Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 116 of 325
Found at i:37482080 original size:47 final size:47
Alignment explanation
Indices: 37482002--37482110 Score: 139
Period size: 47 Copynumber: 2.3 Consensus size: 47
37481992 CATTGATTTG
* * *
37482002 AACATCTTTAATGTGTCATAAGTTTACTAATTGTGTCCTATTTAGTAT
1 AACAT-TTTAATGTGTCATAAGTCTACTAATTATGTCCTACTTAGTAT
* * *
37482050 AGA-ATTTTAATGTGTCTTAAGTCTATTAATTATGTCTTACTTAGTAT
1 A-ACATTTTAATGTGTCATAAGTCTACTAATTATGTCCTACTTAGTAT
37482097 AACATTTTAATGTG
1 AACATTTTAATGTG
37482111 CCTTTGTTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
46 1 0.02
47 48 0.91
48 3 0.06
49 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (47 bp):
AACATTTTAATGTGTCATAAGTCTACTAATTATGTCCTACTTAGTAT
Found at i:37484023 original size:42 final size:41
Alignment explanation
Indices: 37483937--37484057 Score: 109
Period size: 42 Copynumber: 2.9 Consensus size: 41
37483927 GCATATAAGT
* * *** *
37483937 GCTAAATAGAAACCCATAAGGGTTGAACGGAAGCTTGTAGGA
1 GCTAAACAGAAACCCATAAGGGTT-AAAGGAAGCTCAAAAGA
*
37483979 GCTAAACAGAAACCCAAAAGGGTTAAAGTGAAGCTCAAAAGA
1 GCTAAACAGAAACCCATAAGGGTTAAAG-GAAGCTCAAAAGA
* * *
37484021 GCTGAAC-GTAAACCCATTAGGGTTAAATGGAAACTCA
1 GCTAAACAG-AAACCCATAAGGGTTAAA-GGAAGCTCA
37484058 TATGAGTTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 60 0.92
43 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (41 bp):
GCTAAACAGAAACCCATAAGGGTTAAAGGAAGCTCAAAAGA
Found at i:37486752 original size:100 final size:100
Alignment explanation
Indices: 37486635--37486841 Score: 378
Period size: 100 Copynumber: 2.1 Consensus size: 100
37486625 AGTTAAAATA
*
37486635 GTTAATTGGTTATGGAATGTTAAACTAAGGGATTTAAATTGTAAATAGAATAATTTATTTCATAG
1 GTTAATTGGTTATGGAATGTTAAACTAAGGGATTTAAATTGTAAATAGAACAATTTATTTCATAG
* *
37486700 TGGACGATTTTGGTGATTAAAATCATGAAATTTTT
66 TGGACAATTTTGGTGATGAAAATCATGAAATTTTT
*
37486735 TTTAATTGGTTATGGAATGTTAAACTAAGGGATTTAAATTGTAAATAGAACAATTTATTTCATAG
1 GTTAATTGGTTATGGAATGTTAAACTAAGGGATTTAAATTGTAAATAGAACAATTTATTTCATAG
37486800 TGGACAATTTTGGTGATGAAAATCATGAAATTTTT
66 TGGACAATTTTGGTGATGAAAATCATGAAATTTTT
37486835 GTTAATT
1 GTTAATT
37486842 TTGATAGGAA
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.41
Consensus pattern (100 bp):
GTTAATTGGTTATGGAATGTTAAACTAAGGGATTTAAATTGTAAATAGAACAATTTATTTCATAG
TGGACAATTTTGGTGATGAAAATCATGAAATTTTT
Found at i:37496965 original size:27 final size:26
Alignment explanation
Indices: 37496913--37496972 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
37496903 ACATATACAT
*
37496913 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
37496939 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
37496966 ATATCTG
1 ATATCTG
37496973 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:37504221 original size:27 final size:26
Alignment explanation
Indices: 37504183--37504242 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
37504173 ACATATACAT
* *
37504183 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
37504209 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
37504236 ATATCTG
1 ATATCTG
37504243 GCAACCTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:37508594 original size:147 final size:147
Alignment explanation
Indices: 37508327--37508620 Score: 579
Period size: 147 Copynumber: 2.0 Consensus size: 147
37508317 TTTTATTATG
37508327 AATCACATTTAAAACAACCAAACATTCCTAAGGATATATGCATATATATTACGGCTATTATATTC
1 AATCACATTTAAAACAACCAAACATTCCTAAGGATATATGCATATATATTACGGCTATTATATTC
37508392 ATACATCTTCCAAGCCATTAATCAATTTCCATGCTCAAACACGTGTCACTACTCAACCATTTCCA
66 ATACATCTTCCAAGCCATTAATCAATTTCCATGCTCAAACACGTGTCACTACTCAACCATTTCCA
*
37508457 AAACATATATCATATAT
131 AAACATATACCATATAT
37508474 AATCACATTTAAAACAACCAAACATTCCTAAGGATATATGCATATATATTACGGCTATTATATTC
1 AATCACATTTAAAACAACCAAACATTCCTAAGGATATATGCATATATATTACGGCTATTATATTC
37508539 ATACATCTTCCAAGCCATTAATCAATTTCCATGCTCAAACACGTGTCACTACTCAACCATTTCCA
66 ATACATCTTCCAAGCCATTAATCAATTTCCATGCTCAAACACGTGTCACTACTCAACCATTTCCA
37508604 AAACATATACCATATAT
131 AAACATATACCATATAT
37508621 CACCTATGCC
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (147 bp):
AATCACATTTAAAACAACCAAACATTCCTAAGGATATATGCATATATATTACGGCTATTATATTC
ATACATCTTCCAAGCCATTAATCAATTTCCATGCTCAAACACGTGTCACTACTCAACCATTTCCA
AAACATATACCATATAT
Found at i:37528235 original size:27 final size:27
Alignment explanation
Indices: 37528205--37528323 Score: 134
Period size: 27 Copynumber: 4.4 Consensus size: 27
37528195 GGGGCAAAAT
* *
37528205 GGTAATTTTACCTCACAAGGGTATCTC
1 GGTAATTCTACCTCACAAGGGTATTTC
*
37528232 GGTAATTCTACC-CTACAGGGGTATTTC
1 GGTAATTCTACCTC-ACAAGGGTATTTC
* *
37528259 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTCACAAGGGTATTTC
*
37528286 GGTAATTCTATCCT-ACAGGGGTATTTC
1 GGTAATTCTA-CCTCACAAGGGTATTTC
* *
37528313 AGTATTTCTAC
1 GGTAATTCTAC
37528324 AACTTATCCA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
26 2 0.03
27 74 0.94
28 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCTCACAAGGGTATTTC
Found at i:37528278 original size:54 final size:54
Alignment explanation
Indices: 37528209--37528323 Score: 187
Period size: 54 Copynumber: 2.1 Consensus size: 54
37528199 CAAAATGGTA
*
37528209 ATTT-TACCTCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCTCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* * *
37528262 ATTTCTACCTTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAGT
1 ATTTCTACCTCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
37528316 ATTTCTAC
1 ATTTCTAC
37528324 AACTTATCCA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 4 0.07
54 53 0.93
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (54 bp):
ATTTCTACCTCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:37529382 original size:27 final size:27
Alignment explanation
Indices: 37529352--37529711 Score: 414
Period size: 27 Copynumber: 13.3 Consensus size: 27
37529342 TGGTTTGTAA
*
37529352 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
37529379 AATTATTGAAATACCCTTGTTGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
37529406 AATTACTAAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
37529433 AATTATCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
37529460 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
37529487 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
37529514 AATTACCAAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
37529541 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
37529568 AATTACTGAAATACCCCTATAAGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
37529595 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*** * * *
37529622 AATTATTAAAATACCCTTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
37529649 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
37529676 AAATACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
37529703 AATTACCGA
1 AATTACCGA
37529712 GATAACCTTT
Statistics
Matches: 280, Mismatches: 53, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 280 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:37529456 original size:81 final size:81
Alignment explanation
Indices: 37529352--37529708 Score: 482
Period size: 81 Copynumber: 4.4 Consensus size: 81
37529342 TGGTTTGTAA
* * * * ** *
37529352 AATTACCAAAATACCCCTGTAGGGTAGAATTATTGAAATACCCTTGTTGGGTAGAATTACTAAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACTGAAA
37529417 TACCCCTATAAGGTAG
66 TACCCCTATAAGGTAG
* * *
37529433 AATTATCGAAATACCCTTATAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTA-TCGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACT-GAA
* *
37529497 ATACCCCTGTAGGGTAG
65 ATACCCCTATAAGGTAG
* * *
37529514 AATTACCAAAATACCCCTGTAGGGTAAAATTACCGAAATACCCCTATAAGGTAGAATTACTGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACTGAAA
*
37529579 TACCCCTATAAGATAG
66 TACCCCTATAAGGTAG
* * * *
37529595 AATTACCGAAATACCCCTGTAGGGTAGAATTATTAAAATACCCTTATAAGGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACTGAAA
* *
37529660 TACCCTTGTAAGGTAG
66 TACCCCTATAAGGTAG
* *
37529676 AAATACCGGAATACCCCTGTAGGGTAGAATTAC
1 AATTACCGAAATACCCCTGTAGGGTAGAATTAC
37529709 CGAGATAACC
Statistics
Matches: 240, Mismatches: 34, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
80 1 0.00
81 238 0.99
82 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACTGAAA
TACCCCTATAAGGTAG
Found at i:37529995 original size:24 final size:24
Alignment explanation
Indices: 37529963--37530010 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
37529953 CAGATTACCA
**
37529963 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
37529986 AAAAGAGGCTAGGCCTCCAGTTATT
1 AAAAG-GGCTAGGCCTCCAGTTATT
37530011 TGATAAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 7 0.33
25 9 0.43
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:37534047 original size:31 final size:31
Alignment explanation
Indices: 37534004--37534067 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
37533994 GATCATGGGC
*
37534004 GTATGTTAACTCAGATCTAAACTTTATAGAG
1 GTATGTTAACTCAGATCTAAACTTTATAAAG
*
37534035 GTATGTTGACTCAGATCTAAACTTTATAAAG
1 GTATGTTAACTCAGATCTAAACTTTATAAAG
37534066 GT
1 GT
37534068 TGTGTTGCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (31 bp):
GTATGTTAACTCAGATCTAAACTTTATAAAG
Found at i:37535219 original size:23 final size:23
Alignment explanation
Indices: 37535189--37535236 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
37535179 AAAATTTAGA
*
37535189 GTTAATTTTGATATGTCTGTTAT
1 GTTAATTTTGAGATGTCTGTTAT
37535212 GTTAATTTTGAGATGTCTGTTAT
1 GTTAATTTTGAGATGTCTGTTAT
37535235 GT
1 GT
37535237 CTATAAGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.54
Consensus pattern (23 bp):
GTTAATTTTGAGATGTCTGTTAT
Found at i:37535937 original size:45 final size:45
Alignment explanation
Indices: 37535873--37535963 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
37535863 TGGGAAAGGT
37535873 AAAATGGTCATTTGGTAAATAAAGTAAAATAACTAAAAGAATTAC
1 AAAATGGTCATTTGGTAAATAAAGTAAAATAACTAAAAGAATTAC
37535918 AAAATGGTCATTTGGTAAATAAAGTAAAATAACTAAAAGAATTAC
1 AAAATGGTCATTTGGTAAATAAAGTAAAATAACTAAAAGAATTAC
37535963 A
1 A
37535964 TTAATCTTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.54, C:0.07, G:0.13, T:0.26
Consensus pattern (45 bp):
AAAATGGTCATTTGGTAAATAAAGTAAAATAACTAAAAGAATTAC
Found at i:37538468 original size:432 final size:432
Alignment explanation
Indices: 37537665--37538533 Score: 1630
Period size: 432 Copynumber: 2.0 Consensus size: 432
37537655 GGTTCGGGAC
37537665 TAAACTGATAACATTTGAAAACTTTGGGAAACTTAGAAAATTTTCTTGAATACAGAGGTCACACG
1 TAAACTGATAACATTTGAAAACTTTGGGAAACTTAGAAAATTTTCTTGAATACAGAGGTCACACG
37537730 CCTATGTGAATAGGCCGTGTGCCTCATACGGCCATCAGACACACCTGTGTGGTGTGAAAACAGGG
66 CCTATGTGAATAGGCCGTGTGCCTCATACGGCCATCAGACACACCTGTGTGGTGTGAAAACAGGG
37537795 CATACATACTGACTTGCCTCACATGGCCGAGGACATGTCCGTGTGCCAGGCAATGTGAAAACTAG
131 CATACATACTGACTTGCCTCACATGGCCGAGGACATGTCCGTGTGCCAGGCAATGTGAAAACTAG
* *
37537860 TGGGTATACTAACTTGGCCACATGGCCGACCACACACATGTGTGTCTAGGCCGTGTGCAAGGCTA
196 TGGGTATACTAACTTGGCCACACGGCCGACCACACACATGTGTGTCTAGGCCGTGTACAAGGCTA
37537925 ACTTGAATTTCTAATTATTTCCAGCGGACACACGGTCGAACAACAAGCCCATGTGCTCAACTGTG
261 ACTTGAATTTCTAATTATTTCCAGCGGACACACGGTCGAACAACAAGCCCATGTGCTCAACTGTG
37537990 TAAATGTAAATAGGCCATTTGCAAGGCCAATTTCACCACCCATAATGGTCTACCTTGCAAACTCA
326 TAAATGTAAATAGGCCATTTGCAAGGCCAATTTCACCACCCATAATGGTCTACCTTGCAAACTCA
*
37538055 AAATGTGGCACCAATTCATACACAAAAAGGTAGCCCAAAACA
391 AAATGTGGCACCAATTCATACACAAAAAGGCAGCCCAAAACA
37538097 TAAACTGATAACATTTGAAAACTTTGGGAAACTTAGAAAATTTTCTTGAATACAGAGGTCACACG
1 TAAACTGATAACATTTGAAAACTTTGGGAAACTTAGAAAATTTTCTTGAATACAGAGGTCACACG
* *
37538162 CCTGTGTGAATAGGCCGTGTGCCTCATACGGCCATCAGACACGCCTGTGTGGTGTGAAAACAGGG
66 CCTATGTGAATAGGCCGTGTGCCTCATACGGCCATCAGACACACCTGTGTGGTGTGAAAACAGGG
* *
37538227 CATACATACTGACTTGCCTCACATGGCCGAGGACATGTCTGTGTGCCAGGCAGTGTGAAAACTAG
131 CATACATACTGACTTGCCTCACATGGCCGAGGACATGTCCGTGTGCCAGGCAATGTGAAAACTAG
*
37538292 TGGGTATACTAACTTGGCCACACGGTCGACCACACACATGTGTGTCTAGGCCGTGTACAAGGCTA
196 TGGGTATACTAACTTGGCCACACGGCCGACCACACACATGTGTGTCTAGGCCGTGTACAAGGCTA
* *
37538357 ACTTGAATTTCTAATTATTTCCAGGGGACACACGGTCGAACAACAAGCCCGTGTGCTCAACTGTG
261 ACTTGAATTTCTAATTATTTCCAGCGGACACACGGTCGAACAACAAGCCCATGTGCTCAACTGTG
**
37538422 TAAATGTAAATAGGCCATTTGCAAGGCCAATTTCGTCACCCATAATGGTCTACCTTGCAAACTCA
326 TAAATGTAAATAGGCCATTTGCAAGGCCAATTTCACCACCCATAATGGTCTACCTTGCAAACTCA
37538487 AAATGTGGCACCAATTCATACACAAAAAGGCAGCCCAAAACA
391 AAATGTGGCACCAATTCATACACAAAAAGGCAGCCCAAAACA
37538529 TAAAC
1 TAAAC
37538534 AAATTATGCC
Statistics
Matches: 425, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
432 425 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (432 bp):
TAAACTGATAACATTTGAAAACTTTGGGAAACTTAGAAAATTTTCTTGAATACAGAGGTCACACG
CCTATGTGAATAGGCCGTGTGCCTCATACGGCCATCAGACACACCTGTGTGGTGTGAAAACAGGG
CATACATACTGACTTGCCTCACATGGCCGAGGACATGTCCGTGTGCCAGGCAATGTGAAAACTAG
TGGGTATACTAACTTGGCCACACGGCCGACCACACACATGTGTGTCTAGGCCGTGTACAAGGCTA
ACTTGAATTTCTAATTATTTCCAGCGGACACACGGTCGAACAACAAGCCCATGTGCTCAACTGTG
TAAATGTAAATAGGCCATTTGCAAGGCCAATTTCACCACCCATAATGGTCTACCTTGCAAACTCA
AAATGTGGCACCAATTCATACACAAAAAGGCAGCCCAAAACA
Found at i:37539861 original size:26 final size:26
Alignment explanation
Indices: 37539825--37539876 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
37539815 CACCACTGAA
* *
37539825 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
37539851 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
37539877 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:37539953 original size:70 final size:71
Alignment explanation
Indices: 37539837--37539987 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
37539827 GGGGAATCAT
*
37539837 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
37539901 ATATCG
66 ATATCG
* ***
37539907 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
37539972 GATATCG
65 GATATCG
37539979 CACTTAGCA
1 CACTTAGCA
37539988 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:37540030 original size:26 final size:26
Alignment explanation
Indices: 37540000--37540050 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
37539990 ACCAATGAAC
*
37540000 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
37540026 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
37540051 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:37540090 original size:103 final size:104
Alignment explanation
Indices: 37539906--37540128 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
37539896 AATGGATATC
37539906 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
37539971 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
37540010 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
37540074 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
37540113 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
37540129 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:37540490 original size:29 final size:29
Alignment explanation
Indices: 37540457--37540520 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
37540447 TAATCCACCA
37540457 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
37540486 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
37540516 CCCAA
1 CCCAA
37540521 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:37540494 original size:30 final size:30
Alignment explanation
Indices: 37540464--37540520 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37540454 CCACCCAACT
37540464 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
37540493 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
37540521 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:37550191 original size:45 final size:45
Alignment explanation
Indices: 37550127--37550289 Score: 131
Period size: 46 Copynumber: 3.7 Consensus size: 45
37550117 TGTAACCCGC
*
37550127 CCATAAGTG-ACTCGAACTCAACTCAACGAGCTCGGACGTTCACAT
1 CCATAA-TGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
* * **
37550172 CCATAATGAACTCGGACTCAACTCAACGAGCCTCGGATG-CCTAGTT
1 CCATAATGAACTCGGACTCAACTCAACGAG-CTCGGACGTTC-ACAT
* * * * * * *
37550218 ACAT-CTCGAACTCAGACTCAACTCAACAAGTTC-GACATTCGCAT
1 CCATAAT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
*
37550262 CCATAGT-AACTC-GACTCAACTCAACGAG
1 CCATAATGAACTCGGACTCAACTCAACGAG
37550290 TTCGATGCCT
Statistics
Matches: 93, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
42 15 0.16
43 5 0.05
44 8 0.09
45 32 0.34
46 33 0.35
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (45 bp):
CCATAATGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
Found at i:37554254 original size:43 final size:46
Alignment explanation
Indices: 37554207--37554328 Score: 180
Period size: 45 Copynumber: 2.7 Consensus size: 46
37554197 TGGTTGAGCA
* *
37554207 TCCGAACTCGTTGAGTTGAGTTC-AGTTCACTT-TGGATGC-AATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
37554250 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
37554296 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
37554329 GGGGCGGGTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
43 22 0.31
44 8 0.11
45 38 0.54
46 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:37554589 original size:19 final size:20
Alignment explanation
Indices: 37554552--37554589 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
37554542 ATAAGGTGGT
37554552 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
37554572 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
37554590 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:37561764 original size:46 final size:46
Alignment explanation
Indices: 37561714--37561839 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
37561704 TGGTTGAGCA
* *
37561714 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
37561760 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
37561806 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
37561840 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:37562100 original size:19 final size:20
Alignment explanation
Indices: 37562063--37562100 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
37562053 ATAAGGTGGT
37562063 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
37562083 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
37562101 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:37566913 original size:28 final size:27
Alignment explanation
Indices: 37566873--37566943 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 27
37566863 TCTTTCATAT
* **
37566873 GGCCCATTCACATTTATGTGGCCATTA
1 GGCCCAATCACATTTATACGGCCATTA
* *
37566900 GGCCCAAATCACATTCATACGGCCATTT
1 GGCCC-AATCACATTTATACGGCCATTA
37566928 GGCCCAATCACATTTA
1 GGCCCAATCACATTTA
37566944 CAGTCATGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 15 0.41
28 22 0.59
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (27 bp):
GGCCCAATCACATTTATACGGCCATTA
Found at i:37567183 original size:16 final size:16
Alignment explanation
Indices: 37567158--37567192 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37567148 GTAGCCAAAC
*
37567158 TTTTGGCTTTTCGACA
1 TTTTGACTTTTCGACA
*
37567174 TTTTGACTTTTCGGCA
1 TTTTGACTTTTCGACA
37567190 TTT
1 TTT
37567193 CGGCTTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTTGACTTTTCGACA
Found at i:37567199 original size:16 final size:16
Alignment explanation
Indices: 37567162--37567201 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
37567152 CCAAACTTTT
*
37567162 GGCTTTTCGACATTTT
1 GGCTTTTCGACATTTC
* *
37567178 GACTTTTCGGCATTTC
1 GGCTTTTCGACATTTC
37567194 GGCTTTTC
1 GGCTTTTC
37567202 AGGATCTGCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (16 bp):
GGCTTTTCGACATTTC
Found at i:37571488 original size:55 final size:55
Alignment explanation
Indices: 37571424--37571528 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
37571414 TGTATATAGC
* *
37571424 CCATTAGGCCC-AATCTCTTTCATATGGCCCATTAGGCCCAATCACATTTATGTGG
1 CCATTAGGCCCAAATCACATTCATATGG-CCATTAGGCCCAATCACATTTATGTGG
* *
37571479 CCATTAGGCCCAAATCACATTCATATGGCCATTTGGCCTAATCACATTTA
1 CCATTAGGCCCAAATCACATTCATATGGCCATTAGGCCCAATCACATTTA
37571529 CAGTCATGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
55 31 0.69
56 14 0.31
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (55 bp):
CCATTAGGCCCAAATCACATTCATATGGCCATTAGGCCCAATCACATTTATGTGG
Found at i:37571490 original size:27 final size:27
Alignment explanation
Indices: 37571424--37571528 Score: 131
Period size: 28 Copynumber: 3.8 Consensus size: 27
37571414 TGTATATAGC
*
37571424 CCATTAGGCCCAATCTC-TTTCATATGG
1 CCATTAGGCCCAATCACATTT-ATATGG
*
37571451 CCCATTAGGCCCAATCACATTTATGTGG
1 -CCATTAGGCCCAATCACATTTATATGG
*
37571479 CCATTAGGCCCAAATCACATTCATATGG
1 CCATTAGGCCC-AATCACATTTATATGG
* *
37571507 CCATTTGGCCTAATCACATTTA
1 CCATTAGGCCCAATCACATTTA
37571529 CAGTCATGCT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 21 0.31
28 44 0.65
29 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (27 bp):
CCATTAGGCCCAATCACATTTATATGG
Found at i:37571623 original size:18 final size:19
Alignment explanation
Indices: 37571600--37571636 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
37571590 GAGGCCCAAC
37571600 AGCCCA-TCGGGCCCATTT
1 AGCCCATTCGGGCCCATTT
*
37571618 AGCCCATTCTGGCCCATTT
1 AGCCCATTCGGGCCCATTT
37571637 GTCCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
AGCCCATTCGGGCCCATTT
Found at i:37571769 original size:16 final size:16
Alignment explanation
Indices: 37571748--37571786 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
37571738 TAAACTTTTG
37571748 ACTTTTCGGCATTTCA
1 ACTTTTCGGCATTTCA
*
37571764 ACTTTTTGGCATTTCA
1 ACTTTTCGGCATTTCA
*
37571780 GCTTTTC
1 ACTTTTC
37571787 AAGATCTGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.15, C:0.23, G:0.13, T:0.49
Consensus pattern (16 bp):
ACTTTTCGGCATTTCA
Found at i:37585134 original size:40 final size:40
Alignment explanation
Indices: 37584976--37585135 Score: 173
Period size: 40 Copynumber: 4.0 Consensus size: 40
37584966 CGGAATTTAA
** *
37584976 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37585016 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
37585056 CCGAATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
37585096 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
37585136 TCTTTTGATT
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
39 4 0.04
40 85 0.85
41 11 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:37592944 original size:40 final size:40
Alignment explanation
Indices: 37592839--37592984 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
37592829 GCTACTCGTT
*
37592839 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
37592879 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
37592919 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
37592960 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37592985 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.83
41 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37597371 original size:40 final size:40
Alignment explanation
Indices: 37597312--37597455 Score: 139
Period size: 40 Copynumber: 3.6 Consensus size: 40
37597302 TGACGATAAA
* * * * *
37597312 TCGGCTATTTGTGGTACTTAGTGTACGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTACAATTCGACATAACT
*
37597352 TCGGCTATATATGGCACTTAGTGTGA-TATTCGACATAACT
1 TCGGCTATATATGGCACTTAGTGT-ACAATTCGACATAACT
* * *
37597392 TCAGCTATATATGGCACTTAGTGTGCAATTCGAGATATA-T
1 TCGGCTATATATGGCACTTAGTGTACAATTCGACATA-ACT
* * * *
37597432 TCAGCTATGTACGACACTTAGTGT
1 TCGGCTATATATGGCACTTAGTGT
37597456 GCAAGATATC
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 87 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTACAATTCGACATAACT
Found at i:37597456 original size:40 final size:40
Alignment explanation
Indices: 37597327--37597459 Score: 144
Period size: 40 Copynumber: 3.3 Consensus size: 40
37597317 TATTTGTGGT
* * * * * *
37597327 ACTTAGTGTACGATTCGACATAGCTTCGGCTATATATGGC
1 ACTTAGTGTGCAATTCGACATAACTTCAGCTATATACGAC
* *
37597367 ACTTAGTGTG-ATATTCGACATAACTTCAGCTATATATGGC
1 ACTTAGTGTGCA-ATTCGACATAACTTCAGCTATATACGAC
* *
37597407 ACTTAGTGTGCAATTCGAGATATA-TTCAGCTATGTACGAC
1 ACTTAGTGTGCAATTCGACATA-ACTTCAGCTATATACGAC
37597447 ACTTAGTGTGCAA
1 ACTTAGTGTGCAA
37597460 GATATCGAGT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
40 80 0.98
41 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (40 bp):
ACTTAGTGTGCAATTCGACATAACTTCAGCTATATACGAC
Found at i:37599431 original size:24 final size:26
Alignment explanation
Indices: 37599387--37599435 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
37599377 CGAGGTAAGT
37599387 TCGTATGTTAAATAAGCTTTAATATAA
1 TCGTATGTTAAAT-AGCTTTAATATAA
37599414 TCGTAT-TTAAAT-GCTTTAATAT
1 TCGTATGTTAAATAGCTTTAATAT
37599436 TGCATGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (26 bp):
TCGTATGTTAAATAGCTTTAATATAA
Found at i:37604014 original size:30 final size:30
Alignment explanation
Indices: 37603929--37604025 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
37603919 TAAACTAAAA
* **
37603929 TGAGCTAAGCTTTAGCTCGTGAGCCAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
37603959 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
37603989 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
37604018 ATGAGCTA
1 -TGAGCTA
37604026 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:37604351 original size:48 final size:45
Alignment explanation
Indices: 37604195--37604359 Score: 159
Period size: 48 Copynumber: 3.5 Consensus size: 45
37604185 TCATATCACG
* * * * *
37604195 GTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATTTAAGCCA
1 GTGTAAGACATATCTGGGACATGCATCGGCCT--TGATA-TAAAGCTA
* * * *
37604243 GTGTAAGACATGTCTGGGACATGCATCGACATTGATACAAGAGCTA
1 GTGTAAGACATATCTGGGACATGCATCGGCCTTGATATAA-AGCTA
* *
37604289 GTGTAGGACATATCTAGGACATGCATCGGCCTTGCGATATACAAGCTA
1 GTGTAAGACATATCTGGGACATGCATCGGCCTT--GATATA-AAGCTA
*
37604337 GTGTAAGACCTATCTGGGACATG
1 GTGTAAGACATATCTGGGACATG
37604360 GCGTCAGCTT
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 36 0.37
48 59 0.61
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (45 bp):
GTGTAAGACATATCTGGGACATGCATCGGCCTTGATATAAAGCTA
Found at i:37604482 original size:49 final size:49
Alignment explanation
Indices: 37604379--37604507 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
37604369 TGTGGTGTGT
* * *
37604379 CAGTGTAAGACCTATCTGGTACATGGCATCAACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAAAGC
*** * *
37604428 CAGTGTAAGACCTGTCTGGGACATGGCATTGGC-CTCGCTATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCAACAC-CGATAGATGAAAGC
* *
37604477 TAGTGTAAGACCATGTCCGGGACATGGCATC
1 CAGTGTAAGACC-TGTCTGGGACATGGCATC
37604508 GACATCTTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
48 1 0.01
49 50 0.75
50 16 0.24
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAAAGC
Found at i:37605739 original size:20 final size:21
Alignment explanation
Indices: 37605700--37605739 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37605690 GTTATAATGA
*
37605700 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGATGCCCTT
*
37605721 CCACATGGGCGT-ATGCCCT
1 CCACACGGGCGTGATGCCCT
37605740 GTTTCAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGATGCCCTT
Found at i:37608058 original size:43 final size:43
Alignment explanation
Indices: 37607933--37608094 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 43
37607923 TGGAAAGCTC
* * * *
37607933 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGT-AATCAA
1 ATACGATGCCAATGTCCTAGACATGGTCTTACACGTAAATCAA
** * * * *
37607975 ATATCGATGCCTCTGTCCCAGATAGGGTCTTACAC-AAAATCAA
1 ATA-CGATGCCAATGTCCTAGACATGGTCTTACACGTAAATCAA
* *
37608018 ATACGATACCAATGTCCTAGACATAGTCTTACACGTAAATCATA
1 ATACGATGCCAATGTCCTAGACATGGTCTTACACGTAAATCA-A
** *
37608062 AGT-CGATGCCAATGTCCCGGACGTGGTCTTACA
1 A-TACGATGCCAATGTCCTAGACATGGTCTTACA
37608095 AGATAACACA
Statistics
Matches: 92, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
42 27 0.29
43 37 0.40
44 27 0.29
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
ATACGATGCCAATGTCCTAGACATGGTCTTACACGTAAATCAA
Found at i:37608483 original size:21 final size:23
Alignment explanation
Indices: 37608457--37608498 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
37608447 ATATTTAGGG
37608457 CATTTT-ACAAATTAG-CCCTCA
1 CATTTTAACAAATTAGTCCCTCA
*
37608478 CATTTTAACAATTTAGTCCCT
1 CATTTTAACAAATTAGTCCCT
37608499 AATTCATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (23 bp):
CATTTTAACAAATTAGTCCCTCA
Found at i:37610937 original size:21 final size:20
Alignment explanation
Indices: 37610904--37610943 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
37610894 ATAACTTGAA
*
37610904 AAAGAAAAAGAGAGTGAGAG
1 AAAGAAAAAGAGAATGAGAG
*
37610924 AAAGCAAAACGAGAATGAGA
1 AAAG-AAAAAGAGAATGAGA
37610944 TTGAAAAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.60, C:0.05, G:0.30, T:0.05
Consensus pattern (20 bp):
AAAGAAAAAGAGAATGAGAG
Found at i:37612937 original size:38 final size:40
Alignment explanation
Indices: 37612837--37613019 Score: 200
Period size: 39 Copynumber: 4.7 Consensus size: 40
37612827 TTGAATGATG
* * *
37612837 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
37612876 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
37612917 TCC-GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
37612955 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
37612993 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
37613020 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 29 0.24
39 45 0.37
40 38 0.31
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:37613037 original size:79 final size:77
Alignment explanation
Indices: 37612890--37613052 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 77
37612880 GGACTAAGAT
* **
37612890 CCGAAGGCATTTGTGCGAGATACTAATTCCGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
*
37612955 TCCGGGTTAAGTC
66 TCC-GGTTAAATC
* *
37612968 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACC-GGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
37613030 TATATCCGGTTAAATT
62 TAAATCCGGTTAAATC
37613046 CCGAAGG
1 CCGAAGG
37613053 TACGTGATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
76 2 0.03
77 15 0.21
78 31 0.42
79 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGTTAAATC
Found at i:37625423 original size:34 final size:34
Alignment explanation
Indices: 37625380--37625448 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
37625370 CTCATCAAGT
37625380 AATTCACATAATTACATATTATTCAACAATAACC
1 AATTCACATAATTACATATTATTCAACAATAACC
37625414 AATTCACATAATTACATATTATTCAACAATAACC
1 AATTCACATAATTACATATTATTCAACAATAACC
37625448 A
1 A
37625449 CAAAACATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (34 bp):
AATTCACATAATTACATATTATTCAACAATAACC
Found at i:37625457 original size:34 final size:34
Alignment explanation
Indices: 37625385--37625458 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
37625375 CAAGTAATTC
**
37625385 ACATAATTACATATTATTCAACAATAACCAATTC
1 ACATAATTACATATTATTCAACAATAACCAATAA
37625419 ACATAATTACATATTATTCAACAATAACCACA-AA
1 ACATAATTACATATTATTCAACAATAACCA-ATAA
37625453 ACATAA
1 ACATAA
37625459 CATTTCATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.28
Consensus pattern (34 bp):
ACATAATTACATATTATTCAACAATAACCAATAA
Found at i:37625741 original size:30 final size:30
Alignment explanation
Indices: 37625696--37625756 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
37625686 ATTTAATACG
* *
37625696 AACTTTGGCAAAATTACATTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
37625726 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
37625756 A
1 A
37625757 GCTTGGGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:37626796 original size:14 final size:14
Alignment explanation
Indices: 37626777--37626806 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37626767 GTTTCAACTT
37626777 ATAAATATGTGTTA
1 ATAAATATGTGTTA
*
37626791 ATAAATATGTTTTA
1 ATAAATATGTGTTA
37626805 AT
1 AT
37626807 CTGATTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
ATAAATATGTGTTA
Found at i:37627948 original size:24 final size:26
Alignment explanation
Indices: 37627916--37627965 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
37627906 GCCGAATCTT
*
37627916 CATCCTCA-TTCACCTAGCC-ATTTC
1 CATCATCATTTCACCTAGCCAATTTC
*
37627940 CATCATCATTTCACTTAGCCAATTTC
1 CATCATCATTTCACCTAGCCAATTTC
37627966 AGCCATTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 10 0.45
26 5 0.23
ACGTcount: A:0.24, C:0.36, G:0.04, T:0.36
Consensus pattern (26 bp):
CATCATCATTTCACCTAGCCAATTTC
Found at i:37634686 original size:45 final size:45
Alignment explanation
Indices: 37634622--37634712 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
37634612 GTTCAATACC
37634622 AAACTCTACTTCTCTAACGGGAGGTACACATCCGAATACTCACAT
1 AAACTCTACTTCTCTAACGGGAGGTACACATCCGAATACTCACAT
37634667 AAACTCTACTTCTCTAACGGGAGGTACACATCCGAATACTCACAT
1 AAACTCTACTTCTCTAACGGGAGGTACACATCCGAATACTCACAT
37634712 A
1 A
37634713 CTATCGGTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (45 bp):
AAACTCTACTTCTCTAACGGGAGGTACACATCCGAATACTCACAT
Found at i:37648086 original size:12 final size:12
Alignment explanation
Indices: 37648069--37648094 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37648059 CCACACACAT
37648069 CCGTGTGCTAGG
1 CCGTGTGCTAGG
37648081 CCGTGTGCTAGG
1 CCGTGTGCTAGG
37648093 CC
1 CC
37648095 ATGCCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:37651808 original size:19 final size:19
Alignment explanation
Indices: 37651776--37651812 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37651766 ATTTGGCAGC
*
37651776 TAGGACAAATTTAATTCAG
1 TAGGACAAAATTAATTCAG
*
37651795 TAGGATAAAATTAATTCA
1 TAGGACAAAATTAATTCA
37651813 ACATATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (19 bp):
TAGGACAAAATTAATTCAG
Found at i:37652780 original size:6 final size:6
Alignment explanation
Indices: 37652750--37652870 Score: 104
Period size: 6 Copynumber: 19.8 Consensus size: 6
37652740 AAGAAACATT
* * *
37652750 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
37652799 ATCAGA ATCAGA ATTAGA ATCAGA ATCAGA ATCAGA ATTAG- CTGACAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
37652848 ATTAGA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAGA ATCAG
37652871 GTAACATAAT
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
5 3 0.03
6 81 0.88
7 6 0.07
8 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:37652870 original size:49 final size:49
Alignment explanation
Indices: 37652750--37652870 Score: 163
Period size: 49 Copynumber: 2.5 Consensus size: 49
37652740 AAGAAACATT
* * *
37652750 ATCAGAA-CTAGAATCAAAATGAGAATCAGAATCAGAATCAGGTGACAGA
1 ATCAGAATC-AGAATCAGAATCAGAATCAGAATCAGAATCAGCTGACAGA
* *
37652799 ATCAGAATCAGAATTAGAATCAGAATCAGAATCAGAATTAGCTGACAGA
1 ATCAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGCTGACAGA
* *
37652848 ATTAGAATCAGAATCAGTATCAG
1 ATCAGAATCAGAATCAGAATCAG
37652871 GTAACATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 62 0.98
50 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (49 bp):
ATCAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGCTGACAGA
Found at i:37652888 original size:37 final size:37
Alignment explanation
Indices: 37652761--37652892 Score: 106
Period size: 37 Copynumber: 3.4 Consensus size: 37
37652751 TCAGAACTAG
* *
37652761 AATCAAAATGAGAATCAGAATCAGAATCAGGTGACAGAATCAG
1 AATCAAAATTAGAATCAGAATCAGAATCAGGT-----AA-CAT
* * *
37652804 AATCAGAATTAGAATCAGAATCAGAATCAGAATTAGC-T
1 AATCAAAATTAGAATCAGAATCAGAATCAG--GTAACAT
* * *
37652842 GA-CAGAATTAGAATCAGAATCAGTATCAGGTAACAT
1 AATCAAAATTAGAATCAGAATCAGAATCAGGTAACAT
37652878 AATCAAAATTAGAAT
1 AATCAAAATTAGAAT
37652893 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
35 3 0.04
36 2 0.03
37 37 0.50
38 1 0.01
39 1 0.01
40 1 0.01
43 28 0.38
45 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (37 bp):
AATCAAAATTAGAATCAGAATCAGAATCAGGTAACAT
Found at i:37653835 original size:27 final size:27
Alignment explanation
Indices: 37653805--37653976 Score: 152
Period size: 27 Copynumber: 6.4 Consensus size: 27
37653795 GGGGAGAAAT
* *
37653805 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
37653832 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
37653859 AGT-ATTTCTACCCTATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
37653886 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
37653913 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * ** *
37653940 AGTAATTCTA-CAAACCAAGGGTATTTT
1 GGTAATTTTACCCTA-CAAGGGTATTTC
37653967 GGTAATTTTA
1 GGTAATTTTA
37653977 TAAACCAAGG
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
26 5 0.04
27 110 0.93
28 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:37653935 original size:54 final size:54
Alignment explanation
Indices: 37653805--37653973 Score: 180
Period size: 54 Copynumber: 3.1 Consensus size: 54
37653795 GGGGAGAAAT
* * * * * *
37653805 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTC
* * *
37653859 AGTATTTCTACCCTATAAGGGTATTTCGATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTC
* * ** *
37653913 GGTAATTCTACCTTATAGGGGTATTTC-AGTAATTCTA-CAAACCAAGGGTATTTT
1 GGTAATTCTACCCTATAAGGGTATTTCGA-TAATTCTACCCTA-CAAGGGTATTTC
37653967 GGTAATT
1 GGTAATT
37653974 TTATAAACCA
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.03
54 93 0.97
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTATAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTC
Found at i:37653960 original size:81 final size:80
Alignment explanation
Indices: 37653809--37653965 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 80
37653799 AGAAATGGTA
* **
37653809 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTA
1 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCAAA
*
37653874 TAAGGGTATTTCGAT
66 CAAGGGTATTTCGAT
* * * *
37653889 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCAGTAATTCTA-CAA
1 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCAA
37653953 ACCAAGGGTATTT
65 A-CAAGGGTATTT
37653966 TGGTAATTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 6 0.09
81 61 0.91
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCAAA
CAAGGGTATTTCGAT
Found at i:37653981 original size:27 final size:27
Alignment explanation
Indices: 37653931--37654001 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
37653921 TACCTTATAG
** *
37653931 GGGTATTTCAGTAATTCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
37653958 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
37653985 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
37654002 GGTAAACTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:37653986 original size:81 final size:80
Alignment explanation
Indices: 37653818--37654000 Score: 199
Period size: 81 Copynumber: 2.3 Consensus size: 80
37653808 AATTTTACCC
* * ** *
37653818 CACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTATAAGGGTAT
1 CACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCAAACAAGGGTAT
* **
37653883 TTCGATATTTCTACC
66 TTCGATATTTATAAA
* *
37653898 CTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCAGTAATTCTA-CAAACCAAGGGT
1 C-ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCAAA-CAAGGGT
* *
37653962 ATTTTGGTAATTTTATAAA
64 ATTTCGAT-A-TTTATAAA
*
37653981 C-CAAGGGTATTTTGGTAATT
1 CACAAGGGTATTTCGGTAATT
37654001 TGGTAAACTA
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
80 3 0.03
81 76 0.88
82 1 0.01
83 6 0.07
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (80 bp):
CACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCAAACAAGGGTAT
TTCGATATTTATAAA
Found at i:37654007 original size:27 final size:27
Alignment explanation
Indices: 37653951--37654008 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
37653941 GTAATTCTAC
*
37653951 AAACCAAGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTTGGTAATTTGAT
*
37653978 AAACCAAGGGTATTTTGGTAATTTGGT
1 AAACCAAGGGTATTTTGGTAATTTGAT
37654005 AAAC
1 AAAC
37654009 TAAAGTATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (27 bp):
AAACCAAGGGTATTTTGGTAATTTGAT
Found at i:37657345 original size:20 final size:20
Alignment explanation
Indices: 37657320--37657385 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
37657310 TGTACATGTG
37657320 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTCAGTA
* * * *
37657340 CCCCTGAATTGCACAT-ACGTG
1 CCCCTG-TTTGTACTTCA-GTA
*
37657361 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCAGTA
37657381 CCCCT
1 CCCCT
37657386 AGATTTTACA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
20 20 0.59
21 14 0.41
ACGTcount: A:0.15, C:0.35, G:0.17, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCAGTA
Found at i:37657362 original size:80 final size:80
Alignment explanation
Indices: 37657264--37657446 Score: 233
Period size: 80 Copynumber: 2.3 Consensus size: 80
37657254 AATTATTCCT
* * *
37657264 TGAATTACACATACGTGCCCCTGTTTGTATTTCGATACCCCTAAATTGTACAT-GTGCCCCTGTT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTAAATTGTACATAATG-CCCTGTT
*
37657328 TGTACTTCAGTACCCC
65 TGTACTTCAGTAACCC
* * *
37657344 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAGATTTTACATACATGCCCTGTT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTAAATTGTACATA-ATGCCCTGTT
**
37657409 TGTACTTTGGTAACCC
65 TGTACTTCAGTAACCC
* **
37657425 TAAATTGCACATATATGCCCCT
1 TGAATTGCACATACGTGCCCCT
37657447 AAAATGCACA
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
80 48 0.54
81 39 0.44
82 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (80 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTAAATTGTACATAATGCCCTGTTT
GTACTTCAGTAACCC
Found at i:37657370 original size:41 final size:41
Alignment explanation
Indices: 37657266--37657446 Score: 215
Period size: 41 Copynumber: 4.5 Consensus size: 41
37657256 TTATTCCTTG
* * *
37657266 AATTACACATACGTGCCCCTGTTTGTATTTCGATACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
37657307 AATTGTACAT--GTGCCCCTGTTTGTACTTCAGTACCCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
37657346 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* ** * * *
37657387 GATTTTACATACATG-CCCTGTTTGTACTTTGGTAACCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
**
37657427 AATTGCACATATATGCCCCT
1 AATTGCACATACGTGCCCCT
37657447 AAAATGCACA
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 34 0.29
40 34 0.29
41 50 0.42
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:37657464 original size:21 final size:21
Alignment explanation
Indices: 37657422--37657465 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
37657412 ACTTTGGTAA
* *
37657422 CCCTAAATTGCACATATATGC
1 CCCTAAAATGCACATACATGC
*
37657443 CCCTAAAATGCACATACGTGC
1 CCCTAAAATGCACATACATGC
37657464 CC
1 CC
37657466 TGTTTACACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.23
Consensus pattern (21 bp):
CCCTAAAATGCACATACATGC
Found at i:37659753 original size:48 final size:48
Alignment explanation
Indices: 37659635--37659757 Score: 133
Period size: 48 Copynumber: 2.6 Consensus size: 48
37659625 AGATCCCGTG
* *
37659635 TAAGACCATGTCTAGGACATGGCATCGGCATCGATATGCAATTTTGTG
1 TAAGACCATGTCTAGGACATGGCATCGGCATCGATAAGCAATTTTGTA
* * * * **
37659683 TAAGACCATATC-AGGGATATGGCTTCTGCATCGATAAGTGATTTCT-TA
1 TAAGACCATGTCTA-GGACATGGCATCGGCATCGATAAGCAATTT-TGTA
*
37659731 TAAGACCATGTCTAGAACATGGCATCG
1 TAAGACCATGTCTAGGACATGGCATCG
37659758 ATATGAGGTC
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
47 1 0.02
48 56 0.95
49 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCATCGGCATCGATAAGCAATTTTGTA
Found at i:37660865 original size:27 final size:26
Alignment explanation
Indices: 37660817--37660874 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
37660807 GCGAGGCTGC
*
37660817 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
37660844 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
37660870 CAGAT
1 CAGAT
37660875 GCATATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:37661661 original size:27 final size:27
Alignment explanation
Indices: 37661631--37661684 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
37661621 ATCGGTAGTC
* *
37661631 CTACCCTACAGGGGTATTTTAGTAATT
1 CTACCCCACAAGGGTATTTTAGTAATT
*
37661658 CTACCCCACAAGGGTATTTTGGTAATT
1 CTACCCCACAAGGGTATTTTAGTAATT
37661685 TTGTAAATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
CTACCCCACAAGGGTATTTTAGTAATT
Found at i:37661698 original size:27 final size:27
Alignment explanation
Indices: 37661668--37661954 Score: 264
Period size: 27 Copynumber: 10.7 Consensus size: 27
37661658 CTACCCCACA
**
37661668 AGGGTATTTTGGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
*** * * *
37661695 AGGGTAAAATGTTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
37661722 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
** * *
37661749 AGGGTATTTCAGTAATTTCACAAAT-T
1 AGGGTATTTTGGTAATTTTACAAATCG
*
37661775 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTGGTAATTTTACAAATCG
* *
37661802 AGGGGTATTTTGGTAATTTCACAAA-CT
1 A-GGGTATTTTGGTAATTTTACAAATCG
*
37661829 AGGGGTATTTTGGTAATTTTACAAA-CTA
1 A-GGGTATTTTGGTAATTTTACAAATC-G
* *
37661857 AGGGTATTTTGGTAATTTCACAAAGTAG
1 AGGGTATTTTGGTAATTTTACAAA-TCG
*
37661885 -GGGTATTTTGGTAATTTTACAAA-CA
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
37661910 AGGGGTATTTTGGTAATTTTTCTAATCG
1 A-GGGTATTTTGGTAATTTTACAAATCG
37661938 AGGGTA-TTTGGTAATTT
1 AGGGTATTTTGGTAATTT
37661955 GGTAAACTAA
Statistics
Matches: 218, Mismatches: 34, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
26 12 0.06
27 203 0.93
28 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:37661808 original size:54 final size:54
Alignment explanation
Indices: 37661723--37661928 Score: 315
Period size: 54 Copynumber: 3.8 Consensus size: 54
37661713 TATAAATCGA
* * * ** *
37661723 GGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTCACAAACTAG
37661777 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAACTAG
* *
37661831 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTCACAAAGTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAACTAG
*
37661885 GGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
37661929 TTCTAATCGA
Statistics
Matches: 141, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
54 137 0.97
55 4 0.03
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAACTAG
Found at i:37667833 original size:23 final size:22
Alignment explanation
Indices: 37667781--37667833 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
37667771 TCCACGTCTT
*
37667781 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
37667803 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
37667826 TTTCTTTT
1 TTTCTTTT
37667834 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:37672785 original size:28 final size:29
Alignment explanation
Indices: 37672738--37672792 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
37672728 ACAAGGGTTT
*
37672738 TCACACGGCCAAGCACACGCCCATGTCCC
1 TCACACAGCCAAGCACACGCCCATGTCCC
* *
37672767 TCACACAGCCTAG-ACACGCCCGTGTC
1 TCACACAGCCAAGCACACGCCCATGTC
37672793 ATCGCCCATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.13
Consensus pattern (29 bp):
TCACACAGCCAAGCACACGCCCATGTCCC
Found at i:37688330 original size:30 final size:30
Alignment explanation
Indices: 37688285--37688344 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
37688275 ATTTAATACG
* *
37688285 AACTTTGGCAAAATTATATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
37688315 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
37688345 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:37691814 original size:20 final size:20
Alignment explanation
Indices: 37691791--37691853 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
37691781 GATATGCATG
37691791 GTTAATCAGGGATTTTACAT
1 GTTAATCAGGGATTTTACAT
* * ***
37691811 GTTATAACAAGG-TCGAACA-
1 GTTA-ATCAGGGATTTTACAT
37691830 GTTAATCAGGGATTTTACAT
1 GTTAATCAGGGATTTTACAT
37691850 GTTA
1 GTTA
37691854 TGACAAGGTC
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 5 0.17
19 8 0.27
20 12 0.40
21 5 0.17
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (20 bp):
GTTAATCAGGGATTTTACAT
Found at i:37691845 original size:39 final size:39
Alignment explanation
Indices: 37691791--37691868 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
37691781 GATATGCATG
*
37691791 GTTAATCAGGGATTTTACATGTTATAACAAGGTCGAACA
1 GTTAATCAGGGATTTTACATGTTATAACAAGGTCAAACA
*
37691830 GTTAATCAGGGATTTTACATGTTATGACAAGGTCAAACA
1 GTTAATCAGGGATTTTACATGTTATAACAAGGTCAAACA
37691869 TTTGTTGTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (39 bp):
GTTAATCAGGGATTTTACATGTTATAACAAGGTCAAACA
Found at i:37710043 original size:49 final size:49
Alignment explanation
Indices: 37709877--37710059 Score: 197
Period size: 49 Copynumber: 3.7 Consensus size: 49
37709867 AGGCTATCTA
* * ** *
37709877 GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACAAGTGACC-AATTATCCG
* ** * * * * *
37709927 ATACATGTAGTAGCCAGCACTTAGTACTACACATGTAATCGAAGTTATCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACAAGTGA-CCAA-TTATCCG
*
37709978 GTAC-CTATAGTAGCCTGCACTTAGTACTACACAAGCGACCAATTATCCG
1 GTACAC-ATAGTAGCCTGCACTTAGTACTACACAAGTGACCAATTATCCG
37710027 GTACACATAGTAGCCTGCACTTAGTACTACACA
1 GTACACATAGTAGCCTGCACTTAGTACTACACA
37710060 CATGACCTCA
Statistics
Matches: 109, Mismatches: 20, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
49 37 0.34
50 37 0.34
51 35 0.32
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACAAGTGACCAATTATCCG
Found at i:37715791 original size:49 final size:51
Alignment explanation
Indices: 37715735--37715968 Score: 253
Period size: 51 Copynumber: 4.7 Consensus size: 51
37715725 CTGGTACGCA
**
37715735 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGAT-CACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGTTATCTGATACACG
* * * * * * * *
37715784 TAGTAGCCTGCACTTAGTACTACACATGTAATCAAAGTTATCGGGTACCCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGTTATCTGATACACG
* * * * * *
37715835 TAGTAGCCTACACTTAGTACTACACACGTAATCGAAGTTATC-GAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGTTATCTGA-TACACG
* * *
37715886 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AA-TTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGTTATCTGATACACG
37715935 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
37715969 CACAATAGAT
Statistics
Matches: 155, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
49 72 0.46
50 9 0.06
51 74 0.48
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGTTATCTGATACACG
Found at i:37715862 original size:100 final size:99
Alignment explanation
Indices: 37715722--37715968 Score: 311
Period size: 100 Copynumber: 2.5 Consensus size: 99
37715712 TAGACAAGGC
*
37715722 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGA-TCACG-
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCCATC-GAGT-ACGA
*
37715784 TAGTAGCCTGCACTTAGTACTACACATGTAATCAAAGT
64 TAGTAGCCTGCACTTAGTACTACACATGCAA-CAAA-T
* * * * * * **
37715822 TATCGGGTACCCATAGTAGCCTACACTTAGTACTACACACGTAATCGAAGTTATCGAGTACGCAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCCATCGAGTACG-AT
* *
37715887 AGTAGCCTGCACTTAGTACTACACATGCGACCAAT
65 AGTAGCCTGCACTTAGTACTACACATGCAACAAAT
*
37715922 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
37715969 CACAATAGAT
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
100 89 0.71
101 7 0.06
102 29 0.23
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCCATCGAGTACGATA
GTAGCCTGCACTTAGTACTACACATGCAACAAAT
Found at i:37721991 original size:12 final size:12
Alignment explanation
Indices: 37721976--37722006 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37721966 TTCTTTTTGC
37721976 TTTTCAAAGACT
1 TTTTCAAAGACT
*
37721988 TTTTCAAAGGCT
1 TTTTCAAAGACT
37722000 TTTTCAA
1 TTTTCAA
37722007 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGACT
Found at i:37723615 original size:30 final size:30
Alignment explanation
Indices: 37723581--37723677 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
37723571 TAAACTAAAA
37723581 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
37723611 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
37723641 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
37723671 TGAGCTA
1 TGAGCTA
37723678 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:37726556 original size:10 final size:10
Alignment explanation
Indices: 37726541--37726602 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
37726531 TTTGAACCAT
*
37726541 TACCAATTCG
1 TACCAATTCA
*
37726551 TACCAAATACCA
1 TACC-AAT-TCA
*
37726563 TACCATTTCA
1 TACCAATTCA
37726573 TACCAATTCCA
1 TACCAATT-CA
* *
37726584 TACCATTTCG
1 TACCAATTCA
37726594 TACCAATTC
1 TACCAATTC
37726603 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:37726586 original size:21 final size:21
Alignment explanation
Indices: 37726541--37726603 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
37726531 TTTGAACCAT
* *
37726541 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
37726563 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
37726584 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
37726604 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:37729260 original size:13 final size:13
Alignment explanation
Indices: 37729242--37729266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37729232 TAAAAACTAA
37729242 AAATTAACTAAGT
1 AAATTAACTAAGT
37729255 AAATTAACTAAG
1 AAATTAACTAAG
37729267 AAAGTAAAAA
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:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
AAATTAACTAAGT
Found at i:37737068 original size:19 final size:19
Alignment explanation
Indices: 37737044--37737083 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37737034 AGCTCCCATG
37737044 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
37737063 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
37737082 TA
1 TA
37737084 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:37741630 original size:17 final size:18
Alignment explanation
Indices: 37741593--37741630 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
37741583 GATTGAGAGT
* *
37741593 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
37741611 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
37741628 GAA
1 GAA
37741631 GTTGAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:37741643 original size:12 final size:12
Alignment explanation
Indices: 37741612--37741665 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
37741602 TGTGAAACAG
*
37741612 AAAAGAAATTGA
1 AAAAGAAGTTGA
37741624 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
37741636 AAAAGAAG-AGA
1 AAAAGAAGTTGA
*
37741647 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
37741659 AAAAGAA
1 AAAAGAA
37741666 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 25 0.74
13 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:37741648 original size:23 final size:23
Alignment explanation
Indices: 37741622--37741665 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
37741612 AAAAGAAATT
37741622 GAAAAAGAAGTT-GAAAAAGAAGA
1 GAAAAAG-AGTTAGAAAAAGAAGA
*
37741645 GAAAATGAGTTAGAAAAAGAA
1 GAAAAAGAGTTAGAAAAAGAA
37741666 ACAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (23 bp):
GAAAAAGAGTTAGAAAAAGAAGA
Found at i:37741671 original size:22 final size:22
Alignment explanation
Indices: 37741630--37741671 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
37741620 TTGAAAAAGA
*
37741630 AGTTGAAAAAGAAGAGAAAATG
1 AGTTGAAAAAGAAGACAAAATG
37741652 AGTTAGAAAAAGAA-ACAAAA
1 AGTT-GAAAAAGAAGACAAAA
37741672 GAAAAAGACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.64, C:0.02, G:0.21, T:0.12
Consensus pattern (22 bp):
AGTTGAAAAAGAAGACAAAATG
Found at i:37752284 original size:20 final size:20
Alignment explanation
Indices: 37752259--37752313 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
37752249 TGTGGTTCAA
*
37752259 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
37752279 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
37752299 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
37752314 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:37755726 original size:16 final size:15
Alignment explanation
Indices: 37755707--37755736 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37755697 AGTATCAATT
37755707 TTTGATTGGTGATGAC
1 TTTGATTGG-GATGAC
37755723 TTTGATTGGGATGA
1 TTTGATTGGGATGA
37755737 TGGATTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.43
Consensus pattern (15 bp):
TTTGATTGGGATGAC
Found at i:37756648 original size:20 final size:20
Alignment explanation
Indices: 37756623--37756677 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
37756613 TGTGGTTCAA
*
37756623 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
37756643 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
37756663 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
37756678 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:37760514 original size:38 final size:38
Alignment explanation
Indices: 37760417--37760519 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 38
37760407 AGCTTAAAGA
** * *
37760417 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
*
37760455 CCCGCAGGCTTCGAGCTGGTATTATATCAGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
* *
37760493 CCCGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
37760520 TCGGGCCTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
Found at i:37760565 original size:43 final size:43
Alignment explanation
Indices: 37760517--37760843 Score: 546
Period size: 43 Copynumber: 7.6 Consensus size: 43
37760507 GCTGGTATTA
37760517 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
37760560 TATTCGGGCCTTCGTGCTTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
37760603 TATTCGGGACTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
37760646 TATTCGGGCCTTCGTGCCTAGCAGGCTTCCTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
37760689 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
37760732 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
37760775 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGACGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
37760818 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
37760844 GTAATGCCGG
Statistics
Matches: 267, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 267 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:37763929 original size:18 final size:19
Alignment explanation
Indices: 37763908--37763951 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
37763898 CATGTGAACC
* *
37763908 AGAAAAGGAAATTGAA-AA
1 AGAAAAAGAAATTAAAGAA
*
37763926 AGAAAAAGAGATTAAAGAA
1 AGAAAAAGAAATTAAAGAA
37763945 AGAAAAA
1 AGAAAAA
37763952 AGAGTGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.09
Consensus pattern (19 bp):
AGAAAAAGAAATTAAAGAA
Found at i:37765626 original size:39 final size:39
Alignment explanation
Indices: 37765583--37765708 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
37765573 TTTAGTTATT
* * *
37765583 TTAGTTTGTGTCTTTAATTATGTCGTAGTTTGAACATCA
1 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
37765622 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
1 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
* * *
37765661 TTAGCAATGAGTCTTTAATTAAGTCATAATTTGAACATCA
1 TTAG-TATGAGTCTTTAATTATGTCATAGTTTGAACATCA
*
37765701 TTAATATG
1 TTAGTATG
37765709 TGTTCTGCAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 43 0.55
40 35 0.45
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (39 bp):
TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
Found at i:37765687 original size:40 final size:39
Alignment explanation
Indices: 37765592--37765703 Score: 179
Period size: 40 Copynumber: 2.8 Consensus size: 39
37765582 TTTAGTTTGT
* *
37765592 GTCTTTAATTATGTCGTAGTTTGAACATCATTAGTATGA
1 GTCTTTAATTATGTCATAGTTTGAACATCATTAGAATGA
37765631 GTCTTTAATTATGTCATAGTTTGAACATCATTAGCAATGA
1 GTCTTTAATTATGTCATAGTTTGAACATCATTAG-AATGA
* *
37765671 GTCTTTAATTAAGTCATAATTTGAACATCATTA
1 GTCTTTAATTATGTCATAGTTTGAACATCATTA
37765704 ATATGTGTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
39 33 0.49
40 35 0.51
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (39 bp):
GTCTTTAATTATGTCATAGTTTGAACATCATTAGAATGA
Found at i:37765787 original size:50 final size:52
Alignment explanation
Indices: 37765729--37765847 Score: 170
Period size: 50 Copynumber: 2.3 Consensus size: 52
37765719 TTAATAAAGT
* *
37765729 CATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
* *
37765779 CATGCATTATTTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGT
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
* *
37765831 CATGCAATAAGTAACTC
1 CATGCATTATGTAACTC
37765848 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 26 0.43
51 12 0.20
52 22 0.37
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
Found at i:37770471 original size:20 final size:20
Alignment explanation
Indices: 37770448--37770494 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
37770438 AGCTTTGTCC
37770448 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTG
** *
37770468 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
*
37770488 AACTCAA
1 AGCTCAA
37770495 CCGAGCTTAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:37772966 original size:21 final size:21
Alignment explanation
Indices: 37772942--37773009 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
37772932 GATTTTGAAT
37772942 GAAATCGAGAGAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
***** *
37772963 GAAAAT-GAGAGAATCTTGAAT
1 G-AAATCGAGAGAAGAAACAAA
*
37772984 GAAATCGAGAAAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
37773005 GAAAT
1 GAAAT
37773010 TAAAGAAAAA
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.59, C:0.07, G:0.22, T:0.12
Consensus pattern (21 bp):
GAAATCGAGAGAAGAAACAAA
Found at i:37772982 original size:42 final size:42
Alignment explanation
Indices: 37772920--37773008 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
37772910 AGATTATGAG
* * *
37772920 AGAAAATGAGAGGATTTTGAATGAAATCGAGAGAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
37772962 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
37773004 AGAAA
1 AGAAA
37773009 TTAAAGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.56, C:0.06, G:0.24, T:0.15
Consensus pattern (42 bp):
AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
Found at i:37773041 original size:16 final size:17
Alignment explanation
Indices: 37773020--37773067 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
37773010 TAAAGAAAAA
*
37773020 GAAAAAGAGAGTGAG-T
1 GAAAAAGAGAATGAGAT
*
37773036 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGA-T
37773054 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
37773068 AAAAGAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 13 0.48
18 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.12
Consensus pattern (17 bp):
GAAAAAGAGAATGAGAT
Found at i:37773121 original size:18 final size:19
Alignment explanation
Indices: 37773085--37773123 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
37773075 TTTGAGAGAG
*
37773085 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
37773104 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
37773122 AA
1 AA
37773124 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:37774732 original size:20 final size:20
Alignment explanation
Indices: 37774709--37774756 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
37774699 AGCTCTGTCC
37774709 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
37774729 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
*
37774749 AACTCAAC
1 AGCTCAAC
37774757 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:37779589 original size:22 final size:22
Alignment explanation
Indices: 37779561--37779603 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37779551 TATACGCTTC
*
37779561 TCGAATTGTC-AGATCTGAATTG
1 TCGAATTATCAAGAT-TGAATTG
37779583 TCGAATTATCAAGATTGAATT
1 TCGAATTATCAAGATTGAATT
37779604 TCCATAAGTC
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:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (22 bp):
TCGAATTATCAAGATTGAATTG
Found at i:37782055 original size:10 final size:10
Alignment explanation
Indices: 37782042--37782077 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
37782032 AGCTCAACTC
37782042 AGCTCATTTG
1 AGCTCATTTG
* *
37782052 AGCTCGTTTC
1 AGCTCATTTG
37782062 AGCTCATTTG
1 AGCTCATTTG
37782072 AGCTCA
1 AGCTCA
37782078 ACCGAGCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:37782055 original size:20 final size:20
Alignment explanation
Indices: 37782032--37782079 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
37782022 AGCTCTGTCC
37782032 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
***
37782052 AGCTCGTTTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
37782072 AGCTCAAC
1 AGCTCAAC
37782080 CGAGCTTACT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:37782085 original size:20 final size:19
Alignment explanation
Indices: 37782032--37782085 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
37782022 AGCTCTGTCC
37782032 AGCTCAACTCAGCTCATTTG
1 AGCTCAAC-CAGCTCATTTG
***
37782052 AGCTCGTTTCAGCTCATTTG
1 AGCTC-AACCAGCTCATTTG
37782072 AGCTCAACCGAGCT
1 AGCTCAACC-AGCT
37782086 TACTTTCAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (19 bp):
AGCTCAACCAGCTCATTTG
Found at i:37783910 original size:10 final size:10
Alignment explanation
Indices: 37783895--37783921 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
37783885 TACTCCTTCA
37783895 AGCTCAAATC
1 AGCTCAAATC
37783905 AGCTCAAATC
1 AGCTCAAATC
37783915 AGCTCAA
1 AGCTCAA
37783922 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:37784427 original size:42 final size:42
Alignment explanation
Indices: 37784368--37784473 Score: 194
Period size: 42 Copynumber: 2.5 Consensus size: 42
37784358 CATTTAAGCC
*
37784368 TCTTAATTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
37784410 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
37784452 TCTTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
37784474 TATTTAATGA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
42 52 0.84
43 10 0.16
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:37784475 original size:14 final size:14
Alignment explanation
Indices: 37784456--37784500 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
37784446 AACTCATCTT
*
37784456 AGTTTAATTAAATG
1 AGTTTAATTTAATG
37784470 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
37784483 AATTTAATTTAATG
1 AGTTTAATTTAATG
37784497 AGTT
1 AGTT
37784501 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:37785172 original size:29 final size:29
Alignment explanation
Indices: 37785140--37785199 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
37785130 ATAACCAAAC
*
37785140 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
37785169 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
37785198 CT
1 CT
37785200 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:37785192 original size:15 final size:15
Alignment explanation
Indices: 37785146--37785193 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
37785136 AAACCTACAA
*
37785146 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
37785161 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
37785175 AAACTTCATATCCAT
1 AAACTTCATATCCAT
37785190 AAAC
1 AAAC
37785194 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:37792402 original size:22 final size:22
Alignment explanation
Indices: 37792374--37792417 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
37792364 TTTTGAACCA
*
37792374 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCATACCAAATCCC
*
37792396 TTACCATTTCATACCAATTCCC
1 TTACCATTTCATACCAAATCCC
37792418 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.36, G:0.02, T:0.34
Consensus pattern (22 bp):
TTACCATTTCATACCAAATCCC
Found at i:37794583 original size:30 final size:30
Alignment explanation
Indices: 37794549--37794645 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
37794539 TAAACTAAAA
* *
37794549 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAACTCATGAGCTAAAGT
* * * * *
37794579 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAACTCATGAGCTAAAGT
* * *
37794609 TGAGCTAAGGTTTACCTCATGAGTTGAAAG-
1 TGAGCTAAGCTTTAACTCATGAGCT-AAAGT
37794639 TGAGCTA
1 TGAGCTA
37794646 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAACTCATGAGCTAAAGT
Found at i:37797030 original size:4 final size:4
Alignment explanation
Indices: 37797021--37797048 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
37797011 AAGTTTTATT
37797021 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
37797049 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:37801949 original size:19 final size:19
Alignment explanation
Indices: 37801925--37801964 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37801915 AGCTCCCATG
37801925 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
37801944 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
37801963 TA
1 TA
37801965 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:37803227 original size:14 final size:14
Alignment explanation
Indices: 37803205--37803252 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
37803195 ACCTAAACCG
* *
37803205 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
37803219 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
37803233 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
37803247 ACCATT
1 ACCATT
37803253 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Done.