Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 125 of 292
Found at i:37333578 original size:2 final size:2
Alignment explanation
Indices: 37333571--37333608 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
37333561 ACCATCAATC
37333571 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37333609 TCTTCTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37333974 original size:39 final size:39
Alignment explanation
Indices: 37333855--37333977 Score: 165
Period size: 39 Copynumber: 3.2 Consensus size: 39
37333845 GGACTTTAGC
* * * *
37333855 CCGGACATATTTCCAGCACGTAGCTTGTGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCTTGCGGACCTTAAGT
* * *
37333894 CCAGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCTTGCGGACCTTAAGT
* *
37333933 CCGGATATAATTCTAGCACATAGCTTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCTTGCGGACCTTAAGT
37333972 CCGGAT
1 CCGGAT
37333978 GAACATCACT
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCTTGCGGACCTTAAGT
Found at i:37336439 original size:39 final size:39
Alignment explanation
Indices: 37336385--37336614 Score: 379
Period size: 39 Copynumber: 5.9 Consensus size: 39
37336375 AATGTTCGAG
* *
37336385 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGCTA
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
37336424 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
37336463 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
37336502 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
37336541 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
37336580 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATACCCGGGCTAAG-CCCGAAGGCAATTGTGCG
37336615 GGTTACCATA
Statistics
Matches: 181, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 164 0.91
40 17 0.09
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (39 bp):
TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:37339815 original size:21 final size:21
Alignment explanation
Indices: 37339789--37339829 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
37339779 TAGAATTTAA
37339789 TTCCACACGGGCGTGTTACCT
1 TTCCACACGGGCGTGTTACCT
37339810 TTCCACACGGGCGTGTTACC
1 TTCCACACGGGCGTGTTACC
37339830 CTATTTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.34, G:0.24, T:0.27
Consensus pattern (21 bp):
TTCCACACGGGCGTGTTACCT
Found at i:37342489 original size:14 final size:14
Alignment explanation
Indices: 37342470--37342497 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37342460 CTTCAAGGAA
37342470 TGATAAATTAATAT
1 TGATAAATTAATAT
37342484 TGATAAATTAATAT
1 TGATAAATTAATAT
37342498 AAATTATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TGATAAATTAATAT
Found at i:37348128 original size:42 final size:43
Alignment explanation
Indices: 37348019--37348206 Score: 188
Period size: 43 Copynumber: 4.4 Consensus size: 43
37348009 CCGAGATGGG
* *
37348019 ATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTGCA
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA-TGCT
* *
37348062 ATTATGTGTAAGACCATATCTGGGACATTGGCATCATTATGCT
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTATGCT
* * *
37348105 ATTACG-ATAAGACCATGTCTGGGACATTGGCATCGTTAT-AT
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTATGCT
* * * *
37348146 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATG-T
1 -ATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTATGCT
* *
37348189 GATAACATGTAAGACCAT
1 -ATTACGTGTAAGACCAT
37348207 ATTCGGGATA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 35 0.29
43 82 0.68
44 2 0.02
45 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTATGCT
Found at i:37348170 original size:85 final size:84
Alignment explanation
Indices: 37348027--37348187 Score: 227
Period size: 85 Copynumber: 1.9 Consensus size: 84
37348017 GGATTACATG
* *
37348027 TAAGACCATGTCTGGGACATTGGCATTGTATTGCAATTATGTGTAAGACCATATCTGGGACATTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATTG-AATTATGTGTAAGACCATATCTGGGACAGTG
*
37348092 GCATCATTATGCTATTACGA
65 GCATCAATATGCTATTACGA
* *
37348112 TAAGACCATGTCTGGGACATTGGCATCGTTATATG-ATT-TCGTGTAAGACCCTGTCTGGGACAG
1 TAAGACCATGTCTGGGACATTGGCATCG-TAT-TGAATTAT-GTGTAAGACCATATCTGGGACAG
37348175 TGGCATCAATATG
63 TGGCATCAATATG
37348188 TGATAACATG
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
84 1 0.01
85 62 0.91
86 3 0.04
87 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (84 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATTGAATTATGTGTAAGACCATATCTGGGACAGTGG
CATCAATATGCTATTACGA
Found at i:37353746 original size:13 final size:13
Alignment explanation
Indices: 37353728--37353752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37353718 AACAGGGGAC
37353728 ACATGACCATGTA
1 ACATGACCATGTA
37353741 ACATGACCATGT
1 ACATGACCATGT
37353753 GTCATACACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (13 bp):
ACATGACCATGTA
Found at i:37355774 original size:14 final size:13
Alignment explanation
Indices: 37355755--37355785 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
37355745 AACGATAAAA
37355755 TTTCTTAACGAAAT
1 TTTCTTAACG-AAT
37355769 TTTCTTAACGAAT
1 TTTCTTAACGAAT
37355782 TTTC
1 TTTC
37355786 ACACCAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.48
Consensus pattern (13 bp):
TTTCTTAACGAAT
Found at i:37357526 original size:58 final size:57
Alignment explanation
Indices: 37357445--37357584 Score: 135
Period size: 57 Copynumber: 2.5 Consensus size: 57
37357435 CCTCATTATG
** * *
37357445 AAAGGATTTTCCCT-GATGGGTAATCTTGATATAAATCCTC-TT-GAGCATATGTTATAA
1 AAAGGATTTAGCCTGGACGGGTAATC-TGA-ATAAA-CCTCTTTAGAGCATATGTCATAA
* * *
37357502 ATTA-GATTTAGCCTGGACGGGTAATCTGAATCAAGCTCTTTAGAGCATATGTCATAA
1 A-AAGGATTTAGCCTGGACGGGTAATCTGAATAAACCTCTTTAGAGCATATGTCATAA
* *
37357559 AAAGGGTTTAGCCTGGACTGGTAATC
1 AAAGGATTTAGCCTGGACGGGTAATC
37357585 CTATCGTATA
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
55 3 0.04
56 7 0.10
57 47 0.69
58 11 0.16
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (57 bp):
AAAGGATTTAGCCTGGACGGGTAATCTGAATAAACCTCTTTAGAGCATATGTCATAA
Found at i:37360543 original size:178 final size:178
Alignment explanation
Indices: 37360239--37360776 Score: 1040
Period size: 178 Copynumber: 3.0 Consensus size: 178
37360229 AAAATGATTT
*
37360239 TGATCTTGCCATCGAAATGTTTCATCTTCAACCTTTAAATTTTGTTTTATACTTGTGGAGTTTCA
1 TGATCTTGCCACCGAAATGTTTCATCTTCAACCTTTAAATTTTGTTTTATACTTGTGGAGTTTCA
37360304 TGAATAATGTGGATATGTTTAGATGTTATTGTTTGAAAATGATTAAATGTTGAATGTTGTTTATA
66 TGAATAATGTGGATATGTTTAGATGTTATTGTTTGAAAATGATTAAATGTTGAATGTTGTTTATA
37360369 ATGGTAAGTTTTAATTTTAATTGATAGATACTTGTAGCACTATTTAAA
131 ATGGTAAGTTTTAATTTTAATTGATAGATACTTGTAGCACTATTTAAA
37360417 TGATCTTGCCACCGAAATGTTTCATCTTCAACCTTTAAATTTTGTTTTATACTTGTGGAGTTTCA
1 TGATCTTGCCACCGAAATGTTTCATCTTCAACCTTTAAATTTTGTTTTATACTTGTGGAGTTTCA
* *
37360482 TGAATAATGTGGATATGATTAGATGTTATTGTTTGAAAATGATTAAATGTTGAAAGTTGTTTATA
66 TGAATAATGTGGATATGTTTAGATGTTATTGTTTGAAAATGATTAAATGTTGAATGTTGTTTATA
37360547 ATGGTAAGTTTTAATTTTAATTGATAGATACTTGTAGCACTATTTAAA
131 ATGGTAAGTTTTAATTTTAATTGATAGATACTTGTAGCACTATTTAAA
37360595 TGATCTTGCCACCGAAATGTTTCATCTTCAACCTTTAAATTTTGTTTTATACTTGTGGAGTTTCA
1 TGATCTTGCCACCGAAATGTTTCATCTTCAACCTTTAAATTTTGTTTTATACTTGTGGAGTTTCA
37360660 TGAATAATGTGGATATGTTTAGATGTTATTGTTTGAAAATGATTAAATGTTGAATGTTGTTTATA
66 TGAATAATGTGGATATGTTTAGATGTTATTGTTTGAAAATGATTAAATGTTGAATGTTGTTTATA
*
37360725 ATGGTAAATTTTAATTTTAATTGATAGATACTTGTAGCACTATTTAAA
131 ATGGTAAGTTTTAATTTTAATTGATAGATACTTGTAGCACTATTTAAA
37360773 TGAT
1 TGAT
37360777 AATTAATTTA
Statistics
Matches: 354, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 354 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (178 bp):
TGATCTTGCCACCGAAATGTTTCATCTTCAACCTTTAAATTTTGTTTTATACTTGTGGAGTTTCA
TGAATAATGTGGATATGTTTAGATGTTATTGTTTGAAAATGATTAAATGTTGAATGTTGTTTATA
ATGGTAAGTTTTAATTTTAATTGATAGATACTTGTAGCACTATTTAAA
Found at i:37366250 original size:14 final size:16
Alignment explanation
Indices: 37366216--37366249 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37366206 AGAAAAGTGA
37366216 AAAAGAGAGAGAAAAG
1 AAAAGAGAGAGAAAAG
*
37366232 AAAAGTGAGA-AAAAG
1 AAAAGAGAGAGAAAAG
37366247 AAA
1 AAA
37366250 GGAAAACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (16 bp):
AAAAGAGAGAGAAAAG
Found at i:37370893 original size:43 final size:44
Alignment explanation
Indices: 37370845--37370941 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 44
37370835 CCCACTTTTT
*
37370845 TATTTTCA-TTACTTTTAAAATGT-TATTTAATAA-ATTATAAAAA
1 TATTTT-ATTTACTTTTAAAATATATATTTAA-AATATTATAAAAA
* * *
37370888 TATTTTATTTATTTTTAAAATATATTTTTAAAATTTTATAAAAA
1 TATTTTATTTACTTTTAAAATATATATTTAAAATATTATAAAAA
*
37370932 TATATTATTT
1 TATTTTATTT
37370942 TATAGATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.02
43 21 0.46
44 24 0.52
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (44 bp):
TATTTTATTTACTTTTAAAATATATATTTAAAATATTATAAAAA
Found at i:37370913 original size:13 final size:13
Alignment explanation
Indices: 37370897--37370921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37370887 ATATTTTATT
37370897 TATTTTTAAAATA
1 TATTTTTAAAATA
37370910 TATTTTTAAAAT
1 TATTTTTAAAAT
37370922 TTTATAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTTAAAATA
Found at i:37370943 original size:26 final size:24
Alignment explanation
Indices: 37370904--37370956 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
37370894 ATTTATTTTT
37370904 AAAATATATTTTTA-AAATTTTATA
1 AAAATATATTTTTATAAATTTTA-A
*
37370928 AAAATATATTATTTTATAGATTTTAA
1 AAAATATA-T-TTTTATAAATTTTAA
37370954 AAA
1 AAA
37370957 TAAACACGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 1 0.04
26 9 0.36
27 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAATATATTTTTATAAATTTTAA
Found at i:37371403 original size:17 final size:17
Alignment explanation
Indices: 37371377--37371414 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 17
37371367 TTAAACATTG
37371377 AAAAATATATTGTTTTCAA
1 AAAAATATA-T-TTTTCAA
37371396 AAAAATATATTTTTCAA
1 AAAAATATATTTTTCAA
37371413 AA
1 AA
37371415 TCATTTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 1 0.05
19 9 0.47
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (17 bp):
AAAAATATATTTTTCAA
Found at i:37372724 original size:21 final size:22
Alignment explanation
Indices: 37372700--37372743 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
37372690 CCAAATTCTC
37372700 TCAAA-TT-TCTCTCAATTTTTG
1 TCAAAGTTGTCTCT-AATTTTTG
37372721 TCAAAGTTGTCTCTAATTTTTG
1 TCAAAGTTGTCTCTAATTTTTG
37372743 T
1 T
37372744 AAAAAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (22 bp):
TCAAAGTTGTCTCTAATTTTTG
Found at i:37373896 original size:7 final size:7
Alignment explanation
Indices: 37373876--37373918 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
37373866 CATAATAAAA
37373876 TAGTCATT
1 TAGT-ATT
*
37373884 TCGTATT
1 TAGTATT
37373891 TAGTATT
1 TAGTATT
37373898 TAGTATT
1 TAGTATT
*
37373905 TATTATT
1 TAGTATT
37373912 TAGTATT
1 TAGTATT
37373919 ACCTATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
7 28 0.90
8 3 0.10
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.58
Consensus pattern (7 bp):
TAGTATT
Found at i:37374542 original size:18 final size:18
Alignment explanation
Indices: 37374519--37374562 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
37374509 ATGCCAAATG
*
37374519 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
*
37374537 TGTATCCTAACCCTTTTA
1 TGTATCCTAACCCTTATA
*
37374555 TGTTTCCT
1 TGTATCCT
37374563 TTTCCCAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:37377842 original size:51 final size:49
Alignment explanation
Indices: 37377717--37377866 Score: 165
Period size: 49 Copynumber: 3.0 Consensus size: 49
37377707 TAGCCAAAGC
* **
37377717 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*** * *
37377766 TATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
37377817 TATCGGGTACGCATAGTAGCATGCACTGAGTACTACACATGCGGCCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
37377866 T
1 T
37377867 TACTCATAGT
Statistics
Matches: 81, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
49 39 0.48
50 6 0.07
51 36 0.44
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:37379878 original size:25 final size:25
Alignment explanation
Indices: 37379847--37379900 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
37379837 GAACTAGAAT
*
37379847 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAAAATTAGGTGA
37379872 CAGAATCAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAAAATTAGGTGA
37379897 CAGA
1 CAGA
37379901 CAGAACCAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATTAGGTGA
Found at i:37379878 original size:31 final size:31
Alignment explanation
Indices: 37379842--37379975 Score: 104
Period size: 31 Copynumber: 4.5 Consensus size: 31
37379832 TATCAGAACT
*
37379842 AGAATCAGAATCAGAATCAGAATTAGGT---
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
37379870 -G-A-CAGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
37379898 AG-A-CAGAACCAGGATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
37379927 CGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
37379958 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
37379976 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
25 22 0.25
26 1 0.01
27 1 0.01
29 23 0.26
30 1 0.01
31 28 0.32
32 11 0.13
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:37379964 original size:25 final size:26
Alignment explanation
Indices: 37379847--37379946 Score: 78
Period size: 25 Copynumber: 3.8 Consensus size: 26
37379837 GAACTAGAAT
* *
37379847 CAGAATCAGAATCAGAATTAGGT-GA
1 CAGAATCAGAATCAGAATCAGGTAAA
* *
37379872 CAGAATCAGAATCAAAATTAGGTGACAGA
1 CAGAATCAGAATCAGAATCAGGT-A-A-A
* * *
37379901 CAGAACCAGGATCAGTATCAGGT-AA
1 CAGAATCAGAATCAGAATCAGGTAAA
* *
37379926 CCGAATCAAAATCAGAATCAG
1 CAGAATCAGAATCAGAATCAG
37379947 TATCAGGTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
25 39 0.66
26 1 0.02
29 19 0.32
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (26 bp):
CAGAATCAGAATCAGAATCAGGTAAA
Found at i:37380154 original size:27 final size:26
Alignment explanation
Indices: 37380112--37380213 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
37380102 GCTCAGTTAT
* *
37380112 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
37380139 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
37380165 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
37380193 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
37380214 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:37380400 original size:22 final size:22
Alignment explanation
Indices: 37380372--37380436 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
37380362 GCAAATACGT
37380372 TTGGCACACAA-CCATAATCAGG
1 TTGGCACA-AAGCCATAATCAGG
*
37380394 TTGGCACAAAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
37380416 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
37380437 AAGGCTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 4 0.11
22 31 0.84
23 2 0.05
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:37380919 original size:27 final size:27
Alignment explanation
Indices: 37380861--37381083 Score: 268
Period size: 27 Copynumber: 8.3 Consensus size: 27
37380851 AGGGGCAAAA
* *
37380861 TGGTAATTTTACCCTACAA-GGTATCT
1 TGGTAATTCTACCCTACAAGGGTATTT
*
37380887 TGGTAATTCCACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* *
37380914 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* * *
37380941 CGGTAATTCTACCCTACAGGGGTATTA
1 TGGTAATTCTACCCTACAAGGGTATTT
* *
37380968 CGATAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* *
37380995 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* *
37381022 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* * * *
37381049 CGATATTTCTACCCAACAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
*
37381076 TAGTAATT
1 TGGTAATT
37381084 TTTTAAATTA
Statistics
Matches: 174, Mismatches: 22, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 17 0.10
27 157 0.90
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAAGGGTATTT
Found at i:37380988 original size:81 final size:81
Alignment explanation
Indices: 37380890--37381083 Score: 334
Period size: 81 Copynumber: 2.4 Consensus size: 81
37380880 GGTATCTTGG
*
37380890 TAATTCCACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
37380955 TACAGGGGTATTACGA
66 TACAGGGGTATTACGA
**
37380971 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
*
37381036 TACAGGGGTATTTCGA
66 TACAGGGGTATTACGA
* *
37381052 TATTTCTACCCAACAAGGGTATTTTAGTAATT
1 TAATTCTACCCTACAAGGGTATTTTAGTAATT
37381084 TTTTAAATTA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 105 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (81 bp):
TAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
TACAGGGGTATTACGA
Found at i:37381107 original size:81 final size:81
Alignment explanation
Indices: 37380851--37381112 Score: 235
Period size: 81 Copynumber: 3.2 Consensus size: 81
37380841 TTAACACCTT
* * * * * * * *
37380851 AGGGGCAAAATGGTAATTTTACCCTACA-AGGTATCT-TGGTAATTCCACCCTACAAGGGTATTT
1 AGGGGTAAAACGGTAATTCTACCCTACAGGGGTAT-TACGATAATTCTACCCAACAAGGGTATTT
* **
37380914 TAGTAATTCTACCCTAC
65 CAGTAATTCTAAACTAC
*** *
37380931 AGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTACGATAATTCTACCCTACAAGGGTATTTC
1 AGGGGTAAAACGGTAATTCTACCCTACAGGGGTATTACGATAATTCTACCCAACAAGGGTATTTC
* **
37380996 GGTAATTCTACCCTAC
66 AGTAATTCTAAACTAC
*** * * *
37381012 AGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCAACAAGGGTATTTT
1 AGGGGTAAAACGGTAATTCTACCCTACAGGGGTATTACGATAATTCTACCCAACAAGGGTATTTC
* *
37381077 AGTAATTTTTTAAATTA-
66 AGTAA--TTCTAAACTAC
37381094 A-GGGTAAAACGGTAATTCT
1 AGGGGTAAAACGGTAATTCT
37381113 GTAAATCAAG
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
80 23 0.15
81 124 0.81
82 1 0.01
83 6 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (81 bp):
AGGGGTAAAACGGTAATTCTACCCTACAGGGGTATTACGATAATTCTACCCAACAAGGGTATTTC
AGTAATTCTAAACTAC
Found at i:37381163 original size:27 final size:28
Alignment explanation
Indices: 37381132--37381355 Score: 140
Period size: 27 Copynumber: 8.3 Consensus size: 28
37381122 GGGTACTTTG
37381132 GTAATTTTACAAGTCGA-GGGTATTTCA
1 GTAATTTTACAAGTCGAGGGGTATTTCA
* * *
37381159 ATAATTTTATAGGTCGA-GGGTATTTCA
1 GTAATTTTACAAGTCGAGGGGTATTTCA
* * **
37381186 GTAATTTCACAAATC-AGGGGTATTTTG
1 GTAATTTTACAAGTCGAGGGGTATTTCA
* *
37381213 GTAATTTTACAA-ACCAGGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGGTATTTCA
* * * **
37381240 GTAATTTCACAAAT-TAGGGGTATTTTG
1 GTAATTTTACAAGTCGAGGGGTATTTCA
* * **
37381267 GTAATTTTACAA-ACCAGGGGTATTTTG
1 GTAATTTTACAAGTCGAGGGGTATTTCA
* * * * **
37381294 GTAATTTTATAA-ACAAAGGGTATTTTG
1 GTAATTTTACAAGTCGAGGGGTATTTCA
* * **
37381321 GTAATTTTACAA-ACTAGGGGTATTTTG
1 GTAATTTTACAAGTCGAGGGGTATTTCA
37381348 GTAATTTT
1 GTAATTTT
37381356 GTAAACCAAG
Statistics
Matches: 165, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 163 0.99
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (28 bp):
GTAATTTTACAAGTCGAGGGGTATTTCA
Found at i:37381631 original size:54 final size:54
Alignment explanation
Indices: 37381203--37381632 Score: 635
Period size: 54 Copynumber: 7.9 Consensus size: 54
37381193 CACAAATCAG
* ** *** ** *
37381203 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
* * *
37381257 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
37381311 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
** * *
37381365 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGGTTTTATAAAACAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
* *
37381419 GGGTATTATAGTAATTTTACAAACTAGGGGTATTTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTA-TTTTGGTAATTTTGTAAACCAA
* * *
37381474 GGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
* *
37381528 GGGTATTTTAGTAATTTTACAAACTGGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
*
37381582 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTGGTAAAC
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAAC
37381633 TAAAGTATTC
Statistics
Matches: 346, Mismatches: 29, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
54 299 0.86
55 47 0.14
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
Found at i:37381634 original size:27 final size:27
Alignment explanation
Indices: 37381176--37381625 Score: 531
Period size: 27 Copynumber: 16.6 Consensus size: 27
37381166 TATAGGTCGA
** * *
37381176 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
37381203 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * **
37381230 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
37381257 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
37381284 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
37381311 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
37381338 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
37381365 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * * *
37381392 GGGTATTTTGGTGGTTTTATAAAACAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
37381419 GGGTATTATAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
37381446 GGGTATTTTTGGTAATTTTGTAAACCAA
1 GGGTA-TTTTGGTAATTTTACAAACCAG
*
37381474 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
37381501 TGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* **
37381528 GGGTATTTTAGTAATTTTACAAACTGG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
37381555 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
37381582 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
37381609 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
37381626 GGTAAACTAA
Statistics
Matches: 348, Mismatches: 74, Indels: 2
0.82 0.17 0.00
Matches are distributed among these distances:
27 327 0.94
28 21 0.06
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:37383982 original size:11 final size:12
Alignment explanation
Indices: 37383953--37383981 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
37383943 AGCAAAATTG
37383953 GTTTTTAGCGGC
1 GTTTTTAGCGGC
37383965 GTTTTTAGCGGC
1 GTTTTTAGCGGC
37383977 GTTTT
1 GTTTT
37383982 AATTAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.14, G:0.31, T:0.48
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:37384414 original size:41 final size:40
Alignment explanation
Indices: 37384357--37384470 Score: 126
Period size: 40 Copynumber: 2.8 Consensus size: 40
37384347 ATTTTAGTGG
*
37384357 CTTTAGCGACGCTTTTTTAAGAAACGCCGCTATAAG-TAC-AC
1 CTTTAGCGGCGCTTTTTTAA-AAACGCCGCTA-AAGCT-CGAC
* * *
37384398 CTTTAGCGGCGCTTTTTGAAAAACGCCGCTAATGCTCGAT
1 CTTTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGCTCGAC
*
37384438 CTTTAGCGGCG-TTTTTTAAAAAACGCCACTAAA
1 CTTTAGCGGCGCTTTTTT-AAAAACGCCGCTAAA
37384471 AGATTAAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
39 8 0.13
40 37 0.59
41 18 0.29
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGCTCGAC
Found at i:37384520 original size:46 final size:46
Alignment explanation
Indices: 37384453--37384545 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
37384443 GCGGCGTTTT
37384453 TTAAAAAACGCCACTAAAAGATTAAATACACAATATGAATTAACTA
1 TTAAAAAACGCCACTAAAAGATTAAATACACAATATGAATTAACTA
*
37384499 TTAAAAAATGCCACTAAAAGATTAAATACACAATATGAATTAACTA
1 TTAAAAAACGCCACTAAAAGATTAAATACACAATATGAATTAACTA
37384545 T
1 T
37384546 GGGAAAGTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (46 bp):
TTAAAAAACGCCACTAAAAGATTAAATACACAATATGAATTAACTA
Found at i:37384912 original size:22 final size:21
Alignment explanation
Indices: 37384887--37384937 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
37384877 CCCTAAATTA
37384887 TAAAACTTAAAACTATAAACCC
1 TAAAAC-TAAAACTATAAACCC
* * *
37384909 TAAATCTAAAACCATAAAACC
1 TAAAACTAAAACTATAAACCC
*
37384930 TTAAACTA
1 TAAAACTA
37384938 TAGACAACAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAACTAAAACTATAAACCC
Found at i:37385307 original size:3 final size:3
Alignment explanation
Indices: 37385299--37385339 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
37385289 ATTAATAGGA
37385299 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
37385340 AAGAGAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37390005 original size:290 final size:274
Alignment explanation
Indices: 37388883--37390018 Score: 1812
Period size: 290 Copynumber: 4.0 Consensus size: 274
37388873 CTAACCTTAT
37388883 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
* *
37388948 ACAAGATATAATGGATCCTCCCTAGGTGTAACAACGTCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
37389013 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTAC-----------TAT-T---CTTAATTTATT
*
37389078 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTATATTATTATATTTAAATTACTATT
181 TCCAATTTACTTATAAAAATTAAACTACGATTC-TTTTTTATATTATTATATTCAAATTACTATT
37389143 TTTTTATATTAATAATGTTTGATTTTAATA
245 TTTTTATATTAATAATGTTTGATTTTAATA
* * *
37389173 TTTAAATAATTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAGTT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
37389238 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
*
37389303 AAAGACTTGAAAAAAGTTCTATTGAGCTCATTTACTATTCTTAATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTCTTAATTTATTTCCAATTTACTTATA
*
37389368 AAAATTAAACTACGATTCTTTTTTATATTATTAT-TTTAAATTACTA-TTTTTTATATTAATAAT
196 AAAATTAAACTACGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAAT
37389431 GTTTGATTTTAATA
261 GTTTGATTTTAATA
* * * *
37389445 TTTAAATAATTTAAAGATTCAAAGTATATAGGCTGGAATCCTGACGGGTTGCCTCATATCGAGTT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
37389510 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
37389575 AAAGACTTGAAAAAAGTTCTATCGAGCTCA-TTACTATTCTTAATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTCTTAATTTATTTCCAATTTACTTATA
37389639 AAAATTAAACTACGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAAT
196 AAAATTAAACTACGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAAT
37389704 GTTTGATTTTAATA
261 GTTTGATTTTAATA
37389718 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
37389783 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
*
37389848 AAAGACTTGAAAAAAATTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTAC-----------TAT-T---CTTAATTTATT
*
37389913 TCCAATTTACTTATAAAAATTAAACTACGATTCATTTTTGATATTATTATATTCAAATTACTATT
181 TCCAATTTACTTATAAAAATTAAACTACGATTC-TTTTTTATATTATTATATTCAAATTACTATT
* *
37389978 TTTTTATATTAATAATGTTTTATTTTAATG
245 TTTTTATATTAATAATGTTTGATTTTAATA
37390008 TTT-AATATTTT
1 TTTAAATATTTT
37390019 TAAATTTCTT
Statistics
Matches: 808, Mismatches: 19, Indels: 39
0.93 0.02 0.05
Matches are distributed among these distances:
271 68 0.08
272 198 0.25
273 198 0.25
274 20 0.02
275 44 0.05
278 1 0.00
279 3 0.00
285 3 0.00
286 1 0.00
289 52 0.06
290 220 0.27
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (274 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTCTTAATTTATTTCCAATTTACTTATA
AAAATTAAACTACGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAAT
GTTTGATTTTAATA
Found at i:37390337 original size:24 final size:24
Alignment explanation
Indices: 37390310--37390377 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
37390300 ATTATTATTG
*
37390310 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
37390334 AAATATTATTC-TCCGTTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
37390358 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
37390378 CCGTTTAAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 2 0.05
24 37 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:37390711 original size:9 final size:9
Alignment explanation
Indices: 37390699--37390933 Score: 152
Period size: 9 Copynumber: 25.6 Consensus size: 9
37390689 TATTTGATAT
*
37390699 CATAATTTA
1 CATAACTTA
37390708 CATAACTTA
1 CATAACTTA
* *
37390717 TATAACATA
1 CATAACTTA
*
37390726 TATAACTTA
1 CATAACTTA
37390735 CATAACTTA
1 CATAACTTA
* *
37390744 TATAACATA
1 CATAACTTA
37390753 CATAACTTA
1 CATAACTTA
* *
37390762 TATAACATA
1 CATAACTTA
37390771 CATAACTTA
1 CATAACTTA
*
37390780 TATAACTTA
1 CATAACTTA
*
37390789 TATAACTTA
1 CATAACTTA
* *
37390798 GATAA-ATA
1 CATAACTTA
*
37390806 TATAACTTA
1 CATAACTTA
37390815 CATAACTTA
1 CATAACTTA
37390824 CATAATACTTA
1 CAT-A-ACTTA
* *
37390835 AATATATTTTATA
1 CATA-A--CT-TA
*
37390848 TCATAATTTA
1 -CATAACTTA
37390858 CATAACTTA
1 CATAACTTA
37390867 CATAACTTA
1 CATAACTTA
* *
37390876 GATAA-ATA
1 CATAACTTA
* *
37390884 TATAATTTA
1 CATAACTTA
*
37390893 CATAA-ATA
1 CATAACTTA
* * *
37390901 TATATCATA
1 CATAACTTA
*
37390910 TCATAAATTA
1 -CATAACTTA
37390920 CATAACTTA
1 CATAACTTA
37390929 CATAA
1 CATAA
37390934 TACTTAAATA
Statistics
Matches: 180, Mismatches: 36, Indels: 20
0.76 0.15 0.08
Matches are distributed among these distances:
8 17 0.09
9 136 0.76
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:37390730 original size:27 final size:27
Alignment explanation
Indices: 37390695--37390828 Score: 171
Period size: 27 Copynumber: 5.0 Consensus size: 27
37390685 AATATATTTG
* *
37390695 ATATCATAATTTACATAACTTATATAAC
1 ATAT-ATAACTTACATAACTTACATAAC
*
37390723 ATATATAACTTACATAACTTATATAAC
1 ATATATAACTTACATAACTTACATAAC
* * *
37390750 ATACATAACTTATATAACATACATAAC
1 ATATATAACTTACATAACTTACATAAC
* * *
37390777 TTATATAACTTATATAACTTAGATAA-
1 ATATATAACTTACATAACTTACATAAC
37390803 ATATATAACTTACATAACTTACATAA
1 ATATATAACTTACATAACTTACATAA
37390829 TACTTAAATA
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 23 0.24
27 67 0.71
28 4 0.04
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.37
Consensus pattern (27 bp):
ATATATAACTTACATAACTTACATAAC
Found at i:37390872 original size:105 final size:105
Alignment explanation
Indices: 37390751--37390957 Score: 274
Period size: 105 Copynumber: 2.0 Consensus size: 105
37390741 TTATATAACA
* * * * *
37390751 TACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATA-AATAT-ATAACTT
1 TACATAACTTACATAACATACATAA-ATATATAACTTACATAA-ATAGATATAATATCATAAATT
* *
37390814 ACATAACTTACATAATACTTAAATATATTTTATATCATAATT
64 ACATAACTTACATAATACTTAAATATATATCATATCATAATT
* * * * *
37390856 TACATAACTTACATAACTTAGATAAATATATAATTTACATAAATATATATCATATCATAAATTAC
1 TACATAACTTACATAACATACATAAATATATAACTTACATAAATAGATATAATATCATAAATTAC
37390921 ATAACTTACATAATACTTAAATATATATCATATCATA
66 ATAACTTACATAATACTTAAATATATATCATATCATA
37390958 CATAACTAGT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
103 5 0.06
104 18 0.20
105 65 0.74
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (105 bp):
TACATAACTTACATAACATACATAAATATATAACTTACATAAATAGATATAATATCATAAATTAC
ATAACTTACATAATACTTAAATATATATCATATCATAATT
Found at i:37390897 original size:17 final size:17
Alignment explanation
Indices: 37390845--37390904 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
37390835 AATATATTTT
37390845 ATATCATAATTTACATAA
1 ATAT-ATAATTTACATAA
* * * *
37390863 CTTACATAACTTAGATAA
1 -ATATATAATTTACATAA
37390881 ATATATAATTTACATAA
1 ATATATAATTTACATAA
37390898 ATATATA
1 ATATATA
37390905 TCATATCATA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
17 20 0.61
18 11 0.33
19 2 0.06
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (17 bp):
ATATATAATTTACATAA
Found at i:37390994 original size:105 final size:102
Alignment explanation
Indices: 37390803--37391007 Score: 234
Period size: 105 Copynumber: 2.0 Consensus size: 102
37390793 ACTTAGATAA
* * * *
37390803 ATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTACATAACTTAC
1 ATATATAAATTACATAACTTACATAATACTTAAATATATATCATATCATAATTAACATAACTTAC
* * *
37390868 ATAACTTAGATAAATATATAATTTACATAAATATATATC
66 AAAACTTACATAAATACATAA--TACATAAATATATATC
**
37390907 ATATCATAAATTACATAACTTACATAATACTTAAATATATATCATATCATACA-TAAC-TAGTTT
1 ATAT-ATAAATTACATAACTTACATAATACTTAAATATATATCATATCATA-ATTAACATAACTT
* * * *
37390970 ACAAAATTTACTTAACTTACATAATACATAAATCTATA
64 ACAAAACTTACATAA-ATACATAATACATAAATATATA
37391008 GTCGAAAATC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
103 13 0.15
104 19 0.22
105 52 0.61
106 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (102 bp):
ATATATAAATTACATAACTTACATAATACTTAAATATATATCATATCATAATTAACATAACTTAC
AAAACTTACATAAATACATAATACATAAATATATATC
Found at i:37396614 original size:21 final size:21
Alignment explanation
Indices: 37396581--37396631 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
37396571 ACAACTTAGA
*
37396581 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
37396602 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
37396623 GCAGAGGCA
1 GCAGAGGCA
37396632 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:37397078 original size:42 final size:43
Alignment explanation
Indices: 37397027--37397332 Score: 517
Period size: 43 Copynumber: 7.1 Consensus size: 43
37397017 GTAAAAAAGC
*
37397027 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGC-TTTCACACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
37397069 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
37397111 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
37397154 CGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
37397198 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTGTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
37397241 CGCCGCTAAAAGGCTGGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
37397284 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCCAACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG--CTTTTCCCACAAA
37397329 CGCC
1 CGCC
37397333 ACAAATTTTT
Statistics
Matches: 250, Mismatches: 9, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
42 72 0.29
43 120 0.48
44 43 0.17
45 15 0.06
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:37397614 original size:125 final size:126
Alignment explanation
Indices: 37397447--37397677 Score: 401
Period size: 125 Copynumber: 1.8 Consensus size: 126
37397437 TCCTGTAGTT
* * *
37397447 ATCCTTCTTGAAGCGTTTTTGACATTATTTGTTCAGAAACATCTTCTCAAATTTATTTTATCAGA
1 ATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAAAAACATCTTCTCAAATTTATTTTATCAGA
37397512 TACTAC-GTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGACAGTGC
66 TACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGACAGTGC
* **
37397572 ATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAAAAACATCTTCTCAAATTTATTTTTTTTGA
1 ATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAAAAACATCTTCTCAAATTTATTTTATCAGA
37397637 TACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTC
66 TACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTC
37397678 ATAATTAATA
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
125 65 0.66
126 34 0.34
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (126 bp):
ATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAAAAACATCTTCTCAAATTTATTTTATCAGA
TACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGACAGTGC
Found at i:37397820 original size:8 final size:8
Alignment explanation
Indices: 37397807--37397840 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
37397797 TTTCCCTTAA
37397807 AAAACACT
1 AAAACACT
37397815 AAAACACT
1 AAAACACT
*
37397823 AAACCACT
1 AAAACACT
*
37397831 AAAACCCT
1 AAAACACT
37397839 AA
1 AA
37397841 TCTTAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.59, C:0.29, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAACACT
Found at i:37398144 original size:16 final size:16
Alignment explanation
Indices: 37398125--37398160 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
37398115 TGAAAAAATA
37398125 CTAAAACACTAAAACC
1 CTAAAACACTAAAACC
* *
37398141 CTAAACCACTGAAACC
1 CTAAAACACTAAAACC
37398157 CTAA
1 CTAA
37398161 TCTTAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.33, G:0.03, T:0.14
Consensus pattern (16 bp):
CTAAAACACTAAAACC
Found at i:37398194 original size:15 final size:15
Alignment explanation
Indices: 37398152--37398199 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
37398142 TAAACCACTG
37398152 AAACCCTAATCTT-A
1 AAACCCTAATCTTAA
37398166 AAA--C-AATC--AA
1 AAACCCTAATCTTAA
37398176 AAACCCTAATCTTAA
1 AAACCCTAATCTTAA
37398191 AAACCCTAA
1 AAACCCTAA
37398200 ACCCTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
10 4 0.14
11 4 0.14
12 2 0.07
13 4 0.14
14 3 0.11
15 11 0.39
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (15 bp):
AAACCCTAATCTTAA
Found at i:37398204 original size:22 final size:22
Alignment explanation
Indices: 37398143--37398211 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
37398133 CTAAAACCCT
37398143 AAACCACTGAAACCCTAATCTTAAA
1 AAACC-CT-AAACCCTAATCTT-AA
* **
37398168 ACAATCAAAAACCCTAATCTTAA
1 A-AACCCTAAACCCTAATCTTAA
37398191 AAACCCTAAACCCTAAT-TTAA
1 AAACCCTAAACCCTAATCTTAA
37398212 TTGATTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.11
22 13 0.35
23 3 0.08
24 13 0.35
25 1 0.03
26 3 0.08
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (22 bp):
AAACCCTAAACCCTAATCTTAA
Found at i:37398651 original size:157 final size:155
Alignment explanation
Indices: 37397709--37398772 Score: 1355
Period size: 157 Copynumber: 6.8 Consensus size: 155
37397699 TAATAAATCC
* *
37397709 TAAAAAATCCTAAACCCTAATTTAATTAATTTTTTTTAATTTCATAGTTAATTTAATTAATTAAC
1 TAAAAAATCCTAAACCCTAATTTAATTGA-TTTTTTTATTTTCATAGTTAATTTAATTAATTAAC
* *
37397774 CCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACACTAAACCACTAAAACCCT
65 CCTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAATACTAAAACCCTAAACCACTAAAA-CCT
* *
37397839 AATCTTAAAACAATCAAAAACCTTAACCT
128 AATC-TAAAACAATAAAAAACCCTAACCT
* **
37397868 TAAAAAACCCTAAACTTTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACC
1 TAAAAAATCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACC
* *
37397933 CTCAACTCTAATTAAATTAA-TTTT-CCTTAAAAAACACTAAAGCCCTAAACCACTAAAACTCTA
66 CTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAATACTAAAACCCTAAACCACTAAAAC-CTA
*
37397996 ATCCTAAAACAATAAAAAATCCTAA-CT
129 AT-CTAAAACAATAAAAAACCCTAACCT
* *
37398023 TAAAAAACCCTAAACCCTAATTTAATTGA-TTTTTTATTTTCATAGTTAATTTAATTTATTAACC
1 TAAAAAATCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACC
*
37398087 CTCAACTCTAATTAAATTAATTTTTCCCTGAAAAAATACTAAAACACTAAAACCCTAAACCACTG
66 CTCAACTCTAATTAAATTAATTTTTCCCT-------TA--AAAATACTAAAACCCTAAACCACT-
* * *
37398152 AAACCCTAATCTTAAAACAATCAAAAACCCTAATCT
121 AAAACCTAATC-TAAAACAATAAAAAACCCTAACCT
* * *
37398188 T-AAAAACCCTAAACCCTAATTTAATTGATTTTTTTAGTTTCATAGTTAATTTAATTAATTAATC
1 TAAAAAATCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACC
* * * *
37398252 ATCAACTCTAATTAAATTAATTTTTCCCTTAACAAACACTAAAACCCTAAACTATTAAAACCCTA
66 CTCAACTCTAATTAAATTAATTTTTCCCTTAA-AAATACTAAAACCCTAAACCACTAAAA-CCTA
37398317 ATCCTAAAACAAT-AAAAACCCTAACCT
129 AT-CTAAAACAATAAAAAACCCTAACCT
37398344 TAAAAAATCCTAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAAAAATT
1 TAAAAAATCCTAAACCCTAATTTAATTGA-TTTTTTTATTTTCATAGTTAATTTAATT---AATT
* * *
37398409 AACCCTTAACTCTAATTAAATTAA-TTTTCCCTTAAAAAATACTAGAACCCTAAACCATTAAAAC
62 AACCCTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAATACTAAAACCCTAAACCACTAAAA-
*
37398473 CCTAATCTTAAAATAATAAAAAACCCTAACCT
125 CCTAATC-TAAAACAATAAAAAACCCTAACCT
*
37398505 TAAAAAATCCTAAACCCTAATTTAATTGATTTTTTTAGTTTCATAGTTAATTTAATTAATTAACC
1 TAAAAAATCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACC
*
37398570 CTCAACTCTAATTAAATTAATTTTTCCCTTAAAAATAC---AA----AAACC-CT--AA--T-CT
66 CTCAACTCTAATTAAATTAATTTTTCCCTTAAAAATACTAAAACCCTAAACCACTAAAACCTAAT
*
37398622 -TAAAACAATCAAAAACCCTAA-CT
131 CTAAAACAATAAAAAACCCTAACCT
* *
37398645 TGAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAATTAA
1 T-AAAAAATCCTAAACCCTAATTTAATTGA-TTTTTTTATTTTCATAGTTAATTTAATTAATTAA
* **
37398710 CCCTCAACTCTAATTAAATTAATTTTTTCCTTAATAACCACTAAAACCCTAAACC-CTAAAACC
64 CCCTCAACTCTAATTAAATTAATTTTTCCCTTAA-AAATACTAAAACCCTAAACCACTAAAACC
37398773 ATAACACTAA
Statistics
Matches: 817, Mismatches: 45, Indels: 91
0.86 0.05 0.10
Matches are distributed among these distances:
140 3 0.00
141 46 0.06
142 66 0.08
143 5 0.01
144 1 0.00
146 2 0.00
147 2 0.00
149 1 0.00
150 12 0.01
152 2 0.00
154 56 0.07
155 34 0.04
156 76 0.09
157 102 0.12
158 94 0.12
159 26 0.03
160 75 0.09
161 70 0.09
162 1 0.00
163 2 0.00
164 74 0.09
165 67 0.08
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (155 bp):
TAAAAAATCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACC
CTCAACTCTAATTAAATTAATTTTTCCCTTAAAAATACTAAAACCCTAAACCACTAAAACCTAAT
CTAAAACAATAAAAAACCCTAACCT
Found at i:37398690 original size:142 final size:142
Alignment explanation
Indices: 37398468--37398761 Score: 484
Period size: 142 Copynumber: 2.1 Consensus size: 142
37398458 CTAAACCATT
* *
37398468 AAAACCCTAATCTTAAAATAATAAAAAACCCTAACCTTAAAAAATCCTAAACCCTAATTTAATTG
1 AAAACCCTAATCTTAAAACAATAAAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATTG
*
37398533 ATTTTTTTAGTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCC
66 ATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCC
*
37398598 TTAA-AAATACA
131 TTAATAAACACA
*
37398609 AAAACCCTAATCTTAAAACAATCAAAAACCCTAA-CTTGAAAAAACCCTAAACCCTAATTTAATT
1 AAAACCCTAATCTTAAAACAATAAAAAACCCTAACCTT-AAAAAACCCTAAACCCTAATTTAATT
*
37398673 GATTTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTT
65 GA-TTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTC
* *
37398738 CCTTAATAACCACT
129 CCTTAATAAACACA
37398752 AAAACCCTAA
1 AAAACCCTAA
37398762 ACCCTAAAAC
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
140 3 0.02
141 59 0.42
142 66 0.46
143 14 0.10
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (142 bp):
AAAACCCTAATCTTAAAACAATAAAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATTG
ATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCC
TTAATAAACACA
Found at i:37398794 original size:142 final size:139
Alignment explanation
Indices: 37398506--37398806 Score: 392
Period size: 142 Copynumber: 2.1 Consensus size: 139
37398496 CCCTAACCTT
* *
37398506 AAAAAATCCTAAACCCTAATTTAATTGATTTTTTTAGTTTCATAGTTAATTTAATTAATTAACCC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
* * *
37398571 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAATACAAAAACCCTAATCTTAAAACAATCAAAA
66 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACAAAAACCCTAACCCTAAAAC-A-CAAAA
* ** *
37398636 ACCCTAACTTG
129 ACACTAAAGTA
37398647 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAATTAACC
1 AAAAAACCCTAAACCCTAATTTAATTGA-TTTTTTTAATTTCATAGTTAATTTAATTAATTAACC
* * * *
37398712 CTCAACTCTAATTAAATTAATTTTTTCCTTAATAACCACTAAAACCCTAAACCCTAAAAC-C-AT
65 CTCAACTCTAATTAAATTAATTTTTCCCTTAA-AAACACAAAAACCCT-AACCCTAAAACACAAA
37398775 AACACTAAAGTA
128 AACACTAAAGTA
*
37398787 ATCAAAAACTCT-AACCCTAA
1 A--AAAAACCCTAAACCCTAA
37398807 CAAAACTGGG
Statistics
Matches: 141, Mismatches: 14, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
140 10 0.07
141 36 0.26
142 74 0.52
143 12 0.09
144 9 0.06
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (139 bp):
AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
TCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACAAAAACCCTAACCCTAAAACACAAAAAC
ACTAAAGTA
Found at i:37401002 original size:64 final size:64
Alignment explanation
Indices: 37400933--37401054 Score: 235
Period size: 64 Copynumber: 1.9 Consensus size: 64
37400923 CTAACTTCAA
37400933 CAACACTATTGTTTTCAGCTAATCCATTTTGCAGGATGTCAACTAAAAGAGCATTATACTTTAG
1 CAACACTATTGTTTTCAGCTAATCCATTTTGCAGGATGTCAACTAAAAGAGCATTATACTTTAG
*
37400997 CAACACTATTGTTTTCAGCTAATCCATTTTGTAGGATGTCAACTAAAAGAGCATTATA
1 CAACACTATTGTTTTCAGCTAATCCATTTTGCAGGATGTCAACTAAAAGAGCATTATA
37401055 ACTCTCCAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (64 bp):
CAACACTATTGTTTTCAGCTAATCCATTTTGCAGGATGTCAACTAAAAGAGCATTATACTTTAG
Found at i:37402492 original size:46 final size:46
Alignment explanation
Indices: 37402439--37402614 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
37402429 TACATGGGCA
*
37402439 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAGGCG
* *** * * *
37402485 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AGGCG
* * *
37402532 TCCGAGCTCGCTGAGTTGATTCCGAGTTCACTTATGGATGC-GGACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAGG-CG
*
37402578 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37402615 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
45 2 0.02
46 70 0.66
47 34 0.32
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAGGCG
Found at i:37402594 original size:93 final size:93
Alignment explanation
Indices: 37402435--37402606 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
37402425 GGGATACATG
*
37402435 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCGTCCGAACTCGTTGAG
*
37402500 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
37402528 GGCATCCGAGCTCGCTGAGTTGATTCCGAGTTCACTTATGGATGC-GGACGTCCGAGCTCGTTGA
1 GGCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCAAG-CGTCCGAACTCGTTGA
37402592 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
37402607 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:37405831 original size:16 final size:17
Alignment explanation
Indices: 37405810--37405841 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37405800 TCTTCCCCTT
37405810 TCTTTTCTTT-TTTTTC
1 TCTTTTCTTTATTTTTC
37405826 TCTTTTCTTTATTTTT
1 TCTTTTCTTTATTTTT
37405842 TTTTTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TCTTTTCTTTATTTTTC
Found at i:37410090 original size:9 final size:9
Alignment explanation
Indices: 37410076--37410134 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
37410066 ATAAGTATAA
*
37410076 AATTAATCG
1 AATTAACCG
*
37410085 AATTAATCG
1 AATTAACCG
*
37410094 AATTACCCG
1 AATTAACCG
37410103 AATT-ACCG
1 AATTAACCG
37410111 AAATTAACCG
1 -AATTAACCG
37410121 AATTAACCG
1 AATTAACCG
37410130 AATTA
1 AATTA
37410135 TCCAAATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
8 3 0.07
9 38 0.84
10 4 0.09
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:37410107 original size:27 final size:28
Alignment explanation
Indices: 37410077--37410143 Score: 59
Period size: 27 Copynumber: 2.5 Consensus size: 28
37410067 TAAGTATAAA
* * *
37410077 ATTAATCGAATTAATCG-AATTACCCGA
1 ATTAACCGAATTAACCGAAATTAACCGA
37410104 ATT-ACCGAAATTAACCG-AATTAACCGA
1 ATTAACCG-AATTAACCGAAATTAACCGA
* *
37410131 ATTATCCAAATTA
1 ATTAACCGAATTA
37410144 TTTGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 3 0.09
27 28 0.85
28 2 0.06
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.28
Consensus pattern (28 bp):
ATTAACCGAATTAACCGAAATTAACCGA
Found at i:37410174 original size:6 final size:6
Alignment explanation
Indices: 37410163--37410203 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
37410153 AATAATATGT
37410163 TTTTTA TTTTTA TTTTTA GTTTTTGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTTT-A TTTTTA TTTTTA TTT
37410204 ATTAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 22 0.67
7 10 0.30
8 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:37410186 original size:20 final size:20
Alignment explanation
Indices: 37410161--37410200 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
37410151 AAAATAATAT
*
37410161 GTTTTTTATTTTTATTTTTA
1 GTTTTTGATTTTTATTTTTA
37410181 GTTTTTGATTTTTATTTTTA
1 GTTTTTGATTTTTATTTTTA
37410201 TTTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (20 bp):
GTTTTTGATTTTTATTTTTA
Found at i:37410244 original size:13 final size:13
Alignment explanation
Indices: 37410228--37410252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37410218 AATTTTTATG
37410228 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
37410241 ATTGGGTTGGGT
1 ATTGGGTTGGGT
37410253 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:37410252 original size:18 final size:18
Alignment explanation
Indices: 37410229--37410266 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
37410219 ATTTTTATGA
37410229 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
37410247 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
37410265 TT
1 TT
37410267 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:37414593 original size:15 final size:17
Alignment explanation
Indices: 37414563--37414594 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
37414553 AGTTCTTAAT
37414563 ATTTATATCTTTTATTA
1 ATTTATATCTTTTATTA
37414580 ATTTA-ATC-TTTATTA
1 ATTTATATCTTTTATTA
37414595 TTTTTTGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTATATCTTTTATTA
Found at i:37417829 original size:32 final size:32
Alignment explanation
Indices: 37417793--37417860 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
37417783 ATTCCCAATT
*
37417793 TTTTTCAAAAGTTAACCTAAATTTACCCTTGG
1 TTTTTCAAAAGTTAACCAAAATTTACCCTTGG
*
37417825 TTTTTCAAAAGTTAACCAAAATTTAGCCTTGG
1 TTTTTCAAAAGTTAACCAAAATTTACCCTTGG
37417857 TTTT
1 TTTT
37417861 ATTTTTTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (32 bp):
TTTTTCAAAAGTTAACCAAAATTTACCCTTGG
Found at i:37420296 original size:16 final size:16
Alignment explanation
Indices: 37420275--37420314 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
37420265 GTTTTGGGTT
37420275 TTCTTTATGTTTTTTA
1 TTCTTTATGTTTTTTA
37420291 TTCTTTATGTTTTTTA
1 TTCTTTATGTTTTTTA
37420307 TTCTTTAT
1 TTCTTTAT
37420315 TATTCTGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (16 bp):
TTCTTTATGTTTTTTA
Found at i:37427119 original size:15 final size:16
Alignment explanation
Indices: 37427101--37427140 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
37427091 TTAAACTCGT
*
37427101 TTTATTTTTATTT-TC
1 TTTATTTTTATTTCTA
*
37427116 TTTACTTTTATTTCTA
1 TTTATTTTTATTTCTA
37427132 TTTATTTTT
1 TTTATTTTT
37427141 GAAGACTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTTTATTTCTA
Found at i:37428096 original size:2 final size:2
Alignment explanation
Indices: 37428089--37428133 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
37428079 TTGTTCTAAA
*
37428089 AC AC AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
37428131 AC A
1 AC A
37428134 TACATACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:37428138 original size:4 final size:4
Alignment explanation
Indices: 37428131--37428203 Score: 146
Period size: 4 Copynumber: 18.2 Consensus size: 4
37428121 ACACACACAC
37428131 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
37428179 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
37428204 TTAGTAGTAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 69 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:37435138 original size:52 final size:52
Alignment explanation
Indices: 37435060--37435163 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
37435050 TCCAATTACA
37435060 TAGGTACCTAAACCAATTCATAACACATGATCACAAGACTATAACCACACCT
1 TAGGTACCTAAACCAATTCATAACACATGATCACAAGACTATAACCACACCT
37435112 TAGGTACCTAAACCAATTCATAACACATGATCACAAGACTATAACCACACCT
1 TAGGTACCTAAACCAATTCATAACACATGATCACAAGACTATAACCACACCT
37435164 AAAAGCAACC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.21
Consensus pattern (52 bp):
TAGGTACCTAAACCAATTCATAACACATGATCACAAGACTATAACCACACCT
Found at i:37435199 original size:34 final size:34
Alignment explanation
Indices: 37435159--37435244 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 34
37435149 ACTATAACCA
37435159 CACCTAAAAGCAACCAAAACATGCCAATTTGAAC
1 CACCTAAAAGCAACCAAAACATGCCAATTTGAAC
37435193 CACCTAAAAGCAACCAAAACATGCCAATTTGAAC
1 CACCTAAAAGCAACCAAAACATGCCAATTTGAAC
*
37435227 CACCTAAAACCAAACCAA
1 CACCTAAAAGC-AACCAA
37435245 GATGTCATAC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 44 0.88
35 6 0.12
ACGTcount: A:0.49, C:0.31, G:0.07, T:0.13
Consensus pattern (34 bp):
CACCTAAAAGCAACCAAAACATGCCAATTTGAAC
Found at i:37441793 original size:13 final size:13
Alignment explanation
Indices: 37441775--37441801 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37441765 AATTGAAGGT
37441775 TGTTATGAAATTA
1 TGTTATGAAATTA
37441788 TGTTATGAAATTA
1 TGTTATGAAATTA
37441801 T
1 T
37441802 AGGTATAAGG
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:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TGTTATGAAATTA
Found at i:37447514 original size:111 final size:111
Alignment explanation
Indices: 37447320--37447542 Score: 412
Period size: 111 Copynumber: 2.0 Consensus size: 111
37447310 TGGTTTAATG
*
37447320 GGTAAACTAATGATGTGGTTGGGAAAGAGGTTAGTACGAGGCGATACAGGTATGTACAGAACCTA
1 GGTAAACTAATGATGTGGTTGGGAAAGAGCTTAGTACGAGGCGATACAGGTATGTACAGAACCTA
37447385 TTTGAGTATTAAATAGAGAAAGTTCAATGAGATGGTAATTAATCAT
66 TTTGAGTATTAAATAGAGAAAGTTCAATGAGATGGTAATTAATCAT
37447431 GGTAAA-TGAATGATGTGGTTGGGAAAGAGCTTAGTACGAGGCGATACAGGTATGTACAGAACCT
1 GGTAAACT-AATGATGTGGTTGGGAAAGAGCTTAGTACGAGGCGATACAGGTATGTACAGAACCT
*
37447495 ATTTGAGTATTAAATAGAGAAATTTCAATGAGATGGTAATTAATCAT
65 ATTTGAGTATTAAATAGAGAAAGTTCAATGAGATGGTAATTAATCAT
37447542 G
1 G
37447543 TTTTAAAACA
Statistics
Matches: 109, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
110 1 0.01
111 108 0.99
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (111 bp):
GGTAAACTAATGATGTGGTTGGGAAAGAGCTTAGTACGAGGCGATACAGGTATGTACAGAACCTA
TTTGAGTATTAAATAGAGAAAGTTCAATGAGATGGTAATTAATCAT
Found at i:37450497 original size:92 final size:94
Alignment explanation
Indices: 37450318--37450535 Score: 271
Period size: 94 Copynumber: 2.3 Consensus size: 94
37450308 TCACTTGTGT
* * *
37450318 GAGCTAGTGTAAGACATATCTGGGACATGTATTGGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATGAT-AGAGCCAGTGTAAGACCATG
* *
37450383 TTTGGGACATGGCATCGGCATAG-AGACGA
65 TCTGGGACATGGCATCGACATAGAAGACGA
* * * *
37450412 GCGCTAGTGTAAGACATGTCTGGGACATGCATTGGCTACGA-GAT-GTGTCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCAC-ATGATAGAGCCAGTGTAAGACCATG
* *
37450475 TCTGGGACATGGCATCGACATAGATATACTA
65 TCTGGGACATGGCATCGACATAGA-AGACGA
*
37450506 GAGCTTGTGTAAGACCATGTCTGGGACATG
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG
37450536 ACATCAGCAT
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
92 38 0.36
94 53 0.50
95 16 0.15
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATGATAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGACATAGAAGACGA
Found at i:37450526 original size:50 final size:48
Alignment explanation
Indices: 37450369--37450545 Score: 170
Period size: 50 Copynumber: 3.7 Consensus size: 48
37450359 TATGAGAGCC
* * *
37450369 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATAG-AGACGAGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAATACTAG-GCT
* * *
37450417 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGC-TACGAGAT-GT-GTC-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATA-GA-ATACTAGGCT
*
37450461 AGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATACTAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGA-ATACTAG-GCT
* * *
37450511 TGTGTAAGACCATGTCTGGGACATGACATCAGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
37450546 CTGACCCCAT
Statistics
Matches: 104, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
44 9 0.09
45 17 0.16
46 19 0.18
47 16 0.15
48 11 0.11
49 1 0.01
50 31 0.30
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAATACTAGGCT
Found at i:37451670 original size:20 final size:21
Alignment explanation
Indices: 37451632--37451670 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37451622 TCTTAGTGAT
37451632 CACACGGGCATGTTGCCATTC
1 CACACGGGCATGTTGCCATTC
*
37451653 CACACGGGCGTG-TGCCAT
1 CACACGGGCATGTTGCCAT
37451671 GTTTCAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACGGGCATGTTGCCATTC
Found at i:37455566 original size:43 final size:43
Alignment explanation
Indices: 37455500--37455585 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
37455490 ATCACATGTA
**
37455500 TCGCATCCACTATGAACTTGGACCACTCAACGAGCTCGGATGC
1 TCGCATCCACTATGAACCCGGACCACTCAACGAGCTCGGATGC
37455543 TCGCATCCA-TAATGAACCCGGACCACTCAACGAGCTCGGATGC
1 TCGCATCCACT-ATGAACCCGGACCACTCAACGAGCTCGGATGC
37455586 CACAAATATC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 1 0.03
43 39 0.98
ACGTcount: A:0.27, C:0.34, G:0.21, T:0.19
Consensus pattern (43 bp):
TCGCATCCACTATGAACCCGGACCACTCAACGAGCTCGGATGC
Found at i:37455613 original size:42 final size:43
Alignment explanation
Indices: 37455519--37455614 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
37455509 CTATGAACTT
* **
37455519 GGACCACTCAACGAGCTCGGATGCTCGCATCCATAATGAACCC
1 GGACCACTCAACGAGCTCGGATGCTCACAAACATAATGAACCC
* * *
37455562 GGACCACTCAACGAGCTCGGATGC-CACAAATATCATGAACCG
1 GGACCACTCAACGAGCTCGGATGCTCACAAACATAATGAACCC
37455604 GGACCACTCAA
1 GGACCACTCAA
37455615 GGAGTTTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 23 0.49
43 24 0.51
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.15
Consensus pattern (43 bp):
GGACCACTCAACGAGCTCGGATGCTCACAAACATAATGAACCC
Found at i:37457623 original size:24 final size:24
Alignment explanation
Indices: 37457562--37457624 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
37457552 AATCTCAAAT
*
37457562 GCACTATGTGTGCAATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
37457586 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
37457610 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
37457625 ACATAATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:37460514 original size:40 final size:39
Alignment explanation
Indices: 37460469--37460676 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
37460459 CGGAATACAA
*
37460469 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
37460509 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
37460549 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
37460589 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
37460629 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
37460669 CCGGATAT
1 CCGGATAT
37460677 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:37460609 original size:80 final size:81
Alignment explanation
Indices: 37460469--37460674 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
37460459 CGGAATACAA
* * *
37460469 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
37460533 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
37460549 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
37460612 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
37460629 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
37460675 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:37468669 original size:40 final size:39
Alignment explanation
Indices: 37468624--37468828 Score: 191
Period size: 40 Copynumber: 5.2 Consensus size: 39
37468614 CGGAATACAA
*
37468624 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
37468664 CCGGATAGAACGACTTGC-CAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
37468703 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
37468743 CCGGATGTAGTCACTAGC-CAATTGCCTTC-GGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
37468781 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
37468821 CCGGATAT
1 CCGGATAT
37468829 CATTTCAATT
Statistics
Matches: 136, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
38 23 0.17
39 52 0.38
40 61 0.45
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:37468688 original size:39 final size:40
Alignment explanation
Indices: 37468640--37468827 Score: 170
Period size: 39 Copynumber: 4.8 Consensus size: 40
37468630 ATAACCACAT
* *
37468640 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTA
* ** * *
37468680 GC-CAAATGCCTTCGGGTATTAGCCCGGATTTAACAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTA
* *
37468719 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTA
* * * **
37468759 GC-CAATTGCCTTC-GGTCTTAACCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTA
* * *
37468797 GCATAAATGTCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
37468828 TCATTTCAAT
Statistics
Matches: 119, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
38 20 0.17
39 53 0.45
40 46 0.39
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTA
Found at i:37468763 original size:79 final size:79
Alignment explanation
Indices: 37468624--37468826 Score: 232
Period size: 79 Copynumber: 2.6 Consensus size: 79
37468614 CGGAATACAA
* * *
37468624 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCCAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCCAAATG
*
37468688 CCTTCGGGTATTAGC
66 CCTTC-GGTATTAAC
* * *
37468703 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCCAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCCAAAT
*
37468766 GCCTTCGGTCTTAAC
65 GCCTTCGGTATTAAC
** * ** * *
37468781 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
37468827 ATCATTTCAA
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
78 45 0.42
79 57 0.54
80 1 0.01
81 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCCAAATG
CCTTCGGTATTAAC
Found at i:37475597 original size:40 final size:39
Alignment explanation
Indices: 37475552--37475759 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
37475542 CGGAATACAA
*
37475552 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
37475592 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
37475632 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
37475672 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
37475712 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
37475752 CCGGATAT
1 CCGGATAT
37475760 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:37475692 original size:80 final size:81
Alignment explanation
Indices: 37475552--37475757 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
37475542 CGGAATACAA
* * *
37475552 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
37475616 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
37475632 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
37475695 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
37475712 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
37475758 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:37484724 original size:40 final size:40
Alignment explanation
Indices: 37484639--37484765 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
37484629 CTGGAAATTA
* * *
37484639 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-CG-GC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCGTTC
37484677 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
* * * *
37484719 TATCCGGGCTAAGACCTGAAGGCATTCGTGCACGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
37484759 TATCCGG
1 TATCCGG
37484766 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 69 0.90
41 2 0.03
42 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
Found at i:37494537 original size:26 final size:25
Alignment explanation
Indices: 37494507--37494615 Score: 119
Period size: 27 Copynumber: 4.1 Consensus size: 25
37494497 CATGGCTGCT
*
37494507 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAG-CACC
*
37494533 AGAACAGATAATTGTGGTAGAGCAACC
1 AGAACAGATAA-TGTGGCAGAGC-ACC
37494560 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAG-CACC
* *
37494587 AGATCAGATAAATGTGGCATAGCCACC
1 AGAACAGAT-AATGTGGCAGAG-CACC
37494614 AG
1 AG
37494616 GATGCTTCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 12 0.16
27 58 0.79
28 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (25 bp):
AGAACAGATAATGTGGCAGAGCACC
Found at i:37494615 original size:54 final size:53
Alignment explanation
Indices: 37494507--37494615 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 53
37494497 CATGGCTGCT
* * *
37494507 AGAACAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGTAGAGCAACC
1 AGAACAGATAATGTGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCAACC
* * * *
37494560 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAATGTGGCATAGCCACC
1 AGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCAACC
37494614 AG
1 AG
37494616 GATGCTTCCT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 10 0.21
54 38 0.79
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (53 bp):
AGAACAGATAATGTGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCAACC
Found at i:37498963 original size:21 final size:21
Alignment explanation
Indices: 37498929--37498968 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37498919 AATGGTCATT
*
37498929 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
**
37498950 GATGATTTGCGAGTCACTT
1 GATGATTTAAGAGTCACTT
37498969 GTGTTTAGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:37499539 original size:28 final size:28
Alignment explanation
Indices: 37499474--37499569 Score: 122
Period size: 28 Copynumber: 3.5 Consensus size: 28
37499464 ATTGCATGAC
* * * *
37499474 TATGAGTGTGATTGGACCTGACGGG-CA
1 TATGAATGTGATTGGGCTTGATGGGCCA
*
37499501 TATGAAAGTGATTGGGCTTGATGGGCCA
1 TATGAATGTGATTGGGCTTGATGGGCCA
*
37499529 TATGAATGTGATTGGGCTCGATGGGCCA
1 TATGAATGTGATTGGGCTTGATGGGCCA
*
37499557 TATGAATGAGATT
1 TATGAATGTGATT
37499570 TGGTCTAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 20 0.33
28 40 0.67
ACGTcount: A:0.25, C:0.11, G:0.34, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCTTGATGGGCCA
Found at i:37499584 original size:29 final size:28
Alignment explanation
Indices: 37499499--37499591 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 28
37499489 ACCTGACGGG
* * ** *
37499499 CATATGAAAGTGATTGGGCTTGATGGGC
1 CATATGAATGAGATTGGGCTAAAGGGGC
* ** *
37499527 CATATGAATGTGATTGGGCTCGATGGGC
1 CATATGAATGAGATTGGGCTAAAGGGGC
*
37499555 CATATGAATGAGATTTGGTCTAAAGGGGC
1 CATATGAATGAGA-TTGGGCTAAAGGGGC
*
37499584 CAAATGAA
1 CATATGAA
37499592 CAAGTATGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 38 0.68
29 18 0.32
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.27
Consensus pattern (28 bp):
CATATGAATGAGATTGGGCTAAAGGGGC
Found at i:37502429 original size:22 final size:21
Alignment explanation
Indices: 37502391--37502433 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
37502381 TGGTTTATCT
37502391 ATCGAATTTCTCTTCTTATTCA
1 ATCGAATTTCTCTTCTT-TTCA
*
37502413 ATCGAGATTTTTC-TCTTTTCA
1 ATCGA-ATTTCTCTTCTTTTCA
37502434 TCAAGTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.51
Consensus pattern (21 bp):
ATCGAATTTCTCTTCTTTTCA
Found at i:37505193 original size:15 final size:15
Alignment explanation
Indices: 37505152--37505214 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
37505142 GAAAACCAGA
*
37505152 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
* * *
37505167 ACAGAGGAATCCAAG
1 ATAAAGAAATCCAAG
*
37505182 ATAAAGATATCCAAG
1 ATAAAGAAATCCAAG
* *
37505197 GTACAGAAATCCAAG
1 ATAAAGAAATCCAAG
37505212 ATA
1 ATA
37505215 CCATATCATA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.17, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37507367 original size:37 final size:38
Alignment explanation
Indices: 37507303--37507382 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 38
37507293 TTACAAGCCA
37507303 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC-
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAACG
*
37507340 AAATCATTATAAGCCA-ATACGT-TTGGCTAATCACAACG
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAACG
37507378 AAATC
1 AAATC
37507383 GATCATAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
36 4 0.11
37 28 0.74
38 6 0.16
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (38 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAACG
Found at i:37509331 original size:27 final size:27
Alignment explanation
Indices: 37508749--37509330 Score: 733
Period size: 27 Copynumber: 21.6 Consensus size: 27
37508739 AAAGTACTCC
37508749 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
37508776 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
37508803 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
37508830 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
37508857 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
37508884 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
37508911 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
37508938 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
37508965 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
37508992 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
37509019 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
37509046 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
37509073 CGATTTACAGAATTACCGTTTTTCCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
37509100 CAATTTACATAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
37509127 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
37509153 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
37509180 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
37509207 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
37509234 CGATTTACAGTATTTCCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
37509261 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
37509288 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
37509315 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
37509331 TAAAATACCC
Statistics
Matches: 483, Mismatches: 64, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
26 26 0.05
27 454 0.94
28 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:37511540 original size:46 final size:46
Alignment explanation
Indices: 37511490--37511665 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
37511480 TGGTTGAGCA
37511490 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37511536 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37511581 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
37511629 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37511666 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37511646 original size:93 final size:93
Alignment explanation
Indices: 37511487--37511657 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
37511477 GGATGGTTGA
* *
37511487 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37511552 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37511580 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37511645 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
37511658 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37514658 original size:15 final size:15
Alignment explanation
Indices: 37514619--37514698 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
37514609 GTATCTTGGG
*
37514619 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
37514634 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
37514649 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
37514664 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
37514679 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
37514693 TTTCTT
1 TTTCTT
37514699 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:37514688 original size:30 final size:30
Alignment explanation
Indices: 37514610--37514697 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
37514600 CATAGTATCG
* * *
37514610 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
37514640 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
37514670 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
37514698 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:37516661 original size:46 final size:46
Alignment explanation
Indices: 37516611--37516786 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
37516601 TGGTTGAGCA
37516611 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37516657 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37516702 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
37516750 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37516787 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37516767 original size:93 final size:93
Alignment explanation
Indices: 37516608--37516778 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
37516598 GGATGGTTGA
* *
37516608 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37516673 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37516701 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37516766 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
37516779 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37518146 original size:20 final size:20
Alignment explanation
Indices: 37518086--37518138 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
37518076 GGGTGTTACA
37518086 TATGATATGCACATGACATG
1 TATGATATGCACATGACATG
*
37518106 TATGATATGCACATGATATG
1 TATGATATGCACATGACATG
37518126 TATGATATGCACA
1 TATGATATGCACA
37518139 CGAGATGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGACATG
Found at i:37518247 original size:24 final size:23
Alignment explanation
Indices: 37518191--37518357 Score: 228
Period size: 24 Copynumber: 7.0 Consensus size: 23
37518181 GAGGAAGTGA
37518191 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
37518214 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
37518237 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
37518261 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
37518285 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
37518308 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
37518333 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
37518357 A
1 A
37518358 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.33
24 76 0.58
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:37518260 original size:47 final size:47
Alignment explanation
Indices: 37518191--37518357 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
37518181 GAGGAAGTGA
*
37518191 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
37518237 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
37518285 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
37518333 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
37518358 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 65 0.60
48 31 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:37518307 original size:71 final size:71
Alignment explanation
Indices: 37518191--37518356 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
37518181 GAGGAAGTGA
* *
37518191 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
37518256 GTTATC
66 GTTATC
*
37518262 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
37518327 GTTATT
66 GTTATC
*
37518333 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
37518357 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:37528549 original size:21 final size:21
Alignment explanation
Indices: 37528523--37528562 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37528513 AATGGTCATG
*
37528523 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
*
37528544 GATGATTTACGAGTCACTT
1 GATGATTTAAGAGTCACTT
37528563 GTGTTTAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:37529107 original size:28 final size:28
Alignment explanation
Indices: 37529075--37529167 Score: 87
Period size: 28 Copynumber: 3.3 Consensus size: 28
37529065 ACTATGAGTA
*
37529075 TGATTAGGCTTGACGAGCCATATGAAAG
1 TGATTGGGCTTGACGAGCCATATGAAAG
* * * *
37529103 TGATTGGGCCTGATGGGCCATATGAATG
1 TGATTGGGCTTGACGAGCCATATGAAAG
* * * * *
37529131 TGATTGGGCTCGATGGGTCATATGAATG
1 TGATTGGGCTTGACGAGCCATATGAAAG
*
37529159 AGATTGGGC
1 TGATTGGGC
37529168 CTAAAGGGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (28 bp):
TGATTGGGCTTGACGAGCCATATGAAAG
Found at i:37530855 original size:29 final size:29
Alignment explanation
Indices: 37530821--37530952 Score: 97
Period size: 29 Copynumber: 4.6 Consensus size: 29
37530811 TACTCGATTT
* * *
37530821 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
37530850 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
37530879 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
37530908 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
37530937 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
37530953 ATCTCATCAC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:37530913 original size:58 final size:59
Alignment explanation
Indices: 37530820--37530952 Score: 146
Period size: 58 Copynumber: 2.3 Consensus size: 59
37530810 ATACTCGATT
* * * *
37530820 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCA
* * * * * *
37530878 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACATAGTGCCATACACTTCCAGCA
37530937 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
37530953 ATCTCATCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 4 0.06
58 58 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCA
Found at i:37533559 original size:17 final size:18
Alignment explanation
Indices: 37533526--37533559 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37533516 TTTAAAGAAG
37533526 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
37533544 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
37533560 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:37534067 original size:17 final size:17
Alignment explanation
Indices: 37534045--37534078 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37534035 TGCGACAGAG
37534045 AAGATGGCTAGAACGTT
1 AAGATGGCTAGAACGTT
37534062 AAGATGGCTAGAACGTT
1 AAGATGGCTAGAACGTT
37534079 TAAAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (17 bp):
AAGATGGCTAGAACGTT
Found at i:37539306 original size:29 final size:29
Alignment explanation
Indices: 37539274--37539334 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
37539264 ATACCCTCCG
* *
37539274 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
37539303 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
37539332 AGC
1 AGC
37539335 AAGCACACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.33, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACCCAGTGCCATATATTTCC
Found at i:37539340 original size:29 final size:29
Alignment explanation
Indices: 37539287--37539350 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
37539277 TCGCACACCC
* * **
37539287 AGTGCCGTATTTTTCCAGCTTGCACACTT
1 AGTGCCATATATTTCCAGCAAGCACACTT
37539316 AGTGCCATATATTTCCAGCAAGCACACTT
1 AGTGCCATATATTTCCAGCAAGCACACTT
37539345 AGTGCC
1 AGTGCC
37539351 GATCTCGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCAAGCACACTT
Found at i:37541110 original size:22 final size:22
Alignment explanation
Indices: 37541085--37541127 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37541075 ATCACTCTTC
*
37541085 CTCTCC-TTTTATTTTTCTTTTT
1 CTCTCCATTTT-TTATTCTTTTT
37541107 CTCTCCATTTTTTATTCTTTT
1 CTCTCCATTTTTTATTCTTTT
37541128 CTTCTTCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (22 bp):
CTCTCCATTTTTTATTCTTTTT
Found at i:37541132 original size:24 final size:23
Alignment explanation
Indices: 37541080--37541132 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
37541070 TTTTGATCAC
*
37541080 TCTTCCTCTCCTTTTATTTTTCTT
1 TCTT-CTCTCCTTTTATTATTCTT
37541104 T-TTCTCTCCATTTT-TTATTCTTT
1 TCTTCTCTCC-TTTTATTATTC-TT
37541127 TCTTCT
1 TCTTCT
37541133 TCTGTTCCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
22 11 0.44
23 9 0.36
24 5 0.20
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (23 bp):
TCTTCTCTCCTTTTATTATTCTT
Found at i:37542394 original size:27 final size:27
Alignment explanation
Indices: 37542366--37542465 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
37542356 GGTTGCTATG
*
37542366 CCACAATTATCTGATCTGGTGGCTCTG
1 CCACAATTATCTGATCTGGTGGCTCTA
* *
37542393 CCACATATT-TCTGTTCTGGTGGCACTA
1 CCACA-ATTATCTGATCTGGTGGCTCTA
* *
37542420 CCACGATTATCTGTATCTGGTGACTCTA
1 CCACAATTATCTG-ATCTGGTGGCTCTA
* *
37542448 TCAC-ATTATCTGTTCTGG
1 CCACAATTATCTGATCTGG
37542466 CAGCCATGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 8 0.13
27 36 0.59
28 17 0.28
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (27 bp):
CCACAATTATCTGATCTGGTGGCTCTA
Found at i:37544349 original size:21 final size:21
Alignment explanation
Indices: 37544310--37544350 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
37544300 TCGAATTGGT
37544310 CACACGGGCGCCTTGCCCCTCC
1 CACACGGGCG-CTTGCCCCTCC
37544332 CACACGGGCG-TGTGCCCCT
1 CACACGGGCGCT-TGCCCCT
37544351 GTATCTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.10, C:0.49, G:0.27, T:0.15
Consensus pattern (21 bp):
CACACGGGCGCTTGCCCCTCC
Found at i:37545710 original size:42 final size:44
Alignment explanation
Indices: 37545610--37545735 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 44
37545600 TGTGTTTTCA
* * * *
37545610 TGTAAGACCACGTCTGGGAC-GTTGGCATCGACT-TATGATTTATG
1 TGTAAGACAATGTCTGGGACAG-TGACATCGA-TATTTGATTTATG
37545654 TGTAAGACAATGTCTGGGACA-TCGACATC-ATATTTGATTT-TG
1 TGTAAGACAATGTCTGGGACAGT-GACATCGATATTTGATTTATG
** *
37545696 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATT
1 TGTAAGACAATGTCTGGGACAGTGACATCGATATTTGATT
37545736 ACATGTAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
42 27 0.39
43 20 0.29
44 23 0.33
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (44 bp):
TGTAAGACAATGTCTGGGACAGTGACATCGATATTTGATTTATG
Found at i:37545757 original size:43 final size:43
Alignment explanation
Indices: 37545608--37545766 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
37545598 TATGTGTTTT
*
37545608 CATGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
** * * * * * *
37545652 TGTGTAAGACAATGTCTGGGACATCGACATC-ATATTTGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
**
37545694 TGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
*
37545737 CATGTAAGACCACGTTTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
37545767 TGTATGAGCT
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
42 28 0.31
43 38 0.42
44 25 0.27
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Done.