Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 254 of 427
Found at i:72613730 original size:34 final size:36
Alignment explanation
Indices: 72613692--72613758 Score: 120
Period size: 34 Copynumber: 1.9 Consensus size: 36
72613682 TTACATCTCA
72613692 CGAACTCGGACTCAACTCAAC-AGTTC-GACATCAT
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATCAT
72613726 CGAACTCGGACTCAACTCAACGAGTTCGGACAT
1 CGAACTCGGACTCAACTCAACGAGTTCGGACAT
72613759 TCGCATCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 21 0.68
35 5 0.16
36 5 0.16
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.19
Consensus pattern (36 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATCAT
Found at i:72613820 original size:46 final size:45
Alignment explanation
Indices: 72613727--72613812 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
72613717 CGACATCATC
* *
72613727 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
72613773 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
72613813 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:72620909 original size:17 final size:18
Alignment explanation
Indices: 72620878--72620912 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
72620868 TGAACGTGAA
*
72620878 TTTGGAAAAGGGAAAAAT
1 TTTGGAAAAGAGAAAAAT
72620896 TTTGGAAAA-AGAAAAAT
1 TTTGGAAAAGAGAAAAAT
72620913 AAAATTGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (18 bp):
TTTGGAAAAGAGAAAAAT
Found at i:72623251 original size:31 final size:29
Alignment explanation
Indices: 72623216--72623326 Score: 87
Period size: 31 Copynumber: 3.7 Consensus size: 29
72623206 ATCTCAAAAT
* *
72623216 TATACACGAACTTTGATTTAATGTGCAATTG
1 TATACACGAACTTTAATTT--GGTGCAATTG
*
72623247 TATACATGAACTTTAATTTGGTGCAATTG
1 TATACACGAACTTTAATTTGGTGCAATTG
* ** * *
72623276 TACACGTGAAACTTTAATTGTGGTTCAAATG
1 TATACACG-AACTTTAATT-TGGTGCAATTG
**
72623307 TATACTTGAAACTTTAATTT
1 TATACACG-AACTTTAATTT
72623327 TGATTTAATC
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
29 15 0.22
30 11 0.16
31 43 0.62
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (29 bp):
TATACACGAACTTTAATTTGGTGCAATTG
Found at i:72623271 original size:29 final size:30
Alignment explanation
Indices: 72623238--72623326 Score: 117
Period size: 31 Copynumber: 3.0 Consensus size: 30
72623228 TTGATTTAAT
72623238 GTGCAATTGTATACATG-AACTTTAATTTG
1 GTGCAATTGTATACATGAAACTTTAATTTG
* *
72623267 GTGCAATTGTACACGTGAAACTTTAATTGTG
1 GTGCAATTGTATACATGAAACTTTAATT-TG
* * *
72623298 GTTCAAATGTATACTTGAAACTTTAATTT
1 GTGCAATTGTATACATGAAACTTTAATTT
72623327 TGATTTAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
29 15 0.29
30 11 0.21
31 26 0.50
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (30 bp):
GTGCAATTGTATACATGAAACTTTAATTTG
Found at i:72630776 original size:18 final size:18
Alignment explanation
Indices: 72630753--72630795 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
72630743 GGCCTAGAAT
72630753 CCCACACGG-CCGTGTGGG
1 CCCACACGGCCCGTGT-GG
*
72630771 CCCACA-GGCCCGTGTTG
1 CCCACACGGCCCGTGTGG
72630788 CCCACACG
1 CCCACACG
72630796 ACCTAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.14, C:0.44, G:0.30, T:0.12
Consensus pattern (18 bp):
CCCACACGGCCCGTGTGG
Found at i:72643332 original size:39 final size:39
Alignment explanation
Indices: 72643219--72643334 Score: 178
Period size: 39 Copynumber: 3.0 Consensus size: 39
72643209 CCGAAAATAT
* * * *
72643219 TTCCAGCACGTAGCTTGCGGACCTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
72643258 TTCTAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
72643297 TTCCAGCACATAGCCTGCGGACCCTAAGTCTGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
72643335 CATCACTGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:72648260 original size:48 final size:48
Alignment explanation
Indices: 72648195--72648737 Score: 818
Period size: 48 Copynumber: 11.1 Consensus size: 48
72648185 GCTGAAATTG
*
72648195 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
72648243 ATGTATGCGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
72648291 ATGTATGGGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
72648339 ATGTATGGGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
72648387 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGATAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
72648435 ATGTATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGCGAAATATATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG----A-A-AT
* ** *
72648489 ATATATGAGATATGTATATGTGGTAAAGATGAATGGTTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
*
72648539 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
72648587 ATGTATGAGATATGCATATGTGGCAAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* * *
72648637 ATATATGAGATATGTATATGTGCTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
72648685 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
72648733 ATGTA
1 ATGTA
72648738 GGCGATGTTT
Statistics
Matches: 457, Mismatches: 28, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.00
48 322 0.70
49 6 0.01
50 84 0.18
51 2 0.00
52 1 0.00
53 1 0.00
54 40 0.09
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:72648992 original size:37 final size:37
Alignment explanation
Indices: 72648884--72648992 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
72648874 GGAAATATAT
*
72648884 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
72648921 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
72648958 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
72648993 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:72650303 original size:40 final size:40
Alignment explanation
Indices: 72650248--72650689 Score: 542
Period size: 40 Copynumber: 11.1 Consensus size: 40
72650238 CGAGAGTTAT
72650248 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
72650288 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
72650328 ATATGTCCAGGCTAAGTCCCGAAAAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
72650368 ATGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * * * * *
72650408 TTATATCTGGGCTAAGTCTCAAAGAGCATTTGTACTAGAG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
72650448 TTATATCAGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
72650488 TTATATCCAGGCTAAGTCCCAAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * * *
72650528 ATGTATCCGGGCTAAGTCCCAAAGAGCATTTGTACTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * * *
72650568 TTATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * *
72650608 TTATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * * *
72650648 TTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
72650688 AT
1 AT
72650690 GTGTATTCGG
Statistics
Matches: 349, Mismatches: 53, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 349 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:72650520 original size:160 final size:160
Alignment explanation
Indices: 72650249--72650691 Score: 690
Period size: 160 Copynumber: 2.8 Consensus size: 160
72650239 GAGAGTTATA
* * * * * *
72650249 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAG
1 TATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGTTATATCAGGGCTAAGTCCCGAAGAG
* * *
72650314 CATTCGTGCTAGTGATATGTCCAGGCTAAGTCCCGAAA-AGCATTCGTGCTAGTGATGTATCCGG
66 CATTCGTGCTGGTGTTATATCCAGGCTAAGTCCC-AAAGAGCATTCGTGCTAGTGATGTATCCGG
* *
72650378 GCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
130 GCTAAGTCCCAAAGAGCATTTGTACTGGTGT
* *
72650409 TATATCTGGGCTAAGTCTCAAAGAGCATTTGTACTAGAGTTATATCAGGGCTAAGTCCCGAAGAG
1 TATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGTTATATCAGGGCTAAGTCCCGAAGAG
72650474 CATTCGTGCTGGTGTTATATCCAGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATGTATCCGGG
66 CATTCGTGCTGGTGTTATATCCAGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATGTATCCGGG
72650539 CTAAGTCCCAAAGAGCATTTGTACTGGTGT
131 CTAAGTCCCAAAGAGCATTTGTACTGGTGT
*
72650569 TATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGTTATATCAGGGTTAAGTCCCGAAGAG
1 TATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGTTATATCAGGGCTAAGTCCCGAAGAG
* * * * * *
72650634 CATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGATGT
66 CATTCGTGCTGGTGTTATATCCAGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATGT
72650692 GTATTCGGGC
Statistics
Matches: 260, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
159 3 0.01
160 257 0.99
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (160 bp):
TATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGTTATATCAGGGCTAAGTCCCGAAGAG
CATTCGTGCTGGTGTTATATCCAGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATGTATCCGGG
CTAAGTCCCAAAGAGCATTTGTACTGGTGT
Found at i:72650901 original size:25 final size:25
Alignment explanation
Indices: 72650851--72650901 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
72650841 TGTGTAACAA
* *
72650851 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
72650876 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
72650901 C
1 C
72650902 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:72653780 original size:48 final size:48
Alignment explanation
Indices: 72653715--72654351 Score: 1012
Period size: 48 Copynumber: 13.1 Consensus size: 48
72653705 GCTGAAATTG
*
72653715 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
72653763 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
72653811 ATGTATG-GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
72653858 ATGTATGGGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
72653906 ATGTATGGGATATGTATATGTGGCAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
72653954 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
72654002 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
72654050 ATGTATGAGATATGTATATGTGATAAAGCCGAATGGCTAATGCGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* * *
72654100 ATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG----A-A-AT
*
72654154 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
72654202 ATGTATGAGATATGCATATGTGG-AAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* *
72654251 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
72654299 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC-AAGTATGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA-TGTGAAAT
72654347 ATGTA
1 ATGTA
72654352 GGCGATGTGT
Statistics
Matches: 554, Mismatches: 22, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
46 1 0.00
47 66 0.12
48 352 0.64
49 28 0.05
50 59 0.11
51 1 0.00
53 1 0.00
54 46 0.08
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:72654606 original size:37 final size:37
Alignment explanation
Indices: 72654498--72654606 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
72654488 GGAAATATAT
* *
72654498 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
72654535 TCCGGGTAAGACCCGATGACTACGTATGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
72654572 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
72654607 CATCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:72658437 original size:28 final size:29
Alignment explanation
Indices: 72658405--72658503 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
72658395 ATAATAAGCC
*
72658405 CGCACACTTAGTGCTTA-ATAGTTGAACT
1 CGCACACTTAGTGCTTACATAATTGAACT
* **
72658433 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATTGAACT
* * *
72658461 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATTGAACT
72658490 CGCACACTTAGTGC
1 CGCACACTTAGTGC
72658504 CAATTTATGA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.03
28 35 0.60
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATTGAACT
Found at i:72661037 original size:79 final size:81
Alignment explanation
Indices: 72660936--72661120 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
72660926 ACGACTCGCT
** * *
72660936 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
72660999 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
72661016 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
72661080 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
72661096 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
72661121 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:72661120 original size:40 final size:39
Alignment explanation
Indices: 72660929--72661120 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
72660919 GGATATAACG
* ** * *
72660929 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
72660969 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
72661009 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
72661048 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
72661088 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
72661121 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:72669071 original size:79 final size:81
Alignment explanation
Indices: 72668970--72669154 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
72668960 ACGACTCGCT
** * *
72668970 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
72669033 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
72669050 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
72669114 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
72669130 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
72669155 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:72669154 original size:40 final size:39
Alignment explanation
Indices: 72668963--72669154 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
72668953 GGATATAACG
* ** * *
72668963 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
72669003 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
72669043 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
72669082 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
72669122 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
72669155 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:72673721 original size:79 final size:81
Alignment explanation
Indices: 72673620--72673804 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
72673610 ACGACTCGCT
** * *
72673620 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
72673683 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
72673700 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
72673764 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
72673780 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
72673805 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:72673804 original size:40 final size:39
Alignment explanation
Indices: 72673613--72673804 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
72673603 GGATATAACG
* ** * *
72673613 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
72673653 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
72673693 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
72673732 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
72673772 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
72673805 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:72682057 original size:28 final size:28
Alignment explanation
Indices: 72681987--72682084 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
72681977 TAATAAGCCC
* *
72681987 GCACACTTAGTGCT-TAATAGTCGAACTC
1 GCACACTTAGTGCTAT-ATAATCGAACTT
*
72682015 GCACACTTAGTGCTATATAATCAAACTT
1 GCACACTTAGTGCTATATAATCGAACTT
* * *
72682043 GCACACTTAGTGCTATACAATTTGAACCT
1 GCACACTTAGTGCTATATAA-TCGAACTT
72682072 GCACACTTAGTGC
1 GCACACTTAGTGC
72682085 CAATTTATGA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 42 0.69
29 19 0.31
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCGAACTT
Found at i:72683889 original size:89 final size:89
Alignment explanation
Indices: 72683779--72683964 Score: 311
Period size: 89 Copynumber: 2.1 Consensus size: 89
72683769 ACGAACTTAC
* * *
72683779 CTCAACAACTAGGGTTGTAGTAGTAGAGTCGAACTAATTCGAAGCTTTAGCTTTTCCTTGATTTA
1 CTCAATAACTAGGATTGTAGTAGTAGAGTCGAACTAATTCGAAGCTTCAGCTTTTCCTTGATTTA
72683844 AG-TCTAATTGTGGTTTATCTTGAT
66 AGTTC-AATTGTGGTTTATCTTGAT
*
72683868 CTCAATAACTAGGATTGTAGTAGTAGAGTTGAACTAATTCGAAGCTTCAGCTTTTCCTTGATTTA
1 CTCAATAACTAGGATTGTAGTAGTAGAGTCGAACTAATTCGAAGCTTCAGCTTTTCCTTGATTTA
72683933 AGTTCAATTGTGGTTTATCTTGAT
66 AGTTCAATTGTGGTTTATCTTGAT
*
72683957 CTAAATAA
1 CTCAATAA
72683965 ATAATTTGAT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 89 0.98
90 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (89 bp):
CTCAATAACTAGGATTGTAGTAGTAGAGTCGAACTAATTCGAAGCTTCAGCTTTTCCTTGATTTA
AGTTCAATTGTGGTTTATCTTGAT
Found at i:72688112 original size:16 final size:16
Alignment explanation
Indices: 72688091--72688122 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
72688081 TTAAAGCTAG
*
72688091 ATTTTTTTTCCTTTGT
1 ATTTTTGTTCCTTTGT
72688107 ATTTTTGTTCCTTTGT
1 ATTTTTGTTCCTTTGT
72688123 TCCTCCCTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.72
Consensus pattern (16 bp):
ATTTTTGTTCCTTTGT
Found at i:72694963 original size:46 final size:46
Alignment explanation
Indices: 72694795--72694970 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 46
72694785 TGTAACCCGC
* * * * * *
72694795 CCATAAGCGAACTTAGACTCAAATCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
72694841 CCATGAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
72694891 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
72694934 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA
72694971 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:72694989 original size:46 final size:46
Alignment explanation
Indices: 72694846--72694989 Score: 113
Period size: 46 Copynumber: 3.1 Consensus size: 46
72694836 CGCATCCATG
* * *
72694846 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-TTC-
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATATCCT
* * *
72694894 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC----ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATATCC-T
72694938 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
72694985 AGTGA
1 AGTGA
72694990 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
42 2 0.03
44 4 0.05
45 1 0.01
46 33 0.43
47 28 0.37
48 5 0.07
49 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
Found at i:72698430 original size:8 final size:7
Alignment explanation
Indices: 72698410--72698451 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
72698400 GATGACATAG
72698410 AATTTTT
1 AATTTTT
72698417 AATTTTT
1 AATTTTT
72698424 AATTTTT
1 AATTTTT
*
72698431 ATTTTTT
1 AATTTTT
* *
72698438 CATTGTT
1 AATTTTT
72698445 -ATTTTT
1 AATTTTT
72698451 A
1 A
72698452 TTAAATTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (7 bp):
AATTTTT
Found at i:72701906 original size:40 final size:40
Alignment explanation
Indices: 72701861--72702028 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
72701851 CGGAATATAA
72701861 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
72701901 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
72701941 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
72701981 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
72702021 CCGGATAT
1 CCGGATAT
72702029 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:72702011 original size:80 final size:80
Alignment explanation
Indices: 72701877--72702026 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
72701867 ATAATCACGT
*
72701877 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
72701941 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
72701957 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
72702020 CCCGGAT
64 CCCGGAT
72702027 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:72709908 original size:40 final size:40
Alignment explanation
Indices: 72709863--72710029 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
72709853 CGGAATATAA
72709863 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * *
72709903 CCGGATA-AATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
72709942 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
72709982 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
72710022 CCGGATAT
1 CCGGATAT
72710030 CATTCAATTT
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.33
40 66 0.65
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:72718501 original size:21 final size:21
Alignment explanation
Indices: 72718475--72718516 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
72718465 TTTGACCAAG
72718475 TTAACTTATAGATGCCATTAT
1 TTAACTTATAGATGCCATTAT
72718496 TTAACTTATAGATGCCATTAT
1 TTAACTTATAGATGCCATTAT
72718517 ACCAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (21 bp):
TTAACTTATAGATGCCATTAT
Found at i:72725708 original size:47 final size:49
Alignment explanation
Indices: 72725491--72725793 Score: 456
Period size: 49 Copynumber: 6.3 Consensus size: 49
72725481 GTATGAGATA
72725491 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
72725540 TATATTTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
72725589 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
72725638 TATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTG-AAG-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
72725685 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * * *
72725732 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
72725779 TATAAATGTGATAAG
1 TATATATGTGATAAG
72725794 TCCCGAAGGG
Statistics
Matches: 240, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 99 0.41
48 5 0.02
49 136 0.57
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:72731132 original size:47 final size:47
Alignment explanation
Indices: 72731078--72731207 Score: 170
Period size: 47 Copynumber: 2.8 Consensus size: 47
72731068 GTGCAAATAA
* * * ** *
72731078 TACCTTGATTTGGCTATGGGTCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
* *
72731125 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
* *
72731172 TACCTTGGTTGGGCTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
72731208 TATCAGTTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
Found at i:72733141 original size:17 final size:17
Alignment explanation
Indices: 72733121--72733155 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
72733111 TCTCTCTCTA
*
72733121 TTTTGCTACAGTCTCAG
1 TTTTACTACAGTCTCAG
*
72733138 TTTTACTACAGTTTCAG
1 TTTTACTACAGTCTCAG
72733155 T
1 T
72733156 ATACACTGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (17 bp):
TTTTACTACAGTCTCAG
Found at i:72737662 original size:50 final size:50
Alignment explanation
Indices: 72737591--72737692 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
72737581 CCACACTCAA
72737591 TTCAAGCATAAAAATAAATACAATTTAGTTATACGAACTTACCTCGACAC
1 TTCAAGCATAAAAATAAATACAATTTAGTTATACGAACTTACCTCGACAC
72737641 TTCAAGCATAAAAATAAATACAATTTAGTTATACGAACTTACCTCGACAC
1 TTCAAGCATAAAAATAAATACAATTTAGTTATACGAACTTACCTCGACAC
72737691 TT
1 TT
72737693 GTTTGTATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (50 bp):
TTCAAGCATAAAAATAAATACAATTTAGTTATACGAACTTACCTCGACAC
Found at i:72739743 original size:14 final size:14
Alignment explanation
Indices: 72739709--72739750 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
72739699 ACATATTCTT
72739709 ATAAAAAAAT-ATA
1 ATAAAAAAATGATA
**
72739722 ATCCAAAAATGATA
1 ATAAAAAAATGATA
*
72739736 ATAAAAAAAAGATA
1 ATAAAAAAATGATA
72739750 A
1 A
72739751 ACCAATGCCC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (14 bp):
ATAAAAAAATGATA
Found at i:72751222 original size:24 final size:24
Alignment explanation
Indices: 72751190--72751266 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
72751180 ATAAACAGTG
*
72751190 CAGTAACAGAAATCAGTGTAGTAA
1 CAGTAACAGAAATCAGTGCAGTAA
*
72751214 CAGTAACAGTAATCAGTGCAGTAA
1 CAGTAACAGAAATCAGTGCAGTAA
* * * *
72751238 TAGTAACGGTAATCAATGCAGTAA
1 CAGTAACAGAAATCAGTGCAGTAA
*
72751262 TAGTA
1 CAGTA
72751267 TACAAGTCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (24 bp):
CAGTAACAGAAATCAGTGCAGTAA
Found at i:72751237 original size:18 final size:17
Alignment explanation
Indices: 72751170--72751223 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
72751160 CTTGGCCTAT
*
72751170 TGCAGTAACAATAAACAG
1 TGCAGTAACAGT-AACAG
*
72751188 TGCAGTAACAGAAATCAG
1 TGCAGTAACAGTAA-CAG
*
72751206 TGTAGTAACAGTAACAG
1 TGCAGTAACAGTAACAG
72751223 T
1 T
72751224 AATCAGTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 6 0.19
18 25 0.81
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.20
Consensus pattern (17 bp):
TGCAGTAACAGTAACAG
Found at i:72751625 original size:27 final size:27
Alignment explanation
Indices: 72751580--72751793 Score: 241
Period size: 27 Copynumber: 8.0 Consensus size: 27
72751570 ATATATACAT
*
72751580 CACAT-AGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
** * *
72751606 CATGTAGGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * * *
72751633 TACATAAAGGTAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
72751660 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* **
72751687 AACATAAAAGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
72751714 CATATAAGGGCAAGACAGTCATATTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
72751741 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
72751768 CACATAAGGGAAAAATAGTAATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
72751794 TCAATTAGCG
Statistics
Matches: 153, Mismatches: 34, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
26 3 0.02
27 150 0.98
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:72755343 original size:2 final size:2
Alignment explanation
Indices: 72755338--72755364 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
72755328 ACACACACAC
72755338 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 A
72755365 AATACATCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72755423 original size:27 final size:27
Alignment explanation
Indices: 72755372--72755585 Score: 250
Period size: 27 Copynumber: 8.0 Consensus size: 27
72755362 ATAAATACAT
* *
72755372 CACAT-AGGGCAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
** **
72755398 CATGTAAGGGCAAAACAGTCAACTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * ** *
72755425 CACATGAGGGAAAAATAAACATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
*
72755452 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
72755479 CACATAATGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
72755506 CATATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
72755533 CACATAAGAGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
72755560 CACATAAGGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
72755586 TCAATTAGGG
Statistics
Matches: 158, Mismatches: 29, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 3 0.02
27 155 0.98
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:72755529 original size:81 final size:81
Alignment explanation
Indices: 72755370--72755585 Score: 281
Period size: 81 Copynumber: 2.7 Consensus size: 81
72755360 ATATAAATAC
* * ** * ** *
72755370 ATCACAT-AGGGCAAAACAATCATCTTACCATGTAAGGGCAAAACAGTCAACTTACCACATGAGG
1 ATCACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTACCACATAAGG
*
72755434 GAAAAATAAACATTTT
66 GAAAAACAAACATTTT
* * *
72755450 ATCACATAAGGGCAAAATAGTCATTTTACCACATAATGGCAAAATAGTCATTTTACCATATAAGG
1 ATCACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTACCACATAAGG
* *
72755515 GCAAAACAATCATTTT
66 GAAAAACAAACATTTT
* *
72755531 ACCACATAAGAGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTA
1 ATCACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTA
72755586 TCAATTAGGG
Statistics
Matches: 117, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 7 0.06
81 110 0.94
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (81 bp):
ATCACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTACCACATAAGG
GAAAAACAAACATTTT
Found at i:72763657 original size:2 final size:2
Alignment explanation
Indices: 72763650--72763675 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
72763640 TTAACATGGG
72763650 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
72763676 GTGTGTGAAT
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:72765426 original size:3 final size:3
Alignment explanation
Indices: 72765413--72765444 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
72765403 TTTGTGTAGA
72765413 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
72765445 GAAGGAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:72776523 original size:53 final size:53
Alignment explanation
Indices: 72776338--72776544 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 53
72776328 ATTAGGGTTT
* * * * *
72776338 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * ** * *
72776392 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTATTAAAATACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
72776447 AAAGATCCCATGTAAAACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
72776500 AAGGATACCACGTAAGACTATGCCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
72776545 TAAAAATGAA
Statistics
Matches: 120, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 45 0.38
54 37 0.31
55 38 0.32
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:72781391 original size:21 final size:21
Alignment explanation
Indices: 72781365--72781407 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
72781355 AGGATATGCG
72781365 GTAAGTGACAAAGAATGGAAT
1 GTAAGTGACAAAGAATGGAAT
*
72781386 GTAAGTGACAAAGTATGGAAT
1 GTAAGTGACAAAGAATGGAAT
72781407 G
1 G
72781408 GGACAAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.30, T:0.21
Consensus pattern (21 bp):
GTAAGTGACAAAGAATGGAAT
Found at i:72789881 original size:29 final size:29
Alignment explanation
Indices: 72789847--72789949 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
72789837 TAATCAGCCG
** *
72789847 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
72789876 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
72789905 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
72789934 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
72789950 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:72797887 original size:28 final size:28
Alignment explanation
Indices: 72797818--72797918 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
72797808 GACAAGATTG
* * * *
72797818 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
72797848 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
72797876 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
72797905 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
72797919 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:72800980 original size:29 final size:29
Alignment explanation
Indices: 72800946--72801048 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
72800936 TAATCAGCCG
** *
72800946 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
72800975 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
72801004 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
72801033 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
72801049 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:72808481 original size:52 final size:53
Alignment explanation
Indices: 72808362--72808500 Score: 147
Period size: 52 Copynumber: 2.6 Consensus size: 53
72808352 GAAATCATGT
* * * * * * *
72808362 AAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAAGATCCCATAT
1 AAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAAGATACCATAG
* *
72808417 AAGACCATGCCAAGGA-ATGGCAATGGTCAGTTCATAAGGCAAAGATACCA-CG
1 AAGACCATGCCAA-GACATGGCAATGGTAAGTTCATAAGGCAAAGATACCATAG
*
72808469 AAGACCATGCCAAGACATGGTAATGGTAAGTT
1 AAGACCATGCCAAGACATGGCAATGGTAAGTT
72808501 TAAAAAGGAA
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
51 2 0.03
52 27 0.38
53 16 0.23
54 3 0.04
55 21 0.30
56 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (53 bp):
AAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAAGATACCATAG
Found at i:72816624 original size:26 final size:26
Alignment explanation
Indices: 72816555--72816628 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
72816545 TTTTGATCCA
*
72816555 AATTTTA-CTCTAATAAAATTTTGAC
1 AATTTTACCCCTAATAAAATTTTGAC
** *
72816580 AATTTTATCCCCTGTTAAAATTTTGAT
1 AATTTTA-CCCCTAATAAAATTTTGAC
*
72816607 GATTTTACCCCTAATAAAATTT
1 AATTTTACCCCTAATAAAATTT
72816629 GGAGAAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
25 7 0.17
26 13 0.32
27 20 0.50
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (26 bp):
AATTTTACCCCTAATAAAATTTTGAC
Found at i:72822867 original size:46 final size:45
Alignment explanation
Indices: 72822800--72822974 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
72822790 TGTAACCCGC
* *
72822800 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGCGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG-GCATTCGTAT
* * *
72822846 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCATTCGTA--T
* * *
72822892 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGTAT
*
72822939 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
72822975 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
44 4 0.04
45 3 0.03
46 64 0.59
47 31 0.29
48 2 0.02
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCATTCGTAT
Found at i:72822919 original size:93 final size:93
Alignment explanation
Indices: 72822807--72822978 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
72822797 CGCCCATAAG
* *
72822807 CGAACTCGGACTCAACTCAACGAGCTCGCG-CGTTCGTATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTC
72822871 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
*
72822900 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
72822965 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
72822979 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:72824713 original size:29 final size:29
Alignment explanation
Indices: 72824681--72824757 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
72824671 GCTGGAAATA
*
72824681 TATGGCACTAAGTGTGCGAGCTCAAAGGG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
* * * *
72824710 TATGGCACTATGTGTGCGGGCTTAAATCG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
* *
72824739 CATGGCACTGAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
72824758 AATCGAGTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAGCTCAAAGCG
Found at i:72824793 original size:2 final size:2
Alignment explanation
Indices: 72824788--72824824 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
72824778 GTGTTCGTAC
72824788 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72824825 CTCCGATCGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:72832686 original size:29 final size:29
Alignment explanation
Indices: 72832592--72832664 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
72832582 GTGACGAGAT
72832592 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
72832621 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
72832650 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
72832665 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:72832760 original size:2 final size:2
Alignment explanation
Indices: 72832755--72832785 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
72832745 GTGTGCGTAC
72832755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72832786 CTCCGATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72838176 original size:26 final size:26
Alignment explanation
Indices: 72838145--72838226 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
72838135 TGAAATGCCC
72838145 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
72838171 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
72838197 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
72838223 ATCA
1 ATCA
72838227 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:72845218 original size:26 final size:26
Alignment explanation
Indices: 72845185--72845266 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
72845175 TGAAATGCCC
72845185 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
72845211 ATCGTGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
72845237 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
72845263 ATCA
1 ATCA
72845267 ATTTGTACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:72855931 original size:27 final size:27
Alignment explanation
Indices: 72855893--72855954 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
72855883 CTAGGATCTT
** *
72855893 CATGTTTAGTGTCCTTACGGGCTATCC
1 CATGTTTAGTGTCCCAACGGACTATCC
*
72855920 CATGTTTAGTGTCCCAATGGACTATCC
1 CATGTTTAGTGTCCCAACGGACTATCC
72855947 CATGTTTA
1 CATGTTTA
72855955 ATATTTTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (27 bp):
CATGTTTAGTGTCCCAACGGACTATCC
Found at i:72855990 original size:27 final size:27
Alignment explanation
Indices: 72855939--72855990 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
72855929 TGTCCCAATG
*
72855939 GACTATCCCATGTTTAATATTTTGTTA
1 GACTATCCCATGTTTAATATCTTGTTA
* * *
72855966 GACTATCTCATGTTTGATGTCTTGT
1 GACTATCCCATGTTTAATATCTTGT
72855991 CAGTCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.48
Consensus pattern (27 bp):
GACTATCCCATGTTTAATATCTTGTTA
Found at i:72855998 original size:27 final size:27
Alignment explanation
Indices: 72855939--72855998 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
72855929 TGTCCCAATG
* *
72855939 GACTATCCCATGTTTAATATTTTGTTA
1 GACTATCCCATGTTTAATATCTTGTCA
* * *
72855966 GACTATCTCATGTTTGATGTCTTGTCA
1 GACTATCCCATGTTTAATATCTTGTCA
*
72855993 GTCTAT
1 GACTAT
72855999 TTATGATGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.47
Consensus pattern (27 bp):
GACTATCCCATGTTTAATATCTTGTCA
Found at i:72857839 original size:20 final size:20
Alignment explanation
Indices: 72857814--72857859 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
72857804 ACGAGCTTCT
*
72857814 GTTAACTCATATGAGTTTTA
1 GTTAACTCATATGAGTTTCA
72857834 GTTAACTCATATGAGTTTCA
1 GTTAACTCATATGAGTTTCA
72857854 GTTAAC
1 GTTAAC
72857860 CCTTTTGGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (20 bp):
GTTAACTCATATGAGTTTCA
Found at i:72857911 original size:18 final size:18
Alignment explanation
Indices: 72857888--72857990 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
72857878 CAGCTCTGAT
72857888 GAGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
* *
72857906 GAGCTTCCGTTTAGCACTTGT
1 GAGCTTCAG-TTAGC-CTT-C
*
72857927 GTGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
* * *
72857945 -AGGCTTCCGTTTAACACTTGT
1 GA-GCTTCAG-TTAGC-CTT-C
*
72857966 GTGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
*
72857984 GGGCTTC
1 GAGCTTC
72857991 CATTTAGCAC
Statistics
Matches: 63, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
18 20 0.32
19 15 0.24
20 15 0.24
21 13 0.21
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (18 bp):
GAGCTTCAGTTAGCCTTC
Found at i:72857933 original size:21 final size:21
Alignment explanation
Indices: 72857908--72858011 Score: 87
Period size: 20 Copynumber: 5.2 Consensus size: 21
72857898 TAGCCTTCGA
72857908 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
* **
72857929 GCTTCAG-TTAGC-CTTCAG-
1 GCTTCCGTTTAGCACTTGTGT
*
72857947 GCTTCCGTTTAACACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
72857968 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
* *
72857986 GCTTCCATTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
72858007 GCTTC
1 GCTTC
72858012 AGCTAGACTT
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
18 11 0.17
19 17 0.27
20 18 0.29
21 17 0.27
ACGTcount: A:0.13, C:0.26, G:0.21, T:0.39
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:72858028 original size:39 final size:39
Alignment explanation
Indices: 72857890--72858029 Score: 210
Period size: 39 Copynumber: 3.6 Consensus size: 39
72857880 GCTCTGATGA
72857890 GCTTCAGTTAGCCTTC-GAGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCAG-GCTTCCGTTTAGCACTTGTGT
*
72857929 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGT
* * *
72857968 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGT
* *
72858007 GCTTCAGCTAGACTTCAGGCTTC
1 GCTTCAGTTAGCCTTCAGGCTTC
72858030 AAATCACGAT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 91 0.99
40 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGT
Found at i:72858721 original size:3 final size:3
Alignment explanation
Indices: 72858713--72858766 Score: 54
Period size: 3 Copynumber: 16.0 Consensus size: 3
72858703 TGAGTTTTTA
72858713 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT -AAT -AAT -AAT
72858761 AAT AAT
1 AAT AAT
72858767 TATATTACGA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 27 0.54
4 23 0.46
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:72858730 original size:12 final size:14
Alignment explanation
Indices: 72858711--72858766 Score: 73
Period size: 12 Copynumber: 4.1 Consensus size: 14
72858701 ATTGAGTTTT
72858711 TAAAT-AATAATAA
1 TAAATAAATAATAA
72858724 T-AAT-AATAATAA
1 TAAATAAATAATAA
72858736 TAAATAAATAAATAAA
1 TAAATAAAT-AAT-AA
72858752 TAAATAAATAATAA
1 TAAATAAATAATAA
72858766 T
1 T
72858767 TATATTACGA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
12 12 0.31
13 4 0.10
14 6 0.15
15 6 0.15
16 11 0.28
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAATAAATAATAA
Found at i:72858743 original size:4 final size:4
Alignment explanation
Indices: 72858734--72858762 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
72858724 TAATAATAAT
72858734 AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA A
72858763 TAATTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:72866670 original size:18 final size:18
Alignment explanation
Indices: 72866647--72866683 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
72866637 TTAGAGAGAT
72866647 AAGGTAAGTACTTCAAGA
1 AAGGTAAGTACTTCAAGA
72866665 AAGGTAAGTACTTCAAGA
1 AAGGTAAGTACTTCAAGA
72866683 A
1 A
72866684 CTTTACTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (18 bp):
AAGGTAAGTACTTCAAGA
Found at i:72867572 original size:20 final size:19
Alignment explanation
Indices: 72867547--72867590 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
72867537 AACGATACCG
*
72867547 ATACTAGGATAAAGGTATCA
1 ATACTAGAATAAAGGTAT-A
*
72867567 ATACTATAATAAAGGTATA
1 ATACTAGAATAAAGGTATA
72867586 ATACT
1 ATACT
72867591 TTAATAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.30
Consensus pattern (19 bp):
ATACTAGAATAAAGGTATA
Found at i:72867598 original size:39 final size:40
Alignment explanation
Indices: 72867555--72867633 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 40
72867545 CGATACTAGG
* * * *
72867555 ATAAAGGTATCAATACTATAATAAAGGTAT-AATACTTTA
1 ATAAAAGTATCAAAACTATAAGAAAAGTATCAATACTTTA
* *
72867594 ATAAAAGTATCAAAACTTTGAGAAAAGTATCAATACTTTA
1 ATAAAAGTATCAAAACTATAAGAAAAGTATCAATACTTTA
72867634 CTTTAAGGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 24 0.73
40 9 0.27
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (40 bp):
ATAAAAGTATCAAAACTATAAGAAAAGTATCAATACTTTA
Found at i:72867600 original size:20 final size:20
Alignment explanation
Indices: 72867555--72867633 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
72867545 CGATACTAGG
* *
72867555 ATAAAGGTATCAATACTATA
1 ATAAAAGTATCAATACTTTA
*
72867575 ATAAAGGTAT-AATACTTTA
1 ATAAAAGTATCAATACTTTA
* *
72867594 ATAAAAGTATCAAAACTTTG
1 ATAAAAGTATCAATACTTTA
*
72867614 AGAAAAGTATCAATACTTTA
1 ATAAAAGTATCAATACTTTA
72867634 CTTTAAGGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
19 17 0.33
20 34 0.67
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (20 bp):
ATAAAAGTATCAATACTTTA
Found at i:72875323 original size:44 final size:44
Alignment explanation
Indices: 72875260--72875349 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
72875250 ATGTCGATTA
72875260 TCGAGAGATTGAGCATTCCATGGGGGACTTCGTGTTCCTCAAAG
1 TCGAGAGATTGAGCATTCCATGGGGGACTTCGTGTTCCTCAAAG
72875304 TCGAGAGATTGAGCATTCCATGGGGGACTTCGTGTTCCTCAAAG
1 TCGAGAGATTGAGCATTCCATGGGGGACTTCGTGTTCCTCAAAG
72875348 TC
1 TC
72875350 TTGCCATGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (44 bp):
TCGAGAGATTGAGCATTCCATGGGGGACTTCGTGTTCCTCAAAG
Found at i:72879830 original size:9 final size:9
Alignment explanation
Indices: 72879818--72879847 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
72879808 TTTTATATTA
72879818 TTTATGAGT
1 TTTATGAGT
72879827 TTTATGAGT
1 TTTATGAGT
*
72879836 TTTATGAAT
1 TTTATGAGT
72879845 TTT
1 TTT
72879848 TATAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (9 bp):
TTTATGAGT
Found at i:72879861 original size:10 final size:10
Alignment explanation
Indices: 72879835--72879869 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
72879825 GTTTTATGAG
* *
72879835 TTTTATGAAT
1 TTTTATAAAA
72879845 TTTTATAAAA
1 TTTTATAAAA
72879855 TTTTATAAAA
1 TTTTATAAAA
72879865 TTTTA
1 TTTTA
72879870 AATACGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (10 bp):
TTTTATAAAA
Found at i:72879900 original size:10 final size:10
Alignment explanation
Indices: 72879885--72879931 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
72879875 GTTTTATTAA
72879885 TTTTATAATT
1 TTTTATAATT
72879895 TTTTATAATT
1 TTTTATAATT
* *
72879905 TATTA-GATCT
1 TTTTATAAT-T
72879915 TTTTAT-ATT
1 TTTTATAATT
72879924 TTTTATAA
1 TTTTATAA
72879932 GGTTGTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 9 0.29
10 22 0.71
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:72880005 original size:10 final size:10
Alignment explanation
Indices: 72879969--72880015 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
72879959 TTTATATCAA
72879969 TTTTAATA-T
1 TTTTAATATT
72879978 TTTT-AT-TT
1 TTTTAATATT
72879986 TTTT-A-A-T
1 TTTTAATATT
72879993 TTTTAATATT
1 TTTTAATATT
72880003 TTTTAATATT
1 TTTTAATATT
72880013 TTT
1 TTT
72880016 ATGATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
7 5 0.15
8 9 0.27
9 5 0.15
10 14 0.42
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTAATATT
Found at i:72880014 original size:9 final size:9
Alignment explanation
Indices: 72879969--72880016 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
72879959 TTTATATCAA
72879969 TTTTAATAT
1 TTTTAATAT
72879978 TTTT-AT-T
1 TTTTAATAT
*
72879985 TTTTTA-AT
1 TTTTAATAT
72879993 TTTTAATATT
1 TTTTAATA-T
72880003 TTTTAATAT
1 TTTTAATAT
72880012 TTTTA
1 TTTTA
72880017 TGATAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 5 0.15
8 9 0.26
9 11 0.32
10 9 0.26
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTAATAT
Found at i:72880452 original size:2 final size:2
Alignment explanation
Indices: 72880447--72880481 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
72880437 TAATACACAC
72880447 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 A
72880482 GCTATTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:72880609 original size:31 final size:31
Alignment explanation
Indices: 72880572--72880640 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 31
72880562 TAGATGATAC
72880572 ACTATTAC-AAAA-TATAATA-ATATTATATGTA
1 ACTATTACTAAAACTATAATACATA-TATA--TA
*
72880603 ACTATTACTAAAACTTTAATACATATATATA
1 ACTATTACTAAAACTATAATACATATATATA
72880634 ACTATTA
1 ACTATTA
72880641 TTATATTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
31 17 0.50
32 4 0.12
33 10 0.29
34 3 0.09
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.39
Consensus pattern (31 bp):
ACTATTACTAAAACTATAATACATATATATA
Found at i:72883591 original size:20 final size:20
Alignment explanation
Indices: 72883562--72883599 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
72883552 TACACACGGG
* *
72883562 TAAAGGACACGGGCGTGTCC
1 TAAAGCACACAGGCGTGTCC
72883582 TAAAGCACACAGGCGTGT
1 TAAAGCACACAGGCGTGT
72883600 GCACTACCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.24, G:0.32, T:0.16
Consensus pattern (20 bp):
TAAAGCACACAGGCGTGTCC
Found at i:72884576 original size:24 final size:24
Alignment explanation
Indices: 72884541--72884589 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
72884531 TATGCTAAAT
*
72884541 CTATTAACATAT-ATATATATATAA
1 CTATTAACATATCATAAAT-TATAA
72884565 CTATT-ACTATATCATAAATTATAA
1 CTATTAAC-ATATCATAAATTATAA
72884589 C
1 C
72884590 AAAAGAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 2 0.09
24 15 0.68
25 5 0.23
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (24 bp):
CTATTAACATATCATAAATTATAA
Found at i:72885697 original size:2 final size:2
Alignment explanation
Indices: 72885690--72885736 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
72885680 AAATACATTA
72885690 AT AT AT AT 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 AT AT AT AT
72885732 AT AT A
1 AT AT A
72885737 CACATCTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:72886120 original size:19 final size:20
Alignment explanation
Indices: 72886086--72886125 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
72886076 TTATGTTATC
72886086 ATTTTATAAAAAT-AAATTA
1 ATTTTATAAAAATAAAATTA
**
72886105 ATTTTATAAATTTAAAATTA
1 ATTTTATAAAAATAAAATTA
72886125 A
1 A
72886126 AATATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTTATAAAAATAAAATTA
Found at i:72888568 original size:26 final size:26
Alignment explanation
Indices: 72888539--72888590 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
72888529 AATATTGACA
*
72888539 TAAACAATATTTATCTTAATGATAAT
1 TAAACAATATTTATATTAATGATAAT
* *
72888565 TAAATAATATTTATATTGATGATAAT
1 TAAACAATATTTATATTAATGATAAT
72888591 ATTATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (26 bp):
TAAACAATATTTATATTAATGATAAT
Found at i:72888671 original size:20 final size:20
Alignment explanation
Indices: 72888638--72888705 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
72888628 TTCTCATCTA
*
72888638 AAAAGTTTAGGTAAAATTTTC
1 AAAA-TTTACGTAAAATTTTC
*
72888659 AAAATTTACGT-AACTCTTTC
1 AAAATTTACGTAAAAT-TTTC
* * *
72888679 AAAGTTTACCTAAAAATTT-
1 AAAATTTACGTAAAATTTTC
72888698 AAAATTTA
1 AAAATTTA
72888706 TTTATTTAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 10 0.26
20 22 0.58
21 6 0.16
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.38
Consensus pattern (20 bp):
AAAATTTACGTAAAATTTTC
Found at i:72893126 original size:2 final size:2
Alignment explanation
Indices: 72893119--72893240 Score: 237
Period size: 2 Copynumber: 61.5 Consensus size: 2
72893109 ACTTGGAGGG
72893119 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
72893161 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
72893203 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
72893241 TGTTTTTGAA
Statistics
Matches: 119, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 118 0.99
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:72893842 original size:24 final size:24
Alignment explanation
Indices: 72893807--72893869 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
72893797 TATTTTCTTA
*
72893807 TTTTA-GTTATTTATTCATTTGTT
1 TTTTATGTTATTTATTCATTTATT
*
72893830 TTTTATGTTATTTATTCGTTTATT
1 TTTTATGTTATTTATTCATTTATT
* * *
72893854 GTTCATATTATTTATT
1 TTTTATGTTATTTATT
72893870 TATTACTCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.68
Consensus pattern (24 bp):
TTTTATGTTATTTATTCATTTATT
Found at i:72894324 original size:2 final size:2
Alignment explanation
Indices: 72894317--72894360 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
72894307 CCTAAATTAC
*
72894317 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72894359 AT
1 AT
72894361 CTTATTTTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72894582 original size:16 final size:15
Alignment explanation
Indices: 72894556--72894585 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
72894546 ATTGTTATTG
72894556 TTATTATTTATTTTA
1 TTATTATTTATTTTA
72894571 TTATTCATTTATTTT
1 TTATT-ATTTATTTT
72894586 TCTCTAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTATTTATTTTA
Found at i:72897983 original size:18 final size:18
Alignment explanation
Indices: 72897960--72897994 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
72897950 ATAATCTTTA
*
72897960 AAAGTAAAAATTAAAAAT
1 AAAGTAAAAATGAAAAAT
72897978 AAAGTAAAAATGAAAAA
1 AAAGTAAAAATGAAAAA
72897995 AATGTGAATG
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:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (18 bp):
AAAGTAAAAATGAAAAAT
Found at i:72898205 original size:31 final size:29
Alignment explanation
Indices: 72898168--72898226 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
72898158 CAAAAGGACT
*
72898168 TAATTAATATAACCTCAACAATTTAAAAATA
1 TAATTAAAATAACCT-AA-AATTTAAAAATA
**
72898199 TAATTAAAATAATGTAAAATTTAAAAAT
1 TAATTAAAATAACCTAAAATTTAAAAAT
72898227 CAATTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 2 0.08
31 12 0.48
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.34
Consensus pattern (29 bp):
TAATTAAAATAACCTAAAATTTAAAAATA
Found at i:72907800 original size:24 final size:24
Alignment explanation
Indices: 72907767--72907864 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
72907757 AAGGCTATCA
72907767 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
72907791 GGAGAGGATTTAGGAGCTAATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
72907815 GGAGAGGATTTAGGAGTTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
72907839 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
72907864 G
1 G
72907865 AGCAGGAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 62 0.95
25 3 0.05
ACGTcount: A:0.37, C:0.04, G:0.38, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:72915595 original size:24 final size:24
Alignment explanation
Indices: 72915568--72915664 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
72915558 TAGGCTGTCA
*
72915568 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
72915592 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
72915616 GGAGAAGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
72915640 AGAGAAGA-TTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
72915664 G
1 G
72915665 AGCAGGAGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
23 12 0.18
24 55 0.82
ACGTcount: A:0.37, C:0.05, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:72917359 original size:33 final size:34
Alignment explanation
Indices: 72917282--72917362 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 34
72917272 TATGGGCCGT
* *
72917282 ACTGTTATCTGAATAAGGGGCTAAGGGCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
72917316 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
72917349 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
72917363 GGGCTTAGGC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
32 12 0.32
33 14 0.38
34 11 0.30
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:72919477 original size:39 final size:40
Alignment explanation
Indices: 72919434--72919511 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
72919424 TTATAGTACC
72919434 ACTTGGTGTGTA-GGCTGGATGGGTCGATTTTATCCCCAT
1 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCCAT
* *
72919473 ACTTGGTTTGTAGGGCTGGGTGGGTCGATTTTATCCCCA
1 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCCA
72919512 CATGGTGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 11 0.31
40 25 0.69
ACGTcount: A:0.14, C:0.18, G:0.32, T:0.36
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCCAT
Found at i:72921095 original size:47 final size:47
Alignment explanation
Indices: 72921026--72921198 Score: 337
Period size: 47 Copynumber: 3.7 Consensus size: 47
72921016 GGATGGTTGA
72921026 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
72921073 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
72921120 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
*
72921167 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
72921199 ACTTATGGAT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:72927113 original size:43 final size:43
Alignment explanation
Indices: 72927065--72927148 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
72927055 GTTACATGTA
* * * *
72927065 TCGCATCCATTATGACCTTGGACCACTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGC
**
72927108 TCGCATCCATAATGAACTCGAACCACTTGACGAGCTCAGAT
1 TCGCATCCATAATGAACTCGAACCACTCAACGAGCTCAGAT
72927149 ACCACATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGC
Found at i:72933279 original size:55 final size:55
Alignment explanation
Indices: 72933164--72933281 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 55
72933154 TGCGATATGG
** * ** * *
72933164 CCGTGGTTGAGCCTGCCAAAATAACATAGGCGTGCGACATGCCTGTGTGGAAGAA
1 CCGTGGTCAAGCCTGCCAAAATAACACAGGCGTGCGACACACCCGTGTGGAACAA
* * * * *
72933219 TCGTGGTCAAGCCTGCCAAAATAGCACGGGCGTTCGACACACCCGTGTGGAACAC
1 CCGTGGTCAAGCCTGCCAAAATAACACAGGCGTGCGACACACCCGTGTGGAACAA
72933274 CCGTGGTC
1 CCGTGGTC
72933282 GAACCTGTTA
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.19
Consensus pattern (55 bp):
CCGTGGTCAAGCCTGCCAAAATAACACAGGCGTGCGACACACCCGTGTGGAACAA
Found at i:72939476 original size:93 final size:93
Alignment explanation
Indices: 72939364--72939535 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
72939354 GCCCATAAGT
* *
72939364 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
72939429 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
72939457 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
72939522 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
72939536 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:72939531 original size:46 final size:46
Alignment explanation
Indices: 72939356--72939531 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
72939346 TGTAACCCGC
* * *
72939356 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
72939402 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
72939452 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
72939495 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
72939532 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:72941957 original size:30 final size:30
Alignment explanation
Indices: 72941913--72942001 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
72941903 CAAAGATAAC
72941913 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
72941942 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
72941972 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
72942002 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:72941961 original size:15 final size:15
Alignment explanation
Indices: 72941913--72941992 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
72941903 CAAAGATAAC
*
72941913 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
72941927 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
72941942 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
72941957 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
72941972 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
72941987 AAGAAA
1 AAGAAA
72941993 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:72942001 original size:15 final size:15
Alignment explanation
Indices: 72941924--72942001 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
72941914 AGAAAACCGA
72941924 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
72941939 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
72941953 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
72941968 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
72941984 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
72941999 ATA
1 ATA
72942002 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:72945066 original size:93 final size:93
Alignment explanation
Indices: 72944954--72945125 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
72944944 GCCCATAAGT
* *
72944954 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
72945019 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
72945047 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
72945112 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
72945126 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:72945121 original size:46 final size:46
Alignment explanation
Indices: 72944946--72945121 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
72944936 TGTAACCCGC
* * *
72944946 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
72944992 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
72945042 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
72945085 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
72945122 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:72950443 original size:47 final size:47
Alignment explanation
Indices: 72950374--72950578 Score: 320
Period size: 47 Copynumber: 4.4 Consensus size: 47
72950364 CCCTTCGGGA
* * * *
72950374 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
72950421 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
72950468 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
72950515 CTTATCACACATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
72950562 TTTATCACATATATACA
1 CTTATCACATATATACA
72950579 TATCACACAT
Statistics
Matches: 144, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 144 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:72950628 original size:48 final size:48
Alignment explanation
Indices: 72950552--72950783 Score: 419
Period size: 48 Copynumber: 4.8 Consensus size: 48
72950542 CATCACATGG
* *
72950552 GCCATTAGGCTTTATCACATATATACATATCACACATATATTTCACATTA
1 GCCATTCGGCTTTA-C-CACATATACATATCACACATATATTTCACATTA
72950602 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
72950650 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
*
72950698 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATCA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
72950746 GCCATTCGGCTTTACCACATATACATATCACACATATA
1 GCCATTCGGCTTTACCACATATACATATCACACATATA
72950784 CTTATTTATC
Statistics
Matches: 179, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
48 165 0.92
49 1 0.01
50 13 0.07
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (48 bp):
GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
Found at i:72950633 original size:94 final size:97
Alignment explanation
Indices: 72950403--72950783 Score: 369
Period size: 96 Copynumber: 4.0 Consensus size: 97
72950393 TTCACATCCA
* * * * *
72950403 TCACATTGGCCACTCGGCCTTATCACATATATACACT-TTCACAT-TCA-TCACATCGGCCATTA
1 TCACATTAGCCATTCGGCCTTATCACACATATACACTATACACATAT-ATTCACATCAGCCATTA
* * * * **
72950465 GGCCTTATCACATATATACACTTTCACAT-TCA--
65 GGCTTTACCACATATACATA-TCACACATAT-ATT
* * * **
72950497 TCACATTGGCCATTCGGCCTTATCACACATATGCACT-TTCACAT-TCA-TCACATGGGCCATTA
1 TCACATTAGCCATTCGGCCTTATCACACATATACACTATACACATAT-ATTCACATCAGCCATTA
*
72950559 GGCTTTATCACATATATACATATCACACATATATT
65 GGCTTTA-C-CACATATACATATCACACATATATT
* *
72950594 TCACATTAGCCATTCGGCTTTA-C-CACATATACA-TATCACACATATATTTCACATTAGCCATT
1 TCACATTAGCCATTCGGCCTTATCACACATATACACTAT-ACACATATA-TTCACATCAGCCATT
*
72950656 CGGCTTTACCACATATACATATCACACATATATT
64 AGGCTTTACCACATATACATATCACACATATATT
*
72950690 TCACATTAGCCATTCGGCTTTA-C-CACATATACA-TATCACACATATATTTCACATCAGCCATT
1 TCACATTAGCCATTCGGCCTTATCACACATATACACTAT-ACACATATA-TTCACATCAGCCATT
*
72950752 CGGCTTTACCACATATACATATCACACATATA
64 AGGCTTTACCACATATACATATCACACATATA
72950784 CTTATTTATC
Statistics
Matches: 257, Mismatches: 20, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
94 65 0.25
95 17 0.07
96 134 0.52
97 22 0.09
98 19 0.07
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (97 bp):
TCACATTAGCCATTCGGCCTTATCACACATATACACTATACACATATATTCACATCAGCCATTAG
GCTTTACCACATATACATATCACACATATATT
Found at i:72953985 original size:40 final size:40
Alignment explanation
Indices: 72953935--72954181 Score: 413
Period size: 40 Copynumber: 6.2 Consensus size: 40
72953925 ACGTCACCAT
* *** *
72953935 CATGATTGCTCTTCGGGGTTTAGCACGGATACATCACTAG
1 CATGAATGCTCTTCGGGACCTAGCCCGGATACATCACTAG
* * *
72953975 CACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACCTAGCCCGGATACATCACTAG
72954015 CATGAATGCTCTTCGGGACCTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACCTAGCCCGGATACATCACTAG
72954055 CATGAATGCTCTTCGGGACCTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACCTAGCCCGGATACATCACTAG
72954095 CATGAATGCTCTTCGGGACCTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACCTAGCCCGGATACATCACTAG
*
72954135 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACCTAGCCCGGATACATCACTAG
72954175 CATGAAT
1 CATGAAT
72954182 TGTAACACCC
Statistics
Matches: 197, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 197 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CATGAATGCTCTTCGGGACCTAGCCCGGATACATCACTAG
Found at i:72955701 original size:80 final size:80
Alignment explanation
Indices: 72955617--72955765 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
72955607 TATGGTAACC
* * * *
72955617 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
72955681 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
72955697 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
72955762 CCGG
66 CCGG
72955766 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:72955707 original size:40 final size:38
Alignment explanation
Indices: 72955658--72955765 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
72955648 ATCACGATTT
*
72955658 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
72955698 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
72955738 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
72955766 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:72960198 original size:47 final size:47
Alignment explanation
Indices: 72960129--72960333 Score: 320
Period size: 47 Copynumber: 4.4 Consensus size: 47
72960119 CCCTTCGGGA
* * * *
72960129 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
72960176 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
72960223 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
72960270 CTTATCACACATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
72960317 TTTATCACATATATACA
1 CTTATCACATATATACA
72960334 TATCACACAT
Statistics
Matches: 144, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 144 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:72960383 original size:48 final size:48
Alignment explanation
Indices: 72960307--72960585 Score: 479
Period size: 48 Copynumber: 5.8 Consensus size: 48
72960297 CATCACATGG
* *
72960307 GCCATTAGGCTTTATCACATATATACATATCACACATATATTTCACATTA
1 GCCATTCGGCTTTA-C-CACATATACATATCACACATATATTTCACATTA
72960357 GCCATTCGGCTTTACCACATATACATATCACACATAT-TTTCACATTA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
72960404 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
* *
72960452 GCCAATCGGCTTTACCACATATACATATCACACATATATTTCACATCA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
*
72960500 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATCA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
*
72960548 GCCATTCGGCTTTACCACATATACGTATCACACATATA
1 GCCATTCGGCTTTACCACATATACATATCACACATATA
72960586 CTTATTTATC
Statistics
Matches: 222, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
47 47 0.21
48 161 0.73
49 1 0.00
50 13 0.06
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (48 bp):
GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
Found at i:72966355 original size:17 final size:18
Alignment explanation
Indices: 72966335--72966368 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
72966325 GTCATTTTCA
*
72966335 TTTTTCTTTTTC-TTTTT
1 TTTTTCATTTTCATTTTT
72966352 TTTTTCATTTTCATTTT
1 TTTTTCATTTTCATTTT
72966369 GGAGAAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCATTTTCATTTTT
Found at i:72966444 original size:57 final size:57
Alignment explanation
Indices: 72966353--72966469 Score: 182
Period size: 57 Copynumber: 2.1 Consensus size: 57
72966343 TTTCTTTTTT
* *
72966353 TTTTCATTTTCATTTTGGAGAAAACCATATTTATTTACAAATGATTTCAT-TTCTCCA
1 TTTTCATTTTCATTTTGAAGAAAACCATAGTTATTTACAAAT-ATTTCATATTCTCCA
* *
72966410 TTTTCATTTTCATTTTGAAGAAAACCATAGTTATTTCCAAATATTTCCTATTCTCCA
1 TTTTCATTTTCATTTTGAAGAAAACCATAGTTATTTACAAATATTTCATATTCTCCA
72966467 TTT
1 TTT
72966470 CACTATTTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 6 0.11
57 49 0.89
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (57 bp):
TTTTCATTTTCATTTTGAAGAAAACCATAGTTATTTACAAATATTTCATATTCTCCA
Found at i:72969761 original size:43 final size:42
Alignment explanation
Indices: 72969690--72969844 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
72969680 ATATCATATA
* * *
72969690 ATGCCAATGTCCCAGA-TGTGGTCGTACATGCAATAACATATCG
1 ATGCCACTGTCCCAGACAG-GGTCTTACATG-AATAACATATCG
72969733 ATGCCACTGTCCCAGACAGGGTCTTACATGAATCAA-ATA-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACATGAAT-AACATATCG
* * * * *
72969774 ATGCTGA-TGTCCTAAACATGGTCTTACATGTAATCACATATCG
1 ATGC-CACTGTCCCAGACAGGGTCTTACATG-AATAACATATCG
* **
72969817 ATGCCAAC-ATCCCAGACCTGGTCTTACA
1 ATGCC-ACTGTCCCAGACAGGGTCTTACA
72969845 CAAGAACACA
Statistics
Matches: 91, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
41 27 0.30
42 13 0.14
43 50 0.55
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAGGGTCTTACATGAATAACATATCG
Found at i:72971329 original size:46 final size:44
Alignment explanation
Indices: 72971262--72971386 Score: 162
Period size: 46 Copynumber: 2.8 Consensus size: 44
72971252 GGTGGTACGT
* *
72971262 GAGCCAGTGTAAGACATGTCTGGGACATGGATCAGGCACATT-ATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCA-G--CATTGACGA
72971308 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATT--GACGA
* *
72971354 GAGCTAGTGTAAGACATGTCTAGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
72971387 GGCTTCAAGA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
43 4 0.06
45 1 0.01
46 67 0.93
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (44 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATTGACGA
Found at i:72971624 original size:49 final size:48
Alignment explanation
Indices: 72971448--72971626 Score: 216
Period size: 49 Copynumber: 3.7 Consensus size: 48
72971438 CTTGTTGTGT
72971448 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCATAGATAAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCATAGATAAAA
* * * * * *
72971496 GTCATTGTAAGACCTGTCTCGGACATGACATCAACACCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACC-ATAGATAAAA
* * * *
72971545 GCCACTGTAAGACCTGTCTGGGATATGGCATCGAC-CTCAATATATAAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-C-ATAGATAAAA
* *
72971594 GTTAGTGTAAGACCTGTCTGGGACACGGCATCG
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCG
72971627 GCTTTAATGT
Statistics
Matches: 108, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 35 0.32
49 73 0.68
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (48 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCATAGATAAAA
Done.