Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 216 of 226
Found at i:64494855 original size:16 final size:16
Alignment explanation
Indices: 64494836--64494876 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
64494826 CACTTTATAA
64494836 TATATACATATATATC
1 TATATACATATATATC
** *
64494852 TATATTTATATATATT
1 TATATACATATATATC
64494868 TATATACAT
1 TATATACAT
64494877 TTTTACGAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATACATATATATC
Found at i:64494939 original size:16 final size:15
Alignment explanation
Indices: 64494905--64494943 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
64494895 TTATATTTTT
* *
64494905 TATATATAAACTTTA
1 TATACATAAACTGTA
64494920 TATACATAAACGTGTA
1 TATACATAAAC-TGTA
64494936 TATACATA
1 TATACATA
64494944 CTTGCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (15 bp):
TATACATAAACTGTA
Found at i:64495220 original size:15 final size:15
Alignment explanation
Indices: 64495200--64495229 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64495190 ATTATTCGTT
*
64495200 TTTGTTCATATTATC
1 TTTGTTCACATTATC
64495215 TTTGTTCACATTATC
1 TTTGTTCACATTATC
64495230 ATTTTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTGTTCACATTATC
Found at i:64495474 original size:111 final size:110
Alignment explanation
Indices: 64495276--64495709 Score: 561
Period size: 109 Copynumber: 4.0 Consensus size: 110
64495266 TTCAAAAAAG
* * * *
64495276 AAAATTTTTCTAAATGAGGCAATATTTAGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAATATTTCAAAATAAGGCAATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
64495341 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
* * * * *
64495386 AAAATTTTTTAAAATAATGCAATGTTTAGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAATATTTCAAAATAAGGCAATATTTAGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGC
64495451 TGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
65 TGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
* * * *
64495497 AAAA-ATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTTGAGAAAACATGCCCGAAGGTGTT
1 AAAATATTTCAAAATAAGGCAATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
64495561 GGGTGTCGATTTTTCTCATTCAACCAAATGACTAAATATCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
* * * * * * * *
64495606 AAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTTGAG-GAACGTACCCTAAGGTGCT
1 AAAATATTTCAAAATAAGGCAATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * * * * *
64495670 GGATTTCGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCT
64495710 CTCGAACTTC
Statistics
Matches: 289, Mismatches: 33, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
107 26 0.09
109 97 0.34
110 88 0.30
111 78 0.27
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (110 bp):
AAAATATTTCAAAATAAGGCAATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
Found at i:64497071 original size:129 final size:129
Alignment explanation
Indices: 64496848--64497098 Score: 448
Period size: 129 Copynumber: 1.9 Consensus size: 129
64496838 AAGACGATAA
* * *
64496848 TATGATAAAAGGCATTGTCTATGGTTTCTGCTGCAGAAAATTGTTAACTTTCGGGATGATGCCAT
1 TATGATAAAAGGAATTGTCTATGGTTTCTGCTGCAGAAAATTGTTAACTTTCGAGATGACGCCAT
* *
64496913 TATAAAATTTGTTTGCATGAACTAATTAATCCATAGACTTTAATTATGTACTATGTAACGATTG
66 TATAAAATTTGTTTGCATGAACTAATTAATACATAGACTTTAACTATGTACTATGTAACGATTG
*
64496977 TATGATGAAAGGAATTGTCTATGGTTTCTGCTGCAGAAAATTGTTAACTTTCGAGATGACGCCAT
1 TATGATAAAAGGAATTGTCTATGGTTTCTGCTGCAGAAAATTGTTAACTTTCGAGATGACGCCAT
64497042 TATAAAATTTGTTTGCATGAACTAATTAATACATAGACTTTAACTATGTACTATGTA
66 TATAAAATTTGTTTGCATGAACTAATTAATACATAGACTTTAACTATGTACTATGTA
64497099 GGCGTCCTAG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 116 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (129 bp):
TATGATAAAAGGAATTGTCTATGGTTTCTGCTGCAGAAAATTGTTAACTTTCGAGATGACGCCAT
TATAAAATTTGTTTGCATGAACTAATTAATACATAGACTTTAACTATGTACTATGTAACGATTG
Found at i:64503337 original size:15 final size:16
Alignment explanation
Indices: 64503317--64503348 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
64503307 TTTAAATATA
64503317 TAATAAAA-ATAAAAT
1 TAATAAAACATAAAAT
64503332 TAATAAAACATAAAAT
1 TAATAAAACATAAAAT
64503348 T
1 T
64503349 TTATCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
TAATAAAACATAAAAT
Found at i:64514772 original size:14 final size:15
Alignment explanation
Indices: 64514746--64514776 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
64514736 TCCGGGTTCA
64514746 TCAACACATTTTTCT
1 TCAACACATTTTTCT
64514761 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
64514775 TC
1 TC
64514777 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:64518720 original size:20 final size:18
Alignment explanation
Indices: 64518687--64518730 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
64518677 AACATACATC
64518687 TAATTATTTTTATTTCAT
1 TAATTATTTTTATTTCAT
*
64518705 TAATTATATATTTATTTTAT
1 TAATTAT-T-TTTATTTCAT
64518725 TAATTA
1 TAATTA
64518731 GTGTATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 1 0.04
20 15 0.65
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TAATTATTTTTATTTCAT
Found at i:64518744 original size:20 final size:20
Alignment explanation
Indices: 64518687--64518746 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
64518677 AACATACATC
64518687 TAATTAT-T-TTTAT-TTCAT
1 TAATTATATATTTATATT-AT
*
64518705 TAATTATATATTTATTTTAT
1 TAATTATATATTTATATTAT
*
64518725 TAATTAGTGTATTTA-ATTAT
1 TAATTA-TATATTTATATTAT
64518745 TA
1 TA
64518747 TTTAAAGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 7 0.19
19 1 0.03
20 19 0.53
21 9 0.25
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (20 bp):
TAATTATATATTTATATTAT
Found at i:64520491 original size:22 final size:24
Alignment explanation
Indices: 64520463--64520506 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
64520453 TATGGCAAGA
64520463 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGCTAGAAAAGTAAGTATG
64520485 AATTAAGCTAGAAAAGTAAGTA
1 AATTAAGCTAGAAAAGTAAGTA
64520507 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGCTAGAAAAGTAAGTATG
Found at i:64520870 original size:36 final size:35
Alignment explanation
Indices: 64520830--64520922 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 35
64520820 TATATGTGTG
* * *
64520830 GAATTGAAATGAATTTTGACTTGAAAATGGAAAAGT
1 GAATTGAATTGAATTGTGA-TTGAAAATGAAAAAGT
* *
64520866 GAATTTTGAATTAAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATGAAAAAGT
*
64520903 GAAATTGAATTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
64520923 ATTTGGAGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
36 17 0.36
37 15 0.32
38 15 0.32
ACGTcount: A:0.44, C:0.01, G:0.23, T:0.32
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:64520892 original size:37 final size:38
Alignment explanation
Indices: 64520831--64520922 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 38
64520821 ATATGTGTGG
* * *
64520831 AATTGAAATG-AATTTTGACTTGAAAATGGAAAAGTGA
1 AATTGAATTGAAATTGTGACTTGAAAATGAAAAAGTGA
* *
64520868 ATTTTGAATT-AAATTGTGA-TTGAAAGTGAAAAAGTGA
1 A-ATTGAATTGAAATTGTGACTTGAAAATGAAAAAGTGA
64520905 AATTGAATTGAAA-TGTGA
1 AATTGAATTGAAATTGTGA
64520923 ATTTGGAGAC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
36 12 0.26
37 21 0.46
38 13 0.28
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.33
Consensus pattern (38 bp):
AATTGAATTGAAATTGTGACTTGAAAATGAAAAAGTGA
Found at i:64521114 original size:37 final size:37
Alignment explanation
Indices: 64521013--64521123 Score: 89
Period size: 37 Copynumber: 2.8 Consensus size: 37
64521003 CGACCTCGAG
*
64521013 TCGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGA
1 TCGATGAGACACTGGGTGTCA--A-CTTTCTTCGGATAGA
** ** * *
64521053 TTCGATGAGGTACTGGGTACCAACTTTCTTCGGCTTTGA
1 -TCGATGAGACACTGGGTGTCAACTTTCTTCGG-ATAGA
64521092 -CGATGAGACACTGGGTGTCAACTATTGCTTCG
1 TCGATGAGACACTGGGTGTCAACT-TT-CTTCG
64521124 AACTATCCGA
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
37 19 0.34
38 11 0.20
39 9 0.16
41 17 0.30
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (37 bp):
TCGATGAGACACTGGGTGTCAACTTTCTTCGGATAGA
Found at i:64523205 original size:26 final size:26
Alignment explanation
Indices: 64523175--64523237 Score: 63
Period size: 32 Copynumber: 2.2 Consensus size: 26
64523165 TAAGAAGGAC
64523175 AGTTCTAAATGTATTAACATCTGTTA
1 AGTTCTAAATGTATTAACATCTGTTA
*
64523201 AGTTCCCACACTAAATGTATTGACATCTGTTA
1 AGTT------CTAAATGTATTAACATCTGTTA
64523233 AGTTC
1 AGTTC
64523238 CTGCAGGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
26 5 0.17
32 25 0.83
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (26 bp):
AGTTCTAAATGTATTAACATCTGTTA
Found at i:64535991 original size:20 final size:18
Alignment explanation
Indices: 64535958--64536020 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 18
64535948 AACATACATC
64535958 TAATTATTTTTATTTCAT
1 TAATTATTTTTATTTCAT
*
64535976 TAATTATATATTTATTTTAT
1 TAATTAT-T-TTTATTTCAT
* *
64535996 TAATTA-TTGTATTTAAT
1 TAATTATTTTTATTTCAT
64536013 T-ATTATTT
1 TAATTATTT
64536021 AAAGATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 4 0.10
17 11 0.28
18 8 0.21
19 1 0.03
20 15 0.38
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TAATTATTTTTATTTCAT
Found at i:64535997 original size:16 final size:16
Alignment explanation
Indices: 64535975--64536021 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
64535965 TTTTATTTCA
64535975 TTAATTATATATTTAT
1 TTAATTATATATTTAT
*
64535991 TTTATTA-ATTATTGTAT
1 TTAATTATA-TATT-TAT
64536008 TTAATTAT-TATTTA
1 TTAATTATATATTTA
64536022 AAGATATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 3 0.12
16 14 0.54
17 9 0.35
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTAATTATATATTTAT
Found at i:64537937 original size:20 final size:18
Alignment explanation
Indices: 64537904--64537966 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 18
64537894 AACATACATC
64537904 TAATTATTTTTATTTCAT
1 TAATTATTTTTATTTCAT
*
64537922 TAATTATATATTTATTTTAT
1 TAATTAT-T-TTTATTTCAT
* *
64537942 TAATTA-TTGTATTTAAT
1 TAATTATTTTTATTTCAT
64537959 T-ATTATTT
1 TAATTATTT
64537967 AAAGATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 4 0.10
17 11 0.28
18 8 0.21
19 1 0.03
20 15 0.38
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TAATTATTTTTATTTCAT
Found at i:64537943 original size:16 final size:16
Alignment explanation
Indices: 64537921--64537967 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
64537911 TTTTATTTCA
64537921 TTAATTATATATTTAT
1 TTAATTATATATTTAT
*
64537937 TTTATTA-ATTATTGTAT
1 TTAATTATA-TATT-TAT
64537954 TTAATTAT-TATTTA
1 TTAATTATATATTTA
64537968 AAGATATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 3 0.12
16 14 0.54
17 9 0.35
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTAATTATATATTTAT
Found at i:64538165 original size:45 final size:44
Alignment explanation
Indices: 64538112--64538209 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
64538102 TTTGGTTCGC
64538112 TGTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAA
* *
64538157 TGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAA
*
64538201 TGGAATGGA
1 TGTAATGGA
64538210 GGTGTAATAG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
43 1 0.02
44 24 0.49
45 24 0.49
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAA
Found at i:64538387 original size:18 final size:17
Alignment explanation
Indices: 64538366--64538400 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
64538356 TTATTATTAA
*
64538366 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
64538384 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
64538401 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:64538446 original size:61 final size:61
Alignment explanation
Indices: 64538375--64538571 Score: 206
Period size: 61 Copynumber: 3.3 Consensus size: 61
64538365 AATATATTTT
* *
64538375 AATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAA
1 AATTATAATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAA
* * * * * * * * * **
64538436 AATCATAATATATGATACT-ATAAAA-T-ATAAT-TTGAAATAATTATTAT-TAAATATATTTT
1 AATTATAATATATGAT-TTAATAAAATTCTTAATAAT-CAAT-ATTCTTATATGAATTTACTAA
*
64538495 AATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAA
1 AATTATAATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAA
64538556 AATTATAATATATGAT
1 AATTATAATATATGAT
64538572 ACTATAAATA
Statistics
Matches: 102, Mismatches: 26, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
58 2 0.02
59 34 0.33
60 16 0.16
61 48 0.47
62 2 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (61 bp):
AATTATAATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAA
Found at i:64538507 original size:18 final size:17
Alignment explanation
Indices: 64538484--64538520 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
64538474 AATTATTATT
64538484 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
64538500 AAATATATGATTTAATA
1 AAATATATGATTTAATA
64538517 AAAT
1 AAAT
64538521 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:64538626 original size:18 final size:17
Alignment explanation
Indices: 64538603--64538639 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
64538593 AATTATTATT
64538603 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
64538619 AAATATATGATTTAATA
1 AAATATATGATTTAATA
64538636 AAAT
1 AAAT
64538640 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:64538649 original size:119 final size:120
Alignment explanation
Indices: 64538352--64538640 Score: 553
Period size: 120 Copynumber: 2.4 Consensus size: 120
64538342 ATATTTTAAC
*
64538352 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
64538417 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
64538472 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
*
64538537 TCTTATATGAATTTACTAAAATTATAATATATGATACTAT-AAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
64538591 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
64538641 TAAAATAATT
Statistics
Matches: 167, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
119 64 0.38
120 103 0.62
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:64538748 original size:88 final size:89
Alignment explanation
Indices: 64538647--64538858 Score: 320
Period size: 88 Copynumber: 2.4 Consensus size: 89
64538637 AATTTAAAAT
*
64538647 AATTATTACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAA
1 AATTATTA-TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAATATTAAATATAA
64538712 TTTAA-CA-ATATATAATTTCATAA
65 TTTAATCAGATATATAATTTCATAA
*
64538735 AATTATTGATAATAAATTTTCTTATATAAATTTGTATAATTTAAAATAATTAATATTAAATATAA
1 AATTATT-ATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAATATTAAATATAA
*
64538800 TTTAATGATGATATATAATTTCATAA
65 TTTAATCA-GATATATAATTTCATAA
** *
64538826 AATCCTTAATAATAAATATTCTTATATGAATTT
1 AATTATT-ATAATAAATTTTCTTATATGAATTT
64538859 ACTAAACCAT
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
88 66 0.59
89 2 0.02
91 44 0.39
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (89 bp):
AATTATTATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAATATTAAATATAAT
TTAATCAGATATATAATTTCATAA
Found at i:64538780 original size:44 final size:44
Alignment explanation
Indices: 64538637--64538795 Score: 121
Period size: 44 Copynumber: 3.5 Consensus size: 44
64538627 GATTTAATAA
*
64538637 AATTTAAAATAATTATTACTAATAAATTTTCTTATATGAATTTGTAT
1 AATTTAAAAT-A--ATTACTAATAAATTTTCTTATATAAATTTGTAT
* * * ** *
64538684 AATTTAAAATAATTATTATTAAATATAATT-TA-ACAA--TATAT
1 AATTTAAAATAATTACTAATAAATTTTCTTATATA-AATTTGTAT
*
64538725 AATTTCATAAAATTATTGA-TAATAAATTTTCTTATATAAATTTGTAT
1 AA-TT--TAAAATAATT-ACTAATAAATTTTCTTATATAAATTTGTAT
* *
64538772 AATTTAAAATAATTAATATTAAAT
1 AATTTAAAATAATTACTAATAAAT
64538796 ATAATTTAAT
Statistics
Matches: 87, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
41 6 0.07
42 2 0.02
43 5 0.06
44 49 0.56
45 5 0.06
46 4 0.05
47 16 0.18
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (44 bp):
AATTTAAAATAATTACTAATAAATTTTCTTATATAAATTTGTAT
Found at i:64538786 original size:47 final size:46
Alignment explanation
Indices: 64538637--64538786 Score: 161
Period size: 47 Copynumber: 3.3 Consensus size: 46
64538627 GATTTAATAA
*
64538637 AATTTAAAATAATTATTACTAATAAATTTTCTTATATGAATTTGTAT
1 AATTTAAAATAATTATTA-TAATAAATTTTCTTATATAAATTTGTAT
* ** *
64538684 AATTTAAAATAATTATTAT--TAAATATAATT-TA-ACAA--TATAT
1 AATTTAAAATAATTATTATAATAAATTTTCTTATATA-AATTTGTAT
*
64538725 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATAAATTTGTAT
1 AATTT-AAAATAATTATT-ATAATAAATTTTCTTATATAAATTTGTAT
64538772 AATTTAAAATAATTA
1 AATTTAAAATAATTA
64538787 ATATTAAATA
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
41 16 0.20
42 5 0.06
43 4 0.05
44 16 0.20
45 4 0.05
46 5 0.06
47 32 0.39
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (46 bp):
AATTTAAAATAATTATTATAATAAATTTTCTTATATAAATTTGTAT
Found at i:64544129 original size:14 final size:15
Alignment explanation
Indices: 64544103--64544133 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
64544093 TCCGGGTTCA
64544103 TCAACACATTTTTCT
1 TCAACACATTTTTCT
64544118 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
64544132 TC
1 TC
64544134 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:64545146 original size:52 final size:53
Alignment explanation
Indices: 64545051--64545156 Score: 135
Period size: 52 Copynumber: 2.0 Consensus size: 53
64545041 TCTAGATATG
* * *
64545051 TATATAAAGGGATTACATCAGTTTCAACTGAATAAGTTTATTTGAACAGACTT
1 TATATAAAGGGATTACATCAGTTTCAACAGAATAAATTGATTTGAACAGACTT
** *
64545104 TATA-AAAGGGATTACATCAGTTTCGGTCAG-ATAAATTGATTTGAATAGACTT
1 TATATAAAGGGATTACATCAGTTTC-AACAGAATAAATTGATTTGAACAGACTT
64545156 T
1 T
64545157 TATGCATTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 40 0.87
53 6 0.13
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (53 bp):
TATATAAAGGGATTACATCAGTTTCAACAGAATAAATTGATTTGAACAGACTT
Found at i:64550959 original size:14 final size:15
Alignment explanation
Indices: 64550933--64550963 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
64550923 TCCGAGTTCA
64550933 TCAACACATTTTTCT
1 TCAACACATTTTTCT
64550948 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
64550962 TC
1 TC
64550964 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:64551678 original size:17 final size:17
Alignment explanation
Indices: 64551656--64551695 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
64551646 AAAGATTTGG
64551656 AAAGAAGTTGTTTCTGT
1 AAAGAAGTTGTTTCTGT
64551673 AAAGAAGTTGTTTCTGT
1 AAAGAAGTTGTTTCTGT
64551690 AAAGAA
1 AAAGAA
64551696 ACAAGTCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (17 bp):
AAAGAAGTTGTTTCTGT
Found at i:64553004 original size:24 final size:24
Alignment explanation
Indices: 64552977--64553027 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
64552967 TAATTCAGCA
64552977 GTAAGAAAATAATAAATACTCGTT
1 GTAAGAAAATAATAAATACTCGTT
64553001 GTAAGAAAATAATAAATACTCGTT
1 GTAAGAAAATAATAAATACTCGTT
64553025 GTA
1 GTA
64553028 GATGATGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (24 bp):
GTAAGAAAATAATAAATACTCGTT
Found at i:64557773 original size:132 final size:132
Alignment explanation
Indices: 64557531--64557931 Score: 694
Period size: 132 Copynumber: 3.0 Consensus size: 132
64557521 ATGTGTTTTG
64557531 ACTACTGCTTAGGGGGATAGGACTAATGGCTTAAATCTACTTCTCCATTGTCTTGGGAAGATAAG
1 ACTACTGCTTAGGGGGATAGGACTAATGGCTTAAATCTACTTCTCCATTGTCTTGGGAAGATAAG
* * *
64557596 ATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGGCAGAATCTGTAATCTTTGACCTATT
66 ATTCACCATCTTCAATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGTAATCTTCGACCTATT
64557661 CC
131 CC
* * *
64557663 ACTACTGCTTAGGGGGATAAGACTAATGGCTTCAATTTACTTCTCCATTGTCTTGGGAAGATAAG
1 ACTACTGCTTAGGGGGATAGGACTAATGGCTTAAATCTACTTCTCCATTGTCTTGGGAAGATAAG
* *
64557728 ATTCACCATCTTCAATCTGCTCCATTACTGCTTAGGGTGATAGAATCTGTAATCTTCGACCTATT
66 ATTCACCATCTTCAATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGTAATCTTCGACCTATT
64557793 CC
131 CC
* *
64557795 ACTACTGCTTAGGGGGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTCTTGGGAAGATAAG
1 ACTACTGCTTAGGGGGATAGGACTAATGGCTTAAATCTACTTCTCCATTGTCTTGGGAAGATAAG
**
64557860 ATTCACCATCTTCAATCTGCTCCACTACTGCTTAGGGTGACAGAATCTACAATCTTCGACCTATT
66 ATTCACCATCTTCAATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGTAATCTTCGACCTATT
64557925 CC
131 CC
64557927 ACTAC
1 ACTAC
64557932 AGGACTTGCT
Statistics
Matches: 252, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 252 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (132 bp):
ACTACTGCTTAGGGGGATAGGACTAATGGCTTAAATCTACTTCTCCATTGTCTTGGGAAGATAAG
ATTCACCATCTTCAATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGTAATCTTCGACCTATT
CC
Found at i:64558399 original size:51 final size:51
Alignment explanation
Indices: 64558323--64558424 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
64558313 AGGACATAAA
64558323 ATTTTTACCATCAATCTCCCACTATAACCCAAGGGTAGAAAGATATGGTTT
1 ATTTTTACCATCAATCTCCCACTATAACCCAAGGGTAGAAAGATATGGTTT
64558374 ATTTTTACCATCAATCTCCCACTATAACCCAAGGGTAGAAAGATATGGTTT
1 ATTTTTACCATCAATCTCCCACTATAACCCAAGGGTAGAAAGATATGGTTT
64558425 TTCACAATCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (51 bp):
ATTTTTACCATCAATCTCCCACTATAACCCAAGGGTAGAAAGATATGGTTT
Found at i:64559325 original size:9 final size:9
Alignment explanation
Indices: 64559310--64559365 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
64559300 TTTCCTTTTC
64559310 TTTT-TTCT
1 TTTTCTTCT
64559318 TCTTT-TTCT
1 T-TTTCTTCT
*
64559327 TTTTCTTTT
1 TTTTCTTCT
64559336 TTTTCTTTCT
1 TTTTC-TTCT
*
64559346 TTTTCTTTT
1 TTTTCTTCT
64559355 TTTTCTT-T
1 TTTTCTTCT
64559363 TTT
1 TTT
64559366 AAAAATTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
8 8 0.19
9 26 0.62
10 8 0.19
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:64559346 original size:19 final size:19
Alignment explanation
Indices: 64559300--64559362 Score: 90
Period size: 19 Copynumber: 3.2 Consensus size: 19
64559290 GCCTCTCCTT
*
64559300 TTTCCTTTTCTTTTTTCTTC
1 TTTCTTTTTCTTTTTT-TTC
64559320 TTTTTCTTTTTCTTTTTTTTC
1 --TTTCTTTTTCTTTTTTTTC
64559341 TTTCTTTTTCTTTTTTTTC
1 TTTCTTTTTCTTTTTTTTC
64559360 TTT
1 TTT
64559363 TTTAAAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
19 22 0.55
21 3 0.08
22 15 0.38
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTCTTTTTCTTTTTTTTC
Found at i:64559359 original size:15 final size:16
Alignment explanation
Indices: 64559297--64559364 Score: 81
Period size: 15 Copynumber: 4.4 Consensus size: 16
64559287 TTGGCCTCTC
*
64559297 CTTTTTCCTTTTCTTT
1 CTTTTTCTTTTTCTTT
64559313 -TTTCTTCTTTTTCTTT
1 CTTT-TTCTTTTTCTTT
64559329 -TTCTTT-TTTTTCTTT
1 CTT-TTTCTTTTTCTTT
64559344 CTTTTTCTTTTT-TTT
1 CTTTTTCTTTTTCTTT
64559359 CTTTTT
1 CTTTTT
64559365 TAAAAATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
15 24 0.51
16 22 0.47
17 1 0.02
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
CTTTTTCTTTTTCTTT
Found at i:64559364 original size:6 final size:6
Alignment explanation
Indices: 64559297--64559355 Score: 68
Period size: 6 Copynumber: 10.0 Consensus size: 6
64559287 TTGGCCTCTC
* * *
64559297 CTTTTT CCTTTT C-TTTT -TTCTT CTTTTT CTTTTT CTTTTT TTTCTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTT-TTT
64559344 CTTTTT CTTTTT
1 CTTTTT CTTTTT
64559356 TTTCTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 7 0.16
6 33 0.73
7 5 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:64570861 original size:17 final size:17
Alignment explanation
Indices: 64570828--64570861 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
64570818 TTTAATTAAT
64570828 TAAATTATTAAAAATTA
1 TAAATTATTAAAAATTA
64570845 TAAA-TATTAAAATATTA
1 TAAATTATTAAAA-ATTA
64570862 CATAATAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTATTAAAAATTA
Found at i:64571899 original size:17 final size:17
Alignment explanation
Indices: 64571877--64571910 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64571867 ATCCACTAAT
*
64571877 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
64571894 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
64571911 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:64576539 original size:17 final size:17
Alignment explanation
Indices: 64576517--64576550 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64576507 ATCCACTAAT
*
64576517 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
64576534 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
64576551 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:64579812 original size:21 final size:21
Alignment explanation
Indices: 64579786--64579825 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
64579776 TTATTAAATG
64579786 TGTCGTATTTATATCAAGGAT
1 TGTCGTATTTATATCAAGGAT
64579807 TGTCGTATTTATATCAAGG
1 TGTCGTATTTATATCAAGG
64579826 GTTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (21 bp):
TGTCGTATTTATATCAAGGAT
Found at i:64586818 original size:3 final size:3
Alignment explanation
Indices: 64586810--64586839 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
64586800 TTGTTTTCTA
64586810 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
64586840 TTAAAACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:64598482 original size:16 final size:16
Alignment explanation
Indices: 64598461--64598495 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
64598451 TATAAAAGTT
64598461 ATAAAAAATT-AAAACA
1 ATAAAAAATTCAAAA-A
64598477 ATAAAAAATTCAAAAA
1 ATAAAAAATTCAAAAA
64598493 ATA
1 ATA
64598496 TATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (16 bp):
ATAAAAAATTCAAAAA
Found at i:64605337 original size:21 final size:21
Alignment explanation
Indices: 64605311--64605351 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64605301 ATCTGCTCAA
* *
64605311 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
64605332 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
64605352 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:64609399 original size:20 final size:21
Alignment explanation
Indices: 64609374--64609415 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
64609364 GAAAATATAT
* *
64609374 TTTCCATTCAA-TTTTCTATC
1 TTTCCAATCAAGTTTTCCATC
64609394 TTTCCAATCAAGTTTTCCATC
1 TTTCCAATCAAGTTTTCCATC
64609415 T
1 T
64609416 CTTTAGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.21, C:0.26, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTCCAATCAAGTTTTCCATC
Found at i:64610014 original size:14 final size:15
Alignment explanation
Indices: 64609988--64610018 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
64609978 TCCAGGTTCA
64609988 TCAACACATTTTTCT
1 TCAACACATTTTTCT
64610003 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
64610017 TC
1 TC
64610019 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:64610453 original size:16 final size:16
Alignment explanation
Indices: 64610432--64610464 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64610422 AAAAGTTATA
64610432 AAAAAATT-AAAACAAT
1 AAAAAATTCAAAA-AAT
64610448 AAAAAATTCAAAAAAT
1 AAAAAATTCAAAAAAT
64610464 A
1 A
64610465 TATAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAATTCAAAAAAT
Found at i:64614564 original size:91 final size:90
Alignment explanation
Indices: 64614405--64614584 Score: 288
Period size: 91 Copynumber: 2.0 Consensus size: 90
64614395 TAGAAACGCC
* *
64614405 GCTATAGGTAGAGTATTAGCGGCGATTCCGAAAAAGCGCCGCAAAAATGTTAATCAGTACGCATC
1 GCTATAGGTAGAGTATTAGCGGCGATTCCAAAAAAGCGCCACAAAAATGTTAATCAGTACGCATC
64614470 GTTTTACTTTAGCTTCTAGTCGAAA
66 GTTTTACTTTAGCTTCTAGTCGAAA
* * * **
64614495 GCTATATGTGGAGTATTAGCGGCGCTTGTAAAAAAGCGCCACAAAAAATGTTAATCAGTACGCAT
1 GCTATAGGTAGAGTATTAGCGGCGATTCCAAAAAAGCGCCAC-AAAAATGTTAATCAGTACGCAT
64614560 CGTTTTACTTTAGCTTCTAGTCGAA
65 CGTTTTACTTTAGCTTCTAGTCGAA
64614585 CTATCGGCAC
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
90 35 0.43
91 47 0.57
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (90 bp):
GCTATAGGTAGAGTATTAGCGGCGATTCCAAAAAAGCGCCACAAAAATGTTAATCAGTACGCATC
GTTTTACTTTAGCTTCTAGTCGAAA
Found at i:64617881 original size:87 final size:87
Alignment explanation
Indices: 64617732--64617902 Score: 265
Period size: 87 Copynumber: 2.0 Consensus size: 87
64617722 TTTTTTCAGC
* *
64617732 AGTGTTAATGCATTCATATTCTCGGCCAATTTGAAGCAGTTAATGGCTTTAAAGGAACCCGAA-C
1 AGTGTTAATGCATTCATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGAACCCGAATC
64617796 CTGA-TAAATTGCATACTTCACGT
66 C--ACTAAATTGCATACTTCACGT
* * *
64617819 AGTGTTAATGCATTGATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGCAGCCGAATC
1 AGTGTTAATGCATTCATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGAACCCGAATC
64617884 CACTAAATTGCATACTTCA
66 CACTAAATTGCATACTTCA
64617903 AGTGAAGAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
86 1 0.01
87 74 0.96
88 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (87 bp):
AGTGTTAATGCATTCATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGAACCCGAATC
CACTAAATTGCATACTTCACGT
Found at i:64619954 original size:14 final size:15
Alignment explanation
Indices: 64619928--64619958 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
64619918 TCCAGGTTCA
64619928 TCAACACATTTTTCT
1 TCAACACATTTTTCT
64619943 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
64619957 TC
1 TC
64619959 CCATTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:64627657 original size:14 final size:15
Alignment explanation
Indices: 64627633--64627661 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64627623 CAGGTTCATT
64627633 AACACATTTTTCTTC
1 AACACATTTTTCTTC
64627648 AACA-ATTTTTCTTC
1 AACACATTTTTCTTC
64627662 CCATTTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (15 bp):
AACACATTTTTCTTC
Found at i:64638202 original size:19 final size:18
Alignment explanation
Indices: 64638154--64638204 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
64638144 AACTAAAAAA
64638154 TAAAAAATTTA-AAATCT
1 TAAAAAATTTATAAATCT
*
64638171 TATAAAATCTTATAGAAGT-T
1 TAAAAAAT-TTATA-AA-TCT
64638191 TAAAAAATTTATAA
1 TAAAAAATTTATAA
64638205 TTAAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 7 0.25
18 4 0.14
19 6 0.21
20 10 0.36
21 1 0.04
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (18 bp):
TAAAAAATTTATAAATCT
Found at i:64639226 original size:18 final size:17
Alignment explanation
Indices: 64639194--64639227 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
64639184 CTGTTTGTGT
*
64639194 TGCTTTTATATGTTATA
1 TGCTTTTAGATGTTATA
64639211 TGCTTTTAAGATGTTAT
1 TGCTTTT-AGATGTTAT
64639228 TTAAATCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.56
Consensus pattern (17 bp):
TGCTTTTAGATGTTATA
Found at i:64640272 original size:30 final size:30
Alignment explanation
Indices: 64640238--64640372 Score: 148
Period size: 30 Copynumber: 4.4 Consensus size: 30
64640228 CATAATTTAA
*
64640238 TTTTAATT-TTTAGGTTATGTACATTCTATG
1 TTTT-ATTATTTATGTTATGTACATTCTATG
*
64640268 TTTTATTATTTATGTTATGTACATACTATG
1 TTTTATTATTTATGTTATGTACATTCTATG
* * *
64640298 TCTTATTATTTTATCATTTATGTTATTATT-TATG
1 TTTTATTA-TTTAT--GTTATG-TA-CATTCTATG
*
64640332 TTTTATTATTTATGTTATGTTCATTCTATG
1 TTTTATTATTTATGTTATGTACATTCTATG
64640362 TTTTATTATTT
1 TTTTATTATTT
64640373 TATTTAATTT
Statistics
Matches: 88, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
29 6 0.07
30 47 0.53
31 10 0.11
33 10 0.11
34 13 0.15
35 2 0.02
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.62
Consensus pattern (30 bp):
TTTTATTATTTATGTTATGTACATTCTATG
Found at i:64640323 original size:12 final size:12
Alignment explanation
Indices: 64640303--64640349 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
64640293 CTATGTCTTA
* *
64640303 TTATTTTATCAT
1 TTATGTTATTAT
64640315 TTATGTTATTAT
1 TTATGTTATTAT
64640327 TTATGTTTTATTAT
1 TTATG--TTATTAT
64640341 TTATGTTAT
1 TTATGTTAT
64640350 GTTCATTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 19 0.61
14 12 0.39
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (12 bp):
TTATGTTATTAT
Found at i:64640335 original size:26 final size:29
Alignment explanation
Indices: 64640306--64640372 Score: 95
Period size: 26 Copynumber: 2.4 Consensus size: 29
64640296 TGTCTTATTA
*
64640306 TTTTATCATTTATGTTA-TT-ATT-TATG
1 TTTTATTATTTATGTTAGTTCATTCTATG
64640332 TTTTATTATTTATGTTATGTTCATTCTATG
1 TTTTATTATTTATGTTA-GTTCATTCTATG
64640362 TTTTATTATTT
1 TTTTATTATTT
64640373 TATTTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 16 0.44
28 2 0.06
29 3 0.08
30 15 0.42
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.67
Consensus pattern (29 bp):
TTTTATTATTTATGTTAGTTCATTCTATG
Found at i:64641039 original size:160 final size:159
Alignment explanation
Indices: 64640538--64641077 Score: 845
Period size: 157 Copynumber: 3.4 Consensus size: 159
64640528 TAAAAAAATG
** * * * *
64640538 AAAATAGTATATTTACTGAAAGTAATAAAATTCGAAAAAAAGAAAATTACGAACAAAGGGTCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAA
* * * * * * * *
64640603 ATAAAGGTTTTTTACTAAA-TT-TATAATAAAACACACTAAAATAATATATTTTAGACATTATGT
66 ATAAGGGGTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACTTTATGT
64640666 ACTAAAATAATATAAAATAATAAAATACA
131 ACTAAAATAATATAAAATAATAAAATACA
*
64640695 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAATGGCCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAA
* *
64640760 ATAAGGGGTTTTTACTAAATTTATATAAAAAAACAC-C-AAATTAATACATTTCTAATTTTATGT
66 ATAAGGGGTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACTTTATGT
64640823 ACTAAAATAATATAAAATAATAAAATACA
131 ACTAAAATAATATAAAATAATAAAATACA
* * *
64640852 AAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAACAAATGACCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAA
64640917 ATAAGGGGTTTTTACTAAATTTATATTAAAAAAACACACTAAATTAATACATTTCAAACTTTATG
66 ATAAGGGGTTTTTACTAAATTTATA-TAAAAAAACACACTAAATTAATACATTTCAAACTTTATG
**
64640982 TACTAAAATAATATAAAATAATAAAATATG
130 TACTAAAATAATATAAAATAATAAAATACA
64641012 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAA
64641077 A
66 A
64641078 AATCGGGAAA
Statistics
Matches: 352, Mismatches: 26, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
157 211 0.60
158 14 0.04
159 13 0.04
160 114 0.32
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (159 bp):
AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAA
ATAAGGGGTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACTTTATGT
ACTAAAATAATATAAAATAATAAAATACA
Found at i:64668269 original size:65 final size:65
Alignment explanation
Indices: 64668165--64668294 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
64668155 ACTACTTAAC
64668165 ATAATTGTCAGCAACCTCTTGGCCTATTTACAAAAGCTTGGTTTTGTAGGTACGAGAGCTTGGGT
1 ATAATTGTCAGCAACCTCTTGGCCTATTTACAAAAGCTTGGTTTTGTAGGTACGAGAGCTTGGGT
64668230 ATAATTGTCAGCAACCTCTTGGCCTATTTACAAAAGCTTGGTTTTGTAGGTACGAGAGCTTGGGT
1 ATAATTGTCAGCAACCTCTTGGCCTATTTACAAAAGCTTGGTTTTGTAGGTACGAGAGCTTGGGT
64668295 TCAATCCTAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (65 bp):
ATAATTGTCAGCAACCTCTTGGCCTATTTACAAAAGCTTGGTTTTGTAGGTACGAGAGCTTGGGT
Found at i:64668308 original size:65 final size:65
Alignment explanation
Indices: 64668174--64668308 Score: 227
Period size: 65 Copynumber: 2.1 Consensus size: 65
64668164 CATAATTGTC
** *
64668174 AGCAACCTCTTGGCCTATTTACAAAAGCTTGGTTTTGTAGGTACGAGAGCTTGGGTATAATTGTC
1 AGCAACCTCTTGGCCTATTTACAAAAGCTTGGTTTTGTAGGTACGAGAGCTTGGGTATAATCCTA
64668239 AGCAACCTCTTGGCCTATTTACAAAAGCTTGGTTTTGTAGGTACGAGAGCTTGGGT-TCAATCCT
1 AGCAACCTCTTGGCCTATTTACAAAAGCTTGGTTTTGTAGGTACGAGAGCTTGGGTAT-AATCCT
64668303 A
65 A
64668304 AGCAA
1 AGCAA
64668309 TCCTATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
64 1 0.02
65 65 0.98
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (65 bp):
AGCAACCTCTTGGCCTATTTACAAAAGCTTGGTTTTGTAGGTACGAGAGCTTGGGTATAATCCTA
Found at i:64669585 original size:20 final size:20
Alignment explanation
Indices: 64669544--64669587 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
64669534 TTTCTATTTC
*
64669544 ATTAATTATATATTTATTTT
1 ATTAATTATATATTTATATT
*
64669564 ATTAATTAGTGTATTTA-ATT
1 ATTAATTA-TATATTTATATT
64669584 ATTA
1 ATTA
64669588 TTTAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTAATTATATATTTATATT
Found at i:64670424 original size:3 final size:3
Alignment explanation
Indices: 64670409--64670445 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
64670399 TAAATAATAA
64670409 ATT A-T ATT AATT ATT ATT ATT ATT ATT ATT A-T ATT AT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
64670446 GAAATAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:64670918 original size:17 final size:17
Alignment explanation
Indices: 64670898--64670931 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64670888 AAAATAAAAG
64670898 AAAGAAAAAAAGAAACA
1 AAAGAAAAAAAGAAACA
* *
64670915 AAAGAAGAACAGAAACA
1 AAAGAAAAAAAGAAACA
64670932 GAGAATGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.09, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAGAAACA
Found at i:64674063 original size:26 final size:26
Alignment explanation
Indices: 64674033--64674095 Score: 63
Period size: 32 Copynumber: 2.2 Consensus size: 26
64674023 TAAGAAGGAC
64674033 AGTTCTAAATGTATTAACATCTGTTA
1 AGTTCTAAATGTATTAACATCTGTTA
*
64674059 AGTTCCCACACTAAATGTATTGACATCTGTTA
1 AGTT------CTAAATGTATTAACATCTGTTA
64674091 AGTTC
1 AGTTC
64674096 CTGCAGGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
26 5 0.17
32 25 0.83
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (26 bp):
AGTTCTAAATGTATTAACATCTGTTA
Found at i:64678562 original size:21 final size:21
Alignment explanation
Indices: 64678530--64678570 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
64678520 GAACATTTGG
64678530 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
64678551 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
64678571 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:64689550 original size:14 final size:15
Alignment explanation
Indices: 64689524--64689554 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
64689514 TCCGGGTTTA
64689524 TCAACACATTTTTCT
1 TCAACACATTTTTCT
64689539 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
64689553 TC
1 TC
64689555 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:64691848 original size:20 final size:20
Alignment explanation
Indices: 64691823--64691995 Score: 60
Period size: 20 Copynumber: 8.4 Consensus size: 20
64691813 GCCGGTGGAG
64691823 AAGAAAGAAGGAGAAGAAAA
1 AAGAAAGAAGGAGAAGAAAA
*
64691843 AAGAAAG-A-GA-AAGAAGGAG
1 AAGAAAGAAGGAGAAGAA--AA
*
64691862 AAGAAAGAA--A-AAGAAAG
1 AAGAAAGAAGGAGAAGAAAA
*
64691879 AA-AAGGAAAGGAGAAGAAAGGA
1 AAGAAAG-AAGGAGAAGAAA--A
* *
64691901 AAGGAAAGGAGAAGAA-AGAAA
1 AA-GAAAGAAGGAGAAGA-AAA
**
64691922 AAGAAAGAAAAAGAA-AGAAA
1 AAGAAAGAAGGAGAAGA-AAA
*
64691942 AGGAAAGGAAAGGAGAAGAAGAA
1 AAGAAA-G-AAGGAGAAGAA-AA
* *
64691965 GAAG-AAGAGGGAGGGAAGGAAA
1 -AAGAAAGAAGGA--GAAGAAAA
64691987 AAGAAAGAA
1 AAGAAAGAA
64691996 AAAAATAAGT
Statistics
Matches: 118, Mismatches: 15, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
16 3 0.03
17 11 0.09
18 2 0.02
19 16 0.14
20 35 0.30
21 11 0.09
22 17 0.14
23 18 0.15
24 5 0.04
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
AAGAAAGAAGGAGAAGAAAA
Found at i:64691881 original size:10 final size:10
Alignment explanation
Indices: 64691840--64691967 Score: 114
Period size: 10 Copynumber: 12.8 Consensus size: 10
64691830 AAGGAGAAGA
64691840 AAAAAGAAAG
1 AAAAAGAAAG
*
64691850 AGAAAG-AAG
1 AAAAAGAAAG
* *
64691859 GAGAAGAAAG
1 AAAAAGAAAG
64691869 AAAAAGAAAG
1 AAAAAGAAAG
*
64691879 AAAAGGAAAG
1 AAAAAGAAAG
* *
64691889 GAGAAGAAAG
1 AAAAAGAAAG
* *
64691899 GAAAGGAAAG
1 AAAAAGAAAG
* *
64691909 GAGAAGAAAG
1 AAAAAGAAAG
64691919 AAAAAGAAAG
1 AAAAAGAAAG
64691929 AAAAAGAAAG
1 AAAAAGAAAG
*
64691939 AAAAGGAAAG
1 AAAAAGAAAG
* *
64691949 GAAAGGAGAAG
1 AAAAAGA-AAG
*
64691960 AAGAAGAA
1 AAAAAGAA
64691968 GAAGAGGGAG
Statistics
Matches: 95, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
9 6 0.06
10 82 0.86
11 7 0.07
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:64691921 original size:50 final size:49
Alignment explanation
Indices: 64691823--64691967 Score: 177
Period size: 50 Copynumber: 2.9 Consensus size: 49
64691813 GCCGGTGGAG
** *
64691823 AAGAAAGAAGGAGAAGAAAAAAGAAAGAGAAA-G-AAGGAGAAGAAAGAAA
1 AAGAAAGAAAAAGAA-AGAAAAGAAAG-GAAAGGAAAGGAGAAGAAAGAAA
* *
64691872 AAGAAAGAAAAGGAAAGGAGAAGAAAGGAAAGGAAAGGAGAAGAAAGAAA
1 AAGAAAGAAAAAGAAA-GAAAAGAAAGGAAAGGAAAGGAGAAGAAAGAAA
*
64691922 AAGAAAGAAAAAGAAAGAAAAGGAAAGGAAAGGAGAAGAAGAAGAA
1 AAGAAAGAAAAAGAAAGAAAA-GAAAGGAAAGGA-AAGGAGAAGAA
64691968 GAAGAGGGAG
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
48 5 0.06
49 25 0.30
50 43 0.52
51 10 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (49 bp):
AAGAAAGAAAAAGAAAGAAAAGAAAGGAAAGGAAAGGAGAAGAAAGAAA
Found at i:64691970 original size:40 final size:39
Alignment explanation
Indices: 64691830--64691970 Score: 121
Period size: 45 Copynumber: 3.5 Consensus size: 39
64691820 GAGAAGAAAG
*
64691830 AAGGAGAAG-AA-AAAAGAAAGAGAAAG-AAGGAGAA-GA
1 AAGGAGAAGAAAGAAAAGAAAAAGAAAGAAAGGA-AAGGA
* * * *
64691866 AAGAAAAAGAAAGAAAAGGAAAGGAGAAGAAAGGAAAGGA
1 AAGGAGAAGAAAGAAAAGAAAAAGA-AAGAAAGGAAAGGA
64691906 AAGGAGAAGAAAGAAAAAGAAAGAAAAAGAAAGAAAAGGAAAGGA
1 AAGGAGAAGAAAG----A-AAAGAAAAAGAAAG-AAAGGAAAGGA
64691951 AAGGAGAAG-AAGAAGAAGAA
1 AAGGAGAAGAAAGAA-AAGAA
64691971 GAGGGAGGGA
Statistics
Matches: 84, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
36 7 0.08
37 2 0.02
38 9 0.11
39 6 0.07
40 24 0.29
44 7 0.08
45 29 0.35
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (39 bp):
AAGGAGAAGAAAGAAAAGAAAAAGAAAGAAAGGAAAGGA
Found at i:64691970 original size:50 final size:51
Alignment explanation
Indices: 64691854--64691967 Score: 178
Period size: 50 Copynumber: 2.3 Consensus size: 51
64691844 AGAAAGAGAA
* *
64691854 AGAAGGAGAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAAGAAAGGAAAGG
1 AGAAGGAGAAGAAAGAAAAAGAAAGAAAAAGAAAGGAAAAGAAAGGAAAGG
64691905 A-AAGGAGAAGAAAGAAAAAGAAAGAAAAAGAAA-GAAAAGGAAAGGAAAGG
1 AGAAGGAGAAGAAAGAAAAAGAAAGAAAAAGAAAGGAAAA-GAAAGGAAAGG
*
64691955 AGAAGAAGAAGAA
1 AGAAGGAGAAGAA
64691968 GAAGAGGGAG
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
49 4 0.07
50 43 0.74
51 11 0.19
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (51 bp):
AGAAGGAGAAGAAAGAAAAAGAAAGAAAAAGAAAGGAAAAGAAAGGAAAGG
Found at i:64692353 original size:16 final size:18
Alignment explanation
Indices: 64692322--64692356 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
64692312 ATAAAATCTG
64692322 AAAATAATGTAAAATAAT
1 AAAATAATGTAAAATAAT
64692340 AAAAT-ATG-AAAATAAT
1 AAAATAATGTAAAATAAT
64692356 A
1 A
64692357 TATTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 3 0.18
18 5 0.29
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAATAATGTAAAATAAT
Found at i:64692488 original size:157 final size:156
Alignment explanation
Indices: 64692322--64692888 Score: 808
Period size: 157 Copynumber: 3.7 Consensus size: 156
64692312 ATAAAATCTG
64692322 AAAATAATGTAAAATAATAAAA-TATGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAG
1 AAAATAATGTAAAATAATAAAATTA-GAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAG
* * * *
64692386 AAAAAAATACGACCAAAGGGCCGAAGTAAGGGTTATTTTTTGAAATTTATTTAAAAAATACAGTA
65 AAAAAAATACGAACAAAGGGCCGAAATAAGGGTT-TTTTTTGAAATTTATTTAAAAAACACAATA
*
64692451 AATTAATACATTTCAAACATAAAGTACT
129 AATTAATACATTTCAAACATAATGTACT
* * * *
64692479 AAAATAATGTAAAATAATAAAATTAGAAAATAGTTTA-TTTT-TTAAAAGTAATAAAATCTGGAG
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAAT-TCGAG
* * * *
64692542 AAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTACT-AAA-TT-TTAAAAAAACACAATT
65 AAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT-TTGAAATTTATTTAAAAAACACAATA
*
64692604 AATTAATACATTTCAAACATAATGTTCT
129 AATTAATACATTTCAAACATAATGTACT
*
64692632 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAAA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAGA
* * * * *
64692697 AAAAAATATGAACAAAGGGCCGAAGTAAGGGGTTTTTTTGTAAATTTATTTAAAAAAGACACTAA
66 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTG-AAATTTATTTAAAAAACACAATAA
*
64692762 ATTAATACATTTCAAATATAATGTACT
130 ATTAATACATTTCAAACATAATGTACT
* *
64692789 AAACTAATGTAAAATAATAAAATTAGAAAATAATAT-TTTTTATTGAAAGTAATAAAATTCGA-T
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAGA
* *
64692852 AAAAAATATGAACAAATGGCCGAAATAAGGGTTTTTT
66 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
64692889 ACTAAATTTG
Statistics
Matches: 366, Mismatches: 35, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
153 74 0.20
154 43 0.12
155 74 0.20
156 68 0.19
157 105 0.29
158 2 0.01
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (156 bp):
AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAGA
AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTGAAATTTATTTAAAAAACACAATAAA
TTAATACATTTCAAACATAATGTACT
Found at i:64692678 original size:310 final size:309
Alignment explanation
Indices: 64692322--64692897 Score: 935
Period size: 310 Copynumber: 1.9 Consensus size: 309
64692312 ATAAAATCTG
*
64692322 AAAATAATGTAAAATAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAGA
1 AAAATAATGTAAAATAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAAA
* * * *
64692387 AAAAAATACGACCAAAGGGCCGAAGTAAGGGTTATTTTTTG-AAATTTATTTAAAAAATACAGTA
66 AAAAAATACGAACAAAGGGCCGAAGTAAGGGGT-TTTTTTGTAAATTTATTTAAAAAAGACACTA
*
64692451 AATTAATACATTTCAAACATAAAGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGT-TT
130 AATTAATACATTTCAAACATAAAGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATT
*
64692515 ATTTT-TTAAAAGTAATAAAATCTGGAGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTT
195 -TTTTATTAAAAGTAATAAAAT-TCGA-AAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTT
64692579 TACTAAATTTTAAAAAAACACAATTAATTAATACATTTCAAACATAATGTTCT
257 TACTAAATTTTAAAAAAACACAATTAATTAATACATTTCAAACATAATGTTCT
64692632 AAAATAATGTAAAATAATAAAAT-TAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAA
1 AAAATAATGTAAAATAATAAAATAT-GAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAA
*
64692696 AAAAAAATATGAACAAAGGGCCGAAGTAAGGGGTTTTTTTGTAAATTTATTTAAAAAAGACACTA
65 AAAAAAATACGAACAAAGGGCCGAAGTAAGGGGTTTTTTTGTAAATTTATTTAAAAAAGACACTA
* * *
64692761 AATTAATACATTTCAAATATAATGTACTAAACTAATGTAAAATAATAAAATTAGAAAATAATATT
130 AATTAATACATTTCAAACATAAAGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATT
* * * * *
64692826 TTTTATTGAAAGTAATAAAATTCGATAAAAAATATGAACAAATGGCCGAAATAAGGGTTTTTTAC
195 TTTTATTAAAAGTAATAAAATTCGAAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTAC
64692891 TAAATTT
260 TAAATTT
64692898 GTTTTGAAGT
Statistics
Matches: 246, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
309 51 0.21
310 178 0.72
311 17 0.07
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (309 bp):
AAAATAATGTAAAATAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAAA
AAAAAATACGAACAAAGGGCCGAAGTAAGGGGTTTTTTTGTAAATTTATTTAAAAAAGACACTAA
ATTAATACATTTCAAACATAAAGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATTT
TTTATTAAAAGTAATAAAATTCGAAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTACT
AAATTTTAAAAAAACACAATTAATTAATACATTTCAAACATAATGTTCT
Found at i:64694225 original size:50 final size:49
Alignment explanation
Indices: 64694164--64694446 Score: 373
Period size: 50 Copynumber: 5.8 Consensus size: 49
64694154 TGGCACTGAG
*
64694164 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACTGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGA
*
64694214 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCCGCACAGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGA
* * * *
64694264 GAG-TCAGTGCAAGACCATGTCTGGGACATGGCATCGGCTCA-A-GATGA
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGA
*
64694311 GTGAC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGACTGAGGA
1 GTG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGGA
* *
64694361 GTGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTC-GA-GATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGA
* *
64694407 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAC
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
64694447 CGATATGCGA
Statistics
Matches: 206, Mismatches: 19, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
46 31 0.15
47 48 0.23
48 3 0.01
49 11 0.05
50 113 0.55
ACGTcount: A:0.27, C:0.21, G:0.33, T:0.20
Consensus pattern (49 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGA
Found at i:64694343 original size:97 final size:95
Alignment explanation
Indices: 64694168--64694446 Score: 398
Period size: 97 Copynumber: 2.9 Consensus size: 95
64694158 ACTGAGGTGC
* *
64694168 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACTGAGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCA-A--GATGAGTGC-AGTGTAAGACCATG
*
64694233 TCTGGGACATGGCATCCGCACAGACAGAGGAGAG
62 TCTGGGACATGGCATCGGCACAGACAGAGGAGAG
*
64694267 TCAGTGCAAGACCATGTCTGGGACATGGCATCGGCTCAAGATGAGTGACAGTGTAAGACCATGTC
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAAGATGAGTG-CAGTGTAAGACCATGTC
* * *
64694332 TGGGACATGGCATCGGCATAGACTGAGGAGTG
64 TGGGACATGGCATCGGCACAGACAGAGGAGAG
*
64694364 CTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTCGAGATGAGTGCCAGTGTAAGACCATGTC
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAAGATGAGTG-CAGTGTAAGACCATGTC
*
64694428 TAGGACATGGCATCGGCAC
64 TGGGACATGGCATCGGCAC
64694447 CGATATGCGA
Statistics
Matches: 165, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
96 54 0.33
97 74 0.45
98 1 0.01
99 1 0.01
100 35 0.21
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (95 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAAGATGAGTGCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCACAGACAGAGGAGAG
Found at i:64694486 original size:48 final size:47
Alignment explanation
Indices: 64694167--64694488 Score: 288
Period size: 50 Copynumber: 6.7 Consensus size: 47
64694157 CACTGAGGTG
* * *
64694167 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACTGAGGAGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CCGA--GATGAGTC
* * * * **
64694217 CTAGTGTAAGACCATGTCTGGGACATGGCATCCGCACAGACAGAGGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CCG--AGATGAGTC
* * * * *
64694267 TCAGTGCAAGACCATGTCTGGGACATGGCATCGGCTCAAGATGAGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCGAGATGAGTC
* ** * *
64694314 ACAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGACTGAGGAGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CCGA--GATGAGTC
* * *
64694364 CTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTCGAGATGAGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCGAGATGAGTC
* * *
64694410 CCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCGATATGCGATC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CCGAGATGAG-TC
* *
64694459 CCA-TGTAAGACCATATCTGGGATATGGCAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCAT
64694489 TGGTGTCCTA
Statistics
Matches: 234, Mismatches: 30, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
46 31 0.13
47 48 0.21
48 36 0.15
49 12 0.05
50 106 0.45
52 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.20
Consensus pattern (47 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCGAGATGAGTC
Found at i:64696446 original size:6 final size:6
Alignment explanation
Indices: 64696435--64696463 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
64696425 GGATACAATT
64696435 TAAGCA TAAGCA TAAGCA TAAGCA TAAGC
1 TAAGCA TAAGCA TAAGCA TAAGCA TAAGC
64696464 TGAATTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
TAAGCA
Found at i:64698663 original size:36 final size:37
Alignment explanation
Indices: 64698622--64698705 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
64698612 ACTAACACAA
** *
64698622 TAACAATAATAA-TAGTTTTTTACTCAAAAT-ATTAC
1 TAACAATAATAATTAGGGTTTTACTCAAAATAATAAC
*
64698657 TAAACAATAATAATTAGGGTTTTACTTAAAATAATAAC
1 T-AACAATAATAATTAGGGTTTTACTCAAAATAATAAC
64698695 TAACAATAATA
1 TAACAATAATA
64698706 TAATGTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 1 0.02
36 11 0.26
37 25 0.60
38 5 0.12
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (37 bp):
TAACAATAATAATTAGGGTTTTACTCAAAATAATAAC
Found at i:64698737 original size:23 final size:23
Alignment explanation
Indices: 64698692--64698738 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
64698682 TTAAAATAAT
*
64698692 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
64698715 AACTAACAATTATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
64698738 A
1 A
64698739 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.26
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:64699318 original size:35 final size:35
Alignment explanation
Indices: 64699272--64699342 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
64699262 GAATAGTAAA
64699272 CTCTATCAATACAATAAAAGCTTTCGTCTTAATAT
1 CTCTATCAATACAATAAAAGCTTTCGTCTTAATAT
64699307 CTCTATCAATACAATAAAAGCTTTCGTCTTAATAT
1 CTCTATCAATACAATAAAAGCTTTCGTCTTAATAT
64699342 C
1 C
64699343 AATAGAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (35 bp):
CTCTATCAATACAATAAAAGCTTTCGTCTTAATAT
Found at i:64702704 original size:40 final size:39
Alignment explanation
Indices: 64702661--64702795 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 39
64702651 GCGTTTGGAT
64702661 AAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTATTT-
1 AAAAAACGCCGCTAAAAATCAAT-ATTAGCGGCGCT-TTTC
* * * *
64702701 AAAAAATGCCGCTAAAGATCGAGTATTAGTGGCGCTTTTC
1 AAAAAACGCCGCTAAAAATC-AATATTAGCGGCGCTTTTC
* *
64702741 TAAAAACGCCACTAAAAAT-AGA-ATTAGCGGCG-TTTTCC
1 AAAAAACGCCGCTAAAAATCA-ATATTAGCGGCGCTTTT-C
*
64702779 AAAAAGCGCCGCTAAAA
1 AAAAAACGCCGCTAAAA
64702796 CTTAAACCTA
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
37 4 0.05
38 25 0.32
39 3 0.04
40 44 0.56
41 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (39 bp):
AAAAAACGCCGCTAAAAATCAATATTAGCGGCGCTTTTC
Found at i:64702887 original size:41 final size:41
Alignment explanation
Indices: 64702823--64702976 Score: 236
Period size: 41 Copynumber: 3.8 Consensus size: 41
64702813 TTTTTGGGGA
* *
64702823 TTTAGCAGCGCTTTTGAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
* *
64702864 TTTAACGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
*
64702905 TTTAGCGGTGCTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
* * *
64702946 TTTAGCGGTGTTTTTGAAAAAGCGCCGCTAA
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAA
64702977 AAACATTTTA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
Found at i:64703316 original size:21 final size:20
Alignment explanation
Indices: 64703282--64703322 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
64703272 TATGGGTTTA
*
64703282 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
64703302 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
64703323 AGGAGTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:64703602 original size:15 final size:15
Alignment explanation
Indices: 64703582--64703610 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
64703572 TGAGATTTAA
64703582 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
64703597 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
64703611 ATGTTAAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:64703608 original size:36 final size:36
Alignment explanation
Indices: 64703561--64703646 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
64703551 TAGTGATTAT
* *
64703561 GGTTTAAGGGTTGAGAT-TTAAGGTTTAGGGGTTAGG
1 GGTTTAAGGGTT-AGATGTTAAGGTTTAAGAGTTAGG
*
64703597 GGTTTAGGGGTTAGATGTTAAGGTTTAAGAGTTAGG
1 GGTTTAAGGGTTAGATGTTAAGGTTTAAGAGTTAGG
* *
64703633 GATTTAAGGTTTAG
1 GGTTTAAGGGTTAG
64703647 GGATTCAGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 4 0.09
36 39 0.91
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.37
Consensus pattern (36 bp):
GGTTTAAGGGTTAGATGTTAAGGTTTAAGAGTTAGG
Found at i:64704612 original size:21 final size:20
Alignment explanation
Indices: 64704588--64704626 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
64704578 TATCTCCAAA
*
64704588 TTCCCCCTGAAACCTCTAATT
1 TTCCCACTGAAACC-CTAATT
64704609 TTCCCACTGAAACCCTAA
1 TTCCCACTGAAACCCTAA
64704627 CTTTGCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.38, G:0.05, T:0.28
Consensus pattern (20 bp):
TTCCCACTGAAACCCTAATT
Found at i:64707996 original size:37 final size:37
Alignment explanation
Indices: 64707953--64708032 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
64707943 ATCTAAATCC
*
64707953 AAATTCTCAAATTCATATTTCCAAACATAGCATTAGG
1 AAATTCTCAAATTCATATTTCCAAACATAACATTAGG
64707990 AAATTCTCAAATTCATATTTCCAAACATAACATTAGG
1 AAATTCTCAAATTCATATTTCCAAACATAACATTAGG
64708027 AAATTC
1 AAATTC
64708033 ATATTTCTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (37 bp):
AAATTCTCAAATTCATATTTCCAAACATAACATTAGG
Found at i:64708566 original size:18 final size:18
Alignment explanation
Indices: 64708543--64708602 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
64708533 TATGTATTCT
64708543 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
64708561 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
64708578 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
64708596 AATGTAA
1 AATGTAA
64708603 CTTGTTTTAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:64708898 original size:43 final size:43
Alignment explanation
Indices: 64708850--64708956 Score: 187
Period size: 43 Copynumber: 2.5 Consensus size: 43
64708840 AAAGCACCGA
*
64708850 TTGCGAGAAAAGCGTCGCTAAAGGTTGTGGTCTTTAGCGGCGT
1 TTGCGAGAAAAGCGCCGCTAAAGGTTGTGGTCTTTAGCGGCGT
64708893 TTGCGAGAAAAGCGCCGCTAAAGGTTGTGGTCTTTAGCGGCGT
1 TTGCGAGAAAAGCGCCGCTAAAGGTTGTGGTCTTTAGCGGCGT
* *
64708936 TTGTGGGAAAAGCGCCGCTAA
1 TTGCGAGAAAAGCGCCGCTAA
64708957 TGTTAGCGAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (43 bp):
TTGCGAGAAAAGCGCCGCTAAAGGTTGTGGTCTTTAGCGGCGT
Found at i:64709057 original size:22 final size:22
Alignment explanation
Indices: 64709030--64709073 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
64709020 TAGTGGCGTT
*
64709030 AAAAAGCGTCGCTAAAGGCCTA
1 AAAAAGCGTCGCTAAAAGCCTA
64709052 AAAAAGCGTCGCTAAAAGCCTA
1 AAAAAGCGTCGCTAAAAGCCTA
64709074 TTTTGGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.14
Consensus pattern (22 bp):
AAAAAGCGTCGCTAAAAGCCTA
Found at i:64711706 original size:15 final size:16
Alignment explanation
Indices: 64711686--64711723 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
64711676 AAGATGGAGA
*
64711686 TGAAAACCAA-AACCC
1 TGAAAACAAAGAACCC
64711701 TGAAAACAAAGAACCC
1 TGAAAACAAAGAACCC
*
64711717 TCAAAAC
1 TGAAAAC
64711724 GTGAACACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.55, C:0.29, G:0.08, T:0.08
Consensus pattern (16 bp):
TGAAAACAAAGAACCC
Found at i:64717207 original size:14 final size:15
Alignment explanation
Indices: 64717181--64717211 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
64717171 TCCAGGTTCA
64717181 TCAACACATTTTTCT
1 TCAACACATTTTTCT
64717196 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
64717210 TC
1 TC
64717212 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:64731095 original size:20 final size:21
Alignment explanation
Indices: 64731070--64731110 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
64731060 GAAAATATAT
*
64731070 TTTCCATTCAA-TTTTCCATC
1 TTTCCAGTCAAGTTTTCCATC
64731090 TTTCCAGTCAAGTTTTCCATC
1 TTTCCAGTCAAGTTTTCCATC
64731111 CCCTCAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.20, C:0.29, G:0.05, T:0.46
Consensus pattern (21 bp):
TTTCCAGTCAAGTTTTCCATC
Found at i:64731293 original size:36 final size:36
Alignment explanation
Indices: 64731253--64731321 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
64731243 TATATGTATA
* *
64731253 TTTTCTTACCTTTTATTGTTGATGATCATACCTATG
1 TTTTCTTACCTTTTATTATCGATGATCATACCTATG
64731289 TTTTCTTACCTTTTATTATCGATGATCATACCT
1 TTTTCTTACCTTTTATTATCGATGATCATACCT
64731322 TCAATCACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.20, C:0.19, G:0.09, T:0.52
Consensus pattern (36 bp):
TTTTCTTACCTTTTATTATCGATGATCATACCTATG
Found at i:64731766 original size:14 final size:15
Alignment explanation
Indices: 64731741--64731770 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
64731731 CCAGGTTCAG
64731741 CAACACATTTTTCTT
1 CAACACATTTTTCTT
64731756 CAACA-ATTTTTCTT
1 CAACACATTTTTCTT
64731770 C
1 C
64731771 CCATTTCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (15 bp):
CAACACATTTTTCTT
Found at i:64732816 original size:41 final size:41
Alignment explanation
Indices: 64732759--64732847 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
64732749 TGTCTCCGAT
64732759 TAACTCTGGTTCATTCCTACAATGAAATAAAAAATTGTTTC
1 TAACTCTGGTTCATTCCTACAATGAAATAAAAAATTGTTTC
64732800 TAACTCTGGTTCATTCCTACAATGAAATAAAAAATTGTTTC
1 TAACTCTGGTTCATTCCTACAATGAAATAAAAAATTGTTTC
*
64732841 TATCTCT
1 TAACTCT
64732848 CAGAGGCTCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (41 bp):
TAACTCTGGTTCATTCCTACAATGAAATAAAAAATTGTTTC
Found at i:64740888 original size:8 final size:8
Alignment explanation
Indices: 64740877--64740902 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
64740867 ATTTATTTAT
64740877 TTTTAAAA
1 TTTTAAAA
64740885 TTTTAAAA
1 TTTTAAAA
64740893 TTTTAAAA
1 TTTTAAAA
64740901 TT
1 TT
64740903 CAGATTTAAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTTAAAA
Found at i:64745760 original size:14 final size:15
Alignment explanation
Indices: 64745736--64745764 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64745726 CAGGTTCATT
64745736 AACACATTTTTCTTC
1 AACACATTTTTCTTC
64745751 AACA-ATTTTTCTTC
1 AACACATTTTTCTTC
64745765 CCATTTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (15 bp):
AACACATTTTTCTTC
Found at i:64754702 original size:146 final size:146
Alignment explanation
Indices: 64754499--64754773 Score: 489
Period size: 146 Copynumber: 1.9 Consensus size: 146
64754489 TTATACCTAT
*
64754499 GTTTTTGGTTAAGCGAATCCTAGACGTTTTTCGATTTTCAACTAAACGAGTTACGTGATTATCAA
1 GTTTTTGGTTAAGCGAATCCTAGACGTTTTTCGACTTTCAACTAAACGAGTTACGTGATTATCAA
64754564 GTGAA-TTTTAAAAATAAAAATAAAAATGTCACGCAAGAGAATTTAATAGAAAAATTTTAACAAA
66 GTGAATTTTTAAAAA-AAAAATAAAAATGTCACGCAAGAGAATTTAATAGAAAAATTTTAACAAA
64754628 ATTTTTCAACTAAACGA
130 ATTTTTCAACTAAACGA
*
64754645 GTTTTTGGTTAAGCGAATCCTAGACGTTTTTTGACTTTCAACTAAACGAGTTACGTGATTATCAA
1 GTTTTTGGTTAAGCGAATCCTAGACGTTTTTCGACTTTCAACTAAACGAGTTACGTGATTATCAA
* *
64754710 GTGAATTTTTTTAAAAAAAATTAAAAATGTCACGCAAGAGAATTTAATAGAAAAATTTTAACAA
66 GTGAA-TTTTTAAAAAAAAAATAAAAATGTCACGCAAGAGAATTTAATAGAAAAATTTTAACAA
64754774 GGGTAACGAT
Statistics
Matches: 123, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
146 68 0.55
147 47 0.38
148 8 0.07
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (146 bp):
GTTTTTGGTTAAGCGAATCCTAGACGTTTTTCGACTTTCAACTAAACGAGTTACGTGATTATCAA
GTGAATTTTTAAAAAAAAAATAAAAATGTCACGCAAGAGAATTTAATAGAAAAATTTTAACAAAA
TTTTTCAACTAAACGA
Found at i:64756463 original size:19 final size:18
Alignment explanation
Indices: 64756415--64756465 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 18
64756405 AACTAAAAAA
*
64756415 TAAAAAATTTA-AAATTT
1 TAAAAAATTTATAAAGTT
*
64756432 TATAAAATCTTATAGAAGTT
1 TAAAAAAT-TTATA-AAGTT
64756452 TAAAAAATTTATAA
1 TAAAAAATTTATAA
64756466 TTAAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 7 0.25
18 4 0.14
19 6 0.21
20 11 0.39
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (18 bp):
TAAAAAATTTATAAAGTT
Found at i:64758434 original size:16 final size:16
Alignment explanation
Indices: 64758413--64758463 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
64758403 TTTTAATTTT
64758413 TATGTTATGTACATTC
1 TATGTTATGTACATTC
*
64758429 TATGTT-T-TATTATT-
1 TATGTTATGTA-CATTC
*
64758443 TATGTTATGTACATAC
1 TATGTTATGTACATTC
64758459 TATGT
1 TATGT
64758464 CTTATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.55
Consensus pattern (16 bp):
TATGTTATGTACATTC
Found at i:64758437 original size:30 final size:29
Alignment explanation
Indices: 64758403--64758533 Score: 131
Period size: 30 Copynumber: 4.2 Consensus size: 29
64758393 CATAATTTAA
64758403 TTTTAATTTTTATGTTATGTACATTCTATG
1 TTTT-ATTTTTATGTTATGTACATTCTATG
*
64758433 TTTTATTATTTATGTTATGTACATACTATG
1 TTTTATT-TTTATGTTATGTACATTCTATG
*
64758463 TCTTATTATTTTATCAT-TTATGTTATTATT-TATG
1 --TT-TTATTTT-T-ATGTTATG-TA-CATTCTATG
*
64758497 TTTTATTATTTATGTTATCTACATTCTATG
1 TTTTATT-TTTATGTTATGTACATTCTATG
64758527 TTTTATT
1 TTTTATT
64758534 ATTTTATTTA
Statistics
Matches: 85, Mismatches: 5, Indels: 22
0.76 0.04 0.20
Matches are distributed among these distances:
29 6 0.07
30 40 0.47
31 10 0.12
32 8 0.09
33 11 0.13
34 8 0.09
35 2 0.02
ACGTcount: A:0.24, C:0.07, G:0.08, T:0.62
Consensus pattern (29 bp):
TTTTATTTTTATGTTATGTACATTCTATG
Found at i:64758488 original size:12 final size:12
Alignment explanation
Indices: 64758468--64758515 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
64758458 CTATGTCTTA
*
64758468 TTATTTTATCAT
1 TTATGTTATCAT
*
64758480 TTATGTTATTAT
1 TTATGTTATCAT
*
64758492 TTATGTTTTATTAT
1 TTATG--TTATCAT
64758506 TTATGTTATC
1 TTATGTTATC
64758516 TACATTCTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 19 0.61
14 12 0.39
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.67
Consensus pattern (12 bp):
TTATGTTATCAT
Found at i:64758500 original size:26 final size:29
Alignment explanation
Indices: 64758471--64758537 Score: 95
Period size: 26 Copynumber: 2.4 Consensus size: 29
64758461 TGTCTTATTA
*
64758471 TTTTATCATTTATGTTAT-T-ATT-TATG
1 TTTTATTATTTATGTTATCTAATTCTATG
64758497 TTTTATTATTTATGTTATCTACATTCTATG
1 TTTTATTATTTATGTTATCTA-ATTCTATG
64758527 TTTTATTATTT
1 TTTTATTATTT
64758538 TATTTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 17 0.47
27 1 0.03
29 3 0.08
30 15 0.42
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (29 bp):
TTTTATTATTTATGTTATCTAATTCTATG
Found at i:64758508 original size:64 final size:67
Alignment explanation
Indices: 64758411--64758540 Score: 203
Period size: 64 Copynumber: 2.0 Consensus size: 67
64758401 AATTTTAATT
*
64758411 TTTATGTTATGTACATTCTATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTA
1 TTTATGTTATGTA-ATTCTATGTTTTATTATTTATGTTATCTACATACTATGTCTTATTATTTTA
64758476 TCA
65 TCA
* *
64758479 TTTATGTTAT-T-ATT-TATGTTTTATTATTTATGTTATCTACATTCTATGTTTTATTATTTTAT
1 TTTATGTTATGTAATTCTATGTTTTATTATTTATGTTATCTACATACTATGTCTTATTATTTTAT
64758541 TTAATTTATT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
64 45 0.76
65 3 0.05
67 1 0.02
68 10 0.17
ACGTcount: A:0.24, C:0.07, G:0.08, T:0.62
Consensus pattern (67 bp):
TTTATGTTATGTAATTCTATGTTTTATTATTTATGTTATCTACATACTATGTCTTATTATTTTAT
CA
Found at i:64759009 original size:158 final size:157
Alignment explanation
Indices: 64758691--64759243 Score: 831
Period size: 158 Copynumber: 3.5 Consensus size: 157
64758681 TACAAAAAGA
** * *
64758691 AATAAAA-AATGAAAATAGTATATTTACTGAAAGTAATAAAATTCGAAAAAAAAAAGAAAATTAC
1 AATAAAATAA-GAAAATAGTATATTTTTTGAAAGTAATAAAATTCG---AAAATAAGAAAAATAC
* * * *
64758755 GAACAAAGGGTCAAAATAAAGGTTTTTTACTAAATTTATA-AAAAAACACACAAAAATAATATAT
62 GAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACAAAATTAATACAT
*
64758819 TTCAGACATTATGTACTAAAATAATATAAAAT
127 TTCA-ACTTTATGTACTAAAATAATATAAAAT
* *
64758851 AATAAAATAATAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAC
1 AATAAAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAAC
* * *
64758916 AAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAAACACCAAATTAATACATTTCT
66 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACAAAATTAATACATTTC-
*
64758981 AATTTTATGTACTAAAATAATATAAAAT
130 AACTTTATGTACTAAAATAATATAAAAT
*
64759009 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAAC
1 AATAAAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAAC
* * * * *
64759074 AAATGACCAAAATGAGGGGTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCA
66 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACAAAATTAATACATTTC-
64759139 AACTTTATGTACTAAAATAATATAAAAT
130 AACTTTATGTACTAAAATAATATAAAAT
*
64759167 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAAC
1 AATAAAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAAC
64759232 AAAGGGCCAAAA
66 AAAGGGCCAAAA
64759244 AATCGGGAAA
Statistics
Matches: 363, Mismatches: 27, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
157 51 0.14
158 271 0.75
159 1 0.00
160 38 0.10
161 2 0.01
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (157 bp):
AATAAAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAAC
AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACAAAATTAATACATTTCA
ACTTTATGTACTAAAATAATATAAAAT
Found at i:64761464 original size:18 final size:18
Alignment explanation
Indices: 64761437--64761487 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
64761427 AGTGTTCAAA
64761437 AAGATAATCCACTCCTAC
1 AAGATAATCCACTCCTAC
* *
64761455 AAGGTAATCCATTCCTAC
1 AAGATAATCCACTCCTAC
*
64761473 AAGATAATCAACTCC
1 AAGATAATCCACTCC
64761488 ATTGATTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (18 bp):
AAGATAATCCACTCCTAC
Found at i:64765195 original size:20 final size:20
Alignment explanation
Indices: 64765170--64765219 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
64765160 TGGCTTAAAA
64765170 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
64765190 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
64765207 GTGGTAGTGGATT
1 TTGGTAGTGGATT
64765220 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:64769834 original size:20 final size:20
Alignment explanation
Indices: 64769809--64769858 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
64769799 TGGCTTAAAA
64769809 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
64769829 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
64769846 GTGGTAGTGGATT
1 TTGGTAGTGGATT
64769859 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:64772364 original size:14 final size:15
Alignment explanation
Indices: 64772340--64772368 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64772330 CAGGTTCATT
64772340 AACACATTTTTCTTC
1 AACACATTTTTCTTC
64772355 AACA-ATTTTTCTTC
1 AACACATTTTTCTTC
64772369 CCATTTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (15 bp):
AACACATTTTTCTTC
Found at i:64774537 original size:18 final size:18
Alignment explanation
Indices: 64774514--64774554 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
64774504 TTCTACAATG
64774514 GATAACAGCTCTGGAGAT
1 GATAACAGCTCTGGAGAT
64774532 GATAACAGCTCTGGAGAT
1 GATAACAGCTCTGGAGAT
64774550 GATAA
1 GATAA
64774555 ACTTACCCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.22
Consensus pattern (18 bp):
GATAACAGCTCTGGAGAT
Found at i:64774665 original size:27 final size:25
Alignment explanation
Indices: 64774618--64774673 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 25
64774608 TAAAAATATA
64774618 ATTTTATAATCTTAATATTTAAAAT
1 ATTTTATAATCTTAATATTTAAAAT
*
64774643 ATTTTATAACTTTATAATATTTAAAAT
1 ATTTTATAA-TCT-TAATATTTAAAAT
64774670 ATTT
1 ATTT
64774674 AAAGGATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 9 0.32
26 2 0.07
27 17 0.61
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTTTATAATCTTAATATTTAAAAT
Found at i:64774780 original size:18 final size:18
Alignment explanation
Indices: 64774759--64774794 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
64774749 AAATCTTAAA
64774759 AAGTTTAAATGAAAAACT
1 AAGTTTAAATGAAAAACT
64774777 AAGTTTAAATGAAAAACT
1 AAGTTTAAATGAAAAACT
64774795 TTTCAGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.28
Consensus pattern (18 bp):
AAGTTTAAATGAAAAACT
Found at i:64778740 original size:28 final size:28
Alignment explanation
Indices: 64778708--64778762 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
64778698 AATTAATTTT
64778708 TAATAT-TTTTTGAATTTTTAAAAAATTA
1 TAATATATTTTT-AATTTTTAAAAAATTA
* *
64778736 TAATATATTTTTTATTTTTATAAAATT
1 TAATATATTTTTAATTTTTAAAAAATT
64778763 TTTAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
TAATATATTTTTAATTTTTAAAAAATTA
Found at i:64778763 original size:39 final size:39
Alignment explanation
Indices: 64778720--64778808 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
64778710 ATATTTTTTG
* *
64778720 AATTTTTAAAAAAT-TATAATATATTTTTTATTTTTAT-AA
1 AATTTTTAAAAAATCT-TAATA-ACTTTCTATTTTTATGAA
* * *
64778759 AATTTTTAAATAATCTTAATAACTTTCTATTTTTTTGGA
1 AATTTTTAAAAAATCTTAATAACTTTCTATTTTTATGAA
64778798 AATTTTTAAAA
1 AATTTTTAAAA
64778809 TTAATTAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
38 12 0.29
39 29 0.69
40 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.54
Consensus pattern (39 bp):
AATTTTTAAAAAATCTTAATAACTTTCTATTTTTATGAA
Found at i:64788314 original size:29 final size:28
Alignment explanation
Indices: 64788243--64788314 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
64788233 ATAATTAATT
64788243 AATTTTTAAT-ATTTTTGAATTTTTAAA
1 AATTTTTAATAATTTTTGAATTTTTAAA
* *
64788270 AATTTATAATATATTTTT-TATTTTTACAA
1 AATTTTTAATA-ATTTTTGAATTTTTA-AA
64788299 AATTTTTAAATAATTT
1 AATTTTT-AATAATTT
64788315 CAATAACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 9 0.24
28 7 0.18
29 18 0.47
30 4 0.11
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (28 bp):
AATTTTTAATAATTTTTGAATTTTTAAA
Found at i:64790445 original size:24 final size:25
Alignment explanation
Indices: 64790418--64790468 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
64790408 TTGAGTTCGA
64790418 ATTTTA-TATTTTT-TAAATATTATT
1 ATTTTATTATTTTTGT-AATATTATT
*
64790442 A-TTTATTATTTTTGTAATTTTATT
1 ATTTTATTATTTTTGTAATATTATT
64790466 ATT
1 ATT
64790469 AATTAGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
23 4 0.17
24 17 0.74
25 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
ATTTTATTATTTTTGTAATATTATT
Found at i:64790473 original size:24 final size:24
Alignment explanation
Indices: 64790424--64790473 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
64790414 TCGAATTTTA
*
64790424 TATTTTTTAAATATTATTATTTAT
1 TATTTTTTAAATATTATTATTAAT
*
64790448 TATTTTTGT-AATTTTATTATTAAT
1 TATTTTT-TAAATATTATTATTAAT
64790472 TA
1 TA
64790474 GAATTATAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
TATTTTTTAAATATTATTATTAAT
Found at i:64796234 original size:23 final size:23
Alignment explanation
Indices: 64796206--64796303 Score: 151
Period size: 23 Copynumber: 4.3 Consensus size: 23
64796196 GTGTTATTGA
*
64796206 TCAGTGGTAGCTTCGGCTACGTT
1 TCAGTGGTAGCTTCGGCTACATT
*
64796229 TTAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
64796252 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
* *
64796275 ACAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
64796298 TCAGTG
1 TCAGTG
64796304 TTGCACTTCT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Done.