Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 129 of 444
Found at i:33768576 original size:103 final size:104
Alignment explanation
Indices: 33768386--33768578 Score: 298
Period size: 103 Copynumber: 1.9 Consensus size: 104
33768376 TAGTTTTCCT
* *
33768386 TATGGAAAATGCCATACATACATTTCATAACTCAGTATGGAAAATACCATACCTACAGATCATAG
1 TATGGAAAATACCATACATACATATCATAACTCAGTATGGAAAATACCATACCTACAGATCATAG
33768451 CTCGGTATGGAAATACCATACCTACGTATCATAGCTCGG
66 CTCGGTATGGAAATACCATACCTACGTATCATAGCTCGG
* * * * * *
33768490 TATGG-AAATACCATACCTACGTATCATAGCTTAGTATGGATAATACCATACCTACATATCATAG
1 TATGGAAAATACCATACATACATATCATAACTCAGTATGGAAAATACCATACCTACAGATCATAG
*
33768554 CTTGGTATGGAAATACCATACCTAC
66 CTCGGTATGGAAATACCATACCTAC
33768579 ATTTCACATT
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
103 75 0.94
104 5 0.06
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (104 bp):
TATGGAAAATACCATACATACATATCATAACTCAGTATGGAAAATACCATACCTACAGATCATAG
CTCGGTATGGAAATACCATACCTACGTATCATAGCTCGG
Found at i:33768580 original size:34 final size:34
Alignment explanation
Indices: 33768386--33768580 Score: 264
Period size: 34 Copynumber: 5.6 Consensus size: 34
33768376 TAGTTTTCCT
* * * * *
33768386 TATGGAAAATGCCATACATACATTTCATAACTCAG
1 TATGG-AAATACCATACCTACATATCATAGCTCGG
*
33768421 TATGGAAAATACCATACCTACAGATCATAGCTCGG
1 TATGG-AAATACCATACCTACATATCATAGCTCGG
*
33768456 TATGGAAATACCATACCTACGTATCATAGCTCGG
1 TATGGAAATACCATACCTACATATCATAGCTCGG
* **
33768490 TATGGAAATACCATACCTACGTATCATAGCTTAG
1 TATGGAAATACCATACCTACATATCATAGCTCGG
*
33768524 TATGGATAATACCATACCTACATATCATAGCTTGG
1 TATGGA-AATACCATACCTACATATCATAGCTCGG
33768559 TATGGAAATACCATACCTACAT
1 TATGGAAATACCATACCTACAT
33768581 TTCACATTTT
Statistics
Matches: 147, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
34 81 0.55
35 66 0.45
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (34 bp):
TATGGAAATACCATACCTACATATCATAGCTCGG
Found at i:33768598 original size:34 final size:34
Alignment explanation
Indices: 33768422--33768599 Score: 151
Period size: 34 Copynumber: 5.2 Consensus size: 34
33768412 ATAACTCAGT
* * * **
33768422 ATGGAAAATACCATACCTACAGATCATAGCTCGGT
1 ATGG-AAATACCATACCTACATATCACAGCTTGCC
* * * **
33768457 ATGGAAATACCATACCTACGTATCATAGCTCGGT
1 ATGGAAATACCATACCTACATATCACAGCTTGCC
* * *
33768491 ATGGAAATACCATACCTACGTATCATAGCTTAG-T
1 ATGGAAATACCATACCTACATATCACAGCTT-GCC
* **
33768525 ATGGATAATACCATACCTACATATCATAGCTTGGT
1 ATGGA-AATACCATACCTACATATCACAGCTTGCC
* **
33768560 ATGGAAATACCATACCTACATTTCACATTTTGCC
1 ATGGAAATACCATACCTACATATCACAGCTTGCC
33768594 ATGGAA
1 ATGGAA
33768600 CAACCATGGT
Statistics
Matches: 130, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
34 94 0.72
35 36 0.28
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (34 bp):
ATGGAAATACCATACCTACATATCACAGCTTGCC
Found at i:33772230 original size:15 final size:16
Alignment explanation
Indices: 33772198--33772232 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
33772188 TATTACATTA
33772198 AAAATATTTAAATTTT
1 AAAATATTTAAATTTT
*
33772214 AAAATATTT-ATTTTT
1 AAAATATTTAAATTTT
33772229 AAAA
1 AAAA
33772233 AGTTTTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAAATATTTAAATTTT
Found at i:33772233 original size:16 final size:17
Alignment explanation
Indices: 33772195--33772233 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
33772185 CTTTATTACA
33772195 TTAAAAATATTTAAATT
1 TTAAAAATATTTAAATT
*
33772212 TT-AAAATATTT-ATTT
1 TTAAAAATATTTAAATT
33772227 TTAAAAA
1 TTAAAAA
33772234 GTTTTAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 13 0.65
17 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAAAATATTTAAATT
Found at i:33774632 original size:2 final size:2
Alignment explanation
Indices: 33774627--33774654 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33774617 TTTTTTTAAT
33774627 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33774655 AAGGACAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33780091 original size:35 final size:35
Alignment explanation
Indices: 33779856--33780092 Score: 110
Period size: 34 Copynumber: 6.7 Consensus size: 35
33779846 ACGAAAGAGT
* *
33779856 TTGTGCCCAGTGCTAGTCGGATAAA-T--CGACAAA
1 TTGTACCCAGCGCTAGTCGGATAAACTGACGA-AAA
* * *
33779889 TGTGTGCCCAGCACTAGTCAGATAAACTG--GAAGAA
1 T-TGTACCCAGCGCTAGTCGGATAAACTGACGAA-AA
* *
33779924 GTTGCACCCAGCGCTAGTCGGATAAACTGATGAAATAA
1 -TTGTACCCAGCGCTAGTCGGATAAACTGACG-AA-AA
* * ** * * *
33779962 TTAGTGAGCCCAGCTCTAGTTGGATAAACCAATGATAT
1 TT-GT-A-CCCAGCGCTAGTCGGATAAACTGACGAAAA
* * * * * * **
33780000 TTG-GCCCAACGCTGGTCAGATAAACCGAAGAATG
1 TTGTACCCAGCGCTAGTCGGATAAACTGACGAAAA
* * * *
33780034 TTG-CCCCAACACTAGTCAGATAAACTGACGAAAA
1 TTGTACCCAGCGCTAGTCGGATAAACTGACGAAAA
33780068 TTGTACCCAGCGCTAGTCGGATAAA
1 TTGTACCCAGCGCTAGTCGGATAAA
33780093 TCGACAATAT
Statistics
Matches: 155, Mismatches: 37, Indels: 22
0.72 0.17 0.10
Matches are distributed among these distances:
33 1 0.01
34 72 0.46
35 45 0.29
36 1 0.01
37 4 0.03
38 8 0.05
39 2 0.01
40 22 0.14
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (35 bp):
TTGTACCCAGCGCTAGTCGGATAAACTGACGAAAA
Found at i:33780654 original size:14 final size:14
Alignment explanation
Indices: 33780637--33780670 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
33780627 ATAGAATTTA
33780637 AATACTTGAAAGCT
1 AATACTTGAAAGCT
33780651 AATACTTGAAAGCT
1 AATACTTGAAAGCT
33780665 AATACT
1 AATACT
33780671 AATAAAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (14 bp):
AATACTTGAAAGCT
Found at i:33783446 original size:26 final size:25
Alignment explanation
Indices: 33783417--33783468 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
33783407 ACTTTTGTTA
33783417 AGGGACT-TTTGATGAAAATGTGAAAT
1 AGGGACTATTTG-TG-AAATGTGAAAT
33783443 AGGGACTAATTTGTGAAATGTGAAAT
1 AGGGACT-ATTTGTGAAATGTGAAAT
33783469 TTATGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 18 0.75
27 2 0.08
28 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (25 bp):
AGGGACTATTTGTGAAATGTGAAAT
Found at i:33784081 original size:42 final size:42
Alignment explanation
Indices: 33783973--33784083 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
33783963 CGAGATTCCG
* * * * *
33783973 TATAAGACCATATCTGGGATATGACATTGGTATTTGATTTTG
1 TATAAGACCATATCTGGGATATGGCATCGATATATGATTTTA
* * *
33784015 TATAAGACCATGT-TAAGGACATGGCATCGATATGAT-ATTTTA
1 TATAAGACCATATCT-GGGATATGGCATCGATAT-ATGATTTTA
*
33784057 TGTAAGACCATATCTGGGATATGGCAT
1 TATAAGACCATATCTGGGATATGGCAT
33784084 TAATACGGTA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.02
42 51 0.94
43 2 0.04
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.35
Consensus pattern (42 bp):
TATAAGACCATATCTGGGATATGGCATCGATATATGATTTTA
Found at i:33791021 original size:5 final size:5
Alignment explanation
Indices: 33791006--33791045 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
33790996 ATTTTATATT
33791006 TATAA TAATAA TATAA TATAA TAT-A TAATAA TATAA TATA
1 TATAA T-ATAA TATAA TATAA TATAA T-ATAA TATAA TATA
33791046 TTTACTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 2 0.06
5 23 0.72
6 7 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:33791055 original size:23 final size:22
Alignment explanation
Indices: 33791000--33791066 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 22
33790990 TTATTTATTT
*
33791000 TATATTTATAATAATAATATAA
1 TATATTTATTATAATAATATAA
*
33791022 TATA-ATA-TATAATAATATAA
1 TATATTTATTATAATAATATAA
33791042 TATATTTACTTATAAGTAA-ATAA
1 TATATTTA-TTATAA-TAATATAA
33791065 TA
1 TA
33791067 ATTACTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 16 0.42
21 4 0.11
22 4 0.11
23 11 0.29
24 3 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (22 bp):
TATATTTATTATAATAATATAA
Found at i:33794341 original size:17 final size:17
Alignment explanation
Indices: 33794319--33794353 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33794309 TTGCACGACC
33794319 TTGATGAAGAAGTTTAT
1 TTGATGAAGAAGTTTAT
33794336 TTGATGAAGAAGTTTAT
1 TTGATGAAGAAGTTTAT
33794353 T
1 T
33794354 AGTTTGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TTGATGAAGAAGTTTAT
Found at i:33800291 original size:40 final size:40
Alignment explanation
Indices: 33800189--33800372 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
33800179 AAATTGAATG
* * * * * *
33800189 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
33800229 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
33800269 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
33800309 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
33800349 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
33800373 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:33808376 original size:40 final size:39
Alignment explanation
Indices: 33808332--33808471 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
33808322 GAAATTTTAA
* * *
33808332 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCG-TATAT
* ** *
33808372 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTTTTAAAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TCGTATAT
* *
33808412 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGT-ATAT
* * *
33808452 CCGGGTTAAGTCCCGTAGGC
1 CCGGGCTAAGACCCGAAGGC
33808472 CTTGGTGCGG
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
39 5 0.06
40 74 0.90
41 3 0.04
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGTATAT
Found at i:33808452 original size:80 final size:80
Alignment explanation
Indices: 33808332--33808480 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
33808322 GAAATTTTAA
* * * *
33808332 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
33808397 TGCGAGTTTTTAAAT
66 TGCGAGTTTTTAAAT
* * * * * *
33808412 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ATATCCGGGCTAAGACCCGAAGGCATTC
33808476 GTGCG
65 GTGCG
33808481 GGTTACCATA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 57 0.98
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTTTTTAAAT
Found at i:33812576 original size:372 final size:371
Alignment explanation
Indices: 33811735--33812646 Score: 1752
Period size: 372 Copynumber: 2.5 Consensus size: 371
33811725 CTTGTCCATT
33811735 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
33811800 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
33811865 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
33811930 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
33811995 CGATTCTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
261 CGATTCTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
33812060 ATTTAATATTTTTAAATTTCTTTAAAAGTTATATCTACTTTTTATC
326 ATTTAATATTTTTAAATTTCTTTAAAAGTTATATCTACTTTTTATC
*
33812106 AAAATTATAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
* *
33812171 ATGGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
33812236 GTAACAATGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
33812301 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
33812366 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
261 CGATTC-TTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
33812431 TATTTAATATTTTTAAATTTCTTTAAAAGTTATATCTACTTTTTATC
325 TATTTAATATTTTTAAATTTCTTTAAAAGTTATATCTACTTTTTATC
*
33812478 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
33812543 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGTTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
33812608 GTAACAACGCCACGTATGATGAATCTTCAAAAATTCAAA
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
33812647 TGTTTCAATT
Statistics
Matches: 529, Mismatches: 11, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
371 262 0.50
372 267 0.50
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (371 bp):
AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
CGATTCTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
ATTTAATATTTTTAAATTTCTTTAAAAGTTATATCTACTTTTTATC
Found at i:33812796 original size:15 final size:15
Alignment explanation
Indices: 33812752--33812807 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
33812742 AACGACATGT
33812752 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
33812768 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
33812781 ATATTATTTAATTAA
1 ATATTATTTAATTAA
33812796 ATATTATTTAAT
1 ATATTATTTAAT
33812808 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:33812924 original size:9 final size:9
Alignment explanation
Indices: 33812912--33813137 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
33812902 TATTTGATAT
*
33812912 CATAATTTA
1 CATAACTTA
33812921 CATAACTTA
1 CATAACTTA
* *
33812930 TATAACATA
1 CATAACTTA
*
33812939 TATAACTTA
1 CATAACTTA
33812948 CATAACTTA
1 CATAACTTA
* *
33812957 TATAACATA
1 CATAACTTA
33812966 CATAACTTA
1 CATAACTTA
*
33812975 TATAACTTA
1 CATAACTTA
*
33812984 TATAACTTA
1 CATAACTTA
* *
33812993 GATAA-ATA
1 CATAACTTA
*
33813001 TATAACTTA
1 CATAACTTA
33813010 CATAACTTA
1 CATAACTTA
33813019 CATAATACTTA
1 CAT-A-ACTTA
* *
33813030 AATATATTTTATA
1 CATA-A--CT-TA
*
33813043 TCATAATTTA
1 -CATAACTTA
33813053 CATAACTTA
1 CATAACTTA
33813062 CATAACTTA
1 CATAACTTA
*
33813071 TATAACTTA
1 CATAACTTA
* *
33813080 GATAA-ATA
1 CATAACTTA
* *
33813088 TATAATTTA
1 CATAACTTA
*
33813097 CATAA-ATA
1 CATAACTTA
* * *
33813105 TATATCATA
1 CATAACTTA
*
33813114 TCATAAATTA
1 -CATAACTTA
33813124 CATAACTTA
1 CATAACTTA
33813133 CATAA
1 CATAA
33813138 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:33812934 original size:18 final size:18
Alignment explanation
Indices: 33812912--33813137 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
33812902 TATTTGATAT
* *
33812912 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
33812930 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
33812948 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
33812966 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
33812984 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
33813001 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
33813019 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
33813043 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
33813062 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
33813080 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
33813097 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
33813114 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
33813133 CATAA
1 CATAA
33813138 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:33813125 original size:114 final size:114
Alignment explanation
Indices: 33812940--33813161 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
33812930 TATAACATAT
* * *
33812940 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * *
33813005 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
33813054 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
33813117 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
33813162 CATAACTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 72 0.76
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:33818814 original size:21 final size:21
Alignment explanation
Indices: 33818781--33818831 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
33818771 ACAACTTAGA
*
33818781 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
33818802 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
33818823 GCAGAGGCA
1 GCAGAGGCA
33818832 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:33819132 original size:31 final size:31
Alignment explanation
Indices: 33819086--33819152 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
33819076 TGGTTGTATT
* *
33819086 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
33819117 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
33819148 TTTTA
1 TTTTA
33819153 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:33819320 original size:43 final size:42
Alignment explanation
Indices: 33819226--33819339 Score: 203
Period size: 42 Copynumber: 2.7 Consensus size: 42
33819216 TGTAAAAAAG
33819226 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTCCCACAAA
33819268 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTT-TCCCACAAA
*
33819311 CGCCGCT-AAACCCTTGACCTTTAGCGGCG
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG
33819340 TTTTTTCCAA
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
42 54 0.77
43 16 0.23
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.21
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTCCCACAAA
Found at i:33820268 original size:19 final size:20
Alignment explanation
Indices: 33820223--33820270 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
33820213 TAGATCATAT
33820223 ATATTTTTATCATTTTTAATA
1 ATATTTTTAT-ATTTTTAATA
33820244 AT-TTTTTAT-TTTTTAA-A
1 ATATTTTTATATTTTTAATA
33820261 ATTATTTTTA
1 A-TATTTTTA
33820271 GTAATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
18 8 0.32
19 6 0.24
20 7 0.28
21 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
ATATTTTTATATTTTTAATA
Found at i:33822007 original size:13 final size:13
Alignment explanation
Indices: 33821950--33822014 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
33821940 TTTAGTATTG
*
33821950 CTTTTGAAAATTA
1 CTTTTGAAAAGTA
*
33821963 CTTTTCAAAAGT-
1 CTTTTGAAAAGTA
*
33821975 GTTTTGAAATAAGTA
1 CTTTTG-AA-AAGTA
*
33821990 ATTTTGAAAAGTA
1 CTTTTGAAAAGTA
33822003 CTTTTGAAAAGT
1 CTTTTGAAAAGT
33822015 TTGTTTTAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
12 4 0.09
13 28 0.65
14 6 0.14
15 5 0.12
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:33824070 original size:40 final size:40
Alignment explanation
Indices: 33824006--33824084 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
33823996 ATACGATACC
* *
33824006 ACTTGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCAT
1 ACTTGGTGTGTAAGGCTGGATGGGTTGATTTTATCCCCAT
*
33824046 ACTTGGTGTGTAAGGCTGGGTGGGTTGATTTTATCCCCA
1 ACTTGGTGTGTAAGGCTGGATGGGTTGATTTTATCCCCA
33824085 CATGGTGTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.15, C:0.14, G:0.33, T:0.38
Consensus pattern (40 bp):
ACTTGGTGTGTAAGGCTGGATGGGTTGATTTTATCCCCAT
Found at i:33825901 original size:29 final size:29
Alignment explanation
Indices: 33825868--33825959 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
33825858 ATAGAGGGAG
33825868 TAAGATTTCTCAGCTTTGGTCGAGAAGGC
1 TAAGATTTCTCAGCTTTGGTCGAGAAGGC
* * ** *
33825897 TAAGATTGCTGAG--GAGGT-GA-AACGC
1 TAAGATTTCTCAGCTTTGGTCGAGAAGGC
33825922 TGTAAGATTTCTCAGCTTTGGTCGAGAAGGC
1 --TAAGATTTCTCAGCTTTGGTCGAGAAGGC
33825953 TAAGATT
1 TAAGATT
33825960 GCTGAGGAGG
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
25 4 0.09
26 2 0.04
27 14 0.30
29 21 0.45
30 2 0.04
31 4 0.09
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.29
Consensus pattern (29 bp):
TAAGATTTCTCAGCTTTGGTCGAGAAGGC
Found at i:33825930 original size:27 final size:26
Alignment explanation
Indices: 33825897--33825978 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 26
33825887 TCGAGAAGGC
33825897 TAAGATTGCTGAGGAGGTGAAACGCT
1 TAAGATTGCTGAGGAGGTGAAACGCT
* * ** *
33825923 GTAAGATTTCTCAGCTTTGGTCGAGAAGGC-
1 -TAAGATTGCTGAG--GAGGT-GA-AACGCT
33825953 TAAGATTGCTGAGGAGGTGAAACGCT
1 TAAGATTGCTGAGGAGGTGAAACGCT
33825979 CTGAGCGTCA
Statistics
Matches: 40, Mismatches: 10, Indels: 11
0.66 0.16 0.18
Matches are distributed among these distances:
25 4 0.10
26 2 0.05
27 14 0.35
29 14 0.35
30 2 0.05
31 4 0.10
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (26 bp):
TAAGATTGCTGAGGAGGTGAAACGCT
Found at i:33825953 original size:56 final size:56
Alignment explanation
Indices: 33825867--33825978 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
33825857 CATAGAGGGA
33825867 GTAAGATTTCTCAGCTTTGGTCGAGAAGGCTAAGATTGCTGAGGAGGTGAAACGCT
1 GTAAGATTTCTCAGCTTTGGTCGAGAAGGCTAAGATTGCTGAGGAGGTGAAACGCT
33825923 GTAAGATTTCTCAGCTTTGGTCGAGAAGGCTAAGATTGCTGAGGAGGTGAAACGCT
1 GTAAGATTTCTCAGCTTTGGTCGAGAAGGCTAAGATTGCTGAGGAGGTGAAACGCT
33825979 CTGAGCGTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (56 bp):
GTAAGATTTCTCAGCTTTGGTCGAGAAGGCTAAGATTGCTGAGGAGGTGAAACGCT
Found at i:33831370 original size:40 final size:40
Alignment explanation
Indices: 33831310--33831385 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
33831300 ATACGGTACC
* *
33831310 ACTTGGTGTGTAGGGTTGGGTGGGTTGATTTTATCCACAT
1 ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCCACAT
33831350 ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCC
1 ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCC
33831386 CCACATGGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.13, C:0.12, G:0.37, T:0.38
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCCACAT
Found at i:33838874 original size:46 final size:46
Alignment explanation
Indices: 33838721--33838945 Score: 174
Period size: 46 Copynumber: 4.8 Consensus size: 46
33838711 AGGGTATAAT
* * * * *
33838721 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATGTGT
1 GCCGATG-CATGTCCTAGACATGGTCTTACACTGGCT-T-ACATCT-CGA
* * * *
33838771 GCAGTTGCCATGTCCAAGACATGGTCTTACACTGAC--ACATCTCGTA
1 GCCGATG-CATGTCCTAGACATGGTCTTACACTGGCTTACATCTCG-A
*
33838817 GCCGAGGCATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCGA
1 GCCGATGCATGTCCTAGACATGGTCTTACACTGGCTTACATCTCGA
* * * *
33838862 GGCCAATGCATGT-CTCAGACAT-GTCTTACACTAGCTCT-CGTCTCAA
1 -GCCGATGCATGTCCT-AGACATGGTCTTACACTGGCT-TACATCTCGA
*
33838908 TGCCGATGCCATGTCCTAGACATGGTCCTACACTGGCT
1 -GCCGATG-CATGTCCTAGACATGGTCTTACACTGGCT
33838946 CTCATAATGT
Statistics
Matches: 144, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 12 0.08
45 17 0.12
46 58 0.40
47 12 0.08
48 14 0.10
50 31 0.22
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGGTCTTACACTGGCTTACATCTCGA
Found at i:33844806 original size:24 final size:24
Alignment explanation
Indices: 33844770--33844826 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
33844760 CCAACTATCT
* *
33844770 GCTGGTGCGATCCCTTCAATGGTA
1 GCTGGCGCAATCCCTTCAATGGTA
33844794 GCTGGCGCAATCCCTTCAATGGTA
1 GCTGGCGCAATCCCTTCAATGGTA
33844818 GCTGGCGCA
1 GCTGGCGCA
33844827 TTACTCTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.18, C:0.28, G:0.30, T:0.25
Consensus pattern (24 bp):
GCTGGCGCAATCCCTTCAATGGTA
Found at i:33853638 original size:49 final size:49
Alignment explanation
Indices: 33853562--33853660 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
33853552 GCAGGAGGTA
*
33853562 GCGGATTTTCTTGGTTTTTAGCGATCTCCTCCGTTGTGGTTGAAGTATC
1 GCGGATTTTCTTGGTTTTTAGCCATCTCCTCCGTTGTGGTTGAAGTATC
* *
33853611 GCGGATTTTCTTTGTTTTTAGCCATCTCCTCGGTTGTGGTTGAAGTATC
1 GCGGATTTTCTTGGTTTTTAGCCATCTCCTCCGTTGTGGTTGAAGTATC
33853660 G
1 G
33853661 TCCTCTAGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.12, C:0.18, G:0.26, T:0.43
Consensus pattern (49 bp):
GCGGATTTTCTTGGTTTTTAGCCATCTCCTCCGTTGTGGTTGAAGTATC
Found at i:33855957 original size:46 final size:49
Alignment explanation
Indices: 33855775--33856090 Score: 267
Period size: 46 Copynumber: 6.7 Consensus size: 49
33855765 GGTATAATGT
*
33855775 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATCT-CATAGC
* *
33855825 TGATGTCATGTCCCAGACATGGTCTTACACTAG---TACATCT-ATACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCATA---GC
* *
33855873 CGATGCCATGTCCTAGACATGGTCTTACACT-G-AC-ACATCTCATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCATAGC
* * * *
33855919 CGATG-CATGTCCTAGACAT-GTCTTACATTGGCT-TACATCTCGA-GGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTC-ATAGC
* * *
33855965 CGAT-ACATGTCCCAGACAT-GTCTTACACTATCTCT-CGTCTCAATA-C
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTC-ATAGC
* * * * *
33856011 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACAT-CTCATAGC
33856059 CGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
33856091 ACACAAATAA
Statistics
Matches: 222, Mismatches: 26, Indels: 40
0.77 0.09 0.14
Matches are distributed among these distances:
44 11 0.05
45 15 0.07
46 71 0.32
47 33 0.15
48 57 0.26
49 4 0.02
50 31 0.14
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCATAGC
Found at i:33856045 original size:94 final size:92
Alignment explanation
Indices: 33855781--33856088 Score: 292
Period size: 94 Copynumber: 3.3 Consensus size: 92
33855771 ATGTCGATGC
* *
33855781 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCATGCTGATGTCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTA--TCTCACATCT-CATACTGATG-CATGTCCCAGACATG
* * *
33855846 GTCTTACACTAG--TACATCTATACGTGCCGATGC
62 GTCTTACACTGGCTTACATCT-GA-G-GCCGAT-A
* * *
33855879 CATGTCCTAGACATGGTCTTACACTGA---CACATCTCATAGCCGATGCATGTCCTAGACAT-GT
1 CATGTCCCAGACATGGTCTTACACT-ATCTCACATCTCATA-CTGATGCATGTCCCAGACATGGT
*
33855940 CTTACATTGGCTTACATCTCGAGGCCGATA
64 CTTACACTGGCTTACATCT-GAGGCCGATA
* *
33855970 CATGTCCCAGACAT-GTCTTACACTATCTCTCGTCTCAATACTGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGGTCTTACACTATCTCACATCTC-ATACTGATG-CATGTCCCAGACATGGT
* * *
33856034 CTTACACTGGCTCT-CATAATGTGGCCGATG
64 CTTACACTGGCT-TACAT-CTGAGGCCGATA
33856064 CATGTCCCAGACAT-GTCTTACACTA
1 CATGTCCCAGACATGGTCTTACACTA
33856089 GCACACAAAT
Statistics
Matches: 179, Mismatches: 19, Indels: 28
0.79 0.08 0.12
Matches are distributed among these distances:
89 1 0.01
90 10 0.06
91 13 0.07
92 27 0.15
93 33 0.18
94 68 0.38
95 2 0.01
98 24 0.13
99 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACATGGTCTTACACTATCTCACATCTCATACTGATGCATGTCCCAGACATGGTCT
TACACTGGCTTACATCTGAGGCCGATA
Found at i:33871635 original size:19 final size:19
Alignment explanation
Indices: 33871591--33871637 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
33871581 AATTCACACA
*
33871591 AGTAAGCTTATTGAAGCTT
1 AGTAAGTTTATTGAAGCTT
33871610 AGTAAGTTTATTGAAGCTT
1 AGTAAGTTTATTGAAGCTT
33871629 AGTAAGTTT
1 AGTAAGTTT
33871638 GAGGAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (19 bp):
AGTAAGTTTATTGAAGCTT
Found at i:33874725 original size:37 final size:37
Alignment explanation
Indices: 33874684--33874785 Score: 150
Period size: 37 Copynumber: 2.8 Consensus size: 37
33874674 AATCGCTCAC
* * *
33874684 AAGAGCTAATCCATCCGATAACACGTCAAACGCTTAT
1 AAGAGCTAATCCAACCGATAACACGCCAAACACTTAT
*
33874721 AAGAGCTAATCCAACGGATAACACGCCAAACACTTAT
1 AAGAGCTAATCCAACCGATAACACGCCAAACACTTAT
* *
33874758 AAGAGCTAATCCAACTGATAACTCGCCA
1 AAGAGCTAATCCAACCGATAACACGCCA
33874786 GATCAAGGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.27, G:0.14, T:0.19
Consensus pattern (37 bp):
AAGAGCTAATCCAACCGATAACACGCCAAACACTTAT
Found at i:33879801 original size:21 final size:21
Alignment explanation
Indices: 33879775--33879820 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
33879765 AACATGGTCG
33879775 TGTGGCTAAC-CCACACGCCCA
1 TGTGGCT-ACTCCACACGCCCA
*
33879796 TGTGGCTACTCCACACGCCCG
1 TGTGGCTACTCCACACGCCCA
33879817 TGTG
1 TGTG
33879821 TAGTCCCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.17, C:0.39, G:0.24, T:0.20
Consensus pattern (21 bp):
TGTGGCTACTCCACACGCCCA
Found at i:33880651 original size:5 final size:5
Alignment explanation
Indices: 33880641--33880731 Score: 182
Period size: 5 Copynumber: 18.2 Consensus size: 5
33880631 TGAAACATTG
33880641 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA
1 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA
33880691 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA C
1 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA C
33880732 CAATTCTCCT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 86 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.20
Consensus pattern (5 bp):
CATAA
Found at i:33892327 original size:59 final size:57
Alignment explanation
Indices: 33892231--33892352 Score: 190
Period size: 59 Copynumber: 2.1 Consensus size: 57
33892221 AATATCATCG
* ** *
33892231 ATAAATATGAAAACAAATCTATCTTAATATGTTTGAAATATCCTATTCATTAAGTTC
1 ATAAATATGAAAAAAAATCTATCTTAATATGGCTGAAATATCCTATTCATTAAGTCC
33892288 ATAAATATGAAAAAAAAAATCTATCTTAATATGGCTGAAATATCCTATTCATTAAGTCC
1 ATAAATATG--AAAAAAAATCTATCTTAATATGGCTGAAATATCCTATTCATTAAGTCC
33892347 ATAAAT
1 ATAAAT
33892353 GCAGTCAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
57 9 0.15
59 50 0.85
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (57 bp):
ATAAATATGAAAAAAAATCTATCTTAATATGGCTGAAATATCCTATTCATTAAGTCC
Found at i:33895407 original size:43 final size:43
Alignment explanation
Indices: 33895354--33895439 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
33895344 ATGCAATTTC
* * * *
33895354 TATACACTTTGGGAGTGGCTCCCCTAGCTTTGGTAATCACTTT
1 TATACACTTTGGAAATAGCTCCCCTAGCTTTGGCAATCACTTT
*
33895397 TATACTCTTTGGAAATAGCTCCCCTAGCTTTGGCAATCACTTT
1 TATACACTTTGGAAATAGCTCCCCTAGCTTTGGCAATCACTTT
33895440 ACAGCATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (43 bp):
TATACACTTTGGAAATAGCTCCCCTAGCTTTGGCAATCACTTT
Found at i:33895897 original size:39 final size:39
Alignment explanation
Indices: 33895842--33895943 Score: 125
Period size: 40 Copynumber: 2.6 Consensus size: 39
33895832 CCTTTAGTGG
*
33895842 CTTTAGTGGCGTTTTTTAAAAAAGCCGCTATATG-TACAC
1 CTTTAGCGGCGTTTTTTAAAAAAGCCGCTA-ATGCTACAC
* * ** *
33895881 CTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTTGAT
1 CTTTAGCGGCGTTTTTTA-AAAAAGCCGCTAATGCTACAC
33895921 CTTTAGCGGCGTTTTTTAAAAAA
1 CTTTAGCGGCGTTTTTTAAAAAA
33895944 CGCCACAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 23 0.43
40 30 0.57
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (39 bp):
CTTTAGCGGCGTTTTTTAAAAAAGCCGCTAATGCTACAC
Found at i:33896145 original size:21 final size:21
Alignment explanation
Indices: 33896099--33896308 Score: 81
Period size: 22 Copynumber: 9.8 Consensus size: 21
33896089 TTAATTATCA
* *
33896099 TTATAGTTTAGGGTTTATGGT
1 TTATGGTTAAGGGTTTATGGT
*
33896120 ATATGGTTAAGGGTTTAAT-GT
1 TTATGGTTAAGGGTTT-ATGGT
**** *
33896141 TTATGAGTTACTATTTTAAGGT
1 TTATG-GTTAAGGGTTTATGGT
* * *
33896163 TTATGGATTATGGGTTTAGGGA
1 TTATGG-TTAAGGGTTTATGGT
* *
33896185 TTATGGTTTATGGTTTATGGGT
1 TTATGGTTAAGGGTTTAT-GGT
* * *
33896207 TAATGGTT-AGGGTTTAAGTT
1 TTATGGTTAAGGGTTTATGGT
* *
33896227 TTAGAGGGTT-GGGGTTTGA-GGT
1 TT--ATGGTTAAGGGTTT-ATGGT
* *
33896249 TTATGGGTTAAGGG-TTAAGGG
1 TTAT-GGTTAAGGGTTTATGGT
* *
33896270 TTAAGTGTTAAGGGTTTATGTT
1 TTATG-GTTAAGGGTTTATGGT
*
33896292 TTATTGTTTAA-GGTTTA
1 TTA-TGGTTAAGGGTTTA
33896309 GGGGTTAGGG
Statistics
Matches: 138, Mismatches: 37, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
20 6 0.04
21 61 0.44
22 69 0.50
23 2 0.01
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.46
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGGT
Found at i:33896180 original size:15 final size:15
Alignment explanation
Indices: 33896160--33896222 Score: 78
Period size: 15 Copynumber: 4.4 Consensus size: 15
33896150 ACTATTTTAA
33896160 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
33896175 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
*
33896189 GGTTTATGGTTTATG
1 GGTTTATGGATTATG
*
33896204 GGTTAATGG-TTA-G
1 GGTTTATGGATTATG
33896217 GGTTTA
1 GGTTTA
33896223 AGTTTTAGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 6 0.14
14 15 0.36
15 21 0.50
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:33896180 original size:22 final size:22
Alignment explanation
Indices: 33896109--33896287 Score: 84
Period size: 22 Copynumber: 8.3 Consensus size: 22
33896099 TTATAGTTTA
* * *
33896109 GGGTTTATGGTATAT-GGTTAA
1 GGGTTTAAGGTTTATGGGTTAT
* *
33896130 GGGTTTAATGTTTATGAGTTACT
1 GGGTTTAAGGTTTATGGGTTA-T
** *
33896153 -ATTTTAAGGTTTATGGATTAT
1 GGGTTTAAGGTTTATGGGTTAT
* * *
33896174 GGGTTTAGGGATTATGGTTTAT
1 GGGTTTAAGGTTTATGGGTTAT
* *
33896196 -GGTTTATGGGTTAAT-GGTTA-
1 GGGTTTA-AGGTTTATGGGTTAT
* * *
33896216 GGGTTTAAGTTTTAGAGGGTT-G
1 GGGTTTAAGGTTTA-TGGGTTAT
* *
33896238 GGGTTTGAGGTTTATGGGTTAA
1 GGGTTTAAGGTTTATGGGTTAT
* * * *
33896260 GGG-TTAAGGGTTAAGTGTTAA
1 GGGTTTAAGGTTTATGGGTTAT
33896281 GGGTTTA
1 GGGTTTA
33896288 TGTTTTATTG
Statistics
Matches: 118, Mismatches: 30, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
20 4 0.03
21 51 0.43
22 63 0.53
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.44
Consensus pattern (22 bp):
GGGTTTAAGGTTTATGGGTTAT
Found at i:33896301 original size:50 final size:51
Alignment explanation
Indices: 33896180--33896322 Score: 139
Period size: 50 Copynumber: 2.8 Consensus size: 51
33896170 TTATGGGTTT
* * * *
33896180 AGGGATTATGGTTTATGGTTTATGGGTTAATGGTT-AGGGTTTAAGTTTTAG
1 AGGGTTTATGTTTTATGGTTTATGGGTTAAGGGTTAAGGG-TTAAGTGTTAG
*** *
33896231 AGGGTTGGGGTTTGA-GGTTTATGGGTTAAGGGTTAAGGGTTAAGTGTTA-
1 AGGGTTTATGTTTTATGGTTTATGGGTTAAGGGTTAAGGGTTAAGTGTTAG
* * * * *
33896280 AGGGTTTATGTTTTATTGTTTAAGGTTTAGGGGTTAGGGGTTA
1 AGGGTTTATGTTTTATGGTTTATGGGTTAAGGGTTAAGGGTTA
33896323 GGGATTTAGG
Statistics
Matches: 73, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
49 11 0.15
50 49 0.67
51 13 0.18
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (51 bp):
AGGGTTTATGTTTTATGGTTTATGGGTTAAGGGTTAAGGGTTAAGTGTTAG
Found at i:33896337 original size:7 final size:7
Alignment explanation
Indices: 33896155--33896338 Score: 84
Period size: 7 Copynumber: 25.7 Consensus size: 7
33896145 GAGTTACTAT
*
33896155 TTTAAGG
1 TTTAGGG
*
33896162 TTTATGG
1 TTTAGGG
*
33896169 ATTATGGG
1 TTTA-GGG
33896177 TTTAGGG
1 TTTAGGG
* *
33896184 ATTATGG
1 TTTAGGG
*
33896191 TTTATGG
1 TTTAGGG
33896198 TTTATGGG
1 TTTA-GGG
* *
33896206 TTAATGG
1 TTTAGGG
33896213 -TTAGGG
1 TTTAGGG
* *
33896219 TTTAAGT
1 TTTAGGG
33896226 TTTAGAGG
1 TTTAG-GG
* *
33896234 GTTGGGG
1 TTTAGGG
33896241 TTT-GAGG
1 TTTAG-GG
33896248 TTTATGGG
1 TTTA-GGG
*
33896256 TTAAGGG
1 TTTAGGG
*
33896263 TTAAGGG
1 TTTAGGG
* *
33896270 TTAAGTG
1 TTTAGGG
*
33896277 TTAAGGG
1 TTTAGGG
* *
33896284 TTTATGT
1 TTTAGGG
**
33896291 TTTATTG
1 TTTAGGG
*
33896298 TTTAAGG
1 TTTAGGG
33896305 TTTAGGG
1 TTTAGGG
*
33896312 GTTAGGG
1 TTTAGGG
*
33896319 GTTAGGG
1 TTTAGGG
33896326 ATTTAGGG
1 -TTTAGGG
33896334 TTTAG
1 TTTAG
33896339 ATTAATTAGT
Statistics
Matches: 137, Mismatches: 32, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
6 5 0.04
7 106 0.77
8 25 0.18
9 1 0.01
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:33896990 original size:14 final size:13
Alignment explanation
Indices: 33896971--33897021 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
33896961 TGACTTTTTT
33896971 ATTTATAAAAACTA
1 ATTTATAAAAA-TA
33896985 ATTTATAAAAAATA
1 ATTTAT-AAAAATA
*
33896999 A-TAATAATAAATA
1 ATTTATAA-AAATA
*
33897012 TTTTATAAAA
1 ATTTATAAAA
33897022 TTATTTAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 2 0.06
13 10 0.32
14 14 0.45
15 5 0.16
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTATAAAAATA
Found at i:33901092 original size:75 final size:75
Alignment explanation
Indices: 33901001--33901151 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
33900991 TGCTTCCTTG
*
33901001 TACTCATTCTCATCCTCTTTATATTTTCCAATGCTTTCTTCAAGTAGGATACTAAGAATCTCCTG
1 TACTCATTCCCATCCTCTTTATATTTTCCAATGCTTTCTTCAAGTAGGATACTAAGAATCTCCTG
33901066 TACTATTCTT
66 TACTATTCTT
* * *
33901076 TACTCATTCCCATCCTCTTTATATTTTCCTATGCTTTCTTCAAGTAGGATGCTAAGAATTTCCTG
1 TACTCATTCCCATCCTCTTTATATTTTCCAATGCTTTCTTCAAGTAGGATACTAAGAATCTCCTG
33901141 TACTATTCTT
66 TACTATTCTT
33901151 T
1 T
33901152 CTGATTGCTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.45
Consensus pattern (75 bp):
TACTCATTCCCATCCTCTTTATATTTTCCAATGCTTTCTTCAAGTAGGATACTAAGAATCTCCTG
TACTATTCTT
Found at i:33901573 original size:43 final size:43
Alignment explanation
Indices: 33901466--33901633 Score: 201
Period size: 43 Copynumber: 3.9 Consensus size: 43
33901456 GCATTTTTAG
* * * * * *
33901466 AAAAAGTGCCGCTAAAAGCCATGGCCTTTAGCAGAGTTTGCTTA
1 AAAAAGCGCCGCTAAAGGTCATGGCCTTTAGCGGCGTTTGC-GA
* **
33901510 AAAAAGCGCCGCTAACGGTCATGGCCTTTAATGGCGTTTGCGA
1 AAAAAGCGCCGCTAAAGGTCATGGCCTTTAGCGGCGTTTGCGA
* **
33901553 AAAAAGTGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGCGA
1 AAAAAGCGCCGCTAAAGGTCATGGCCTTTAGCGGCGTTTGCGA
**
33901596 AAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTT
1 AAAAAGCGCCGCTAAAGGTCATGGCCTTTAGCGGCGTT
33901634 ACATATAGCG
Statistics
Matches: 108, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 75 0.69
44 33 0.31
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAGGTCATGGCCTTTAGCGGCGTTTGCGA
Found at i:33901632 original size:86 final size:86
Alignment explanation
Indices: 33901405--33901633 Score: 237
Period size: 86 Copynumber: 2.7 Consensus size: 86
33901395 AAGTTTATAT
* * * * * * * **
33901405 TCTTTAGGGGCGTTTGTGAAAAAAGCGTCGCTAAAGGTC-TGTTATATAGTGGCATTTTTAGAAA
1 TCTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGATCTTTAGTGGCGTTTCGAGAAA
*
33901469 AAGTGCCGCTAAAAGCCATGG
66 AAGTGCCGCTAAAAGCCATGA
* * * * * ** *
33901490 CCTTTAGCAGAGTTTGCTTAAAAAAGCGCCGCTAACGGTCATGGCCTTTAATGGCGTTTGCGA-A
1 TCTTTAGCGGCGTTTGC-GAAAAAAGCGCCGCTAAAGGTCATGATCTTTAGTGGCGTTT-CGAGA
* *
33901554 AAAAGTGCCGCTAAAGGTCATGA
64 AAAAGTGCCGCTAAAAGCCATGA
*
33901577 TCTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTT
1 TCTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGATCTTTAGTGGCGTT
33901634 ACATATAGCG
Statistics
Matches: 113, Mismatches: 28, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
85 12 0.11
86 53 0.47
87 47 0.42
88 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (86 bp):
TCTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGATCTTTAGTGGCGTTTCGAGAAA
AAGTGCCGCTAAAAGCCATGA
Found at i:33908818 original size:26 final size:26
Alignment explanation
Indices: 33908782--33908888 Score: 169
Period size: 26 Copynumber: 4.1 Consensus size: 26
33908772 CATGAATTTC
*
33908782 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
33908808 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
33908834 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
33908860 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
33908886 TTA
1 TTA
33908889 GCAATTTGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:33913103 original size:19 final size:18
Alignment explanation
Indices: 33913063--33913102 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
33913053 ATTTTGGGAC
*
33913063 TTTTATAAATATTTTGAA
1 TTTTAAAAATATTTTGAA
33913081 TTTTAAAAATAATTTTG-A
1 TTTTAAAAAT-ATTTTGAA
33913099 TTTT
1 TTTT
33913103 TTTTTTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:33916344 original size:27 final size:27
Alignment explanation
Indices: 33916313--33916588 Score: 345
Period size: 27 Copynumber: 10.2 Consensus size: 27
33916303 TTAATTTACC
*
33916313 AAATTAACAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
33916340 AAATTACTAGAATATCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
33916367 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
33916394 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
33916421 AAATTACTAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
33916448 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
33916475 AAATCACCAAAATACTCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
33916502 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
33916529 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
33916556 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
33916583 AAATTA
1 AAATTA
33916589 TTGAAATACC
Statistics
Matches: 210, Mismatches: 39, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 210 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:33916496 original size:108 final size:108
Alignment explanation
Indices: 33916307--33916574 Score: 405
Period size: 108 Copynumber: 2.5 Consensus size: 108
33916297 AATACTTTAA
* * * *
33916307 TTTACCAAATTAAC-AAAATACCCCTGGTTTGTAAAATTACTAGAATATCCTTGGTTTATAAAAT
1 TTTACAAAATT-ACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAT
*
33916371 CACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGG
65 CACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGG
*
33916415 TTTACAAAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATC
1 TTTACAAAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
*
33916480 ACCAAAATACTCCTGGTTTGTAAAATTACCAAAATACCCCTGG
66 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGG
** *
33916523 TTTGTAAAATTA-TCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCT
1 TTTACAAAATTACT-AAAATACCCCTAGTTTGTAAAATTACTAAAATA-CCCT
33916575 GATTTGTGAA
Statistics
Matches: 147, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
107 3 0.02
108 140 0.95
109 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (108 bp):
TTTACAAAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGG
Found at i:33916610 original size:81 final size:80
Alignment explanation
Indices: 33916313--33916660 Score: 290
Period size: 81 Copynumber: 4.3 Consensus size: 80
33916303 TTAATTTACC
* * * * ** * * * *
33916313 AAATTAACAAAATACCCCTGGTTTGTAAAATTACTAGAATATCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACTAAAATA-CCCCGATTTGTAAAATTATCAAA
* *
33916378 ATACCCCTGGTTTGTA
65 ATACCCCTAGTTTATA
* ** *
33916394 AAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAATACCCCTAGTTTGTAAAATTA-CTAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACTAAAATACCCCGA-TTTGTAAAATTATC-AA
* *
33916458 AATACCCTTTGTTTATA
64 AATACCCCTAGTTTATA
* * * *
33916475 AAATCACCAAAATACTCC-TGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAA
1 AAATTACCAAAATAC-CCTTGATTTGTAAAATTACTAAAATACCCC-GATTTGTAAAATTATCAA
*
33916539 AATACCCCTAGTTTGTA
64 AATACCCCTAGTTTATA
* * * * ** **
33916556 AAATTACCAAAATATCCC-TGATTTGTGAAATTATTGAAATACCTTCGACCTGTAAAATTATTGA
1 AAATTACCAAAATA-CCCTTGATTTGTAAAATTACTAAAATACC-CCGATTTGTAAAATTATCAA
* *
33916620 AATA-CCCTCGACTTATA
64 AATACCCCTAG-TTTATA
*
33916637 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTTGATTT
33916661 ACAGAATTAC
Statistics
Matches: 219, Mismatches: 39, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
80 11 0.05
81 203 0.93
82 5 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (80 bp):
AAATTACCAAAATACCCTTGATTTGTAAAATTACTAAAATACCCCGATTTGTAAAATTATCAAAA
TACCCCTAGTTTATA
Found at i:33916706 original size:27 final size:27
Alignment explanation
Indices: 33916313--33916706 Score: 237
Period size: 27 Copynumber: 14.6 Consensus size: 27
33916303 TTAATTTACC
* *
33916313 AAATTAACAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * * * *
33916340 AAATTACTAGAATATCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
33916367 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * **
33916394 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
33916421 AAATTACTAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
33916448 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
* *
33916475 AAATCACCAAAATACTCCT-GGTTTGTA
1 AAATTACCAAAATAC-CCTCGATTTGTA
*
33916502 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
33916529 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
33916556 AAATTACCAAAATATCCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTCGATTTGTA
*** * **
33916583 AAATTATTGAAATACCTTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** * *
33916610 AAATTATTGAAATACCCTCGACTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
33916637 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** **
33916664 GAATTACCGTTTTACCCTCGATTTAAA
1 AAATTACCAAAATACCCTCGATTTGTA
33916691 AAATTACCAAAATACC
1 AAATTACCAAAATACC
33916707 TTTGTAGGGT
Statistics
Matches: 289, Mismatches: 64, Indels: 28
0.76 0.17 0.07
Matches are distributed among these distances:
26 6 0.02
27 277 0.96
28 6 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:33916729 original size:27 final size:27
Alignment explanation
Indices: 33916692--33916993 Score: 310
Period size: 27 Copynumber: 11.2 Consensus size: 27
33916682 CGATTTAAAA
* **
33916692 AATTACCAAAATACCTTTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
*
33916719 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
* *
33916746 AATTACCAAAATACCCCTGTAGGGTAA
1 AATTACTAAAATACCCCTGTAGGGTAG
**
33916773 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCCTGTAGGGTAG
**
33916800 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCCTGTAGGGTAG
*
33916827 AATTAC-AGGAATACCCCTGTAGGGTAG
1 AATTACTA-AAATACCCCTGTAGGGTAG
** *
33916854 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
**
33916881 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCCTGTAGGGTAG
**
33916908 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
* *
33916935 AATTATTAAAATACCCCTGTAGGGTGG
1 AATTACTAAAATACCCCTGTAGGGTAG
* * *
33916962 AATTAC-AGAGATA-CCTTGTAGGGTAA
1 AATTACTA-AAATACCCCTGTAGGGTAG
33916988 AATTAC
1 AATTAC
33916994 CATTTTGCCC
Statistics
Matches: 238, Mismatches: 30, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
26 17 0.07
27 221 0.93
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGTAGGGTAG
Found at i:33916976 original size:54 final size:54
Alignment explanation
Indices: 33916692--33916992 Score: 353
Period size: 54 Copynumber: 5.6 Consensus size: 54
33916682 CGATTTAAAA
** *
33916692 AATTACCA-AAATACCTTTGTAGGGTAGAAATA-CTAAAATACCCCTGTAGGGTAG
1 AATTA-CAGAAATACCCCTGTAGGGTAGAATTATC-AAAATACCCCTGTAGGGTAG
* **
33916746 AATTACCA-AAATACCCCTGTAGGGTAAAATTATCGCAATACCCCTGTAGGGTAG
1 AATTA-CAGAAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTGTAGGGTAG
* *
33916800 AATTATC-GCAATACCCCTGTAGGGTAGAATTA-CAGGAATACCCCTGTAGGGTAG
1 AATTA-CAGAAATACCCCTGTAGGGTAGAATTATCA-AAATACCCCTGTAGGGTAG
* * **
33916854 AATTACCGAAATACCTCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAG
1 AATTACAGAAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTGTAGGGTAG
* * *
33916908 AATTACCGAAATACCCCTGTAGGGTAGAATTATTAAAATACCCCTGTAGGGTGG
1 AATTACAGAAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTGTAGGGTAG
* * *
33916962 AATTACAGAGATA-CCTTGTAGGGTAAAATTA
1 AATTACAGAAATACCCCTGTAGGGTAGAATTA
33916993 CCATTTTGCC
Statistics
Matches: 218, Mismatches: 24, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
53 18 0.08
54 198 0.91
55 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
AATTACAGAAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTGTAGGGTAG
Found at i:33917464 original size:22 final size:22
Alignment explanation
Indices: 33917439--33917485 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
33917429 GGCTTCATGT
*
33917439 CAACCT-ACATATGGCTCTGTGC
1 CAACCTGA-ATATGGCTATGTGC
*
33917461 CAACCTGATTATGGCTATGTGC
1 CAACCTGAATATGGCTATGTGC
33917483 CAA
1 CAA
33917486 ACGTATTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (22 bp):
CAACCTGAATATGGCTATGTGC
Found at i:33917674 original size:27 final size:27
Alignment explanation
Indices: 33917644--33917745 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
33917634 ATTCTGTTAA
* * *
33917644 GTGGCTTTGCTACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
33917671 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
33917698 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * **
33917725 GTGACTCTATCACAATATCTG
1 GTGGCTATGCCACAATATCTG
33917746 ATAACTGAGC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.78
28 7 0.11
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:33917920 original size:6 final size:6
Alignment explanation
Indices: 33917882--33918013 Score: 83
Period size: 6 Copynumber: 21.3 Consensus size: 6
33917872 TTGCATTCAC
* * * *
33917882 ATTCTG ATTTTAG ATTCTG -TTACTTG ATACTG ATTCTG ATTTTA ATTCTG
1 ATTCTG ATTCT-G ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
33917932 -TTACCTG ATACTG ATTCAG ATTCTG ATTTTG ATTCTG -TCACCTA ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
33917982 ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
33918014 AATGTTTCTT
Statistics
Matches: 96, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
5 6 0.06
6 73 0.76
7 14 0.15
8 3 0.03
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:33917933 original size:31 final size:32
Alignment explanation
Indices: 33917882--33917953 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 32
33917872 TTGCATTCAC
*
33917882 ATTCTGATTTTAGATTCTGTTACTTGATACTG
1 ATTCTGATTTTAGATTCTGTTACCTGATACTG
33917914 ATTCTGATTTTA-ATTCTGTTACCTGATACTG
1 ATTCTGATTTTAGATTCTGTTACCTGATACTG
*
33917945 ATTCAGATT
1 ATTCTGATT
33917954 CTGATTTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 26 0.68
32 12 0.32
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (32 bp):
ATTCTGATTTTAGATTCTGTTACCTGATACTG
Found at i:33917967 original size:37 final size:37
Alignment explanation
Indices: 33917913--33918004 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 37
33917903 ACTTGATACT
* * *
33917913 GATTCTGATTTTAATTCTGTTACCTGATACTGATTCA
1 GATTCTGATTTTGATTCTGTCACCTAATACTGATTCA
* *
33917950 GATTCTGATTTTGATTCTGTCACCTAATTCTGATTCT
1 GATTCTGATTTTGATTCTGTCACCTAATACTGATTCA
*
33917987 GATTCTGATTCTGATTCT
1 GATTCTGATTTTGATTCT
33918005 AGTTCTGATA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (37 bp):
GATTCTGATTTTGATTCTGTCACCTAATACTGATTCA
Found at i:33917988 original size:31 final size:31
Alignment explanation
Indices: 33917882--33917999 Score: 110
Period size: 31 Copynumber: 3.6 Consensus size: 31
33917872 TTGCATTCAC
* * *
33917882 ATTCTGATTTTAGATTCTGTTACTTGATACTG
1 ATTCTGATTTT-GATTCTGTTACCTAATTCTG
* *
33917914 ATTCTGATTTTAATTCTGTTACCTGATACTGATTCAG
1 ATTCTGATTTTGATTCTGTTACC---TA---ATTCTG
*
33917951 ATTCTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTAATTCTG
*
33917982 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
33918000 ATTCTAGTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
31 32 0.45
32 11 0.15
34 3 0.04
37 25 0.35
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTAATTCTG
Found at i:33919782 original size:17 final size:17
Alignment explanation
Indices: 33919760--33919802 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
33919750 GGAGCCATAT
33919760 GGGCCCAATGGGCCTAC
1 GGGCCCAATGGGCCTAC
33919777 GGGCCCAATGGGCCTAC
1 GGGCCCAATGGGCCTAC
*
33919794 GGGCTCAAT
1 GGGCCCAAT
33919803 TGGATAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.33, G:0.35, T:0.14
Consensus pattern (17 bp):
GGGCCCAATGGGCCTAC
Found at i:33920156 original size:108 final size:108
Alignment explanation
Indices: 33919967--33920186 Score: 377
Period size: 108 Copynumber: 2.0 Consensus size: 108
33919957 GAATACTTTA
* * * *
33919967 GTTTACCAAATTAACAAAATACCCCTGGTTTGTAAAATTACTAGAATATCCTTGGTTTATAAAAT
1 GTTTACAAAATTAACAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGATTATAAAAT
*
33920032 CACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
66 CACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTG
* *
33920075 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGATTATAAAAT
1 GTTTACAAAATTAACAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGATTATAAAAT
33920140 CACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTG
66 CACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTG
33920183 GTTT
1 GTTT
33920187 GTGAAATTAT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (108 bp):
GTTTACAAAATTAACAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGATTATAAAAT
CACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTG
Found at i:33920205 original size:27 final size:27
Alignment explanation
Indices: 33919974--33920195 Score: 291
Period size: 27 Copynumber: 8.2 Consensus size: 27
33919964 TTAGTTTACC
*
33919974 AAATTAACAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
33920001 AAATTACTAGAATATCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
33920028 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
33920055 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
33920082 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
33920109 AAATTACTAAAATACCCTTTGATTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
33920136 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
33920163 AAATTACCAAAATACCCCTGGTTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
33920190 AAATTA
1 AAATTA
33920196 TTGAAATACC
Statistics
Matches: 163, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 163 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:33920205 original size:54 final size:54
Alignment explanation
Indices: 33919981--33920186 Score: 331
Period size: 54 Copynumber: 3.8 Consensus size: 54
33919971 ACCAAATTAA
* * *
33919981 CAAAATACCCCTGGTTTGTAAAATTACTAGAATATCCTTGGTTTATAAAATCAC
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCAC
* *
33920035 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTAC
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCAC
* * *
33920089 CAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGATTATAAAATCAC
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCAC
*
33920143 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTT
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTT
33920187 GTGAAATTAT
Statistics
Matches: 138, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 138 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCAC
Found at i:33920219 original size:81 final size:81
Alignment explanation
Indices: 33919974--33920260 Score: 290
Period size: 81 Copynumber: 3.5 Consensus size: 81
33919964 TTAGTTTACC
* * * * * * * *
33919974 AAATTAACAAAATACCCCTGGTTTGTAAAATTACTAGAATATCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
* * **
33920039 ATACCCCTGGTTTGTA
66 ATACCCTTCGACTGTA
* **
33920055 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
* * *
33920120 ATACCCTTTGATTATA
66 ATACCCTTCGACTGTA
* * * *
33920136 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTGAAATTATTGAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
33920201 ATA-CCTTCGACCTGTA
66 ATACCCTTCGA-CTGTA
*** ** *
33920217 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCC
33920261 TTGATTTACA
Statistics
Matches: 172, Mismatches: 32, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
80 10 0.06
81 162 0.94
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
ATACCCTTCGACTGTA
Found at i:33920259 original size:27 final size:27
Alignment explanation
Indices: 33919974--33920261 Score: 226
Period size: 27 Copynumber: 10.7 Consensus size: 27
33919964 TTAGTTTACC
*
33919974 AAATTAACAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * * * *
33920001 AAATTACTAGAATATCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
33920028 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* **
33920055 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
33920082 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* ** * *
33920109 AAATTACTAAAATACCCTTTGATTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
33920136 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
*
33920163 AAATTACCAAAATACCC-CTGGTTTGTG
1 AAATTACCAAAATACCCTC-GGTTTGTA
*** * ***
33920190 AAATTATTGAAATACCTTCGACCTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*** **
33920217 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
33920244 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
33920262 TGATTTACAG
Statistics
Matches: 208, Mismatches: 46, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
27 207 1.00
28 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGGTTTGTA
Found at i:33920275 original size:27 final size:27
Alignment explanation
Indices: 33920243--33920317 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
33920233 CTCGACTTGT
* *
33920243 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAA
* ****
33920270 AGAATTACCGTTTTACCCTTGATTTAA
1 AAAATTACCAAAATACCCTTGATTTAA
33920297 AAAATTACCAAAATACCCTTG
1 AAAATTACCAAAATACCCTTG
33920318 TAGGGTAAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTAA
Found at i:33920327 original size:27 final size:27
Alignment explanation
Indices: 33920299--33920573 Score: 356
Period size: 27 Copynumber: 10.3 Consensus size: 27
33920289 TGATTTAAAA
* * *
33920299 AATTACCAAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
33920326 AAATACAAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
33920353 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
33920380 AATTACTGCAATACCCCTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
33920406 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
33920433 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
33920460 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
33920487 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
33920514 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
33920541 AATTACGGAGATA-CCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
33920567 AATTACC
1 AATTACC
33920574 ATTTTGCCCC
Statistics
Matches: 218, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 40 0.18
27 178 0.82
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:33920441 original size:80 final size:82
Alignment explanation
Indices: 33920308--33920546 Score: 358
Period size: 80 Copynumber: 3.0 Consensus size: 82
33920298 AAATTACCAA
* * * **
33920308 AATACCCTTGTAGGGTAAAAATACAAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT
1 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT
33920373 AGGGTAGAATTACT-GC
66 AGGGTAGAATTACTCGC
* * *
33920389 AATACCCCTGTA-GGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCTCTGT
1 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT
33920453 AGGGTAGAATTA-TCGC
66 AGGGTAGAATTACTCGC
**
33920469 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGT
1 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT
*
33920534 AGGGTGGAATTAC
66 AGGGTAGAATTAC
33920547 GGAGATACCT
Statistics
Matches: 141, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
79 1 0.01
80 71 0.50
81 69 0.49
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (82 bp):
AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT
AGGGTAGAATTACTCGC
Found at i:33920455 original size:134 final size:134
Alignment explanation
Indices: 33920297--33920574 Score: 393
Period size: 134 Copynumber: 2.1 Consensus size: 134
33920287 CTTGATTTAA
33920297 AAAATTACCAAAATACCCTTGTAGGGTAAAAATA-CAAAAATACCCCTGTAGGGTAGAATTACCG
1 AAAATTACCAAAATACCCTTGTAGGGTAAAAATATC-AAAATACCCCTGTAGGGTAGAATTACCG
**
33920361 AAATACCCCTGTAGGGTAGAATTACTGCAATACCCCTGTA-GGTAGAATTATCGCA-ATACCCCT
65 AAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTA-CGCAGATA-CCCT
33920424 GTAGGGT
128 GTAGGGT
* * * * **
33920431 AGAATTACCGAAATA-CCTCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCG
1 AAAATTACCAAAATACCCT-TGTAGGGTAAAAATATCAAAATACCCCTGTAGGGTAGAATTACCG
* * *
33920495 AAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGGAATTACGGAGATACCTTGT
65 AAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACGCAGATACCCTGT
33920560 AGGGT
130 AGGGT
33920565 AAAATTACCA
1 AAAATTACCA
33920575 TTTTGCCCCT
Statistics
Matches: 127, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
133 3 0.02
134 111 0.87
135 13 0.10
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (134 bp):
AAAATTACCAAAATACCCTTGTAGGGTAAAAATATCAAAATACCCCTGTAGGGTAGAATTACCGA
AATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACGCAGATACCCTGTA
GGGT
Found at i:33924033 original size:26 final size:26
Alignment explanation
Indices: 33924003--33924110 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
33923993 TGAAATTCCC
33924003 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
33924029 ATCATGGAACATTTACCTAACCCTTT
1 ATCATGGAACATTTACCTAACCCATT
*
33924055 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
33924081 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33924107 ATCA
1 ATCA
33924111 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:33925333 original size:45 final size:45
Alignment explanation
Indices: 33925272--33925362 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
33925262 GAACTATGTG
33925272 ATCTAAACTCAATGAGTTGTGGTCCGAGTTCATGATATATGTGAC
1 ATCTAAACTCAATGAGTTGTGGTCCGAGTTCATGATATATGTGAC
* * * *
33925317 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGAC
1 ATCTAAACTCAATGAGTTGTGGTCCGAGTTCATGATATATGTGAC
33925362 A
1 A
33925363 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (45 bp):
ATCTAAACTCAATGAGTTGTGGTCCGAGTTCATGATATATGTGAC
Found at i:33926705 original size:3 final size:3
Alignment explanation
Indices: 33926697--33926725 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
33926687 ACTTTTTCCT
33926697 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
33926726 TTGCATTCAT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:33928457 original size:19 final size:19
Alignment explanation
Indices: 33928429--33928465 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
33928419 TAAATATGAT
33928429 GGTCTTAAATG-GTAATTA
1 GGTCTTAAATGTGTAATTA
33928447 GGTCATTAAATGTGTAATT
1 GGTC-TTAAATGTGTAATT
33928466 GGATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (19 bp):
GGTCTTAAATGTGTAATTA
Found at i:33931076 original size:35 final size:35
Alignment explanation
Indices: 33931028--33931095 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
33931018 CGGGCGTGTG
* *
33931028 TACTAGCCATGTGAGGCACACGGCTTGTTCACATC
1 TACTAGCCATGTGAGGCACACAGCCTGTTCACATC
* *
33931063 TACTAGCCGTGTGAGGGACACAGCCTGTTCACA
1 TACTAGCCATGTGAGGCACACAGCCTGTTCACA
33931096 CTGGCATGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (35 bp):
TACTAGCCATGTGAGGCACACAGCCTGTTCACATC
Found at i:33935496 original size:20 final size:20
Alignment explanation
Indices: 33935451--33935497 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33935441 ATGAATAAAA
*
33935451 GAAAATATATATATAATTTT
1 GAAAATATATATATAATTAT
*
33935471 GTAAATATATATAT-ATATAT
1 GAAAATATATATATAAT-TAT
33935491 GAAAATA
1 GAAAATA
33935498 ATTTGATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (20 bp):
GAAAATATATATATAATTAT
Found at i:33936116 original size:19 final size:20
Alignment explanation
Indices: 33936093--33936139 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
33936083 AATTATAAAA
33936093 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* * *
33936113 -ATAAAAATTATTAAACTTT
1 AATAAAAATCAATAAAATTT
33936132 AATAAAAA
1 AATAAAAA
33936140 ATTTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:33936155 original size:18 final size:17
Alignment explanation
Indices: 33936107--33936162 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
33936097 AAAATCAATA
*
33936107 AAATTTATAAAAATTATT
1 AAATTTATAAAAAAT-TT
33936125 AAACTTTAATAAAAAATTT
1 AAA-TTT-ATAAAAAATTT
33936144 AAATTTACT-AAAAATTT
1 AAATTTA-TAAAAAATTT
33936161 AA
1 AA
33936163 TAATTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 11 0.32
18 7 0.21
19 8 0.24
20 8 0.24
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTTATAAAAAATTT
Found at i:33938708 original size:17 final size:17
Alignment explanation
Indices: 33938686--33938727 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
33938676 AAAATGGAAT
33938686 AAAATGAGGGAAAAATA
1 AAAATGAGGGAAAAATA
***
33938703 AAAATGAAATAAAAATA
1 AAAATGAGGGAAAAATA
33938720 AAAA-GAGG
1 AAAATGAGG
33938728 TATAAAGAGG
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (17 bp):
AAAATGAGGGAAAAATA
Found at i:33941566 original size:2 final size:2
Alignment explanation
Indices: 33941559--33941592 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
33941549 TCACTAATGT
33941559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33941593 CACATATCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33949362 original size:2 final size:2
Alignment explanation
Indices: 33949355--33949387 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
33949345 CACTAATGTT
*
33949355 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33949388 CTATGATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:33953202 original size:50 final size:50
Alignment explanation
Indices: 33953144--33953270 Score: 166
Period size: 50 Copynumber: 2.5 Consensus size: 50
33953134 TGTGTCAGTA
* **
33953144 TAAGACCATGTCTGGGACATGGCTTCGG-CATTGACAGATGAGAACCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGTC-TCAACAGATGAGAACCAATG
* * ** *
33953194 TAAGACCATGTCTGGGACATGGCATCGGTCTCAATATATGAGAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGTCTCAACAGATGAGAACCAATG
33953244 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
33953271 ACTTCGGTGT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 67 0.99
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGGTCTCAACAGATGAGAACCAATG
Found at i:33959844 original size:23 final size:24
Alignment explanation
Indices: 33959799--33959845 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
33959789 TTATTCAAAA
33959799 ATCTTGGAGTTTCCACATCATTTG
1 ATCTTGGAGTTTCCACATCATTTG
*
33959823 ATCTTGTAGTTTCC-CATCATTTG
1 ATCTTGGAGTTTCCACATCATTTG
33959846 GTATCAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (24 bp):
ATCTTGGAGTTTCCACATCATTTG
Found at i:33959969 original size:23 final size:24
Alignment explanation
Indices: 33959943--33959994 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
33959933 AAATCTTTTC
33959943 AATGTGA-AACTCCAAGATCATTT
1 AATGTGAGAACTCCAAGATCATTT
33959966 AATGT-AGAACTCCAAGATCATTT
1 AATGTGAGAACTCCAAGATCATTT
*
33959989 GATGTG
1 AATGTG
33959995 GAAAGTCTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (24 bp):
AATGTGAGAACTCCAAGATCATTT
Found at i:33965558 original size:46 final size:46
Alignment explanation
Indices: 33965505--33965680 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
33965495 TATTTGGGCA
33965505 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
33965551 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
33965596 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
** **
33965644 -CCTGAGTTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33965681 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 58 0.56
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33965660 original size:93 final size:93
Alignment explanation
Indices: 33965501--33965671 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
33965491 GGGATATTTG
* *
33965501 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
33965566 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* **
33965594 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG-CCTGAGTTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCC-GAACTCGTTGA
33965658 GTTGAGTCCGAGTT
65 GTTGAGTCCGAGTT
33965672 TGCTTATGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:33968641 original size:15 final size:15
Alignment explanation
Indices: 33968602--33968672 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
33968592 GTATCTTGGG
*
33968602 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
33968617 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
33968632 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
33968647 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
33968662 TTTCTTTATTC
1 TTTCTTTATTC
33968673 AGTTTTCTTG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
14 2 0.04
15 41 0.91
16 2 0.04
ACGTcount: A:0.11, C:0.20, G:0.13, T:0.56
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:33968671 original size:30 final size:31
Alignment explanation
Indices: 33968593--33968672 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
33968583 CATAGTATCG
* *
33968593 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCTGGATCTCTC
* *
33968623 TAT-TCTGGATTTCTTTATTCC-GGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCTGGATCTCTC
33968653 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
33968673 AGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 38 0.88
31 4 0.09
ACGTcount: A:0.11, C:0.19, G:0.15, T:0.55
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCTGGATCTCTC
Found at i:33971208 original size:13 final size:13
Alignment explanation
Indices: 33971190--33971216 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33971180 AGTTGAGTCC
33971190 GAGTTCGTGAAAT
1 GAGTTCGTGAAAT
33971203 GAGTTCGTGAAAT
1 GAGTTCGTGAAAT
33971216 G
1 G
33971217 TAACTAGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (13 bp):
GAGTTCGTGAAAT
Found at i:33975253 original size:28 final size:29
Alignment explanation
Indices: 33975193--33975260 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
33975183 GGTTCTTGCA
* *
33975193 GACTTCCTACA-TTAGATAGTCCTAACGT
1 GACTTCCCACATTTAGATAGTACTAACGT
33975221 G-CTTCCCACATTTAGATAGTACTGAA-G-
1 GACTTCCCACATTTAGATAGTACT-AACGT
*
33975248 GACTTCTCACATT
1 GACTTCCCACATT
33975261 GCCAAATCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 9 0.26
28 23 0.68
29 2 0.06
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (29 bp):
GACTTCCCACATTTAGATAGTACTAACGT
Found at i:33980363 original size:10 final size:10
Alignment explanation
Indices: 33980348--33980379 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
33980338 TAAATACATT
33980348 TAATTAAAGA
1 TAATTAAAGA
33980358 TAATTAAAGA
1 TAATTAAAGA
33980368 TAATTAAA-A
1 TAATTAAAGA
33980377 TAA
1 TAA
33980380 AATCCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:33980424 original size:15 final size:15
Alignment explanation
Indices: 33980404--33980433 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33980394 ATAATCCTAA
*
33980404 TAATTATCTTAATAT
1 TAATTATCCTAATAT
33980419 TAATTATCCTAATAT
1 TAATTATCCTAATAT
33980434 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:33981028 original size:19 final size:19
Alignment explanation
Indices: 33981004--33981043 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
33980994 TTTACATATA
33981004 TTTTCTCTTTTTTTT-CTTT
1 TTTTCT-TTTTTTTTACTTT
33981023 TTTTCTTTTTTTTTACTTT
1 TTTTCTTTTTTTTTACTTT
33981042 TT
1 TT
33981044 ATTTTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTCTTTTTTTTTACTTT
Found at i:33981996 original size:6 final size:6
Alignment explanation
Indices: 33981961--33982014 Score: 67
Period size: 6 Copynumber: 9.2 Consensus size: 6
33981951 TATTAATATC
* *
33981961 TAAAAA -AAATAA T-AAAA TAATAA GAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAA-AA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
33982008 TAAAAA T
1 TAAAAA T
33982015 TGGGTTGCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 6 0.15
6 35 0.85
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:33985724 original size:10 final size:10
Alignment explanation
Indices: 33985709--33985740 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
33985699 TAAATACATT
33985709 TAATTAAAGA
1 TAATTAAAGA
33985719 TAATTAAAGA
1 TAATTAAAGA
33985729 TAATTAAA-A
1 TAATTAAAGA
33985738 TAA
1 TAA
33985741 AATCCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:33985785 original size:15 final size:15
Alignment explanation
Indices: 33985765--33985794 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33985755 ATAATCCTAA
*
33985765 TAATTATCTTAATAT
1 TAATTATCCTAATAT
33985780 TAATTATCCTAATAT
1 TAATTATCCTAATAT
33985795 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:33987190 original size:21 final size:21
Alignment explanation
Indices: 33987165--33987204 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
33987155 CGCAGCAGCC
33987165 TGTGTCACAACACACACACCG
1 TGTGTCACAACACACACACCG
33987186 TGTGTCACAACACACACAC
1 TGTGTCACAACACACACAC
33987205 TCTATTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.38, G:0.12, T:0.15
Consensus pattern (21 bp):
TGTGTCACAACACACACACCG
Found at i:33992859 original size:20 final size:20
Alignment explanation
Indices: 33992834--33992873 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
33992824 TTGTGAGAGA
33992834 GAACATCCCAACATCCCCTT
1 GAACATCCCAACATCCCCTT
33992854 GAACATCCCAACATCCCCTT
1 GAACATCCCAACATCCCCTT
33992874 TCATCAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.45, G:0.05, T:0.20
Consensus pattern (20 bp):
GAACATCCCAACATCCCCTT
Found at i:33996935 original size:177 final size:177
Alignment explanation
Indices: 33996639--33996967 Score: 622
Period size: 177 Copynumber: 1.9 Consensus size: 177
33996629 TAATAATTTT
*
33996639 GGTGAAAATTGATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
1 GGTGAAAATTAATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
33996704 CACATCTAATGATCATACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
66 CACATCTAATGATCATACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
*
33996769 TTAATACCTTTTCTATATAAGTATTAAAATTTCTTTAATACTTAATG
131 TTAATACCTTTTCCATATAAGTATTAAAATTTCTTTAATACTTAATG
33996816 GGTGAAAATTAATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
1 GGTGAAAATTAATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
*
33996881 CACATCTAATGATCGTACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
66 CACATCTAATGATCATACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
*
33996946 TTAATACCTTTTCCGTATAAGT
131 TTAATACCTTTTCCATATAAGT
33996968 TGATTAATGA
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
177 148 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (177 bp):
GGTGAAAATTAATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
CACATCTAATGATCATACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
TTAATACCTTTTCCATATAAGTATTAAAATTTCTTTAATACTTAATG
Found at i:34004184 original size:22 final size:22
Alignment explanation
Indices: 34004157--34004202 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
34004147 CTAATAGAAT
**
34004157 AAAATTATTCAAGTTAAATTAA
1 AAAATTAAACAAGTTAAATTAA
*
34004179 AAAATTAAACATGTTAAATTAA
1 AAAATTAAACAAGTTAAATTAA
34004201 AA
1 AA
34004203 TTTTCTTACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATTAAACAAGTTAAATTAA
Found at i:34004257 original size:16 final size:16
Alignment explanation
Indices: 34004236--34004266 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34004226 TATTATAGAG
34004236 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
34004252 CATATATATTTGAAA
1 CATATAAATTTGAAA
34004267 TATCTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:34004416 original size:29 final size:30
Alignment explanation
Indices: 34004348--34004422 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 30
34004338 ATTTAGGTCC
34004348 TAAAATTATTTTAAATTTTTTTATATATTCT
1 TAAAATTATTTT-AATTTTTTTATATATTCT
* *
34004379 TTAGA--ATTTTAATTTTTTTA-ATATT-T
1 TAAAATTATTTTAATTTTTTTATATATTCT
*
34004405 TAAAAATTATTTTTATTT
1 T-AAAATTATTTTAATTT
34004423 AATATGAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
26 2 0.06
27 7 0.19
28 10 0.28
29 14 0.39
31 3 0.08
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (30 bp):
TAAAATTATTTTAATTTTTTTATATATTCT
Found at i:34017115 original size:23 final size:23
Alignment explanation
Indices: 34017030--34017116 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
34017020 CCTGATCAAT
*
34017030 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
34017052 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* * * *
34017072 GTACGACACACGAGGTACCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
34017095 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
34017117 TTGGTAAAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
21 33 0.65
22 1 0.02
23 17 0.33
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:34017418 original size:22 final size:21
Alignment explanation
Indices: 34017390--34017430 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
34017380 AATATCACAA
34017390 TCTCATATATCCATATCAATTT
1 TCTCATATATCCA-ATCAATTT
*
34017412 TCTCATATTTCCAATCAAT
1 TCTCATATATCCAATCAAT
34017431 ATATTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (21 bp):
TCTCATATATCCAATCAATTT
Found at i:34017517 original size:15 final size:14
Alignment explanation
Indices: 34017491--34017530 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
34017481 TATATATTAT
34017491 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
34017505 ATAATTGCAATCAAT
1 ATAATT-CAATCAAA
34017520 ATAAATTCAAT
1 AT-AATTCAAT
34017531 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 13 0.57
16 4 0.17
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.33
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:34017874 original size:2 final size:2
Alignment explanation
Indices: 34017867--34017904 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
34017857 TGTTTTGTTT
34017867 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34017905 ATAAGTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:34018288 original size:3 final size:3
Alignment explanation
Indices: 34018280--34018317 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
34018270 TCAATTTATT
34018280 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
34018318 GTTTAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:34023062 original size:16 final size:16
Alignment explanation
Indices: 34023041--34023078 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
34023031 GAGACTAGTT
34023041 TTAGAATTTCTAAGGG
1 TTAGAATTTCTAAGGG
34023057 TTAGAATTTCTAAGGG
1 TTAGAATTTCTAAGGG
34023073 TT-GAAT
1 TTAGAAT
34023079 ATCTTGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (16 bp):
TTAGAATTTCTAAGGG
Found at i:34028378 original size:22 final size:22
Alignment explanation
Indices: 34028353--34028394 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34028343 ATTAAATTTG
34028353 AGAAA-ACCAAATTGAAAATGAT
1 AGAAATACCAAATT-AAAATGAT
*
34028375 AGAAATACTAAATTAAAATG
1 AGAAATACCAAATTAAAATG
34028395 TTAGCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (22 bp):
AGAAATACCAAATTAAAATGAT
Found at i:34028736 original size:19 final size:20
Alignment explanation
Indices: 34028712--34028757 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
34028702 ATTAGTGGAG
*
34028712 TTGTTAAGTTTGTTAAA-TT
1 TTGTTAAGATTGTTAAAGTT
34028731 TTGTTAAGATTGTTAAAGTT
1 TTGTTAAGATTGTTAAAGTT
*
34028751 TAGTTAA
1 TTGTTAA
34028758 AAAGGTTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (20 bp):
TTGTTAAGATTGTTAAAGTT
Found at i:34033308 original size:20 final size:20
Alignment explanation
Indices: 34033285--34033324 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34033275 GCTGTTAAGT
*
34033285 TTGTTAA-AGTTTTGTTAAAA
1 TTGTTAAGA-TTTAGTTAAAA
34033305 TTGTTAAGATTTAGTTAAAA
1 TTGTTAAGATTTAGTTAAAA
34033325 CAATTACTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (20 bp):
TTGTTAAGATTTAGTTAAAA
Found at i:34040119 original size:19 final size:20
Alignment explanation
Indices: 34040095--34040143 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
34040085 ATTTAATCAT
34040095 ATTTTTCTAAATAAAAATA-
1 ATTTTTCTAAATAAAAATAC
* *
34040114 ATTTTTAATAAATAAAATTAC
1 ATTTTT-CTAAATAAAAATAC
34040135 A-TTTTCTAA
1 ATTTTTCTAA
34040144 CTTTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 9 0.36
20 15 0.60
21 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTTTCTAAATAAAAATAC
Found at i:34048805 original size:5 final size:5
Alignment explanation
Indices: 34048795--34048824 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
34048785 ATTATCATTT
34048795 TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA
34048825 ACCTTAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:34056782 original size:19 final size:19
Alignment explanation
Indices: 34056758--34056794 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
34056748 AAATGTATGT
*
34056758 GGTCAAGCTACTATGTTGC
1 GGTCAAGCCACTATGTTGC
34056777 GGTCAAGCCACTATGTTG
1 GGTCAAGCCACTATGTTG
34056795 TAGCTAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (19 bp):
GGTCAAGCCACTATGTTGC
Done.