTATAAATTAGTAATAATTTAGTAATAAATTA
* * *
22274898 ATGATAATTTAATTGTAAATTAGTTAATTAT
65 ATGACAACTTAATAGTAAATTAGTTAATTAT
*
22274929 TAATAACTTCATAGTAAATCATCAAAAACTT-CATAGTAAATTAGTAATAACTTTA-TAATAAAT
1 TAATAACATCATAGTAAATCATCAAAAACTTAC-TA-TAAATTAGTAATAA-TTTAGTAATAAAT
*
22274992 T-ATCTACAACTTAATAGTAAATTA
63 TAAT-GACAACTTAATAGTAAATTA
22275016 TCATTAATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
94 1 0.01
95 4 0.05
96 64 0.88
97 4 0.05
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (95 bp):
TAATAACATCATAGTAAATCATCAAAAACTTACTATAAATTAGTAATAATTTAGTAATAAATTAA
TGACAACTTAATAGTAAATTAGTTAATTAT
Found at i:22275032 original size:66 final size:66
Alignment explanation
Indices: 22274962--22275110 Score: 169
Period size: 66 Copynumber: 2.3 Consensus size: 66
22274952 AAAAACTTCA
*
22274962 TAGTAAATTAGTAATAACTTT-ATAATAAATTATCTACAACTTAATAGTAAATT-ATCATTAATT
1 TAGTAAATTAGTAATAA-TTTAATAATAAATTATCTACAACTTAATAATAAATTAATCA-TAATT
22275025 TAG
64 TAG
* * * * *
22275028 TAGTAAATT-GTTTATAATTTAATAGTAAATTATCTATAACTTAGTAATAAATTAATGATAATTT
1 TAGTAAATTAG-TAATAATTTAATAATAAATTATCTACAACTTAATAATAAATTAATCATAATTT
22275092 AG
65 AG
* * *
22275094 TTGTAAATCAGTGATAA
1 TAGTAAATTAGTAATAA
22275111 GATAGTAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
65 4 0.06
66 62 0.89
67 4 0.06
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (66 bp):
TAGTAAATTAGTAATAATTTAATAATAAATTATCTACAACTTAATAATAAATTAATCATAATTTA
G
Found at i:22275078 original size:22 final size:22
Alignment explanation
Indices: 22274931--22275081 Score: 126
Period size: 22 Copynumber: 6.9 Consensus size: 22
22274921 TTAATTATTA
* * *
22274931 ATAACTTCATAGTAAATCATCA
1 ATAACTTAATAGTAAATTATCT
* * *
22274953 AAAACTTCATAGTAAATTAGT-A
1 ATAACTTAATAGTAAATTA-TCT
* *
22274975 ATAACTTTATAATAAATTATCT
1 ATAACTTAATAGTAAATTATCT
*
22274997 ACAACTTAATAGTAAATTATC-
1 ATAACTTAATAGTAAATTATCT
* * * *
22275018 ATTAATTTAGTAGTAAATTGTTT
1 A-TAACTTAATAGTAAATTATCT
*
22275041 ATAATTTAATAGTAAATTATCT
1 ATAACTTAATAGTAAATTATCT
* *
22275063 ATAACTTAGTAATAAATTA
1 ATAACTTAATAGTAAATTA
22275082 ATGATAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
21 2 0.02
22 101 0.96
23 2 0.02
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTATCT
Found at i:22275089 original size:44 final size:44
Alignment explanation
Indices: 22275002--22275101 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
22274992 TATCTACAAC
* * ** *
22275002 TTAATAGTAAATTATCATTAATTTAGTAGTAAATTGTTTATAAT
1 TTAATAGTAAATTATCATTAACTTAGTAATAAATTAATGATAAT
22275046 TTAATAGTAAATTATC-TATAACTTAGTAATAAATTAATGATAAT
1 TTAATAGTAAATTATCAT-TAACTTAGTAATAAATTAATGATAAT
* *
22275090 TTAGTTGTAAAT
1 TTAATAGTAAAT
22275102 CAGTGATAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 1 0.02
44 47 0.98
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (44 bp):
TTAATAGTAAATTATCATTAACTTAGTAATAAATTAATGATAAT
Found at i:22275100 original size:22 final size:22
Alignment explanation
Indices: 22275006--22275110 Score: 79
Period size: 22 Copynumber: 4.8 Consensus size: 22
22274996 TACAACTTAA
*
22275006 TAGTAAATT-ATCATTAATTTAG
1 TAGTAAATTAATGA-TAATTTAG
** * *
22275028 TAGTAAATTGTTTATAATTTAA
1 TAGTAAATTAATGATAATTTAG
* *
22275050 TAGTAAATT-ATCTATAACTTAG
1 TAGTAAATTAAT-GATAATTTAG
*
22275072 TAATAAATTAATGATAATTTAG
1 TAGTAAATTAATGATAATTTAG
* * *
22275094 TTGTAAATCAGTGATAA
1 TAGTAAATTAATGATAA
22275111 GATAGTAATA
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
21 1 0.01
22 62 0.93
23 4 0.06
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (22 bp):
TAGTAAATTAATGATAATTTAG
Found at i:22275426 original size:22 final size:22
Alignment explanation
Indices: 22275356--22275430 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
22275346 TAATTTATTG
* * * *
22275356 ATAAATTAATAGTAAATCATAA
1 ATAACTTAGTAGTAAATAATTA
* * *
22275378 ATAACTTAGTATTAATTCAATTG
1 ATAACTTAGTAGTAAAT-AATTA
22275401 ATAACTTAGTAGTAAATAATTA
1 ATAACTTAGTAGTAAATAATTA
22275423 ATAACTTA
1 ATAACTTA
22275431 ATAGCTAATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
22 25 0.60
23 17 0.40
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATAATTA
Found at i:22275626 original size:22 final size:22
Alignment explanation
Indices: 22275601--22275661 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
22275591 TTAATCATTG
**
22275601 ATAATTTTGTAGTAAATCTTTC
1 ATAATTTAATAGTAAATCTTTC
* *
22275623 ATAACTTAATAGTAAATCTTTG
1 ATAATTTAATAGTAAATCTTTC
*
22275645 ATAATTTAATAATAAAT
1 ATAATTTAATAGTAAAT
22275662 TACTAATAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCTTTC
Found at i:22275876 original size:17 final size:17
Alignment explanation
Indices: 22275854--22275886 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22275844 TAATTTAGTT
*
22275854 ATAAATTAGTGATAACA
1 ATAAATTAATGATAACA
22275871 ATAAATTAATGATAAC
1 ATAAATTAATGATAAC
22275887 TTATAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (17 bp):
ATAAATTAATGATAACA
Found at i:22275972 original size:22 final size:22
Alignment explanation
Indices: 22275930--22275972 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22275920 TATGAATCAC
*
22275930 TTAATACTAAATTATTCATATT
1 TTAATACTAAATTAGTCATATT
* *
22275952 TTAATAGTAAATTAGTGATAT
1 TTAATACTAAATTAGTCATAT
22275973 AACTTAGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (22 bp):
TTAATACTAAATTAGTCATATT
Found at i:22277836 original size:2 final size:2
Alignment explanation
Indices: 22277829--22277860 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22277819 AAGAAAACTA
22277829 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22277861 TTCAGACCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22281007 original size:27 final size:27
Alignment explanation
Indices: 22280977--22281032 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
22280967 ATTTTGGAAG
*
22280977 TATGAAAAATAACAAAGGCAAAATTCA
1 TATGAAAAATAACAAAAGCAAAATTCA
22281004 TATGAAAAATAACAAAAGCAAAATTCA
1 TATGAAAAATAACAAAAGCAAAATTCA
22281031 TA
1 TA
22281033 CTCTGAGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.20
Consensus pattern (27 bp):
TATGAAAAATAACAAAAGCAAAATTCA
Found at i:22283750 original size:16 final size:16
Alignment explanation
Indices: 22283708--22283758 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
22283698 TCAGTTGAGG
22283708 AAGAGCAAAAGGAAAATGA
1 AAGAG-AAAA-GAAAA-GA
*
22283727 GAGA-AAAAGAAAAGA
1 AAGAGAAAAGAAAAGA
*
22283742 AAGAGAAAAAAAAAGA
1 AAGAGAAAAGAAAAGA
22283758 A
1 A
22283759 GAGGAGGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 5 0.18
16 16 0.57
17 4 0.14
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.02
Consensus pattern (16 bp):
AAGAGAAAAGAAAAGA
Found at i:22283761 original size:15 final size:17
Alignment explanation
Indices: 22283726--22283758 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22283716 AAGGAAAATG
22283726 AGAGAAAAAGAAAAGAA
1 AGAGAAAAAGAAAAGAA
22283743 AGAGAAAAA-AAAAGAA
1 AGAGAAAAAGAAAAGAA
22283759 GAGGAGGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AGAGAAAAAGAAAAGAA
Found at i:22286829 original size:59 final size:60
Alignment explanation
Indices: 22286746--22286883 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 60
22286736 CTATTTTTTC
* * **
22286746 AAATACCCATAGCGTTTCATCA-TTTTTTATCAATTTTTCATCATTTATT-TTAATTCTTA
1 AAATACCCATAGCCTTTCACCATTTTTTTATCAAACTTTCATCATTTATTCTT-ATTCTTA
* * * * *
22286805 AAATGCCCATAGCCTTTCACCATTTTTTTATCAAACTTTCTTCATTTGTTCTTGTTCTTT
1 AAATACCCATAGCCTTTCACCATTTTTTTATCAAACTTTCATCATTTATTCTTATTCTTA
*
22286865 AAATACCCATAGCTTTTCA
1 AAATACCCATAGCCTTTCA
22286884 ATCTTTTAGT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
59 19 0.29
60 45 0.68
61 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.48
Consensus pattern (60 bp):
AAATACCCATAGCCTTTCACCATTTTTTTATCAAACTTTCATCATTTATTCTTATTCTTA
Found at i:22290904 original size:125 final size:123
Alignment explanation
Indices: 22290523--22290944 Score: 370
Period size: 125 Copynumber: 3.3 Consensus size: 123
22290513 ACAAGTAAAA
* * * *
22290523 AAAAAAAAAAGATA-AACTTCAATAAAGTAGAATGCTAAAGTTGAAATCAAAGAAAGAAAAACAT
1 AAAAAAAGAAGATAGAA-TTCAAGAAAGTAGAATGCCAAAGTTGGAATCAAAGAAAGAAAAACAT
* * *
22290587 GCATCTCATT-GAT-T-AGAGTTTGGAATAAAAAGTGAATAAAGCTTTAGTTAGAATTTCAAGT
65 ACA-C-C-TTGGATATGAGAGTATGGAACAAAAAGTGAATAAAGC-TTAGTTAGAA-TTCAAGT
* * **
22290648 AAAAGAAGAAGATAGAATTCAAGAAA-TAATAATGCCAAAGTT-GAAGAAAAGAGCATAGAAAGA
1 AAAAAAAGAAGATAGAATTCAAGAAAGT-AGAATGCCAAAGTTGGAATCAAAGA--A-AG-AA-A
* * * * ** * * *
22290711 AAGATGTACACCTCGAATATGAGAATATGGGGCAAAAAGTGAATGAAGCTTTGATTAGAATCCCA
60 AACA--TACACCTTGGATATGAGAGTATGGAACAAAAAGTGAATAAAGCTTAG-TTAGAAT-TCA
22290776 AGT
121 AGT
* * *
22290779 AAAAAAACAATATAGAATTCAAGAAAGTAGAATGCTAAAGTTGGAATCAAAGAAAGAAAAACATA
1 AAAAAAAGAAGATAGAATTCAAGAAAGTAGAATGCCAAAGTTGGAATCAAAGAAAGAAAAACATA
* * *
22290844 CACCTTGGATATGAGAGTCTGGAACAAAAAGCGAATAAAGCTTCAGTAAGAATTCGAAGT
66 CACCTTGGATATGAGAGTATGGAACAAAAAGTGAATAAAGCTT-AGTTAGAATTC-AAGT
* * **
22290904 AACAAAAGAAAATAGAATTCAAGAAAAAAGAATGCCAAAGT
1 AAAAAAAGAAGATAGAATTCAAGAAAGTAGAATGCCAAAGT
22290945 AGAAGTCAAA
Statistics
Matches: 234, Mismatches: 45, Indels: 36
0.74 0.14 0.11
Matches are distributed among these distances:
124 9 0.04
125 114 0.49
126 4 0.02
127 6 0.03
128 5 0.02
129 9 0.04
130 7 0.03
131 71 0.30
132 9 0.04
ACGTcount: A:0.51, C:0.10, G:0.19, T:0.20
Consensus pattern (123 bp):
AAAAAAAGAAGATAGAATTCAAGAAAGTAGAATGCCAAAGTTGGAATCAAAGAAAGAAAAACATA
CACCTTGGATATGAGAGTATGGAACAAAAAGTGAATAAAGCTTAGTTAGAATTCAAGT
Found at i:22292021 original size:86 final size:84
Alignment explanation
Indices: 22291879--22292173 Score: 247
Period size: 86 Copynumber: 3.5 Consensus size: 84
22291869 ACTTGCATTC
* * * * * * *
22291879 ACATTCACA-TTCACATTTACATCATGAAAAAGACATTTGATTTACATTCTGCAAAAATAAAAAA
1 ACATTCACACTT-ACATGTGCATCATGAGAAAGACATTTAATTTACATGCTACAAAAACAAAAAA
*
22291943 GATATTCATATTTGCATCACTT
65 GAAATTC--ATTTGCATCACTT
* * *
22291965 ACATTCACA-TTAACATGTGCATCATGAGAAAGACGTTTAATTTGCATGCTATAAAAACAAAAAA
1 ACATTCACACTT-ACATGTGCATCATGAGAAAGACATTTAATTTACATGCTACAAAAACAAAAAA
* * *
22292029 AAAATTGCATTTGCACCACAT
65 GAAATT-CATTTGCATCACTT
* * * * * * * *
22292050 GCATT-AGCACTTACATGTGCATCATAAGAAAAAAATCTAATCTACAAGCTACAAAAACAAAAAT
1 ACATTCA-CACTTACATGTGCATCATGAGAAAGACATTTAATTTACATGCTACAAAAACAAAAAA
*
22292114 GACATTCGCATTTGCATCACTT
65 GAAATT--CATTTGCATCACTT
* * *
22292136 GCATTCACACTTGCATGTGCATAATGAGCAAA-ACATTT
1 ACATTCACACTTACATGTGCATCATGAG-AAAGACATTT
22292174 GCATTCACAT
Statistics
Matches: 168, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
84 1 0.01
85 63 0.38
86 99 0.59
87 5 0.03
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.29
Consensus pattern (84 bp):
ACATTCACACTTACATGTGCATCATGAGAAAGACATTTAATTTACATGCTACAAAAACAAAAAAG
AAATTCATTTGCATCACTT
Found at i:22292074 original size:85 final size:86
Alignment explanation
Indices: 22291952--22292168 Score: 215
Period size: 85 Copynumber: 2.5 Consensus size: 86
22291942 AGATATTCAT
* * * * ** * * * *
22291952 ATTTGCATCACTTACATTCACA-TTAACATGTGCATCATGAGAAAGACGTTTAATTTGCATGCTA
1 ATTTGCACCACATGCATTCACACTT-ACATGTGCATCATGAGAAAAAAATCTAATCTACAAGCTA
*
22292016 TAAAAACAAAAAAAAAATT-GC
65 CAAAAACAAAAAAAAAATTCGC
*
22292037 ATTTGCACCACATGCATT-AGCACTTACATGTGCATCATAAGAAAAAAATCTAATCTACAAGCTA
1 ATTTGCACCACATGCATTCA-CACTTACATGTGCATCATGAGAAAAAAATCTAATCTACAAGCTA
** *
22292101 CAAAAACAAAAATGACATTCGC
65 CAAAAACAAAAAAAAAATTCGC
* * * * *
22292123 ATTTGCATCACTTGCATTCACACTTGCATGTGCATAATGAGCAAAA
1 ATTTGCACCACATGCATTCACACTTACATGTGCATCATGAGAAAAA
22292169 CATTTGCATT
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
84 1 0.01
85 63 0.59
86 42 0.39
87 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (86 bp):
ATTTGCACCACATGCATTCACACTTACATGTGCATCATGAGAAAAAAATCTAATCTACAAGCTAC
AAAAACAAAAAAAAAATTCGC
Found at i:22292865 original size:22 final size:22
Alignment explanation
Indices: 22292826--22292879 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
22292816 CCAAATTATT
*
22292826 TGGCACCTAAGCCTAGATTAGC
1 TGGCACCTAAGCCAAGATTAGC
* *
22292848 TGGCACCTAGGTCAAGATTAGC
1 TGGCACCTAAGCCAAGATTAGC
*
22292870 TTGCACCTAA
1 TGGCACCTAA
22292880 ACCAGCAGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (22 bp):
TGGCACCTAAGCCAAGATTAGC
Found at i:22293359 original size:41 final size:41
Alignment explanation
Indices: 22293296--22293373 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
22293286 GTCCTCCGGA
* * *
22293296 CAAAATTTTAGATTTCTTAATGATTGCAAAAGACCTCTGAG
1 CAAAATTTTAAATTTATGAATGATTGCAAAAGACCTCTGAG
* *
22293337 CAAAATTTTAAATTTATGAATGATTTCCAAAGACCTC
1 CAAAATTTTAAATTTATGAATGATTGCAAAAGACCTC
22293374 AAGGTAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (41 bp):
CAAAATTTTAAATTTATGAATGATTGCAAAAGACCTCTGAG
Found at i:22293545 original size:22 final size:22
Alignment explanation
Indices: 22293517--22293614 Score: 124
Period size: 22 Copynumber: 4.5 Consensus size: 22
22293507 ACATGACAAG
*
22293517 ATCTTTAAGACTTCCAAGCATA
1 ATCTTTAAGACCTCCAAGCATA
*
22293539 ATCTTTAAAACCTCCAAGCATA
1 ATCTTTAAGACCTCCAAGCATA
* * *
22293561 ATCTTTAAGATCTCTAGGCATA
1 ATCTTTAAGACCTCCAAGCATA
* * *
22293583 ATCTCTAATACCTCCAAACATA
1 ATCTTTAAGACCTCCAAGCATA
22293605 ATCTTTAAGA
1 ATCTTTAAGA
22293615 TTTTTGAGTA
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (22 bp):
ATCTTTAAGACCTCCAAGCATA
Found at i:22293630 original size:44 final size:44
Alignment explanation
Indices: 22293517--22293615 Score: 137
Period size: 44 Copynumber: 2.2 Consensus size: 44
22293507 ACATGACAAG
* * * *
22293517 ATCTTTAAGA-CTTCCAAGCATAATCTTTAAAACCTCCAAGCATA
1 ATCTTTAAGATC-TCTAGGCATAATCTCTAAAACCTCCAAACATA
*
22293561 ATCTTTAAGATCTCTAGGCATAATCTCTAATACCTCCAAACATA
1 ATCTTTAAGATCTCTAGGCATAATCTCTAAAACCTCCAAACATA
22293605 ATCTTTAAGAT
1 ATCTTTAAGAT
22293616 TTTTGAGTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
44 48 0.98
45 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (44 bp):
ATCTTTAAGATCTCTAGGCATAATCTCTAAAACCTCCAAACATA
Found at i:22293702 original size:7 final size:7
Alignment explanation
Indices: 22293690--22293762 Score: 50
Period size: 7 Copynumber: 10.6 Consensus size: 7
22293680 AAATTTTGTT
22293690 AAAATTA
1 AAAATTA
22293697 AAAATT-
1 AAAATTA
22293703 -AAATGT-
1 AAAAT-TA
*
22293709 AATATTAA
1 AAAATT-A
22293717 AAAAATTAA
1 A-AAATT-A
22293726 AAAATTA
1 AAAATTA
22293733 AAAATT-
1 AAAATTA
22293739 AAAATTA
1 AAAATTA
22293746 AAAA--A
1 AAAATTA
22293751 AAAAGTTA
1 AAAA-TTA
22293759 AAAA
1 AAAA
22293763 AAAAAAGAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
5 9 0.16
6 8 0.15
7 20 0.36
8 11 0.20
9 7 0.13
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:22293761 original size:8 final size:7
Alignment explanation
Indices: 22293717--22293762 Score: 53
Period size: 8 Copynumber: 6.7 Consensus size: 7
22293707 GTAATATTAA
22293717 AAAAATT
1 AAAAATT
22293724 AAAAAATT
1 -AAAAATT
22293732 AAAAATT
1 AAAAATT
22293739 -AAAATT
1 AAAAATT
22293745 AAAAA--
1 AAAAATT
22293750 AAAAAGTT
1 AAAAA-TT
22293758 AAAAA
1 AAAAA
22293763 AAAAAAGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.15
6 6 0.18
7 11 0.32
8 12 0.35
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (7 bp):
AAAAATT
Found at i:22293763 original size:13 final size:12
Alignment explanation
Indices: 22293724--22293767 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 12
22293714 TAAAAAAATT
22293724 AAAAAATTAAAA
1 AAAAAATTAAAA
*
22293736 ATTAAAATTAAAA
1 A-AAAAATTAAAA
22293749 AAAAAAGTTAAAA
1 AAAAAA-TTAAAA
22293762 AAAAAA
1 AAAAAA
22293768 AGAGTTGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 5 0.18
13 23 0.82
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (12 bp):
AAAAAATTAAAA
Found at i:22293765 original size:36 final size:35
Alignment explanation
Indices: 22293690--22293763 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 35
22293680 AAATTTTGTT
22293690 AAAATTAAAAATTAAATGTAATATTAAAAAAATTAA
1 AAAATTAAAAATTAAATGTAATA-TAAAAAAATTAA
22293726 AAAATTAAAAATTAAAAT-TAA-A-AAAAAAAGTTAA
1 AAAATTAAAAATT-AAATGTAATATAAAAAAA-TTAA
22293760 AAAA
1 AAAA
22293764 AAAAAGAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
33 7 0.19
34 8 0.22
35 1 0.03
36 16 0.44
37 4 0.11
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (35 bp):
AAAATTAAAAATTAAATGTAATATAAAAAAATTAA
Found at i:22294111 original size:24 final size:24
Alignment explanation
Indices: 22294048--22294117 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
22294038 TTAGCTTTAT
**
22294048 CCCAGAAACCCCAAGCCTCCCATG
1 CCCAGAAACCCCAAGTTTCCCATG
* *
22294072 CCTAGAAACCCCAAGTTTCTCATG
1 CCCAGAAACCCCAAGTTTCCCATG
*
22294096 CCCAGAGACCCCAAGTTTCCCA
1 CCCAGAAACCCCAAGTTTCCCA
22294118 CTCATACACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.29, C:0.43, G:0.13, T:0.16
Consensus pattern (24 bp):
CCCAGAAACCCCAAGTTTCCCATG
Found at i:22295457 original size:21 final size:21
Alignment explanation
Indices: 22295426--22295478 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
22295416 TTCAAAACTT
22295426 TAAAA-TAAAACCATAAACCC
1 TAAAATTAAAACCATAAACCC
*
22295446 TAAAATTAAAACCCTAAACCC
1 TAAAATTAAAACCATAAACCC
22295467 TAAAATTAAAAC
1 TAAAATTAAAAC
22295479 TCTAAAGCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAAATTAAAACCATAAACCC
Found at i:22295483 original size:21 final size:20
Alignment explanation
Indices: 22295426--22295484 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 20
22295416 TTCAAAACTT
22295426 TAAAA-TAAAACCATAAACCC
1 TAAAATTAAAACC-TAAACCC
22295446 TAAAATTAAAACCCTAAACCC
1 TAAAATTAAAA-CCTAAACCC
22295467 TAAAATTAAAACTCTAAA
1 TAAAATTAAAAC-CTAAA
22295485 GCCTCCAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.17
21 28 0.78
22 2 0.06
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAATTAAAACCTAAACCC
Found at i:22295495 original size:30 final size:31
Alignment explanation
Indices: 22295454--22295587 Score: 147
Period size: 30 Copynumber: 4.5 Consensus size: 31
22295444 CCTAAAATTA
22295454 AAACCCT--AAACCCTAAAATTAAAACTC-T
1 AAACCCTCCAAACCCTAAAATTAAAACTCTT
* * *
22295482 AAAGCCTCCAAA-CCTCAAAATTGAAAC-CCT
1 AAACCCTCCAAACCCT-AAAATTAAAACTCTT
*
22295512 AAACCCTCTAAACCCTAAAATTAAAA-TCTT
1 AAACCCTCCAAACCCTAAAATTAAAACTCTT
* *
22295542 AAACCCTCCAAACTCTAAAATTGAAAC-CTT
1 AAACCCTCCAAACCCTAAAATTAAAACTCTT
*
22295572 AAACCCTCTAAACCCT
1 AAACCCTCCAAACCCT
22295588 GAAACTAAGG
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
28 6 0.07
29 4 0.05
30 75 0.85
31 3 0.03
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (31 bp):
AAACCCTCCAAACCCTAAAATTAAAACTCTT
Found at i:22295530 original size:60 final size:60
Alignment explanation
Indices: 22295459--22295587 Score: 208
Period size: 60 Copynumber: 2.1 Consensus size: 60
22295449 AATTAAAACC
*
22295459 CTAAACCCTAAAATTAAAA-CTCTAAAGCCTCCAAAC-CTCAAAATTGAAACCCTAAACCCT
1 CTAAACCCTAAAATTAAAATCT-TAAACCCTCCAAACTCT-AAAATTGAAACCCTAAACCCT
*
22295519 CTAAACCCTAAAATTAAAATCTTAAACCCTCCAAACTCTAAAATTGAAACCTTAAACCCT
1 CTAAACCCTAAAATTAAAATCTTAAACCCTCCAAACTCTAAAATTGAAACCCTAAACCCT
22295579 CTAAACCCT
1 CTAAACCCT
22295588 GAAACTAAGG
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
60 61 0.94
61 4 0.06
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.22
Consensus pattern (60 bp):
CTAAACCCTAAAATTAAAATCTTAAACCCTCCAAACTCTAAAATTGAAACCCTAAACCCT
Found at i:22295605 original size:30 final size:28
Alignment explanation
Indices: 22295459--22295607 Score: 102
Period size: 30 Copynumber: 5.0 Consensus size: 28
22295449 AATTAAAACC
* *
22295459 CTAAACCCTAAAATTAAAACTCTAAAGCCT
1 CTAAACCCTAAAATT-AATC-CTAAACCCT
* *
22295489 CCAAA-CCTCAAAATTGAAACCCTAAACCCT
1 CTAAACCCT-AAAATT--AATCCTAAACCCT
*
22295519 CTAAACCCTAAAATTAAAATCTTAAACCCT
1 CTAAACCCTAAAATT--AATCCTAAACCCT
* * *
22295549 CCAAACTCTAAAATTGAAACCTTAAACCCT
1 CTAAACCCTAAAATT-AATCC-TAAACCCT
* *
22295579 CTAAACCCTGAAACTAAGGTCCTAAACCC
1 CTAAACCCTAAAATTAA--TCCTAAACCC
22295608 CAATCCTTAA
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
29 8 0.08
30 79 0.82
31 9 0.09
ACGTcount: A:0.44, C:0.31, G:0.04, T:0.21
Consensus pattern (28 bp):
CTAAACCCTAAAATTAATCCTAAACCCT
Found at i:22295605 original size:60 final size:60
Alignment explanation
Indices: 22295459--22295607 Score: 194
Period size: 60 Copynumber: 2.5 Consensus size: 60
22295449 AATTAAAACC
* *
22295459 CTAAACCCTAAAATTAAAA-CTCTAAAGCCTCCAAACCTCAAAATTGAAACCCTAAACCCT
1 CTAAACCCTAAAACTAAAATC-CTAAACCCTCCAAACCTCAAAATTGAAACCCTAAACCCT
* * *
22295519 CTAAACCCTAAAATTAAAATCTTAAACCCTCCAAA-CTCTAAAATTGAAACCTTAAACCCT
1 CTAAACCCTAAAACTAAAATCCTAAACCCTCCAAACCTC-AAAATTGAAACCCTAAACCCT
* **
22295579 CTAAACCCTGAAACTAAGGTCCTAAACCC
1 CTAAACCCTAAAACTAAAATCCTAAACCC
22295608 CAATCCTTAA
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
59 3 0.04
60 75 0.95
61 1 0.01
ACGTcount: A:0.44, C:0.31, G:0.04, T:0.21
Consensus pattern (60 bp):
CTAAACCCTAAAACTAAAATCCTAAACCCTCCAAACCTCAAAATTGAAACCCTAAACCCT
Found at i:22295731 original size:15 final size:16
Alignment explanation
Indices: 22295695--22295766 Score: 64
Period size: 15 Copynumber: 4.8 Consensus size: 16
22295685 TTTAAACCTT
*
22295695 CAAAACCATAAAATTT
1 CAAAACCATAAAATTC
22295711 CAAAACCATAAAA-TC
1 CAAAACCATAAAATTC
*
22295726 CAAAACC-TAAAACT-
1 CAAAACCATAAAATTC
* * *
22295740 CTAAATCTTAAAATT-
1 CAAAACCATAAAATTC
22295755 CAAAACC-TAAAA
1 CAAAACCATAAAA
22295767 CCCTGAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
14 15 0.31
15 20 0.42
16 13 0.27
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.21
Consensus pattern (16 bp):
CAAAACCATAAAATTC
Found at i:22297008 original size:104 final size:103
Alignment explanation
Indices: 22296888--22297214 Score: 392
Period size: 104 Copynumber: 3.2 Consensus size: 103
22296878 ATCTTTTAGT
*
22296888 ATAATCTTTAAGACCTCTGGGCAAAACATTTAAAATTTTTAAAGTTTCAAGGCCTTTAATCAAAA
1 ATAATCTTTAAGACCTCTGGGCAAAACATTTAAAATTTTTAAAGTTTCAAGGCCTCTAATCAAAA
* * * *
22296953 GAGCCTTCATACATGACGAGATCTTTAAGACCTCTAAGC
66 GAG-TTTCATACATAACAAAATCTTTAAGACCTCTAAGC
* * * *
22296992 ATAATCTCTAAAACCTCTGGGCAAAACATTTTAAATTTTTAAAGTTTCAAGGCCTCTAATAAAAA
1 ATAATCTTTAAGACCTCTGGGCAAAACATTTAAAATTTTTAAAGTTTCAAGGCCTCTAATCAAAA
* * * *
22297057 GAGTTTCCATACCTAACAATATCTCTAAGACCTCTGAGC
66 GAGTTT-CATACATAACAAAATCTTTAAGACCTCTAAGC
* * * *
22297096 ATAATCTTTAAGACCTTTAGGTAAAATATTTTAAAA--TTTAAAGTTTCATA-GCCTCT-ATCAA
1 ATAATCTTTAAGACCTCTGGGCAAAACA-TTTAAAATTTTTAAAGTTTCA-AGGCCTCTAATCAA
* * * *
22297157 AAGAGTTTTCATACATAACAAAATCTTTGAGAACTCCAGGC
64 AAGAG-TTTCATACATAACAAAATCTTTAAGACCTCTAAGC
22297198 ATAATCTTTAAGACCTC
1 ATAATCTTTAAGACCTC
22297215 CGAGTATAAT
Statistics
Matches: 190, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
102 49 0.26
103 23 0.12
104 112 0.59
105 6 0.03
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (103 bp):
ATAATCTTTAAGACCTCTGGGCAAAACATTTAAAATTTTTAAAGTTTCAAGGCCTCTAATCAAAA
GAGTTTCATACATAACAAAATCTTTAAGACCTCTAAGC
Found at i:22297549 original size:24 final size:24
Alignment explanation
Indices: 22297520--22297602 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 24
22297510 TCACAAAATC
*
22297520 AAAAAAATCAT-AAATAAAAACAA
1 AAAAAAATCATAAAAAAAAAACAA
*
22297543 AACAAAAATCATGAAAAAAAAAACTA
1 AA-AAAAATCAT-AAAAAAAAAACAA
22297569 AAAAAAATCA-AATCAAGAAAAAACCAA
1 AAAAAAATCATAA--AA-AAAAAA-CAA
22297596 AAAAAAA
1 AAAAAAA
22297603 AAAACTTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
23 4 0.08
24 9 0.18
25 10 0.20
26 18 0.36
27 9 0.18
ACGTcount: A:0.77, C:0.11, G:0.02, T:0.10
Consensus pattern (24 bp):
AAAAAAATCATAAAAAAAAAACAA
Found at i:22297574 original size:25 final size:23
Alignment explanation
Indices: 22297520--22297602 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 23
22297510 TCACAAAATC
*
22297520 AAAAAAATCATAAATAAAAACAA
1 AAAAAAATCATAAAAAAAAACAA
*
22297543 AACAAAAATCATGAAAAAAAAAACTA
1 AA-AAAAATCAT--AAAAAAAAACAA
*
22297569 AAAAAAATCAAATCAAGAAAAAACCAA
1 AAAAAAATC--AT-AA-AAAAAAACAA
22297596 AAAAAAA
1 AAAAAAA
22297603 AAAACTTTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
23 2 0.04
24 9 0.18
25 7 0.14
26 14 0.29
27 17 0.35
ACGTcount: A:0.77, C:0.11, G:0.02, T:0.10
Consensus pattern (23 bp):
AAAAAAATCATAAAAAAAAACAA
Found at i:22299547 original size:25 final size:26
Alignment explanation
Indices: 22299513--22299565 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
22299503 TTGAGTTCGA
22299513 TTTTCTT-AA-AGGAGAAAAGAGATTT
1 TTTTCTTAAAGAGGAGAAAAGA-ATTT
* *
22299538 TTTTTTTAAAGAGGAGAAATGAATTT
1 TTTTCTTAAAGAGGAGAAAAGAATTT
22299564 TT
1 TT
22299566 AAAAAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 8 0.33
27 10 0.42
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.42
Consensus pattern (26 bp):
TTTTCTTAAAGAGGAGAAAAGAATTT
Found at i:22302371 original size:16 final size:17
Alignment explanation
Indices: 22302345--22302383 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
22302335 CAAAAAATAC
22302345 AATTATAAAAAATT-ATA
1 AATTAT-AAAAATTGATA
22302362 AATTAT-AAAATTGATA
1 AATTATAAAAATTGATA
22302378 AATTAT
1 AATTAT
22302384 TGTTATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.29
16 9 0.43
17 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AATTATAAAAATTGATA
Done.