Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 21 of 373
Found at i:6025476 original size:79 final size:78
Alignment explanation
Indices: 6025308--6025535 Score: 332
Period size: 79 Copynumber: 2.9 Consensus size: 78
6025298 GATTTATTCC
*
6025308 TGATTCAC-TATGGTAACTTAAGGTGGATAGGATTTAACCTGAAAAGGTAATCCTGATTCGCTAC
1 TGATTC-CTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTAC
*
6025372 AGTTACATGATATA
65 AGTTACACGATATA
* * * *
6025386 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCAGATTCGTTAC
1 TGATTCCTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAA-GGTAATCCTGATTCGCTAC
*
6025451 GGTTACACGATATA
65 AGTTACACGATATA
* * * *
6025465 TGATTCCTTATGATAACTTAAGATGGGTAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCCTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
6025530 GTTACA
66 GTTACA
6025536 TGAGATGTGG
Statistics
Matches: 132, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
78 63 0.48
79 69 0.52
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (78 bp):
TGATTCCTTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
GTTACACGATATA
Found at i:6027316 original size:19 final size:19
Alignment explanation
Indices: 6027292--6027338 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
6027282 AGAGAATACC
*
6027292 AAAAGAATGAAAAATAGAA
1 AAAAGAAAGAAAAATAGAA
* *
6027311 AAAAGAAAGGAAAATATAA
1 AAAAGAAAGAAAAATAGAA
*
6027330 AAAAAAAAG
1 AAAAGAAAG
6027339 TTGAAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (19 bp):
AAAAGAAAGAAAAATAGAA
Found at i:6027332 original size:20 final size:19
Alignment explanation
Indices: 6027300--6027352 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
6027290 CCAAAAGAAT
6027300 GAAAAATAGAAAAAAGAAAG
1 GAAAAATAGAAAAAA-AAAG
6027320 GAAAATATA-AAAAAAAAAG
1 GAAAA-ATAGAAAAAAAAAG
6027339 TTGAAAAAT-GAAAA
1 --GAAAAATAGAAAA
6027353 TAAGAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 4 0.14
20 17 0.59
21 8 0.28
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (19 bp):
GAAAAATAGAAAAAAAAAG
Found at i:6027352 original size:21 final size:20
Alignment explanation
Indices: 6027299--6027352 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
6027289 ACCAAAAGAA
*
6027299 TGAAAAATAGAAAAAAGAAAG
1 TGAAAAAT-GAAAAAAAAAAG
6027320 -GAAAATAT-AAAAAAAAAAG
1 TGAAAA-ATGAAAAAAAAAAG
6027339 TTGAAAAATGAAAA
1 -TGAAAAATGAAAA
6027353 TAAGAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
19 10 0.36
20 7 0.25
21 11 0.39
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (20 bp):
TGAAAAATGAAAAAAAAAAG
Found at i:6029336 original size:22 final size:23
Alignment explanation
Indices: 6029303--6029345 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6029293 AGTATATCTA
*
6029303 TTTTTCTATTTTCGTATTTAATT
1 TTTTTCTATTTTCGTACTTAATT
*
6029326 TTTTTCT-TTTTGGTACTTAA
1 TTTTTCTATTTTCGTACTTAA
6029346 ATATCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.16, C:0.09, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTTTCTATTTTCGTACTTAATT
Found at i:6030806 original size:31 final size:32
Alignment explanation
Indices: 6030737--6030806 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 32
6030727 TTGTAAATTT
* *
6030737 TATTTTTTTATATTTTATATATACTTTTCTGA
1 TATTTTTTTATATTTTATATATAATTTTCTCA
* *
6030769 -AATTTTTTATATATTTAT-TTTAATTTT-TCA
1 TATTTTTTTATAT-TTTATATATAATTTTCTCA
6030799 TATTTTTT
1 TATTTTTT
6030807 AATGTGTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
30 2 0.06
31 24 0.77
32 5 0.16
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (32 bp):
TATTTTTTTATATTTTATATATAATTTTCTCA
Found at i:6032141 original size:3 final size:3
Alignment explanation
Indices: 6032133--6032159 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6032123 TGGGGTTTTG
6032133 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
6032160 TCCCTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:6043689 original size:30 final size:27
Alignment explanation
Indices: 6043613--6043681 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 27
6043603 TCAAAACTTG
* *
6043613 AAAAATATAAAGACTGAAATTGACCAATT
1 AAAAATAT--AGACTAAAATTGACAAATT
*
6043642 AGAAAAGTATAGTCTAAAATTGATCAAATT
1 A-AAAA-TATAGACTAAAATTGA-CAAATT
6043672 AAAAATATAG
1 AAAAATATAG
6043682 GGACTAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 5 0.15
29 16 0.47
30 10 0.29
31 3 0.09
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (27 bp):
AAAAATATAGACTAAAATTGACAAATT
Found at i:6044844 original size:26 final size:24
Alignment explanation
Indices: 6044814--6044861 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
6044804 AATAAAAAAA
*
6044814 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
6044840 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
6044862 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:6044881 original size:21 final size:21
Alignment explanation
Indices: 6044832--6044890 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
6044822 ATAATAAATC
*
6044832 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
6044852 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
6044874 AAATAATAGTAAAACAA
1 AAATAATATTAAAACAA
6044891 TTCTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:6049108 original size:42 final size:42
Alignment explanation
Indices: 6049042--6049217 Score: 169
Period size: 42 Copynumber: 4.0 Consensus size: 42
6049032 CTTCGTTTTC
** * *
6049042 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* * *
6049085 T-GATGTCATAGCCCAGCTATGGTCTTACATATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
6049126 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
* *
6049175 TCGATGCCATAGCCCAGTTATGGTCGTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
6049216 TC
1 TC
6049218 TCACTGATGC
Statistics
Matches: 112, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
41 11 0.10
42 59 0.53
43 2 0.02
45 2 0.02
47 1 0.01
48 2 0.02
49 35 0.31
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:6049186 original size:49 final size:48
Alignment explanation
Indices: 6049125--6049295 Score: 188
Period size: 47 Copynumber: 3.6 Consensus size: 48
6049115 ATATTCATAT
*
6049125 ATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * *
6049173 TATCGATGCCATAGCCCAGTTATGGTCGTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * *
6049221 CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* * *
6049267 ACCGATGCCATATCCCAAATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
6049296 TACGGAAATC
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 25 0.24
47 36 0.34
48 13 0.12
49 31 0.30
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:6049277 original size:47 final size:46
Alignment explanation
Indices: 6049086--6049295 Score: 185
Period size: 47 Copynumber: 4.6 Consensus size: 46
6049076 TTCACATAAT
* * ** * *
6049086 GATGTCATAGCCCAGCTATGGTCTTACATATAT-TCATAT---ATC
1 GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACC
* *
6049128 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATC
1 GATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--ACC
* * * * *
6049177 GATGCCATAGCCCAGTTATGGTCGTACACGAATCACATATCTCACT
1 GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACC
* * * *
6049223 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACC
1 GATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACACC
* *
6049270 GATGCCATATCCCAAATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
6049296 TACGGAAATC
Statistics
Matches: 140, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
42 28 0.20
43 2 0.01
44 5 0.04
46 26 0.19
47 37 0.26
48 11 0.08
49 31 0.22
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (46 bp):
GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACC
Found at i:6049812 original size:18 final size:20
Alignment explanation
Indices: 6049770--6049806 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6049760 ATATTTTATG
*
6049770 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
6049789 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
6049807 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:6052016 original size:46 final size:46
Alignment explanation
Indices: 6051964--6052274 Score: 406
Period size: 46 Copynumber: 6.7 Consensus size: 46
6051954 AGTGTGCTCT
6051964 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
6052010 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
6052056 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
6052102 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
6052148 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
6052194 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * *
6052240 ATGAAAAAAAAATGAGTAAGACCATAGTTGAAAGA
1 CTG-ATATGAAATGTGTAAGACCATGGTTGAAAGA
6052275 CATTATGGCA
Statistics
Matches: 238, Mismatches: 26, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
46 212 0.89
47 26 0.11
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:6052303 original size:92 final size:91
Alignment explanation
Indices: 6051979--6052307 Score: 237
Period size: 92 Copynumber: 3.6 Consensus size: 91
6051969 ATGAAATGTG
* * * * * ***
6051979 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACCATGGCAGCATGACA-GAAATAAATAAGACCATGGTTGAAAGA
* * * * * ** ****
6052044 TATCATGGCAGCCTGATATGAAACGTG
65 TACCATGGAAACATGAAAAAAAATAAA
* * * * ***
6052071 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACCATGGCAGCATGACA-GAAATAAATAAGACCATGGTTGAAAGA
* ****
6052136 TACCATGGCAACATGACGGGAAATAAA
65 TACCATGGAAACATGAAAAAAAATAAA
* * * *
6052163 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACCATGGCAGCATGACA-GAAATAAATAAGACCATGGTTGAAAGA
* *
6052228 TACCATGGAAACATGAAAAAAAAATGAG
65 TACCATGGAAACATG-AAAAAAAATAAA
** * *
6052256 TAAGACCATAGTTGAAAGACATTATGGCATCATGTCA-AAGATAAATAAGACC
1 TAAGACCATAGTTGAAAGACACCATGGCAGCATGACAGAA-ATAAATAAGACC
6052308 GTGGATGGGA
Statistics
Matches: 205, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
91 2 0.01
92 167 0.81
93 36 0.18
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (91 bp):
TAAGACCATAGTTGAAAGACACCATGGCAGCATGACAGAAATAAATAAGACCATGGTTGAAAGAT
ACCATGGAAACATGAAAAAAAATAAA
Found at i:6052939 original size:31 final size:31
Alignment explanation
Indices: 6052896--6053044 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
6052886 TGTTACACTT
* *
6052896 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
6052927 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** * *
6052958 GTAATCGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
6052989 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
6053020 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
6053045 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:6053126 original size:50 final size:51
Alignment explanation
Indices: 6053020--6053148 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
6053010 CACTGATCAG
* * * *
6053020 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAATT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
* *
6053071 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
6053121 GTAGCCGAAGCTATCATTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
6053149 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 45 0.64
51 25 0.36
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:6057174 original size:23 final size:21
Alignment explanation
Indices: 6057144--6057186 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
6057134 ATAGCTTAAT
6057144 ATAAATAATATATACAAAAATA
1 ATAAATAATATATA-AAAAATA
*
6057166 ATAATATAATATTTAAAAAAT
1 ATAA-ATAATATATAAAAAAT
6057187 GCTCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAATAATATATAAAAAATA
Found at i:6057248 original size:14 final size:14
Alignment explanation
Indices: 6057224--6057261 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
6057214 ATAATGAAAC
6057224 AGAATGAAAATATACA
1 AGAA-GAAAATA-ACA
6057240 A-AAGAAAATAACA
1 AGAAGAAAATAACA
6057253 AGAAGAAAA
1 AGAAGAAAA
6057262 AATTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.19
14 14 0.67
15 2 0.10
16 1 0.05
ACGTcount: A:0.71, C:0.05, G:0.13, T:0.11
Consensus pattern (14 bp):
AGAAGAAAATAACA
Found at i:6063224 original size:17 final size:18
Alignment explanation
Indices: 6063202--6063236 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
6063192 TCATTATATT
6063202 AAAAATATATAT-TTTTA
1 AAAAATATATATATTTTA
6063219 AAAAATATATATATTTTA
1 AAAAATATATATATTTTA
6063237 TATTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAAATATATATATTTTA
Found at i:6064479 original size:11 final size:11
Alignment explanation
Indices: 6064463--6064487 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6064453 TTTTCCTAAC
6064463 AATAATTTAAA
1 AATAATTTAAA
6064474 AATAATTTAAA
1 AATAATTTAAA
6064485 AAT
1 AAT
6064488 TACTATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAATTTAAA
Found at i:6064506 original size:31 final size:31
Alignment explanation
Indices: 6064469--6064529 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
6064459 TAACAATAAT
*
6064469 TTAAAAATAAT-TTAAAAATTACTATAAATTA
1 TTAAAAATAATGTTAAAAATT-CAATAAATTA
* *
6064500 TTAAAAATTATGTTGAAAATTCAATAAATT
1 TTAAAAATAATGTTAAAAATTCAATAAATT
6064530 TAGCCCTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (31 bp):
TTAAAAATAATGTTAAAAATTCAATAAATTA
Found at i:6064623 original size:61 final size:61
Alignment explanation
Indices: 6064515--6064639 Score: 151
Period size: 61 Copynumber: 2.0 Consensus size: 61
6064505 AATTATGTTG
** * * * * *
6064515 AAAATTCAATAAATTTAGCCCTCAATGTTTACAAATTTTTTAATTTTAATTATAATTCTAA
1 AAAATTCAATAAATTTAGCCCTCAAAATTTACAAAATCTGTAATTTTAATCATAACTCTAA
* ** *
6064576 AAAATTCAATAAATTTGGCCCTCAAAATTTACAAAATCTGTCGTTTTAATCCTAACTCTAA
1 AAAATTCAATAAATTTAGCCCTCAAAATTTACAAAATCTGTAATTTTAATCATAACTCTAA
6064637 AAA
1 AAA
6064640 TTTTAAAAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (61 bp):
AAAATTCAATAAATTTAGCCCTCAAAATTTACAAAATCTGTAATTTTAATCATAACTCTAA
Found at i:6066086 original size:23 final size:23
Alignment explanation
Indices: 6066041--6066086 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6066031 ATTTTTTTAA
* * *
6066041 AGATTTTTTTATGTAAATTTTTT
1 AGATTTGTTTACGTAAATATTTT
*
6066064 AGATTTGTTTACGTATATATTTT
1 AGATTTGTTTACGTAAATATTTT
6066087 GAACGTTTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (23 bp):
AGATTTGTTTACGTAAATATTTT
Found at i:6066164 original size:20 final size:20
Alignment explanation
Indices: 6066127--6066170 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6066117 TATTCATAAA
*
6066127 AATATTTTCACATAATTTTT
1 AATATTTTCACATAATTTTC
*
6066147 AATATTTTTA-ATATATTTTC
1 AATATTTTCACATA-ATTTTC
6066167 AATA
1 AATA
6066171 ATCTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATTTTCACATAATTTTC
Found at i:6067500 original size:18 final size:17
Alignment explanation
Indices: 6067442--6067503 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
6067432 ATTATTTTAG
*
6067442 ATTTTTAAATTTTTTTAT
1 ATTTTTAAA-TTTTTAAT
* *
6067460 ATCTTTATATTTTTAAT
1 ATTTTTAAATTTTTAAT
*
6067477 ACTTTTAAATTTTATAAT
1 ATTTTTAAATTTT-TAAT
*
6067495 TTTTTTAAA
1 ATTTTTAAA
6067504 AAATATAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 17 0.49
18 18 0.51
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTAAATTTTTAAT
Found at i:6067660 original size:21 final size:21
Alignment explanation
Indices: 6067635--6067676 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6067625 ATTATTTGAG
*
6067635 TTATTCGA-ATTATAACTCAAA
1 TTATTCGATATT-GAACTCAAA
6067656 TTATTCGATATTGAACTCAAA
1 TTATTCGATATTGAACTCAAA
6067677 ACTCGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (21 bp):
TTATTCGATATTGAACTCAAA
Found at i:6067998 original size:19 final size:19
Alignment explanation
Indices: 6067971--6068008 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6067961 GATTTCTAGA
6067971 AAATAATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
*
6067990 AAATGATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
6068009 TGTTTGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (19 bp):
AAATAATTTACTTTTCTGG
Found at i:6085094 original size:34 final size:34
Alignment explanation
Indices: 6085056--6085136 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
6085046 CGGTCCGCCG
* *
6085056 ACACGGCTATGTAACCCCTCTACACGGTCTACCC
1 ACACGGCTGTGTAACCCCTCTACACGGTCTAACC
* ** *
6085090 ACACGACTGTGTAAGTCCTTTACACGGTCTAACC
1 ACACGGCTGTGTAACCCCTCTACACGGTCTAACC
6085124 ACACGGCTGTGTA
1 ACACGGCTGTGTA
6085137 CCTTTATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (34 bp):
ACACGGCTGTGTAACCCCTCTACACGGTCTAACC
Found at i:6087595 original size:73 final size:73
Alignment explanation
Indices: 6087510--6087669 Score: 311
Period size: 73 Copynumber: 2.2 Consensus size: 73
6087500 TGTGTACACC
6087510 ATGTGTACAAGAGAGCCAAAATTATGTGTATAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
1 ATGTGTACAAGAGAGCCAAAATTATGTGTATAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
*
6087575 ATGCCACT
66 AGGCCACT
6087583 ATGTGTACAAGAGAGCCAAAATTATGTGTATAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
1 ATGTGTACAAGAGAGCCAAAATTATGTGTATAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
6087648 AGGCCACT
66 AGGCCACT
6087656 ATGTGTACAAGAGA
1 ATGTGTACAAGAGA
6087670 ACTTCAATTT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 86 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (73 bp):
ATGTGTACAAGAGAGCCAAAATTATGTGTATAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
AGGCCACT
Found at i:6090162 original size:48 final size:48
Alignment explanation
Indices: 6090090--6090184 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
6090080 ACGTAGGAAG
* * *
6090090 TAGTCGACAATTTATCTACCCGACT-AGTGGTTCATCCATAATGTATTT
1 TAGTCGACAATTTATCTACACGACTGA-TGGTTCATCCACAATATATTT
* * *
6090138 TAGTCGGCAGTTTATCTATACGACTGATGGTTCATCCACAATATATT
1 TAGTCGACAATTTATCTACACGACTGATGGTTCATCCACAATATATT
6090185 GGCAAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (48 bp):
TAGTCGACAATTTATCTACACGACTGATGGTTCATCCACAATATATTT
Found at i:6091955 original size:22 final size:23
Alignment explanation
Indices: 6091920--6091981 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
6091910 CATTAAATCT
**
6091920 ATTAAAAAACAATT-TGAAAAAA
1 ATTAAAAATTAATTATGAAAAAA
*
6091942 ATTAAAAATTAATTATTAAAAAA
1 ATTAAAAATTAATTATGAAAAAA
*
6091965 ACTCAAAAATATAATTA
1 A-TTAAAAAT-TAATTA
6091982 AAATCAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 12 0.36
23 8 0.24
24 7 0.21
25 6 0.18
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (23 bp):
ATTAAAAATTAATTATGAAAAAA
Found at i:6098598 original size:31 final size:30
Alignment explanation
Indices: 6098557--6098634 Score: 138
Period size: 31 Copynumber: 2.6 Consensus size: 30
6098547 GAAAAGCTCC
*
6098557 TGAAGATTATAGCTTTTCAGGGCATTCCAT
1 TGAAGTTTATAGCTTTTCAGGGCATTCCAT
6098587 TGAAGTTTTATAGCTTTTCAGGGCATTCCAT
1 TGAAG-TTTATAGCTTTTCAGGGCATTCCAT
6098618 TGAAGTTTATAGCTTTT
1 TGAAGTTTATAGCTTTT
6098635 AATCCTTGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 17 0.37
31 29 0.63
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.42
Consensus pattern (30 bp):
TGAAGTTTATAGCTTTTCAGGGCATTCCAT
Found at i:6105467 original size:17 final size:16
Alignment explanation
Indices: 6105442--6105497 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
6105432 ATAACTTAAG
6105442 AAAATTAATATAAAATCT
1 AAAA-TAATATAAAAT-T
*
6105460 AAAATAATA-ATAATT
1 AAAATAATATAAAATT
*
6105475 AAAAATAA-ATAAACTT
1 -AAAATAATATAAAATT
6105491 AAAATAA
1 AAAATAA
6105498 AATTTCCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 9 0.27
16 15 0.45
17 5 0.15
18 4 0.12
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAATATAAAATT
Found at i:6109611 original size:29 final size:29
Alignment explanation
Indices: 6109555--6109612 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
6109545 ACATAGACAT
*
6109555 GCTTTAGTAAAAAGCACTGACAATGACGC
1 GCTTTAGTAAAAAGCACTGACAAGGACGC
*
6109584 GCTTTAGTAAAAAGCACTGACGAGGACGC
1 GCTTTAGTAAAAAGCACTGACAAGGACGC
6109613 ATTTTTGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (29 bp):
GCTTTAGTAAAAAGCACTGACAAGGACGC
Found at i:6111850 original size:15 final size:16
Alignment explanation
Indices: 6111830--6111859 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6111820 TGGAATTATT
6111830 ATTTTAAT-TAATATC
1 ATTTTAATATAATATC
6111845 ATTTTAATATAATAT
1 ATTTTAATATAATAT
6111860 GTTGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTAATATAATATC
Found at i:6112331 original size:21 final size:20
Alignment explanation
Indices: 6112292--6112342 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
6112282 AACCATCATT
* *
6112292 TTTTAAAAAATTAATAAATA
1 TTTTATAAAATTAAAAAATA
6112312 TTTTATAAAATATAAAAAATA
1 TTTTATAAAAT-TAAAAAATA
* *
6112333 ATTAATAAAA
1 TTTTATAAAA
6112343 ATTACACGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTTATAAAATTAAAAAATA
Found at i:6113008 original size:54 final size:57
Alignment explanation
Indices: 6112935--6113215 Score: 270
Period size: 54 Copynumber: 4.8 Consensus size: 57
6112925 GGGTTTAGAA
6112935 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTAG-GA-T-TTAGG
1 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTAGTGATTGTTAGG
* * *
6112989 AAAAATTAAATTAGAGTATTATGTTTTTAATTGTTTAGGGTTTTA--AAAT-TTAGG
1 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTAGTGATTGTTAGG
* * * *
6113043 AAAATTTAAATTAAGGTATTATG-TTTTAATTGTTTAGGATTTTAGCGTTTTATTAGGGTTAGG
1 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTA--G--TGATT---GTTAGG
* * * *
6113106 AAAAATTATATTAGGGTATTAGGTTTTTAATTATTTAAGGTTTTATGGTTTGATTAGAGGTTAGG
1 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTA--G--TGATT----GTTAGG
*
6113171 AAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTA
1 AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTA
6113216 TGGTTTAATT
Statistics
Matches: 191, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
53 21 0.11
54 70 0.37
59 2 0.01
63 24 0.13
64 25 0.13
65 49 0.26
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (57 bp):
AAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTAGTGATTGTTAGG
Found at i:6113138 original size:25 final size:25
Alignment explanation
Indices: 6113109--6113156 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
6113099 GGTTAGGAAA
*
6113109 AATTATATTAGGGTATTA-GGTTTTT
1 AATTAT-TTAAGGTATTATGGTTTTT
*
6113134 AATTATTTAAGGTTTTATGGTTT
1 AATTATTTAAGGTATTATGGTTT
6113157 GATTAGAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (25 bp):
AATTATTTAAGGTATTATGGTTTTT
Found at i:6113184 original size:65 final size:64
Alignment explanation
Indices: 6113038--6113221 Score: 257
Period size: 65 Copynumber: 2.9 Consensus size: 64
6113028 GTTTTAAAAT
* * * *
6113038 TTAGGAAAATTTAAATTAAGGTATTATG-TTTTAATTGTTT-AGGATTTTA-GCGTTTTATTAGG
1 TTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGG-TTTTATG-GTTTGATTAGG
6113100 G
64 G
* *
6113101 TTAGGAAAAATTATATTAGGGTATTAGGTTTTTAATTATTTAAGGTTTTATGGTTTGATTAGAGG
1 TTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTATGGTTTGATTAG-GG
*
6113166 TTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTATGGTTT
1 TTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTATGGTTT
6113222 AATTTTTTTA
Statistics
Matches: 108, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
63 24 0.22
64 25 0.23
65 59 0.55
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (64 bp):
TTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTATGGTTTGATTAGGG
Found at i:6113370 original size:59 final size:59
Alignment explanation
Indices: 6113289--6113492 Score: 318
Period size: 59 Copynumber: 3.4 Consensus size: 59
6113279 TACAGTCACT
* * *
6113289 AATATATTTATACAAAACTATTCAAAAGAAATTCTATTTTATTAAATGAAACAATATAAA
1 AATA-ATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
* * *
6113349 AATAATTTGTACAAAAATATTCAGAAGAACTTCTATTTTATTAAATGAAAAAATATTAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
*
6113408 AATAATTTGTACAAAAATATTCAAAAGGACTTCTATTTTATTAAATGAAACAATATAAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
* *
6113467 AATAATTTTTACAAAAATATTAAAAA
1 AATAATTTGTACAAAAATATTCAAAA
6113493 ATAAATCAAG
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 128 0.97
60 4 0.03
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (59 bp):
AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
Found at i:6116513 original size:21 final size:21
Alignment explanation
Indices: 6116489--6116528 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6116479 TTAATTAATT
* *
6116489 TTTATATATTTTTTAAAAATA
1 TTTATATAATTTTAAAAAATA
*
6116510 TTTATTTAATTTTAAAAAA
1 TTTATATAATTTTAAAAAA
6116529 AAGTCAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATATAATTTTAAAAAATA
Found at i:6120770 original size:160 final size:160
Alignment explanation
Indices: 6120506--6120825 Score: 631
Period size: 160 Copynumber: 2.0 Consensus size: 160
6120496 TTCCAATAAA
*
6120506 AACATTGTATTAGAGAATGAAAATAAGCATGAACATGATGGTACACGTACAACATAGGCCCTCAT
1 AACATTGTATTAAAGAATGAAAATAAGCATGAACATGATGGTACACGTACAACATAGGCCCTCAT
6120571 TTAAAAAGTCTGACCCAAGCCAAACCCGTGTGTGAAAGGGACAGGCATAGAGAACTTACTTGCAT
66 TTAAAAAGTCTGACCCAAGCCAAACCCGTGTGTGAAAGGGACAGGCATAGAGAACTTACTTGCAT
6120636 GGTTGTTGTGATACTCATGCCGCCATCTTC
131 GGTTGTTGTGATACTCATGCCGCCATCTTC
6120666 AACATTGTATTAAAGAATGAAAATAAGCATGAACATGATGGTACACGTACAACATAGGCCCTCAT
1 AACATTGTATTAAAGAATGAAAATAAGCATGAACATGATGGTACACGTACAACATAGGCCCTCAT
6120731 TTAAAAAGTCTGACCCAAGCCAAACCCGTGTGTGAAAGGGACAGGCATAGAGAACTTACTTGCAT
66 TTAAAAAGTCTGACCCAAGCCAAACCCGTGTGTGAAAGGGACAGGCATAGAGAACTTACTTGCAT
6120796 GGTTGTTGTGATACTCATGCCGCCATCTTC
131 GGTTGTTGTGATACTCATGCCGCCATCTTC
6120826 TTCAGGGCGA
Statistics
Matches: 159, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 159 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (160 bp):
AACATTGTATTAAAGAATGAAAATAAGCATGAACATGATGGTACACGTACAACATAGGCCCTCAT
TTAAAAAGTCTGACCCAAGCCAAACCCGTGTGTGAAAGGGACAGGCATAGAGAACTTACTTGCAT
GGTTGTTGTGATACTCATGCCGCCATCTTC
Found at i:6123199 original size:24 final size:24
Alignment explanation
Indices: 6123142--6123235 Score: 79
Period size: 24 Copynumber: 3.9 Consensus size: 24
6123132 AAAAAAACTT
*
6123142 TATTTA-TATATTATTATTTACCTA
1 TATTTATTATATT-TTATTTACATA
6123166 TATCTATATTATATTTTA-TTACATAA
1 TAT-T-TATTATATTTTATTTACAT-A
* *
6123192 TATTTATTATATTTT-TTTATATT
1 TATTTATTATATTTTATTTACATA
* *
6123215 TTTTTATTATATTAT-TTTACA
1 TATTTATTATATTTTATTTACA
6123236 CTTTAATATA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
23 18 0.31
24 19 0.32
25 7 0.12
26 9 0.15
27 6 0.10
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTATTATATTTTATTTACATA
Found at i:6123219 original size:13 final size:14
Alignment explanation
Indices: 6123170--6123232 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 14
6123160 TACCTATATC
6123170 TATATTATATTTTAT
1 TATATTAT-TTTTAT
* * *
6123185 TACATAATATTTA-
1 TATATTATTTTTAT
6123198 T-TA-TATTTTT-T
1 TATATTATTTTTAT
6123209 TATATT-TTTTTAT
1 TATATTATTTTTAT
6123222 TATATTATTTT
1 TATATTATTTT
6123233 ACACTTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
11 6 0.16
12 8 0.22
13 9 0.24
14 8 0.22
15 6 0.16
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
TATATTATTTTTAT
Found at i:6123233 original size:13 final size:13
Alignment explanation
Indices: 6123177--6123233 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
6123167 ATCTATATTA
*
6123177 TATTTTATTACAT
1 TATTTTATTATAT
*
6123190 AATATTTATTATA-
1 TAT-TTTATTATAT
6123203 T-TTTT-TTATAT
1 TATTTTATTATAT
*
6123214 TTTTTTATTATAT
1 TATTTTATTATAT
6123227 TATTTTA
1 TATTTTA
6123234 CACTTTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 5 0.14
13 14 0.39
14 8 0.22
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTATAT
Found at i:6123837 original size:18 final size:18
Alignment explanation
Indices: 6123814--6123850 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6123804 TGTTGTTATG
6123814 TAACTAAGATTTGCTATA
1 TAACTAAGATTTGCTATA
6123832 TAACTAAGATTTGCTATA
1 TAACTAAGATTTGCTATA
6123850 T
1 T
6123851 TTATGTATGT
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:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TAACTAAGATTTGCTATA
Found at i:6130122 original size:33 final size:33
Alignment explanation
Indices: 6130085--6130162 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
6130075 TGGCCTTGCC
* *
6130085 ATGGTCTTACACTCGTAG-TGCCATAACCCAGTT
1 ATGGTCTTACACTC-AAGATGCCATAACCCAGCT
**
6130118 ATGGTCTTATCA-TCAAGATGCCATGGCCCAGCT
1 ATGGTCTTA-CACTCAAGATGCCATAACCCAGCT
6130151 ATGGTCTTACAC
1 ATGGTCTTACAC
6130163 GTATTCATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 4 0.11
33 32 0.84
34 2 0.05
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (33 bp):
ATGGTCTTACACTCAAGATGCCATAACCCAGCT
Found at i:6133760 original size:30 final size:30
Alignment explanation
Indices: 6133724--6133783 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
6133714 ATTCTAGAGA
6133724 TAGAGAACTTAACCCATGAACCCGTCTCGT
1 TAGAGAACTTAACCCATGAACCCGTCTCGT
*
6133754 TAGAGAACTTAACCTATGAACCCGTCTCGT
1 TAGAGAACTTAACCCATGAACCCGTCTCGT
6133784 GGGTTCTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (30 bp):
TAGAGAACTTAACCCATGAACCCGTCTCGT
Found at i:6138235 original size:22 final size:23
Alignment explanation
Indices: 6138210--6138253 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
6138200 AAATGGTAGC
*
6138210 AAAATAATTAAAAAA-CAACAAG
1 AAAATAATAAAAAAAGCAACAAG
6138232 AAAATAATAAAAAAAGCAACAA
1 AAAATAATAAAAAAAGCAACAA
6138254 TTTTTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.75, C:0.09, G:0.05, T:0.11
Consensus pattern (23 bp):
AAAATAATAAAAAAAGCAACAAG
Found at i:6138843 original size:72 final size:73
Alignment explanation
Indices: 6138756--6138919 Score: 258
Period size: 73 Copynumber: 2.3 Consensus size: 73
6138746 TCATCTATAC
* *
6138756 CCTTCTCCCTCTTTTTCATTCTCATGTCTGAAGCATCTTC-TTATTTTCATTCTTCTTCCCATTT
1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTATTTTCATTCTTCTACCCATTT
6138820 CCTTCCAA
66 CCTTCCAA
* * *
6138828 CCTTCTCTCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTTCATTCTTCTACCTATTT
1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTATTTTCATTCTTCTACCCATTT
*
6138893 CCTTCTAA
66 CCTTCCAA
*
6138901 CATTCTCCCTCTTTTTCAT
1 CCTTCTCCCTCTTTTTCAT
6138920 GCTTCTATCC
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 38 0.46
73 45 0.54
ACGTcount: A:0.13, C:0.32, G:0.04, T:0.51
Consensus pattern (73 bp):
CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTATTTTCATTCTTCTACCCATTT
CCTTCCAA
Found at i:6141914 original size:33 final size:33
Alignment explanation
Indices: 6141875--6141941 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
6141865 AACTCTTGTT
6141875 TCCATCATGGATGTTTGAATTTGATCAAATTGG
1 TCCATCATGGATGTTTGAATTTGATCAAATTGG
*
6141908 TCCATCATGGATGTTTGGATTTGATCAAATTGG
1 TCCATCATGGATGTTTGAATTTGATCAAATTGG
6141941 T
1 T
6141942 TGGTTTAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.40
Consensus pattern (33 bp):
TCCATCATGGATGTTTGAATTTGATCAAATTGG
Found at i:6142020 original size:43 final size:43
Alignment explanation
Indices: 6141959--6142044 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
6141949 ATCAGGAATT
6141959 GGTTGGGTATAAAGTTGGAAAAGACATCAAATTGGTTGCCTTA
1 GGTTGGGTATAAAGTTGGAAAAGACATCAAATTGGTTGCCTTA
* *
6142002 GGTTGGGTATCAAGTTGGAAAAGGCATCAAATTGGTTGCCTTA
1 GGTTGGGTATAAAGTTGGAAAAGACATCAAATTGGTTGCCTTA
6142045 TTGATTCGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.30
Consensus pattern (43 bp):
GGTTGGGTATAAAGTTGGAAAAGACATCAAATTGGTTGCCTTA
Found at i:6142472 original size:17 final size:17
Alignment explanation
Indices: 6142452--6142484 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6142442 ATTAAGAATG
6142452 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
6142469 TTATTAAATTATATTT
1 TTATTAAATTATATTT
6142485 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:6142755 original size:16 final size:16
Alignment explanation
Indices: 6142731--6142801 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
6142721 TAAATTACTG
6142731 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
6142747 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
6142763 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
6142779 ATTACATCCCTATTCA
1 ATTACAGCTCTATTCA
6142795 ATTACAG
1 ATTACAG
6142802 TGAACTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:6143584 original size:7 final size:8
Alignment explanation
Indices: 6143563--6143589 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6143553 AAGTAGATAT
6143563 AATTTTTA
1 AATTTTTA
6143571 AATTTTTA
1 AATTTTTA
6143579 AATTTTTA
1 AATTTTTA
6143587 AAT
1 AAT
6143590 GTTAAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
AATTTTTA
Found at i:6143707 original size:17 final size:19
Alignment explanation
Indices: 6143680--6143718 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6143670 TAAATAAAAA
*
6143680 TTTACTTTTAA-ATTATTT
1 TTTACTTTTAAGATAATTT
6143698 TTTA-TTTTAAGATAATTT
1 TTTACTTTTAAGATAATTT
6143716 TTT
1 TTT
6143719 TAATGAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTACTTTTAAGATAATTT
Found at i:6144310 original size:11 final size:11
Alignment explanation
Indices: 6144296--6144331 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
6144286 TTTCTACGTT
6144296 TTTTGTTTTTG
1 TTTTGTTTTTG
6144307 TTTTG-TTTTG
1 TTTTGTTTTTG
*
6144317 TTTTTTTTTTG
1 TTTTGTTTTTG
6144328 TTTT
1 TTTT
6144332 TGGTAAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTGTTTTTG
Found at i:6144315 original size:16 final size:16
Alignment explanation
Indices: 6144296--6144331 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6144286 TTTCTACGTT
6144296 TTTTGTTTTTGTTTTG
1 TTTTGTTTTTGTTTTG
*
6144312 TTTTGTTTTTTTTTTG
1 TTTTGTTTTTGTTTTG
6144328 TTTT
1 TTTT
6144332 TGGTAAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (16 bp):
TTTTGTTTTTGTTTTG
Found at i:6144589 original size:15 final size:15
Alignment explanation
Indices: 6144569--6144604 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6144559 TTTAATTCTT
*
6144569 TATAAATTATAAAAA
1 TATAAACTATAAAAA
6144584 TATAAACTATAAAAA
1 TATAAACTATAAAAA
*
6144599 TTTAAA
1 TATAAA
6144605 ATTTCATCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:6154530 original size:10 final size:9
Alignment explanation
Indices: 6154483--6154697 Score: 80
Period size: 10 Copynumber: 22.7 Consensus size: 9
6154473 CATTTGACAA
*
6154483 AAAAATGAT
1 AAAAATTAT
6154492 AAAAA-T-T
1 AAAAATTAT
*
6154499 AAAAATCAAT
1 AAAAAT-TAT
**
6154509 AAAGGTTAT
1 AAAAATTAT
6154518 AAAAATTATT
1 AAAAATTA-T
**
6154528 AAATTTTAAT
1 AAAAATT-AT
6154538 AATAAAATATAT
1 -A-AAAAT-TAT
6154550 AAAATATT-T
1 AAAA-ATTAT
*
6154559 AAAACTTACT
1 AAAAATTA-T
*
6154569 AAAAATTAG
1 AAAAATTAT
*
6154578 AAAAAATAT
1 AAAAATTAT
*
6154587 AAAAATCAT
1 AAAAATTAT
*
6154596 AAAAAATTGT
1 -AAAAATTAT
*
6154606 AAAATTTTAT
1 AAAA-ATTAT
*
6154616 AAAAATCAT
1 AAAAATTAT
6154625 AAAATATTAT
1 AAAA-ATTAT
6154635 -AAAATATAT
1 AAAAAT-TAT
* *
6154644 AGAAATGTAG
1 AAAAAT-TAT
*
6154654 AAAAAATAT
1 AAAAATTAT
*
6154663 -AAAATTTT
1 AAAAATTAT
* *
6154671 ATAAAGTCAT
1 A-AAAATTAT
6154681 AAGAAAATTAT
1 -A-AAAATTAT
6154692 AAAAAT
1 AAAAAT
6154698 ATGTAAAGAA
Statistics
Matches: 148, Mismatches: 39, Indels: 38
0.66 0.17 0.17
Matches are distributed among these distances:
7 6 0.04
8 10 0.07
9 56 0.38
10 58 0.39
11 12 0.08
12 5 0.03
13 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6154591 original size:19 final size:19
Alignment explanation
Indices: 6154569--6154666 Score: 58
Period size: 19 Copynumber: 5.2 Consensus size: 19
6154559 AAAACTTACT
6154569 AAAAATTAGAAAAAATAT-
1 AAAAATTAGAAAAAATATA
* * *
6154587 AAAAATCATAAAAAATTGTA
1 AAAAATTAGAAAAAA-TATA
** *
6154607 AAATTTTA-TAAAAATCATA
1 AAAAATTAGAAAAAAT-ATA
* * *
6154626 AAATATTATAAAATATAT-
1 AAAAATTAGAAAAAATATA
*
6154644 AGAAATGTAGAAAAAATATA
1 AAAAAT-TAGAAAAAATATA
6154664 AAA
1 AAA
6154667 TTTTATAAAG
Statistics
Matches: 58, Mismatches: 16, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
18 18 0.31
19 28 0.48
20 12 0.21
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAAATTAGAAAAAATATA
Found at i:6154601 original size:29 final size:29
Alignment explanation
Indices: 6154569--6154649 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 29
6154559 AAAACTTACT
6154569 AAAAATTAG-AAAA-AATATAAAAATCATA
1 AAAAATT-GTAAAATAATATAAAAATCATA
**
6154597 AAAAATTGTAAAATTTTATAAAAATCATA
1 AAAAATTGTAAAATAATATAAAAATCATA
* * *
6154626 AAATATTATAAAAT-ATATAGAAAT
1 AAAAATTGTAAAATAATATAAAAAT
6154650 GTAGAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.02
28 19 0.42
29 25 0.56
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (29 bp):
AAAAATTGTAAAATAATATAAAAATCATA
Found at i:6154692 original size:29 final size:28
Alignment explanation
Indices: 6154592--6154695 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 28
6154582 AATATAAAAA
* *
6154592 TCATAAAAAATTGTAAAATTTTATAAAAA
1 TCATAAAAAATTATAAAATTTTAT-AAAG
* * *
6154621 TCATAAAATATTATAAAATATATAGAAATG
1 TCATAAAAAATTATAAAAT-TTTATAAA-G
*
6154651 T-AGAAAAAA-TATAAAATTTTATAAAG
1 TCATAAAAAATTATAAAATTTTATAAAG
6154677 TCATAAGAAAATTATAAAA
1 TCATAA-AAAATTATAAAA
6154696 ATATGTAAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
26 2 0.03
27 9 0.15
28 12 0.20
29 33 0.55
30 4 0.07
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.32
Consensus pattern (28 bp):
TCATAAAAAATTATAAAATTTTATAAAG
Found at i:6154696 original size:38 final size:39
Alignment explanation
Indices: 6154539--6154696 Score: 113
Period size: 38 Copynumber: 4.2 Consensus size: 39
6154529 AATTTTAATA
*
6154539 ATAAAATAT-ATAAAATATT-TAAAACT-TACTA-AAAATT
1 ATAAAAAATCATAAAATATTATAAAA-TATA-TAGAAAATT
* * *
6154576 AGAAAAAAT-ATAAAA-ATCATAAAA-A-ATTGTAAAATT
1 ATAAAAAATCATAAAATATTATAAAATATATAG-AAAATT
*
6154612 TTATAAAAATCATAAAATATTATAAAATATATAG-AAATGT
1 ATA-AAAAATCATAAAATATTATAAAATATATAGAAAAT-T
* * *
6154652 AGAAAAAAT-ATAAAATTTTATAAAGTCATA-AGAAAATT
1 ATAAAAAATCATAAAATATTATAAAAT-ATATAGAAAATT
6154690 ATAAAAA
1 ATAAAAA
6154697 TATGTAAAGA
Statistics
Matches: 96, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
34 1 0.01
35 1 0.01
36 9 0.09
37 24 0.25
38 30 0.31
39 25 0.26
40 3 0.03
41 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (39 bp):
ATAAAAAATCATAAAATATTATAAAATATATAGAAAATT
Found at i:6154729 original size:20 final size:21
Alignment explanation
Indices: 6154681--6154738 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 21
6154671 ATAAAGTCAT
6154681 AAGAAAATTATAAAAATATGTA
1 AAGAAAA-TATAAAAATATGTA
6154703 AAG-AAATAT-AAAAT-TCGTA
1 AAGAAAATATAAAAATAT-GTA
*
6154722 AAGAAAATTACAAAAAT
1 AAGAAAA-TATAAAAAT
6154739 TATCGTACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.03
19 11 0.35
20 6 0.19
21 5 0.16
22 8 0.26
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (21 bp):
AAGAAAATATAAAAATATGTA
Found at i:6157487 original size:243 final size:246
Alignment explanation
Indices: 6156995--6157601 Score: 868
Period size: 243 Copynumber: 2.5 Consensus size: 246
6156985 ATTGTCAGAA
* * * *
6156995 ATTGCTCAAGGTAATGATGATCCAAGATGAATGCCCT-TTCGTTTACCACTGCCTGCCATATAGT
1 ATTGCTCAAGG--ATGGTGATCCAAGATGAATGCCCTATTGGCTT-CCATTGCCTGCCATATAGT
* *
6157059 GTTGTGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAATTTGTTTTTCTT
63 GTTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACAT-AACTTGTTTTTCTT
* * * * *
6157124 TTTTACCAAATACACATCTAGCAATTGCGGCTGTTTATGCTTCTTTCCCTGTAGAACCTGCAACG
127 TTTTACCAAATACAAATCTAGCAATTGCGACTGTTAATGCTTATTTCCCAGTAGAACCTGCAACG
**
6157189 TTTAAAATACTGGATTGTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
192 TTTAAAATACTGGATCCTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
* *
6157244 ATTGCTCAAGG-T-GTGATCCAAGATGAATGCACTATTGGCTTCAATTGCCTGCCATATAGTGTT
1 ATTGCTCAAGGATGGTGATCCAAGATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTGTT
6157307 ATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAACTTG-TTTTCTTTTTT
66 ATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAACTTGTTTTTCTTTTTT
*** * * *
6157371 ACCTTTTTCAAATTTTGCAATTGCGACTGGTTAAT-CTTATTGT-CCAGCT-GAACCTGCAACGT
131 ACCAAATACAAATCTAGCAATTGCGACT-GTTAATGCTTATT-TCCCAG-TAGAACCTGCAACGT
*
6157433 TTAAAATATTGGATCCTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
193 TTAAAATACTGGATCCTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
*
6157487 ATTGCTCAAGGTAATGGAGATCCAAGATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTG
1 ATTGCTCAAGG--ATGGTGATCCAAGATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTG
*
6157552 TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAGATACATA
64 TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATA
6157602 TCTCTGCAAA
Statistics
Matches: 324, Mismatches: 26, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
243 114 0.35
244 12 0.04
245 85 0.26
246 7 0.02
247 95 0.29
249 11 0.03
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (246 bp):
ATTGCTCAAGGATGGTGATCCAAGATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTGTT
ATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAACTTGTTTTTCTTTTTT
ACCAAATACAAATCTAGCAATTGCGACTGTTAATGCTTATTTCCCAGTAGAACCTGCAACGTTTA
AAATACTGGATCCTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
Found at i:6162377 original size:239 final size:239
Alignment explanation
Indices: 6161953--6162564 Score: 1116
Period size: 239 Copynumber: 2.6 Consensus size: 239
6161943 TATGTAATCT
* * *
6161953 GTCACCGGAACAGGGTTACAAGATGTTACCGATGTTTACGAAATAGTTACACAAAATTCCATTAT
1 GTCACCGGAACAGGGTTACAAGATGTTACCGATGTTTACGGAATAATTACACAAAATTCCATTAA
6162018 TTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTATTAATATCTTGAGC
66 TTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTATTAATATCTTGAGC
6162083 TACTGATGCACAAGGATGTACATATCATAGCAACAAAAGGCATCACAGGTCAGAGGATAGTAACA
131 TACTGATGCACAAGGATGTACATATCATAGCAACAAAAGGCATCACAGGTCAGAGGATAGTAACA
*
6162148 ACCAGTTTTGCATATGTATTATGTAACACCTCTAACCCACATCC
196 ACCAGTTTTGCATACGTATTATGTAACACCTCTAACCCACATCC
*
6162192 GTCACCGGAACAGGGTTACAAGATGTTATCGATGTTTACGGAATAATTACACAAAATTCCATTAA
1 GTCACCGGAACAGGGTTACAAGATGTTACCGATGTTTACGGAATAATTACACAAAATTCCATTAA
6162257 TTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTATTAATATCTTGAGC
66 TTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTATTAATATCTTGAGC
*
6162322 TACTGATGCACAAGGATGTACATATCATAGCAACAAAAGGCATCACAGTTCAGAGGATAGTAACA
131 TACTGATGCACAAGGATGTACATATCATAGCAACAAAAGGCATCACAGGTCAGAGGATAGTAACA
* *
6162387 ACCGGTTTTGCATACGTATTATGTAACAGCTCTAACCCACATCC
196 ACCAGTTTTGCATACGTATTATGTAACACCTCTAACCCACATCC
*
6162431 GTCACCGGAACAGGGTTACAAGATGTTACCGAAGTTTACGGAATAATTACACAAAAATTCCATTA
1 GTCACCGGAACAGGGTTACAAGATGTTACCGATGTTTACGGAATAATTACAC-AAAATTCCATTA
* *
6162496 ATTACTTATATTCACATCAAAACTGTCCACTCGAGTCATACTCACTAAATTATTAATATCTTGAG
65 ATTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTATTAATATCTTGAG
6162561 CTAC
130 CTAC
6162565 GGAACTCAAA
Statistics
Matches: 360, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
239 281 0.78
240 79 0.22
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (239 bp):
GTCACCGGAACAGGGTTACAAGATGTTACCGATGTTTACGGAATAATTACACAAAATTCCATTAA
TTACTTATATTCACATCAAAGCTGTCCACTCGAGTCATAGTCACTAAATTATTAATATCTTGAGC
TACTGATGCACAAGGATGTACATATCATAGCAACAAAAGGCATCACAGGTCAGAGGATAGTAACA
ACCAGTTTTGCATACGTATTATGTAACACCTCTAACCCACATCC
Found at i:6163636 original size:35 final size:35
Alignment explanation
Indices: 6163519--6163677 Score: 159
Period size: 35 Copynumber: 4.7 Consensus size: 35
6163509 TCCTCATTGA
* * * *
6163519 AATATCATACCTACATTTTACAACTCGGTATGGAA
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* * **
6163554 AATGCCATACCTACGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* *
6163589 AATA-C---CGT--ATTTCACAACTCAGTATGGTT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
6163618 AATACCATACCTACATTTCACAATTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* *
6163653 GATACCATACCTACGTTTCACAACT
1 AATACCATACCTACATTTCACAACT
6163678 TTGCCATGGA
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
29 21 0.21
30 1 0.01
31 2 0.02
33 2 0.02
34 1 0.01
35 71 0.72
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:6163646 original size:64 final size:64
Alignment explanation
Indices: 6163533--6163658 Score: 162
Period size: 64 Copynumber: 2.0 Consensus size: 64
6163523 TCATACCTAC
* * * * **
6163533 ATTTTACAACTCGGTATGGAAAATGCCATACCTACGTTTCTTAACTCAGTATGGATAATACCGT
1 ATTTCACAACTCAGTATGGAAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCGT
** * *
6163597 ATTTCACAACTCAGTATGGTTAATACCATACCTACATTTCACAATTCAGTATGGATGATACC
1 ATTTCACAACTCAGTATGGAAAATACCATACCTACATTTCACAACTCAGTATGGATAATACC
6163659 ATACCTACGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (64 bp):
ATTTCACAACTCAGTATGGAAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCGT
Found at i:6169794 original size:17 final size:18
Alignment explanation
Indices: 6169772--6169805 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6169762 AGTCAAATTG
6169772 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
6169789 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
6169806 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:6171720 original size:46 final size:45
Alignment explanation
Indices: 6171670--6171845 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
6171660 TGGTTGAGCA
6171670 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
6171716 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
6171761 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
6171809 CCCGAGCTCATTGAATTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6171846 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.28
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:6171828 original size:93 final size:93
Alignment explanation
Indices: 6171667--6171838 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
6171657 GGATGGTTGA
* * * * *
6171667 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAAT
6171732 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
6171760 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAACGCCCGAGCTCATTGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAAT
6171825 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
6171839 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAAT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:6172776 original size:10 final size:10
Alignment explanation
Indices: 6172761--6172806 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
6172751 ATAGTAAAAT
6172761 ATAAATACAA-
1 ATAAATA-AAG
6172771 ATAAATAAAG
1 ATAAATAAAG
6172781 ATAAATAAAG
1 ATAAATAAAG
6172791 ATAAATGAAA-
1 ATAAAT-AAAG
6172801 ATAAAT
1 ATAAAT
6172807 CTTAAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 2 0.06
10 29 0.85
11 3 0.09
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:6174311 original size:18 final size:18
Alignment explanation
Indices: 6174288--6174390 Score: 71
Period size: 18 Copynumber: 5.4 Consensus size: 18
6174278 ACATCGTGAT
6174288 CTGAAGCCCGAAGTCTAA
1 CTGAAGCCCGAAGTCTAA
**
6174306 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT-CT-AA
* *
6174327 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
**
6174345 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT-CT-AA
* *
6174366 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
*
6174384 TTGAAGC
1 CTGAAGC
6174391 TCACCAGAGC
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
18 22 0.35
19 13 0.21
20 12 0.19
21 16 0.25
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (18 bp):
CTGAAGCCCGAAGTCTAA
Found at i:6174332 original size:21 final size:21
Alignment explanation
Indices: 6174308--6174372 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
6174298 AAGTCTAACT
6174308 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
6174329 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
6174347 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
6174368 GAAGC
1 GAAGC
6174373 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:6174345 original size:39 final size:39
Alignment explanation
Indices: 6174290--6174390 Score: 184
Period size: 39 Copynumber: 2.6 Consensus size: 39
6174280 ATCGTGATCT
*
6174290 GAAGCCCGAAGTCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
6174329 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
6174368 GAAGCCCGAAGGCTAATTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
6174391 TCACCAGAGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:6174833 original size:21 final size:22
Alignment explanation
Indices: 6174793--6174833 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6174783 TTCCAAATAA
* *
6174793 AACATTATATCGTTTCTAATTC
1 AACATTATATCGATTATAATTC
6174815 AACATT-TATCGATTATAAT
1 AACATTATATCGATTATAAT
6174834 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.44
Consensus pattern (22 bp):
AACATTATATCGATTATAATTC
Found at i:6175631 original size:16 final size:18
Alignment explanation
Indices: 6175600--6175634 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
6175590 CAATTAACCC
6175600 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
6175618 CTCAATT-A-ATAATTTT
1 CTCAATTAAGATAATTTT
6175634 C
1 C
6175635 CTAAACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:6177658 original size:5 final size:5
Alignment explanation
Indices: 6177648--6177756 Score: 82
Period size: 5 Copynumber: 21.6 Consensus size: 5
6177638 TTAATATCCA
* * *
6177648 AAAAT AAAAT AATAA- ATAAT AAAAT AAAGT AAAAT AAAAT AAAAAT ACTAAT
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT A-AAAT
* * * *
6177700 AAAAT AAAAT GAAAT AAAAT AATAA- ACAAT AAAATT AAGA- AAAGT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT AAAA-T AAAAT AAAAT AAAAT
6177749 AAAAT AAA
1 AAAAT AAA
6177757 GGTTGGGTTG
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
4 10 0.12
5 54 0.67
6 17 0.21
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:6177700 original size:27 final size:28
Alignment explanation
Indices: 6177648--6177725 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 28
6177638 TTAATATCCA
*
6177648 AAAATAAAATAATAAATAATAAAATAAAGT
1 AAAATAAAATAA-AAATAAT-AAATAAAAT
*
6177678 AAAATAAAATAAAAATACT-AATAAAAT
1 AAAATAAAATAAAAATAATAAATAAAAT
*
6177705 AAAATGAAAT-AAAATAATAAA
1 AAAATAAAATAAAAATAATAAA
6177726 CAATAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 7 0.16
27 18 0.42
29 6 0.14
30 12 0.28
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (28 bp):
AAAATAAAATAAAAATAATAAATAAAAT
Found at i:6180758 original size:17 final size:18
Alignment explanation
Indices: 6180736--6180769 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6180726 AGTTAAATTG
6180736 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
6180753 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
6180770 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:6181502 original size:10 final size:10
Alignment explanation
Indices: 6181483--6181532 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
6181473 TTAAATACTA
6181483 AAAGATAAAT
1 AAAGATAAAT
6181493 ACAA-ATAAAT
1 A-AAGATAAAT
6181503 AAAGATAAAT
1 AAAGATAAAT
6181513 AAAGATAAAT
1 AAAGATAAAT
6181523 GAAA-ATAAAT
1 -AAAGATAAAT
6181533 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:6183147 original size:12 final size:12
Alignment explanation
Indices: 6183130--6183161 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
6183120 CAGCCTGCTC
6183130 ATATTAATTTTT
1 ATATTAATTTTT
6183142 ATATT-ATTTTT
1 ATATTAATTTTT
6183153 ATA-TAATTT
1 ATATTAATTT
6183162 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:6183421 original size:21 final size:20
Alignment explanation
Indices: 6183395--6183446 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
6183385 CAAAATAGAG
6183395 AAAAAATAGCAAGAAAATAAT
1 AAAAAATAGCAA-AAAATAAT
6183416 AAAAAATAGCAAAAAA-AAGT
1 AAAAAATAGCAAAAAATAA-T
6183436 AAAAAA-AGCAA
1 AAAAAATAGCAA
6183447 CAATTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.23
20 11 0.37
21 12 0.40
ACGTcount: A:0.75, C:0.06, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAAAATAGCAAAAAATAAT
Found at i:6184801 original size:18 final size:17
Alignment explanation
Indices: 6184739--6184804 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
6184729 CAAATAAAAT
6184739 AAATAGATATTTAAA--A
1 AAATAGA-ATTTAAATTA
6184755 AAATTA-AATTTAAATTA
1 AAA-TAGAATTTAAATTA
*
6184772 AAATAGATTTTATAATT-
1 AAATAGAATTTA-AATTA
6184789 AAATAGTAATTTAAAT
1 AAATAG-AATTTAAAT
6184805 CAAATTTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
15 7 0.17
16 6 0.14
17 20 0.48
18 9 0.21
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (17 bp):
AAATAGAATTTAAATTA
Found at i:6184809 original size:17 final size:16
Alignment explanation
Indices: 6184735--6184809 Score: 57
Period size: 17 Copynumber: 4.6 Consensus size: 16
6184725 TAAACAAATA
6184735 AAAT-AAATAGATATTT
1 AAATAAAATAGA-ATTT
6184751 AAA-AAAATTA-AATTT
1 AAATAAAA-TAGAATTT
*
6184766 AAATTAAAATAGATTTT
1 AAA-TAAAATAGAATTT
*
6184783 ATAATTAAATAGTAATTT
1 A-AATAAAATAG-AATTT
*
6184801 AAATCAAAT
1 AAATAAAAT
6184810 TTAGAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
15 7 0.15
16 9 0.19
17 25 0.52
18 7 0.15
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (16 bp):
AAATAAAATAGAATTT
Found at i:6185807 original size:23 final size:23
Alignment explanation
Indices: 6185781--6185874 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
6185771 AAGTTAGAAG
6185781 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
6185804 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
6185827 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
6185850 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
6185873 AG
1 AG
6185875 ATACCCACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:6190313 original size:23 final size:23
Alignment explanation
Indices: 6190287--6190380 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
6190277 AAGTTAGAAG
6190287 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
6190310 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
6190333 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
6190356 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
6190379 AG
1 AG
6190381 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:6192514 original size:18 final size:18
Alignment explanation
Indices: 6192487--6192521 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6192477 ACATGATTAG
*
6192487 TAATTGGATTTAATCAAA
1 TAATTAGATTTAATCAAA
6192505 TAATTAGATTTAATCAA
1 TAATTAGATTTAATCAA
6192522 TAGTATTTAA
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:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (18 bp):
TAATTAGATTTAATCAAA
Found at i:6192596 original size:30 final size:30
Alignment explanation
Indices: 6192545--6192634 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
6192535 TTTGGGCCAG
* *
6192545 GACTAAAATT-TTAAAATTTGAAAAATACAA
1 GACTAAAATTGATCAAA-TTGAAAAATACAA
* *
6192575 GACTAAAATTGATCAAATTGAAAAGTATAA
1 GACTAAAATTGATCAAATTGAAAAATACAA
* *
6192605 GAACAATAACATTGATCAAATTAAAAAATA
1 G-AC--TAAAATTGATCAAATTGAAAAATA
6192635 TGGACTAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
30 22 0.45
31 6 0.12
33 21 0.43
ACGTcount: A:0.57, C:0.08, G:0.09, T:0.27
Consensus pattern (30 bp):
GACTAAAATTGATCAAATTGAAAAATACAA
Found at i:6200495 original size:17 final size:17
Alignment explanation
Indices: 6200459--6200496 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
6200449 AATTAATAAA
*
6200459 AAATATATAAAATTATT
1 AAATATATAAAATAATT
6200476 AAATAT-TAAAATAATGT
1 AAATATATAAAATAAT-T
6200493 AAAT
1 AAAT
6200497 TTTTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AAATATATAAAATAATT
Found at i:6203030 original size:21 final size:20
Alignment explanation
Indices: 6203006--6203073 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 20
6202996 TATATAGAAA
6203006 TATAGAAAAAATTTAGAAAAT
1 TATA-AAAAAATTTAGAAAAT
*
6203027 TAT-ATAAAATTGTAAGAAAAT
1 TATAAAAAAATT-T-AGAAAAT
* *
6203048 TATAAAAAAATGTA-AAAAA
1 TATAAAAAAATTTAGAAAAT
6203067 TATAAAA
1 TATAAAA
6203074 TTCGTAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 18 0.45
20 2 0.05
21 14 0.35
22 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (20 bp):
TATAAAAAAATTTAGAAAAT
Found at i:6203035 original size:19 final size:20
Alignment explanation
Indices: 6203012--6203097 Score: 74
Period size: 21 Copynumber: 4.3 Consensus size: 20
6203002 GAAATATAGA
6203012 AAAAATT-T-AGAAAATTAT
1 AAAAATTGTAAGAAAATTAT
6203030 ATAAAATTGTAAGAAAATTAT
1 A-AAAATTGTAAGAAAATTAT
*
6203051 AAAAAAATGTAA-AAAA-TAT
1 -AAAAATTGTAAGAAAATTAT
* *
6203070 -AAAATTCGTAAAAAAAATTAC
1 AAAAATT-GT-AAGAAAATTAT
6203091 AAAAATT
1 AAAAATT
6203098 ATCGTACCAA
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
17 5 0.09
18 3 0.05
19 11 0.20
20 9 0.16
21 21 0.38
22 7 0.12
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (20 bp):
AAAAATTGTAAGAAAATTAT
Found at i:6203056 original size:10 final size:10
Alignment explanation
Indices: 6202883--6203073 Score: 64
Period size: 10 Copynumber: 19.6 Consensus size: 10
6202873 TTAAATTTTA
6202883 ATAACAAAATAT
1 ATAA-AAAAT-T
*
6202895 ATAAAATATT
1 ATAAAAAATT
*
6202905 -T-AAAACTT
1 ATAAAAAATT
*
6202913 ATTAAAAATT
1 ATAAAAAATT
* *
6202923 AGAAAAAAAT
1 ATAAAAAATT
6202933 AT-AAAAA-T
1 ATAAAAAATT
6202941 AT-AAAAATCGT
1 ATAAAAAAT--T
*
6202952 A-AAAAAAGT
1 ATAAAAAATT
*
6202961 GT--AAAATT
1 ATAAAAAATT
* * *
6202969 TTACAAATATC
1 ATA-AAAAATT
*
6202980 ATAAAATATT
1 ATAAAAAATT
*
6202990 ATAAAATA-T
1 ATAAAAAATT
*
6202999 AT-AGAAATAT
1 ATAAAAAAT-T
*
6203009 AGAAAAAATT
1 ATAAAAAATT
*
6203019 -TAGAAAATT
1 ATAAAAAATT
*
6203028 ATATAAAATT
1 ATAAAAAATT
*
6203038 GTAAGAAAATT
1 ATAA-AAAATT
*
6203049 ATAAAAAAAT
1 ATAAAAAATT
*
6203059 GTAAAAAA-T
1 ATAAAAAATT
6203068 ATAAAA
1 ATAAAA
6203074 TTCGTAAAAA
Statistics
Matches: 135, Mismatches: 29, Indels: 33
0.69 0.15 0.17
Matches are distributed among these distances:
8 22 0.16
9 24 0.18
10 54 0.40
11 31 0.23
12 4 0.03
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:6203638 original size:86 final size:85
Alignment explanation
Indices: 6203538--6203715 Score: 223
Period size: 85 Copynumber: 2.1 Consensus size: 85
6203528 TTTGACGGCA
* * * * * **
6203538 TTTTTTATTAATTTTGACAGTTTAAGTACTCAAATCAGTGTAAAAAAAAGTAGGGCTTAATTGTT
1 TTTTTTATGAATTTTGAAAGTTTAAATAC-CAAATCAGTGTAAAAAAAAGGA-GACTTAATTACT
**
6203603 TTTTTTGAAAAAATTTG-AGAT
64 TTTTTTGAAAAAATCCGAAGAT
* * *
6203624 TTTTTTATGCATTTTGAAAGTTTAAATACCAATTGAGTGTAAAAAAAAGGAGACTTAATTACTTT
1 TTTTTTATGAATTTTGAAAGTTTAAATACCAAATCAGTGTAAAAAAAAGGAGACTTAATTACTTT
6203689 TTTTGAAAAAATCCGAAGAT
66 TTTTGAAAAAATCCGAAGAT
6203709 TTTTTTA
1 TTTTTTA
6203716 CAACTTTAAG
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
84 24 0.30
85 30 0.38
86 25 0.32
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (85 bp):
TTTTTTATGAATTTTGAAAGTTTAAATACCAAATCAGTGTAAAAAAAAGGAGACTTAATTACTTT
TTTTGAAAAAATCCGAAGAT
Found at i:6206092 original size:248 final size:248
Alignment explanation
Indices: 6205654--6206256 Score: 996
Period size: 248 Copynumber: 2.4 Consensus size: 248
6205644 ATTGTCAGAA
* *
6205654 ATTGCTCAAGGTAATGATGATCCAAGATGAATGCCCTATTGGCTTCAATTGCCTGCCATATAGTG
1 ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCTAGTGGCTTCAATTGCCTGCCATATAGTG
6205719 TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAACTTGTTTTCTTTT
66 TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAACTTGTTTTCTTTT
* * * * *
6205784 TTACCTTAAACACATCTAGCAATTGCGGCTGTTTAAGCTTCTTTCCCTGTAGAACCTGCAACGTT
131 TTACCTTAAACAAATCTAGCAATTGCGACTGGTTAAGCTTATTTCCCAGTAGAACCTGCAACGTT
*
6205849 TAAAATACTGGTTTATAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
196 TAAAATACTGGATTATAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
6205902 ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCTAGTGGCTTCAATTGCCTGCCATATAGTG
1 ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCTAGTGGCTTCAATTGCCTGCCATATAGTG
*
6205967 TCATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAACTTGTTTTCTTTT
66 TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAACTTGTTTTCTTTT
**** * *
6206032 TTACCTTTTTGAAATCTTGCAATTGCGACTGGTTAATCTTATTGT-CCAGCT-GAACCTGCAACG
131 TTACCTTAAACAAATCTAGCAATTGCGACTGGTTAAGCTTATT-TCCCAG-TAGAACCTGCAACG
* *
6206095 TTTAAAATACTGGATTGTAAGCTCAAACATTATATGTTATAAACCTAGGAGAGAG
194 TTTAAAATACTGGATTATAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
*
6206150 ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCT-GTTGGCTTCCATTGCCTGCCATATAGT
1 ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCTAG-TGGCTTCAATTGCCTGCCATATAGT
6206214 GTTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGA
65 GTTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGA
6206257 GACACATATC
Statistics
Matches: 333, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
247 1 0.00
248 330 0.99
249 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (248 bp):
ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCTAGTGGCTTCAATTGCCTGCCATATAGTG
TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAACTTGTTTTCTTTT
TTACCTTAAACAAATCTAGCAATTGCGACTGGTTAAGCTTATTTCCCAGTAGAACCTGCAACGTT
TAAAATACTGGATTATAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
Found at i:6215527 original size:93 final size:93
Alignment explanation
Indices: 6215420--6215646 Score: 337
Period size: 93 Copynumber: 2.4 Consensus size: 93
6215410 CTATCGAATG
* * *** *
6215420 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAGCTGCTATGTAAACTTTTTATGTACACT
1 TGAAAAGGAAAGGTATACTCTGTGTGTACCACATGAAAAGGCTATGTAAACTTTGTATGTACACT
6215485 TGAAATGATATACTTTGTGTATATCATT
66 TGAAATGATATACTTTGTGTATATCATT
** * *
6215513 TGAAAAGGAAAGGTATACTCTGTGTGTACCATTTGAAAAGGCTATGTACACTTTGTGTGTACACT
1 TGAAAAGGAAAGGTATACTCTGTGTGTACCACATGAAAAGGCTATGTAAACTTTGTATGTACACT
*
6215578 TGAAATGGTATACTTTGTGTATATCATT
66 TGAAATGATATACTTTGTGTATATCATT
**
6215606 TGAAAAGGAAAGGTATACTCTGTGTGTACCATTTGAAAAGG
1 TGAAAAGGAAAGGTATACTCTGTGTGTACCACATGAAAAGG
6215647 AAAGGTATAC
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 123 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (93 bp):
TGAAAAGGAAAGGTATACTCTGTGTGTACCACATGAAAAGGCTATGTAAACTTTGTATGTACACT
TGAAATGATATACTTTGTGTATATCATT
Found at i:6215537 original size:33 final size:33
Alignment explanation
Indices: 6215493--6215700 Score: 221
Period size: 33 Copynumber: 6.5 Consensus size: 33
6215483 CTTGAAATGA
* *
6215493 TATACTTTGTGTATATCATTTGAAAAGGAAAGG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
* ** *
6215526 TATACTCTGTGTGTACCATTTGAAAAGGCTATG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
* * *
6215559 TACACTTTGTGTGTA-CACTTG---A--AATGG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
* *
6215586 TATACTTTGTGTATATCATTTGAAAAGGAAAGG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
*
6215619 TATACTCTGTGTGTACCATTTGAAAAGGAAAGG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
* *
6215652 TATACTTTGTGTGTACCATTTGAAAAAGAAATG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
* * *
6215685 TACACCTTGAGTGTAC
1 TATACTTTGTGTGTAC
6215701 TACTGGAAAA
Statistics
Matches: 143, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
27 14 0.10
28 5 0.03
29 1 0.01
31 1 0.01
32 5 0.03
33 117 0.82
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (33 bp):
TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
Found at i:6215659 original size:93 final size:93
Alignment explanation
Indices: 6215477--6215676 Score: 337
Period size: 93 Copynumber: 2.1 Consensus size: 93
6215467 AAACTTTTTA
6215477 TGTACACTTGAAATGATATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTAC
1 TGTACACTTGAAATGATATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTAC
** *
6215542 CATTTGAAAAGGCTATGTACACTTTGTG
66 CATTTGAAAAGGAAAGGTACACTTTGTG
*
6215570 TGTACACTTGAAATGGTATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTAC
1 TGTACACTTGAAATGATATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTAC
*
6215635 CATTTGAAAAGGAAAGGTATACTTTGTG
66 CATTTGAAAAGGAAAGGTACACTTTGTG
*
6215663 TGTACCATTTGAAA
1 TGTA-CACTTGAAA
6215677 AAGAAATGTA
Statistics
Matches: 100, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
93 92 0.92
94 8 0.08
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (93 bp):
TGTACACTTGAAATGATATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTAC
CATTTGAAAAGGAAAGGTACACTTTGTG
Found at i:6215710 original size:66 final size:67
Alignment explanation
Indices: 6215579--6215716 Score: 163
Period size: 66 Copynumber: 2.1 Consensus size: 67
6215569 GTGTACACTT
* * * * * *
6215579 GAAATGGTATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTACCATTTGAAA
1 GAAATGGTATACTTTGTGTATACCATTTGAAAAAGAAAGGTACACTCTGAGTGTACCACTGGAAA
*
6215644 AG
66 AC
* * *
6215646 GAAA-GGTATACTTTGTGTGTACCATTTGAAAAAGAAATGTACAC-CTTGAGTGTACTACTGGAA
1 GAAATGGTATACTTTGTGTATACCATTTGAAAAAGAAAGGTACACTC-TGAGTGTACCACTGGAA
6215709 AAC
65 AAC
6215712 GAAAT
1 GAAAT
6215717 ATCCATCGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 1 0.02
66 54 0.92
67 4 0.07
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (67 bp):
GAAATGGTATACTTTGTGTATACCATTTGAAAAAGAAAGGTACACTCTGAGTGTACCACTGGAAA
AC
Found at i:6218368 original size:8 final size:8
Alignment explanation
Indices: 6218357--6218402 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
6218347 CTTTTCAGCT
6218357 TTTTTTTA
1 TTTTTTTA
6218365 TTTTTTTA
1 TTTTTTTA
6218373 -TTTTTT-
1 TTTTTTTA
* *
6218379 CTTTTTCA
1 TTTTTTTA
6218387 TTTTTTTA
1 TTTTTTTA
6218395 TTTATTTT
1 TTT-TTTT
6218403 CAGCTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
7 11 0.34
8 17 0.53
9 4 0.12
ACGTcount: A:0.11, C:0.04, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTA
Found at i:6226667 original size:17 final size:17
Alignment explanation
Indices: 6226645--6226680 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
6226635 AAAACAACTT
6226645 AAAAGTATATGTTTTTC
1 AAAAGTATATGTTTTTC
6226662 AAAAGTATATGTTTTTC
1 AAAAGTATATGTTTTTC
6226679 AA
1 AA
6226681 TTACGTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (17 bp):
AAAAGTATATGTTTTTC
Found at i:6227675 original size:24 final size:24
Alignment explanation
Indices: 6227647--6227694 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6227637 AATTTCTTCA
6227647 CATCCATCAGCCCACAAATATTCT
1 CATCCATCAGCCCACAAATATTCT
6227671 CATCCATCAGCCCACAAATATTCT
1 CATCCATCAGCCCACAAATATTCT
6227695 TTCTTTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.38, G:0.04, T:0.25
Consensus pattern (24 bp):
CATCCATCAGCCCACAAATATTCT
Found at i:6230832 original size:25 final size:26
Alignment explanation
Indices: 6230678--6230831 Score: 144
Period size: 25 Copynumber: 6.2 Consensus size: 26
6230668 ACACACCACA
*
6230678 GCTCTTATGAGCTTCCCGA-TACT-TG
1 GCTCTCATGAGCTTCCCGATTA-TATG
*
6230703 GCTCTCATGAGCTTCCCGA-TATTTG
1 GCTCTCATGAGCTTCCCGATTATATG
*
6230728 GCTCTCATGAGCTTCCCAATTA-ATG
1 GCTCTCATGAGCTTCCCGATTATATG
* * *
6230753 GCTCTCTTGAGCTTCCTGATGA-ATG
1 GCTCTCATGAGCTTCCCGATTATATG
**
6230778 GCTCGT-ATGAGCTTCCCGA-TATACA
1 GCTC-TCATGAGCTTCCCGATTATATG
* *
6230803 GCTCACATGAGCTT-CCTATTATATG
1 GCTCTCATGAGCTTCCCGATTATATG
6230828 GCTC
1 GCTC
6230832 AAAAGAGGTT
Statistics
Matches: 107, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
24 5 0.05
25 99 0.93
26 3 0.03
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.34
Consensus pattern (26 bp):
GCTCTCATGAGCTTCCCGATTATATG
Found at i:6233082 original size:20 final size:20
Alignment explanation
Indices: 6233045--6233082 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6233035 TGATGGGGAG
*
6233045 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
6233065 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
6233083 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:6235044 original size:46 final size:46
Alignment explanation
Indices: 6234977--6235158 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
6234967 AGTGTGCTCT
* * *
6234977 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
6235023 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
6235069 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
6235115 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
6235159 TCATGTCAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:6236577 original size:14 final size:14
Alignment explanation
Indices: 6236536--6236584 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 14
6236526 AATTATATTA
*
6236536 TAAAATATAAAGAT
1 TAAAATATAAAAAT
6236550 TAAATTATATTAAAAAT
1 TAAA--ATA-TAAAAAT
6236567 TAAAATATAAAAAT
1 TAAAATATAAAAAT
6236581 TAAA
1 TAAA
6236585 TCTTAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 15 0.48
15 3 0.10
16 3 0.10
17 10 0.32
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
TAAAATATAAAAAT
Found at i:6243683 original size:6 final size:6
Alignment explanation
Indices: 6243668--6243697 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
6243658 ATGCTTCTTC
*
6243668 TCTTTT TCTTTG TCTTTG TCTTTG TCTTTG
1 TCTTTG TCTTTG TCTTTG TCTTTG TCTTTG
6243698 GCTTCACCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.13, T:0.70
Consensus pattern (6 bp):
TCTTTG
Found at i:6244237 original size:3 final size:3
Alignment explanation
Indices: 6244231--6244256 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6244221 TAATAGTAAT
6244231 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
6244257 TATCCAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6246707 original size:21 final size:21
Alignment explanation
Indices: 6246682--6246722 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6246672 ATATAAACAC
*
6246682 ATACTTTTACCTTCATTTATG
1 ATACTTTAACCTTCATTTATG
6246703 ATACTTTAACCTTCATTTAT
1 ATACTTTAACCTTCATTTAT
6246723 ATTATTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (21 bp):
ATACTTTAACCTTCATTTATG
Found at i:6255168 original size:33 final size:33
Alignment explanation
Indices: 6255130--6255199 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
6255120 ATAAATTTAA
* *
6255130 AAAATACAATATAT-TAAATATATTAAAAATATT
1 AAAATA-AATATATATAAATAAATTAAAAATATG
* *
6255163 AAAATAAATATATATCAATAAATTGAAAATATG
1 AAAATAAATATATATAAATAAATTAAAAATATG
6255196 AAAA
1 AAAA
6255200 AAAAATTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 25 0.78
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (33 bp):
AAAATAAATATATATAAATAAATTAAAAATATG
Found at i:6255289 original size:18 final size:19
Alignment explanation
Indices: 6255259--6255299 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
6255249 ATACATCTAA
6255259 AATAATAATAAAATTA-AC
1 AATAATAATAAAATTATAC
6255277 AATAA-AATAAAAATTATAC
1 AATAATAAT-AAAATTATAC
6255296 AATA
1 AATA
6255300 TCTAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 12 0.57
19 6 0.29
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAATAATAAAATTATAC
Found at i:6255305 original size:23 final size:24
Alignment explanation
Indices: 6255279--6255324 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
6255269 AAATTAACAA
*
6255279 TAAAATAAA-AATTATA-CAATATC
1 TAAAA-AAATAATAATAGCAATATC
6255302 TAAAAAAATAATAATAGCAATAT
1 TAAAAAAATAATAATAGCAATAT
6255325 AATAACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 11 0.55
24 6 0.30
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (24 bp):
TAAAAAAATAATAATAGCAATATC
Found at i:6258673 original size:22 final size:23
Alignment explanation
Indices: 6258640--6258685 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6258630 AATTCGTTTG
*
6258640 TCATCTGG-AAAAGTTCTATAGC
1 TCATCTGGAAAAAGGTCTATAGC
6258662 TCAT-TGGAAAAAAGGTCTATAGC
1 TCATCTGG-AAAAAGGTCTATAGC
6258685 T
1 T
6258686 AGTTTGGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 4 0.19
23 14 0.67
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (23 bp):
TCATCTGGAAAAAGGTCTATAGC
Found at i:6273521 original size:30 final size:30
Alignment explanation
Indices: 6273486--6273543 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
6273476 TAAGCACTTC
6273486 CACACGGGTGAT-CCACACGCCCGTGTGTGA
1 CACACGGGT-ATACCACACGCCCGTGTGTGA
6273516 CACACGGGTATACCACACGCCCGTGTGT
1 CACACGGGTATACCACACGCCCGTGTGT
6273544 CATGGCCGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.17
Consensus pattern (30 bp):
CACACGGGTATACCACACGCCCGTGTGTGA
Found at i:6274727 original size:19 final size:20
Alignment explanation
Indices: 6274691--6274728 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6274681 ATTTTTATTT
*
6274691 AATTTTGTTTTGATTTACTA
1 AATTTTCTTTTGATTTACTA
6274711 AATTTTCTTTT-ATTTACT
1 AATTTTCTTTTGATTTACT
6274729 TCTAGCAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (20 bp):
AATTTTCTTTTGATTTACTA
Found at i:6281309 original size:23 final size:23
Alignment explanation
Indices: 6281283--6281341 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
6281273 TCCTCTTCTT
* * *
6281283 TTCTTTGTTTTCTTTTATTTTTA
1 TTCTTTCTTTTATTTTAATTTTA
6281306 TTCTTTCTTTTATTTTAATTTTA
1 TTCTTTCTTTTATTTTAATTTTA
*
6281329 -TCTCTCTTTTATT
1 TTCTTTCTTTTATT
6281342 CAGCCTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 12 0.38
23 20 0.62
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.75
Consensus pattern (23 bp):
TTCTTTCTTTTATTTTAATTTTA
Found at i:6281480 original size:26 final size:26
Alignment explanation
Indices: 6281444--6281498 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
6281434 TGTTTTATTC
6281444 TACCATACTGCTTATAGGATCATCCT
1 TACCATACTGCTTATAGGATCATCCT
*
6281470 TACCATGCTGCTTATAGGATCATCCT
1 TACCATACTGCTTATAGGATCATCCT
6281496 TAC
1 TAC
6281499 TCACTATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (26 bp):
TACCATACTGCTTATAGGATCATCCT
Done.