Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 116 of 207
Found at i:34855170 original size:18 final size:18
Alignment explanation
Indices: 34855147--34855183 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
34855137 TGATTTTGAC
34855147 ATCCTTATGTCAATAACA
1 ATCCTTATGTCAATAACA
*
34855165 ATCCTTATGTCAATGACA
1 ATCCTTATGTCAATAACA
34855183 A
1 A
34855184 ATCTTTGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (18 bp):
ATCCTTATGTCAATAACA
Found at i:34857761 original size:23 final size:23
Alignment explanation
Indices: 34857735--34857856 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
34857725 AGTGTTATTG
34857735 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
34857758 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
34857781 TTGAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
34857804 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
34857827 TTCAGTGCTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
34857850 ATCAGTG
1 ATCAGTG
34857857 TGGCACTTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 90 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:34858028 original size:38 final size:37
Alignment explanation
Indices: 34857986--34858058 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
34857976 ATGTGTGGAA
* *
34857986 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
34858024 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
34858059 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:34861357 original size:25 final size:25
Alignment explanation
Indices: 34861329--34861400 Score: 126
Period size: 25 Copynumber: 2.9 Consensus size: 25
34861319 ATGTCACAAA
*
34861329 CCCGTGTGTCAGGCTGTGTAACACG
1 CCCGTGTGTCAGGCCGTGTAACACG
34861354 CCCGTGTGTCAGGCCGTGTAACACG
1 CCCGTGTGTCAGGCCGTGTAACACG
*
34861379 CTCGTGTGTCAGGCCGTGTAAC
1 CCCGTGTGTCAGGCCGTGTAAC
34861401 TCTCGAAGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.15, C:0.29, G:0.32, T:0.24
Consensus pattern (25 bp):
CCCGTGTGTCAGGCCGTGTAACACG
Found at i:34861372 original size:12 final size:12
Alignment explanation
Indices: 34861330--34861397 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
34861320 TGTCACAAAC
34861330 CCGTGTGTCAGG
1 CCGTGTGTCAGG
* ** *
34861342 CTGTGTAACACGC
1 CCGTGTGTCA-GG
34861355 CCGTGTGTCAGG
1 CCGTGTGTCAGG
** *
34861367 CCGTGTAACACG
1 CCGTGTGTCAGG
34861379 CTCGTGTGTCAGG
1 C-CGTGTGTCAGG
34861392 CCGTGT
1 CCGTGT
34861398 AACTCTCGAA
Statistics
Matches: 40, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
12 23 0.57
13 17 0.43
ACGTcount: A:0.13, C:0.28, G:0.34, T:0.25
Consensus pattern (12 bp):
CCGTGTGTCAGG
Found at i:34864485 original size:25 final size:25
Alignment explanation
Indices: 34864422--34864508 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 25
34864412 TAACTCTTAT
** * * *
34864422 GAGCTTACCAATACTCAGCTCATAT
1 GAGCTTACCGTTATTCAGCTCAGAA
* * *
34864447 GAGCTTACCATTATTCATCTCAGAG
1 GAGCTTACCGTTATTCAGCTCAGAA
*
34864472 GAGCTTACCGTTATTCAGCTCGGAA
1 GAGCTTACCGTTATTCAGCTCAGAA
34864497 GAGCTTACCGTT
1 GAGCTTACCGTT
34864509 TACAACTCGT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAGCTCAGAA
Found at i:34864524 original size:24 final size:25
Alignment explanation
Indices: 34864447--34864517 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
34864437 CAGCTCATAT
* * * * *
34864447 GAGCTTACCATTATTCATCTCAGAG
1 GAGCTTACCGTTATACAACTCGGAA
* *
34864472 GAGCTTACCGTTATTCAGCTCGGAA
1 GAGCTTACCGTTATACAACTCGGAA
34864497 GAGCTTACCGTT-TACAACTCG
1 GAGCTTACCGTTATACAACTCG
34864518 TATGAGCATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 7 0.17
25 33 0.82
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (25 bp):
GAGCTTACCGTTATACAACTCGGAA
Found at i:34877327 original size:18 final size:19
Alignment explanation
Indices: 34877287--34877327 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
34877277 CTTGCCATTT
*
34877287 TCCTTAGGCTTTGCCTTAG
1 TCCTTAGCCTTTGCCTTAG
*
34877306 -CCTTAGCCTTT-CCTTTG
1 TCCTTAGCCTTTGCCTTAG
34877323 TCCTT
1 TCCTT
34877328 GTCCTTGCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.07, C:0.32, G:0.15, T:0.46
Consensus pattern (19 bp):
TCCTTAGCCTTTGCCTTAG
Found at i:34878576 original size:39 final size:39
Alignment explanation
Indices: 34878531--34878606 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
34878521 TCCATTTAAA
*
34878531 CATTTAATTTATCTTATCAATATCCTATAACATGCATAT
1 CATTTAATTGATCTTATCAATATCCTATAACATGCATAT
34878570 CATTTAATTGATCTTATCAATATCCTATAACATGCAT
1 CATTTAATTGATCTTATCAATATCCTATAACATGCAT
34878607 GCTAACATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (39 bp):
CATTTAATTGATCTTATCAATATCCTATAACATGCATAT
Found at i:34881180 original size:24 final size:23
Alignment explanation
Indices: 34881128--34881218 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 23
34881118 TTTCATCATG
* *
34881128 TATTATGTATTCATATTTTTGAAAT
1 TATTATGTATT-AT-TATTTAAAAT
* *
34881153 TATTGTGCATTATTATTCTAAAAT
1 TATTATGTATTATTATT-TAAAAT
*
34881177 TATTATGTATTATTACTTAAAAGT
1 TATTATGTATTATTATTTAAAA-T
34881201 TA-TACTGTATTATTATTT
1 TATTA-TGTATTATTATTT
34881219 TTTATATTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
23 10 0.18
24 36 0.65
25 9 0.16
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (23 bp):
TATTATGTATTATTATTTAAAAT
Found at i:34884831 original size:11 final size:11
Alignment explanation
Indices: 34884815--34884839 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34884805 TTCTATAATC
34884815 GAATTTTTTTT
1 GAATTTTTTTT
34884826 GAATTTTTTTT
1 GAATTTTTTTT
34884837 GAA
1 GAA
34884840 ACTACAATTA
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (11 bp):
GAATTTTTTTT
Found at i:34885480 original size:22 final size:24
Alignment explanation
Indices: 34885433--34885481 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
34885423 CTTGAATTCA
34885433 TGAATGGTGACCAAGGTAGGTTCAGC
1 TGAATGGTGACCAA-GTAGG-TCAGC
34885459 TGAATGGTGACCAA-TAGG-CAGC
1 TGAATGGTGACCAAGTAGGTCAGC
34885481 T
1 T
34885482 TCTAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
24 4 0.17
26 14 0.61
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.22
Consensus pattern (24 bp):
TGAATGGTGACCAAGTAGGTCAGC
Found at i:34890427 original size:21 final size:21
Alignment explanation
Indices: 34890403--34890456 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
34890393 TCATTTTTAG
**
34890403 CAACTTCTTCTTCTTTAGCAA
1 CAACTTCTTCTTCTGCAGCAA
*
34890424 CAACTT-TCTCTTCTGCAGCAG
1 CAACTTCT-TCTTCTGCAGCAA
34890445 CAACTTTCTTCT
1 CAAC-TTCTTCT
34890457 CAACAACAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 5 0.19
23 1 0.04
ACGTcount: A:0.20, C:0.31, G:0.07, T:0.41
Consensus pattern (21 bp):
CAACTTCTTCTTCTGCAGCAA
Found at i:34905171 original size:32 final size:32
Alignment explanation
Indices: 34905125--34905185 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
34905115 TCATGTACAT
*
34905125 GTATGCTCATACGAGCTATGAATCAGTATATG
1 GTATGCTCATACGAGCTATAAATCAGTATATG
*
34905157 GTATGCTC-TCACGAGCTATAAATCGGTAT
1 GTATGCTCAT-ACGAGCTATAAATCAGTAT
34905186 GCTCACACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (32 bp):
GTATGCTCATACGAGCTATAAATCAGTATATG
Found at i:34908445 original size:11 final size:11
Alignment explanation
Indices: 34908429--34908453 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34908419 TAGTCCCATA
34908429 AATAATAAAAT
1 AATAATAAAAT
34908440 AATAATAAAAT
1 AATAATAAAAT
34908451 AAT
1 AAT
34908454 TATTTTAATG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:34908820 original size:40 final size:40
Alignment explanation
Indices: 34908755--34908881 Score: 191
Period size: 40 Copynumber: 3.2 Consensus size: 40
34908745 ATACTATTTG
* * * *
34908755 ATTCAGGGTTACCAAAGTATAAACAGAGGCACATATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTGC
* * *
34908795 ATTTAGGGGTACCGGAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTGC
34908835 ATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTGC
34908875 ATTCAGG
1 ATTCAGG
34908882 CAATAATTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.20
Consensus pattern (40 bp):
ATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTGC
Found at i:34908841 original size:20 final size:20
Alignment explanation
Indices: 34908818--34908881 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
34908808 GGAGTACAAA
34908818 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * **
34908838 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCATT
*
34908858 CAGAGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
34908878 CAGG
1 CAGG
34908882 CAATAATTAT
Statistics
Matches: 30, Mismatches: 12, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.19
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:34917351 original size:41 final size:41
Alignment explanation
Indices: 34917306--34917408 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 41
34917296 CACTGATACG
* * ** * *
34917306 AAGCCTGCTAGGCTTAAAGCCTGATATGGTACACCGGTATT
1 AAGCCTGCTAGGCTTAAAGCCTAAAATAATACACCGGCATA
* *
34917347 AAGCCTGTTAGG-TGTAAAGCCTAAAATAATTCACCGGCATA
1 AAGCCTGCTAGGCT-TAAAGCCTAAAATAATACACCGGCATA
*
34917388 AAGCCTGCTAGGCTGAAAGCC
1 AAGCCTGCTAGGCTTAAAGCC
34917409 CGATTATCAC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
40 1 0.02
41 48 0.96
42 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (41 bp):
AAGCCTGCTAGGCTTAAAGCCTAAAATAATACACCGGCATA
Found at i:34919448 original size:27 final size:27
Alignment explanation
Indices: 34919418--34919548 Score: 102
Period size: 27 Copynumber: 4.9 Consensus size: 27
34919408 AAATTTCACT
*
34919418 ATACACATCATTCTCTTAGAGTTTGCC
1 ATACATATCATTCTCTTAGAGTTTGCC
* * * * *
34919445 ATACTTACCAGTCTTTTAGAGTTAGCC
1 ATACATATCATTCTCTTAGAGTTTGCC
* * * * *
34919472 ACACATATAATTCTTTTAGAGTTTACT
1 ATACATATCATTCTCTTAGAGTTTGCC
* * * *
34919499 GTACTTACCATTCT-TTAGAGTTAGCC
1 ATACATATCATTCTCTTAGAGTTTGCC
* *
34919525 ATGCATATCATTCTCTCAGAGTTT
1 ATACATATCATTCTCTTAGAGTTT
34919549 ACTGTACTTG
Statistics
Matches: 75, Mismatches: 28, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
26 19 0.25
27 56 0.75
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (27 bp):
ATACATATCATTCTCTTAGAGTTTGCC
Found at i:34919546 original size:53 final size:53
Alignment explanation
Indices: 34919418--34919591 Score: 222
Period size: 53 Copynumber: 3.3 Consensus size: 53
34919408 AAATTTCACT
* * ** *
34919418 ATACACATCATTCTCTTAGAGTTTGCCATACTTACCAGTCTTTTAGAGTTAGCC
1 ATACATATCATTCTCTTAGAGTTTACTGTACTTACCATTC-TTTAGAGTTAGCC
* * *
34919472 ACACATATAATTCTTTTAGAGTTTACTGTACTTACCATTCTTTAGAGTTAGCC
1 ATACATATCATTCTCTTAGAGTTTACTGTACTTACCATTCTTTAGAGTTAGCC
* * * *
34919525 ATGCATATCATTCTCTCAGAGTTTACTGTACTTGCCATTCTTTAGAATTAGCC
1 ATACATATCATTCTCTTAGAGTTTACTGTACTTACCATTCTTTAGAGTTAGCC
*
34919578 ATACATATCCTTCT
1 ATACATATCATTCT
34919592 TTTATTGTTT
Statistics
Matches: 103, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 71 0.69
54 32 0.31
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.40
Consensus pattern (53 bp):
ATACATATCATTCTCTTAGAGTTTACTGTACTTACCATTCTTTAGAGTTAGCC
Found at i:34919725 original size:54 final size:52
Alignment explanation
Indices: 34919663--34919833 Score: 147
Period size: 54 Copynumber: 3.2 Consensus size: 52
34919653 CAGATGATTG
34919663 CCACAAGGCCCTTCCTTTAGAATATGCCACGAACGTGTTCCTTTCCATAGATC
1 CCACAAGGCCCTTCCTTTAGAAT-TGCCACGAACGTGTTCCTTTCCATAGATC
* * * * *
34919716 CCACGAAGG--CTTCCACTTCATA-AATTACCACAAAGGCAT-TTCC-TT-CAGATGATTG
1 CCAC-AAGGCCCTT-C-CTT--TAGAATTGCCACGAA--CGTGTTCCTTTCCATA-GA-TC
34919771 CCACAAGGCCCTTCCTTTAGAATGTGCCACGAACGTGTTCCTTTCCATAGATC
1 CCACAAGGCCCTTCCTTTAGAAT-TGCCACGAACGTGTTCCTTTCCATAGATC
34919824 CCACGAAGGC
1 CCAC-AAGGC
34919834 TTCCACTTCA
Statistics
Matches: 91, Mismatches: 10, Indels: 33
0.68 0.07 0.25
Matches are distributed among these distances:
52 7 0.08
53 20 0.22
54 41 0.45
55 16 0.18
56 7 0.08
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (52 bp):
CCACAAGGCCCTTCCTTTAGAATTGCCACGAACGTGTTCCTTTCCATAGATC
Found at i:34919824 original size:108 final size:108
Alignment explanation
Indices: 34919635--34919860 Score: 425
Period size: 108 Copynumber: 2.1 Consensus size: 108
34919625 TCAGGGTCTG
*
34919635 CCACAAAGGTATTTCCTTCAGATGATTGCCACAAGGCCCTTCCTTTAGAATATGCCACGAACGTG
1 CCACAAAGGCATTTCCTTCAGATGATTGCCACAAGGCCCTTCCTTTAGAATATGCCACGAACGTG
34919700 TTCCTTTCCATAGATCCCACGAAGGCTTCCACTTCATAAATTA
66 TTCCTTTCCATAGATCCCACGAAGGCTTCCACTTCATAAATTA
*
34919743 CCACAAAGGCATTTCCTTCAGATGATTGCCACAAGGCCCTTCCTTTAGAATGTGCCACGAACGTG
1 CCACAAAGGCATTTCCTTCAGATGATTGCCACAAGGCCCTTCCTTTAGAATATGCCACGAACGTG
*
34919808 TTCCTTTCCATAGATCCCACGAAGGCTTCCACTTCATAAATTG
66 TTCCTTTCCATAGATCCCACGAAGGCTTCCACTTCATAAATTA
34919851 CCACAAAGGC
1 CCACAAAGGC
34919861 TTCCATTTCA
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 115 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (108 bp):
CCACAAAGGCATTTCCTTCAGATGATTGCCACAAGGCCCTTCCTTTAGAATATGCCACGAACGTG
TTCCTTTCCATAGATCCCACGAAGGCTTCCACTTCATAAATTA
Found at i:34919853 original size:54 final size:54
Alignment explanation
Indices: 34919687--34919854 Score: 163
Period size: 54 Copynumber: 3.1 Consensus size: 54
34919677 CTTTAGAATA
34919687 TGCCACGAACGTGTTCCTTTCCATAGATCCCACGAAGGCTTCCACTTCATAAAT
1 TGCCACGAACGTGTTCCTTTCCATAGATCCCACGAAGGCTTCCACTTCATAAAT
* * * * *
34919741 TACCACAAAGGCAT-TTCC-TT-CAGATGATTGCCAC-AAGGCCCTT-C-CTT--TAGAAT
1 TGCCACGAA--CGTGTTCCTTTCCATA-GA-TCCCACGAAGG--CTTCCACTTCATA-AAT
34919794 GTGCCACGAACGTGTTCCTTTCCATAGATCCCACGAAGGCTTCCACTTCATAAAT
1 -TGCCACGAACGTGTTCCTTTCCATAGATCCCACGAAGGCTTCCACTTCATAAAT
34919849 TGCCAC
1 TGCCAC
34919855 AAAGGCTTCC
Statistics
Matches: 88, Mismatches: 10, Indels: 32
0.68 0.08 0.25
Matches are distributed among these distances:
52 7 0.08
53 16 0.18
54 42 0.48
55 16 0.18
56 7 0.08
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.27
Consensus pattern (54 bp):
TGCCACGAACGTGTTCCTTTCCATAGATCCCACGAAGGCTTCCACTTCATAAAT
Found at i:34919865 original size:27 final size:27
Alignment explanation
Indices: 34919700--34919922 Score: 117
Period size: 27 Copynumber: 8.3 Consensus size: 27
34919690 CACGAACGTG
* *
34919700 TTCC-TTTCCATAGA-TCCCACGAAGGC
1 TTCCATTT-CATAGATTGCCACAAAGGC
* * *
34919726 TTCCACTTCATAAATTACCACAAAGGC
1 TTCCATTTCATAGATTGCCACAAAGGC
*
34919753 ATTTCC--TTCAGATGATTGCCAC-AAGGCCC
1 --TTCCATTTCATA-GATTGCCACAAAGG--C
* *
34919782 TTCC-TTT-AGA-ATGTGCCACGAACGTG-
1 TTCCATTTCATAGAT-TGCCAC-AAAG-GC
* *
34919808 TTCC-TTTCCATAGA-TCCCACGAAGGC
1 TTCCATTT-CATAGATTGCCACAAAGGC
* *
34919834 TTCCACTTCATAAATTGCCACAAAGGC
1 TTCCATTTCATAGATTGCCACAAAGGC
* * *
34919861 TTCCATTTCATTGATTTCCACAAGGGC
1 TTCCATTTCATAGATTGCCACAAAGGC
* *
34919888 TTCAATTTCATAGATTGTCACAAAGGC
1 TTCCATTTCATAGATTGCCACAAAGGC
*
34919915 CTCCATTT
1 TTCCATTT
34919923 TCTAGCGTGT
Statistics
Matches: 151, Mismatches: 28, Indels: 35
0.71 0.13 0.16
Matches are distributed among these distances:
25 3 0.02
26 33 0.22
27 95 0.63
28 13 0.09
29 7 0.05
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (27 bp):
TTCCATTTCATAGATTGCCACAAAGGC
Found at i:34926461 original size:23 final size:23
Alignment explanation
Indices: 34926430--34926480 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
34926420 ACCTACTTTC
* * * *
34926430 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAACTTTCAGGATA
34926453 TTACAGTAGTAACTTTCAGGATA
1 TTACAGTAGTAACTTTCAGGATA
34926476 TTACA
1 TTACA
34926481 TTTCTCTCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (23 bp):
TTACAGTAGTAACTTTCAGGATA
Found at i:34928057 original size:50 final size:50
Alignment explanation
Indices: 34927981--34928263 Score: 243
Period size: 50 Copynumber: 5.6 Consensus size: 50
34927971 TTTCCTGTAC
* * * * **
34927981 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGA
* * ** * *
34928031 TACCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCAT-CCAGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATC-GA
* * * *
34928081 TGCC-ATGCCATATCCCAAACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGA
* * *
34928130 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT-A--TC---GA
* *
34928186 TGCCAATGCCATGTCCCAGACATGGTCTTACACT-GG--CTCACATATCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACA-TGGGACCTCTCATATCGA
* * *
34928234 TGTCGATGCCATGTTCCAAACATGGTCTTA
1 TGCCAATGCCATGTCCCAAACATGGTCTTA
34928264 TACGAGATCG
Statistics
Matches: 191, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
48 28 0.15
49 43 0.23
50 75 0.39
51 2 0.01
53 3 0.02
54 6 0.03
56 33 0.17
57 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGA
Found at i:34928086 original size:44 final size:45
Alignment explanation
Indices: 34928037--34928134 Score: 110
Period size: 49 Copynumber: 2.1 Consensus size: 45
34928027 TCGATACCCA
*
34928037 TGCCATG-TCCCAAACATGGTCTTACGGGGGACCTCTCATC-CAGG
1 TGCCATGATCCCAAACATGGTCTTACAGGGGACCTCTCATCTC-GG
* *
34928081 TGCCATGCCATATCCCAAACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCATG----ATCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGG
34928130 TGCCA
1 TGCCA
34928135 ACGCCATGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
44 7 0.16
49 37 0.82
50 1 0.02
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (45 bp):
TGCCATGATCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:34928089 original size:99 final size:100
Alignment explanation
Indices: 34927981--34928263 Score: 259
Period size: 99 Copynumber: 2.8 Consensus size: 100
34927971 TTTCCTGTAC
* * * ** * *
34927981 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGATACCCATGCCATGTC
1 TGCCAATGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATATCGATACCAACGCCATGTC
*
34928046 CCAAACATGGTCTTACGGGGGACCTCTCATCCAGG
66 CCAAACATGGTCTTACAGGGGACCTCTCATCCAGG
* * * *
34928081 TGCC-ATGCCATATCCCAAACATGGTCTTATATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAATGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATATCGATACCAACGCCATGTC
* * * *
34928145 CTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
66 CCAAACATGGTCTTACAGGGGACCTCTC---ATC-C-A-GG
* * * ** * *
34928186 TGCCAATGCCATGTCCCAGACATGGTCTTACACT-GG--CTCACATATCGATGTCGATGCCATGT
1 TGCCAATGCCATATCCCAAACATGGTCTTACA-TGGGACCTCTCATATCGATACCAACGCCATGT
*
34928248 TCCAAACATGGTCTTA
65 CCCAAACATGGTCTTA
34928264 TACGAGATCG
Statistics
Matches: 147, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
99 73 0.50
100 4 0.03
102 3 0.02
103 1 0.01
104 34 0.23
105 5 0.03
106 26 0.18
107 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (100 bp):
TGCCAATGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATATCGATACCAACGCCATGTC
CCAAACATGGTCTTACAGGGGACCTCTCATCCAGG
Found at i:34931348 original size:23 final size:23
Alignment explanation
Indices: 34931298--34931348 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
34931288 ACCTATTTTC
* * *
34931298 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCAGGATA
* *
34931321 ATACAGTAGTAATTTTCAGGATG
1 TTACAGTAGTAATTTTCAGGATA
34931344 TTACA
1 TTACA
34931349 ATCAGAATCA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGATA
Found at i:34945934 original size:38 final size:38
Alignment explanation
Indices: 34945887--34945963 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
34945877 ATGTTAGTTG
34945887 TTATATAATTGAATGATGAATATCCAACAATGCCATGA
1 TTATATAATTGAATGATGAATATCCAACAATGCCATGA
* *
34945925 TTATTTAATTGAATGATGAATATCCAATAATGCCATGA
1 TTATATAATTGAATGATGAATATCCAACAATGCCATGA
34945963 T
1 T
34945964 GGTTACCGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (38 bp):
TTATATAATTGAATGATGAATATCCAACAATGCCATGA
Found at i:34945962 original size:19 final size:19
Alignment explanation
Indices: 34945902--34945962 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
34945892 TAATTGAATG
*
34945902 ATGAATATCCAACAATGCC
1 ATGAATATCCAATAATGCC
* **
34945921 ATGATTATTTAATTGAATG--
1 ATGAATATCCAA-T-AATGCC
34945940 ATGAATATCCAATAATGCC
1 ATGAATATCCAATAATGCC
34945959 ATGA
1 ATGA
34945963 TGGTTACCGA
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
17 4 0.13
18 1 0.03
19 22 0.71
21 4 0.13
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (19 bp):
ATGAATATCCAATAATGCC
Found at i:34950126 original size:16 final size:16
Alignment explanation
Indices: 34950083--34950126 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
34950073 ATAGCTGTAC
* *
34950083 TAGAGTTGTAAAGTAA
1 TAGAGTTGTAATGGAA
*
34950099 TAGAGCTGTAATGGAA
1 TAGAGTTGTAATGGAA
34950115 TAGAGTTGTAAT
1 TAGAGTTGTAAT
34950127 CAATAATTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (16 bp):
TAGAGTTGTAATGGAA
Found at i:34954275 original size:58 final size:59
Alignment explanation
Indices: 34954151--34954291 Score: 173
Period size: 58 Copynumber: 2.4 Consensus size: 59
34954141 TATTATTATT
** *
34954151 AAATTTTAATAGGATTATTAGTAAAAAATAATTTAATAATAAATAATAAATAATTTAATC
1 AAATTTTAATAATATTATTA-TTAAAAATAATTTAATAATAAATAATAAATAATTTAATC
* * *
34954211 AAATTTTAATAATATTATTATTAAATATAATTTAATAA-AAATAATATATGATTTAAT-
1 AAATTTTAATAATATTATTATTAAAAATAATTTAATAATAAATAATAAATAATTTAATC
34954268 AATATTTTAA-AATAATTATT-TTAA
1 AA-ATTTTAATAAT-ATTATTATTAA
34954292 TATTAAATTA
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
57 9 0.12
58 30 0.41
59 16 0.22
60 18 0.25
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (59 bp):
AAATTTTAATAATATTATTATTAAAAATAATTTAATAATAAATAATAAATAATTTAATC
Found at i:34954277 original size:32 final size:32
Alignment explanation
Indices: 34954177--34954277 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 32
34954167 ATTAGTAAAA
*
34954177 AATAATTTAATAATAAATAATAAATAATTTAAT
1 AATAATTTAATAA-AAATAATATATAATTTAAT
* * * *
34954210 CA-AATTT--TAATAAT-AT-TATTATTAAAT
1 AATAATTTAATAAAAATAATATATAATTTAAT
*
34954237 -ATAATTTAATAAAAATAATATATGATTTAAT
1 AATAATTTAATAAAAATAATATATAATTTAAT
*
34954268 AATATTTTAA
1 AATAATTTAA
34954278 AATAATTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
26 1 0.02
27 13 0.25
28 2 0.04
29 9 0.17
30 5 0.09
31 9 0.17
32 13 0.25
33 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (32 bp):
AATAATTTAATAAAAATAATATATAATTTAAT
Found at i:34954281 original size:13 final size:14
Alignment explanation
Indices: 34954265--34954311 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 14
34954255 TATATGATTT
34954265 AATAA-TATTTTAA
1 AATAATTATTTTAA
34954278 AATAATTATTTTAA
1 AATAATTATTTTAA
* *
34954292 TATTAAATTATATTAA
1 -AAT-AATTATTTTAA
34954308 AATA
1 AATA
34954312 TTTAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.18
14 9 0.32
15 4 0.14
16 10 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATAATTATTTTAA
Found at i:34954310 original size:58 final size:58
Alignment explanation
Indices: 34954151--34954311 Score: 159
Period size: 58 Copynumber: 2.7 Consensus size: 58
34954141 TATTATTATT
** * * *
34954151 AAATTTTAATAGGATTATTAGTAAAAAATAATTTAATAATAAATAATAAATAATTTAATC
1 AAATTTTAATAATATTATTA-TTAAATATAAATTAATAA-AAATAATAAATAATTTAATC
* * *
34954211 AAATTTTAATAATATTATTATTAAATATAATTTAATAAAAATAATATATGATTTAAT-
1 AAATTTTAATAATATTATTATTAAATATAAATTAATAAAAATAATAAATAATTTAATC
*
34954268 AATATTTTAA-AATAATTATT-TT-AATATTAAATTATATTAAAATA
1 AA-ATTTTAATAAT-ATTATTATTAAATA-TAAATTA-ATAAAAATA
34954312 TTTAAAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
56 4 0.04
57 13 0.15
58 38 0.43
59 16 0.18
60 18 0.20
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (58 bp):
AAATTTTAATAATATTATTATTAAATATAAATTAATAAAAATAATAAATAATTTAATC
Found at i:34957391 original size:22 final size:22
Alignment explanation
Indices: 34957363--34957412 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
34957353 AATAAAAAAT
34957363 ATTTAATTGAGTCT-TCAATCGA
1 ATTTAATTGAGTCTCT-AATCGA
*
34957385 ATTTAATTGAGTCTCTAATTGA
1 ATTTAATTGAGTCTCTAATCGA
34957407 ATTTAA
1 ATTTAA
34957413 ACAATCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (22 bp):
ATTTAATTGAGTCTCTAATCGA
Found at i:34958278 original size:22 final size:19
Alignment explanation
Indices: 34958246--34958292 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
34958236 TTAAATTCTA
34958246 TTTT-TTATTTTTAAATGATT
1 TTTTATTATTTTT-AAT-ATT
34958266 TTTCTATTATTTTTAATATT
1 TTT-TATTATTTTTAATATT
34958286 TTTTATT
1 TTTTATT
34958293 TTTATGATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.16
20 9 0.36
21 4 0.16
22 8 0.32
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTATTATTTTTAATATT
Found at i:34958487 original size:30 final size:30
Alignment explanation
Indices: 34958447--34958507 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
34958437 AGACGAGGGC
* * *
34958447 TTAAATTTGATTGAGGATTTAATTGAATAT
1 TTAAACTTGATTGAGGACTCAATTGAATAT
*
34958477 TTAAACTTGATTGAGGGCTCAATTGAATAT
1 TTAAACTTGATTGAGGACTCAATTGAATAT
34958507 T
1 T
34958508 GTTTTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (30 bp):
TTAAACTTGATTGAGGACTCAATTGAATAT
Found at i:34963565 original size:34 final size:35
Alignment explanation
Indices: 34963507--34963573 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
34963497 CAAACACCAG
34963507 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
34963542 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
34963574 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:34967564 original size:25 final size:25
Alignment explanation
Indices: 34967525--34967582 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
34967515 TGGCTAATGT
*
34967525 TGGCCATATGTTTTGG-TTGTTGTTA
1 TGGCCATATGATTTGGCTTG-TGTTA
* *
34967550 TGGCCATTTGATTTGGCTTGTGTTT
1 TGGCCATATGATTTGGCTTGTGTTA
34967575 TGG-CATAT
1 TGGCCATAT
34967583 TTTGGTATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 4 0.14
25 21 0.75
26 3 0.11
ACGTcount: A:0.12, C:0.10, G:0.28, T:0.50
Consensus pattern (25 bp):
TGGCCATATGATTTGGCTTGTGTTA
Found at i:34972418 original size:40 final size:40
Alignment explanation
Indices: 34972356--34972567 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 40
34972346 CATTTGAATG
*
34972356 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
34972396 TTATCCGGGTTAAGACCTGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
34972436 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
34972476 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
34972516 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
34972556 ATATCC-GGCTAA
1 ATATCCGGGCTAA
34972568 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 7 0.05
40 141 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:34978116 original size:25 final size:25
Alignment explanation
Indices: 34978045--34978108 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
34978035 TAGGCCCATT
34978045 TTCACAGCTCGTGTGAGCATACCGA
1 TTCACAGCTCGTGTGAGCATACCGA
* * * *
34978070 TTTACAACTGGTGGGAGCATACCGA
1 TTCACAGCTCGTGTGAGCATACCGA
34978095 TTCACAGCTCGTGT
1 TTCACAGCTCGTGT
34978109 AAGGATACAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATACCGA
Found at i:34982826 original size:16 final size:17
Alignment explanation
Indices: 34982799--34982833 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
34982789 AGAGAGTTGA
34982799 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
34982816 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
34982832 GA
1 GA
34982834 TTGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:34984023 original size:29 final size:27
Alignment explanation
Indices: 34983985--34984039 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
34983975 GTGATTAAAT
34983985 AAAATCGACA-CAAGCAAAATTTAAAAGAA
1 AAAATCGACAGCAAG--AAA-TTAAAAGAA
*
34984014 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
34984040 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 3 0.12
29 9 0.38
30 4 0.17
ACGTcount: A:0.62, C:0.11, G:0.13, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:34988130 original size:19 final size:19
Alignment explanation
Indices: 34988091--34988130 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34988081 AATTGGATTT
* *
34988091 AAAACAAAATTAGAAAGAA
1 AAAACAAAAATAAAAAGAA
*
34988110 AAAACAAAAATAAAAATAA
1 AAAACAAAAATAAAAAGAA
34988129 AA
1 AA
34988131 TAAAAGACCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (19 bp):
AAAACAAAAATAAAAAGAA
Found at i:34989645 original size:44 final size:44
Alignment explanation
Indices: 34989549--34989656 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 44
34989539 AATTCGACCT
* * * * *
34989549 ACTGCAACTTCAAAGG-TATAGGATTTGTTGTTTTAATCCGCTCC
1 ACTGCAACTTC-AAGGAGATAGGATTGGTGGCTTCAATCCGCTCC
* * *
34989593 ACTACAACTTCAAGGAGATAGGATTGGTGGCTTCAATCTGCTTC
1 ACTGCAACTTCAAGGAGATAGGATTGGTGGCTTCAATCCGCTCC
34989637 ACTGCAACTTC-AGGAAGATA
1 ACTGCAACTTCAAGG-AGATA
34989657 AGATCCGCCA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 7 0.13
44 46 0.87
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAAGGAGATAGGATTGGTGGCTTCAATCCGCTCC
Found at i:34989742 original size:51 final size:51
Alignment explanation
Indices: 34989676--34990472 Score: 746
Period size: 51 Copynumber: 15.9 Consensus size: 51
34989666 ATACTTTTTC
* * * * *
34989676 GCTTTAATCTATTCCATTGCAACGCTAGGGAAATAAGGTTTGCTGCCTTCA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
* * *
34989727 GCTTTAATCTGTTCCACTACAAGGCTAGGGAAATAAGATTCGCTG---T--
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
* * ** * *** *
34989773 -CTTTAGTCTGCTCCACTGCAACTTCA-GGAAGATAAGATCCGCCATATTTTGTA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAA-ATAAGATTCG-C-TGCCTT-CA
* ** * * * * *
34989826 GCTTTAATCTATTCTGCTCCAATGCTAGGAAAATAAGATTCGCTACCTTCA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
** * *
34989877 GCTTTAATCCATTCCACTGCAACGCCAGGGAAGTAAGATTCGTTGCCTTCA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
** * *
34989928 GCTTTAATCTGTTCCACTGCAACGCCAGAAAAATAAGATTCGTTGCCTTTA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
* * * * * *
34989979 GCTTTAATCTGCTCCACTGCAATGCCAGGGAAATAAGATTCACTACTTTTA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
***
34990030 GCTTTAATCTGTTCCACTGCAACAATAGGGAAATAAGATTCGCTGCCTTCA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
* * * * *
34990081 GCTTTAATCTGTTCCACTGCAGCGCCAAGGAAACAAGAGTCGCTGCCTTTA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
* * * * *
34990132 GCTTTAATCTATTCCACTGCAACGCTAAGGAAACAAGATTTGCTGCCTTCA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
* * * *
34990183 GCTTTAATCTGTTCCACTGTAACGCCGGGGAAAAAAGATTCGCTGCCTTTA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
* * * * *
34990234 GCTTTAATTTGTTCCATTGCAATGCCAGGGAAAAAAGATTCACTGCCTTCA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
* *
34990285 GC-TTAATCTGTTCCATTGCAACGCC---------AGATTCGCTGGCTTCA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
* * * *
34990326 GCTTTAATCTGTTCCACTGTAATGCCAAGGAAATAAGATTCGGTGCCTTCA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
* * * *
34990377 GCTTTAATTTGTTCCACTGCAACACCAGGGAAAAAAAGATTTGCTGCCTTCA
1 GCTTTAATCTGTTCCACTGCAACGCCAGGG-AAATAAGATTCGCTGCCTTCA
* * * * *
34990429 GCTTTAATTTGTTCCACTGCAACACTAGGGGAATAATATTCGCT
1 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCT
34990473 ATAATGACTT
Statistics
Matches: 610, Mismatches: 114, Indels: 44
0.79 0.15 0.06
Matches are distributed among these distances:
41 16 0.03
42 20 0.03
44 4 0.01
45 28 0.05
46 1 0.00
47 1 0.00
48 1 0.00
50 22 0.04
51 437 0.72
52 51 0.08
53 1 0.00
54 25 0.04
55 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (51 bp):
GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
Found at i:34990375 original size:92 final size:93
Alignment explanation
Indices: 34990218--34990404 Score: 259
Period size: 92 Copynumber: 2.0 Consensus size: 93
34990208 CGGGGAAAAA
* * * *
34990218 AGATTCGCTGCCTTTAGCTTTAATTTGTTCCATTGCAATGCCAGGGAAAAAAGATTCACTGCCTT
1 AGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCCAAGGAAAAAAGATTCACTGCCTT
* *
34990283 CAGC-TTAATCTGTTCCATTGCAACGCC
66 CAGCTTTAATCTGTTCCACTGCAACACC
* * * **
34990310 AGATTCGCTGGCTTCAGCTTTAATCTGTTCCACTGTAATGCCAAGGAAATAAGATTCGGTGCCTT
1 AGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCCAAGGAAAAAAGATTCACTGCCTT
*
34990375 CAGCTTTAATTTGTTCCACTGCAACACC
66 CAGCTTTAATCTGTTCCACTGCAACACC
34990403 AG
1 AG
34990405 GGAAAAAAAG
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
92 60 0.73
93 22 0.27
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (93 bp):
AGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCCAAGGAAAAAAGATTCACTGCCTT
CAGCTTTAATCTGTTCCACTGCAACACC
Found at i:34991745 original size:48 final size:47
Alignment explanation
Indices: 34991675--34991814 Score: 138
Period size: 48 Copynumber: 2.9 Consensus size: 47
34991665 TCAAATCCCC
* * *
34991675 TTTGGTCTCAAGGTGTCCTTTGCGGGTTTTCACATTGGCTCTTTTTTT
1 TTTGGACTCAAAGTG-CCTTTGCGGGTTTTCACCTTGGCTCTTTTTTT
* *
34991723 TTTGGACTCAAAGTGCCATTTGCTGGTTTTCGCCTTGG-TCTCTTTTTT
1 TTTGGACTCAAAGTGCC-TTTGCGGGTTTTCACCTTGGCTCT-TTTTTT
* * ** *
34991771 TTAGGACTTAAAGCACCTTTTGCGCGTTTTCACCTTGGTCTCTT
1 TTTGGACTCAAAGTGCC-TTTGCGGGTTTTCACCTTGG-CTCTT
34991815 CTCCTTCTTT
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
47 5 0.07
48 66 0.88
49 1 0.01
50 3 0.04
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (47 bp):
TTTGGACTCAAAGTGCCTTTGCGGGTTTTCACCTTGGCTCTTTTTTT
Found at i:34992260 original size:7 final size:7
Alignment explanation
Indices: 34992246--34992307 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
34992236 GAGGTTTTTG
34992246 TTTT-TT
1 TTTTATT
34992252 TTTTATT
1 TTTTATT
*
34992259 TTTTGTT
1 TTTTATT
* *
34992266 GTTTGTT
1 TTTTATT
34992273 TTGTTATT
1 TT-TTATT
*
34992281 TGTTATT
1 TTTTATT
34992288 TTGTTATT
1 TT-TTATT
34992296 TTGTTATT
1 TT-TTATT
34992304 TTTT
1 TTTT
34992308 TGTTATTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
6 4 0.09
7 23 0.49
8 20 0.43
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:34992289 original size:27 final size:26
Alignment explanation
Indices: 34992240--34992335 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 26
34992230 CCGATAGAGG
* *
34992240 TTTTTGTTTTTTTTTTATT-TTTTGT
1 TTTTTGTTTTTTATTTGTTATTTTGT
*
34992265 TGTTTGTTTTGTTATTTGTTATTTTGT
1 TTTTTGTTTT-TTATTTGTTATTTTGT
34992292 TATTTTGTTATTTT-TTTGTTATTTTGT
1 T-TTTTGTT-TTTTATTTGTTATTTTGT
*
34992319 CTTTTTGTTATTTATTT
1 -TTTTTGTTTTTTATTT
34992336 TTTCTCTACT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
25 9 0.15
26 10 0.17
27 30 0.50
28 9 0.15
29 2 0.03
ACGTcount: A:0.08, C:0.01, G:0.11, T:0.79
Consensus pattern (26 bp):
TTTTTGTTTTTTATTTGTTATTTTGT
Found at i:34992310 original size:19 final size:19
Alignment explanation
Indices: 34992241--34992318 Score: 85
Period size: 19 Copynumber: 4.3 Consensus size: 19
34992231 CGATAGAGGT
* *
34992241 TTTTGTTTTTTTTTTATT-
1 TTTTGTTATTTTTTTGTTA
*
34992259 TTTTGTTGTTTGTTTTGTTA
1 TTTTGTTATTT-TTTTGTTA
34992279 -TTTGTTA---TTTTGTTA
1 TTTTGTTATTTTTTTGTTA
34992294 TTTTGTTATTTTTTTGTTA
1 TTTTGTTATTTTTTTGTTA
34992313 TTTTGT
1 TTTTGT
34992319 CTTTTTGTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
15 8 0.16
16 7 0.14
18 10 0.20
19 26 0.51
ACGTcount: A:0.08, C:0.00, G:0.13, T:0.79
Consensus pattern (19 bp):
TTTTGTTATTTTTTTGTTA
Found at i:34996777 original size:16 final size:16
Alignment explanation
Indices: 34996752--34996785 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34996742 TTTTAAGATG
*
34996752 AAATGTCATGCAATCA
1 AAATGCCATGCAATCA
34996768 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
34996784 AA
1 AA
34996786 GCAAAACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:34998286 original size:23 final size:24
Alignment explanation
Indices: 34998260--34998310 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
34998250 AAAAATCAAA
* *
34998260 ATATGTAATATACA-AAATAATAT
1 ATATGTAATATAAATAAATAATAC
*
34998283 ATAT-TAATCTAAATAAATAATAC
1 ATATGTAATATAAATAAATAATAC
34998306 ATATG
1 ATATG
34998311 GAATGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATGTAATATAAATAAATAATAC
Found at i:34998349 original size:27 final size:25
Alignment explanation
Indices: 34998318--34998372 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 25
34998308 ATGGAATGAA
34998318 AAATTCGAAAT-AGATAATAATATATAT
1 AAATTCGAAATAAG-TAA-AATATA-AT
*
34998345 AAATTTGAAATAAGTAAAATATAAT
1 AAATTCGAAATAAGTAAAATATAAT
34998370 AAA
1 AAA
34998373 ATAAGGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 5 0.19
26 6 0.23
27 13 0.50
28 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (25 bp):
AAATTCGAAATAAGTAAAATATAAT
Found at i:34998575 original size:20 final size:20
Alignment explanation
Indices: 34998526--34998599 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 20
34998516 TAAAAATATA
* *
34998526 TAAAATAATGCATGATGAACT
1 TAAAATAATACATGA-AAACT
34998547 TGAATAATAATACATGAAAACT
1 T-AA-AATAATACATGAAAACT
34998569 TAAAATATATGAACA--AAAACT
1 TAAAATA-AT--ACATGAAAACT
34998590 TAAAATAATA
1 TAAAATAATA
34998600 ATGTATGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
18 1 0.02
20 6 0.13
21 18 0.39
22 7 0.15
23 14 0.30
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (20 bp):
TAAAATAATACATGAAAACT
Found at i:35008297 original size:16 final size:17
Alignment explanation
Indices: 35008270--35008304 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
35008260 AGAGAGTTGA
35008270 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
35008287 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
35008303 GA
1 GA
35008305 TTGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:35018307 original size:119 final size:120
Alignment explanation
Indices: 35018131--35018353 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
35018121 TACTCATTCA
* *
35018131 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
35018196 ATAGTAAC-TCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
* * *
35018251 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * * *
35018313 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGAGACTTAACCCGGA
35018354 CATCGTTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:35018353 original size:40 final size:40
Alignment explanation
Indices: 35018129--35018353 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
35018119 GCTACTCATT
* *
35018129 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
35018169 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
35018209 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
35018249 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
35018288 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
35018329 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35018354 CATCGTTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:35026306 original size:40 final size:40
Alignment explanation
Indices: 35026269--35026493 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
35026259 GCTACTCGTT
*
35026269 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
35026309 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
35026349 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
35026389 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
35026428 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
35026469 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35026494 CATCATTCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 119 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:35026447 original size:119 final size:120
Alignment explanation
Indices: 35026271--35026493 Score: 319
Period size: 119 Copynumber: 1.9 Consensus size: 120
35026261 TACTCGTTCA
*
35026271 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
* *
35026336 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* *
35026391 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * *
35026453 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
35026494 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
118 4 0.04
119 68 0.74
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:35033744 original size:6 final size:6
Alignment explanation
Indices: 35033723--35033801 Score: 61
Period size: 6 Copynumber: 12.8 Consensus size: 6
35033713 CTAAAATAAA
* * *
35033723 TAAAAC TAACAT TAAAAT TAAAAA TAAAGAT TAAAAT TAAAAT TAAAGA-
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAA-AT TAAAAT TAAAAT TAAA-AT
* * * *
35033772 CAAAGAT AAAAAT TAAAAA TAAAAA TAAAA
1 TAAA-AT TAAAAT TAAAAT TAAAAT TAAAA
35033802 CAAAGAAAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
6 52 0.85
7 9 0.15
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (6 bp):
TAAAAT
Found at i:35033765 original size:25 final size:25
Alignment explanation
Indices: 35033720--35033800 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 25
35033710 TTACTAAAAT
* *
35033720 AAATAAA-ACTAACATTAAAATTAA
1 AAATAAAGATTAAAATTAAAATTAA
35033744 AAATAAAGATTAAAATTAAAATTAA
1 AAATAAAGATTAAAATTAAAATTAA
* * * *
35033769 AGACAAAGATAAAAATTAAAAATAA
1 AAATAAAGATTAAAATTAAAATTAA
35033794 AAATAAA
1 AAATAAA
35033801 ACAAAGAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 7 0.15
25 41 0.85
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (25 bp):
AAATAAAGATTAAAATTAAAATTAA
Found at i:35033799 original size:19 final size:19
Alignment explanation
Indices: 35033735--35033801 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
35033725 AAACTAACAT
*
35033735 TAAAATTAAAAA-TAAAGA
1 TAAAAATAAAAATTAAAGA
* *
35033753 TTAAAATTAAAATTAAAGA
1 TAAAAATAAAAATTAAAGA
* * *
35033772 CAAAGATAAAAATTAAAAA
1 TAAAAATAAAAATTAAAGA
35033791 TAAAAATAAAA
1 TAAAAATAAAA
35033802 CAAAGAAAAG
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 9 0.24
19 29 0.76
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (19 bp):
TAAAAATAAAAATTAAAGA
Found at i:35044049 original size:27 final size:26
Alignment explanation
Indices: 35043965--35044488 Score: 440
Period size: 27 Copynumber: 19.6 Consensus size: 26
35043955 TATGACCATT
35043965 TAGGGTAAAATGA-TCGAAATACCCGCA
1 TAGGGTAAAATGACT-GAAATACCC-CA
*
35043992 TAGGGT-AAATGA-TCGCAATACCCCCA
1 TAGGGTAAAATGACT-GAAATA-CCCCA
* * * *
35044018 CAGGGTAAAATGACTAAAATTCTCTCA
1 TAGGGTAAAATGACTGAAATAC-CCCA
*
35044045 TAGGGT-AAATGACCGAAATACCCCCA
1 TAGGGTAAAATGACTGAAATA-CCCCA
* * *
35044071 TAAGGTATAATGACTGAAATATCCTCA
1 TAGGGTAAAATGACTGAAATA-CCCCA
**
35044098 TAGGGTAAAATGACAAAAATACCCCCA
1 TAGGGTAAAATGACTGAAATA-CCCCA
** * * *
35044125 TAAAGTAAAATAACCGAAATACCCCCT
1 TAGGGTAAAATGACTGAAATA-CCCCA
*
35044152 TAGGGTAAAATGACCGAAATATCCCCA
1 TAGGGTAAAATGACTGAAATA-CCCCA
*
35044179 TAGGGTAAAATGACCGAAATACCCCCA
1 TAGGGTAAAATGACTGAAATA-CCCCA
*
35044206 TAGAG--AAATGA-TCGAAATACCCCCA
1 TAGGGTAAAATGACT-GAAATA-CCCCA
*
35044231 TAGGGTAAAATAACTGAAATACTCCCA
1 TAGGGTAAAATGACTGAAATAC-CCCA
* *
35044258 TAAGGTAAAATGACTGAACTACTCCCA
1 TAGGGTAAAATGACTGAAATAC-CCCA
*
35044285 TAAGGT-AAATGA-TCGAAATACCCCCA
1 TAGGGTAAAATGACT-GAAATA-CCCCA
*
35044311 TAGGATAAAATGACTGAAATATCCCCA
1 TAGGGTAAAATGACTGAAATA-CCCCA
**
35044338 TAGGGTAAAATGACCAAAATACCCCTA
1 TAGGGTAAAATGACTGAAATACCCC-A
* *
35044365 TAGGGTAAAAT-AATCAAAATACCTCCA
1 TAGGGTAAAATGACT-GAAATACC-CCA
*
35044392 TAGGGTAAAATGACTAAAATATCCCCA
1 TAGGGTAAAATGACTGAAATA-CCCCA
**
35044419 TAGGGTAAAATGACAAAAATACCTCCA
1 TAGGGTAAAATGACTGAAATACC-CCA
**
35044446 TAGGGTAAAATGACTGTTATACCCC-
1 TAGGGTAAAATGACTGAAATACCCCA
*
35044471 TAGGAGATGAAATGACTG
1 TAGG-G-TAAAATGACTG
35044489 TTATGGTCTT
Statistics
Matches: 417, Mismatches: 57, Indels: 46
0.80 0.11 0.09
Matches are distributed among these distances:
25 27 0.06
26 70 0.17
27 311 0.75
28 9 0.02
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.20
Consensus pattern (26 bp):
TAGGGTAAAATGACTGAAATACCCCA
Found at i:35044398 original size:240 final size:239
Alignment explanation
Indices: 35043972--35044448 Score: 670
Period size: 240 Copynumber: 2.0 Consensus size: 239
35043962 ATTTAGGGTA
* * * *
35043972 AAATGATCGAAATACCCGCATAGGGTAAATGATCGCAATACCCCCACAGGGTAAAATGACTAAAA
1 AAATGATCGAAATACCCCCATAGGGTAAATAATCGAAATACCCCCACAAGGTAAAATGACTAAAA
* * * * *
35044037 TTCTCTCATAGGGTAAATGACCGAAATACCCCCATAAGGTATAATGACTGAAATATCCTCATAGG
66 TACTCCCATAAGGTAAATGACCGAAATACCCCCATAAGGTAAAATGACTGAAATATCCCCATAGG
* *
35044102 GTAAAATGACAAAAATACCCCCATAAAGTAAAATAACCGAAATACCCCCTTAGGGTAAAATGACC
131 GTAAAATGACAAAAATACCCCCATAAAGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACC
* **
35044167 GAAATATCCCCATAGGGTAAAATGACCGAAATACCCCCATAGAG
196 AAAATATCCCCATAGGGTAAAATGACAAAAATACCCCCATAGAG
* * *
35044211 AAATGATCGAAATACCCCCATAGGGTAAAATAA-CTGAAATACTCCCATAAGGTAAAATGACTGA
1 AAATGATCGAAATACCCCCATAGGGT-AAATAATC-GAAATACCCCCACAAGGTAAAATGACTAA
* *
35044275 ACTACTCCCATAAGGTAAATGATCGAAATACCCCCAT-AGGATAAAATGACTGAAATATCCCCAT
64 AATACTCCCATAAGGTAAATGACCGAAATACCCCCATAAGG-TAAAATGACTGAAATATCCCCAT
* * ** * *
35044339 AGGGTAAAATGACCAAAATACCCCTATAGGGTAAAATAATCAAAATACCTCCATAGGGTAAAATG
128 AGGGTAAAATGACAAAAATACCCCCATAAAGTAAAATAACCAAAATACCCCCATAGGGTAAAATG
* *
35044404 ACTAAAATATCCCCATAGGGTAAAATGACAAAAATACCTCCATAG
193 ACCAAAATATCCCCATAGGGTAAAATGACAAAAATACCCCCATAG
35044449 GGTAAAATGA
Statistics
Matches: 208, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
239 29 0.14
240 179 0.86
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (239 bp):
AAATGATCGAAATACCCCCATAGGGTAAATAATCGAAATACCCCCACAAGGTAAAATGACTAAAA
TACTCCCATAAGGTAAATGACCGAAATACCCCCATAAGGTAAAATGACTGAAATATCCCCATAGG
GTAAAATGACAAAAATACCCCCATAAAGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACC
AAAATATCCCCATAGGGTAAAATGACAAAAATACCCCCATAGAG
Found at i:35069009 original size:24 final size:23
Alignment explanation
Indices: 35068982--35069032 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
35068972 CAATAACAAT
* *
35068982 ATGCAAAAAATTCTGCCAGTAAGA
1 ATGCAAAAAAGT-TGCCAGTAAAA
* *
35069006 ATGCAGACAAGTTGCCAGTAAAA
1 ATGCAAAAAAGTTGCCAGTAAAA
35069029 ATGC
1 ATGC
35069033 GATAAATCGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (23 bp):
ATGCAAAAAAGTTGCCAGTAAAA
Found at i:35077540 original size:50 final size:50
Alignment explanation
Indices: 35077270--35077658 Score: 405
Period size: 51 Copynumber: 7.7 Consensus size: 50
35077260 TGTCGATGAA
* * * * *
35077270 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAA-ACTTGAT
* * * *
35077321 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TTGAT
* * * *
35077372 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGTATCAGT-AAACTATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAAACT-TGAT
* * * * * * *
35077423 TACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TTGAT
*
35077474 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAAACTTGAT
*
35077524 CACGTGTGTAGTACTATGTGAAGGCTACTACG-GGAGCCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAAACTTGAT
* * * *
35077574 CATGTGTATAGTACTATGTGAAGGCTACTACGTGAACTGTAAAAC-TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGAT
35077623 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
35077659 TCGAATGATA
Statistics
Matches: 283, Mismatches: 42, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.00
49 41 0.14
50 96 0.34
51 135 0.48
52 10 0.04
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGAT
Found at i:35080351 original size:3 final size:3
Alignment explanation
Indices: 35080343--35080371 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
35080333 TGTGGAATGC
35080343 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
35080372 GATTTCGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:35086111 original size:13 final size:14
Alignment explanation
Indices: 35086076--35086111 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
35086066 TTTCAAGAAG
35086076 ATTTTCTTTTAAAT
1 ATTTTCTTTTAAAT
35086090 ATTTTCTTTTAAA-
1 ATTTTCTTTTAAAT
*
35086103 ATTTACTTT
1 ATTTTCTTT
35086112 AATTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTCTTTTAAAT
Found at i:35100187 original size:44 final size:43
Alignment explanation
Indices: 35100116--35100618 Score: 192
Period size: 44 Copynumber: 10.8 Consensus size: 43
35100106 AAGCCACAGG
* * *
35100116 TCTTATCTCCCTGAGATTATAGCGGAGCATATTGAAGCTAGCAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG-AA
* **
35100160 TCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAGAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA--A
* * * * *
35100204 TTTTATCTCTCTGA-AGTTACAACAGAGTAGATCGCATCAGATGGAAGCCAGAAA
1 TCTTATCTCCCTGAGA-TT---AC--AGT-G---G-AGCAGATTGAAGCTAG-AA
* *
35100258 TCATATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG-AA
* * * * *
35100302 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATG-GAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAA-GCTAGAA
* * * *
35100346 TCTTATCTCTCTGA-AGTTACAATAGAGTAGATCGCATCAGATGGAAGCCAGAAA
1 TCTTATCTCCCTGAGA-TTAC-----AGT-G---G-AGCAGATTGAAGCTAG-AA
**
35100400 TCTTAAT-TCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAA
1 TCTT-ATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG-AA
* * * * *
35100444 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATG-GAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAA-GCTAGAA
** * *
35100488 TCTTATCTCTTTGAAGTTACTGTAGAGTAGATCGCATCAGATTGAAG-TCAGAAA
1 TCTTATCTCCCTG-AG--A-T-TACAGT-G---G-AGCAGATTGAAGCT-AG-AA
* * *
35100542 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAATAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT-AGAA
* *
35100586 TCCTATCTCACTGAGATTACAGTGGAGCAGATT
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT
35100619 AAAATAAAGG
Statistics
Matches: 339, Mismatches: 71, Indels: 98
0.67 0.14 0.19
Matches are distributed among these distances:
42 1 0.00
43 9 0.03
44 200 0.59
45 15 0.04
46 2 0.01
47 3 0.01
48 4 0.01
49 18 0.05
50 4 0.01
51 3 0.01
52 2 0.01
53 13 0.04
54 56 0.17
55 8 0.02
56 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGAA
Found at i:35100355 original size:142 final size:142
Alignment explanation
Indices: 35100116--35100669 Score: 894
Period size: 142 Copynumber: 3.9 Consensus size: 142
35100106 AAGCCACAGG
* * * *
35100116 TCTTATCTCCCTGAGATTATAGCGGAGCATATTGAAGCTAGCAATCTTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
*
35100181 GTGGAGCGGATTAAAATAGAGGATTTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAGAT
66 GTGGAGCGGATTAAAATAGAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAGAT
35100246 GGAAGCCAGAAA
131 GGAAGCCAGAAA
*
35100258 TCATATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* *
35100323 GTGGAGCGGATTAAAATGGAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGAT
66 GTGGAGCGGATTAAAATAGAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAGAT
35100388 GGAAGCCAGAAA
131 GGAAGCCAGAAA
*
35100400 TCTTAAT-TCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 TCTT-ATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * ***
35100464 AGTGGAGCGGATTAAAATGGAGGATCTTATCTCTTTGAAGTTACTGTAGAGTAGATCGCATCAGA
65 AGTGGAGCGGATTAAAATAGAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAGA
* *
35100529 TTGAAGTCAGAAA
130 TGGAAGCCAGAAA
* * *
35100542 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAATAATCCTATCTCACTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * *
35100607 GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAG
66 GTGGAGCGGATTAAAATAGAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAG
35100670 GTCTTATCTC
Statistics
Matches: 385, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
141 2 0.01
142 381 0.99
143 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (142 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAGAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAGAT
GGAAGCCAGAAA
Found at i:35100637 original size:44 final size:44
Alignment explanation
Indices: 35100540--35100661 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 44
35100530 TGAAGTCAGA
* * **
35100540 AATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAAT
1 AATCTTATCTCACTGAGATTACAGCGGAGCAGATTGAAAATAAT
* *
35100584 AATCCTATCTCACTGAGATTACAGTGGAGCAGATT-AAAATAA-
1 AATCTTATCTCACTGAGATTACAGCGGAGCAGATTGAAAATAAT
* * *
35100626 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGAT
1 A--ATCTTATCTCACTGAGA-TTACAGCGGAGCAGAT
35100662 CGCATCAGGT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.02
43 6 0.09
44 57 0.89
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCACTGAGATTACAGCGGAGCAGATTGAAAATAAT
Found at i:35102139 original size:29 final size:29
Alignment explanation
Indices: 35102106--35102168 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
35102096 AAAGCGACAC
35102106 TGTTTTACGCCTAATTGCTATTATACTAT
1 TGTTTTACGCCTAATTGCTATTATACTAT
35102135 TGTTTTACGCCTAATTGCTATTATACTAT
1 TGTTTTACGCCTAATTGCTATTATACTAT
35102164 TGTTT
1 TGTTT
35102169 GCGCGAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (29 bp):
TGTTTTACGCCTAATTGCTATTATACTAT
Found at i:35104635 original size:69 final size:69
Alignment explanation
Indices: 35104521--35104656 Score: 227
Period size: 69 Copynumber: 2.0 Consensus size: 69
35104511 TTAATCTTTC
35104521 GTGGTACAAGGATCCAAAAGAGCTAATACATTATTATCCAAAGAAACAAAGTGATAATTAATGGA
1 GTGGTACAAGGATCCAAAAGAGCTAATACATTATTATCCAAAGAAACAAAGTGATAATTAATGGA
35104586 TTAT
66 TTAT
* * * * *
35104590 GTGGTACAAGGATCTAGAAGAGCTAATACATTGTTATCTAGAGAAACAAAGTGATAATTAATGGA
1 GTGGTACAAGGATCCAAAAGAGCTAATACATTATTATCCAAAGAAACAAAGTGATAATTAATGGA
35104655 TT
66 TT
35104657 CTATTTTAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (69 bp):
GTGGTACAAGGATCCAAAAGAGCTAATACATTATTATCCAAAGAAACAAAGTGATAATTAATGGA
TTAT
Found at i:35106275 original size:50 final size:51
Alignment explanation
Indices: 35106151--35106397 Score: 205
Period size: 50 Copynumber: 4.8 Consensus size: 51
35106141 GATAATAACA
* * ** * * **
35106151 TGCCAAAGCCATGTCCCAGACATGGTCTTACATAGGATGTTTC-T-TGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATATGG
* * * * **
35106200 TGCTAATGACATATCCCAGATATGGTCTTACATGGGAGTTCTCATAT-TGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATATGG
* ** * *
35106250 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCT-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATATGG
* * *
35106300 TGCCAACGCCATGTCCCAGACATGGGCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--ATGG
* *
35106356 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
35106398 TTACCCAAAT
Statistics
Matches: 156, Mismatches: 34, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
49 34 0.22
50 81 0.52
51 1 0.01
53 1 0.01
56 39 0.25
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATATGG
Found at i:35108867 original size:11 final size:12
Alignment explanation
Indices: 35108837--35108870 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
35108827 CGACCTGCCC
35108837 ATATTAATTTTT
1 ATATTAATTTTT
35108849 ATATTAATTTTT
1 ATATTAATTTTT
35108861 ATA-TAATTTT
1 ATATTAATTTT
35108871 AAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:35116189 original size:74 final size:75
Alignment explanation
Indices: 35116065--35116233 Score: 259
Period size: 74 Copynumber: 2.3 Consensus size: 75
35116055 ATTTTACAAA
* * *
35116065 ATTAATAAGGGAATAATCCTATATCCTTTTGGAAAGAATATAATTTATTTTTCTAACTTT-CATT
1 ATTAATAAGGGAATAATCATATATCCTTTTGGAAAGAATATAATTCATTTTTCTAAATTTCCATT
*
35116129 TTCCTTCTCT
66 TGCCTTCTCT
* * *
35116139 ATTAAAAAGGGAATAATCATATATTCTTTTGGAAAGAATATACTTCATTTTTCTAAATTTCCATT
1 ATTAATAAGGGAATAATCATATATCCTTTTGGAAAGAATATAATTCATTTTTCTAAATTTCCATT
35116204 TGCCTTCTCT
66 TGCCTTCTCT
*
35116214 ATTAATAAGAGAATAATCAT
1 ATTAATAAGGGAATAATCAT
35116234 GGTTTTCCTT
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
74 54 0.64
75 31 0.36
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (75 bp):
ATTAATAAGGGAATAATCATATATCCTTTTGGAAAGAATATAATTCATTTTTCTAAATTTCCATT
TGCCTTCTCT
Found at i:35121774 original size:136 final size:136
Alignment explanation
Indices: 35121526--35121781 Score: 327
Period size: 136 Copynumber: 1.9 Consensus size: 136
35121516 GTTGGTCGAA
* * * * * *
35121526 ACTCACACGAGCTGTCGGTTGAAACGTAGCTACACGGTGTTGCTCCAAAAGTTGTTGAGTATCCG
1 ACTCACACAAGCTGTCGATTGAAACATAGCTACACGGTGTTGCTCCAAAAGCTATTGAGTATCCA
* * * * *
35121591 TAACAAATGTCGAAACTCAGCCACCGGTAGGGCATCTAGGACTAGCACCCGAAACATGGCAACCT
66 CAACAAATGTCGAAACTCAGCCACCGGTAGGACATCTAAGACCAGCACCCAAAACATGGCAACCT
35121656 AGGTCT
131 AGGTCT
* * *
35121662 ACTCACACAAGCTGTCGATCTG-AACATAGCTACATGGTGTTGCTCCTAAAGCTATTGAGTATTC
1 ACTCACACAAGCTGTCGAT-TGAAACATAGCTACACGGTGTTGCTCCAAAAGCTATTGAGTATCC
* * *
35121726 ACAACAAATGTTGGAACTTAGCCACCGGTAGGACA-CTCAAGACCAGCACCCAAAAC
65 ACAACAAATGTCGAAACTCAGCCACCGGTAGGACATCT-AAGACCAGCACCCAAAAC
35121782 TTGGTAAACC
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
135 2 0.02
136 97 0.96
137 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (136 bp):
ACTCACACAAGCTGTCGATTGAAACATAGCTACACGGTGTTGCTCCAAAAGCTATTGAGTATCCA
CAACAAATGTCGAAACTCAGCCACCGGTAGGACATCTAAGACCAGCACCCAAAACATGGCAACCT
AGGTCT
Found at i:35125126 original size:22 final size:21
Alignment explanation
Indices: 35125101--35125151 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
35125091 ATTTTTTTAA
35125101 AAATTTAATTATTAAAATATAT
1 AAATTTAA-TATTAAAATATAT
* *
35125123 AAATATTAATATTAATATTTAT
1 AAAT-TTAATATTAAAATATAT
*
35125145 TAATTTA
1 AAATTTA
35125152 TGAATAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.72
23 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATTTAATATTAAAATATAT
Found at i:35128381 original size:46 final size:46
Alignment explanation
Indices: 35128313--35128402 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
35128303 TTTATTGCAA
* *
35128313 TAAGAGTTTTAGTTTTATTTATTTTCTTTACTATATCAGGTTTTAT
1 TAAGAGTTTTAGTTTTACTTATTTTCTCTACTATATCAGGTTTTAT
* * *
35128359 TAAGATTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTT
1 TAAGAGTTTTAGTTTTACTTATTTTCTCTACTATATCAGGTTTT
35128403 TATTTCCTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (46 bp):
TAAGAGTTTTAGTTTTACTTATTTTCTCTACTATATCAGGTTTTAT
Found at i:35131048 original size:15 final size:16
Alignment explanation
Indices: 35131017--35131049 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35131007 GGCAAACATA
35131017 ATTTGAAATATAATAT
1 ATTTGAAATATAATAT
*
35131033 ATTTGTAATA-AATAT
1 ATTTGAAATATAATAT
35131048 AT
1 AT
35131050 GGTTATATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTTGAAATATAATAT
Found at i:35132491 original size:6 final size:6
Alignment explanation
Indices: 35132480--35132505 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35132470 ATAAATAAAT
35132480 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
35132506 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:35134532 original size:27 final size:27
Alignment explanation
Indices: 35134502--35134577 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
35134492 AATGCTAATA
35134502 CGAGCACATA-AACGGGAAGCTCTCTTT
1 CGAGC-CATACAACGGGAAGCTCTCTTT
35134529 CGAGCCATACAACGGGAAGCTCTCTTT
1 CGAGCCATACAACGGGAAGCTCTCTTT
* *
35134556 CAAGCCATATAACGGGAAGCTC
1 CGAGCCATACAACGGGAAGCTC
35134578 ATGTGAGCCA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.09
27 42 0.91
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (27 bp):
CGAGCCATACAACGGGAAGCTCTCTTT
Found at i:35134592 original size:25 final size:25
Alignment explanation
Indices: 35134503--35134653 Score: 92
Period size: 27 Copynumber: 5.9 Consensus size: 25
35134493 ATGCTAATAC
* *
35134503 GAGCACATA-AACGGGAAGCTCTCTTT
1 GAGC-CATATAACGGGAAGCTC-ATGT
* * *
35134529 CGAGCCATACAACGGGAAGCTCTCTTT
1 -GAGCCATATAACGGGAAGCTC-ATGT
*
35134556 CAAGCCATATAACGGGAAGCTCATGT
1 -GAGCCATATAACGGGAAGCTCATGT
** **
35134582 GAGCCATATAACGAAAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATGT
* * *
35134607 GAGCCATAT-TCGTGAAGCTC-TGGA
1 GAGCCATATAACGGGAAGCTCAT-GT
* *
35134631 GAGCCATATATCGGGATGCTCAT
1 GAGCCATATAACGGGAAGCTCAT
35134654 AAGAGCTGTG
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
23 1 0.01
24 18 0.17
25 38 0.36
26 7 0.07
27 41 0.39
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGT
Found at i:35134658 original size:25 final size:25
Alignment explanation
Indices: 35134558--35134659 Score: 100
Period size: 25 Copynumber: 4.1 Consensus size: 25
35134548 CTCTCTTTCA
**
35134558 AGCCATATAACGGGAAGCTCATGTG
1 AGCCATATAACGGGAAGCTCATAAG
**
35134583 AGCCATATAACGAAAAGCTCATAAG
1 AGCCATATAACGGGAAGCTCATAAG
* * *
35134608 AGCCATAT-TCGTGAAGCTC-TGGAG
1 AGCCATATAACGGGAAGCTCAT-AAG
* *
35134632 AGCCATATATCGGGATGCTCATAAG
1 AGCCATATAACGGGAAGCTCATAAG
35134657 AGC
1 AGC
35134660 TGTGGTGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
23 1 0.02
24 18 0.29
25 43 0.68
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (25 bp):
AGCCATATAACGGGAAGCTCATAAG
Found at i:35142293 original size:25 final size:25
Alignment explanation
Indices: 35142240--35142306 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
35142230 CTCTTTCGAG
** *
35142240 CCATATAACGGGAAGCTCATGTGAG
1 CCATATAACGGGAAGCTCATAAGAA
* *
35142265 CCATGTAACGGGAAGCTGATAAGAA
1 CCATATAACGGGAAGCTCATAAGAA
*
35142290 CCATAT-TCGGGAAGCTC
1 CCATATAACGGGAAGCTC
35142307 CGGGGAGCCA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 9 0.26
25 25 0.74
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (25 bp):
CCATATAACGGGAAGCTCATAAGAA
Found at i:35152227 original size:21 final size:21
Alignment explanation
Indices: 35152201--35152246 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
35152191 CTACCTTTGA
35152201 TGTTGCGACACAGGGTTACTG
1 TGTTGCGACACAGGGTTACTG
* *
35152222 TGTTGCGACATAGGGTTATTG
1 TGTTGCGACACAGGGTTACTG
35152243 TGTT
1 TGTT
35152247 ACGAAACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.33, T:0.37
Consensus pattern (21 bp):
TGTTGCGACACAGGGTTACTG
Found at i:35156457 original size:28 final size:28
Alignment explanation
Indices: 35156400--35156461 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
35156390 TGAAAAAGCA
*
35156400 AAGACATGAATTTAATATGTAATATACT
1 AAGACATGAATTTAATATGTAACATACT
* *
35156428 AAGACATG-ATTTAAATATGTAGCATGCT
1 AAGACATGAATTT-AATATGTAACATACT
35156456 AAGACA
1 AAGACA
35156462 AAATAATGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.31
Consensus pattern (28 bp):
AAGACATGAATTTAATATGTAACATACT
Found at i:35158444 original size:24 final size:23
Alignment explanation
Indices: 35158392--35158445 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
35158382 TTTTTTTTTC
*
35158392 ATTTTCATTTTCCTTTTCTTGTTC
1 ATTTTCATTTT-CTTTTCTTGTTA
*
35158416 TTTTTCATTATT-TTTCTCTTGTTA
1 ATTTTCATT-TTCTTT-TCTTGTTA
35158440 ATTTTC
1 ATTTTC
35158446 TCTCAACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 3 0.12
24 20 0.80
25 2 0.08
ACGTcount: A:0.11, C:0.17, G:0.04, T:0.69
Consensus pattern (23 bp):
ATTTTCATTTTCTTTTCTTGTTA
Found at i:35164078 original size:20 final size:18
Alignment explanation
Indices: 35164045--35164100 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 18
35164035 TACTAGTATA
35164045 TTATGTTTATAATTTTATTT
1 TTAT-TTTATAATTTTA-TT
35164065 TTATTTTATAAATTTTATT
1 TTATTTTAT-AATTTTATT
35164084 TTA-TTTAT--TTTTATT
1 TTATTTTATAATTTTATT
35164099 TT
1 TT
35164101 GTTATTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.26
18 5 0.14
19 10 0.29
20 11 0.31
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTATTTTATAATTTTATT
Found at i:35164093 original size:14 final size:15
Alignment explanation
Indices: 35164058--35164109 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 15
35164048 TGTTTATAAT
35164058 TTTATTTTTATTTTA
1 TTTATTTTTATTTTA
* *
35164073 -TAAATTTTATTTTA
1 TTTATTTTTATTTTA
35164087 TTTATTTTTATTTT-
1 TTTATTTTTATTTTA
*
35164101 GTTATTTTT
1 TTTATTTTT
35164110 GTTATTTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTATTTTTATTTTA
Found at i:35164120 original size:18 final size:18
Alignment explanation
Indices: 35164084--35164117 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35164074 AAATTTTATT
*
35164084 TTATTTATTTTTATTTTG
1 TTATTTATTGTTATTTTG
35164102 TTATTT-TTGTTATTTT
1 TTATTTATTGTTATTTT
35164118 TGTATACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (18 bp):
TTATTTATTGTTATTTTG
Found at i:35170729 original size:17 final size:17
Alignment explanation
Indices: 35170707--35170784 Score: 61
Period size: 17 Copynumber: 4.3 Consensus size: 17
35170697 CATGTATACA
*
35170707 AAAATAACAAA-AATAAT
1 AAAATAA-AAATAAAAAT
35170724 AAAATAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
*
35170741 AAAA-ATAAATAAAATTTAT
1 AAAATAAAAATAAAA---AT
35170760 AAAATTTATAAAATAAAAAT
1 AAAA--TA-AAAATAAAAAT
35170780 AAAAT
1 AAAAT
35170785 TATAAACATA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
16 12 0.24
17 16 0.32
18 1 0.02
19 6 0.12
20 6 0.12
22 1 0.02
23 8 0.16
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:35170735 original size:6 final size:6
Alignment explanation
Indices: 35170706--35170749 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
35170696 ACATGTATAC
*
35170706 AAAAAT AACAAA- AATAAT -AAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
35170750 TAAAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 6 0.18
6 24 0.73
7 3 0.09
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:35170736 original size:23 final size:22
Alignment explanation
Indices: 35170706--35170783 Score: 77
Period size: 23 Copynumber: 3.5 Consensus size: 22
35170696 ACATGTATAC
35170706 AAAAATAACAAAAATAATAAAAT
1 AAAAATAA-AAAAATAATAAAAT
*
35170729 AAAAATAAAAATAAAAAT-AAAT
1 AAAAATAAAAA-AATAATAAAAT
* * * *
35170751 AAAATTTATAAAATTTATAAAAT
1 AAAA-ATAAAAAAATAATAAAAT
35170774 AAAAATAAAA
1 AAAAATAAAA
35170784 TTATAAACAT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
22 18 0.41
23 26 0.59
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAATAAAAAAATAATAAAAT
Found at i:35170761 original size:9 final size:9
Alignment explanation
Indices: 35170749--35170773 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
35170739 ATAAAAATAA
35170749 ATAAAATTT
1 ATAAAATTT
35170758 ATAAAATTT
1 ATAAAATTT
35170767 ATAAAAT
1 ATAAAAT
35170774 AAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAAAATTT
Found at i:35186826 original size:40 final size:40
Alignment explanation
Indices: 35186773--35187077 Score: 254
Period size: 40 Copynumber: 7.5 Consensus size: 40
35186763 ATTCCACTGT
* *
35186773 AACCTTAGGGAGATAAGACTTGATGCGATCTGCTCTCTGC
1 AACCTCAGAGAGATAAGACTTGATGCGATCTGCTCTCTGC
** ** *
35186813 AACCTCAGAGAGATAAGATCTGTGATTTGATCCACTCCACTGC
1 AACCTCAGAGAGATAAGA-CT-TGATGCGATCTGCT-CTCTGC
* * * *
35186856 AACTTCAGGGAGATAGGATTTGATGCGATCTGCTCTCTGC
1 AACCTCAGAGAGATAAGACTTGATGCGATCTGCTCTCTGC
** ** *
35186896 AACCTCAGAGAGATAAGATCTGTGAT-TAATCCACTCCACTGC
1 AACCTCAGAGAGATAAGA-CT-TGATGCGATCTGCT-CTCTGC
* * * *
35186938 AACTTCAGGGAGATAGGATTTGATGCGATCTGCTCTCTGC
1 AACCTCAGAGAGATAAGACTTGATGCGATCTGCTCTCTGC
** ** *
35186978 AACCTCAGAGAGATAAGATCTGTGAT-TAATCCACTCCACTGC
1 AACCTCAGAGAGATAAGA-CT-TGATGCGATCTGCT-CTCTGC
* * * *
35187020 AACTTCAGGGAGATAGGATTTGATGCGATCTGCTCTCTGC
1 AACCTCAGAGAGATAAGACTTGATGCGATCTGCTCTCTGC
35187060 AACCTCAGAGAGATAAGA
1 AACCTCAGAGAGATAAGA
35187078 TCTGTGATTA
Statistics
Matches: 199, Mismatches: 55, Indels: 22
0.72 0.20 0.08
Matches are distributed among these distances:
40 84 0.42
41 36 0.18
42 59 0.30
43 20 0.10
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (40 bp):
AACCTCAGAGAGATAAGACTTGATGCGATCTGCTCTCTGC
Found at i:35186951 original size:42 final size:42
Alignment explanation
Indices: 35186809--35187116 Score: 283
Period size: 42 Copynumber: 7.5 Consensus size: 42
35186799 GATCTGCTCT
35186809 CTGCAACCTCAGAGAGATAAGATCTGTGATTTGATCCACTCCA
1 CTGCAACCTCAGAGAGATAAGATCTGTGA-TTGATCCACTCCA
* * * * ** *
35186852 CTGCAACTTCAGGGAGATAGGAT-T-TGATGCGATCTGCT-CT
1 CTGCAACCTCAGAGAGATAAGATCTGTGAT-TGATCCACTCCA
*
35186892 CTGCAACCTCAGAGAGATAAGATCTGTGATTAATCCACTCCA
1 CTGCAACCTCAGAGAGATAAGATCTGTGATTGATCCACTCCA
* * * * ** *
35186934 CTGCAACTTCAGGGAGATAGGAT-T-TGATGCGATCTGCT-CT
1 CTGCAACCTCAGAGAGATAAGATCTGTGAT-TGATCCACTCCA
*
35186974 CTGCAACCTCAGAGAGATAAGATCTGTGATTAATCCACTCCA
1 CTGCAACCTCAGAGAGATAAGATCTGTGATTGATCCACTCCA
* * * * ** *
35187016 CTGCAACTTCAGGGAGATAGGAT-T-TGATGCGATCTGCT-CT
1 CTGCAACCTCAGAGAGATAAGATCTGTGAT-TGATCCACTCCA
*
35187056 CTGCAACCTCAGAGAGATAAGATCTGTGATTAATCCACTCCA
1 CTGCAACCTCAGAGAGATAAGATCTGTGATTGATCCACTCCA
* *
35187098 CTGCAACTTCAGGGAGATA
1 CTGCAACCTCAGAGAGATA
35187117 GGATTAGACA
Statistics
Matches: 204, Mismatches: 49, Indels: 25
0.73 0.18 0.09
Matches are distributed among these distances:
40 72 0.35
41 39 0.19
42 73 0.36
43 20 0.10
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (42 bp):
CTGCAACCTCAGAGAGATAAGATCTGTGATTGATCCACTCCA
Found at i:35186971 original size:82 final size:82
Alignment explanation
Indices: 35186765--35187121 Score: 653
Period size: 82 Copynumber: 4.3 Consensus size: 82
35186755 TTCAACCCAT
* * *
35186765 TCCACTGTAACCTT-AGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACCTCAGAGAGATAA
1 TCCACTGCAA-CTTCAGGGAGATAGGATTTGATGCGATCTGCTCTCTGCAACCTCAGAGAGATAA
*
35186829 GATCTGTGATTTGATCCAC
65 GATCTGTGA-TTAATCCAC
35186848 TCCACTGCAACTTCAGGGAGATAGGATTTGATGCGATCTGCTCTCTGCAACCTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAGGATTTGATGCGATCTGCTCTCTGCAACCTCAGAGAGATAAG
35186913 ATCTGTGATTAATCCAC
66 ATCTGTGATTAATCCAC
35186930 TCCACTGCAACTTCAGGGAGATAGGATTTGATGCGATCTGCTCTCTGCAACCTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAGGATTTGATGCGATCTGCTCTCTGCAACCTCAGAGAGATAAG
35186995 ATCTGTGATTAATCCAC
66 ATCTGTGATTAATCCAC
35187012 TCCACTGCAACTTCAGGGAGATAGGATTTGATGCGATCTGCTCTCTGCAACCTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAGGATTTGATGCGATCTGCTCTCTGCAACCTCAGAGAGATAAG
35187077 ATCTGTGATTAATCCAC
66 ATCTGTGATTAATCCAC
35187094 TCCACTGCAACTTCAGGGAGATAGGATT
1 TCCACTGCAACTTCAGGGAGATAGGATT
35187122 AGACATTTCA
Statistics
Matches: 269, Mismatches: 4, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
82 203 0.75
83 66 0.25
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (82 bp):
TCCACTGCAACTTCAGGGAGATAGGATTTGATGCGATCTGCTCTCTGCAACCTCAGAGAGATAAG
ATCTGTGATTAATCCAC
Found at i:35187491 original size:43 final size:41
Alignment explanation
Indices: 35187394--35187506 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 41
35187384 TTTTCAGTTT
* * * *
35187394 GCTCCACTGCAACCTCAGGGAAATAAGAGT-TGATGTGATCT
1 GCTCCACTGCAACCTCAGGGAGATAAGA-TCCGATGTAATCC
* *
35187435 GCT-CTCTGCAACCTCAGAGAGATAAGATCCGCATGTCAATCC
1 GCTCCACTGCAACCTCAGGGAGATAAGATCCG-ATGT-AATCC
*
35187477 GCTCCACTGCAACCTCAGGGAGATAGGATC
1 GCTCCACTGCAACCTCAGGGAGATAAGATC
35187507 GATTTCTTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.02
40 22 0.37
41 7 0.12
42 6 0.10
43 23 0.39
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
GCTCCACTGCAACCTCAGGGAGATAAGATCCGATGTAATCC
Found at i:35192715 original size:12 final size:12
Alignment explanation
Indices: 35192698--35192725 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
35192688 TCTCCATTTC
35192698 TTTTCTTCTTTG
1 TTTTCTTCTTTG
35192710 TTTTCTTCTTTG
1 TTTTCTTCTTTG
35192722 TTTT
1 TTTT
35192726 ATACCTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTCTTCTTTG
Found at i:35196235 original size:105 final size:105
Alignment explanation
Indices: 35196054--35196365 Score: 565
Period size: 105 Copynumber: 3.0 Consensus size: 105
35196044 CCGCTGAATC
*
35196054 GGGGAATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATATGGTGGAT-ATCGCACTTAGC
1 GGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGTGGATCA-CGCACATAGC
35196117 ACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCG
65 ACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCG
35196158 GGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGTGGATCACGCACATAGCA
1 GGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGTGGATCACGCACATAGCA
35196223 CCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCG
35196263 GGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGTGGATCACGCACATAGCA
1 GGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGTGGATCACGCACATAGCA
* **
35196328 CCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
66 CCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
35196366 TTATATACAA
Statistics
Matches: 202, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
104 25 0.12
105 176 0.87
106 1 0.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (105 bp):
GGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGTGGATCACGCACATAGCA
CCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:35202895 original size:43 final size:40
Alignment explanation
Indices: 35202828--35203324 Score: 212
Period size: 43 Copynumber: 11.8 Consensus size: 40
35202818 CTGAAGAAAC
* *
35202828 TAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTGACAT
1 TAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATT-ACAT
* * *
35202869 TCGAATCTTATCTCTCTGAGGTTGCAG-AGAGCAGATTACGT
1 T--AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTACAT
* * * * *
35202910 TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAAACC
1 TAA-TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-T-TACA-T
* * * * *
35202954 TAATCATATCTCCCTGAAGTTGCGGTGGAG-TGAATTAAAT
1 TAATCTTATCTCCCTGAGGTTGCAGTGGAGCAG-ATTACAT
* ** ** * *
35202994 CACAGATCTTATCTTTCTGAGGTTATAG-AGAGCAGATCACAT
1 --TA-ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTACAT
* * * ** * *
35203036 CAAGTCTTATCTCCTTGAAGTTGCAGTGAAGCAGACAGAAGAAAC
1 TAA-TCTTATCTCCCTGAGGTTGCAGTG--G-AG-CAGATTACAT
* * **
35203081 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAACAT
1 TAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATT-ACAT
* ** * *
35203122 CCAGATCTTATCTTTCTGAGGTTGCAG-AGAGCAGATCACAT
1 -TA-ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTACAT
* * * ** * *
35203163 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAAC
1 TAA-TCTTATCTCCCTGAGGTTGCAGT-G-G-AG-CAGATTACAT
* * *
35203208 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACAT
1 TAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATT-ACAT
* ** ** *
35203249 CCAGATCTTATCTTTCTGAGGTTGCAG-AAAGCAGATCACAT
1 -TA-ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTACAT
*
35203290 TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TAA-TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
35203325 CAGAAGAAAC
Statistics
Matches: 333, Mismatches: 91, Indels: 64
0.68 0.19 0.13
Matches are distributed among these distances:
39 5 0.02
40 83 0.25
41 36 0.11
42 36 0.11
43 107 0.32
44 50 0.15
45 16 0.05
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (40 bp):
TAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTACAT
Found at i:35202933 original size:40 final size:42
Alignment explanation
Indices: 35202829--35203441 Score: 202
Period size: 43 Copynumber: 14.5 Consensus size: 42
35202819 TGAAGAAACT
* * *
35202829 AATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTGACATTC
1 AATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGACATTC
* *
35202871 GAATCTTATCTCTCTGAGGTTGCAG-AGAGCAGATT-ACGTT-
1 -AATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGACATTC
* * * * * * **
35202911 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAAACC
1 AA-TCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGACATTC
* * * * * * *
35202954 TAATCATATCTCCCTGAAGTTGCGGTGGAG-TGAATT-AAATCAC
1 -AATCTTATCTCCCTGAGGTTGCAGTAGAGCAG-ATTGACAT-TC
** ** *
35202997 AGATCTTATCTTTCTGAGGTTATAG-AGAGCAGA-TCACA-TC
1 A-ATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGACATTC
* * * * *
35203037 AAGTCTTATCTCCTTGAAGTTGCAGTGAAGCAGACAGA-AGAAACT-
1 AA-TCTTATCTCCCTGAGGTTGCAGT--AG-AG-CAGATTGACATTC
* * * ** * *
35203082 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAACATCC
1 AATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGACATTC
** *
35203124 AGATCTTATCTTTCTGAGGTTGCAG-AGAGCAGA-TCACA-TC
1 A-ATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGACATTC
* * * ** * **
35203164 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAAC
1 AA-TCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTG-ACATTC
* * * * * *
35203208 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCC
1 -AATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGACATTC
** * *
35203251 AGATCTTATCTTTCTGAGGTTGCAG-AAAGCAGA-TCACATT-
1 A-ATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGACATTC
* * ** * **
35203291 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC
1 AA-TCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTG-ACATTC
* * * * * * *
35203335 TAATCCTCTCTCCCTGAAGTTACAGTAGAGCGGATTAACATCC
1 -AATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGACATTC
** *
35203378 AGATCTTATCTTTCTGAGGTTGCAG-AGAGCAGATCG-CA-TC
1 A-ATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGACATTC
* * *
35203418 AAGTCCTATCTCCCCGAAGTTGCA
1 AA-TCTTATCTCCCTGAGGTTGCA
35203442 ACGGAGTAAA
Statistics
Matches: 413, Mismatches: 122, Indels: 73
0.68 0.20 0.12
Matches are distributed among these distances:
39 6 0.01
40 98 0.24
41 40 0.10
42 42 0.10
43 134 0.32
44 80 0.19
45 12 0.03
46 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (42 bp):
AATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGACATTC
Found at i:35203133 original size:127 final size:127
Alignment explanation
Indices: 35202814--35203441 Score: 949
Period size: 127 Copynumber: 5.0 Consensus size: 127
35202804 CCCTAGAGAA
* * * *
35202814 CAGACTGAAGAAACTAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTGACATTC-GAATCTT
1 CAGACAGAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAG-ATCTT
* * * *
35202878 ATCTCTCTGAGGTTGCAGAGAGCAGATTACGTTAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
65 ATCTTTCTGAGGTTGCAGAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * * *
35202941 TAGACTA-AA-AACCTAATCATATCTCCCTGAAGTTGCGGTGGAGTGAATTAA-ATCACAGATCT
1 CAGAC-AGAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATC-CAGATCT
** * *
35203003 TATCTTTCTGAGGTTATAGAGAGCAGATCACATCAAGTCTTATCTCCTTGAAGTTGCAGTGAAG
64 TATCTTTCTGAGGTTGCAGAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
*
35203067 CAGACAGAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAACATCCAGATCTTA
1 CAGACAGAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTA
*
35203132 TCTTTCTGAGGTTGCAGAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAG
66 TCTTTCTGAGGTTGCAGAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
35203194 CAGACAGAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTA
1 CAGACAGAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTA
* *
35203259 TCTTTCTGAGGTTGCAGAAAGCAGATCACATTAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TCTTTCTGAGGTTGCAGAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * *
35203321 CAGACAGAAGAAACTAATCCTCTCTCCCTGAAGTTACAGTAGAGCGGATTAACATCCAGATCTTA
1 CAGACAGAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTA
* * *
35203386 TCTTTCTGAGGTTGCAGAGAGCAGATCGCATCAAGTCCTATCTCCCCGAAGTTGCA
66 TCTTTCTGAGGTTGCAGAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGCA
35203442 ACGGAGTAAA
Statistics
Matches: 455, Mismatches: 40, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
125 3 0.01
126 102 0.22
127 347 0.76
128 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (127 bp):
CAGACAGAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTA
TCTTTCTGAGGTTGCAGAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
Found at i:35203184 original size:83 final size:84
Alignment explanation
Indices: 35202831--35203441 Score: 284
Period size: 83 Copynumber: 7.2 Consensus size: 84
35202821 AAGAAACTAA
* * * * * * *
35202831 TCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTGACATTC-GAATCTTATCTCTCTGAGGTTGCA
1 TCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAACATCCAG-ATCTTATCTCCCTGAAGTTGCA
* * *
35202895 G-AGAGCAGATTACGTTAAG
65 GTAGAGCAGATCACATCAAG
* * * * * * * *
35202914 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAAACCTA-ATCATATCTCCCTGAAGTTGCG
1 TCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAACATCC-AGATCTTATCTCCCTGAAGTTGCA
* * * *
35202978 GTGGAG-TGAATTAAATCACAG
65 GTAGAGCAG-ATCACATCA-AG
* ** * ** * * *
35202999 ATCTTATCTTTCTGAGGTTATAG-AGAGCAGA-TCACATCAAG-TCTTATCTCCTTGAAGTTGCA
1 -TCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAACATCCAGATCTTATCTCCCTGAAGTTGCA
** *
35203061 GTGAAGCAGACAGAAGA-AACTAA-
65 GT--AG-AG-CAGATCACATC-AAG
* ** ** *
35203084 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAG
1 TCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAACATCCAGATCTTATCTCCCTGAAGTTGCAG
35203149 -AGAGCAGATCACATCAAG
66 TAGAGCAGATCACATCAAG
* * * ** * * * *
35203167 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAACTA-ATCCTATCTCCCTGAAGTTGC
1 TCCTATCTCCCTGAAGTTGCAGTAGAGCAGA-TTAA-CATCCAGATCTTATCTCCCTGAAGTTGC
* * * *
35203231 AGTGGAGCGGATTAACATCCAG
64 AGTAGAGCAGA-TCACATCAAG
* ** * * * **
35203253 ATCTTATCTTTCTGAGGTTGCAG-AAAGCAGA-TCACATTAAG-TCTTATCTCCCTGAAGTTGCA
1 -TCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAACATCCAGATCTTATCTCCCTGAAGTTGCA
* * *
35203315 GTGGAGCAGA-CAGAAGAAACTAA-
65 GTAGAGCAGATC---A-CATC-AAG
* * * ** *
35203338 TCCTCTCTCCCTGAAGTTACAGTAGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAG
1 TCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAACATCCAGATCTTATCTCCCTGAAGTTGCAG
*
35203403 -AGAGCAGATCGCATCAAG
66 TAGAGCAGATCACATCAAG
*
35203421 TCCTATCTCCCCGAAGTTGCA
1 TCCTATCTCCCTGAAGTTGCA
35203442 ACGGAGTAAA
Statistics
Matches: 383, Mismatches: 111, Indels: 68
0.68 0.20 0.12
Matches are distributed among these distances:
82 9 0.02
83 154 0.40
84 70 0.18
85 31 0.08
86 59 0.15
87 59 0.15
88 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (84 bp):
TCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAACATCCAGATCTTATCTCCCTGAAGTTGCAG
TAGAGCAGATCACATCAAG
Found at i:35204163 original size:41 final size:41
Alignment explanation
Indices: 35204118--35204200 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
35204108 AAAAAGAAAA
35204118 TATACAGAAAAATATTTTTGAAGGTGGGATTTGGTTTTCTT
1 TATACAGAAAAATATTTTTGAAGGTGGGATTTGGTTTTCTT
35204159 TATACAGAAAAATATTTTTGAAGGTGGGATTTGGTTTTCTT
1 TATACAGAAAAATATTTTTGAAGGTGGGATTTGGTTTTCTT
35204200 T
1 T
35204201 TTGTCTGTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.45
Consensus pattern (41 bp):
TATACAGAAAAATATTTTTGAAGGTGGGATTTGGTTTTCTT
Found at i:35204758 original size:3 final size:3
Alignment explanation
Indices: 35204750--35204809 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
35204740 TATATATTAC
* *
35204750 ATT ATT ATT ACTGA ATT ATT ATT AGT -TT ATT ATT ATT A-T ATT ATAT
1 ATT ATT ATT A-T-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
*
35204796 ATT TTT ATT ATT AT
1 ATT ATT ATT ATT AT
35204810 ACTTACCGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 3 0.07
3 37 0.80
4 5 0.11
5 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:35204793 original size:14 final size:14
Alignment explanation
Indices: 35204764--35204809 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
35204754 TTATTACTGA
35204764 ATTATTATTAGT-TT
1 ATTATTATTA-TATT
35204778 ATTATTATTATATT
1 ATTATTATTATATT
35204792 ATATATT-TT-TATT
1 AT-TATTATTATATT
35204805 ATTAT
1 ATTAT
35204810 ACTTACCGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 7 0.23
14 16 0.53
15 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTATTATTATATT
Found at i:35205144 original size:20 final size:20
Alignment explanation
Indices: 35205111--35205152 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
35205101 TACTAGTATA
35205111 TTATGTTTATAATTTTATTT
1 TTATGTTTATAATTTTATTT
35205131 TTAT-TTTATAAATTTTATTT
1 TTATGTTTAT-AATTTTATTT
35205151 TT
1 TT
35205153 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTATGTTTATAATTTTATTT
Found at i:35205156 original size:8 final size:8
Alignment explanation
Indices: 35205143--35205183 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
35205133 ATTTTATAAA
35205143 TTTTATTT
1 TTTTATTT
35205151 TTTTA--T
1 TTTTATTT
35205157 TTTTATTT
1 TTTTATTT
*
35205165 TGTTATTT
1 TTTTATTT
35205173 TTGTTATTT
1 TT-TTATTT
35205182 TT
1 TT
35205184 GTATACATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
6 6 0.21
8 14 0.50
9 8 0.29
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (8 bp):
TTTTATTT
Found at i:35205170 original size:14 final size:14
Alignment explanation
Indices: 35205125--35205174 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
35205115 GTTTATAATT
35205125 TTATTTTTATTTTA
1 TTATTTTTATTTTA
* * *
35205139 TAAATTTTATTTTT
1 TTATTTTTATTTTA
*
35205153 TTATTTTTATTTTG
1 TTATTTTTATTTTA
35205167 TTATTTTT
1 TTATTTTT
35205175 GTTATTTTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (14 bp):
TTATTTTTATTTTA
Found at i:35205174 original size:28 final size:29
Alignment explanation
Indices: 35205123--35205183 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
35205113 ATGTTTATAA
35205123 TTTTATTTTTATTTTATAAATTTTATT-T
1 TTTTATTTTTATTTTATAAATTTTATTAT
* * * *
35205151 TTTTATTTTTATTTTGTTATTTTTGTTAT
1 TTTTATTTTTATTTTATAAATTTTATTAT
35205180 TTTT
1 TTTT
35205184 GTATACATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (29 bp):
TTTTATTTTTATTTTATAAATTTTATTAT
Found at i:35210121 original size:20 final size:20
Alignment explanation
Indices: 35210098--35210142 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
35210088 GAGCTTAAAC
* *
35210098 GAGCTGATTTAAGCTCAAAT
1 GAGCTAATTGAAGCTCAAAT
* *
35210118 GAGCTAATTGGAGCTGAAAT
1 GAGCTAATTGAAGCTCAAAT
35210138 GAGCT
1 GAGCT
35210143 TGTGGAGCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (20 bp):
GAGCTAATTGAAGCTCAAAT
Found at i:35211597 original size:21 final size:22
Alignment explanation
Indices: 35211555--35211603 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
35211545 AAGGTTGAAG
*
35211555 TTATGTGGCAGTTTATTTGCAA
1 TTATGTGGCAGTTTATTGGCAA
*
35211577 TTATGTGGCCG-TTATTGGCAA
1 TTATGTGGCAGTTTATTGGCAA
35211598 TTATGT
1 TTATGT
35211604 AGTCACTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.20, C:0.10, G:0.24, T:0.45
Consensus pattern (22 bp):
TTATGTGGCAGTTTATTGGCAA
Found at i:35217593 original size:54 final size:53
Alignment explanation
Indices: 35217534--35217894 Score: 352
Period size: 54 Copynumber: 6.7 Consensus size: 53
35217524 CCTCCGTAGT
* * *
35217534 GTAAAATGATCGAAATACCCCCGAAAGGTAAAATGACCGAAATACCCTCGAAG
1 GTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCAAAG
* *
35217587 GCTAAAATGACTGAAATACCCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAAG
1 G-TAAAATGACCGAAATACCCC-CGAAGGGTAAAATGACCGAAATACCCTC-AAAG
* * * * * ***
35217643 ATAAAATGACCTAAATACCCCTGTAGGATAAAATGAGTAAAATACCCTCAAAAG
1 GTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTC-AAAG
* * *
35217697 GTAAAATGACCG-AATACCCCCGGAGTGTAAAATGATCGAAATACCC-CTAAAGG
1 GTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTC-AAA-G
* ** * * *
35217750 GTAAAATGGCCGAAATACCCTTGAAGGGTAAAATGACCAAAATACCTTTGAAAG
1 GTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACC-CTCAAAG
* * * * *
35217804 GTAAAATGGCTGAAATAACCTCGAAGGGTAAAATGATCGAAATAGCCCT-AAAGG
1 GTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATA-CCCTCAAA-G
*
35217858 GTAAAATGACTGAAATACCCCC-ATAGGGTAAAATGAC
1 GTAAAATGACCGAAATACCCCCGA-AGGGTAAAATGAC
35217895 TGTTATACCC
Statistics
Matches: 254, Mismatches: 44, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
52 4 0.02
53 44 0.17
54 154 0.61
55 49 0.19
56 3 0.01
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.18
Consensus pattern (53 bp):
GTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCAAAG
Found at i:35217834 original size:81 final size:82
Alignment explanation
Indices: 35217534--35217910 Score: 315
Period size: 81 Copynumber: 4.6 Consensus size: 82
35217524 CCTCCGTAGT
* * * * *
35217534 GTAAAATGATCGAAATACCCCCGAAAGGTAAAATGACCGAAATA-CCCTCGAAGGCTAAAATGAC
1 GTAAAATGACCGAAATACCCTCGAAAGGTAAAATGGCTGAAATACCCCT-GAAGGGTAAAATGAC
* *
35217598 TGAAATACCCCTCGAAGG
65 CGAAATACCCCTCAAAGG
* * * * * *
35217616 GTAAAATGATCGAAATACCCTCGAAAGATAAAATGACCT-AAATACCCCTGTAGGATAAAATGAG
1 GTAAAATGACCGAAATACCCTCGAAAGGTAAAATG-GCTGAAATACCCCTGAAGGGTAAAATGAC
** *
35217680 TAAAATA-CCCTCAAAAG
65 CGAAATACCCCTCAAAGG
* * * * *
35217697 GTAAAATGACCG-AATACCCCCG-GAGTGTAAAAT-GATCGAAATACCCCTAAAGGGTAAAATGG
1 GTAAAATGACCGAAATACCCTCGAAAG-GTAAAATGGCT-GAAATACCCCTGAAGGGTAAAATGA
**
35217759 CCGAAATA-CCCTTGAAGG
64 CCGAAATACCCCTCAAAGG
* * * * *
35217777 GTAAAATGACCAAAATACCTTTGAAAGGTAAAATGGCTGAAATA-ACCTCGAAGGGTAAAATGAT
1 GTAAAATGACCGAAATACCCTCGAAAGGTAAAATGGCTGAAATACCCCT-GAAGGGTAAAATGAC
*
35217841 CGAAATAGCCCT-AAAGG
65 CGAAATACCCCTCAAAGG
* * * * **
35217858 GTAAAATGACTGAAATACCC-CCATAGGGTAAAATGACTGTTATACCCCTGAAG
1 GTAAAATGACCGAAATACCCTCGA-AAGGTAAAATGGCTGAAATACCCCTGAAG
35217911 ATTAAATGAC
Statistics
Matches: 236, Mismatches: 47, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
78 1 0.00
79 2 0.01
80 62 0.26
81 99 0.42
82 67 0.28
83 5 0.02
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (82 bp):
GTAAAATGACCGAAATACCCTCGAAAGGTAAAATGGCTGAAATACCCCTGAAGGGTAAAATGACC
GAAATACCCCTCAAAGG
Found at i:35217894 original size:27 final size:26
Alignment explanation
Indices: 35217534--35217905 Score: 216
Period size: 27 Copynumber: 13.8 Consensus size: 26
35217524 CCTCCGTAGT
*
35217534 GTAAAATGA-TCGAAATACCCCCGAAAG
1 GTAAAATGACT-GAAATACCCCC-AAGG
* *
35217561 GTAAAATGACCGAAATACCCTCGAAGG
1 GTAAAATGACTGAAATACCC-CCAAGG
*
35217588 CTAAAATGACTGAAATACCCCTCGAAGG
1 GTAAAATGACTGAAATACCCC-C-AAGG
* *
35217616 GTAAAATGA-TCGAAATACCCTCGAAAG
1 GTAAAATGACT-GAAATACCC-CCAAGG
* **
35217643 ATAAAATGACCT-AAATACCCCTGTAGG
1 GTAAAATGA-CTGAAATACCCC-CAAGG
* * * * *
35217670 ATAAAATGAGTAAAATACCCTCAAAAG
1 GTAAAATGACTGAAATACCC-CCAAGG
* * *
35217697 GTAAAATGACCG-AATACCCCCGGAGT
1 GTAAAATGACTGAAATACCCCC-AAGG
*
35217723 GTAAAATGA-TCGAAATACCCCTAAAGG
1 GTAAAATGACT-GAAATACCCC-CAAGG
* * **
35217750 GTAAAATGGCCGAAATACCCTTGAAGG
1 GTAAAATGACTGAAATACCC-CCAAGG
** *** *
35217777 GTAAAATGACCAAAATACCTTTGAAAG
1 GTAAAATGACTGAAATACC-CCCAAGG
* * *
35217804 GTAAAATGGCTGAAATAACCTCGAAGG
1 GTAAAATGACTGAAAT-ACCCCCAAGG
**
35217831 GTAAAATGA-TCGAAATAGCCCTAAAGG
1 GTAAAATGACT-GAAATA-CCCCCAAGG
35217858 GTAAAATGACTGAAATACCCCCATAGG
1 GTAAAATGACTGAAATACCCCCA-AGG
**
35217885 GTAAAATGACTGTTATACCCC
1 GTAAAATGACTGAAATACCCC
35217906 TGAAGATTAA
Statistics
Matches: 273, Mismatches: 49, Indels: 46
0.74 0.13 0.12
Matches are distributed among these distances:
25 1 0.00
26 27 0.10
27 216 0.79
28 27 0.10
29 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (26 bp):
GTAAAATGACTGAAATACCCCCAAGG
Done.