Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 134 of 343
Found at i:45037058 original size:25 final size:25
Alignment explanation
Indices: 45037029--45037076 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
45037019 TTATAAAATG
* * *
45037029 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
45037054 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
45037077 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:45037179 original size:20 final size:20
Alignment explanation
Indices: 45037119--45037179 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
45037109 ATAAACACGG
45037119 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
* *
45037139 CATGTATGATATGCACGTGA
1 TATGTATGATATGCACATGA
45037159 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
45037179 T
1 T
45037180 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:45037565 original size:25 final size:24
Alignment explanation
Indices: 45037228--45037569 Score: 479
Period size: 24 Copynumber: 14.0 Consensus size: 24
45037218 GGAGGAAGTG
*
45037228 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
45037252 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
* *
45037277 CAAAAGGGCTTACGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
45037301 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
45037325 CAAAAGGGCTTATGCCTCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
45037349 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
45037373 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
* *
45037398 TAAAAAGGGCTTACGCCCCAATTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
45037423 TAAAAAGGGCTTATGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
*
45037448 TAAAAAGGGCTTATGCCCTAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
* *
45037473 CAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
45037497 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
45037521 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
45037545 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
45037570 ATGATAAAAC
Statistics
Matches: 294, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
24 169 0.57
25 125 0.43
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:45042196 original size:96 final size:96
Alignment explanation
Indices: 45042027--45042215 Score: 306
Period size: 96 Copynumber: 2.0 Consensus size: 96
45042017 GTTAGCCCTG
* * * * *
45042027 TGAATCTTATTCTCGCTAAGCTCTGTCCAGTACAAGGGTGTTCGGCATTTGCGATCATATAAAGC
1 TGAATCTTATTCTCGCTAAGCTCTGTCCAGTAAAAAGGTGTTCAGCATATGCGACCATATAAAGC
45042092 TTCATACGGTGCCATTTTTATACTCGATCCA
66 TTCATACGGTGCCATTTTTATACTCGATCCA
* *
45042123 TGAATCTTATTCTCGCTAAGCTCTGTCCAGTAAAAAGGTGTTCAGCATATGTGACCGTATAAAGC
1 TGAATCTTATTCTCGCTAAGCTCTGTCCAGTAAAAAGGTGTTCAGCATATGCGACCATATAAAGC
*
45042188 TTCGTACGGTGCCATTTTTATACTCGAT
66 TTCATACGGTGCCATTTTTATACTCGAT
45042216 TGAAAGCTGT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 85 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (96 bp):
TGAATCTTATTCTCGCTAAGCTCTGTCCAGTAAAAAGGTGTTCAGCATATGCGACCATATAAAGC
TTCATACGGTGCCATTTTTATACTCGATCCA
Found at i:45044009 original size:40 final size:40
Alignment explanation
Indices: 45043942--45044198 Score: 297
Period size: 40 Copynumber: 6.5 Consensus size: 40
45043932 ACCCAAGTAT
*
45043942 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
45043981 CCTCGGGTCTTAGCTCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * * *
45044021 CTTCGGGTCTTAGCCCAGATATAATC-GCTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
45044061 CTTCGGGACATAGCCCGAATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
45044101 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
45044141 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
45044181 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
45044199 TTATCATCCG
Statistics
Matches: 179, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 160 0.89
41 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:45044083 original size:80 final size:80
Alignment explanation
Indices: 45043942--45044193 Score: 366
Period size: 80 Copynumber: 3.2 Consensus size: 80
45043932 ACCCAAGTAT
* * * * * * *
45043942 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCCTCGGGTCTTAGCTCGGATATA
1 CTTCGGG-TCTTAGCCCAGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
45044004 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
* *
45044021 CTTCGGGTCTTAGCCCAGATATAATCGCTAGCATAAATGCCTTCGGGACATAGCCCGAATATAGC
1 CTTCGGGTCTTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
45044086 AACTCGCACAAATGC
66 AACTCGCACAAATGC
*
45044101 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
45044166 AACTCGCACAAATGC
66 AACTCGCACAAATGC
*
45044181 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
45044194 TCCGGTTATC
Statistics
Matches: 157, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.07
80 144 0.92
81 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:45047485 original size:17 final size:18
Alignment explanation
Indices: 45047453--45047488 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45047443 TAACACATAC
45047453 AAAATTTTTCTAAAACTT
1 AAAATTTTTCTAAAACTT
*
45047471 AAAATTTTT-TTAAACTT
1 AAAATTTTTCTAAAACTT
45047488 A
1 A
45047489 TACAATGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATTTTTCTAAAACTT
Found at i:45047731 original size:54 final size:54
Alignment explanation
Indices: 45047646--45047748 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
45047636 TAATAAGGCT
* * *
45047646 ACTGACTTAGGTCACATGGCCAGTCACACGCCCGTGTGTCTAACCCGTGTTCGAA
1 ACTGACTTAGGCCACACGGCCAGTCACACGCCCATGTGTCTAA-CCGTGTTCGAA
*
45047701 ACTGACTT-GGCCACACGGCCTAG-CACACGCCCATGTGTGTAACCGTGT
1 ACTGACTTAGGCCACACGGCC-AGTCACACGCCCATGTGTCTAACCGTGT
45047749 GGTCTGCCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
53 6 0.14
54 27 0.63
55 10 0.23
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.22
Consensus pattern (54 bp):
ACTGACTTAGGCCACACGGCCAGTCACACGCCCATGTGTCTAACCGTGTTCGAA
Found at i:45056461 original size:43 final size:44
Alignment explanation
Indices: 45056340--45056504 Score: 103
Period size: 43 Copynumber: 3.9 Consensus size: 44
45056330 AAAGCTCGTA
* * *
45056340 CAATGCCA-AGTCCTAGACGTGGTCTTACATGT-AATCAAATAT
1 CAATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATAT
** * * * **
45056382 TGATGCCACTGTCTCAGACAGGGTCTTATA-CAAAATCAAATA-
1 CAATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATAT
* *
45056424 CAATGTCGAC-GTCCCAGACATGGTCTTACATGTAAATCATAA-GT
1 CAATG-CCACTGTCCCAGACATGGTCTTACATGTAAATCA-AATAT
* ** *
45056468 CGATGCCAAC-GTCCCAGATGTGGTCTTACGTG-AAATC
1 CAATGCC-ACTGTCCCAGACATGGTCTTACATGTAAATC
45056505 TCATATCAGA
Statistics
Matches: 92, Mismatches: 24, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
42 26 0.28
43 39 0.42
44 27 0.29
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
CAATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATAT
Found at i:45065996 original size:28 final size:28
Alignment explanation
Indices: 45065950--45066065 Score: 119
Period size: 28 Copynumber: 4.1 Consensus size: 28
45065940 CACATACCTG
* *
45065950 TATATAGCCCATTAGGCCCAATCTC-TT
1 TATATGGCCCATTAGGCCCAATCACATT
* *
45065977 TCATATGGCCAATTAAGCCCAATCACATT
1 T-ATATGGCCCATTAGGCCCAATCACATT
*
45066006 TATGTGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCC-AATCACATT
* * * *
45066035 CATACGG-TCATTAGGCCCACTCACATT
1 TATATGGCCCATTAGGCCCAATCACATT
45066062 TATA
1 TATA
45066066 GTTATGCTCA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
27 12 0.16
28 45 0.62
29 16 0.22
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (28 bp):
TATATGGCCCATTAGGCCCAATCACATT
Found at i:45066018 original size:56 final size:56
Alignment explanation
Indices: 45065956--45066064 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
45065946 CCTGTATATA
* * *
45065956 GCCCATTAGGCCC-AATCTCTTTCATATGGCCAATTAAGCCCAATCACATTTATGTG
1 GCCCATTAGGCCCAAATCACATTCATACGGCC-ATTAAGCCCAATCACATTTATGTG
* * *
45066012 GCCCATTAGGCCCAAATCACATTCATACGGTCATTAGGCCCACTCACATTTAT
1 GCCCATTAGGCCCAAATCACATTCATACGGCCATTAAGCCCAATCACATTTAT
45066065 AGTTATGCTC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 32 0.70
57 14 0.30
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (56 bp):
GCCCATTAGGCCCAAATCACATTCATACGGCCATTAAGCCCAATCACATTTATGTG
Found at i:45066301 original size:16 final size:16
Alignment explanation
Indices: 45066276--45066310 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45066266 ATACCTAAAC
45066276 TTTTAGCTTTTCGGCA
1 TTTTAGCTTTTCGGCA
* *
45066292 TTTTATCTTTTTGGCA
1 TTTTAGCTTTTCGGCA
45066308 TTT
1 TTT
45066311 CGGCATTTCG
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:0.14, G:0.14, T:0.60
Consensus pattern (16 bp):
TTTTAGCTTTTCGGCA
Found at i:45073779 original size:28 final size:28
Alignment explanation
Indices: 45073754--45073862 Score: 141
Period size: 28 Copynumber: 3.9 Consensus size: 28
45073744 CTGTATATAT
*
45073754 CCCATTAGGCCCAATCTC-TTTCATATGG
1 CCCATTAGGCCCAATCACATTT-ATATGG
*
45073782 CCCATTAGGCCCAATCACATTTATGTGG
1 CCCATTAGGCCCAATCACATTTATATGG
* *
45073810 CCCATTAGGCCCAAATCACATTCATACGG
1 CCCATTAGGCCC-AATCACATTTATATGG
*
45073839 -TCATTAGGCCCAATCACATTTATA
1 CCCATTAGGCCCAATCACATTTATA
45073863 GTTATGCTCA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
27 12 0.17
28 44 0.61
29 16 0.22
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (28 bp):
CCCATTAGGCCCAATCACATTTATATGG
Found at i:45073815 original size:56 final size:56
Alignment explanation
Indices: 45073754--45073861 Score: 164
Period size: 56 Copynumber: 1.9 Consensus size: 56
45073744 CTGTATATAT
* * *
45073754 CCCATTAGGCCC-AATCTCTTTCATATGGCCCATTAGGCCCAATCACATTTATGTGG
1 CCCATTAGGCCCAAATCACATTCATACGG-CCATTAGGCCCAATCACATTTATGTGG
*
45073810 CCCATTAGGCCCAAATCACATTCATACGGTCATTAGGCCCAATCACATTTAT
1 CCCATTAGGCCCAAATCACATTCATACGGCCATTAGGCCCAATCACATTTAT
45073862 AGTTATGCTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
56 34 0.72
57 13 0.28
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.29
Consensus pattern (56 bp):
CCCATTAGGCCCAAATCACATTCATACGGCCATTAGGCCCAATCACATTTATGTGG
Found at i:45076530 original size:42 final size:42
Alignment explanation
Indices: 45076459--45076554 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
45076449 ACGGCTGACC
* ** *
45076459 ACACGCCCGTGTGCTAGCCTGTGTGACACACACGACCAATAG
1 ACACGCCCGTGTGCCAGCCCATGTCACACACACGACCAATAG
*
45076501 ACACGCCCGTGTGCCAGCCCATGTCACACACATGACCAATAG
1 ACACGCCCGTGTGCCAGCCCATGTCACACACACGACCAATAG
45076543 ACACGCCCGTGT
1 ACACGCCCGTGT
45076555 CTCTAGGCCG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.26, C:0.36, G:0.22, T:0.16
Consensus pattern (42 bp):
ACACGCCCGTGTGCCAGCCCATGTCACACACACGACCAATAG
Found at i:45078740 original size:38 final size:37
Alignment explanation
Indices: 45078649--45078766 Score: 121
Period size: 38 Copynumber: 3.1 Consensus size: 37
45078639 TTTAAACTCA
* *
45078649 GATATAATACCAGCACTAGGCCTGCGGGATTTAACCCG
1 GATATAATTCCAGCA-TAAGCCTGCGGGATTTAACCCG
* *
45078687 GATAT-ATTACTAGCATGAAGCCTGTGGGATTTAACCCG
1 GATATAATT-CCAGCAT-AAGCCTGCGGGATTTAACCCG
* *
45078725 GATATAATTCCAGCATATTGCCTGCGGGTCTTTAAGCCCG
1 GATATAATTCCAGCATA-AGCCTGCGGG-ATTTAA-CCCG
45078765 GA
1 GA
45078767 AACACATCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
37 4 0.06
38 48 0.73
39 8 0.12
40 6 0.09
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (37 bp):
GATATAATTCCAGCATAAGCCTGCGGGATTTAACCCG
Found at i:45082480 original size:57 final size:58
Alignment explanation
Indices: 45082411--45082521 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 58
45082401 GTGCCCACTG
*
45082411 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATT
* * * * *
45082468 ACCGATTTCGCACATATTGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTC
45082522 TAATCATTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 27 0.57
58 20 0.43
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATT
Found at i:45082736 original size:43 final size:43
Alignment explanation
Indices: 45082687--45082937 Score: 387
Period size: 43 Copynumber: 5.9 Consensus size: 43
45082677 CACTGGCATT
** * *
45082687 AAGCCTGCTAGGCATGAAGACCCGAATACACATCACTGGCACG
1 AAGCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACG
* * *
45082730 GAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACG
1 AAGCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACG
*
45082773 AAGCCTGCTAGGCACAAAGGCCCGAATACCCATCACCGGCACG
1 AAGCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACG
* *
45082816 AAGCCTGCTAGGTACAAAGGCCCGAATACTCATCACCGGCACG
1 AAGCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACG
*
45082859 AAGCCTGCTAGGCACAAAGGCCCGAATACACATCA-CTGCACG
1 AAGCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACG
*
45082901 AAACCTGCTAGGCACAAAGGCCCGAATACACATCACC
1 AAGCCTGCTAGGCACAAAGGCCCGAATACACATCACC
45082938 AAGTTTCATG
Statistics
Matches: 192, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
42 40 0.21
43 152 0.79
ACGTcount: A:0.32, C:0.34, G:0.22, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACG
Found at i:45084586 original size:38 final size:38
Alignment explanation
Indices: 45084533--45084652 Score: 125
Period size: 38 Copynumber: 3.1 Consensus size: 38
45084523 TTTAAACTTA
* *
45084533 GATATAATACCAGCACTAGGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
* * *
45084571 GATATATTACTAGCACGAAGCCTGTGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
* * * *
45084609 TATATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCG
45084649 GATA
1 GATA
45084653 CACATCAAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
37 1 0.02
38 53 0.80
39 5 0.08
40 7 0.11
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (38 bp):
GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
Found at i:45089205 original size:29 final size:29
Alignment explanation
Indices: 45089133--45089257 Score: 173
Period size: 29 Copynumber: 4.3 Consensus size: 29
45089123 AAGTCTACAT
* *
45089133 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
45089161 TCATTCATATGTCCCATTAGGCTCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
45089190 ATATT-AGTATGGCCCATTAGGCCCAAATC
1 ACATTCA-TATGGCCCATTAGGCCCAAATC
45089219 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
45089248 ACATTCATAT
1 ACATTCATAT
45089258 ACATGCTTTC
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
28 20 0.24
29 63 0.75
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:45089337 original size:17 final size:18
Alignment explanation
Indices: 45089315--45089348 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45089305 TACCTATTAT
45089315 GGGCCCA-ATAGCCCATC
1 GGGCCCACATAGCCCATC
*
45089332 GGGCCCACTTAGCCCAT
1 GGGCCCACATAGCCCAT
45089349 TCTGGCCCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.15
Consensus pattern (18 bp):
GGGCCCACATAGCCCATC
Found at i:45097859 original size:90 final size:90
Alignment explanation
Indices: 45097753--45097919 Score: 262
Period size: 90 Copynumber: 1.9 Consensus size: 90
45097743 TAACTACTAT
* * * **
45097753 GGAATCATTTTCAATTTCGATATGGGTAATATTAAGCTATACAGCAAGCATAAGATTATTTCTAT
1 GGAATCACTTTCAATTTCGATACGGGTAATATTAAGCTATAAAGCAAGCATAAGACCATTTCTAT
45097818 TTGTCCAGAATTAAACCACCACCAC
66 TTGTCCAGAATTAAACCACCACCAC
* *
45097843 GGAATCACTTTCAATTTCGATACGTGTAATATTAAGTTATAAAGCAAGCATAAGACCATTTCTAT
1 GGAATCACTTTCAATTTCGATACGGGTAATATTAAGCTATAAAGCAAGCATAAGACCATTTCTAT
*
45097908 TTGTCCATAATT
66 TTGTCCAGAATT
45097920 CCATCTCAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 69 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (90 bp):
GGAATCACTTTCAATTTCGATACGGGTAATATTAAGCTATAAAGCAAGCATAAGACCATTTCTAT
TTGTCCAGAATTAAACCACCACCAC
Found at i:45098411 original size:18 final size:19
Alignment explanation
Indices: 45098375--45098412 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
45098365 ATTAATACTA
* *
45098375 TTAAAGTTTTTTATTAAAT
1 TTAAAGTTTATTATAAAAT
45098394 TTAAA-TTTATTATAAAAT
1 TTAAAGTTTATTATAAAAT
45098412 T
1 T
45098413 ATTTTTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTAAAGTTTATTATAAAAT
Found at i:45101818 original size:19 final size:17
Alignment explanation
Indices: 45101782--45101821 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
45101772 AAAAGATTTT
*
45101782 TTTAAAAATATATATAA
1 TTTAAAAATAAATATAA
45101799 TTTAAATAATAAATTATAA
1 TTTAAA-AATAAA-TATAA
45101818 TTTA
1 TTTA
45101822 GGTATCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTAAAAATAAATATAA
Found at i:45104816 original size:40 final size:40
Alignment explanation
Indices: 45104779--45105041 Score: 306
Period size: 40 Copynumber: 6.6 Consensus size: 40
45104769 GCTACTCGTT
*
45104779 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
45104819 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
45104859 CAAATTCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
45104899 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
45104939 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
45104978 CAAATGCCTTC-GGATCTTAGTCC-GATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
45105018 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
45105042 ACATCATTCA
Statistics
Matches: 190, Mismatches: 22, Indels: 22
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 51 0.27
40 133 0.70
41 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:45104878 original size:80 final size:80
Alignment explanation
Indices: 45104779--45105041 Score: 356
Period size: 80 Copynumber: 3.3 Consensus size: 80
45104769 GCTACTCGTT
45104779 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
45104844 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
*
45104859 CAAATTCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
45104924 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* * * * **
45104939 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
* * * *
45105001 -GATATGGTCACTTAGCA
64 GGATTTAGTAAC-TCGCA
*
45105018 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACATAGCCCGG
45105042 ACATCATTCA
Statistics
Matches: 167, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
78 21 0.13
79 54 0.32
80 92 0.55
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:45108116 original size:76 final size:76
Alignment explanation
Indices: 45107975--45108118 Score: 166
Period size: 76 Copynumber: 1.9 Consensus size: 76
45107965 AACAAAAGTC
* * * * * *
45107975 TTAAATGATGCTAATGTATTAATGCAAAGCATTAACTAAAGACACATTCAATAAATAAGAAACAT
1 TTAAAAGATGCTAATGTAGTAATGCAAAACATTAAATAAAGACACATTCAACAAAAAAGAAACAT
45108040 AATACACATTT
66 AATACACATTT
** * *
45108051 TTAAAAGATG-TAGATGTAGTAATGCAAAACATTAAATAAAGATGCATTTAACAAACAAAG-CAC
1 TTAAAAGATGCTA-ATGTAGTAATGCAAAACATTAAATAAAGACACATTCAACAAA-AAAGAAAC
45108114 ATAAT
64 ATAAT
45108119 GAAGTAGATC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
75 2 0.04
76 51 0.91
77 3 0.05
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.27
Consensus pattern (76 bp):
TTAAAAGATGCTAATGTAGTAATGCAAAACATTAAATAAAGACACATTCAACAAAAAAGAAACAT
AATACACATTT
Found at i:45108209 original size:28 final size:28
Alignment explanation
Indices: 45108169--45108227 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
45108159 CACTTAATTA
45108169 AAAATTGAAGAGTTTGTTCAAACTAACC
1 AAAATTGAAGAGTTTGTTCAAACTAACC
*
45108197 AAAATTGAAGAGTTTGTTCAAACTAATC
1 AAAATTGAAGAGTTTGTTCAAACTAACC
45108225 AAA
1 AAA
45108228 CTATCACATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.29
Consensus pattern (28 bp):
AAAATTGAAGAGTTTGTTCAAACTAACC
Found at i:45110989 original size:27 final size:27
Alignment explanation
Indices: 45110952--45111049 Score: 151
Period size: 27 Copynumber: 3.6 Consensus size: 27
45110942 CATACCTGAA
* *
45110952 CCCTTATGTGATAAAATGATGATTTTG
1 CCCTTATGTGATAAAATAACGATTTTG
* *
45110979 CCCTAAGGTGATAAAATAACGATTTTG
1 CCCTTATGTGATAAAATAACGATTTTG
45111006 CCCTTATGTGATAAAATAACGATTTTG
1 CCCTTATGTGATAAAATAACGATTTTG
*
45111033 CCCTTATATGATAAAAT
1 CCCTTATGTGATAAAAT
45111050 GACCGAAATA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (27 bp):
CCCTTATGTGATAAAATAACGATTTTG
Found at i:45111074 original size:27 final size:27
Alignment explanation
Indices: 45111044--45111240 Score: 207
Period size: 27 Copynumber: 7.3 Consensus size: 27
45111034 CCTTATATGA
45111044 TAAAATGACCGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* *
45111071 TAAAATGATCGAAA-ACCCCCATAAGG
1 TAAAATGACCGAAATACCCCCATAGGG
*
45111097 TAAAATGACCAAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* * * *
45111124 TAAAATGATCGAAATACCGCTATAAGG
1 TAAAATGACCGAAATACCCCCATAGGG
* * * *
45111151 TAAAACGACTGTAATACCCCTATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* * **
45111178 TAAAATGACTGTAATACCCCTGTAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* * ** *
45111205 TAAAATGACTGTAATACCCCGGTAAGG
1 TAAAATGACCGAAATACCCCCATAGGG
45111232 TAAAATGAC
1 TAAAATGAC
45111241 AGATTTGTTC
Statistics
Matches: 149, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 23 0.15
27 126 0.85
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGG
Found at i:45111176 original size:54 final size:54
Alignment explanation
Indices: 45111044--45111239 Score: 234
Period size: 54 Copynumber: 3.6 Consensus size: 54
45111034 CCTTATATGA
* * *
45111044 TAAAATGACCGAAATACCCCCATAGGGTAAAATGATCGAAA-ACCCCCATAAGG
1 TAAAATGACTGTAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAAGG
*** *
45111097 TAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCGCTATAAGG
1 TAAAATGACTGTAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAAGG
* * * * *
45111151 TAAAACGACTGTAATACCCCTATAGGGTAAAATGA-CTGTAATACCCCTGTAGGG
1 TAAAATGACTGTAATACCCCCATAGGGTAAAATGATC-GAAATACCCCTATAAGG
** *
45111205 TAAAATGACTGTAATACCCCGGTAAGGTAAAATGA
1 TAAAATGACTGTAATACCCCCATAGGGTAAAATGA
45111240 CAGATTTGTT
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
53 41 0.33
54 84 0.67
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (54 bp):
TAAAATGACTGTAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAAGG
Found at i:45111318 original size:23 final size:23
Alignment explanation
Indices: 45111275--45111324 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
45111265 CTATATTTGA
45111275 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
45111298 GCAT-CCATGTATATTAT-TATGTT
1 GCATGCCATGT-TA-TATGTATGTT
45111321 GCAT
1 GCAT
45111325 TGCATGGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:45113265 original size:43 final size:43
Alignment explanation
Indices: 45113217--45113300 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
45113207 AAGTAAAGCT
45113217 AATAATAGAGCATTGGTGAGTCGTTCTTTTATCAAATTAAAGG
1 AATAATAGAGCATTGGTGAGTCGTTCTTTTATCAAATTAAAGG
*
45113260 AATAATGGAGCATTGGTGAGTCGTTCTTTTATCAAATTAAA
1 AATAATAGAGCATTGGTGAGTCGTTCTTTTATCAAATTAAA
45113301 TGACTTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.36
Consensus pattern (43 bp):
AATAATAGAGCATTGGTGAGTCGTTCTTTTATCAAATTAAAGG
Found at i:45114420 original size:23 final size:23
Alignment explanation
Indices: 45114394--45114457 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
45114384 TACCTTAAAC
45114394 TCCTTTTTCTTTTTATTTCTCTT
1 TCCTTTTTCTTTTTATTTCTCTT
*
45114417 TCCTTTTTCTTTTTATTGCTCTT
1 TCCTTTTTCTTTTTATTTCTCTT
* *
45114440 TTCTTTTTCTTTTGATTT
1 TCCTTTTTCTTTTTATTT
45114458 TGTTTTTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.05, C:0.19, G:0.03, T:0.73
Consensus pattern (23 bp):
TCCTTTTTCTTTTTATTTCTCTT
Found at i:45114464 original size:23 final size:22
Alignment explanation
Indices: 45114396--45114464 Score: 52
Period size: 23 Copynumber: 3.0 Consensus size: 22
45114386 CCTTAAACTC
* *
45114396 CTTTTTCTTTTTATTTCT-CTTTC
1 CTTTTTC-TTTTATTT-TGTTTTT
*
45114419 CTTTTTCTTTT-TATTGCTCTTTT
1 CTTTTTCTTTTATTTTG-T-TTTT
45114442 CTTTTTCTTTTGATTTTGTTTTT
1 CTTTTTCTTTT-ATTTTGTTTTT
45114465 TCACTCTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
20 1 0.03
21 2 0.05
22 4 0.11
23 25 0.68
24 1 0.03
25 4 0.11
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.75
Consensus pattern (22 bp):
CTTTTTCTTTTATTTTGTTTTT
Found at i:45116813 original size:46 final size:46
Alignment explanation
Indices: 45116763--45116934 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
45116753 TGGTTGAGCA
45116763 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
45116809 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAATG
45116855 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
45116901 -CTTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45116935 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 94 0.88
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45116917 original size:92 final size:92
Alignment explanation
Indices: 45116760--45116929 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 92
45116750 GGATGGTTGA
45116760 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
45116825 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
* *
45116852 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CTTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC-CGAACTCGTTGAG
45116916 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
45116930 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 1 0.01
92 74 0.99
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:45124367 original size:46 final size:46
Alignment explanation
Indices: 45124317--45124489 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
45124307 TGGTTGAGCA
45124317 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
45124363 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
45124408 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
45124456 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45124490 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45124473 original size:93 final size:93
Alignment explanation
Indices: 45124314--45124484 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
45124304 GGATGGTTGA
* *
45124314 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45124379 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
45124407 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45124472 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45124485 ACTTAGGGGC
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:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:45127171 original size:25 final size:25
Alignment explanation
Indices: 45127137--45127187 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
45127127 CGGATTCAAG
45127137 AAGAGAGACTGTGGTAAGTGTTCGT
1 AAGAGAGACTGTGGTAAGTGTTCGT
45127162 AAGAGAGACTGTGGTAAGTGTTCGT
1 AAGAGAGACTGTGGTAAGTGTTCGT
45127187 A
1 A
45127188 CTCTAAAGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.35, T:0.27
Consensus pattern (25 bp):
AAGAGAGACTGTGGTAAGTGTTCGT
Found at i:45128226 original size:26 final size:26
Alignment explanation
Indices: 45128189--45128262 Score: 121
Period size: 26 Copynumber: 2.8 Consensus size: 26
45128179 GAGGAAGTCT
45128189 AAAAAGGGCTTTTACCCCAGTTTACC
1 AAAAAGGGCTTTTACCCCAGTTTACC
* * *
45128215 GAAAAGGGCTTTTTCCCCAGTTTATC
1 AAAAAGGGCTTTTACCCCAGTTTACC
45128241 AAAAAGGGCTTTTACCCCAGTT
1 AAAAAGGGCTTTTACCCCAGTT
45128263 ACTAAAAGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (26 bp):
AAAAAGGGCTTTTACCCCAGTTTACC
Found at i:45131954 original size:29 final size:29
Alignment explanation
Indices: 45131921--45132036 Score: 137
Period size: 29 Copynumber: 4.1 Consensus size: 29
45131911 TCTCATTTAG
* *
45131921 ATGGCCCATCATGCCCAATTCACGTTCAT
1 ATGGCCCATCAGGCCCAATTCACATTCAT
45131950 ATGGCCCATCAGGCCCAATTCACATTCAT
1 ATGGCCCATCAGGCCCAATTCACATTCAT
* * * *
45131979 ATGGCCCATTAGGCCCAA-CCTCATTTAT
1 ATGGCCCATCAGGCCCAATTCACATTCAT
** *
45132007 ATGGCCCATTTGGCCCAAATCACATT-AT
1 ATGGCCCATCAGGCCCAATTCACATTCAT
45132035 AT
1 AT
45132037 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 28 0.36
29 49 0.64
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
ATGGCCCATCAGGCCCAATTCACATTCAT
Found at i:45132012 original size:28 final size:28
Alignment explanation
Indices: 45131902--45132024 Score: 122
Period size: 29 Copynumber: 4.3 Consensus size: 28
45131892 TATGACCCTC
* * *
45131902 TAGGCCAAATCTCATTTAGATGGCCCAT
1 TAGGCCCAATCTCATTCATATGGCCCAT
* *
45131930 CATGCCCAAT-TCACGTTCATATGGCCCAT
1 TAGGCCCAATCTCA--TTCATATGGCCCAT
* *
45131959 CAGGCCCAATTCACATTCATATGGCCCAT
1 TAGGCCCAA-TCTCATTCATATGGCCCAT
* *
45131988 TAGGCCCAACCTCATTTATATGGCCCAT
1 TAGGCCCAATCTCATTCATATGGCCCAT
*
45132016 TTGGCCCAA
1 TAGGCCCAA
45132025 ATCACATTAT
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
27 3 0.04
28 31 0.39
29 42 0.53
30 1 0.01
31 2 0.03
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
TAGGCCCAATCTCATTCATATGGCCCAT
Found at i:45132275 original size:16 final size:16
Alignment explanation
Indices: 45132254--45132290 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
45132244 AAACTTTTAA
* *
45132254 CTTTTCGGCATTTCGG
1 CTTTTCGACATTTCAG
45132270 CTTTTCGACATTTCAG
1 CTTTTCGACATTTCAG
45132286 CTTTT
1 CTTTT
45132291 GCCGATTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.24, G:0.16, T:0.49
Consensus pattern (16 bp):
CTTTTCGACATTTCAG
Found at i:45135879 original size:20 final size:20
Alignment explanation
Indices: 45135854--45135892 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
45135844 GGGACTAAAT
*
45135854 CAAACACATATAAAAATTTC
1 CAAACACATAAAAAAATTTC
45135874 CAAACACATAAAAAAATTT
1 CAAACACATAAAAAAATTT
45135893 TCATGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.23
Consensus pattern (20 bp):
CAAACACATAAAAAAATTTC
Found at i:45145916 original size:79 final size:80
Alignment explanation
Indices: 45145799--45145980 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
45145789 GCTACTCGTT
* **
45145799 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTT-GGGATCTTAACCCG
* *
45145863 GATTTAGTAAC-TCGCA
65 GATAT-GTAACTTAGCA
* * **
45145879 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTTGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTGGGATCTTAACCCG
*
45145942 GATATGTCACTTAGCA
65 GATATGTAACTTAGCA
45145958 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
45145981 GACATCATTC
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
78 17 0.19
79 55 0.62
80 16 0.18
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTGGGATCTTAACCCGG
ATATGTAACTTAGCA
Found at i:45145982 original size:39 final size:40
Alignment explanation
Indices: 45145780--45145982 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
45145770 CAGAATTTAA
** *
45145780 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45145820 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
45145860 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
45145899 CCAGA-ATTAGTATCTCGCACAAATGCCTT-TGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
45145939 CCGGATAT-GTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
45145978 CCGGA
1 CCGGA
45145983 CATCATTCGA
Statistics
Matches: 137, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.01
39 49 0.36
40 85 0.62
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45147479 original size:56 final size:56
Alignment explanation
Indices: 45147412--45147527 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
45147402 AGTTTATTGT
45147412 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
*
45147468 CCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
45147524 CCAT
1 CCAT
45147528 CACCCTTTGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
Found at i:45153464 original size:30 final size:29
Alignment explanation
Indices: 45153391--45153473 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 29
45153381 AGCTCACGAG
*
45153391 CTAAACCTTAGCTCAACTTCAGCTTAGGA
1 CTAAACCTTAGCTCAACTTTAGCTTAGGA
* * * *
45153420 GTATAATCTCAGCTCAACTTTAGCTTAAGGC
1 CTA-AACCTTAGCTCAACTTTAGCTT-AGGA
* *
45153451 CTAAAGCTTAGCTC-ATTTTAGCT
1 CTAAACCTTAGCTCAACTTTAGCT
45153474 CAAACCCGGT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 10 0.23
30 28 0.65
31 5 0.12
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (29 bp):
CTAAACCTTAGCTCAACTTTAGCTTAGGA
Found at i:45154288 original size:22 final size:20
Alignment explanation
Indices: 45154256--45154304 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
45154246 GCCAAATTTA
45154256 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
45154279 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
45154299 TGAACA
1 TGAACA
45154305 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:45154982 original size:15 final size:16
Alignment explanation
Indices: 45154964--45155003 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
45154954 AAAAATGTAT
45154964 ATAAAAAAA-TTAGAA
1 ATAAAAAAATTTAGAA
*
45154979 ATAAAAAAATTTCGAA
1 ATAAAAAAATTTAGAA
45154995 ATAAAAAAA
1 ATAAAAAAA
45155004 GGTGTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (16 bp):
ATAAAAAAATTTAGAA
Found at i:45159539 original size:19 final size:19
Alignment explanation
Indices: 45159501--45159547 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
45159491 AAACAGAGAA
45159501 AAGAAAAGAAAAAGCAAAAT
1 AAGAAAA-AAAAAGCAAAAT
45159521 AAGAAAAACAAAA-CAAAAT
1 AAGAAAAA-AAAAGCAAAAT
45159540 AA-AAAAAA
1 AAGAAAAAA
45159548 GATAGGCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 9 0.35
20 11 0.42
ACGTcount: A:0.81, C:0.06, G:0.09, T:0.04
Consensus pattern (19 bp):
AAGAAAAAAAAAGCAAAAT
Found at i:45159629 original size:11 final size:12
Alignment explanation
Indices: 45159597--45159627 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
45159587 TTGAGAGAAC
45159597 TTGAAAAAGCCT
1 TTGAAAAAGCCT
45159609 TTGAAAAAGCCT
1 TTGAAAAAGCCT
45159621 TTGAAAA
1 TTGAAAA
45159628 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:45159664 original size:30 final size:31
Alignment explanation
Indices: 45159630--45159710 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 31
45159620 TTTGAAAAGC
*
45159630 AAAAAGAAAAAGAAAAAGAAAAT-GAGATTG
1 AAAAAGAAAAAGAAAAAGAAAATCGAGAGTG
* * *
45159660 AAAAAGAGAACG-AAAAGAAATTCGAGAGTG
1 AAAAAGAAAAAGAAAAAGAAAATCGAGAGTG
**
45159690 AAAAAGAAATTGAAAAAGAAA
1 AAAAAGAAAAAGAAAAAGAAA
45159711 TTGAAACAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 9 0.21
30 25 0.60
31 8 0.19
ACGTcount: A:0.67, C:0.02, G:0.21, T:0.10
Consensus pattern (31 bp):
AAAAAGAAAAAGAAAAAGAAAATCGAGAGTG
Found at i:45159705 original size:12 final size:12
Alignment explanation
Indices: 45159688--45159716 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
45159678 AATTCGAGAG
45159688 TGAAAAAGAAAT
1 TGAAAAAGAAAT
45159700 TGAAAAAGAAAT
1 TGAAAAAGAAAT
45159712 TGAAA
1 TGAAA
45159717 CAAAAGAAAC
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:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (12 bp):
TGAAAAAGAAAT
Found at i:45165006 original size:18 final size:18
Alignment explanation
Indices: 45164983--45165019 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
45164973 TTCTTGATCA
45164983 GAAACATAAAGAGTTTCT
1 GAAACATAAAGAGTTTCT
45165001 GAAACATAAAGAGTTTCT
1 GAAACATAAAGAGTTTCT
45165019 G
1 G
45165020 GAATTGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (18 bp):
GAAACATAAAGAGTTTCT
Found at i:45173870 original size:27 final size:27
Alignment explanation
Indices: 45173811--45173922 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
45173801 CAGCATGGCT
* * * *
45173811 ACCAGAACTGATAA-TGTGACAGTGTC
1 ACCAGAACAGATAATTGTGGCAGAGCC
*
45173837 ACTAGAACAGATAATTGTGGCAGAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
*
45173864 ACCAGAACAGAT-ATATGTGGCAGTGCC
1 ACCAGAACAGATAAT-TGTGGCAGAGCC
** *
45173891 ACCAGATTAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
45173918 ACCAG
1 ACCAG
45173923 GATGCTTCCT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 14 0.19
27 56 0.78
28 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
ACCAGAACAGATAATTGTGGCAGAGCC
Found at i:45173903 original size:54 final size:53
Alignment explanation
Indices: 45173811--45173922 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 53
45173801 CAGCATGGCT
* * *
45173811 ACCAGAACTGATAATGTGACAGTGTCACTAGAACAGATAATTGTGGCAGAGCC
1 ACCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCC
* ** *
45173864 ACCAGAACAGATATATGTGGCAGTGCCACCAGATTAGATAATTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCC
45173918 ACCAG
1 ACCAG
45173923 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 12 0.24
54 39 0.76
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (53 bp):
ACCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCC
Found at i:45174478 original size:17 final size:18
Alignment explanation
Indices: 45174439--45174480 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
45174429 TCCACGCACG
*
45174439 AACTACCTACATTTATAT
1 AACTACCTACATTAATAT
* *
45174457 TACTACC-ACATTAATCT
1 AACTACCTACATTAATAT
45174474 AACTACC
1 AACTACC
45174481 GAAATGAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (18 bp):
AACTACCTACATTAATAT
Found at i:45175393 original size:24 final size:24
Alignment explanation
Indices: 45175354--45175455 Score: 159
Period size: 24 Copynumber: 4.2 Consensus size: 24
45175344 GCCAACACCG
*
45175354 TTCTCCCTAATCAGCTCCTAAATC
1 TTCTCCCTTATCAGCTCCTAAATC
* *
45175378 TTCTCCCTTATGAGCTCCTACATC
1 TTCTCCCTTATCAGCTCCTAAATC
*
45175402 CTCTCCCTTATCAGCTCCTAAATC
1 TTCTCCCTTATCAGCTCCTAAATC
*
45175426 CTCTCCCTTATCAGCTCCTAAATC
1 TTCTCCCTTATCAGCTCCTAAATC
45175450 TTCTCC
1 TTCTCC
45175456 TGACAGCCTT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.20, C:0.40, G:0.05, T:0.35
Consensus pattern (24 bp):
TTCTCCCTTATCAGCTCCTAAATC
Found at i:45181763 original size:27 final size:26
Alignment explanation
Indices: 45181709--45181792 Score: 107
Period size: 27 Copynumber: 3.2 Consensus size: 26
45181699 AGCATAGCTG
* *
45181709 CCAGAACAGATAATGTGACAGTGTCA
1 CCAGAACAGATAATGTGGCAGTGCCA
45181735 CCAGAACAGATATATGTGGCAGTGCCA
1 CCAGAACAGATA-ATGTGGCAGTGCCA
*
45181762 CCAGATCAGATAATTGTGGCA-TAGCCA
1 CCAGAACAGATAA-TGTGGCAGT-GCCA
45181789 CCAG
1 CCAG
45181793 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 14 0.27
27 38 0.73
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGTGCCA
Found at i:45183259 original size:24 final size:24
Alignment explanation
Indices: 45183224--45183324 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
45183214 CCAACACCGT
*
45183224 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
45183248 TCTCCCTTATCAGCTCCTACATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
45183272 TCTCCCTTATCAGCTCCTAAATCA
1 TCTCCCTTATCAGCTCCTAAATCC
* *
45183296 TCTCCCTTATCAACTCCTAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
45183320 TCTCC
1 TCTCC
45183325 TGACAGCCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.22, C:0.42, G:0.03, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:45188065 original size:38 final size:38
Alignment explanation
Indices: 45188011--45188247 Score: 348
Period size: 38 Copynumber: 6.2 Consensus size: 38
45188001 TCGAAATATG
* *
45188011 ATATTCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
45188049 ATATCCGGATTCAATCCCGCAGGCTTTGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
45188087 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
45188125 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
45188163 ATATCCAGGTTAAATCCCGCAGGCTTCGTGCTAGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * *
45188201 ATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
45188239 ATATTCGGG
1 ATATCCGGG
45188248 CCTTTGAGCC
Statistics
Matches: 179, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 179 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:45188337 original size:45 final size:45
Alignment explanation
Indices: 45188241--45188368 Score: 160
Period size: 46 Copynumber: 2.9 Consensus size: 45
45188231 CTGGTATTAT
* * *
45188241 ATTCGGGCCTTT-GAGCCTAGCAGACTATTATGCCGGTGAGACATT
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-ACATG
45188286 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA-ATG
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAACATG
45188330 ATATCGGGCC--TCGAGCCTAGCAGG-TGA-AATGCCGGTGAA
1 AT-TCGGGCCTTTCGAGCCTAGCAGGCT-ATAATGCCGGTGAA
45188369 TGAATAAAAG
Statistics
Matches: 77, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
42 13 0.17
43 15 0.19
44 4 0.05
45 20 0.26
46 25 0.32
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (45 bp):
ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAACATG
Found at i:45194827 original size:28 final size:29
Alignment explanation
Indices: 45194796--45194860 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
45194786 AAAGTTATTT
* *
45194796 TTGATAAAAATGTCAATT-AGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGGTTAAA
*
45194824 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGGTTAAA
*
45194853 TTGTGAAA
1 TTGAGAAA
45194861 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.42, C:0.02, G:0.26, T:0.31
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGGTTAAA
Found at i:45196804 original size:46 final size:46
Alignment explanation
Indices: 45196737--45196954 Score: 273
Period size: 46 Copynumber: 4.7 Consensus size: 46
45196727 AACCCACCCC
*
45196737 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
45196783 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
45196829 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
45196877 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
45196922 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
45196955 ATGCTCAACC
Statistics
Matches: 149, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 1 0.01
45 1 0.01
46 105 0.70
47 28 0.19
48 3 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:45196916 original size:93 final size:93
Alignment explanation
Indices: 45196788--45196958 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
45196778 ATCCATAAGT
***
45196788 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45196853 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
45196881 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45196946 CGAGTTCGGATGC
66 CGAGTTCGGATGC
45196959 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:45201303 original size:40 final size:39
Alignment explanation
Indices: 45201232--45201336 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 39
45201222 TACCAGCTCG
* * ** *
45201232 TAGCCTGGGGGTCTCT-AGCCCGGATGGCATTCTAGCACGA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAG-A-GA
*
45201272 -AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGAGA
45201310 TAGCCTGCGGGTCTTTAAGCCCGGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
45201337 CAATTCCTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.02
39 40 0.70
40 16 0.28
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.24
Consensus pattern (39 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGAGA
Found at i:45203621 original size:43 final size:42
Alignment explanation
Indices: 45203560--45203724 Score: 124
Period size: 42 Copynumber: 3.8 Consensus size: 42
45203550 CAACGCCAAC
*
45203560 GTCCCAGAC-GTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACAG-GGTCTTACA-GAAATCACATATCGATGCCACT
* * * *
45203603 GTCCCAGATAGGGTCTTACACAAA-CTCATATACGATGCCAAT
1 GTCCCAGACAGGGTCTTACAGAAATCACATAT-CGATGCCACT
* * * *
45203645 GTCCCATACATGGTCTTACACGCAAATCACAAATTGATGCCAAC-
1 GTCCCAGACAGGGTCTTACA-G-AAATCACATATCGATGCC-ACT
*
45203689 GTCCCAGAC-GTGGTCTTGTAC-GAAATCGCATATCGA
1 GTCCCAGACAG-GGTC-T-TACAGAAATCACATATCGA
45203725 AATTCTATGT
Statistics
Matches: 95, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
41 6 0.06
42 28 0.29
43 28 0.29
44 23 0.24
45 7 0.07
46 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACAGAAATCACATATCGATGCCACT
Found at i:45208659 original size:37 final size:37
Alignment explanation
Indices: 45208609--45208680 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
45208599 TTTAGCTCGA
*
45208609 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGGC
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
*
45208646 ATAATCTCCACACGTAGCCATCGGGTCTTACCCGG
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGG
45208681 AATATATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (37 bp):
ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
Found at i:45208874 original size:48 final size:48
Alignment explanation
Indices: 45208814--45208910 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
45208804 TGGCCACAAT
*
45208814 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACACATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
45208862 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACACATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
45208910 A
1 A
45208911 CATTTATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (48 bp):
ATATACACATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:45211795 original size:31 final size:31
Alignment explanation
Indices: 45211718--45211798 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 31
45211708 CAGTCTCGAG
*
45211718 ATATACTGGGCCGAAGCC-TTTCATTAAATG
1 ATATACTGGGCCGAAGCCTTTTCATTAAATC
* *
45211748 AT-TACTGGGCCAAAGCCTTTTCA-TAATTC
1 ATATACTGGGCCGAAGCCTTTTCATTAAATC
*
45211777 ATATCACTGGGCTGAAGCCTTT
1 ATAT-ACTGGGCCGAAGCCTTT
45211799 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 20 0.47
30 8 0.19
31 15 0.35
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (31 bp):
ATATACTGGGCCGAAGCCTTTTCATTAAATC
Found at i:45212048 original size:25 final size:26
Alignment explanation
Indices: 45212020--45212090 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 26
45212010 CTCTTTTAAT
45212020 AACTGGGGCAAAGCCCTTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTTCGATA
*
45212045 AACTGGGGCAAAGCCCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCGATA
* *
45212071 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
45212091 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 21 0.50
26 21 0.50
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:45218413 original size:31 final size:30
Alignment explanation
Indices: 45218332--45218415 Score: 102
Period size: 29 Copynumber: 2.8 Consensus size: 30
45218322 AATCAGTCTC
45218332 AACATATACTGGGCCGAAGCC-TTTCATTA
1 AACATATACTGGGCCGAAGCCTTTTCATTA
*
45218361 AACGAT-TACTCGGCCGAAGCCTTTTCA-TA
1 AAC-ATATACTGGGCCGAAGCCTTTTCATTA
*
45218390 AATCATATCACTGGGCTGAAGCCTTT
1 AA-CATAT-ACTGGGCCGAAGCCTTT
45218416 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 23 0.49
30 9 0.19
31 15 0.32
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (30 bp):
AACATATACTGGGCCGAAGCCTTTTCATTA
Found at i:45218664 original size:25 final size:26
Alignment explanation
Indices: 45218636--45218706 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
45218626 CTCTTATAAT
45218636 AACTGGGGCAAAGCCCTTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTTCGATA
* *
45218661 AACTGGGGAAAAGCCCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCGATA
* * *
45218687 AATTGGGGCATATCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
45218707 GCACTTTCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 20 0.51
26 19 0.49
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:45218779 original size:20 final size:21
Alignment explanation
Indices: 45218752--45218800 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
45218742 ATATATGAAT
45218752 ACATCATGCGCATATCATA-C
1 ACATCATGCGCATATCATATC
* *
45218772 ATATCATGTGCATATCATATC
1 ACATCATGCGCATATCATATC
45218793 ACATCATG
1 ACATCATG
45218801 TATATCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (21 bp):
ACATCATGCGCATATCATATC
Found at i:45218865 original size:25 final size:25
Alignment explanation
Indices: 45218837--45218885 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
45218827 ATAATTAAAC
* * *
45218837 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
45218862 CCTAGGGGCAAAACAGTCATTTTT
1 CCTAGGGGCAAAACAGTCATTTTT
45218886 CATATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:45225144 original size:16 final size:16
Alignment explanation
Indices: 45225123--45225154 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45225113 GTTTAGGGGG
45225123 CCAAAATGTAAATTTT
1 CCAAAATGTAAATTTT
45225139 CCAAAATGTAAATTTT
1 CCAAAATGTAAATTTT
45225155 AGGATGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
CCAAAATGTAAATTTT
Found at i:45225530 original size:42 final size:42
Alignment explanation
Indices: 45225468--45225582 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 42
45225458 ACTGAGATTT
* * *
45225468 ACATGTAAGGCCATATCTGGGATATGGCATCGATATGAG-CC
1 ACATGTAAGACCATATCTGGGATATGGCATCAATATGAGATC
*** * * *
45225509 TTTGTGTAAGACCATAGCTGGGCTATTTGCATCAATATGAGATC
1 -ACATGTAAGACCATATCTGGGATA-TGGCATCAATATGAGATC
45225553 ACATGTAAGACCATATCTGGGATATGGCAT
1 ACATGTAAGACCATATCTGGGATATGGCAT
45225583 TGGTACGGTA
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
42 23 0.41
43 32 0.57
44 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (42 bp):
ACATGTAAGACCATATCTGGGATATGGCATCAATATGAGATC
Found at i:45227992 original size:42 final size:42
Alignment explanation
Indices: 45227945--45228067 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
45227935 CGATATGTGT
45227945 TTTCATGTAAGACCACGTCTGGGACATTGGCATCGTACTTCA
1 TTTCATGTAAGACCACGTCTGGGACATTGGCATCGTACTTCA
* * * *
45227987 TTTCATGTAAGACC-CTGTCTGGGACAGTGGCATCAATATTTGA
1 TTTCATGTAAGACCAC-GTCTGGGACATTGGCATC-GTACTTCA
* * * *
45228030 TTACATGTAAGACTACGTCTGAGACATTGGCATTGTAC
1 TTTCATGTAAGACCACGTCTGGGACATTGGCATCGTAC
45228068 AAGCTTTTCG
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 33 0.49
43 32 0.48
44 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
TTTCATGTAAGACCACGTCTGGGACATTGGCATCGTACTTCA
Found at i:45228061 original size:43 final size:41
Alignment explanation
Indices: 45227948--45228062 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 41
45227938 TATGTGTTTT
* *
45227948 CATGTAAGACCACGTCTGGGACATTGGCATCGTACTTCATTT
1 CATGTAAGA-CACGTCTGGGACATTGGCATCATACTTCATTA
* * * *
45227990 CATGTAAGACCCTGTCTGGGACAGTGGCATCAATATTTGATTA
1 CATGTAAGACAC-GTCTGGGACATTGGCATC-ATACTTCATTA
*
45228033 CATGTAAGACTACGTCTGAGACATTGGCAT
1 CATGTAAGAC-ACGTCTGGGACATTGGCAT
45228063 TGTACAAGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 26 0.43
43 32 0.52
44 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (41 bp):
CATGTAAGACACGTCTGGGACATTGGCATCATACTTCATTA
Found at i:45239004 original size:21 final size:22
Alignment explanation
Indices: 45238991--45239031 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
45238981 ATATATTTAG
45238991 ATCAAGAAAAAATAGAATTCAA
1 ATCAAGAAAAAATAGAATTCAA
*
45239013 ATCAAG-AAAAACAGAATTC
1 ATCAAGAAAAAATAGAATTC
45239032 GGATTAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.61, C:0.12, G:0.10, T:0.17
Consensus pattern (22 bp):
ATCAAGAAAAAATAGAATTCAA
Found at i:45239250 original size:40 final size:40
Alignment explanation
Indices: 45239205--45239388 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
45239195 GATTCAGATA
45239205 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
* *
45239245 TATATATCGCACTTAGTGTGCAATTC-AGAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAG-ATAGCTTCGGC
**
45239285 TATATATGGCA---AGGTGTGCGAGACTGAGATAGCTTCGGC
1 TATATATGGCACTTA-GTGTGCGATTC-GAGATAGCTTCGGC
* * ** *
45239324 TATGTAAGGCACTTAGTGTGCGAAATTATA-ATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCG--ATTCGAGATAGCTTCGGC
*
45239365 TATGTATTGGCACTTAGTGTGCGA
1 TATATA-TGGCACTTAGTGTGCGA
45239389 GATATCGAGT
Statistics
Matches: 120, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
37 1 0.01
38 8 0.07
39 22 0.18
40 48 0.40
41 23 0.19
42 17 0.14
43 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
Found at i:45244100 original size:9 final size:9
Alignment explanation
Indices: 45244061--45244101 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
45244051 ATTCCAGCAA
45244061 CTAAATGAG
1 CTAAATGAG
45244070 CTAAAATGAG
1 CT-AAATGAG
45244080 CTAAACTGAG
1 CTAAA-TGAG
*
45244090 CTAAGTGAG
1 CTAAATGAG
45244099 CTA
1 CTA
45244102 GAGTTCAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 12 0.41
10 17 0.59
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (9 bp):
CTAAATGAG
Found at i:45246253 original size:26 final size:25
Alignment explanation
Indices: 45246219--45246267 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
45246209 TTGAGCCATA
* *
45246219 ATCAGTAAGCCCCTCTTGAGCTGATG
1 ATCAATAAG-CCCTATTGAGCTGATG
*
45246245 ATCAATAAGCTCTATTGAGCTGA
1 ATCAATAAGCCCTATTGAGCTGA
45246268 AACGGTAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
ATCAATAAGCCCTATTGAGCTGATG
Found at i:45246308 original size:22 final size:23
Alignment explanation
Indices: 45246250--45246315 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
45246240 TGATGATCAA
* * *
45246250 TAAGCTCTATTGAGCTGAAACGG
1 TAAGATCTATCGAGCTGAAACAG
*
45246273 TAAGCTCTATCGAGCTG-AACAG
1 TAAGATCTATCGAGCTGAAACAG
*
45246295 TAAGATC-ATACGAGCTAAAAC
1 TAAGATCTAT-CGAGCTGAAAC
45246316 GGTGAGCTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 16 0.43
23 19 0.51
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (23 bp):
TAAGATCTATCGAGCTGAAACAG
Found at i:45246497 original size:67 final size:67
Alignment explanation
Indices: 45246388--45246524 Score: 238
Period size: 67 Copynumber: 2.0 Consensus size: 67
45246378 TGAGCTGTGG
** *
45246388 TGAGTCCGCAACAAATGCAGGAGCTCAACCAAATCGGTAACCCTAGTGACAAGTCACTCGTATCC
1 TGAGTCCGCAACAAATGCAGGAGCTCAACCAAATCGAAAACCCTAGTCACAAGTCACTCGTATCC
45246453 TA
66 TA
*
45246455 TGAGTCCGCAACAAATGCAGGAGCTCGACCAAATCGAAAACCCTAGTCACAAGTCACTCGTATCC
1 TGAGTCCGCAACAAATGCAGGAGCTCAACCAAATCGAAAACCCTAGTCACAAGTCACTCGTATCC
45246520 TA
66 TA
45246522 TGA
1 TGA
45246525 ATTCAAATAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (67 bp):
TGAGTCCGCAACAAATGCAGGAGCTCAACCAAATCGAAAACCCTAGTCACAAGTCACTCGTATCC
TA
Found at i:45250613 original size:24 final size:24
Alignment explanation
Indices: 45250585--45250632 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
45250575 TGTTTAATTA
45250585 TAGAAAATAAATCTTTGATGGTAG
1 TAGAAAATAAATCTTTGATGGTAG
45250609 TAGAAAATAAATCTTTGATGGTAG
1 TAGAAAATAAATCTTTGATGGTAG
45250633 ATTATTGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (24 bp):
TAGAAAATAAATCTTTGATGGTAG
Found at i:45251193 original size:40 final size:39
Alignment explanation
Indices: 45251118--45251201 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 39
45251108 ATGACTTATT
**
45251118 GGCTAAAATGACACTTAGTGTGCGGTTCGAAATAGCTTC
1 GGCTAAAATGACACTTAGTGTGCAATTCGAAATAGCTTC
* * * * *
45251157 GGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCTTT
1 GGCTAAAA-TGACACTTAGTGTGCAATTCGAAATAGCTTC
45251197 GGCTA
1 GGCTA
45251202 TATATATAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 8 0.22
40 29 0.78
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (39 bp):
GGCTAAAATGACACTTAGTGTGCAATTCGAAATAGCTTC
Found at i:45254888 original size:53 final size:54
Alignment explanation
Indices: 45254807--45255011 Score: 162
Period size: 53 Copynumber: 3.8 Consensus size: 54
45254797 TTTCCTTTTT
* * * * *
45254807 GAACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
45254860 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTGTCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATC-CTTGCCTTATA
* * ** *** *
45254914 GTAACTCATCAATGCCATGTCTTGATGTGGTCTTACACAATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * * * * *
45254969 GAATTTATCAATGCCCTGCCTTGGCATGGCCTTACATGATATC
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
45255012 ATTATCTTAC
Statistics
Matches: 116, Mismatches: 32, Indels: 7
0.75 0.21 0.05
Matches are distributed among these distances:
52 1 0.01
53 42 0.36
54 32 0.28
55 40 0.34
56 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:45255050 original size:47 final size:47
Alignment explanation
Indices: 45254993--45255114 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
45254983 CCTGCCTTGG
* * * *
45254993 CATGGCCTTACATGATATCATTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
45255040 CATGGTCTTACATGGTATCCTTGTCTTAGCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
45255087 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
45255115 TGCCAATGCC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:45255246 original size:45 final size:45
Alignment explanation
Indices: 45254977--45255248 Score: 183
Period size: 47 Copynumber: 5.8 Consensus size: 45
45254967 TAGAATTTAT
* * * * * *
45254977 CAATGCCCTGCCTTGGCATGGCCTTACATGATATCATTATCTTA-C
1 CAATGCCATGTCTTGACATGGTCTTACATG-GATCCTTATCTTAGC
*** *
45255022 CAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTAGC
1 C-AATGCCATG-TCTTGACATGGTCTTACATGG-ATCCTTATCTTAGC
* *** *
45255070 AAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTATGC
1 CAATGCCATG-TCTTGACATGGTCTTACATGG-ATCCTTATCTTA-GC
** ** *
45255118 CAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAATC-AATGC
1 CAATGCCATGTCTTGACATGGTCTTACATGGA-TCCTT-ATCTTA-GC
* **
45255165 CGATGCCATGTCTTGACATGGTCTTACACAAGATCCTT-TCCTTA-C
1 CAATGCCATGTCTTGACATGGTCTTACA-TGGATCCTTAT-CTTAGC
*
45255210 CGATGCCATGTCTTGACATGGTCTTACATGGCATCCTTA
1 CAATGCCATGTCTTGACATGGTCTTACATGG-ATCCTTA
45255249 ACAGTCAATT
Statistics
Matches: 184, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
44 1 0.01
45 37 0.20
46 10 0.05
47 122 0.66
48 14 0.08
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (45 bp):
CAATGCCATGTCTTGACATGGTCTTACATGGATCCTTATCTTAGC
Found at i:45255319 original size:44 final size:44
Alignment explanation
Indices: 45255252--45255336 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
45255242 ATCCTTAACA
* * *
45255252 GTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGAATTTTCC
1 GTCAATTCCTCCTTAAATACCATGGTA-CAACCATGGAATTTTCC
*
45255296 GTCAATT-CTCCCTTAATTACCATGGTACAACCATGGAATTT
1 GTCAATTCCT-CCTTAAATACCATGGTACAACCATGGAATTT
45255337 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
43 4 0.11
44 31 0.89
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATACCATGGTACAACCATGGAATTTTCC
Found at i:45257848 original size:37 final size:37
Alignment explanation
Indices: 45257794--45257866 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
45257784 AATTCAAGCC
*
45257794 AAACTAAACTTCGTACAATGAGAACCTTAACAATCAA
1 AAACTAAACTTCATACAATGAGAACCTTAACAATCAA
45257831 AAACTAAACTTCATACAATGAGAACCTTAACAATCA
1 AAACTAAACTTCATACAATGAGAACCTTAACAATCA
45257867 GACAACTTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.49, C:0.22, G:0.07, T:0.22
Consensus pattern (37 bp):
AAACTAAACTTCATACAATGAGAACCTTAACAATCAA
Found at i:45258811 original size:16 final size:17
Alignment explanation
Indices: 45258790--45258822 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45258780 TAAGCAATAG
45258790 TTAACA-ATACAGATCA
1 TTAACACATACAGATCA
45258806 TTAACATCATACAGATC
1 TTAACA-CATACAGATC
45258823 TTATTGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.27
Consensus pattern (17 bp):
TTAACACATACAGATCA
Found at i:45261620 original size:55 final size:53
Alignment explanation
Indices: 45261498--45261683 Score: 196
Period size: 55 Copynumber: 3.5 Consensus size: 53
45261488 TTACCATTGT
* * * * *
45261498 CATGTCTTGACATGATCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATAC
1 CATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAATGC
* *
45261551 CATGCCTT-AGCATGGTCTTACATGGGACCTTTGCCTTATAGTTACTCATCAATGC
1 CATGCCTTGA-CATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAATGC
* * * *
45261606 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGC
1 CATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAATGC
* *
45261660 CATGCCTCGGCATGGTCTTACATG
1 CATGCCTTGACATGGTCTTACATG
45261684 AAATCCTTAT
Statistics
Matches: 111, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
52 3 0.03
53 30 0.27
54 33 0.30
55 42 0.38
56 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
CATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAATGC
Found at i:45261737 original size:47 final size:47
Alignment explanation
Indices: 45261670--45261790 Score: 179
Period size: 47 Copynumber: 2.6 Consensus size: 47
45261660 CATGCCTCGG
* ** * *
45261670 CATGGTCTTACATGAAATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGATCTTACATGGTATCCTTGTCTTACCAAATGCAATGTTCCAAA
*
45261717 CATGATCTTACGTGGTATCCTTGTCTTACCAAATGCAATGTTCCAAA
1 CATGATCTTACATGGTATCCTTGTCTTACCAAATGCAATGTTCCAAA
*
45261764 CATGGTCTTACATGGTATCCTTGTCTT
1 CATGATCTTACATGGTATCCTTGTCTT
45261791 TTGCCAATGC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGATCTTACATGGTATCCTTGTCTTACCAAATGCAATGTTCCAAA
Found at i:45265025 original size:50 final size:50
Alignment explanation
Indices: 45264927--45265067 Score: 146
Period size: 50 Copynumber: 2.8 Consensus size: 50
45264917 TGATATGTGT
* *
45264927 CAGTGTAAGACCATGTCTGGGACATTGCATCAG-TACGA-AAAGAGGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATAGCATC-GCT-CGATATAGAGGAGAGC
* * *
45264977 CGGTGTAAGACCATGTCTGGGATATAGCATCGGCCTCGATATA-A-GAGAGT
1 CAGTGTAAGACCATGTCTGGGACATAGCATC-G-CTCGATATAGAGGAGAGC
* *
45265027 CAGTGTAAGATCATGTCTGGGACATGGCATCGACTCGATAT
1 CAGTGTAAGACCATGTCTGGGACATAGCATCG-CTCGATAT
45265068 GTGATTAAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
49 9 0.12
50 61 0.79
51 4 0.05
52 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (50 bp):
CAGTGTAAGACCATGTCTGGGACATAGCATCGCTCGATATAGAGGAGAGC
Found at i:45265097 original size:47 final size:49
Alignment explanation
Indices: 45264980--45265104 Score: 137
Period size: 50 Copynumber: 2.6 Consensus size: 49
45264970 GGAGAGCCGG
* * * * *
45264980 TGTAAGACCATGTCTGGGATATAGCATCGGCCTCGATATAAGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGACTCGATAT-AGAGAGTAAA
* * *
45265030 TGTAAGATCATGTCTGGGACATGGCATC-GACTCGATAT-GTGATTAAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGACTCGATATAGAGAGTAAA
*
45265077 TGTAAGACCATGTCTAGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACA-TGGCAT
45265105 TGTATTTTGA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
47 24 0.38
48 6 0.09
49 9 0.14
50 25 0.39
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGACTCGATATAGAGAGTAAA
Found at i:45267847 original size:24 final size:24
Alignment explanation
Indices: 45267815--45267885 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
45267805 CTGTCAGGAG
45267815 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
45267839 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
45267863 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
45267886 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:45267897 original size:48 final size:48
Alignment explanation
Indices: 45267815--45267908 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
45267805 CTGTCAGGAG
** * *
45267815 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
45267863 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
45267909 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:45269342 original size:27 final size:27
Alignment explanation
Indices: 45269302--45269413 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
45269292 AGGAAGCGTC
*
45269302 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
45269329 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
45269356 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
45269384 CTGGTGCCTCTGTCAC-ATTATTTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
45269410 CTGG
1 CTGG
45269414 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 48 0.65
28 18 0.24
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:45269410 original size:54 final size:54
Alignment explanation
Indices: 45269302--45269413 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
45269292 AGGAAGCGTC
*
45269302 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGCCTCTGCCACATATTTCTGTT
* * *
45269356 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGCCTCTGTCACAT-TATT-TGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGCCTCTGCCACATAT-TTCTGTT
45269410 CTGG
1 CTGG
45269414 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 32 0.62
55 20 0.38
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGCCTCTGCCACATATTTCTGTT
Found at i:45273006 original size:24 final size:24
Alignment explanation
Indices: 45272974--45273020 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
45272964 CTGTCAGGAG
**
45272974 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
45272998 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
45273021 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:45273780 original size:27 final size:26
Alignment explanation
Indices: 45273689--45273790 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
45273679 TTTTTGGACT
*
45273689 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCAC-ATTATCTGTTCTGGTGGCTC
*
45273716 TGCCACATATTTCTGTTCTGGTGGCTC
1 TGCCACAT-TATCTGTTCTGGTGGCTC
*
45273743 TGCCACGATTATCTGTATCTGGTGACTC
1 TGCCAC-ATTATCTGT-TCTGGTGGCTC
**
45273771 TATCACATTATCTGTTCTGG
1 TGCCACATTATCTGTTCTGG
45273791 CAGCCATGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
26 7 0.11
27 43 0.65
28 16 0.24
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (26 bp):
TGCCACATTATCTGTTCTGGTGGCTC
Found at i:45278667 original size:36 final size:37
Alignment explanation
Indices: 45278611--45278681 Score: 92
Period size: 36 Copynumber: 1.9 Consensus size: 37
45278601 CTTCTTCCTT
* *
45278611 TCTTTTTCTCGTTTTTC-TTTTCTTTTTTCTTTTTCAA
1 TCTTTTTCTCGTTGTTCTTTTTC-TTTTGCTTTTTCAA
*
45278648 TCTTTTTTTC-TTGTTCTTTTTCTTTTGCTTTTTC
1 TCTTTTTCTCGTTGTTCTTTTTCTTTTGCTTTTTC
45278682 TACAGATTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.03, C:0.18, G:0.04, T:0.75
Consensus pattern (37 bp):
TCTTTTTCTCGTTGTTCTTTTTCTTTTGCTTTTTCAA
Found at i:45279625 original size:40 final size:40
Alignment explanation
Indices: 45279574--45279739 Score: 287
Period size: 40 Copynumber: 4.2 Consensus size: 40
45279564 CTAAGTCTGG
* *
45279574 ATATAGTACCAGCACTAAGCATGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCATGCGGGATTTAACCCGGAT
*
45279614 ATATATTACCAGCACGAAGCATGCAGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCATGCGGGATTTAACCCGGAT
*
45279654 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCATGCGGGATTTAACCCGGAT
*
45279694 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCATGCGGGATTTAACCCGGAT
45279734 ATATAT
1 ATATAT
45279740 ATTATATCGA
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (40 bp):
ATATATTACCAGCACGAAGCATGCGGGATTTAACCCGGAT
Found at i:45284822 original size:10 final size:10
Alignment explanation
Indices: 45284807--45284868 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
45284797 TTTGAACCAT
*
45284807 TACCAATTCG
1 TACCAATTCA
*
45284817 TACCAAATACCA
1 TACC-AAT-TCA
*
45284829 TACCATTTCA
1 TACCAATTCA
45284839 TACCAATTCCA
1 TACCAATT-CA
* *
45284850 TACCATTTCG
1 TACCAATTCA
45284860 TACCAATTC
1 TACCAATTC
45284869 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:45284852 original size:21 final size:21
Alignment explanation
Indices: 45284807--45284869 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
45284797 TTTGAACCAT
* *
45284807 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
45284829 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
45284850 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
45284870 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:45285214 original size:12 final size:12
Alignment explanation
Indices: 45285184--45285216 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
45285174 AAGGAGTTCG
45285184 AAAAAAAA--GA
1 AAAAAAAATTGA
45285194 AAAAAAAATTGA
1 AAAAAAAATTGA
45285206 AAAAAAAATTG
1 AAAAAAAATTG
45285217 CATACGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.38
12 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (12 bp):
AAAAAAAATTGA
Found at i:45289727 original size:10 final size:10
Alignment explanation
Indices: 45289712--45289773 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
45289702 TTTGAACCAT
*
45289712 TACCAATTCG
1 TACCAATTCA
*
45289722 TACCAAATACCA
1 TACC-AAT-TCA
*
45289734 TACCATTTCA
1 TACCAATTCA
45289744 TACCAATTCCA
1 TACCAATT-CA
* *
45289755 TACCATTTCG
1 TACCAATTCA
45289765 TACCAATTC
1 TACCAATTC
45289774 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:45289757 original size:21 final size:21
Alignment explanation
Indices: 45289712--45289774 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
45289702 TTTGAACCAT
* *
45289712 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
45289734 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
45289755 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
45289775 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:45293908 original size:82 final size:82
Alignment explanation
Indices: 45293816--45293987 Score: 256
Period size: 82 Copynumber: 2.1 Consensus size: 82
45293806 CTAAGTCCGG
* * ** *
45293816 ATATAGTACCAGCACTAAGCCTGCAGGATTTAACCCGGATATATATTACCAGCACGAAGTCTGCG
1 ATATATTACCAGCACGAAGCCTGCAGGATTTAACCCAAATATATATTACCAGCACGAAGCCTGCG
*
45293881 GGATTTAACCC-GTATAT
66 AGATTTAACCCAG-ATAT
* *
45293898 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAAATATATATTACCAGCATGAAGCCTGCG
1 ATATATTACCAGCACGAAGCCTGCAGGATTTAACCCAAATATATATTACCAGCACGAAGCCTGCG
45293963 AGATTTAACCCAGATAT
66 AGATTTAACCCAGATAT
45293980 ATATATTA
1 ATATATTA
45293988 TATCGAGAGC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 80 0.99
83 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (82 bp):
ATATATTACCAGCACGAAGCCTGCAGGATTTAACCCAAATATATATTACCAGCACGAAGCCTGCG
AGATTTAACCCAGATAT
Found at i:45293913 original size:42 final size:41
Alignment explanation
Indices: 45293816--45293987 Score: 240
Period size: 40 Copynumber: 4.2 Consensus size: 41
45293806 CTAAGTCCGG
* * * *
45293816 ATATAGTACCAGCACTAAGCCTGCAGGATTTAACCCG-GAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGATAT
*
45293856 ATATATTACCAGCACGAAGTCTGCGGGATTTAACCCGTATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCG-ATAT
*
45293898 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCC-AAAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGATAT
* *
45293938 ATATATTACCAGCATGAAGCCTGCGAGATTTAACCCAGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCC-GATAT
45293980 ATATATTA
1 ATATATTA
45293988 TATCGAGAGC
Statistics
Matches: 118, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
40 70 0.59
42 48 0.41
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (41 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGATAT
Found at i:45304108 original size:46 final size:46
Alignment explanation
Indices: 45304025--45304131 Score: 119
Period size: 46 Copynumber: 2.3 Consensus size: 46
45304015 GACGAGTGCT
* * *
45304025 AGTGTAAGACATGTCTGGGAGATGCATTGGCCTCGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGAGACATGCATCGGCCTCGAGACGAT-AGCC
* * *
45304071 AGTGTAAGACATGTCTGAGACATGCATCGG-TTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGAGACATGCATCGGCCT-CGAGACGATAGCC
45304117 AGTGTAAGACCATGT
1 AGTGTAAGA-CATGT
45304132 TTGGGGCAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
45 1 0.02
46 45 0.87
47 6 0.12
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGAGACATGCATCGGCCTCGAGACGATAGCC
Found at i:45305338 original size:20 final size:21
Alignment explanation
Indices: 45305300--45305339 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45305290 TCAAAATGGT
45305300 CACACGGGTGTGTTGCCCTTC
1 CACACGGGTGTGTTGCCCTTC
*
45305321 CACATGGGTGTG-TGCCCTT
1 CACACGGGTGTGTTGCCCTT
45305340 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.10, C:0.30, G:0.30, T:0.30
Consensus pattern (21 bp):
CACACGGGTGTGTTGCCCTTC
Found at i:45323144 original size:47 final size:46
Alignment explanation
Indices: 45323084--45323301 Score: 151
Period size: 47 Copynumber: 4.7 Consensus size: 46
45323074 AAGAGAGCCC
* *
45323084 GTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATGAGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGATGA-TGCTA
* * * * * * *
45323132 GTGTAAGA-CATGTCTAGGAAAT-GCATTGGCCTCGACACGTAAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATG-ATGCTA
* * *
45323178 GTGTAA-AACATGTCTAGGACAT-GCATCGGCTACGAGATGATAGTTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGAT-GCTA
* * * **
45323224 GTGTAAGACCATGTTTGGGGCATGGCATCGACTTTAGAT-ATGAGAC-A
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAT--G-CTA
*
45323271 GTGTAAGACCATGCCTGGGACATGGCATCGG
1 GTGTAAGACCATGTCTGGGACATGGCATCGG
45323302 AACCTTACCC
Statistics
Matches: 135, Mismatches: 26, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
45 4 0.03
46 55 0.41
47 60 0.44
48 16 0.12
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (46 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGATGCTA
Found at i:45329385 original size:15 final size:15
Alignment explanation
Indices: 45329356--45329400 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
45329346 AGTGCTGTAA
45329356 ATGGTATTTCCTTATC
1 ATGG-ATTTCCTTATC
*
45329372 ATGGATTTCTTTATC
1 ATGGATTTCCTTATC
*
45329387 TTGGATTTCCTTAT
1 ATGGATTTCCTTAT
45329401 TCTGGGCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (15 bp):
ATGGATTTCCTTATC
Found at i:45334903 original size:64 final size:64
Alignment explanation
Indices: 45334823--45335006 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
45334813 AGACATTATG
* *
45334823 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAATAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAA
* * * * * * *
45334887 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGGGAT
45334952 AA
63 AA
* * * *
45334954 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
45335007 CAAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.16
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAA
Found at i:45342297 original size:27 final size:25
Alignment explanation
Indices: 45342220--45342380 Score: 126
Period size: 27 Copynumber: 6.0 Consensus size: 25
45342210 TGTTAAGCCT
*
45342220 CTGATTTGTAAAATTACTGAAATATC
1 CTGATTTGTAAAATTAC-GAAATACC
* ** *
45342246 CAGGGTTGTAAAATTAACGACATACTC
1 CTGATTTGTAAAATT-ACGAAATAC-C
*
45342273 CTGATTTGTGAAATTATCGAAATACC
1 CTGATTTGTAAAATTA-CGAAATACC
* *
45342299 CTCAACTTGTAAAATTACTGAAATACC
1 CT-GATTTGTAAAATTAC-GAAATACC
*
45342326 CTCAGTTTGTAAAATTATCGAAATACC
1 CTGA-TTTGTAAAATTA-CGAAATACC
*
45342353 CTTG-TAGTGTAAAATTACTGAAATACC
1 C-TGAT-TTGTAAAATTAC-GAAATACC
45342380 C
1 C
45342381 CTATAGGGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
26 25 0.23
27 81 0.75
28 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.32
Consensus pattern (25 bp):
CTGATTTGTAAAATTACGAAATACC
Done.