Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 204 of 211
Found at i:63113680 original size:3 final size:3
Alignment explanation
Indices: 63113665--63113750 Score: 145
Period size: 3 Copynumber: 28.7 Consensus size: 3
63113655 AAAACACCAG
*
63113665 TCT TCT GCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
63113713 TCT TCT TTT TCT TCT TCT TCT TTT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
63113751 CACTATCTGC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:63123163 original size:18 final size:19
Alignment explanation
Indices: 63123136--63123173 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
63123126 ATAACTTTCA
*
63123136 GAAAATAATTAT-TTTTTT
1 GAAAAAAATTATATTTTTT
63123154 GAAAAAAATTATATTTTTT
1 GAAAAAAATTATATTTTTT
63123173 G
1 G
63123174 GTATTTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (19 bp):
GAAAAAAATTATATTTTTT
Found at i:63123762 original size:19 final size:19
Alignment explanation
Indices: 63123740--63123824 Score: 66
Period size: 19 Copynumber: 4.4 Consensus size: 19
63123730 AGAAAACTTT
*
63123740 TAAAAATTTATTGAAAATA
1 TAAAAAATTATTGAAAATA
* *
63123759 TAAAAAAATATT-AAAATC
1 TAAAAAATTATTGAAAATA
**
63123777 TAAAAAATTAAAGAAAATTA
1 TAAAAAATTATTGAAAA-TA
*
63123797 TTAAAAATATTCA-TAAAAATA
1 -TAAAAA-ATT-ATTGAAAATA
63123818 TAAAAAA
1 TAAAAAA
63123825 CATTTAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
18 14 0.27
19 15 0.29
20 7 0.13
21 8 0.15
22 7 0.13
23 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAAATTATTGAAAATA
Found at i:63123768 original size:10 final size:10
Alignment explanation
Indices: 63123753--63123849 Score: 51
Period size: 10 Copynumber: 9.7 Consensus size: 10
63123743 AAATTTATTG
63123753 AAAATATAAA
1 AAAATATAAA
*
63123763 AAAATAT--T
1 AAAATATAAA
*
63123771 AAAATCT-AA
1 AAAATATAAA
63123780 AAAAT-TAAA
1 AAAATATAAA
*
63123789 GAAAAT-TATTA
1 -AAAATATA-AA
*
63123800 AAAATATTCATA
1 AAAATA-T-AAA
63123812 AAAATATAAA
1 AAAATATAAA
*
63123822 AAACATTTAAA
1 AAA-ATATAAA
*
63123833 AAATTATAAA
1 AAAATATAAA
*
63123843 AATATAT
1 AAAATAT
63123850 TTAAAATTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 16
0.73 0.11 0.17
Matches are distributed among these distances:
8 7 0.10
9 7 0.10
10 34 0.49
11 11 0.16
12 9 0.13
13 1 0.01
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (10 bp):
AAAATATAAA
Found at i:63123774 original size:18 final size:19
Alignment explanation
Indices: 63123748--63123783 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
63123738 TTTAAAAATT
63123748 TATTGAAAATATAAAAAAA
1 TATTGAAAATATAAAAAAA
*
63123767 TATT-AAAATCTAAAAAA
1 TATTGAAAATATAAAAAA
63123784 TTAAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
TATTGAAAATATAAAAAAA
Found at i:63123855 original size:20 final size:20
Alignment explanation
Indices: 63123740--63123859 Score: 72
Period size: 20 Copynumber: 6.0 Consensus size: 20
63123730 AGAAAACTTT
* *
63123740 TAAAAATTTATTGAAAA-TA
1 TAAAAATATATTTAAAATTA
*
63123759 TAAAAAAATA-TTAAAATCTA
1 TAAAAATATATTTAAAAT-TA
***
63123779 -AAAAAT-TAAAGAAAATTA
1 TAAAAATATATTTAAAATTA
* *
63123797 TTAAAAATAT-TCATAAAAATA
1 -TAAAAATATAT-TTAAAATTA
*
63123818 TAAAAA-ACATTTAAAAAATTA
1 TAAAAATATATTT--AAAATTA
63123839 TAAAAATATATTTAAAATTA
1 TAAAAATATATTTAAAATTA
63123859 T
1 T
63123860 TATAAAATAC
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
18 9 0.12
19 20 0.26
20 23 0.30
21 20 0.26
22 5 0.06
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAATATATTTAAAATTA
Found at i:63123855 original size:41 final size:40
Alignment explanation
Indices: 63123752--63123855 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 40
63123742 AAAATTTATT
* *
63123752 GAAAA-TATAAAAAAATA-TT-AAAATCTAAAAAATTAAA
1 GAAAATTATAAAAATATATTTAAAAATATAAAAAATTAAA
* *
63123789 GAAAATTATTAAAAATAT-TCATAAAAATATAAAAAACATTTAA
1 GAAAATTA-TAAAAATATAT-TTAAAAATAT-AAAAA-ATTAAA
63123832 -AAAATTATAAAAATATATTTAAAA
1 GAAAATTATAAAAATATATTTAAAA
63123856 TTATTATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
37 5 0.09
38 2 0.04
39 8 0.15
40 1 0.02
41 20 0.37
42 13 0.24
43 5 0.09
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (40 bp):
GAAAATTATAAAAATATATTTAAAAATATAAAAAATTAAA
Found at i:63123865 original size:23 final size:21
Alignment explanation
Indices: 63123790--63123866 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
63123780 AAAATTAAAG
* * *
63123790 AAAATTATTAAAAATATTCATA
1 AAAATTATAAAAAACATTTA-A
63123812 AAAA-TATAAAAAACATTTAA
1 AAAATTATAAAAAACATTTAA
*
63123832 AAAATTATAAAAATATATTTAA
1 AAAATTATAAAAA-ACATTTAA
*
63123854 AATTATTATAAAA
1 AA-AATTATAAAA
63123867 TACAAATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.11
21 20 0.43
22 13 0.28
23 9 0.19
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATTATAAAAAACATTTAA
Found at i:63123885 original size:52 final size:51
Alignment explanation
Indices: 63123777--63123900 Score: 121
Period size: 52 Copynumber: 2.4 Consensus size: 51
63123767 TATTAAAATC
* * **
63123777 TAAAAAATTAAAGAAAATTATTAAAAATATTCATAAAAATATAAAAAACATT
1 TAAAAAATTATA-AAAATTATTAAAAATATTCATAAAAATACAAAAAACACA
* *
63123829 TAAAAAATTATAAAAATATATTTAAAATTATT-AT-AAAATACAAATAAATACA
1 TAAAAAATTATAAAAAT-TA-TTAAAAATATTCATAAAAATACAAA-AAACACA
*
63123881 TAAAATATT-T-AAAATTATTA
1 TAAAAAATTATAAAAATTATTA
63123901 TAATAGAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
48 3 0.05
49 2 0.03
50 5 0.08
51 15 0.24
52 27 0.44
53 10 0.16
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (51 bp):
TAAAAAATTATAAAAATTATTAAAAATATTCATAAAAATACAAAAAACACA
Found at i:63129364 original size:6 final size:6
Alignment explanation
Indices: 63129353--63129394 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
63129343 ATAGCAGCCT
63129353 ACACCA ACACCA ACACCA ACACCA ACACCA ACACCA ACACCA
1 ACACCA ACACCA ACACCA ACACCA ACACCA ACACCA ACACCA
63129395 TTTCTTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (6 bp):
ACACCA
Found at i:63136971 original size:24 final size:24
Alignment explanation
Indices: 63136944--63136990 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
63136934 GAAAAATCAT
63136944 ATATATTGTTTTTATTCATTTTCG
1 ATATATTGTTTTTATTCATTTTCG
63136968 ATATATTGTTTTTATTCATTTTC
1 ATATATTGTTTTTATTCATTTTC
63136991 AATACCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATATTGTTTTTATTCATTTTCG
Found at i:63138077 original size:29 final size:30
Alignment explanation
Indices: 63138040--63138102 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
63138030 AAGCATTTCT
*
63138040 ATCTGTTT-CAAGAAAATTCGAACGTTACG
1 ATCTATTTCCAAGAAAATTCGAACGTTACG
* * * *
63138069 ATCTATTTCCTAGAAAATTTGAATGTTTCG
1 ATCTATTTCCAAGAAAATTCGAACGTTACG
63138099 ATCT
1 ATCT
63138103 TTGAAGGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (30 bp):
ATCTATTTCCAAGAAAATTCGAACGTTACG
Found at i:63138321 original size:40 final size:40
Alignment explanation
Indices: 63138266--63138341 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
63138256 TTGGAGCTAA
63138266 CCCTCAAATAATGATTATATCCAAAGATTTACCTTCAAAT
1 CCCTCAAATAATGATTATATCCAAAGATTTACCTTCAAAT
63138306 CCCTCAAATAATGATTATATCCAAAGATTTACCTTC
1 CCCTCAAATAATGATTATATCCAAAGATTTACCTTC
63138342 TATTTGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (40 bp):
CCCTCAAATAATGATTATATCCAAAGATTTACCTTCAAAT
Found at i:63140767 original size:42 final size:42
Alignment explanation
Indices: 63140693--63140862 Score: 234
Period size: 42 Copynumber: 4.0 Consensus size: 42
63140683 TTCAGGTGCA
* **
63140693 TCTTCGGAAACAGCAGCATCATTGGT-TCCATCAGCTGCCAAT
1 TCTTCAGAAACAGCAGCATCATTGGTCT-CATCAGCCACCAAT
* *
63140735 TCTTGAGAAACAGCAGCATCATAGGTCTCATCAGCCACCAAT
1 TCTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAAT
* * *
63140777 TCTTCAGAAACAACAGCATCGTTGGTCTCATCAGCCAACAAT
1 TCTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAAT
* *
63140819 TCTTCAGATACAGCAGCATCATTGGTCTCATCAGCTACCAAT
1 TCTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAAT
63140861 TC
1 TC
63140863 CTCATTCGGC
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
42 111 0.99
43 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (42 bp):
TCTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAAT
Found at i:63143331 original size:31 final size:28
Alignment explanation
Indices: 63143296--63143353 Score: 71
Period size: 31 Copynumber: 2.0 Consensus size: 28
63143286 AAATGTGATA
63143296 TTAGTCCCTATACTTAGACAAAAATTAAAAT
1 TTAGTCCCTATACTT--A-AAAAATTAAAAT
* *
63143327 TTAGTCTCTGTACTTAAAAAATTAAAA
1 TTAGTCCCTATACTTAAAAAATTAAAA
63143354 ATTAACTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.44
29 1 0.04
31 13 0.52
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (28 bp):
TTAGTCCCTATACTTAAAAAATTAAAAT
Found at i:63146432 original size:42 final size:42
Alignment explanation
Indices: 63146367--63146483 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
63146357 ATCAGCCTTA
* * * **
63146367 TTAAAA-TTTTAAA-AATTCAAAAAAAATTATAAAATTTGTTT
1 TTAAAATTTTTAAATTATT-AAAAAAAATTAAAAAAATACTTT
*
63146408 TTAAAATTTTTAAATTATTAAAAAATATTAAAAAAATACTTT
1 TTAAAATTTTTAAATTATTAAAAAAAATTAAAAAAATACTTT
*
63146450 TTAATATTTTTAAAATT-TTAAAAAATAAATTAAA
1 TTAAAATTTTT-AAATTATT-AAAAA-AAATTAAA
63146484 TGCTAACATG
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 6 0.10
42 37 0.59
43 13 0.21
44 7 0.11
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.43
Consensus pattern (42 bp):
TTAAAATTTTTAAATTATTAAAAAAAATTAAAAAAATACTTT
Found at i:63148473 original size:15 final size:16
Alignment explanation
Indices: 63148453--63148485 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
63148443 GTTCCAATAA
63148453 ACTTTTAA-TTTATAT
1 ACTTTTAAGTTTATAT
63148468 ACTTTTAAGTTTTATAT
1 ACTTTTAAG-TTTATAT
63148485 A
1 A
63148486 ATGTAAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
ACTTTTAAGTTTATAT
Found at i:63153979 original size:24 final size:23
Alignment explanation
Indices: 63153952--63154011 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 23
63153942 CAAATTCGTC
*
63153952 AAAGGGAATAATTATATTCATTAA
1 AAAGGGAATAAGTATATTC-TTAA
63153976 AAAGGGAATAAGTATATTCTTAA
1 AAAGGGAATAAGTATATTCTTAA
* *
63153999 AAAAGGAAAAAGT
1 AAAGGGAATAAGT
63154012 GTGGCATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.27
Consensus pattern (23 bp):
AAAGGGAATAAGTATATTCTTAA
Found at i:63154006 original size:23 final size:24
Alignment explanation
Indices: 63153956--63154011 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
63153946 TTCGTCAAAG
* *
63153956 GGAATAATTATATTCATTAAAAAG
1 GGAATAAGTATATTCATTAAAAAA
63153980 GGAATAAGTATATTC-TTAAAAAA
1 GGAATAAGTATATTCATTAAAAAA
*
63154003 GGAAAAAGT
1 GGAATAAGT
63154012 GTGGCATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.52, C:0.04, G:0.16, T:0.29
Consensus pattern (24 bp):
GGAATAAGTATATTCATTAAAAAA
Found at i:63157322 original size:18 final size:16
Alignment explanation
Indices: 63157299--63157333 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
63157289 AATGGCTTTG
63157299 AAAAGTATATTATAAAAT
1 AAAAGT-TATTA-AAAAT
63157317 AAAAGTTATTAAAAAT
1 AAAAGTTATTAAAAAT
63157333 A
1 A
63157334 TGTTATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAAGTTATTAAAAAT
Found at i:63158703 original size:17 final size:17
Alignment explanation
Indices: 63158683--63158715 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
63158673 GATTTTGTTT
63158683 TATTTAGTTT-TTTTATA
1 TATTTA-TTTATTTTATA
63158700 TATTTATTTATTTTAT
1 TATTTATTTATTTTAT
63158716 TTTTTATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TATTTATTTATTTTATA
Found at i:63163299 original size:23 final size:23
Alignment explanation
Indices: 63163265--63163328 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
63163255 AAGGTCAAAA
*
63163265 TATAATTTTATCATTTATTAATT
1 TATAATTTTATCATTTATTAACT
*
63163288 TATGATTTTATCAGTTT-TTAACT
1 TATAATTTTATCA-TTTATTAACT
*
63163311 TATAATTTCATCATTTAT
1 TATAATTTTATCATTTAT
63163329 GAAAGGACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 3 0.09
23 29 0.83
24 3 0.09
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (23 bp):
TATAATTTTATCATTTATTAACT
Found at i:63166131 original size:219 final size:219
Alignment explanation
Indices: 63165764--63166367 Score: 809
Period size: 229 Copynumber: 2.7 Consensus size: 219
63165754 AAATGCCGTA
* *
63165764 AATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTTTCTATA
1 AATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTTTTTGTA
* * * * * *
63165829 AAACGCCACTAAATGTTAGGTAATAGCGGCGTACGTAAACAAACGCCGCAAAAAAGTTGATCAAA
66 AAACGCCGCTAAAGGTTAGGTGATAGCGGCGAATGTAAACAAACGCTG--AAAAAGTTGATCAAA
*
63165894 ACGACAGCGTTTTATTTCTTCGCTTTACTTGATTTAGT-G-AAAACGCCT-CAACTTTCGGTCTT
129 ACGGCAGCGTTTTATTTCTTCGCTTTACTTGATTTAGTGGTAAAACG-CTGCAACTTTCGGTCTT
*
63165956 TACCGGCGCTTTTCCAAAAGTGCCGCT
193 TACCGGCGCTTTTCCAAAAGCGCCGCT
* *
63165983 AGTAAGTTAAGCAAAACGACGTTGTTTTCTGTTGATGTATAGGGACATTAGCGGCGCTTTTTGTA
1 AATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTTTTTGTA
* *
63166048 AAACGCCGCTAAAGGTTAGGTGATAGCGGCAAATGTAAACAAACGCTGTATAAAGTTGATCAAAA
66 AAACGCCGCTAAAGGTTAGGTGATAGCGGCGAATGTAAACAAACGCTG-AAAAAGTTGATC-AAA
* *
63166113 ACGGCAGTGTTCTATTTCTTCGCTTTACTTGATTTAGTGGCGATTTTTAAAAACGCTGCAACTTT
129 ACGGCAGCGTTTTATTTCTTCGCTTTACTTGATTTAGT-G-G-----T-AAAACGCTGCAACTTT
* *
63166178 CGGTCTTTACCGGCGCTTTTCCATAAGCGCCGTT
186 CGGTCTTTACCGGCGCTTTTCCAAAAGCGCCGCT
*
63166212 AATAAGTTAAGCAAAATGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTTTTTGTA
1 AATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTTTTTGTA
* * * * * *
63166277 AAACGCCGCTAAAGGTTAAGTGTTAGCGGCGCATATAAACAAACGTTGCAAATATGTTGATCAAA
66 AAACGCCGCTAAAGGTTAGGTGATAGCGGCGAATGTAAACAAACGCTG-AAA-AAGTTGATCAAA
* *
63166342 ATGGAAGCGTTTTATTTCTTCGCTTT
129 ACGGCAGCGTTTTATTTCTTCGCTTT
63166368 GCTAATAAGT
Statistics
Matches: 337, Mismatches: 35, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
218 11 0.03
219 140 0.42
222 1 0.00
228 2 0.01
229 175 0.52
230 8 0.02
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (219 bp):
AATAAGTTAAGCAAAACGACGTTGTTTTCTGTTGAGGTATAGGGACATTAGCGGCGCTTTTTGTA
AAACGCCGCTAAAGGTTAGGTGATAGCGGCGAATGTAAACAAACGCTGAAAAAGTTGATCAAAAC
GGCAGCGTTTTATTTCTTCGCTTTACTTGATTTAGTGGTAAAACGCTGCAACTTTCGGTCTTTAC
CGGCGCTTTTCCAAAAGCGCCGCT
Found at i:63166781 original size:14 final size:14
Alignment explanation
Indices: 63166759--63166936 Score: 62
Period size: 14 Copynumber: 12.3 Consensus size: 14
63166749 TTTATGAGTC
*
63166759 AAGGTTTAGGGTTT
1 AAGGGTTAGGGTTT
*
63166773 ACGGGTTAGGGGTTT
1 AAGGGTTA-GGGTTT
*
63166788 AAGGGTTATGGTTTGT
1 AAGGGTTA-GGGTT-T
* *
63166804 GCATGGGTTATGGTTT
1 --AAGGGTTAGGGTTT
*
63166820 AAGGGTTGGGGTTT
1 AAGGGTTAGGGTTT
*
63166834 AA-GGTTAATGGTTT
1 AAGGGTT-AGGGTTT
*
63166848 -AGGGTTTAATGG-TT
1 AAGGG-TT-AGGGTTT
* *
63166862 -AGAGTTTAAGGTTT
1 AAG-GGTTAGGGTTT
*
63166876 -AGAGGTTAGGGATT
1 AAG-GGTTAGGGTTT
* *
63166890 AAGGGATATTGGTTT
1 AAGGGTTA-GGGTTT
* * *
63166905 AGGGGTTCGGGTAT
1 AAGGGTTAGGGTTT
63166919 AAGGGTT-GGGTTTT
1 AAGGGTTAGGG-TTT
63166933 AAGG
1 AAGG
63166937 TTTGTGGACT
Statistics
Matches: 124, Mismatches: 28, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
13 11 0.09
14 65 0.52
15 36 0.29
16 2 0.02
17 3 0.02
18 7 0.06
ACGTcount: A:0.21, C:0.02, G:0.39, T:0.38
Consensus pattern (14 bp):
AAGGGTTAGGGTTT
Found at i:63166852 original size:21 final size:21
Alignment explanation
Indices: 63166828--63166883 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
63166818 TTAAGGGTTG
63166828 GGGTTTAAGGTTAATG-GTTTA
1 GGGTTTAAGGTTAA-GAGTTTA
63166849 GGGTTTAATGGTT-AGAGTTTA
1 GGGTTTAA-GGTTAAGAGTTTA
*
63166870 AGGTTTAGAGGTTA
1 GGGTTTA-AGGTTA
63166884 GGGATTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.03
21 24 0.80
22 5 0.17
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (21 bp):
GGGTTTAAGGTTAAGAGTTTA
Found at i:63166884 original size:21 final size:21
Alignment explanation
Indices: 63166844--63166893 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
63166834 AAGGTTAATG
*
63166844 GTTTAGGGTTTAATGGTTAGA
1 GTTTAAGGTTTAATGGTTAGA
*
63166865 GTTTAAGGTTTAGA-GGTTAGG
1 GTTTAAGGTTTA-ATGGTTAGA
*
63166886 GATTAAGG
1 GTTTAAGG
63166894 GATATTGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (21 bp):
GTTTAAGGTTTAATGGTTAGA
Found at i:63166885 original size:35 final size:34
Alignment explanation
Indices: 63166809--63166894 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 34
63166799 TTTGTGCATG
* * *
63166809 GGTTATGGTTTAAGGGTTGGGGTTTAAGGTTAAT
1 GGTTAGGGTTTAAGGGTTAGAGTTTAAGGTTAAT
*
63166843 GGTTTAGGGTTTAATGGTTAGAGTTTAAGGTTTAGA-
1 GG-TTAGGGTTTAAGGGTTAGAGTTTAAGG-TTA-AT
*
63166879 GGTTAGGGATTAAGGG
1 GGTTAGGGTTTAAGGG
63166895 ATATTGGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
34 2 0.05
35 35 0.81
36 5 0.12
37 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (34 bp):
GGTTAGGGTTTAAGGGTTAGAGTTTAAGGTTAAT
Found at i:63174195 original size:66 final size:66
Alignment explanation
Indices: 63174089--63174258 Score: 216
Period size: 66 Copynumber: 2.6 Consensus size: 66
63174079 AGCAAATTAC
* * * *
63174089 ACAACTTAAAGCGGAGGCAGCATCGAGAGAAGCTGAGGTTCA-AAGAAGATATGAAGAACTCCAA
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAGAAGAAG-TATGAAGAACTCCAA
63174153 CT
65 CT
* *
63174155 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAGAGGAAGTATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAGAAGAAGTATGAAGAACTCCAAC
63174220 T
66 T
* * * * * *
63174221 GCAGCTTAAAGCAGATGCGGCAGTGAGGGAAGTAGAGG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGG
63174259 CAGCAGCGAA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 86 0.95
67 5 0.05
ACGTcount: A:0.38, C:0.16, G:0.31, T:0.15
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAGAAGAAGTATGAAGAACTCCAAC
T
Found at i:63174273 original size:21 final size:21
Alignment explanation
Indices: 63174249--63174311 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
63174239 GGCAGTGAGG
63174249 GAAGTAGAGGCAGCAGCGAAA
1 GAAGTAGAGGCAGCAGCGAAA
* * * **
63174270 GAAGCAAAGGCTGCAGCGAGG
1 GAAGTAGAGGCAGCAGCGAAA
63174291 GAAGTAGA-GCAG-AGCAGAAA
1 GAAGTAGAGGCAGCAGC-GAAA
63174311 G
1 G
63174312 TACGACGAAC
Statistics
Matches: 31, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
19 3 0.10
20 6 0.19
21 22 0.71
ACGTcount: A:0.41, C:0.14, G:0.40, T:0.05
Consensus pattern (21 bp):
GAAGTAGAGGCAGCAGCGAAA
Found at i:63174668 original size:31 final size:31
Alignment explanation
Indices: 63174633--63174700 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
63174623 AAGCGTCGCT
*
63174633 AAAAGTCAT-GATCTATAGCGGCGTTTATGGA
1 AAAAG-CATCGATCTATAGCGGCATTTATGGA
* *
63174664 AAAAGCATCGCTCTATAGCGGCATTTGTGGA
1 AAAAGCATCGATCTATAGCGGCATTTATGGA
63174695 AAAAGC
1 AAAAGC
63174701 GCCGCTAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGCATCGATCTATAGCGGCATTTATGGA
Found at i:63174736 original size:43 final size:43
Alignment explanation
Indices: 63174675--63174775 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 43
63174665 AAAGCATCGC
63174675 TCTATAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
1 TCTATAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* *
63174718 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
1 TCTATAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
*
63174761 TCTATAGCGGAATTT
1 TCTATAGCGGCATTT
63174776 TTCTGGAAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (43 bp):
TCTATAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
Found at i:63179533 original size:20 final size:20
Alignment explanation
Indices: 63179508--63179601 Score: 63
Period size: 21 Copynumber: 4.8 Consensus size: 20
63179498 AAAAAATAAA
63179508 AAAAAATCA-ATAAAATTTATT
1 AAAAAAT-ATATAAAA-TTATT
*
63179529 TAAAAATATATAAAATTATT
1 AAAAAATATATAAAATTATT
*
63179549 -AAAAATTTAT-AAATGTATAT
1 AAAAAATATATAAAAT-TAT-T
* * * *
63179569 AAATATTATAAAAAATTGTT
1 AAAAAATATATAAAATTATT
63179589 -AAAAATATA-AAAA
1 AAAAAATATATAAAA
63179602 AAATATCAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
18 8 0.14
19 19 0.32
20 8 0.14
21 20 0.34
22 4 0.07
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAAATATATAAAATTATT
Found at i:63179552 original size:19 final size:19
Alignment explanation
Indices: 63179517--63179601 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 19
63179507 AAAAAAATCA
63179517 ATAAAATTTATTTAAAAATAT
1 ATAAAA-TTA-TTAAAAATAT
*
63179538 ATAAAATTATTAAAAATTT
1 ATAAAATTATTAAAAATAT
*
63179557 AT-AAATGTATATAAATATTAT
1 ATAAAAT-TAT-TAAA-AATAT
* *
63179578 AAAAAATTGTTAAAAATAT
1 ATAAAATTATTAAAAATAT
63179597 A-AAAA
1 ATAAAA
63179602 AAATATCAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
18 8 0.15
19 19 0.35
20 11 0.20
21 12 0.22
22 4 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
ATAAAATTATTAAAAATAT
Found at i:63179552 original size:30 final size:29
Alignment explanation
Indices: 63179518--63179602 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 29
63179508 AAAAAATCAA
63179518 TAAAATTTATTTAAAAATATATAAAATTAT
1 TAAAATTTA-TTAAAAATATATAAAATTAT
**
63179548 TAAAAATTTA-TAAATGTATATAAATATTAT
1 T-AAAATTTATTAAAAATATATAAA-ATTAT
* * * *
63179578 AAAAAATTGTTAAAAATATAAAAAA
1 TAAAATTTATTAAAAATATATAAAA
63179603 AATATCAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
29 19 0.43
30 17 0.39
31 8 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
TAAAATTTATTAAAAATATATAAAATTAT
Found at i:63179567 original size:27 final size:28
Alignment explanation
Indices: 63179526--63179581 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
63179516 AATAAAATTT
63179526 ATTTAAAAATATATA-AAATTATTA-AAA
1 ATTTAAAAATATATATAAA-TATTATAAA
* *
63179553 ATTTATAAATGTATATAAATATTATAAA
1 ATTTAAAAATATATATAAATATTATAAA
63179581 A
1 A
63179582 AATTGTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
ATTTAAAAATATATATAAATATTATAAA
Found at i:63179612 original size:18 final size:18
Alignment explanation
Indices: 63179591--63179625 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
63179581 AAATTGTTAA
63179591 AAATATAAAAAAAATATC
1 AAATATAAAAAAAATATC
*
63179609 AAATATAAAAAATATAT
1 AAATATAAAAAAAATAT
63179626 AATTTCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATATAAAAAAAATATC
Found at i:63180104 original size:21 final size:19
Alignment explanation
Indices: 63180055--63180112 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
63180045 CTTTTCCTAT
63180055 ATTTCT-TATATTTTATAATA
1 ATTTCTATATATTTT-T-ATA
*
63180075 ATTTTTATATATTCTTTATA
1 ATTTCTATATATT-TTTATA
63180095 ACTTTCTATA-ATTTTTAT
1 A-TTTCTATATATTTTTAT
63180113 TTTTTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 5 0.15
20 12 0.36
21 14 0.42
22 2 0.06
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTCTATATATTTTTATA
Found at i:63186322 original size:26 final size:26
Alignment explanation
Indices: 63186263--63186323 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
63186253 AGCCATATCG
**
63186263 GGAAGCTCACAAAGAGCCAATTAATG
1 GGAAGCTCACAAAGAGCCAATTAACA
63186289 GGAAGCTCACAAAGAGCC-ATATAACA
1 GGAAGCTCACAAAGAGCCAAT-TAACA
*
63186315 GGATGCTCA
1 GGAAGCTCA
63186324 TAAGAGCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCAATTAACA
Found at i:63200201 original size:28 final size:28
Alignment explanation
Indices: 63200170--63200230 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
63200160 TATGAACTAA
* * *
63200170 GTGTTGTTTTATAAACTCGAAAATTTAG
1 GTGTTGTTTAATAAACTAGAAAATTAAG
63200198 GTGTTGTTTAATAAACTAGAAAATTAAG
1 GTGTTGTTTAATAAACTAGAAAATTAAG
63200226 G-GTTG
1 GTGTTG
63200231 AAAATCTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.39
Consensus pattern (28 bp):
GTGTTGTTTAATAAACTAGAAAATTAAG
Found at i:63203928 original size:229 final size:229
Alignment explanation
Indices: 63203527--63203942 Score: 571
Period size: 229 Copynumber: 1.8 Consensus size: 229
63203517 GAACATAAAA
** * * **
63203527 CTTAGCTTCAATGCATGCAGTCCTTTGAATCTCGAAATATCGAATGTTACGATCATATAAAAATC
1 CTTAGCTTCAATGCATGCAGTCAGTTGAATCTCAAAATATCAAACATTACGATCATATAAAAATC
* * * * *
63203592 TACTATTTACTTGGGAAGCAAGAAACAATCAGACATCAATCTAAGAAACCAGCATCCAACTTGGC
66 TACTATTTACTTGGGAAACAAGAAACAATCAGACATCAATCTAAGAAACCAGAATACAACCTAGC
* * *
63203657 TTCAATGCCTGCAATCAGTTGATTCTCGAAATATTGAACATTTCGATCACATCAACATCTCTTAC
131 TTCAATGCCTGCAATCAGTTAAATCTCAAAATATTGAACATTTCGATCACATCAACATCTCTTAC
63203722 TTGCTAAACAAGCAAGCATCAATCAACCATACAG
196 TTGCTAAACAAGCAAGCATCAATCAACCATACAG
* * ** * **
63203756 CTTAGCTTCGATGCATGCAGTCAGTTGAATCTTAAAATATCAAACATTTTGATCATATTAGCATC
1 CTTAGCTTCAATGCATGCAGTCAGTTGAATCTCAAAATATCAAACATTACGATCATATAAAAATC
* * *
63203821 TGCTATTTACTTGGGAAACAAGAAACAATCAGACATCGATCTAAGAAACTAGAATACAACCTAGC
66 TACTATTTACTTGGGAAACAAGAAACAATCAGACATCAATCTAAGAAACCAGAATACAACCTAGC
* * * * *
63203886 TTCGATGCCTGTAGTCAGTTAAATCTCAAAATTTTGAACATTTCGATCATATCAACA
131 TTCAATGCCTGCAATCAGTTAAATCTCAAAATATTGAACATTTCGATCACATCAACA
63203943 AATACTATTT
Statistics
Matches: 158, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
229 158 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (229 bp):
CTTAGCTTCAATGCATGCAGTCAGTTGAATCTCAAAATATCAAACATTACGATCATATAAAAATC
TACTATTTACTTGGGAAACAAGAAACAATCAGACATCAATCTAAGAAACCAGAATACAACCTAGC
TTCAATGCCTGCAATCAGTTAAATCTCAAAATATTGAACATTTCGATCACATCAACATCTCTTAC
TTGCTAAACAAGCAAGCATCAATCAACCATACAG
Found at i:63204024 original size:115 final size:121
Alignment explanation
Indices: 63203882--63204107 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 121
63203872 GAATACAACC
** *
63203882 TAGCTTCGATGCCTGTAGTCAGTTAAATCT-CAAA-AT-TTTGAACA-TTTCGATCATATCAAC-
1 TAGCTTCGATGCC--TAGTCAGTTAAATCTCCAAATATCAATGAACATTTTCAATCATATCAACG
63203942 AAATACTATTTACTTAGGAAGCAAGAATCAGC-ATTAAATCTAAAAAACTGACAGTTTAT
64 AAA-ACTATTTACTTAGGAAGCAAGAATCAGCTA-TAAATCTAAAAAACTGACAGTTTAT
* *
63204001 TAGCTTCGATGCC-A-TCAGTTAAATCTCCAAATATCGAATGAACATTTTCAATCATATTAACGT
1 TAGCTTCGATGCCTAGTCAGTTAAATCTCCAAATATC-AATGAACATTTTCAATCATATCAACGA
* *
63204064 AAACTATTTACTTATGAAGCAAGAATCAGCTATCAATCTAAAAA
65 AAACTATTTACTTAGGAAGCAAGAATCAGCTATAAATCTAAAAA
63204108 GACTCGCATA
Statistics
Matches: 93, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
115 12 0.13
116 5 0.05
117 2 0.02
119 19 0.20
120 52 0.56
121 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (121 bp):
TAGCTTCGATGCCTAGTCAGTTAAATCTCCAAATATCAATGAACATTTTCAATCATATCAACGAA
AACTATTTACTTAGGAAGCAAGAATCAGCTATAAATCTAAAAAACTGACAGTTTAT
Found at i:63208768 original size:75 final size:74
Alignment explanation
Indices: 63208615--63208769 Score: 177
Period size: 75 Copynumber: 2.1 Consensus size: 74
63208605 TAAAATTATA
** * * *
63208615 TTTTATATTTGTTATCGAATTATTTATTTAACAAAGTATTTTAATAAAACTATTTATTAATTAAT
1 TTTTATATTTCCTATCAAATTATTTATTTAACAAAGTATTTTAATAAAACTATTAATTAATGAAT
* *
63208680 TATATCTTC
66 TAGATCATC
* * ** *
63208689 TTTTATATTTCCTATCAAATTTATTTTTTTAACAAAGTATTTTCATAAGATTTATTAATTTATGA
1 TTTTATATTTCCTATCAAA-TTATTTATTTAACAAAGTATTTTAATAA-AACTATTAATTAATGA
63208754 ATTAGATCAT-
64 ATTAGATCATC
63208764 TTTTAT
1 TTTTAT
63208770 TAGTAATAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
74 16 0.24
75 32 0.48
76 19 0.28
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.54
Consensus pattern (74 bp):
TTTTATATTTCCTATCAAATTATTTATTTAACAAAGTATTTTAATAAAACTATTAATTAATGAAT
TAGATCATC
Found at i:63210556 original size:216 final size:216
Alignment explanation
Indices: 63210176--63210704 Score: 720
Period size: 216 Copynumber: 2.4 Consensus size: 216
63210166 CATAAATTCG
* * * *
63210176 TTGAAGCAGTCGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTCACCCATAATCATTGA
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTA-CCATAATTATTGA
* * * * *
63210241 TTTTTAGTGTGCAAAACTGAAAATTTTGTTCATGTACTTATTGTTTGAAGTCAATTATTTACTGA
65 TTTTTAGTGTTCAAAACTGAAAATTCTGTTCATCTACTTATTGTTCGAAGTCAATTACTTACTGA
** * * *
63210306 ATAATTGAATGAGTAAAATTATATATTTTGCTGTCTCTAAAGTTGAA-TTTTTGTTCTTCATCGA
130 ATAATTGAATGAGTAAAACGATACATTGTGCTGTCTCAAAAGTT-AATTTTTTGTTCTTCATCGA
*
63210370 ATTATGTATAAATAGTTT-AGGC
194 ATTATGTATAAATACTTTAAGGC
63210392 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTACTCATAATTATTGA
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTAC-CATAATTATTGA
* * *
63210457 TTTTTAGTGTTCAAAACTGAGAATTCTGTTTATCTAGTTATTGTTCGAAGTCAATTACTTACTGA
65 TTTTTAGTGTTCAAAACTGAAAATTCTGTTCATCTACTTATTGTTCGAAGTCAATTACTTACTGA
* *
63210522 ATAATTGAATTAGTAAAACGATACATTGTGCTGTCTCAAAAGTTAATTTTTTTTTGTTTTTCATC
130 ATAATTGAATGAGTAAAACGATACATTGTGCTGTCTCAAAAGTTAA---TTTTTTGTTCTTCATC
* *
63210587 GAATTGTGTCTAAATACTTTAAGGC
192 GAATTATGTATAAATACTTTAAGGC
* ** * *
63210612 TTGAAGCACTTGATAACCATCCGTTTTCGCTTTCTGGGTAATTATTATTTACCATCATTGTTGAT
1 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTACCATAATTATTGAT
* *
63210677 TTTTAGTGCTCAAAAACTGAAAAATCTG
66 TTTTAGTGTTC-AAAACTGAAAATTCTG
63210705 CTTATTTTAC
Statistics
Matches: 276, Mismatches: 30, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
215 3 0.01
216 154 0.56
219 52 0.19
220 67 0.24
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (216 bp):
TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGGGTAATTATTATTTACCATAATTATTGAT
TTTTAGTGTTCAAAACTGAAAATTCTGTTCATCTACTTATTGTTCGAAGTCAATTACTTACTGAA
TAATTGAATGAGTAAAACGATACATTGTGCTGTCTCAAAAGTTAATTTTTTGTTCTTCATCGAAT
TATGTATAAATACTTTAAGGC
Found at i:63217076 original size:15 final size:15
Alignment explanation
Indices: 63217056--63217088 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
63217046 ACTTGAATTG
63217056 ATTAAAAAATAGGCT
1 ATTAAAAAATAGGCT
63217071 ATTAAAAAATAGGCT
1 ATTAAAAAATAGGCT
63217086 ATT
1 ATT
63217089 TGTTCTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (15 bp):
ATTAAAAAATAGGCT
Found at i:63220104 original size:14 final size:14
Alignment explanation
Indices: 63220069--63220096 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63220059 ATTGGTTTTC
63220069 GAAATGGGTTATTT
1 GAAATGGGTTATTT
63220083 GAAATGGGTTATTT
1 GAAATGGGTTATTT
63220097 TCAATGGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
GAAATGGGTTATTT
Found at i:63220629 original size:27 final size:28
Alignment explanation
Indices: 63220555--63220630 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 28
63220545 ATGAATGAAA
* *
63220555 TTTTTGATAAA-AGAATCAATTTATTCT
1 TTTTTAATAAATAGAATTAATTTATTCT
63220582 TTAATTTAAT-AATAGAAATTAATTTATT-T
1 TT--TTTAATAAATAG-AATTAATTTATTCT
*
63220611 TTTTTAATAAATAGGATTAA
1 TTTTTAATAAATAGAATTAA
63220631 ATATAATCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
27 13 0.32
28 7 0.17
29 10 0.24
30 11 0.27
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (28 bp):
TTTTTAATAAATAGAATTAATTTATTCT
Found at i:63233667 original size:29 final size:29
Alignment explanation
Indices: 63233625--63233825 Score: 165
Period size: 30 Copynumber: 7.2 Consensus size: 29
63233615 GAATAAACCG
*
63233625 AATACAGTACATATATTTTTTATTTTTAA
1 AATACAATACATATATTTTTTATTTTTAA
63233654 AATACAATACATAT-TTTTTTATTTTTAA
1 AATACAATACATATATTTTTTATTTTTAA
*
63233682 AATACACTACATATATTTTTTTTATTTTTAA
1 AATACAATACATATA--TTTTTTATTTTTAA
* **
63233713 AAT---AT---T-T-TTTATT-TTTAAAA
1 AATACAATACATATATTTTTTATTTTTAA
* * * * *
63233733 TACACTACAT--ATATTTTTTATTTTTAA
1 AATACAATACATATATTTTTTATTTTTAA
* *
63233760 AATACACTACATATTTTTTTTTATTTTTAA
1 AATACAATACATA-TATTTTTTATTTTTAA
*
63233790 AATACATTACATATATTTTTTTATTTTTAA
1 AATACAATACATATA-TTTTTTATTTTTAA
63233820 AATACA
1 AATACA
63233826 CAAATACAAT
Statistics
Matches: 136, Mismatches: 21, Indels: 29
0.73 0.11 0.16
Matches are distributed among these distances:
20 6 0.04
21 5 0.04
23 1 0.01
24 1 0.01
25 2 0.01
26 5 0.04
27 9 0.07
28 28 0.21
29 15 0.11
30 47 0.35
31 17 0.12
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (29 bp):
AATACAATACATATATTTTTTATTTTTAA
Found at i:63233722 original size:19 final size:18
Alignment explanation
Indices: 63233699--63233734 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
63233689 TACATATATT
63233699 TTTTTTATTTTTAAAATA
1 TTTTTTATTTTTAAAATA
63233717 TTTTTTATTTTTAAAATA
1 TTTTTTATTTTTAAAATA
63233735 CACTACATAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTTATTTTTAAAATA
Found at i:63233725 original size:77 final size:77
Alignment explanation
Indices: 63233637--63233793 Score: 289
Period size: 77 Copynumber: 2.0 Consensus size: 77
63233627 TACAGTACAT
63233637 ATATTTTTTATTTTTAAAATACAATACATAT-TTTTTTATTTTTAAAATACACTACATATATTTT
1 ATATTTTTTATTTTTAAAATACAATACATATATTTTTTATTTTTAAAATACACTACATAT-TTTT
63233701 TTTTATTTTTAAA
65 TTTTATTTTTAAA
*
63233714 ATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACACTACATATTTTTT
1 ATATTTTTTATTTTTAAAATACAATACATATATTTTTTATTTTTAAAATACACTACATATTTTTT
63233779 TTTATTTTTAAA
66 TTTATTTTTAAA
63233791 ATA
1 ATA
63233794 CATTACATAT
Statistics
Matches: 78, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
77 50 0.64
78 28 0.36
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (77 bp):
ATATTTTTTATTTTTAAAATACAATACATATATTTTTTATTTTTAAAATACACTACATATTTTTT
TTTATTTTTAAA
Found at i:63233742 original size:106 final size:106
Alignment explanation
Indices: 63233625--63233823 Score: 346
Period size: 106 Copynumber: 1.9 Consensus size: 106
63233615 GAATAAACCG
*
63233625 AATACAGTACATATATTTTTTATTTTTAAAATACAATACATA-TTTTTTTATTTTTAAAATACAC
1 AATACACTACATATATTTTTTATTTTTAAAATACAATACATATTTTTTTTATTTTTAAAATACAC
63233689 TACATATATTTTTTTTATTTTTAAAATATTTTTTATTTTTAA
66 TACATATA-TTTTTTTATTTTTAAAATATTTTTTATTTTTAA
*
63233731 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATTTTTTTTTATTTTTAAAATACA
1 AATACACTACATATATTTTTTATTTTTAAAATACAATACATA-TTTTTTTTATTTTTAAAATACA
*
63233796 TTACATATATTTTTTTATTTTTAAAATA
65 CTACATATATTTTTTTATTTTTAAAATA
63233824 CACAAATACA
Statistics
Matches: 88, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
106 40 0.45
107 19 0.22
108 29 0.33
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.55
Consensus pattern (106 bp):
AATACACTACATATATTTTTTATTTTTAAAATACAATACATATTTTTTTTATTTTTAAAATACAC
TACATATATTTTTTTATTTTTAAAATATTTTTTATTTTTAA
Found at i:63233780 original size:30 final size:30
Alignment explanation
Indices: 63233717--63233826 Score: 186
Period size: 30 Copynumber: 3.7 Consensus size: 30
63233707 TTTTAAAATA
*
63233717 TTTTTTATTTTTAAAATACACTACATA-TA
1 TTTTTTATTTTTAAAATACACTACATATTT
63233746 TTTTTTATTTTTAAAATACACTACATATTT
1 TTTTTTATTTTTAAAATACACTACATATTT
* *
63233776 TTTTTTATTTTTAAAATACATTACATATAT
1 TTTTTTATTTTTAAAATACACTACATATTT
63233806 TTTTTTATTTTTAAAATACAC
1 TTTTTTATTTTTAAAATACAC
63233827 AAATACAATG
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
29 27 0.36
30 49 0.64
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.55
Consensus pattern (30 bp):
TTTTTTATTTTTAAAATACACTACATATTT
Found at i:63233928 original size:30 final size:31
Alignment explanation
Indices: 63233894--63233966 Score: 112
Period size: 30 Copynumber: 2.4 Consensus size: 31
63233884 CATTTCCCAT
*
63233894 TCCCATTTCCCCTCTTCCACCG-TGCCCTCC
1 TCCCATTTCCCCTCTTCCACCGATCCCCTCC
*
63233924 TCCCATTTCCCCTCTTCCATCGATTCCCCTCC
1 TCCCATTTCCCCTCTTCCACCGA-TCCCCTCC
63233956 TCCCATTTCCC
1 TCCCATTTCCC
63233967 ATTCCCATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 21 0.54
32 18 0.46
ACGTcount: A:0.08, C:0.55, G:0.04, T:0.33
Consensus pattern (31 bp):
TCCCATTTCCCCTCTTCCACCGATCCCCTCC
Found at i:63234711 original size:19 final size:18
Alignment explanation
Indices: 63234689--63234732 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
63234679 AATTATTAAT
63234689 AAATAAATATTAAATTATA
1 AAATAAAT-TTAAATTATA
63234708 AAAT-AATTTAAATTATA
1 AAATAAATTTAAATTATA
63234725 AAA-AAATT
1 AAATAAATT
63234733 AACAATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.71
18 3 0.12
19 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATAAATTTAAATTATA
Found at i:63235172 original size:55 final size:54
Alignment explanation
Indices: 63235106--63235376 Score: 269
Period size: 55 Copynumber: 4.8 Consensus size: 54
63235096 TCTTTTTTGA
* * * * *
63235106 GTTTTTGTTGCCTTTTGACTTGATGGGTACTTTTAATTTCATTGTTATTTTGCGG
1 GTTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTC-TTGTTAGTTTGTGG
*
63235161 GTTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATATCTTGTTTAGTTTGTGG
1 GTTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTG-TTAGTTTGTGG
* * * *
63235216 GTTTTTCTTCTTGCCCTTCGGCTTGATGTGTAG--TTAATTTCTTTGTTATTTTGTGG
1 G--TTT-TTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTC-TTGTTAGTTTGTGG
** *
63235272 GTTTTTTTTTTCTTGCCTTTTGATTTGATGGGTAATTTTAATTTCTTTGTTAGTTTGTAGG
1 G-----TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTC-TTGTTAGTTTGT-GG
* *
63235333 GTTCTT-TTGCCTTTTGGCTTGATGGGTAGTTTTAGTTTCTTGTT
1 GTTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTGTT
63235377 TAATTTGAGG
Statistics
Matches: 182, Mismatches: 23, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
54 8 0.04
55 75 0.41
56 22 0.12
57 6 0.03
58 43 0.24
59 5 0.03
60 20 0.11
61 3 0.02
ACGTcount: A:0.11, C:0.10, G:0.23, T:0.56
Consensus pattern (54 bp):
GTTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTGTTAGTTTGTGG
Found at i:63242723 original size:151 final size:151
Alignment explanation
Indices: 63242449--63242755 Score: 524
Period size: 151 Copynumber: 2.0 Consensus size: 151
63242439 GTATCCAAAA
* **
63242449 CTACTAGGTTTAGTGATGATAATATCAGATCTAGATGGATTGATCCATTGTGAATGGTTGGGATT
1 CTACTAGGTCTAGTGATGATAATATCAGATCTAGATGGATTGATCCAGGGTGAATGGTTGGGATT
* * *
63242514 CCATGATTGTAGATGATAAGTTGTAGACAAAACGAACCAATGCTCTAGACCTAGAATAAGACCGA
66 CCATGATTGTAGAGGATAAGTTGTAGACAAAACAAACCAATGCTCAAGACCTAGAATAAGACCGA
63242579 TTGAACTACGGTTATATAACT
131 TTGAACTACGGTTATATAACT
* * *
63242600 CTACTAGGTCTAGTGATGATAATATTAGTTTTAGATGGATTGATCCAGGGTGAATGGTTGGGATT
1 CTACTAGGTCTAGTGATGATAATATCAGATCTAGATGGATTGATCCAGGGTGAATGGTTGGGATT
*
63242665 CCATGATTGTAGAGGATAAGTTGTAGACAAAACAAACCAATGCTCAAGACCTAGAATAAGACTGA
66 CCATGATTGTAGAGGATAAGTTGTAGACAAAACAAACCAATGCTCAAGACCTAGAATAAGACCGA
63242730 TTGAACTACGGTTATATAACT
131 TTGAACTACGGTTATATAACT
63242751 CTACT
1 CTACT
63242756 GTAACTACAA
Statistics
Matches: 146, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
151 146 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (151 bp):
CTACTAGGTCTAGTGATGATAATATCAGATCTAGATGGATTGATCCAGGGTGAATGGTTGGGATT
CCATGATTGTAGAGGATAAGTTGTAGACAAAACAAACCAATGCTCAAGACCTAGAATAAGACCGA
TTGAACTACGGTTATATAACT
Found at i:63245549 original size:28 final size:28
Alignment explanation
Indices: 63245509--63245566 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
63245499 ATGAATGGTG
63245509 GCCTTTTCCTTTGTAAAATGTTTCAAAT
1 GCCTTTTCCTTTGTAAAATGTTTCAAAT
63245537 GCCTTTTCCTTTGTAAAATGTTTCAAAT
1 GCCTTTTCCTTTGTAAAATGTTTCAAAT
63245565 GC
1 GC
63245567 AACTACCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (28 bp):
GCCTTTTCCTTTGTAAAATGTTTCAAAT
Found at i:63245675 original size:246 final size:245
Alignment explanation
Indices: 63245294--63245784 Score: 786
Period size: 246 Copynumber: 2.0 Consensus size: 245
63245284 GAATGACGGA
* * * * *
63245294 CTTTTCCTTGTAAAATGTTTTAAATACAACTACCATCCCTATTGGAGACAAACACAACTTTACGC
1 CTTTTCCTTGTAAAATGTTTCAAATACAACTACCATCCATATCGAAGACAAAAACAACTTTACGC
* * *
63245359 AAAAGAATTGCAAAAAGCAAACCCTCCAAGGCCAAGGAGCTTACACTAGTTTACAGGTCTTTTGT
66 AAAAGAATTACAAAAAGCAAACCCTCCAAGGCCAAGGAGCTTACACTAATTTACAGGTCTATTGT
*
63245424 GACATAAAAAACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCAACTCGGGATGAA
131 GACATAAAAAACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCAACTAGGGATGAA
* *
63245489 GACGAGATACATGAATGGTGGCCTTT-TCCTTTGTAAAATGTTTCAAATGC
196 GACGAGATACATGAATGATGGCCTTTCTCC-TTATAAAATGTTTCAAATGC
* **
63245539 CTTTTCCTTTGTAAAATGTTTCAAATGCAACTACCATCCATATCGAAGACAAAAACAACTTTGTG
1 CTTTTCC-TTGTAAAATGTTTCAAATACAACTACCATCCATATCGAAGACAAAAACAACTTTACG
* * *
63245604 CAAAAGAATTACAAAAAGCAAACCCTGCGAGGCCAAGGAGCTTACACTAATTTGCAGGTCTATTG
65 CAAAAGAATTACAAAAAGCAAACCCTCCAAGGCCAAGGAGCTTACACTAATTTACAGGTCTATTG
* *
63245669 TGACATAAAACATACTATCCCTACATATAAAATGTACAAATCATGATGCATTCAACTAGGGATGA
130 TGACATAAAAAACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCAACTAGGGATGA
63245734 AGACGAGATACATGAATGATGGCCTTTCTCCTTATAAAATGTTTCAAATGC
195 AGACGAGATACATGAATGATGGCCTTTCTCCTTATAAAATGTTTCAAATGC
63245785 AACTACCATC
Statistics
Matches: 225, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
245 7 0.03
246 215 0.96
247 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (245 bp):
CTTTTCCTTGTAAAATGTTTCAAATACAACTACCATCCATATCGAAGACAAAAACAACTTTACGC
AAAAGAATTACAAAAAGCAAACCCTCCAAGGCCAAGGAGCTTACACTAATTTACAGGTCTATTGT
GACATAAAAAACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCAACTAGGGATGAA
GACGAGATACATGAATGATGGCCTTTCTCCTTATAAAATGTTTCAAATGC
Found at i:63247000 original size:104 final size:103
Alignment explanation
Indices: 63246814--63247017 Score: 345
Period size: 104 Copynumber: 1.9 Consensus size: 103
63246804 TTTGTTGTTG
* *
63246814 TCAAAATGTAAAATGAAAAGAAAATTTTAGAATTGGCCAAGGATAGGAAGACCTTTAATGGTCAG
1 TCAAAATGTAAAACGAAAAGAAAATTTTAGAATTGGCCAAGGATAGGAAGACCTTTAATGATCAG
63246879 AAAATAACTCCTATATATCAGGGTTTCCCAAGTGCCTTT
66 AAAATAACTCC-ATATATCAGGGTTTCCCAAGTGCCTTT
*
63246918 TCAAAATGTAAAACGAAAAGAAAATTTTAGAATTGGCCAAGGATATGAAGACCTTTAATAGTATC
1 TCAAAATGTAAAACGAAAAGAAAATTTTAGAATTGGCCAAGGATAGGAAGACCTTTAAT-G-ATC
63246983 AGAAAATAACTCCTATATATCAGGGTTTCCCAAGT
64 AGAAAATAACTCC-ATATATCAGGGTTTCCCAAGT
63247018 ACTGACAAAT
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
104 57 0.60
105 1 0.01
106 37 0.39
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (103 bp):
TCAAAATGTAAAACGAAAAGAAAATTTTAGAATTGGCCAAGGATAGGAAGACCTTTAATGATCAG
AAAATAACTCCATATATCAGGGTTTCCCAAGTGCCTTT
Found at i:63251928 original size:15 final size:16
Alignment explanation
Indices: 63251895--63251929 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
63251885 TAAATCACTT
*
63251895 AAATAAACAGTAAATC
1 AAATAAACAGTAAAAC
63251911 AAATAAAC-GTAAAAC
1 AAATAAACAGTAAAAC
63251926 AAAT
1 AAAT
63251930 CCAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (16 bp):
AAATAAACAGTAAAAC
Found at i:63252115 original size:3 final size:3
Alignment explanation
Indices: 63252109--63252144 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
63252099 AGACAATGAT
*
63252109 GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
63252145 TATTCTGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:63253515 original size:23 final size:23
Alignment explanation
Indices: 63253458--63253515 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
63253448 CATCTAAAAT
*
63253458 ATTTAATTTTAAAAAAATTAATA
1 ATTTAATATTAAAAAAATTAATA
*
63253481 ATTGAATA--AAAAAAATT-ATA
1 ATTTAATATTAAAAAAATTAATA
63253501 ATTTAATGATTAAAA
1 ATTTAAT-ATTAAAA
63253516 TAAAATTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 9 0.31
21 10 0.34
23 10 0.34
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (23 bp):
ATTTAATATTAAAAAAATTAATA
Found at i:63260881 original size:22 final size:21
Alignment explanation
Indices: 63260856--63260898 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
63260846 AAAGAACCCT
63260856 AGCCCTAAGGAGCGCCGCAGCA
1 AGCCCTAAGGAGCGCC-CAGCA
* * *
63260878 AGCCTTCAGGTGCGCCCAGCA
1 AGCCCTAAGGAGCGCCCAGCA
63260899 GCCTCGCGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.23, C:0.37, G:0.30, T:0.09
Consensus pattern (21 bp):
AGCCCTAAGGAGCGCCCAGCA
Found at i:63261389 original size:14 final size:13
Alignment explanation
Indices: 63261370--63261400 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
63261360 TAGAGAAACG
63261370 TTTTTTTATTTTT
1 TTTTTTTATTTTT
63261383 ATTTTTTTATTTTT
1 -TTTTTTTATTTTT
63261397 TTTT
1 TTTT
63261401 CTTTCATTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTATTTTT
Found at i:63261842 original size:15 final size:16
Alignment explanation
Indices: 63261824--63261861 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
63261814 TAAATATTTA
*
63261824 TTATTGTTAT-ATTAT
1 TTATTATTATGATTAT
63261839 TTATTATTATGATTA-
1 TTATTATTATGATTAT
63261854 TTATTATT
1 TTATTATT
63261862 TCTATATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (16 bp):
TTATTATTATGATTAT
Found at i:63267954 original size:29 final size:30
Alignment explanation
Indices: 63267901--63267957 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
63267891 TCCGAGCCTT
63267901 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGTAAAAGTTTA
* *
63267931 GGGGCAAAATTGTAATTTTG-AAAAGTT
1 GGGGCAAAAATGTAATTATGTAAAAGTT
63267958 AGAGTTGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGTAAAAGTTTA
Found at i:63268186 original size:13 final size:13
Alignment explanation
Indices: 63268168--63268198 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
63268158 TTCCAGCAAC
63268168 TATGAATTTATTT
1 TATGAATTTATTT
63268181 TATGAATTTATTT
1 TATGAATTTATTT
*
63268194 GATGA
1 TATGA
63268199 TGATAAGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:63268461 original size:49 final size:50
Alignment explanation
Indices: 63268290--63268537 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
63268280 ATTTGGGTAA
* *
63268290 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC---A-A-GATG
* * *
63268346 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* *
63268396 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGC-TTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * *
63268445 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** *
63268495 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
63268538 TGTTATTATC
Statistics
Matches: 168, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 43 0.26
50 48 0.29
51 35 0.21
52 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:63268469 original size:99 final size:104
Alignment explanation
Indices: 63268294--63268538 Score: 365
Period size: 99 Copynumber: 2.4 Consensus size: 104
63268284 GGGTAAAGAG
*
63268294 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCCCTAT
* *
63268359 AAGACCATGTCTGGGACATGGCATGGGCACCAAGACGAG-AG
63 AAGACCATGTCTGGGACATGGCATGGGCACCAACACGAGAAC
* *
63268400 GTCTCATGTAAGACCATGTCTGGGACATGGC-TTGGCA-CC-GAG-ATGAGAGGTCCCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCCTATAAG
*
63268461 ACCATGTCTGGGACATGGCATGGGCACCAACATGAGAAC
66 ACCATGTCTGGGACATGGCATGGGCACCAACACGAGAAC
*
63268500 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
63268539 GTTATTATCA
Statistics
Matches: 128, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 52 0.41
100 30 0.23
101 6 0.05
102 3 0.02
104 2 0.02
105 6 0.05
106 29 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.22
Consensus pattern (104 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCAACACGAGAAC
Found at i:63275533 original size:29 final size:30
Alignment explanation
Indices: 63275474--63275531 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
63275464 TCCGAGCCTT
*
63275474 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
63275504 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
63275532 AGAGTTGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:63275760 original size:13 final size:13
Alignment explanation
Indices: 63275742--63275772 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
63275732 TTCCAGCAAC
63275742 TATGAATTTATTT
1 TATGAATTTATTT
63275755 TATGAATTTATTT
1 TATGAATTTATTT
*
63275768 GATGA
1 TATGA
63275773 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:63275980 original size:50 final size:50
Alignment explanation
Indices: 63275867--63276108 Score: 295
Period size: 50 Copynumber: 4.7 Consensus size: 50
63275857 ATTTGGGTAA
* * *
63275867 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
*
63275923 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
63275973 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCCTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
63276023 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
63276073 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
63276109 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 92 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:63276056 original size:100 final size:103
Alignment explanation
Indices: 63275867--63276116 Score: 380
Period size: 100 Copynumber: 2.4 Consensus size: 103
63275857 ATTTGGGTAA
63275867 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCC
* *
63275932 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* *
63275973 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCCTTGGCA-CC-GAG-ATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCCTA
*
63276035 TAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* *
63276073 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
63276117 GTTATTATCA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
100 52 0.39
101 37 0.28
103 3 0.02
105 2 0.01
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:63284258 original size:89 final size:91
Alignment explanation
Indices: 63284143--63284319 Score: 286
Period size: 92 Copynumber: 2.0 Consensus size: 91
63284133 TGAAAAGCAG
* **
63284143 CAGATCTTGCCTTCCCACACTGGTGGCGAAGCAGATCAAA-G-AAAGTAGATCTTGTCTTCATGT
1 CAGATCTTGCCTTCCCACACTAGTGGCGAAGCAGATCAAAGGAAAAACAGATCTTGTCTTCATGT
63284206 ACTGGCATGAAGTAGATCAAAGGTAA
66 ACTGGCATGAAGTAGATCAAAGGTAA
*
63284232 CAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATCAAAGGAAAAAACAGATCTTGTCTTCATG
1 CAGATCTTGCCTTCCCACACTAGTGGCGAAGCAGATCAAAGG-AAAAACAGATCTTGTCTTCATG
*
63284297 TACTGGCGTGAAGTAGATCAAAG
65 TACTGGCATGAAGTAGATCAAAG
63284320 ACATCAGGTC
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
89 38 0.47
90 1 0.01
92 41 0.51
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (91 bp):
CAGATCTTGCCTTCCCACACTAGTGGCGAAGCAGATCAAAGGAAAAACAGATCTTGTCTTCATGT
ACTGGCATGAAGTAGATCAAAGGTAA
Found at i:63284273 original size:45 final size:46
Alignment explanation
Indices: 63284141--63284276 Score: 147
Period size: 45 Copynumber: 3.0 Consensus size: 46
63284131 GTTGAAAAGC
* *
63284141 AGCAGATCTTGCCTTCCCACACTGGTGGCGAAGCAGATCAAA-GAA
1 AGCAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATCAAAGGAA
* * * * * *
63284186 AGTAGATCTTGTCTT--CAT-GTACTGGCATGAAGTAGATCAAAGGTA
1 AGCAGATCTTGCCTTCCCATACTAGTGGC--GAAGCAGATCAAAGGAA
63284231 A-CAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATCAAAGGAA
1 AGCAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATCAAAGGAA
63284276 A
1 A
63284277 AAACAGATCT
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
42 5 0.07
43 2 0.03
44 23 0.32
45 32 0.45
46 3 0.04
47 6 0.08
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (46 bp):
AGCAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATCAAAGGAA
Found at i:63284612 original size:44 final size:45
Alignment explanation
Indices: 63284539--63284631 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 45
63284529 GAGTATATTG
**
63284539 AAGAAAGCAGATCTTGTCTTCACGTACTGG-CATGAAGTAGATCA
1 AAGAAAGCAGATCTTGTCTTCACACACTGGTCATGAAGTAGATCA
* ** *
63284583 AAGAAAGCAGATCTTGTCTTCCCACACTGGTGGTGAAGTAGATCG
1 AAGAAAGCAGATCTTGTCTTCACACACTGGTCATGAAGTAGATCA
63284628 AAGA
1 AAGA
63284632 TACAAGTCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 27 0.64
45 15 0.36
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (45 bp):
AAGAAAGCAGATCTTGTCTTCACACACTGGTCATGAAGTAGATCA
Found at i:63285243 original size:22 final size:21
Alignment explanation
Indices: 63285218--63285260 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
63285208 AAAGAACCCT
63285218 AGCCCTAAGGAGCGCCGCAGCA
1 AGCCCTAAGGAGCGCC-CAGCA
* * *
63285240 AGCCTTCAGGTGCGCCCAGCA
1 AGCCCTAAGGAGCGCCCAGCA
63285261 GCCTCGCGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.23, C:0.37, G:0.30, T:0.09
Consensus pattern (21 bp):
AGCCCTAAGGAGCGCCCAGCA
Found at i:63286227 original size:16 final size:16
Alignment explanation
Indices: 63286208--63286251 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
63286198 TCTTATACGT
63286208 ATATATATTTTTTTAA
1 ATATATATTTTTTTAA
** *
63286224 ATATATACATTTTTAT
1 ATATATATTTTTTTAA
*
63286240 ATATGTATTTTT
1 ATATATATTTTT
63286252 AAACTTTTTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (16 bp):
ATATATATTTTTTTAA
Found at i:63287719 original size:16 final size:17
Alignment explanation
Indices: 63287693--63287725 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
63287683 AATATTTATT
63287693 TTAATATTTTTAATATA
1 TTAATATTTTTAATATA
*
63287710 TTAA-ATTTTTTATATA
1 TTAATATTTTTAATATA
63287726 AAAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTAATATTTTTAATATA
Found at i:63290715 original size:206 final size:208
Alignment explanation
Indices: 63290373--63290749 Score: 505
Period size: 206 Copynumber: 1.8 Consensus size: 208
63290363 TTAGAAAAAA
* * *
63290373 TTTGAAAGTGAAATGTAAAGCATCTAAAAGTGAAAAATTGAGAATCGAAGCATTCAAAATTTAAC
1 TTTGAAAGTGAAACGTAAAGCATCAAAAAGTGAAAAATGGAGAATCGAAGCATTC-AAATTT-AC
* * *
63290438 TCTAAAATGGAAAATCAAACTAGGTAGCAACATTTCGGCCAAACATCAAAGATCAACATTGTTAA
64 TCTAAAATGGAAAATCAAACTACGTAGAAACATTTCAGCCAAACATCAAAGATCAACATTGTTAA
* * *
63290503 AAACTTAAGTCAACGTATTCGTGGATC-ACAACAAAAACAACTATACTTCGCATCAAAAAAGAAT
129 AAACTTAAGTCAACATATTCATAGATCAACAACAAAAACAACTATACTTCGCATCAAAAAAGAAT
63290567 TTTTTTTTTTTAAAT
194 TTTTTTTTTTTAAAT
* *
63290582 TTTGAAATTGTAACGTAAAGCATCAAAAAAGTGAAAAAATGGA-AATCGAAGCATTC-AATTT-C
1 TTTGAAAGTGAAACGTAAAGCATC-AAAAAGTG-AAAAATGGAGAATCGAAGCATTCAAATTTAC
* * * * *
63290644 TCTAAAAATGGAAATTTTAAATTACGTA-AAACCTTTCAGCC-ATCATCAAAGATCAACATTGTT
64 TCT-AAAATGGAAA-ATCAAACTACGTAGAAACATTTCAGCCAAACATCAAAGATCAACATTGTT
*
63290707 GAAAACTTAAGTCAACATATTCATAGATCAACAACAAAAACAA
127 AAAAACTTAAGTCAACATATTCATAGATCAACAACAAAAACAA
63290750 TAATATTTCG
Statistics
Matches: 146, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
206 50 0.34
207 33 0.23
208 14 0.10
209 21 0.14
210 20 0.14
211 8 0.05
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (208 bp):
TTTGAAAGTGAAACGTAAAGCATCAAAAAGTGAAAAATGGAGAATCGAAGCATTCAAATTTACTC
TAAAATGGAAAATCAAACTACGTAGAAACATTTCAGCCAAACATCAAAGATCAACATTGTTAAAA
ACTTAAGTCAACATATTCATAGATCAACAACAAAAACAACTATACTTCGCATCAAAAAAGAATTT
TTTTTTTTTAAAT
Found at i:63290890 original size:197 final size:198
Alignment explanation
Indices: 63290578--63290948 Score: 466
Period size: 197 Copynumber: 1.9 Consensus size: 198
63290568 TTTTTTTTTT
* * *
63290578 AAATTTTGAAATTGTAACGTAAAGCATCAAAAAAGTGAAAAAATGGAAATCGAAGCATTCAATTT
1 AAATTTTGAAATTGTAACGTAAAGCATCAAAAAAGTAAAAAAATGGAAACCGAAGCATTCAAATT
* * * * *
63290643 CTCTAAAAATGGAAATTTTAAATTACGTAAAACCTTTCAGCCATCATCAAAGATCAACATTGTTG
66 CACTAAAAATGGAAATATTAAATTACGTAAAACCTTTCAGCCACCATCAAAGATAAACATTGTTA
* * *
63290708 AAAACTT-AAGTCAACATATTCATAGATCAACAACAAAAACAATAATATTTCGCTATTATTTTTT
131 AAAAATTGAAGGCAACATACTCATAGATCAACAACAAAAACAATAATATTTCGCTATTATTTTTT
63290772 GAA
196 GAA
* * **
63290775 AAATTTTGAAATTGTAATGTAAAGCATC-TAAGGGTAAAAAAATTCGG-AACCGAAGCATTCAAA
1 AAATTTTGAAATTGTAACGTAAAGCATCAAAAAAGTAAAAAAA-T-GGAAACCGAAGCATTCAAA
* * * * *
63290838 TTCAACTGAAACT-GAAA-ATTAAATTACGTGACAACCTTCTC-GTCACCATCAAAGATAAATAT
64 TTC-ACTAAAAATGGAAATATTAAATTACGT-AAAACCTT-TCAGCCACCATCAAAGATAAACAT
*
63290900 TGTTAAAAAATTGAAGGCAACATACTCATGGATCAACAACAAAAACAAT
126 TGTTAAAAAATTGAAGGCAACATACTCATAGATCAACAACAAAAACAAT
63290949 CAAACTTCGC
Statistics
Matches: 147, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
196 21 0.14
197 83 0.56
198 43 0.29
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (198 bp):
AAATTTTGAAATTGTAACGTAAAGCATCAAAAAAGTAAAAAAATGGAAACCGAAGCATTCAAATT
CACTAAAAATGGAAATATTAAATTACGTAAAACCTTTCAGCCACCATCAAAGATAAACATTGTTA
AAAAATTGAAGGCAACATACTCATAGATCAACAACAAAAACAATAATATTTCGCTATTATTTTTT
GAA
Found at i:63292133 original size:24 final size:24
Alignment explanation
Indices: 63292106--63292161 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
63292096 GCCCGGCCCG
*
63292106 ATTTTTAATAAACACAAA-AAAAAT
1 ATTTTTAA-AAACAAAAATAAAAAT
*
63292130 A-TTTTAAAAATAAAAATAAAAAT
1 ATTTTTAAAAACAAAAATAAAAAT
63292153 ATTTTTAAA
1 ATTTTTAAA
63292162 GTATTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 7 0.25
23 13 0.46
24 8 0.29
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (24 bp):
ATTTTTAAAAACAAAAATAAAAAT
Found at i:63294879 original size:23 final size:24
Alignment explanation
Indices: 63294828--63294872 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
63294818 AAATGTATTT
*
63294828 ATAATATAAAATATTAATATTTTA
1 ATAATATAAAATATGAATATTTTA
63294852 ATAATAT-AAATATGAATATTT
1 ATAATATAAAATATGAATATTT
63294873 ATTTAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
ATAATATAAAATATGAATATTTTA
Found at i:63295512 original size:26 final size:25
Alignment explanation
Indices: 63295473--63295529 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
63295463 AAATTTAATA
* *
63295473 AATTAAATTATTTAAAATAAAAAATT
1 AATTTAATTATTT-AAATAAAAAATC
* * *
63295499 AATTTAATTTTTTAGATAAAACATC
1 AATTTAATTATTTAAATAAAAAATC
63295524 AATTTA
1 AATTTA
63295530 TCATAAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (25 bp):
AATTTAATTATTTAAATAAAAAATC
Found at i:63299687 original size:20 final size:19
Alignment explanation
Indices: 63299662--63299706 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
63299652 TTAATGACAA
*
63299662 AAATTATTATTTTATAATTT
1 AAATTATTATATTA-AATTT
*
63299682 AAATTATTATATTAATTTT
1 AAATTATTATATTAAATTT
63299701 AAATTA
1 AAATTA
63299707 AATTAGTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AAATTATTATATTAAATTT
Found at i:63303898 original size:34 final size:34
Alignment explanation
Indices: 63303857--63303924 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
63303847 TCGAAATTTA
63303857 GGAGGGTTTGAATAAAAACATTAAGTTCGAAAAT
1 GGAGGGTTTGAATAAAAACATTAAGTTCGAAAAT
63303891 GGAGGGTTTGAATAAAAACATTAAGTTCGAAAAT
1 GGAGGGTTTGAATAAAAACATTAAGTTCGAAAAT
63303925 AGACTTGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (34 bp):
GGAGGGTTTGAATAAAAACATTAAGTTCGAAAAT
Found at i:63304620 original size:36 final size:36
Alignment explanation
Indices: 63304551--63304635 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 36
63304541 CTACCTTCAT
* * *
63304551 CCGATTTGCTTCCTTGTTTCTTTGTTTTTCTTTTCTG
1 CCGATTTGC-TCCTAGTTTATTTGTTTTTCTTTTCTA
*
63304588 TCGATTTGCTCCTAGTTTATTT-TCTTTTCTTTTCTA
1 CCGATTTGCTCCTAGTTTATTTGT-TTTTCTTTTCTA
63304624 CCGATTTGCTCC
1 CCGATTTGCTCC
63304636 CCCCGTTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 1 0.02
36 33 0.79
37 8 0.19
ACGTcount: A:0.07, C:0.24, G:0.12, T:0.58
Consensus pattern (36 bp):
CCGATTTGCTCCTAGTTTATTTGTTTTTCTTTTCTA
Found at i:63307886 original size:91 final size:91
Alignment explanation
Indices: 63307739--63307946 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 91
63307729 TTGATTTTAG
* *
63307739 TAAATTCATATAAGAACATTTTATTATTAAGAATGTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTAT
* * *
63307804 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* * * *
63307831 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTATA
63307896 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
63307922 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
63307947 GTTATAATTA
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 88 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:63307907 original size:44 final size:43
Alignment explanation
Indices: 63307777--63307921 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 43
63307767 AAGAATGTTA
* *
63307777 TGAAATTATATATCATTATTAAATTATATTTAATATTAATTATT
1 TGAAATTATATATAATTATTAAATTATA-TTAATAATAATTATT
* * * *
63307821 TTAAATTGTATA-AATTCATATAAGA-AAAATTATTATCAATAATT-TT
1 TGAAATTATATATAATT-AT-TAA-ATTATATTA--AT-AATAATTATT
*
63307867 ATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATT
1 -TGAAATTATATATAATTATTAAATTATAT-TAATAATAATTATT
*
63307912 TTAAATTATA
1 TGAAATTATA
63307922 CAAATTCATA
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.40
45 10 0.13
46 11 0.14
47 20 0.26
48 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
TGAAATTATATATAATTATTAAATTATATTAATAATAATTATT
Found at i:63307913 original size:47 final size:46
Alignment explanation
Indices: 63307774--63307914 Score: 114
Period size: 47 Copynumber: 3.1 Consensus size: 46
63307764 ATTAAGAATG
* *
63307774 TTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTA-T
1 TTATGAAATTATATATAATTATTAAATTATA-TTAATAATAATTATT
* * * * *
63307820 TT-T-AAATTGTATA-AATTCATATAAGA-AAAATT-ATTATCAATAATT
1 TTATGAAATTATATATAATT-AT-TAA-ATTATATTAATAAT-AATTATT
*
63307865 TTATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATT
1 TTATGAAATTATATATAATTATTAAATTATAT-TAATAATAATTATT
63307912 TTA
1 TTA
63307915 AATTATACAA
Statistics
Matches: 71, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
43 6 0.08
44 17 0.24
45 10 0.14
46 10 0.14
47 21 0.30
48 7 0.10
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (46 bp):
TTATGAAATTATATATAATTATTAAATTATATTAATAATAATTATT
Found at i:63307915 original size:26 final size:28
Alignment explanation
Indices: 63307861--63307921 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
63307851 TATTATCAAT
* *
63307861 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
63307889 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
63307915 AATTATA
1 AATTATA
63307922 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:63308117 original size:16 final size:16
Alignment explanation
Indices: 63308096--63308137 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
63308086 TTATTAAATT
*
63308096 ATATATTTTAATTATA
1 ATATATTTTAATAATA
63308112 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
63308127 AT-TATGTTTAA
1 ATATAT-TTTAA
63308138 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:63308122 original size:15 final size:15
Alignment explanation
Indices: 63308087--63308128 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
63308077 TTAAGAATTT
*
63308087 TATTAAATTAT-ATA
1 TATTTAATTATAATA
63308101 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
63308115 TATTTAATAATAAT
1 TATTTAATTATAAT
63308129 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:63308374 original size:16 final size:16
Alignment explanation
Indices: 63308353--63308404 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
63308343 GATTTGCTAT
63308353 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
63308369 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
63308385 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63308401 TACA
1 TACA
63308405 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:63326310 original size:15 final size:15
Alignment explanation
Indices: 63326286--63326326 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
63326276 TCCTGATCAG
*
63326286 TAAACTTAAATGATT
1 TAAACCTAAATGATT
63326301 TAAACCTAAAATGATT
1 TAAACCT-AAATGATT
*
63326317 TGAACCTAAA
1 TAAACCTAAA
63326327 ATAAGCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (15 bp):
TAAACCTAAATGATT
Found at i:63326314 original size:16 final size:16
Alignment explanation
Indices: 63326293--63326328 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
63326283 CAGTAAACTT
63326293 AAATGATTTAAACCTA
1 AAATGATTTAAACCTA
*
63326309 AAATGATTTGAACCTA
1 AAATGATTTAAACCTA
63326325 AAAT
1 AAAT
63326329 AAGCTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (16 bp):
AAATGATTTAAACCTA
Found at i:63331330 original size:23 final size:23
Alignment explanation
Indices: 63331281--63331323 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
63331271 TTTCAATCCC
*
63331281 TTAA-AAATGATGAAACTATAAA
1 TTAACAAATGATAAAACTATAAA
*
63331303 TTAACAAATGATAAAATTATA
1 TTAACAAATGATAAAACTATA
63331324 TTTTAACCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (23 bp):
TTAACAAATGATAAAACTATAAA
Found at i:63333501 original size:8 final size:9
Alignment explanation
Indices: 63333478--63333504 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
63333468 TTACGTGACT
63333478 TTAAAAATA
1 TTAAAAATA
63333487 TTAAAAATA
1 TTAAAAATA
63333496 TTAAAAATA
1 TTAAAAATA
63333505 AATAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:63334479 original size:13 final size:14
Alignment explanation
Indices: 63334446--63334483 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
63334436 ATACATCTAT
63334446 TATTATTAATTTGTA
1 TATTATT-ATTTGTA
63334461 TA-TATTATTT-TA
1 TATTATTATTTGTA
63334473 TATTATTATTT
1 TATTATTATTT
63334484 AAACATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.18
13 12 0.55
14 4 0.18
15 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
TATTATTATTTGTA
Found at i:63336655 original size:31 final size:30
Alignment explanation
Indices: 63336587--63336666 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
63336577 CATTTGAACC
* *
63336587 TAAATC-AAGTTTACTATATAAAATTACACA
1 TAAATCAAAATTTA-TATATAAAATTACAAA
* *
63336617 -AAATCAAACTTTATATATCAAATTACAAA
1 TAAATCAAAATTTATATATAAAATTACAAA
*
63336646 TTAAATCAAAATTCATATATA
1 -TAAATCAAAATTTATATATA
63336667 TTTTTTATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
29 19 0.46
30 6 0.15
31 16 0.39
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (30 bp):
TAAATCAAAATTTATATATAAAATTACAAA
Found at i:63337735 original size:15 final size:17
Alignment explanation
Indices: 63337715--63337747 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
63337705 GTTCCTCAAC
63337715 TTTGGT-TTTTA-CCAA
1 TTTGGTCTTTTATCCAA
63337730 TTTGGTCTTTTATCCAA
1 TTTGGTCTTTTATCCAA
63337747 T
1 T
63337748 AAGCACCCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (17 bp):
TTTGGTCTTTTATCCAA
Found at i:63342779 original size:3 final size:3
Alignment explanation
Indices: 63342771--63342807 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
63342761 GTCTGTGTGT
63342771 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
63342808 GCTCTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:63347281 original size:112 final size:112
Alignment explanation
Indices: 63347084--63347298 Score: 430
Period size: 112 Copynumber: 1.9 Consensus size: 112
63347074 TCAAAAGAGC
63347084 ATTTTATTAACTAAACAACTGAATTTAAATAGAGAAAACAGTCATAACCTAATTGGGAAAATAAT
1 ATTTTATTAACTAAACAACTGAATTTAAATAGAGAAAACAGTCATAACCTAATTGGGAAAATAAT
63347149 TCCCCTATTCTAATAAACTACTAAAAGATAAAATAAAACTGTTCTAT
66 TCCCCTATTCTAATAAACTACTAAAAGATAAAATAAAACTGTTCTAT
63347196 ATTTTATTAACTAAACAACTGAATTTAAATAGAGAAAACAGTCATAACCTAATTGGGAAAATAAT
1 ATTTTATTAACTAAACAACTGAATTTAAATAGAGAAAACAGTCATAACCTAATTGGGAAAATAAT
63347261 TCCCCTATTCTAATAAACTACTAAAAGATAAAATAAAA
66 TCCCCTATTCTAATAAACTACTAAAAGATAAAATAAAA
63347299 TATTCTTAGA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 103 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (112 bp):
ATTTTATTAACTAAACAACTGAATTTAAATAGAGAAAACAGTCATAACCTAATTGGGAAAATAAT
TCCCCTATTCTAATAAACTACTAAAAGATAAAATAAAACTGTTCTAT
Found at i:63349762 original size:20 final size:20
Alignment explanation
Indices: 63349739--63349779 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
63349729 TTTTCTACGT
63349739 AATAAAGC-ATAAATGAAAAA
1 AATAAAGCAATAAA-GAAAAA
*
63349759 AATAAATCAATAAAGAAAAA
1 AATAAAGCAATAAAGAAAAA
63349779 A
1 A
63349780 CACTCATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.15
Consensus pattern (20 bp):
AATAAAGCAATAAAGAAAAA
Found at i:63356413 original size:14 final size:14
Alignment explanation
Indices: 63356394--63356424 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
63356384 ATGAGTTCAC
63356394 AAATATAATTACAG
1 AAATATAATTACAG
*
63356408 AAATATATTTACAG
1 AAATATAATTACAG
63356422 AAA
1 AAA
63356425 ATGAATTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (14 bp):
AAATATAATTACAG
Found at i:63372097 original size:26 final size:25
Alignment explanation
Indices: 63372044--63372109 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
63372034 TGCATTCGAA
*
63372044 TATTTTAATATTTGATTAAAATTATT
1 TATTTTAA-ATTTGATTAAAAGTATT
63372070 TATTTTAAATTTGTATTAAAAAGT-TT
1 TATTTTAAATTTG-ATT-AAAAGTATT
* *
63372096 TAATTTAAACTTGA
1 TATTTTAAATTTGA
63372110 GTTTAATCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 6 0.17
26 24 0.69
27 5 0.14
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (25 bp):
TATTTTAAATTTGATTAAAAGTATT
Found at i:63373286 original size:21 final size:21
Alignment explanation
Indices: 63373262--63373301 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
63373252 TTAAAACCCT
*
63373262 AAACTCTAGA-TCATAAACTCG
1 AAACCCTAGACTC-TAAACTCG
63373283 AAACCCTAGACTCTAAACT
1 AAACCCTAGACTCTAAACT
63373302 TTTAAACCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.42, C:0.28, G:0.07, T:0.23
Consensus pattern (21 bp):
AAACCCTAGACTCTAAACTCG
Found at i:63374943 original size:24 final size:24
Alignment explanation
Indices: 63374916--63374967 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
63374906 TTTCTAGAAG
* **
63374916 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
63374940 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
63374964 ATTT
1 ATTT
63374968 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:63380163 original size:50 final size:50
Alignment explanation
Indices: 63380088--63380269 Score: 197
Period size: 50 Copynumber: 3.6 Consensus size: 50
63380078 AAGAGATCCT
*
63380088 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACAATAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACAACAGGTCCC
* ** ** *
63380138 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACAACAGGTCCC
* * * * * *
63380188 CTATAAGACCATGTTTGGGACATGGCATGGGCACCAACATGAGAACA--TCTC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACC-A-A-GACAACAGGTCCC
*
63380239 ATGTAAGACCATGTCTGGGACATGGCTTTGG
1 ATGTAAGACCATGTCTGGGACATGGCATTGG
63380270 TATGTTATTA
Statistics
Matches: 107, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
50 73 0.68
51 29 0.27
52 1 0.01
53 4 0.04
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACAACAGGTCCC
Found at i:63383410 original size:44 final size:44
Alignment explanation
Indices: 63383337--63383420 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
63383327 TCTAAATTCC
* * **
63383337 TTAAAAATATAAAAAATTTGAGATTTTTTTATGATTTTTTATTT
1 TTAAAAATATAAAAAATTTAAGATATTTTTAAAATTTTTTATTT
*
63383381 TTAATAATATTAAAAAATTTAAG-TATTTTTAAAATTTTTT
1 TTAAAAATA-TAAAAAATTTAAGATATTTTTAAAATTTTTT
63383421 GACACATGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 22 0.65
45 12 0.35
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (44 bp):
TTAAAAATATAAAAAATTTAAGATATTTTTAAAATTTTTTATTT
Found at i:63397868 original size:3 final size:3
Alignment explanation
Indices: 63397860--63397891 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
63397850 GAAATCTTTA
63397860 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
63397892 TAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:63416309 original size:79 final size:79
Alignment explanation
Indices: 63416178--63416335 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
63416168 TCACTGTAAA
63416178 AACCCAAATAACCGCAAAGTGATTGGATGTGAAATGAATTTCATGAATTACCTTCTCTCCTGCTA
1 AACCCAAATAACCGCAAAGTGATTGGATGTGAAATGAATTTCATGAATTACCTTCTCTCCTGCTA
63416243 TGTGTTTGGAATCG
66 TGTGTTTGGAATCG
*
63416257 AACCCAAATAACTGCAAAGTGATTGGATGTGAAATGAATTTCATGAATTACCTTCTCTCCTGCTA
1 AACCCAAATAACCGCAAAGTGATTGGATGTGAAATGAATTTCATGAATTACCTTCTCTCCTGCTA
63416322 TGTGTTTGGAATCG
66 TGTGTTTGGAATCG
63416336 TCTTACTCAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (79 bp):
AACCCAAATAACCGCAAAGTGATTGGATGTGAAATGAATTTCATGAATTACCTTCTCTCCTGCTA
TGTGTTTGGAATCG
Found at i:63428813 original size:38 final size:38
Alignment explanation
Indices: 63428762--63428844 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
63428752 AGTTATCAAC
63428762 TTAATTATGAAAATACAAAAATATTCTTTTTTAAAATT
1 TTAATTATGAAAATACAAAAATATTCTTTTTTAAAATT
63428800 TTAATTATGAAAATACAAAAATATTCTTTTTTAAAATT
1 TTAATTATGAAAATACAAAAATATTCTTTTTTAAAATT
*
63428838 ATAATTA
1 TTAATTA
63428845 ATGTTATTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (38 bp):
TTAATTATGAAAATACAAAAATATTCTTTTTTAAAATT
Found at i:63432368 original size:232 final size:231
Alignment explanation
Indices: 63431962--63432412 Score: 751
Period size: 232 Copynumber: 1.9 Consensus size: 231
63431952 TTAAATATTA
* *
63431962 GGAGCAAATATATCACAATCTCAACATCAATATACTCAGTAACAAAGCAGGACTACATTCAACCA
1 GGAGCAAATATATCACAATCTCAACATCAATATACTAAGTAACAAAGCAGGACTACATTCAAACA
*
63432027 GTGTCCCACATTTAATATTTGCATACAATCTCTGCTCAGAGAAAAGTGAAACTAAATAAATATTA
66 GTGTACCACATTTAATATTTGCATACAATCTCTGCTCAGAGAAAAGTGAAACTAAATAAATATTA
* * *
63432092 GGAACACAATAAAACCATGCAGCTTCCTCGTGCCCTTCTAATCTCACATGTAAAAGGAGGGCTCT
131 GGAACACAATAAAACCATGCAGCTTCCTCATGCCCTTCTAATCTCACATATAAAAGGAGGACTCT
63432157 TTTATTAACCATTTATGGAAGTCCCAAGTATAGCAAT
196 TTTATTAACCATTTATGGAA-TCCCAAGTATAGCAAT
* * *
63432194 GGAGCAAATATATCATAATCTCAACATCAATATACTAAGTATCAAAGCAGGACTACATTCAAACG
1 GGAGCAAATATATCACAATCTCAACATCAATATACTAAGTAACAAAGCAGGACTACATTCAAACA
* * * *
63432259 GTGTACCATATTTAATATTTGCGTACAATCTCTGCTCGGAGAAAAGTGAAACTAATTAAATATTA
66 GTGTACCACATTTAATATTTGCATACAATCTCTGCTCAGAGAAAAGTGAAACTAAATAAATATTA
*
63432324 GGAACACAATAAAACCATAG-AGCTTCCTCATGTCCTTCTAATCTCACATATAAAAGGAGGACTC
131 GGAACACAATAAAACCAT-GCAGCTTCCTCATGCCCTTCTAATCTCACATATAAAAGGAGGACTC
63432388 TTTTATTAACCATTTATGGAATCCC
195 TTTTATTAACCATTTATGGAATCCC
63432413 TAAGAAATTT
Statistics
Matches: 204, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
231 4 0.02
232 199 0.98
233 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (231 bp):
GGAGCAAATATATCACAATCTCAACATCAATATACTAAGTAACAAAGCAGGACTACATTCAAACA
GTGTACCACATTTAATATTTGCATACAATCTCTGCTCAGAGAAAAGTGAAACTAAATAAATATTA
GGAACACAATAAAACCATGCAGCTTCCTCATGCCCTTCTAATCTCACATATAAAAGGAGGACTCT
TTTATTAACCATTTATGGAATCCCAAGTATAGCAAT
Found at i:63437556 original size:16 final size:16
Alignment explanation
Indices: 63437537--63437570 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63437527 TTCAGAATAT
*
63437537 ATATAATCTAGAAAAA
1 ATATAATCTAAAAAAA
*
63437553 ATATAATTTAAAAAAA
1 ATATAATCTAAAAAAA
63437569 AT
1 AT
63437571 GAAAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (16 bp):
ATATAATCTAAAAAAA
Found at i:63437816 original size:22 final size:21
Alignment explanation
Indices: 63437790--63437846 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
63437780 ATACTATTTT
*
63437790 AATATTTTTAAATTTAT-AAT
1 AATATTTTTAAATTTATAAAA
*
63437810 TATATATTTTAGAATTTTATAAAA
1 AATAT-TTTTA-AA-TTTATAAAA
63437834 AATATTTTTAAAT
1 AATATTTTTAAAT
63437847 ATTTTTAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 4 0.13
23 10 0.33
24 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
AATATTTTTAAATTTATAAAA
Found at i:63437848 original size:10 final size:10
Alignment explanation
Indices: 63437833--63437869 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
63437823 ATTTTATAAA
63437833 AAATATTTTT
1 AAATATTTTT
63437843 AAATATTTTT
1 AAATATTTTT
*
63437853 AAACATTTTT
1 AAATATTTTT
*
63437863 ATATATT
1 AAATATT
63437870 ATATATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (10 bp):
AAATATTTTT
Found at i:63439883 original size:6 final size:6
Alignment explanation
Indices: 63439872--63439918 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
63439862 TTGTCTCGAT
** * *
63439872 TTTTTA TTTTTA TTTTTA TTTTTA TTTAAA TATTTA TTGTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
63439919 TAAAATAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:63441904 original size:15 final size:16
Alignment explanation
Indices: 63441884--63441913 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
63441874 TAACAAAAAG
63441884 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
63441899 AACCCAATAACCCAC
1 AACCCAATAACCCAC
63441914 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:63443274 original size:28 final size:28
Alignment explanation
Indices: 63443200--63443274 Score: 64
Period size: 28 Copynumber: 2.6 Consensus size: 28
63443190 CATTTTCATA
* *
63443200 AATATATACATA-TTTATTTTTTCTTTT
1 AATATATACATATTTTATTATTTCTGTT
* *
63443227 ATATATTTAAATATACTTTATATATTT-TGTT
1 A-ATATATACATAT--TTTAT-TATTTCTGTT
63443258 AATATATACATATTTTA
1 AATATATACATATTTTA
63443275 GTTTATGTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
27 1 0.03
28 13 0.35
30 10 0.27
31 9 0.24
32 4 0.11
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.57
Consensus pattern (28 bp):
AATATATACATATTTTATTATTTCTGTT
Found at i:63450117 original size:18 final size:17
Alignment explanation
Indices: 63450096--63450134 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
63450086 ACATGCAAGC
*
63450096 AGAAGCAGAGAAGAAGA
1 AGAAGCAGACAAGAAGA
63450113 GAGAAGCAGACAAGAAGA
1 -AGAAGCAGACAAGAAGA
63450131 AGAA
1 AGAA
63450135 TGGCGTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.59, C:0.08, G:0.33, T:0.00
Consensus pattern (17 bp):
AGAAGCAGACAAGAAGA
Done.