Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 228 of 292
Found at i:66443096 original size:241 final size:241
Alignment explanation
Indices: 66442673--66443317 Score: 1227
Period size: 241 Copynumber: 2.7 Consensus size: 241
66442663 AGTTATAAGC
66442673 AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAA
1 AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAA
*
66442738 AGGTTGGAAACTTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGTTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66442803 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTC
66442868 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
66442914 AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAA
1 AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAA
66442979 AGGTTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGTTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66443044 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTC
*
66443109 CTTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
* * *
66443155 AATTACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAA
* *
66443220 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATGCTCCCTAGGTGT
66 AGGTTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66443285 AACAACGCCACGTATGATGAATCTTAAAAAATT
131 AACAACGCCACGTATGATGAATCTTAAAAAATT
66443318 ACTATATTCA
Statistics
Matches: 397, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 397 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (241 bp):
AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAA
AGGTTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTC
ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
Found at i:66443460 original size:9 final size:9
Alignment explanation
Indices: 66443437--66443570 Score: 124
Period size: 9 Copynumber: 14.2 Consensus size: 9
66443427 ATTGATCATT
*
66443437 ACTTAAATA
1 ACTTACATA
*
66443446 AATTACATA
1 ACTTACATA
66443455 ACTTACATA
1 ACTTACATA
* *
66443464 ACTAATATA
1 ACTTACATA
66443473 ACTTACATA
1 ACTTACATA
*
66443482 ATTTACATAACA
1 ACTTACAT---A
66443494 ACTTACATA
1 ACTTACATA
*
66443503 ACTCACATA
1 ACTTACATA
66443512 ACTTACATA
1 ACTTACATA
*
66443521 ATTTACATA
1 ACTTACATA
* *
66443530 ACTCACTTA
1 ACTTACATA
*
66443539 ACGTACATAACA
1 ACTTACAT---A
66443551 ACTTACATA
1 ACTTACATA
66443560 ACTTACATA
1 ACTTACATA
66443569 AC
1 AC
66443571 ATATAGTTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
9 84 0.84
12 16 0.16
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:66443513 original size:39 final size:39
Alignment explanation
Indices: 66443454--66443571 Score: 143
Period size: 39 Copynumber: 3.0 Consensus size: 39
66443444 TAAATTACAT
*
66443454 AACTTACATAACTAATATAACTTACATAATTTACATAAC
1 AACTTACATAACTAACATAACTTACATAATTTACATAAC
*
66443493 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTAACATAACTTACATAATTTACATAAC
* * *
66443532 TCACTTAACGT-ACATAAC--AACTTACATAACTTACATAAC
1 -AACTT-ACATAAC-TAACATAACTTACATAATTTACATAAC
66443571 A
1 A
66443572 TATAGTTTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
39 57 0.83
40 6 0.09
41 6 0.09
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (39 bp):
AACTTACATAACTAACATAACTTACATAATTTACATAAC
Found at i:66443531 original size:57 final size:57
Alignment explanation
Indices: 66443450--66443570 Score: 170
Period size: 57 Copynumber: 2.1 Consensus size: 57
66443440 TAAATAAATT
* * **
66443450 ACATAACTTACATAACTAATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTAACATAACTCACATAACGTACATAACAACTTACATAACTC
* * * *
66443507 ACATAACTTACATAATTTACATAACTCACTTAACGTACATAACAACTTACATAACTT
1 ACATAACTTACATAACTAACATAACTCACATAACGTACATAACAACTTACATAACTC
66443564 ACATAAC
1 ACATAAC
66443571 ATATAGTTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (57 bp):
ACATAACTTACATAACTAACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:66449188 original size:18 final size:18
Alignment explanation
Indices: 66449165--66449209 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
66449155 AAAAAAAGTG
* *
66449165 ATAAAAAAAGTACAAAAA
1 ATAAAAAAAGAAAAAAAA
* *
66449183 ATAAAATACGAAAAAAAA
1 ATAAAAAAAGAAAAAAAA
66449201 ATAAAAAAA
1 ATAAAAAAA
66449210 TTCTGTGGGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.11
Consensus pattern (18 bp):
ATAAAAAAAGAAAAAAAA
Found at i:66453129 original size:22 final size:22
Alignment explanation
Indices: 66453077--66453121 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
66453067 ACAGGTAGAG
66453077 AAAATGTAGTTGCTGATGCCTT
1 AAAATGTAGTTGCTGATGCCTT
66453099 AAAATGTAGTTGCTGATGCCTT
1 AAAATGTAGTTGCTGATGCCTT
66453121 A
1 A
66453122 TCTCGTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (22 bp):
AAAATGTAGTTGCTGATGCCTT
Found at i:66456971 original size:43 final size:42
Alignment explanation
Indices: 66456943--66457109 Score: 228
Period size: 43 Copynumber: 3.9 Consensus size: 42
66456933 TTTGTGGAAA
* *
66456943 AAACGCCGCTACAAGCCGTGACTTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAAGCCGTGACTTTTAGCGGCG-TTTTCCCAC
66456986 AAACGCCGCTAAAAGCCGTGACTTTTAGCGGTAC-TTTTCCCAC
1 AAACGCCGCTAAAAGCCGTGACTTTTAGCGG--CGTTTTCCCAC
* * *
66457029 AAACGCCTCTAAAAGACGTGACTTTTAGCGGTGTTTTTCCCAC
1 AAACGCCGCTAAAAGCCGTGACTTTTAGCGGCG-TTTTCCCAC
*
66457072 AAACGCCGCTAAAAGCTGTGACTTTTTAGCGGCGTTTT
1 AAACGCCGCTAAAAGCCGTGAC-TTTTAGCGGCGTTTT
66457110 TTTCAATAAA
Statistics
Matches: 110, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
43 100 0.91
44 10 0.09
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (42 bp):
AAACGCCGCTAAAAGCCGTGACTTTTAGCGGCGTTTTCCCAC
Found at i:66457069 original size:86 final size:87
Alignment explanation
Indices: 66456943--66457103 Score: 270
Period size: 86 Copynumber: 1.9 Consensus size: 87
66456933 TTTGTGGAAA
* *
66456943 AAACGCCGCTACAAGCCGTGACTTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAAGCCGTGAC
1 AAACGCCGCTAAAAGACGTGACTTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAAGCCGTGAC
66457008 -TTTTAGCGGTACTTTTCCCAC
66 TTTTTAGCGGTACTTTTCCCAC
* * *
66457029 AAACGCCTCTAAAAGACGTGACTTTTAGCGGTGTTTTTCCCACAAACGCCGCTAAAAGCTGTGAC
1 AAACGCCGCTAAAAGACGTGACTTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAAGCCGTGAC
66457094 TTTTTAGCGG
66 TTTTTAGCGG
66457104 CGTTTTTTTC
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 60 0.87
87 9 0.13
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (87 bp):
AAACGCCGCTAAAAGACGTGACTTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAAGCCGTGAC
TTTTTAGCGGTACTTTTCCCAC
Found at i:66460790 original size:6 final size:6
Alignment explanation
Indices: 66460779--66460828 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
66460769 GATATTACTT
66460779 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
66460827 AA
1 AA
66460829 TTGTAATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:66462101 original size:18 final size:16
Alignment explanation
Indices: 66462078--66462114 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
66462068 TATTATCCAT
66462078 AAAAATATATATAATTAA
1 AAAAATAT-TA-AATTAA
66462096 AAAAATATTAAATTAA
1 AAAAATATTAAATTAA
66462112 AAA
1 AAA
66462115 TAATGTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 2 0.11
18 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATATTAAATTAA
Found at i:66462123 original size:16 final size:16
Alignment explanation
Indices: 66462077--66462123 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
66462067 TTATTATCCA
66462077 TAAAAAT-ATATATAAT
1 TAAAAATAATATA-AAT
66462093 TAAAAA-AATATTAAAT
1 TAAAAATAATA-TAAAT
*
66462109 TAAAAATAATGTAAA
1 TAAAAATAATATAAA
66462124 CATATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
TAAAAATAATATAAAT
Found at i:66465297 original size:129 final size:130
Alignment explanation
Indices: 66465134--66465394 Score: 479
Period size: 130 Copynumber: 2.0 Consensus size: 130
66465124 AAGGGGCCAT
* *
66465134 CAGGCAGATAAGTGATTCTTGGACATGCCGTATCATGTGA-CCCCAAGGCTCATGCATGCTCATA
1 CAGGCACATAAGTGATTCTCGGACATGCCGTATCATGTGACCCCCAAGGCTCATGCATGCTCATA
*
66465198 TAGACACAGCAATCAAAGAACATATATTGCAATGGGAATCAAATGATTTCCACTCATTATTAAGA
66 TAGACACAGCAATCAAAGAACATATATTGCAATGGGAATCAAATGATTTCCACTCACTATTAAGA
66465263 CAGGCACATAAGTGATTCTCGGACATGCCGTATCATGTGACCCCCAAGGCTCATGCATGCTCATA
1 CAGGCACATAAGTGATTCTCGGACATGCCGTATCATGTGACCCCCAAGGCTCATGCATGCTCATA
*
66465328 TAGACACAGCAATCAAAGAACATATATTGCATTGGGAATCAAATGATTTCCACTCACTATTAAGA
66 TAGACACAGCAATCAAAGAACATATATTGCAATGGGAATCAAATGATTTCCACTCACTATTAAGA
66465393 CA
1 CA
66465395 TAGTATAAAG
Statistics
Matches: 127, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
129 38 0.30
130 89 0.70
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (130 bp):
CAGGCACATAAGTGATTCTCGGACATGCCGTATCATGTGACCCCCAAGGCTCATGCATGCTCATA
TAGACACAGCAATCAAAGAACATATATTGCAATGGGAATCAAATGATTTCCACTCACTATTAAGA
Found at i:66468284 original size:13 final size:13
Alignment explanation
Indices: 66468266--66468295 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
66468256 ATTTTTTTAA
*
66468266 TATAAAATATTTC
1 TATAAAATATTAC
66468279 TATAAAATATTAC
1 TATAAAATATTAC
66468292 TATA
1 TATA
66468296 GTGGAATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
TATAAAATATTAC
Found at i:66468933 original size:28 final size:28
Alignment explanation
Indices: 66468890--66468943 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
66468880 CACACATTTT
*
66468890 TTATTGTTAGTGTAAT-ACTATTTTATG
1 TTATTGTTAGTGTAATAAATATTTTATG
66468917 TTATATGTTAGAT-TAATAAATATTTTA
1 TTAT-TGTTAG-TGTAATAAATATTTTA
66468944 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 4 0.17
28 10 0.43
29 9 0.39
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (28 bp):
TTATTGTTAGTGTAATAAATATTTTATG
Found at i:66472838 original size:87 final size:87
Alignment explanation
Indices: 66472733--66472901 Score: 275
Period size: 87 Copynumber: 1.9 Consensus size: 87
66472723 CAAGGCACGA
* * * * * *
66472733 TCAAGTTGTTGGTGTCGTTGCCAGGGAGGTTTAGGTGTTAATTTGATTTAGTAGTAAATTGTGCA
1 TCAAGTTGTTGGCGTCGTTGCCAGGGAAGTTCAGGTGCTAATATGATTTAATAGTAAATTGTGCA
66472798 GGCTAGTTAGGATAAGTCATGG
66 GGCTAGTTAGGATAAGTCATGG
*
66472820 TCAAGTTGTTGGCGTCGTTGCTAGGGAAGTTCAGGTGCTAATATGATTTAATAGTAAATTGTGCA
1 TCAAGTTGTTGGCGTCGTTGCCAGGGAAGTTCAGGTGCTAATATGATTTAATAGTAAATTGTGCA
66472885 GGCTAGTTAGGATAAGT
66 GGCTAGTTAGGATAAGT
66472902 AGTGAATTCG
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.36
Consensus pattern (87 bp):
TCAAGTTGTTGGCGTCGTTGCCAGGGAAGTTCAGGTGCTAATATGATTTAATAGTAAATTGTGCA
GGCTAGTTAGGATAAGTCATGG
Found at i:66473187 original size:16 final size:15
Alignment explanation
Indices: 66473157--66473196 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
66473147 AGATATAACA
66473157 ATTTATTTTTATTTTT
1 ATTT-TTTTTATTTTT
*
66473173 ATTCTTTTTTGTTTTT
1 ATT-TTTTTTATTTTT
66473189 ATTTTTTT
1 ATTTTTTT
66473197 CTTTCTGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 16 0.73
17 1 0.05
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (15 bp):
ATTTTTTTTATTTTT
Found at i:66476115 original size:10 final size:10
Alignment explanation
Indices: 66476100--66476148 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
66476090 AACTTTAGCT
*
66476100 TTTATCTTCA
1 TTTATCTTTA
66476110 TTTATCTTTA
1 TTTATCTTTA
*
66476120 ATTATCTTTA
1 TTTATCTTTA
66476130 TTTAT-TTGTA
1 TTTATCTT-TA
66476140 TTTATCTTT
1 TTTATCTTT
66476149 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:66478139 original size:15 final size:17
Alignment explanation
Indices: 66478113--66478144 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
66478103 TATTCTCTTT
66478113 ATTATCTTTAGA-TGGA
1 ATTATCTTTAGACTGGA
66478129 ATTAT-TTTAGACTGGA
1 ATTATCTTTAGACTGGA
66478145 CTAGTACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (17 bp):
ATTATCTTTAGACTGGA
Found at i:66487537 original size:17 final size:17
Alignment explanation
Indices: 66487517--66487551 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
66487507 TAGATATGAG
66487517 ATTATCTTTGATACATT
1 ATTATCTTTGATACATT
66487534 ATTATCTTTGATACATT
1 ATTATCTTTGATACATT
66487551 A
1 A
66487552 ATACAAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (17 bp):
ATTATCTTTGATACATT
Found at i:66490984 original size:15 final size:15
Alignment explanation
Indices: 66490964--66490994 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66490954 CTACTAATTC
66490964 AAACAGGATTCTTCT
1 AAACAGGATTCTTCT
66490979 AAACAGGATTCTTCT
1 AAACAGGATTCTTCT
66490994 A
1 A
66490995 CCTCTCTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (15 bp):
AAACAGGATTCTTCT
Found at i:66496995 original size:2 final size:2
Alignment explanation
Indices: 66496988--66497021 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
66496978 GATGTTGGAA
66496988 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66497022 TAAATTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66499192 original size:34 final size:35
Alignment explanation
Indices: 66499118--66499196 Score: 85
Period size: 34 Copynumber: 2.3 Consensus size: 35
66499108 AATCAAATCA
66499118 AATTTTAATAAAGTTAATTTAAAAATATTAGTTAT
1 AATTTTAATAAAGTTAATTTAAAAATATTAGTTAT
* * **
66499153 -TTTTTAATAAAGTTATATTT-TAAAT-TTTTTTAT
1 AATTTTAATAAAGTTA-ATTTAAAAATATTAGTTAT
66499186 AATTTT-ATAAA
1 AATTTTAATAAA
66499197 TAAAAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
33 11 0.30
34 22 0.59
35 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (35 bp):
AATTTTAATAAAGTTAATTTAAAAATATTAGTTAT
Found at i:66505092 original size:15 final size:16
Alignment explanation
Indices: 66505048--66505092 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
66505038 TTTATATTAT
66505048 AATATAATCATATTTTA
1 AATATAAT-ATATTTTA
* *
66505065 AATATAATGTATTTTC
1 AATATAATATATTTTA
66505081 AAT-TAATATATT
1 AATATAATATATT
66505093 AAATAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 8 0.32
16 9 0.36
17 8 0.32
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (16 bp):
AATATAATATATTTTA
Found at i:66508371 original size:34 final size:34
Alignment explanation
Indices: 66508333--66508401 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
66508323 TATAAAATAT
66508333 TATTAAACATACATAATTAATTATTTATATTTAG
1 TATTAAACATACATAATTAATTATTTATATTTAG
66508367 TATTAAACATACATAATTAATTATTTATATTTAG
1 TATTAAACATACATAATTAATTATTTATATTTAG
66508401 T
1 T
66508402 CATATAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (34 bp):
TATTAAACATACATAATTAATTATTTATATTTAG
Found at i:66508424 original size:13 final size:12
Alignment explanation
Indices: 66508406--66508435 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
66508396 TTTAGTCATA
66508406 TAATAAATTATAT
1 TAATAAATTAT-T
66508419 TAATAAATTATT
1 TAATAAATTATT
66508431 TAATA
1 TAATA
66508436 TTTCAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATAAATTATT
Found at i:66511213 original size:15 final size:17
Alignment explanation
Indices: 66511183--66511216 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
66511173 ATTTCAACTG
66511183 TTTCTTTTCAACTTTTT
1 TTTCTTTTCAACTTTTT
66511200 TTTC-TTTC-ACTTTTT
1 TTTCTTTTCAACTTTTT
66511215 TT
1 TT
66511217 AAAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 4 0.24
17 4 0.24
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTCAACTTTTT
Found at i:66511668 original size:18 final size:17
Alignment explanation
Indices: 66511623--66511688 Score: 50
Period size: 19 Copynumber: 3.9 Consensus size: 17
66511613 TTACTCCGGT
66511623 TTAAATAA-TTAATTTA
1 TTAAATAATTTAATTTA
*
66511639 TAAAAATAAATTTAATTATA
1 T-TAAAT-AATTTAATT-TA
66511659 TTAAATAA-TTAA--TA
1 TTAAATAATTTAATTTA
*
66511673 TTAATATAATATAATT
1 TTAA-ATAATTTAATT
66511689 ATCATAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
14 6 0.15
15 4 0.10
16 4 0.10
17 8 0.21
18 4 0.10
19 10 0.26
20 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAATAATTTAATTTA
Found at i:66511669 original size:13 final size:15
Alignment explanation
Indices: 66511651--66511687 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
66511641 AAAATAAATT
66511651 TAATT-ATATTAA-A
1 TAATTAATATTAATA
66511664 TAATTAATATTAATA
1 TAATTAATATTAATA
66511679 TAATATAAT
1 TAAT-TAAT
66511688 TATCATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 7 0.33
15 5 0.24
16 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATTAATATTAATA
Found at i:66511676 original size:23 final size:20
Alignment explanation
Indices: 66511624--66511677 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
66511614 TACTCCGGTT
66511624 TAAATAATTAATTTATAAAAA
1 TAAAT-ATTAATTTATAAAAA
66511645 TAAAT-TTAATTATATTAAATAA
1 TAAATATTAATT-TA-TAAA-AA
*
66511667 TTAATATTAAT
1 TAAATATTAAT
66511678 ATAATATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.21
20 2 0.07
21 9 0.32
22 6 0.21
23 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATATTAATTTATAAAAA
Found at i:66513541 original size:7 final size:7
Alignment explanation
Indices: 66513529--66513570 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
66513519 ATAAAATTGA
66513529 AATTTTT
1 AATTTTT
66513536 AATTTTT
1 AATTTTT
66513543 AATTTTT
1 AATTTTT
66513550 AATTTTT
1 AATTTTT
66513557 AATTTTT
1 AATTTTT
66513564 AATTTTT
1 AATTTTT
66513571 GAAAATGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
AATTTTT
Found at i:66514547 original size:3 final size:3
Alignment explanation
Indices: 66514539--66514584 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
66514529 TTTTACCGCT
66514539 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
66514585 TTTTCTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:66529478 original size:20 final size:20
Alignment explanation
Indices: 66529450--66529506 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
66529440 AATACTATGA
* *
66529450 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
66529470 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* * *
66529490 TCCTTTTCATTTACTTA
1 ACCATTCCATTTACTTA
66529507 GCATAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.49
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:66533116 original size:21 final size:21
Alignment explanation
Indices: 66533091--66533158 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
66533081 TGAGCTTCAG
*
66533091 TTAACTCATATGAGTTTTCGT
1 TTAACTCATATGAGTTTTAGT
* *
66533112 TTAAC-CCTAATGAGTTTTTGT
1 TTAACTCAT-ATGAGTTTTAGT
* * * *
66533133 TTAGCTCTTACGAGCTTTAGT
1 TTAACTCATATGAGTTTTAGT
66533154 TTAAC
1 TTAAC
66533159 CTTCATGGGT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.05
21 33 0.89
22 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.46
Consensus pattern (21 bp):
TTAACTCATATGAGTTTTAGT
Found at i:66533190 original size:42 final size:42
Alignment explanation
Indices: 66533131--66533226 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
66533121 ATGAGTTTTT
* * *
66533131 GTTTAGCTCTTACGAGCTTTAGTTTAA-CCTTCATGGGTTTCC
1 GTTTAGCTCTTACGAGCTTCAGTTCAACCCTT-ATGGGTTTCA
** *
66533173 GTTTAGCTCTTTTGAGCTTCCGTTCAACCCTTATGGGTTTCA
1 GTTTAGCTCTTACGAGCTTCAGTTCAACCCTTATGGGTTTCA
*
66533215 GTTTAGCACTTA
1 GTTTAGCTCTTA
66533227 TGTGCTTTCG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
42 41 0.91
43 4 0.09
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.43
Consensus pattern (42 bp):
GTTTAGCTCTTACGAGCTTCAGTTCAACCCTTATGGGTTTCA
Found at i:66533243 original size:42 final size:43
Alignment explanation
Indices: 66533158--66533243 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
66533148 TTTAGTTTAA
* * * *
66533158 CCTTCATGGGTTTCCGTTTAGCTCTTTTGAGCTTCCGTTCAAC
1 CCTTCATGGGTTTCAGTTTAGCACTTATGAGCTTCCGTGCAAC
* *
66533201 CCTT-ATGGGTTTCAGTTTAGCACTTATGTGCTTTCGTGCAAC
1 CCTTCATGGGTTTCAGTTTAGCACTTATGAGCTTCCGTGCAAC
66533243 C
1 C
66533244 TTTGGGCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 33 0.89
43 4 0.11
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.41
Consensus pattern (43 bp):
CCTTCATGGGTTTCAGTTTAGCACTTATGAGCTTCCGTGCAAC
Found at i:66536984 original size:44 final size:43
Alignment explanation
Indices: 66536921--66537079 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
66536911 CATAGGATTT
*
66536921 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTCTGTTTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATTTCTG-TTTA
*
66536965 CGTGTAAGACCATGTCTGGGACATCT-GCATCG-TATCTGATTT-
1 CGTGTAAGACCATGTCTGGGACAT-TGGCATCGATTTCTG-TTTA
* ** * ** * * *
66537007 CGTATAAGACTTTCTCTAAGACAGTGGCATTGATGTT-TGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGAT-TTCTGTTTA
*
66537050 CATGTAAGACCATGTCTGGGACATTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
66537080 TGTATATGTT
Statistics
Matches: 89, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
41 1 0.01
42 24 0.27
43 33 0.37
44 30 0.34
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATTTCTGTTTA
Found at i:66543350 original size:21 final size:20
Alignment explanation
Indices: 66543298--66543341 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
66543288 AAATATGAAA
*
66543298 GTTTGATATTGGGTTTATAT
1 GTTTGATGTTGGGTTTATAT
66543318 GTTTGATGTTGGGTTTATAT
1 GTTTGATGTTGGGTTTATAT
66543338 GTTT
1 GTTT
66543342 TGTCTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.57
Consensus pattern (20 bp):
GTTTGATGTTGGGTTTATAT
Found at i:66543893 original size:16 final size:16
Alignment explanation
Indices: 66543872--66543902 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
66543862 GAATAGTTAG
66543872 GATACATATGTCATGT
1 GATACATATGTCATGT
66543888 GATACATATGTCATG
1 GATACATATGTCATG
66543903 ACATAGGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (16 bp):
GATACATATGTCATGT
Found at i:66546934 original size:23 final size:23
Alignment explanation
Indices: 66546907--66546951 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
66546897 CTTTTTTAAT
*
66546907 AAAAATATTTAAAAATTTAAAAG
1 AAAAATATATAAAAATTTAAAAG
*
66546930 AAAAATATATAAAATTTTAAAA
1 AAAAATATATAAAAATTTAAAA
66546952 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAATATATAAAAATTTAAAAG
Found at i:66546959 original size:25 final size:25
Alignment explanation
Indices: 66546931--66546989 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
66546921 ATTTAAAAGA
* *
66546931 AAAATATATAA-AATTTTAAAATTTT
1 AAAATATATAAGAATTAT-AAATTAT
*
66546956 AAAATATAAAAGAATTATAAATTAT
1 AAAATATATAAGAATTATAAATTAT
66546981 AAAATATAT
1 AAAATATAT
66546990 GCATCTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
AAAATATATAAGAATTATAAATTAT
Found at i:66546976 original size:18 final size:18
Alignment explanation
Indices: 66546950--66546984 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66546940 AAAATTTTAA
*
66546950 AATTTTAAAATATAAAAG
1 AATTATAAAATATAAAAG
*
66546968 AATTATAAATTATAAAA
1 AATTATAAAATATAAAA
66546985 TATATGCATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AATTATAAAATATAAAAG
Found at i:66547562 original size:30 final size:30
Alignment explanation
Indices: 66547526--66547582 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
66547516 ACTTAACAGA
66547526 GAGTGACCAAAATAGAAAA-GATCTAAACCT
1 GAGTGACCAAAATA-AAAATGATCTAAACCT
*
66547556 GAGTGACCAAAATAAAAATTATCTAAA
1 GAGTGACCAAAATAAAAATGATCTAAA
66547583 ATGTTAGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.19
Consensus pattern (30 bp):
GAGTGACCAAAATAAAAATGATCTAAACCT
Found at i:66553281 original size:59 final size:59
Alignment explanation
Indices: 66553189--66553331 Score: 259
Period size: 59 Copynumber: 2.4 Consensus size: 59
66553179 TAAGGTCTGA
66553189 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
*
66553248 ATTTAGCTTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
* *
66553307 ATTTAGCCTAGACTGGTAATCCAGA
1 ATTTAGCCTGGACTGGTAATTCAGA
66553332 CAATATTCTA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 80 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (59 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
Found at i:66554014 original size:297 final size:297
Alignment explanation
Indices: 66553480--66554065 Score: 1172
Period size: 297 Copynumber: 2.0 Consensus size: 297
66553470 ACTAAAAGTA
66553480 TACATCTGAAAATCCATCGAAAATTCCAAGAAATTCAATAGGATAAATATGAAAAAAAAATATAA
1 TACATCTGAAAATCCATCGAAAATTCCAAGAAATTCAATAGGATAAATATGAAAAAAAAATATAA
66553545 GAAAATGGAAATCATGTTATTGATGAGCTCATCAATCATAGTATATATTATTGGTACATGCAAAA
66 GAAAATGGAAATCATGTTATTGATGAGCTCATCAATCATAGTATATATTATTGGTACATGCAAAA
66553610 TTATTGTACTAAATTGAATGTTGAGTTTGTGCATGTTAGAGTAATAATGCATTGAATGGATATAT
131 TTATTGTACTAAATTGAATGTTGAGTTTGTGCATGTTAGAGTAATAATGCATTGAATGGATATAT
66553675 GAATGTTTATTGTATTGTATTGAAAATATTCATAAGTATAATTCTTGTTACATGACCTTACTAAA
196 GAATGTTTATTGTATTGTATTGAAAATATTCATAAGTATAATTCTTGTTACATGACCTTACTAAA
66553740 CACAAAGTGCTTACCCTATTTCCTTTTCCGTTTAGTG
261 CACAAAGTGCTTACCCTATTTCCTTTTCCGTTTAGTG
66553777 TACATCTGAAAATCCATCGAAAATTCCAAGAAATTCAATAGGATAAATATGAAAAAAAAATATAA
1 TACATCTGAAAATCCATCGAAAATTCCAAGAAATTCAATAGGATAAATATGAAAAAAAAATATAA
66553842 GAAAATGGAAATCATGTTATTGATGAGCTCATCAATCATAGTATATATTATTGGTACATGCAAAA
66 GAAAATGGAAATCATGTTATTGATGAGCTCATCAATCATAGTATATATTATTGGTACATGCAAAA
66553907 TTATTGTACTAAATTGAATGTTGAGTTTGTGCATGTTAGAGTAATAATGCATTGAATGGATATAT
131 TTATTGTACTAAATTGAATGTTGAGTTTGTGCATGTTAGAGTAATAATGCATTGAATGGATATAT
66553972 GAATGTTTATTGTATTGTATTGAAAATATTCATAAGTATAATTCTTGTTACATGACCTTACTAAA
196 GAATGTTTATTGTATTGTATTGAAAATATTCATAAGTATAATTCTTGTTACATGACCTTACTAAA
66554037 CACAAAGTGCTTACCCTATTTCCTTTTCC
261 CACAAAGTGCTTACCCTATTTCCTTTTCC
66554066 CCTGTTTTGT
Statistics
Matches: 289, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
297 289 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (297 bp):
TACATCTGAAAATCCATCGAAAATTCCAAGAAATTCAATAGGATAAATATGAAAAAAAAATATAA
GAAAATGGAAATCATGTTATTGATGAGCTCATCAATCATAGTATATATTATTGGTACATGCAAAA
TTATTGTACTAAATTGAATGTTGAGTTTGTGCATGTTAGAGTAATAATGCATTGAATGGATATAT
GAATGTTTATTGTATTGTATTGAAAATATTCATAAGTATAATTCTTGTTACATGACCTTACTAAA
CACAAAGTGCTTACCCTATTTCCTTTTCCGTTTAGTG
Found at i:66554290 original size:23 final size:23
Alignment explanation
Indices: 66554264--66554308 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
66554254 TGGGTATGTG
*
66554264 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
66554287 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
66554309 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:66559382 original size:36 final size:34
Alignment explanation
Indices: 66559326--66559395 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 34
66559316 TACTCTGAAG
* *
66559326 CATTTTGATTGCTATCAGATAAGTTAAAAGGATAAA
1 CATTTTCATTGCTATAAGAT-AGTTAAAA-GATAAA
*
66559362 CATTTTCATTTCTATAAGATAGTTAAAAGATAAA
1 CATTTTCATTGCTATAAGATAGTTAAAAGATAAA
66559396 ATGAGTGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 6 0.19
35 8 0.26
36 17 0.55
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (34 bp):
CATTTTCATTGCTATAAGATAGTTAAAAGATAAA
Found at i:66561146 original size:19 final size:18
Alignment explanation
Indices: 66561106--66561147 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
66561096 AAGTAATTAC
*
66561106 TTTTTATAAAATTAATAT
1 TTTTTATAAAATTAATAA
66561124 TTTTTATAAAAATT-ATGAA
1 TTTTTAT-AAAATTAAT-AA
66561143 TTTTT
1 TTTTT
66561148 TCATCACATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTTATAAAATTAATAA
Found at i:66563164 original size:12 final size:12
Alignment explanation
Indices: 66563144--66563173 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
66563134 AATTCATGTT
66563144 TAATTTTTTT-A
1 TAATTTTTTTAA
66563155 TAATTTTTTTAA
1 TAATTTTTTTAA
66563167 TAATTTT
1 TAATTTT
66563174 ATTACAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TAATTTTTTTAA
Found at i:66563861 original size:2 final size:2
Alignment explanation
Indices: 66563854--66563879 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66563844 TATCAAGTCA
66563854 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
66563880 TTTTAACTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66565174 original size:2 final size:2
Alignment explanation
Indices: 66565167--66565191 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
66565157 CTAAAGATTC
66565167 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
66565192 CACACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66568971 original size:33 final size:32
Alignment explanation
Indices: 66568921--66568986 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
66568911 AAATTTTTGC
* *
66568921 AGACCAATTAAAAATAACCTGTTCATCCATTAA
1 AGACCAATTAAAAATAACATGTT-ATCCACTAA
* *
66568954 AGACCAATTGAAGATAACATGTTATCCACTAA
1 AGACCAATTAAAAATAACATGTTATCCACTAA
66568986 A
1 A
66568987 TGATTCACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 9 0.31
33 20 0.69
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (32 bp):
AGACCAATTAAAAATAACATGTTATCCACTAA
Found at i:66575304 original size:35 final size:37
Alignment explanation
Indices: 66575223--66575315 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 37
66575213 ATGGGAAATG
* **
66575223 CCATACTTACATTTCTTAACTCAGTATGGATTTGATAATA
1 CCATACCTACATTTCACAACTCAGTATGGA-TTG--AATA
66575263 CCATACCTACATTTCACAACTCAGTATGGA-TG-ATA
1 CCATACCTACATTTCACAACTCAGTATGGATTGAATA
66575298 CCATACCTACATTTCACA
1 CCATACCTACATTTCACA
66575316 CTTTTCCATG
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
35 21 0.42
38 2 0.04
40 27 0.54
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (37 bp):
CCATACCTACATTTCACAACTCAGTATGGATTGAATA
Found at i:66576961 original size:27 final size:27
Alignment explanation
Indices: 66576931--66577019 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
66576921 CACTGAACAA
* * * *
66576931 TTTGCTATGTTTGGCACACTATATCAC
1 TTTGCCATGATTGACACACTTTATCAC
66576958 TTTGCCATGATTGACACACTTTATCAC
1 TTTGCCATGATTGACACACTTTATCAC
66576985 TTTGCCATGATTGACACACTTTATCAC
1 TTTGCCATGATTGACACACTTTATCAC
66577012 TTTGCCAT
1 TTTGCCAT
66577020 AGTTCAACAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (27 bp):
TTTGCCATGATTGACACACTTTATCAC
Found at i:66577154 original size:31 final size:31
Alignment explanation
Indices: 66577082--66577252 Score: 179
Period size: 31 Copynumber: 5.5 Consensus size: 31
66577072 AAGTGTAGCT
* * *
66577082 AAGCTACCACTTATCACTTG-TCACTTGTAGTCG
1 AAGCTACCACTTTTCAC-TGATCA--GGTAGACG
* *
66577115 AAGCTACCACTATTCACTGATCAGGTAGATG
1 AAGCTACCACTTTTCACTGATCAGGTAGACG
* * * *
66577146 GAGCTACCACTTTTCACTAATCAAGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGACG
*
66577177 AAGCTACTACTTTTCACTGATCAGGTAG-C-
1 AAGCTACCACTTTTCACTGATCAGGTAGACG
* *
66577206 -AGCTACCACTTTTCATTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGACG
66577236 AAGCTACCACTTTTCAC
1 AAGCTACCACTTTTCAC
66577253 ATTATACACA
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
28 25 0.22
29 1 0.01
30 1 0.01
31 69 0.59
32 2 0.02
33 18 0.16
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGACG
Found at i:66577238 original size:59 final size:61
Alignment explanation
Indices: 66577108--66577252 Score: 204
Period size: 59 Copynumber: 2.4 Consensus size: 61
66577098 CTTGTCACTT
* * *
66577108 GTAGTCGAAGCTACCACTATTCACTGATCAGGTAGATGGAGCTACCACTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTA-ATGCAGCTACCACTTTTCACTAATCAA
* * * *
66577170 GTAGCCGAAGCTACTACTTTTCACTGATCAGGT-A-GCAGCTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAATGCAGCTACCACTTTTCACTAATCAA
66577229 GTAGCCGAAGCTACCACTTTTCAC
1 GTAGCCGAAGCTACCACTTTTCAC
66577253 ATTATACACA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
59 44 0.59
60 1 0.01
62 30 0.40
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (61 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAATGCAGCTACCACTTTTCACTAATCAA
Found at i:66577329 original size:33 final size:33
Alignment explanation
Indices: 66577257--66577357 Score: 150
Period size: 33 Copynumber: 3.1 Consensus size: 33
66577247 TTTCACATTA
* *
66577257 TACACACAAGGCGTACATTTCCTTTTCAAG-TG
1 TACACACAAAGTGTACATTTCCTTTTCAAGTTG
*
66577289 TACACACAAAGTGTACATTTCCTTTTTAAGTTG
1 TACACACAAAGTGTACATTTCCTTTTCAAGTTG
* *
66577322 TACACACACAGTGTACATTTCCTTTTCCAGTTG
1 TACACACAAAGTGTACATTTCCTTTTCAAGTTG
66577355 TAC
1 TAC
66577358 CTTTTAGGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
32 27 0.44
33 35 0.56
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.36
Consensus pattern (33 bp):
TACACACAAAGTGTACATTTCCTTTTCAAGTTG
Found at i:66577498 original size:91 final size:91
Alignment explanation
Indices: 66577343--66577526 Score: 368
Period size: 91 Copynumber: 2.0 Consensus size: 91
66577333 TGTACATTTC
66577343 CTTTTCCAGTTGTACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
1 CTTTTCCAGTTGTACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
66577408 CTTTTTATAATGAGATCATAAGATTA
66 CTTTTTATAATGAGATCATAAGATTA
66577434 CTTTTCCAGTTGTACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
1 CTTTTCCAGTTGTACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
66577499 CTTTTTATAATGAGATCATAAGATTA
66 CTTTTTATAATGAGATCATAAGATTA
66577525 CT
1 CT
66577527 CCTTTCAGAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (91 bp):
CTTTTCCAGTTGTACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
CTTTTTATAATGAGATCATAAGATTA
Found at i:66583086 original size:2 final size:2
Alignment explanation
Indices: 66583079--66583117 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
66583069 TGAGAAGAAA
66583079 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66583118 ATAAAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:66583514 original size:16 final size:14
Alignment explanation
Indices: 66583478--66583505 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66583468 TTGGGCCTTT
66583478 GTAATTTTGGACTG
1 GTAATTTTGGACTG
66583492 GTAATTTTGGACTG
1 GTAATTTTGGACTG
66583506 TTTTAATTTA
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:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
GTAATTTTGGACTG
Found at i:66584687 original size:99 final size:99
Alignment explanation
Indices: 66584515--66584713 Score: 362
Period size: 99 Copynumber: 2.0 Consensus size: 99
66584505 CATCAGGAAC
*
66584515 AATGAACACTGACATGGATTCGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
1 AATGAACACTGACATGGATTAGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
*
66584580 CCTCCTTTTGTGACGTCCACTCTTCTGGATTTCG
66 CCTACTTTTGTGACGTCCACTCTTCTGGATTTCG
*
66584614 AATGAACAGTGACATGGATTAGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
1 AATGAACACTGACATGGATTAGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
*
66584679 CCTACTTTTGTGACGTCCGCTCTTCTGGATTTCG
66 CCTACTTTTGTGACGTCCACTCTTCTGGATTTCG
66584713 A
1 A
66584714 CTTTCATATC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (99 bp):
AATGAACACTGACATGGATTAGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
CCTACTTTTGTGACGTCCACTCTTCTGGATTTCG
Found at i:66590702 original size:17 final size:17
Alignment explanation
Indices: 66590680--66590722 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
66590670 GTATTTATTT
66590680 AAAATAAAGGTTAAAGA
1 AAAATAAAGGTTAAAGA
66590697 AAAATAAAGGTTAAAGA
1 AAAATAAAGGTTAAAGA
66590714 AAAATAAAG
1 AAAATAAAG
66590723 ATTTATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (17 bp):
AAAATAAAGGTTAAAGA
Found at i:66594377 original size:8 final size:8
Alignment explanation
Indices: 66594335--66594359 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
66594325 ATATAGACTA
66594335 AATAAAAT
1 AATAAAAT
66594343 AATAAAAT
1 AATAAAAT
66594351 AATAAAAT
1 AATAAAAT
66594359 A
1 A
66594360 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:66594383 original size:29 final size:31
Alignment explanation
Indices: 66594332--66594400 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
66594322 TATATATAGA
*
66594332 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
66594361 CTTATTAAAATATTAAACA-AATAATAATTAT
1 CTAATTAAAATAATAAA-ATAATAATAATTAT
66594392 CTAATTAAA
1 CTAATTAAA
66594401 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 19 0.58
30 3 0.09
31 11 0.33
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:66594670 original size:29 final size:30
Alignment explanation
Indices: 66594613--66594670 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
66594603 CACCCTTAAA
* * * *
66594613 ATATTTATACTATTAGTCCTTCAACTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTT
66594643 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
66594671 AAGCATTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.50
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTT
Found at i:66600424 original size:10 final size:10
Alignment explanation
Indices: 66600409--66600433 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
66600399 TATGGTTGAT
66600409 ATTATGAGAA
1 ATTATGAGAA
66600419 ATTATGAGAA
1 ATTATGAGAA
66600429 ATTAT
1 ATTAT
66600434 TAACATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (10 bp):
ATTATGAGAA
Found at i:66601989 original size:47 final size:46
Alignment explanation
Indices: 66601921--66602069 Score: 190
Period size: 47 Copynumber: 3.2 Consensus size: 46
66601911 CACATCGAAG
* *
66601921 CCATAGTCCAGCTATGATCTTATATGGAAGCACATATCACACAGATG
1 CCATAG-CCAGCTATGGTCTTATATGGAAGCACATATCACACAGATA
* * *
66601968 CCATAGCCTAGCTATGGTCTTATACGGAAGCACATATCACACCGGTA
1 CCATAGCC-AGCTATGGTCTTATATGGAAGCACATATCACACAGATA
* * *
66602015 CCATATCCCAGCTATGGTCTTATATGGAAATCACATATCACACCGATA
1 CCATA-GCCAGCTATGGTCTTATATGG-AAGCACATATCACACAGATA
66602063 CCATAGC
1 CCATAGC
66602070 ACGGAAATCA
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
46 2 0.02
47 62 0.70
48 25 0.28
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (46 bp):
CCATAGCCAGCTATGGTCTTATATGGAAGCACATATCACACAGATA
Found at i:66607182 original size:16 final size:15
Alignment explanation
Indices: 66607163--66607194 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
66607153 AAAATTATTT
66607163 TTTTTAAAAAATAAAA
1 TTTTT-AAAAATAAAA
66607179 TTTTTAAAAATAAAA
1 TTTTTAAAAATAAAA
66607194 T
1 T
66607195 GAATATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTTTAAAAATAAAA
Found at i:66607186 original size:31 final size:30
Alignment explanation
Indices: 66607104--66607187 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
66607094 TAATAAAATA
66607104 TTTAAAAAATAAAATTTATT--AATTATATT
1 TTTAAAAAATAAAATTT-TTAAAATTATATT
* ** *
66607133 TTTAAAATATTAAAATCATTAAAATTATTTTT
1 TTTAAAA-AATAAAATTTTTAAAATTA-TATT
66607165 TTTAAAAAATAAAATTTTTAAAA
1 TTTAAAAAATAAAATTTTTAAAA
66607188 ATAAAATGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
29 9 0.20
30 7 0.16
31 18 0.41
32 10 0.23
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (30 bp):
TTTAAAAAATAAAATTTTTAAAATTATATT
Found at i:66607407 original size:25 final size:25
Alignment explanation
Indices: 66607373--66607424 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
66607363 TAAATTCATA
66607373 AAAAAAAATAGATTAAATGGTGTTG
1 AAAAAAAATAGATTAAATGGTGTTG
66607398 AAAAAAAATAGATTAAATGGTGTTG
1 AAAAAAAATAGATTAAATGGTGTTG
66607423 AA
1 AA
66607425 TATTTATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAAAAAATAGATTAAATGGTGTTG
Found at i:66608697 original size:2 final size:2
Alignment explanation
Indices: 66608692--66608717 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66608682 ATAATCTAAA
66608692 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
66608718 TAAAAGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:66609437 original size:3 final size:3
Alignment explanation
Indices: 66609431--66609467 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
66609421 TTAAAACAAC
66609431 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
66609468 TTAGAAATCA
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):
AAT
Found at i:66610259 original size:30 final size:33
Alignment explanation
Indices: 66610225--66610296 Score: 78
Period size: 37 Copynumber: 2.2 Consensus size: 33
66610215 GTTTGATTTC
66610225 GATTTA-CCC-CT-TTTTCTTATTTTCGTTCAT
1 GATTTATCCCACTCTTTTCTTATTTTCGTTCAT
*
66610255 GATTTTATCCCAAATCTCTTTTCTTGTTTTCGTTCAT
1 GA-TTTATCCC--A-CTCTTTTCTTATTTTCGTTCAT
66610292 GATTT
1 GATTT
66610297 TATACCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
30 2 0.06
31 4 0.12
32 3 0.09
36 5 0.15
37 20 0.59
ACGTcount: A:0.15, C:0.21, G:0.08, T:0.56
Consensus pattern (33 bp):
GATTTATCCCACTCTTTTCTTATTTTCGTTCAT
Found at i:66610278 original size:37 final size:37
Alignment explanation
Indices: 66610236--66610310 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
66610226 ATTTACCCCT
*
66610236 TTTTCTTATTTTCGTTCATGATTTTATCCCAAATCTC
1 TTTTCTTATTTTCGTTCATGATTTTATACCAAATCTC
*
66610273 TTTTCTTGTTTTCGTTCATGATTTTATACCAAATCTC
1 TTTTCTTATTTTCGTTCATGATTTTATACCAAATCTC
66610310 T
1 T
66610311 AATTGAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.20, G:0.07, T:0.55
Consensus pattern (37 bp):
TTTTCTTATTTTCGTTCATGATTTTATACCAAATCTC
Found at i:66610501 original size:18 final size:18
Alignment explanation
Indices: 66610478--66610517 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
66610468 TTACCTTCGT
*
66610478 TATTATTATTTTATTATC
1 TATTATTATTCTATTATC
* *
66610496 TATTATTGTTCTATTATT
1 TATTATTATTCTATTATC
66610514 TATT
1 TATT
66610518 CATTCATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCTATTATC
Found at i:66611068 original size:25 final size:25
Alignment explanation
Indices: 66611040--66611098 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
66611030 TTTTCATATC
* *
66611040 ATTTATTCTAAAT-GTTTTATACATT
1 ATTTATT-TAAATCATTTCATACATT
*
66611065 ATTTATGTTAAATCATTTCATATATT
1 ATTTAT-TTAAATCATTTCATACATT
66611091 ATTTATTT
1 ATTTATTT
66611099 TAAGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (25 bp):
ATTTATTTAAATCATTTCATACATT
Found at i:66612135 original size:27 final size:27
Alignment explanation
Indices: 66612105--66612160 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
66612095 AGGAATCGGG
*
66612105 TTACTAAGGTCTTTTATTTTCTTTATT
1 TTACTAAGGTATTTTATTTTCTTTATT
66612132 TTACTAAGGTATTTTATTTTCTTTATT
1 TTACTAAGGTATTTTATTTTCTTTATT
66612159 TT
1 TT
66612161 TTTCTTTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.64
Consensus pattern (27 bp):
TTACTAAGGTATTTTATTTTCTTTATT
Found at i:66612979 original size:11 final size:11
Alignment explanation
Indices: 66612963--66613091 Score: 63
Period size: 11 Copynumber: 11.7 Consensus size: 11
66612953 TCTCTAATAA
66612963 GTATATATTAT
1 GTATATATTAT
66612974 GTATATATT-T
1 GTATATATTAT
* *
66612984 AATACTATATTGT
1 -GTA-TATATTAT
*
66612997 GTATATATTTT
1 GTATATATTAT
*
66613008 ATATATATTATAT
1 GTATATA-T-TAT
*
66613021 GTAT-TTTTA-
1 GTATATATTAT
*
66613030 ATATTATATT-T
1 GTA-TATATTAT
* *
66613041 TTATATTTTA-
1 GTATATATTAT
*
66613051 ATACTATATTAT
1 GTA-TATATTAT
66613063 GTATATATT-T
1 GTATATATTAT
*
66613073 ATATATATTAT
1 GTATATATTAT
*
66613084 GTACATAT
1 GTATATAT
66613092 ATTTTCTAAT
Statistics
Matches: 89, Mismatches: 17, Indels: 24
0.68 0.13 0.18
Matches are distributed among these distances:
9 2 0.02
10 20 0.22
11 49 0.55
12 12 0.13
13 6 0.07
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (11 bp):
GTATATATTAT
Found at i:66613013 original size:34 final size:33
Alignment explanation
Indices: 66612963--66613081 Score: 113
Period size: 34 Copynumber: 3.6 Consensus size: 33
66612953 TCTCTAATAA
* *
66612963 GTATATATTATGTATATATTTAATACTATATTGT
1 GTATATATTTTATATATATTTAATACTATATT-T
*
66612997 GTATATATTTTATATATA-TT-ATA-TGTATTT
1 GTATATATTTTATATATATTTAATACTATATTT
* *
66613027 TTAATATTATATTTTTATAT-TTTAATACTATATTAT
1 GT-ATA-TAT-TTTATATATATTTAATACTATATT-T
66613063 GTATATA-TTTATATATATT
1 GTATATATTTTATATATATT
66613082 ATGTACATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
30 2 0.03
31 8 0.12
32 14 0.20
33 14 0.20
34 21 0.30
35 8 0.12
36 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (33 bp):
GTATATATTTTATATATATTTAATACTATATTT
Found at i:66613015 original size:45 final size:43
Alignment explanation
Indices: 66612964--66613210 Score: 153
Period size: 45 Copynumber: 5.7 Consensus size: 43
66612954 CTCTAATAAG
*
66612964 TATATATTATGTATATATTTAATACTATATTGTGTATATATTTTA
1 TATATATTATGTATATATTT-ATA-TATATTATGTATATATTTTA
* * *
66613009 TATATATTATATGTATTTTTAATATTATATT-T-T-TATATTTTAA
1 TATATATTATGTATATATTT-ATA-TATATTATGTATATATTTT-A
*
66613052 TACTATATTATGTATATATTTATATATATTATGTACATATATTTTC
1 TA-TATATTATGTATATATTTATATATATTATGT--ATATATTTTA
*
66613098 TA-ATATTA--T-T-T-TTTATATATTATCATGTATATATTTTA
1 TATATATTATGTATATATTTATATA-TATTATGTATATATTTTA
* *
66613136 -ATATTATTA-GT-TATATTTTTTATACTATTTCGTGTATATATATTTA
1 TATA-TATTATGTATATA-TTTATATA-TA-TT-ATGTATATAT-TTTA
* *
66613182 TATTATCCTTAT-TAT-TATTAATATATATT
1 TA-TAT-ATTATGTATATATTTATATATATT
66613211 TTATTATATA
Statistics
Matches: 163, Mismatches: 17, Indels: 44
0.73 0.08 0.20
Matches are distributed among these distances:
37 1 0.01
38 10 0.06
39 13 0.08
40 10 0.06
41 2 0.01
42 15 0.09
43 17 0.10
44 24 0.15
45 38 0.23
46 8 0.05
47 16 0.10
48 8 0.05
49 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (43 bp):
TATATATTATGTATATATTTATATATATTATGTATATATTTTA
Found at i:66613018 original size:65 final size:63
Alignment explanation
Indices: 66612948--66613083 Score: 159
Period size: 65 Copynumber: 2.1 Consensus size: 63
66612938 GTAGCATTGT
* *
66612948 TATTATCTCTA-ATAAGTA-TATATTATGTATATATTTAATACTATATTGTGTATATATTTTATA
1 TATTATATCTATATAA-TATTATATT-TGTATAT-TTTAATACTATATTATGTATATA-TTTATA
66613011 TA
62 TA
* * *
66613013 TATTATATGTATTTTTAATATTATATTTTTATATTTTAATACTATATTATGTATATATTTATATA
1 TATTATATCTA--TATAATATTATATTTGTATATTTTAATACTATATTATGTATATATTTATATA
66613078 TATTAT
1 TATTAT
66613084 GTACATATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
65 23 0.37
66 22 0.35
67 8 0.13
68 9 0.15
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (63 bp):
TATTATATCTATATAATATTATATTTGTATATTTTAATACTATATTATGTATATATTTATATA
Found at i:66613103 original size:23 final size:21
Alignment explanation
Indices: 66612964--66613142 Score: 133
Period size: 22 Copynumber: 8.5 Consensus size: 21
66612954 CTCTAATAAG
66612964 TATATATTATGTATATATTTAA
1 TATATATTATGTATATATTT-A
*
66612986 TACTATATTGTGTATATATTTTA
1 TA-TATATTATGTATATA-TTTA
* * *
66613009 TATATATTATATGTATTTTTAA
1 TATATATTATGTATATATTT-A
*
66613031 TATTATATT-TTTATAT-TTTAA
1 TA-TATATTATGTATATATTT-A
66613052 TACTATATTATGTATATATTTA
1 TA-TATATTATGTATATATTTA
66613074 TATATATTATGTACATATATTT-
1 TATATATTATGT--ATATATTTA
* *
66613096 TCTA-A-TAT-TAT-TTTTTA
1 TATATATTATGTATATATTTA
*
66613113 TATATTATCATGTATATATTT-
1 TATA-TATTATGTATATATTTA
66613134 TA-ATATTAT
1 TATATATTAT
66613143 TAGTTATATT
Statistics
Matches: 128, Mismatches: 15, Indels: 31
0.74 0.09 0.18
Matches are distributed among these distances:
16 4 0.03
17 5 0.04
19 7 0.05
20 6 0.05
21 32 0.25
22 37 0.29
23 34 0.27
24 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (21 bp):
TATATATTATGTATATATTTA
Found at i:66613134 original size:24 final size:24
Alignment explanation
Indices: 66613107--66613184 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 24
66613097 CTAATATTAT
66613107 TTTTTATATATTATCATGTATATA
1 TTTTTATATATTATCATGTATATA
*
66613131 -TTTTA-ATATTATTA-GT-TATA
1 TTTTTATATATTATCATGTATATA
*
66613151 TTTTTTATACTATT-TCGTGTATATA
1 -TTTTTATA-TATTATCATGTATATA
*
66613176 TATTTATAT
1 TTTTTATAT
66613185 TATCCTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
20 4 0.09
21 2 0.05
22 13 0.30
23 8 0.18
24 13 0.30
25 4 0.09
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (24 bp):
TTTTTATATATTATCATGTATATA
Found at i:66613150 original size:36 final size:38
Alignment explanation
Indices: 66613071--66613151 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 38
66613061 ATGTATATAT
* **
66613071 TTATATATATTATGTACATATATTTTCTAATATTATTTT
1 TTATATATATCATGTA-ATATATTTTCTAATATTATTAG
66613110 TTATATATTATCATGT-ATATA-TTT-TAATATTATTAG
1 TTATATA-TATCATGTAATATATTTTCTAATATTATTAG
66613146 TTATAT
1 TTATAT
66613152 TTTTTATACT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
36 16 0.42
37 3 0.08
38 5 0.13
39 7 0.18
40 7 0.18
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (38 bp):
TTATATATATCATGTAATATATTTTCTAATATTATTAG
Found at i:66616353 original size:21 final size:22
Alignment explanation
Indices: 66616301--66616354 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
66616291 CAATAAAATG
66616301 GATTATAAAAATCTATTAAAAA
1 GATTATAAAAATCTATTAAAAA
* *
66616323 TATTGT-AAAATCTATT-AAAA
1 GATTATAAAAATCTATTAAAAA
66616343 GATTATAAAAAT
1 GATTATAAAAAT
66616355 TAAAGTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.30
21 15 0.56
22 4 0.15
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (22 bp):
GATTATAAAAATCTATTAAAAA
Found at i:66617743 original size:57 final size:56
Alignment explanation
Indices: 66617656--66617768 Score: 190
Period size: 57 Copynumber: 2.0 Consensus size: 56
66617646 ACGCCGCTAT
*
66617656 AGGTAGAGGTTTAGCGGGGCTTTTGTAAAAACGCCACTATAGGCCGATGTTTTAGC
1 AGGTAGAGGTTTAGCGGCGCTTTTGTAAAAACGCCACTATAGGCCGATGTTTTAGC
* *
66617712 AGGTAGAGGTTTTAGTGGCGCTTTTGTAAAAACGCCGCTATAGGCCGATGTTTTAGC
1 AGGTAGAGG-TTTAGCGGCGCTTTTGTAAAAACGCCACTATAGGCCGATGTTTTAGC
66617769 GGCGCTTTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 9 0.17
57 44 0.83
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (56 bp):
AGGTAGAGGTTTAGCGGCGCTTTTGTAAAAACGCCACTATAGGCCGATGTTTTAGC
Found at i:66618124 original size:18 final size:18
Alignment explanation
Indices: 66618097--66618145 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
66618087 TTGTCCCTTG
66618097 TTAT-ATATATATTAA-A
1 TTATAATATATATTAAGA
*
66618113 CTTCTAATATATATTAAGA
1 -TTATAATATATATTAAGA
66618132 TTATAATATATATT
1 TTATAATATATATT
66618146 TAGGGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 3 0.11
18 24 0.86
19 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATAATATATATTAAGA
Found at i:66618593 original size:15 final size:15
Alignment explanation
Indices: 66618561--66618595 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
66618551 GATTTTAATG
**
66618561 TATAAGATAAATGTA
1 TATAAGATAAATAAA
66618576 TATAAGATAAATAAA
1 TATAAGATAAATAAA
66618591 TATAA
1 TATAA
66618596 ATTATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
TATAAGATAAATAAA
Found at i:66618771 original size:18 final size:18
Alignment explanation
Indices: 66618742--66618792 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
66618732 TTGTCCCTTG
66618742 TTATATATATATATTAA-A
1 TTATA-ATATATATTAAGA
*
66618760 CTTCTAATATATATTAAGA
1 -TTATAATATATATTAAGA
66618779 TTATAATATATATT
1 TTATAATATATATT
66618793 TAGGGTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATAATATATATTAAGA
Found at i:66619228 original size:15 final size:15
Alignment explanation
Indices: 66619208--66619242 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
66619198 GATTTTAATG
*
66619208 TATAAGATAAATGTA
1 TATAAGATAAATATA
66619223 TATAAGATAAATATA
1 TATAAGATAAATATA
66619238 TATAA
1 TATAA
66619243 ATTATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
TATAAGATAAATATA
Found at i:66619274 original size:647 final size:645
Alignment explanation
Indices: 66617936--66619261 Score: 2589
Period size: 647 Copynumber: 2.1 Consensus size: 645
66617926 ATAAATCTAA
66617936 ATAAGATAAATATAAATTATTATTTTAAATAATAGGTACATATATATGTTTTAGGGGTTATGCTA
1 ATAA-ATAAATATAAATTATTATTTTAAATAATAGGTACATATATATGTTTTAGGGGTTATGCTA
66618001 TTAGGGATTAGAGGTTATGATTAATGATAAAAAAATTAATTTATTTTAGAGTTTTGGTAAGCATT
65 TTAGGGATTAGAGGTTATGATTAATGATAAAAAAATTAATTTATTTTAGAGTTTTGGTAAGCATT
66618066 AAGATTCTATTTGAATTACTTTTGTCCCTTGTTATATATATATTAAACTTCTAATATATATTAAG
130 AAGATTCTATTTGAATTACTTTTGTCCCTTGTTATATATATATTAAACTTCTAATATATATTAAG
*
66618131 ATTATAATATATATTTAGGGTGTAAGTTTAGGTTAAGGGTTTAAGGAAATGATACTATTAGCTAG
195 ATTATAATATATATTTAGGGTGTAAGTTTAGGTTAAGAGTTTAAGGAAATGATACTATTAGCTAG
66618196 CTAGAAATTAACTGAAGAACATTTGGATTTTACTAAGATTCAAGCTATTTTGTATATACTCATAT
260 CTAGAAATTAACTGAAGAACATTTGGATTTTACTAAGATTCAAGCTATTTTGTATATACTCATAT
66618261 TATTTAATATAAGAATATAAACATATATACATGTGTGTTTTAATTTGTACTACACTAACATTGGC
325 TATTTAATATAAGAATATAAACATATATACATGTGTGTTTTAATTTGTACTACACTAACATTGGC
66618326 CACACGAATTCCAAAAATATGTCTACGAATATTATGGTTTAGGGTTAACAGTTTTTAAAGTACAC
390 CACACGAATTCCAAAAATATGTCTACGAATATTATGGTTTAGGGTTAACAGTTTTTAAAGTACAC
66618391 TTTATAGTTTGGGCTTTATGGTCTAGGAGTTATGGTTGGTTTAGGGGTTACCGAATGGTTTTGGG
455 TTTATAGTTTGGGCTTTATGGTCTAGGAGTTATGGTTGGTTTAGGGGTTACCGAATGGTTTTGGG
*
66618456 GTTTAACGTTTGGGGTTAGGGGTTTTGTGTTTGTGGTCTAAGGTTTAGGGTTTAGAGTCTGAAGT
520 GTTTAACGTTTGGGGTTAGGGGTTTTGTGTTTGTGGTCCAAGGTTTAGGGTTTAGAGTCTGAAGT
66618521 TTAGGGTTTTAAAGTTAGAGTATAATTTTGGATTTTAATGTATAAGATAAATGTATATAAG
585 TTAGGGTTTTAAAGTTAGAGTATAATTTTGGATTTTAATGTATAAGATAAATGTATATAAG
66618582 ATAAATAAATATAAATTATTATTTTAAATAATAGGTACATATATATGTTTTAGGGGTTATGCTAT
1 ATAAATAAATATAAATTATTATTTTAAATAATAGGTACATATATATGTTTTAGGGGTTATGCTAT
66618647 TAGGGATTAGAGGTTATGATTAATGATAAAAAAATTAATTTATTTTAGAGTTTTGGTAAGCATTA
66 TAGGGATTAGAGGTTATGATTAATGATAAAAAAATTAATTTATTTTAGAGTTTTGGTAAGCATTA
66618712 AGATTCTATTTGAATTACTTTTGTCCCTTGTTATATATATATATTAAACTTCTAATATATATTAA
131 AGATTCTATTTGAATTACTTTTGTCCCTTG-T-TATATATATATTAAACTTCTAATATATATTAA
66618777 GATTATAATATATATTTAGGGTGTAAGTTTAGGTTAAGAGTTTAAGGAAATGATACTATTAGCTA
194 GATTATAATATATATTTAGGGTGTAAGTTTAGGTTAAGAGTTTAAGGAAATGATACTATTAGCTA
66618842 GCTAGAAATTAACTGAAGAACATTTGGATTTTACTAAGATTCAAGCTATTTTGTATATACTCATA
259 GCTAGAAATTAACTGAAGAACATTTGGATTTTACTAAGATTCAAGCTATTTTGTATATACTCATA
66618907 TTATTTAATATAAGAATATAAACATATATACATGTGTGTTTTAATTTGTACTACACTAACATTGG
324 TTATTTAATATAAGAATATAAACATATATACATGTGTGTTTTAATTTGTACTACACTAACATTGG
66618972 CCACACGAATTCCAAAAATATGTCTACGAATATTATGGTTTAGGGTTAACAGTTTTTAAAGTACA
389 CCACACGAATTCCAAAAATATGTCTACGAATATTATGGTTTAGGGTTAACAGTTTTTAAAGTACA
66619037 CTTTATAGTTTGGGCTTTATGGTCTAGGAGTTATGGTTGGTTTAGGGGTTACCGAATGGTTTTGG
454 CTTTATAGTTTGGGCTTTATGGTCTAGGAGTTATGGTTGGTTTAGGGGTTACCGAATGGTTTTGG
66619102 GGTTTAACGTTTGGGGTTAGGGGTTTTGTGTTTGTGGTCCAAGGTTTAGGGTTTAGAGTCTGAAG
519 GGTTTAACGTTTGGGGTTAGGGGTTTTGTGTTTGTGGTCCAAGGTTTAGGGTTTAGAGTCTGAAG
66619167 TTTAGGGTTTTAAAGTTAGAGTATAATTTTGGATTTTAATGTATAAGATAAATGTATATAAG
584 TTTAGGGTTTTAAAGTTAGAGTATAATTTTGGATTTTAATGTATAAGATAAATGTATATAAG
* *
66619229 ATAAATATATATAAATTATTATTTTAAAAAATA
1 ATAAATAAATATAAATTATTATTTTAAATAATA
66619262 TATAAATATA
Statistics
Matches: 674, Mismatches: 4, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
645 156 0.23
646 5 0.01
647 513 0.76
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.41
Consensus pattern (645 bp):
ATAAATAAATATAAATTATTATTTTAAATAATAGGTACATATATATGTTTTAGGGGTTATGCTAT
TAGGGATTAGAGGTTATGATTAATGATAAAAAAATTAATTTATTTTAGAGTTTTGGTAAGCATTA
AGATTCTATTTGAATTACTTTTGTCCCTTGTTATATATATATTAAACTTCTAATATATATTAAGA
TTATAATATATATTTAGGGTGTAAGTTTAGGTTAAGAGTTTAAGGAAATGATACTATTAGCTAGC
TAGAAATTAACTGAAGAACATTTGGATTTTACTAAGATTCAAGCTATTTTGTATATACTCATATT
ATTTAATATAAGAATATAAACATATATACATGTGTGTTTTAATTTGTACTACACTAACATTGGCC
ACACGAATTCCAAAAATATGTCTACGAATATTATGGTTTAGGGTTAACAGTTTTTAAAGTACACT
TTATAGTTTGGGCTTTATGGTCTAGGAGTTATGGTTGGTTTAGGGGTTACCGAATGGTTTTGGGG
TTTAACGTTTGGGGTTAGGGGTTTTGTGTTTGTGGTCCAAGGTTTAGGGTTTAGAGTCTGAAGTT
TAGGGTTTTAAAGTTAGAGTATAATTTTGGATTTTAATGTATAAGATAAATGTATATAAG
Found at i:66619281 original size:24 final size:23
Alignment explanation
Indices: 66619214--66619281 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
66619204 AATGTATAAG
* *
66619214 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAAAATAT
* *
66619239 ATAAATTATTATTTTAAAAAATAT
1 ATAAATTA-TATATGAAAAAATAT
66619263 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
66619282 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAAAATAT
Found at i:66622785 original size:24 final size:24
Alignment explanation
Indices: 66622758--66622825 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
66622748 ATTATTATTG
*
66622758 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
66622782 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
66622806 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
66622826 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:66623046 original size:15 final size:15
Alignment explanation
Indices: 66623002--66623057 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
66622992 AACGACATGT
66623002 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
66623018 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
66623031 ATATTATTTAATTAA
1 ATATTATTTAATTAA
66623046 ATATTATTTAAT
1 ATATTATTTAAT
66623058 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:66623174 original size:9 final size:9
Alignment explanation
Indices: 66623162--66623387 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
66623152 TATTTGATAT
*
66623162 CATAATTTA
1 CATAACTTA
66623171 CATAACTTA
1 CATAACTTA
* *
66623180 TATAACATA
1 CATAACTTA
*
66623189 TATAACTTA
1 CATAACTTA
66623198 CATAACTTA
1 CATAACTTA
* *
66623207 TATAACATA
1 CATAACTTA
66623216 CATAACTTA
1 CATAACTTA
*
66623225 TATAACTTA
1 CATAACTTA
*
66623234 TATAACTTA
1 CATAACTTA
* *
66623243 GATAA-ATA
1 CATAACTTA
*
66623251 TATAACTTA
1 CATAACTTA
66623260 CATAACTTA
1 CATAACTTA
66623269 CATAATACTTA
1 CAT-A-ACTTA
* *
66623280 AATATATTTTATA
1 CATA-A--CT-TA
*
66623293 TCATAATTTA
1 -CATAACTTA
66623303 CATAACTTA
1 CATAACTTA
66623312 CATAACTTA
1 CATAACTTA
*
66623321 TATAACTTA
1 CATAACTTA
* *
66623330 GATAA-ATA
1 CATAACTTA
* *
66623338 TATAATTTA
1 CATAACTTA
*
66623347 CATAA-ATA
1 CATAACTTA
* * *
66623355 TATATCATA
1 CATAACTTA
*
66623364 TCATAAATTA
1 -CATAACTTA
66623374 CATAACTTA
1 CATAACTTA
66623383 CATAA
1 CATAA
66623388 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:66623184 original size:18 final size:18
Alignment explanation
Indices: 66623162--66623387 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
66623152 TATTTGATAT
* *
66623162 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
66623180 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
66623198 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
66623216 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
66623234 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
66623251 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
66623269 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
66623293 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
66623312 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
66623330 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
66623347 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
66623364 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
66623383 CATAA
1 CATAA
66623388 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:66623375 original size:114 final size:114
Alignment explanation
Indices: 66623190--66623411 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
66623180 TATAACATAT
* * *
66623190 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * *
66623255 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
66623304 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
66623367 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
66623412 CATAACTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 72 0.76
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:66629379 original size:31 final size:31
Alignment explanation
Indices: 66629333--66629399 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
66629323 TGGTTGTATT
* *
66629333 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
66629364 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
66629395 TTTTA
1 TTTTA
66629400 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:66629540 original size:42 final size:43
Alignment explanation
Indices: 66629474--66629673 Score: 314
Period size: 43 Copynumber: 4.7 Consensus size: 43
66629464 GTAAAAAAAG
* * *
66629474 CGCCGCTAAAAGCTTTGACGTTTAGTGGCGCTTTACCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
66629517 CGCCGCT-AAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
* *
66629559 -GCCGCTAAAAGCCTTGACGTTTAGCGGTGCTTTACCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
* *
66629601 CGCTGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
*
66629644 CGCCGCTAAAAGTCTTGACCTTTAGCGGCG
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG
66629674 TTTTTTTCCA
Statistics
Matches: 144, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
41 6 0.04
42 65 0.45
43 73 0.51
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
Found at i:66629593 original size:84 final size:86
Alignment explanation
Indices: 66629474--66629673 Score: 323
Period size: 84 Copynumber: 2.3 Consensus size: 86
66629464 GTAAAAAAAG
* *
66629474 CGCCGCTAAAAGCTTTGACGTTTAGTGGCGCTTTACCCACAAACGCCGCT-AAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTT
66629538 TAGCGGCGCTTTACCCACAAA
66 TAGCGGCGCTTTACCCACAAA
* *
66629559 -GCCGCTAAAAGCCTTGACGTTTAGCGGTGCTTTACCCACAAACGCTGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTT
*
66629623 TAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTACCCACAAA
* *
66629644 CGCCGCTAAAAGTCTTGACCTTTAGCGGCG
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCG
66629674 TTTTTTTCCA
Statistics
Matches: 105, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
84 45 0.43
85 34 0.32
86 26 0.25
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (86 bp):
CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTACCCACAAA
Found at i:66639558 original size:15 final size:16
Alignment explanation
Indices: 66639534--66639572 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
66639524 ATAAGAAAAT
**
66639534 ATTATTAATTTTTTTA
1 ATTATTAATTAATTTA
66639550 ATT-TTAATTAATTTA
1 ATTATTAATTAATTTA
66639565 ATTATTAA
1 ATTATTAA
66639573 GTTGTTAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATTAATTAATTTA
Found at i:66642531 original size:27 final size:28
Alignment explanation
Indices: 66642501--66642553 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
66642491 TTATTTTATT
66642501 ATATTAGGA-TAATTAATATTAAGATAA
1 ATATTAGGATTAATTAATATTAAGATAA
* *
66642528 ATATTAGGATTATTTAATTTTAAGAT
1 ATATTAGGATTAATTAATATTAAGAT
66642554 TTAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (28 bp):
ATATTAGGATTAATTAATATTAAGATAA
Found at i:66642557 original size:13 final size:13
Alignment explanation
Indices: 66642539--66642563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66642529 TATTAGGATT
66642539 ATTTAATTTTAAG
1 ATTTAATTTTAAG
66642552 ATTTAATTTTAA
1 ATTTAATTTTAA
66642564 TTATTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
ATTTAATTTTAAG
Found at i:66645528 original size:38 final size:38
Alignment explanation
Indices: 66645437--66645566 Score: 134
Period size: 38 Copynumber: 3.4 Consensus size: 38
66645427 CGAGGTATAA
* * * * *
66645437 AACCCGAACATAACACCAGCACGAAGCTTACGGGACTTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTT
*** * * *
66645476 AAACTTAGATATAATACCAGCACTAGGCCTGCTGGATTT
1 -AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
*
66645515 AACCCGGATATAATGCCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
66645553 AACCCGGATATAAT
1 AACCCGGATATAAT
66645567 TCTAGCATAT
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
38 45 0.62
39 3 0.04
40 24 0.33
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:66648845 original size:31 final size:31
Alignment explanation
Indices: 66648805--66648873 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
66648795 TTTGGGTTAG
*
66648805 GACTGAAATTTCA-AAATTCAAAAAGTACAAA
1 GACT-AAAATTCACAAATTCAAAAAGTACAAA
* * * *
66648836 GACTAAAATTGACTAGTTCAAAAAGTACAAT
1 GACTAAAATTCACAAATTCAAAAAGTACAAA
66648867 GACTAAA
1 GACTAAA
66648874 TTTGTTCAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.23
Consensus pattern (31 bp):
GACTAAAATTCACAAATTCAAAAAGTACAAA
Found at i:66657313 original size:87 final size:87
Alignment explanation
Indices: 66657193--66657367 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
66657183 CTGCGAGAGA
66657193 TGTAAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCA
1 TGTAAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCA
66657258 AGAATGAGCATCTCATGTACCT
66 AGAATGAGCATCTCATGTACCT
*
66657280 TGTAAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTTCCTTCA
1 TGTAAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCA
*
66657345 AGAATGGGCATCTCATGTACCT
66 AGAATGAGCATCTCATGTACCT
66657367 T
1 T
66657368 TTCCTTTGAT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (87 bp):
TGTAAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCA
AGAATGAGCATCTCATGTACCT
Found at i:66659107 original size:23 final size:23
Alignment explanation
Indices: 66659076--66659123 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
66659066 TCAATTTTAA
*
66659076 TTTTTTTTTTTT-TTA-ACATTT
1 TTTTTTTTTTTTCTTATAAATTT
66659097 TTTTTTATTTTTTCTTATAAATTT
1 TTTTTT-TTTTTTCTTATAAATTT
66659121 TTT
1 TTT
66659124 GTGCTGGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 6 0.26
23 3 0.13
24 8 0.35
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTTTTTTTTCTTATAAATTT
Found at i:66659231 original size:14 final size:14
Alignment explanation
Indices: 66659212--66659246 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
66659202 TAAATATTAA
66659212 ATTTTTAAGTTTTTT
1 ATTTTTAA-TTTTTT
*
66659227 ATTTTTTATTTTTT
1 ATTTTTAATTTTTT
66659241 ATTTTT
1 ATTTTT
66659247 CTTTTGAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (14 bp):
ATTTTTAATTTTTT
Found at i:66659238 original size:6 final size:7
Alignment explanation
Indices: 66659221--66659246 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
66659211 AATTTTTAAG
66659221 TTTTTTA
1 TTTTTTA
66659228 TTTTTTA
1 TTTTTTA
66659235 TTTTTTA
1 TTTTTTA
66659242 TTTTT
1 TTTTT
66659247 CTTTTGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:66660014 original size:7 final size:7
Alignment explanation
Indices: 66660002--66660058 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
66659992 ACTAACTAAT
66660002 CTAAACC
1 CTAAACC
66660009 CTAAACTC
1 CTAAAC-C
* **
66660017 TTACTCC
1 CTAAACC
66660024 CTAAACC
1 CTAAACC
*
66660031 TTAAACC
1 CTAAACC
*
66660038 CTAAAAC
1 CTAAACC
*
66660045 ATAAACC
1 CTAAACC
66660052 CTAAACC
1 CTAAACC
66660059 ATGAACCCAT
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
7 33 0.89
8 4 0.11
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:66660044 original size:15 final size:14
Alignment explanation
Indices: 66660003--66660058 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
66659993 CTAACTAATC
66660003 TAAACCCTAAACTCT
1 TAAACCCTAAAC-CT
**
66660018 TACTCCCTAAACCT
1 TAAACCCTAAACCT
* *
66660032 TAAACCCTAAAACA
1 TAAACCCTAAACCT
66660046 TAAACCCTAAACC
1 TAAACCCTAAACC
66660059 ATGAACCCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
14 24 0.71
15 10 0.29
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:66660065 original size:14 final size:14
Alignment explanation
Indices: 66660003--66660066 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
66659993 CTAACTAATC
*
66660003 TAAACCCTAAACTCT
1 TAAACCCTAAAC-CA
** *
66660018 TACTCCCTAAACCT
1 TAAACCCTAAACCA
*
66660032 TAAACCCTAAAACA
1 TAAACCCTAAACCA
66660046 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
66660060 TGAACCC
1 TAAACCC
66660067 ATCACCCTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
14 31 0.76
15 10 0.24
ACGTcount: A:0.42, C:0.36, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:66660152 original size:15 final size:15
Alignment explanation
Indices: 66660128--66660162 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
66660118 AAACCACATT
*
66660128 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
66660142 TAAACCCATAATCCA
1 TAAACCCATAATCCA
66660157 TAAACC
1 TAAACC
66660163 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:66660167 original size:22 final size:24
Alignment explanation
Indices: 66660114--66660167 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
66660104 AAAACCCGAC
*
66660114 CCTTAAACCACATTTAAACCATAAT
1 CCTTAAACCACA-TTAAACCATAAA
* *
66660139 CCCTAAACC-CA-TAATCCATAAA
1 CCTTAAACCACATTAAACCATAAA
66660161 CCTTAAA
1 CCTTAAA
66660168 ATAGTAACTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 15 0.60
24 2 0.08
25 8 0.32
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.24
Consensus pattern (24 bp):
CCTTAAACCACATTAAACCATAAA
Found at i:66660440 original size:51 final size:51
Alignment explanation
Indices: 66660379--66660548 Score: 167
Period size: 51 Copynumber: 3.5 Consensus size: 51
66660369 TTTTGTGGCT
66660379 TTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCG
1 TTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCG
* * * * * * * *
66660430 TTTTTCAAAAAGCGCCTCTAAAGGTGTAC-TTATAG--C-GGC----GTGGCT
1 TTTTTTAAAAAGCGCCGCTAAA-GCG-ACACTAAAGATCAAGCATTAGCGGCG
* *
66660475 TTTTTTTAAAAGCGCCGCGAAAGCGACACTAAAGATCAAGCATTAGCGGCG
1 TTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCG
*
66660526 TTTTTTAAAAAGCGCCTCTAAAG
1 TTTTTTAAAAAGCGCCGCTAAAG
66660549 GTGTACTTAT
Statistics
Matches: 88, Mismatches: 21, Indels: 20
0.68 0.16 0.16
Matches are distributed among these distances:
43 2 0.02
44 6 0.07
45 22 0.25
46 1 0.01
47 2 0.02
49 2 0.02
50 1 0.01
51 44 0.50
52 6 0.07
53 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (51 bp):
TTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCG
Found at i:66660537 original size:96 final size:96
Alignment explanation
Indices: 66660373--66660562 Score: 353
Period size: 96 Copynumber: 2.0 Consensus size: 96
66660363 TTCATTTTTT
*
66660373 GTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCGTTTTTCAA
1 GTGGCTTTTTTTAAAAAGCGCCGCGAAAGCGACACTAAAGATCAAGCATTAGCGGCGTTTTTCAA
66660438 AAAGCGCCTCTAAAGGTGTACTTATAGCGGC
66 AAAGCGCCTCTAAAGGTGTACTTATAGCGGC
* *
66660469 GTGGCTTTTTTTTAAAAGCGCCGCGAAAGCGACACTAAAGATCAAGCATTAGCGGCGTTTTTTAA
1 GTGGCTTTTTTTAAAAAGCGCCGCGAAAGCGACACTAAAGATCAAGCATTAGCGGCGTTTTTCAA
66660534 AAAGCGCCTCTAAAGGTGTACTTATAGCG
66 AAAGCGCCTCTAAAGGTGTACTTATAGCG
66660563 ACGTTTTTTT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (96 bp):
GTGGCTTTTTTTAAAAAGCGCCGCGAAAGCGACACTAAAGATCAAGCATTAGCGGCGTTTTTCAA
AAAGCGCCTCTAAAGGTGTACTTATAGCGGC
Found at i:66660890 original size:40 final size:40
Alignment explanation
Indices: 66660817--66660969 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 40
66660807 TTTGCAATAT
* * *
66660817 TCTTTTGCGGCGTTTTTTGAAAAA-CGTCACTAAAGATCAA
1 TCTTTAGCGGCGTTTTTT-AAAAAGCGCCGCTAAAGATCAA
* * **
66660857 TCATTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTGTA
1 TCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGATCAA
* * *
66660897 T-TTATAGCGGCGTTTCTTAAAAAAGCACCGCTAATA-CTCAA
1 TCTT-TAGCGGCGTTT-TTTAAAAAGCGCCGCTAA-AGATCAA
* * *
66660938 TCTTTAGCGGC-ATTTTTGAAAAGCGCCTCTAA
1 TCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAA
66660970 TACTCATTCT
Statistics
Matches: 90, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
39 20 0.22
40 41 0.46
41 26 0.29
42 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (40 bp):
TCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGATCAA
Found at i:66660946 original size:41 final size:39
Alignment explanation
Indices: 66660853--66660993 Score: 124
Period size: 39 Copynumber: 3.5 Consensus size: 39
66660843 TCACTAAAGA
* *
66660853 TCAATCATTAGCGGCGTTTTTTAAAAAGCGCCGCTAA-AGG
1 TCAATCTTTAGCGGCG-TTTTTAAAAAGCGCCGCTAATA-C
** *
66660893 TGTAT-TTATAGCGGCGTTTCTTAAAAAAGCACCGCTAATAC
1 TCAATCTT-TAGCGGCGTTT-TT-AAAAAGCGCCGCTAATAC
* * *
66660934 TCAATCTTTAGCGGCATTTTTGAAAAGCGCCTCTAATAC
1 TCAATCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATAC
* * *
66660973 TCATTCTTTAGTGGTGTTTTT
1 TCAATCTTTAGCGGCGTTTTT
66660994 CATTCAAACG
Statistics
Matches: 81, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
39 36 0.44
40 15 0.19
41 27 0.33
42 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (39 bp):
TCAATCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATAC
Found at i:66667114 original size:8 final size:8
Alignment explanation
Indices: 66667101--66667134 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
66667091 ATATTCTTTT
66667101 CTTATTTG
1 CTTATTTG
66667109 CTTATTTG
1 CTTATTTG
66667117 CTTATTTG
1 CTTATTTG
66667125 CTTATTTG
1 CTTATTTG
66667133 CT
1 CT
66667135 AGTATCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.62
Consensus pattern (8 bp):
CTTATTTG
Found at i:66670001 original size:21 final size:21
Alignment explanation
Indices: 66669975--66670056 Score: 103
Period size: 21 Copynumber: 3.8 Consensus size: 21
66669965 CACCATTGTT
*
66669975 TTCAATCTCACTGCTACAGTA
1 TTCAATCTCACCGCTACAGTA
66669996 TTCAATCTCACCGCTACCATTGT-
1 TTCAATCTCACCGCTA-CA--GTA
*
66670019 TTCCAATCTCACTGCTACAGTA
1 TT-CAATCTCACCGCTACAGTA
66670041 TTCAATCTCACCGCTA
1 TTCAATCTCACCGCTA
66670057 TGGATGATCT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
21 30 0.57
22 4 0.08
23 4 0.08
24 15 0.28
ACGTcount: A:0.26, C:0.33, G:0.09, T:0.33
Consensus pattern (21 bp):
TTCAATCTCACCGCTACAGTA
Found at i:66670030 original size:45 final size:45
Alignment explanation
Indices: 66669966--66670056 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
66669956 CACACACCCC
*
66669966 ACCATTGTTTTCAATCTCACTGCTACAGTATTCAATCTCACCGCT
1 ACCATTGTTTCCAATCTCACTGCTACAGTATTCAATCTCACCGCT
66670011 ACCATTGTTTCCAATCTCACTGCTACAGTATTCAATCTCACCGCT
1 ACCATTGTTTCCAATCTCACTGCTACAGTATTCAATCTCACCGCT
66670056 A
1 A
66670057 TGGATGATCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (45 bp):
ACCATTGTTTCCAATCTCACTGCTACAGTATTCAATCTCACCGCT
Done.