Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 215 of 290
Found at i:74299219 original size:38 final size:39
Alignment explanation
Indices: 74299176--74299428 Score: 136
Period size: 38 Copynumber: 5.9 Consensus size: 39
74299166 TTTCAAATTA
74299176 ACATGTA-TAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTAGTAACCGTGGCATATCCACTTAGCACCACGTT
* * *
74299214 ACATGT-TTAACCGTGGTATATCCACTTAGCACCACATT
1 ACATGTAGTAACCGTGGCATATCCACTTAGCACCACGTT
74299252 A-ATGAATCAACACATGTAACCGTGGCATATCCACTTAGCACCACGTTAAT
1 ACATG--T------A-GTAACCGTGGCATATCCACTTAGCACCACG-T--T
* * *
74299302 GAATCAATATATGTAATCGTGGCATATCCACTTAGCACCATGTT
1 --A-C-ATGTA-GTAACCGTGGCATATCCACTTAGCACCACGTT
** * *
74299346 ACATGTATCAATATGTGTAATTGTGGTATATCTACTTAGCACCACGTT
1 ACATG------TA---GTAACCGTGGCATATCCACTTAGCACCACGTT
* *
74299394 ACACGTA-TAACCGTGGTATATCCACTTAGCACCAC
1 ACATGTAGTAACCGTGGCATATCCACTTAGCACCAC
74299429 ATTTTTTTCA
Statistics
Matches: 171, Mismatches: 17, Indels: 54
0.71 0.07 0.22
Matches are distributed among these distances:
37 3 0.02
38 61 0.36
39 1 0.01
40 2 0.01
41 1 0.01
42 3 0.02
44 1 0.01
46 3 0.02
47 57 0.33
48 34 0.20
50 1 0.01
52 1 0.01
53 1 0.01
55 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (39 bp):
ACATGTAGTAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:74299396 original size:48 final size:47
Alignment explanation
Indices: 74299225--74299394 Score: 232
Period size: 47 Copynumber: 3.6 Consensus size: 47
74299215 CATGTTTAAC
* * * * *
74299225 CGTGGTATATCCACTTAGCACCACATTAATGAATCAACACATGTAAC
1 CGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAT
74299272 CGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAT
1 CGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAT
* * *
74299319 CGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTGTAAT
1 CGTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAAT
* * *
74299367 TGTGGTATATCTACTTAGCACCACGTTA
1 CGTGGCATATCCACTTAGCACCACGTTA
74299395 CACGTATAAC
Statistics
Matches: 110, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 69 0.63
48 41 0.37
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (47 bp):
CGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAT
Found at i:74302747 original size:46 final size:46
Alignment explanation
Indices: 74302705--74303749 Score: 1894
Period size: 46 Copynumber: 22.7 Consensus size: 46
74302695 ATGAAATGTG
* * * * **
74302705 TAAGACCATGGTTGAAATATTCCATGGCAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * * *
74302751 TAAGACTATGGTTGAAAGATACCATGGCAGCGTGACATGAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74302796 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74302842 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74302888 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74302934 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74302980 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303026 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303072 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303118 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303164 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303210 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303256 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303302 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303348 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303394 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303440 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303486 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
74303532 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
*
74303578 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * *
74303624 TAAGACAATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * *
74303670 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * * *
74303716 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
74303750 TCAAAGATAA
Statistics
Matches: 971, Mismatches: 27, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
45 39 0.04
46 932 0.96
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.18
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
Found at i:74305929 original size:26 final size:26
Alignment explanation
Indices: 74305900--74305981 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
74305890 TGATACAAAT
*
74305900 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
74305926 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
74305952 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
74305978 TGAT
1 TGAT
74305982 TGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:74318237 original size:10 final size:10
Alignment explanation
Indices: 74318224--74318258 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
74318214 AAGCTTGGTT
74318224 GAGCTCAAAC
1 GAGCTCAAAC
*
74318234 GAGCTGAAAC
1 GAGCTCAAAC
*
74318244 GAGCTCAAAT
1 GAGCTCAAAC
74318254 GAGCT
1 GAGCT
74318259 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:74318267 original size:20 final size:20
Alignment explanation
Indices: 74318221--74318268 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
74318211 AGTAAGCTTG
74318221 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
74318241 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
74318261 GTTGAGCT
1 GTTGAGCT
74318269 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:74330828 original size:27 final size:27
Alignment explanation
Indices: 74330771--74330830 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
74330761 ATACATCTCA
* *
74330771 TAGGGGCATATCAGTCATTTTACCATG
1 TAGGGGCATATCAATCATTTTACAATG
*
74330798 TAGGGGCATTTCAATCATTTTATCAAT-
1 TAGGGGCATATCAATCATTTTA-CAATG
74330825 TAGGGG
1 TAGGGG
74330831 GTCTAGGTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (27 bp):
TAGGGGCATATCAATCATTTTACAATG
Found at i:74330958 original size:17 final size:17
Alignment explanation
Indices: 74330936--74330968 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
74330926 CCATTTTGTG
*
74330936 GCCCATGTGGGCCACAC
1 GCCCATGTGGCCCACAC
74330953 GCCCATGTGGCCCACA
1 GCCCATGTGGCCCACA
74330969 AAGCCCATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.42, G:0.27, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:74332889 original size:44 final size:42
Alignment explanation
Indices: 74332797--74332902 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 42
74332787 GATGCCCCTA
* *
74332797 TCCCAGACAGGGTCTTACACAAAATCAAATACGATGTCAATC
1 TCCCAGACATGGTCTTACACAAAATCAAATACGATGCCAATC
* *
74332839 TCCCAGACATGGTCTTACACATAAATCACAGGT-CGATGCCAATG
1 TCCCAGACATGGTCTTACACA-AAATCA-A-ATACGATGCCAATC
*
74332883 TCCCAGACGTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
74332903 GAAAGCACAT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 20 0.36
43 6 0.11
44 29 0.52
45 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACAAAATCAAATACGATGCCAATC
Found at i:74340136 original size:40 final size:40
Alignment explanation
Indices: 74340083--74340475 Score: 624
Period size: 40 Copynumber: 9.8 Consensus size: 40
74340073 CAGCCGCAAA
* * * * *
74340083 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
* * *
74340123 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
74340163 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
* * *
74340203 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
74340243 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
* * *
74340283 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
74340323 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
* * *
74340363 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
74340403 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
*
74340443 CATAATTGCCTTCGGGTCATAACCCGGATATAT
1 CATAATTGCCTTCGGGTCATAGCCCGGATATAT
74340476 TCCAATGTTC
Statistics
Matches: 325, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 325 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
Found at i:74340189 original size:80 final size:80
Alignment explanation
Indices: 74340083--74340475 Score: 723
Period size: 80 Copynumber: 4.9 Consensus size: 80
74340073 CAGCCGCAAA
* * * * *
74340083 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCGCATAATTGCCTTCGGGTCTTAGCCC
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
74340148 GGATATATCATCCCG
66 GGATATATCATCCCG
74340163 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
74340228 GGATATATCATCCCG
66 GGATATATCATCCCG
74340243 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
74340308 GGATATATCATCCCG
66 GGATATATCATCCCG
74340323 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
74340388 GGATATATCATCCCG
66 GGATATATCATCCCG
* *
74340403 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAACCC
1 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
74340468 GGATATAT
66 GGATATAT
74340476 TCCAATGTTC
Statistics
Matches: 306, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 306 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (80 bp):
CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
GGATATATCATCCCG
Found at i:74345664 original size:27 final size:27
Alignment explanation
Indices: 74345634--74345742 Score: 94
Period size: 27 Copynumber: 4.0 Consensus size: 27
74345624 ATAGTCATCA
* *
74345634 TACCATAAAAGGGTAAAAGAATCATTT
1 TACCACAAAAGGGCAAAAGAATCATTT
* * *
74345661 TACCACATAAGGGCAAAATAGTCATTT
1 TACCACAAAAGGGCAAAAGAATCATTT
* * * * *
74345688 TACCTCATAAGGGCAAAATAGTTATTT
1 TACCACAAAAGGGCAAAAGAATCATTT
* *
74345715 TACCCCATAAA-GGCAAAATAATCATTT
1 TACCACA-AAAGGGCAAAAGAATCATTT
74345742 T
1 T
74345743 GTCAATTTAG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
27 68 0.97
28 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (27 bp):
TACCACAAAAGGGCAAAAGAATCATTT
Found at i:74345679 original size:54 final size:54
Alignment explanation
Indices: 74345610--74345739 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
74345600 AAACATACAT
* * *
74345610 CACATAGGGGTAAAATAGTCATCATACCAT-AAAAGGGTAAAAGAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATCATACC-TCAAAAGGGCAAAAGAATCATTTTAC
** * * * *
74345664 CACATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTTATTTTAC
1 CACATAAGGGCAAAATAGTCATCATACCTCAAAAGGGCAAAAGAATCATTTTAC
* * *
74345718 CCCATAAAGGCAAAATAATCAT
1 CACATAAGGGCAAAATAGTCAT
74345740 TTTGTCAATT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
53 1 0.02
54 62 0.98
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (54 bp):
CACATAAGGGCAAAATAGTCATCATACCTCAAAAGGGCAAAAGAATCATTTTAC
Found at i:74346523 original size:39 final size:39
Alignment explanation
Indices: 74346469--74346546 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
74346459 TTATAGAGAA
*
74346469 GGGAAGTAATCGGTCTATCTCCTCACAACACCCTACACG
1 GGGAAGTAATCGGTCTATCTCCACACAACACCCTACACG
74346508 GGGAAGTAATCGGTCTATCTCCACACAACACCCTACACG
1 GGGAAGTAATCGGTCTATCTCCACACAACACCCTACACG
74346547 ACAGAGGCAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.19
Consensus pattern (39 bp):
GGGAAGTAATCGGTCTATCTCCACACAACACCCTACACG
Found at i:74353592 original size:48 final size:48
Alignment explanation
Indices: 74353540--74353670 Score: 142
Period size: 48 Copynumber: 2.7 Consensus size: 48
74353530 CTCTCACACT
* *
74353540 AAGTGCTCAA-ATCATGCCCCGAAGCCAACTCAAT-ATATCTCATACCCG
1 AAGTGCT-AATATCATGCCCCGAAGCCAAATCAATGA-AGCTCATACCCG
* *
74353588 AAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAAGCTCATACCCG
1 AAGTGCTAATATCATGCCCCGAAGCCAAATCAATGAAGCTCATACCCG
* ** *
74353636 AAGTGTTGTTATCATAG-ACCGAAGCCAAATCAATG
1 AAGTGCTAATATCAT-GCCCCGAAGCCAAATCAATG
74353671 TATCCCCTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
47 2 0.03
48 67 0.94
49 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (48 bp):
AAGTGCTAATATCATGCCCCGAAGCCAAATCAATGAAGCTCATACCCG
Found at i:74356449 original size:18 final size:18
Alignment explanation
Indices: 74356402--74356442 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
74356392 AGATGGATTG
*
74356402 ATATGAT-ATATATATGT
1 ATATGATAAGATATATGT
74356419 ATATGATAAGATATATGT
1 ATATGATAAGATATATGT
74356437 ATATGA
1 ATATGA
74356443 AGTGATAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (18 bp):
ATATGATAAGATATATGT
Found at i:74360545 original size:48 final size:48
Alignment explanation
Indices: 74360483--74360610 Score: 154
Period size: 48 Copynumber: 2.7 Consensus size: 48
74360473 CTCGCACACT
* * * *
74360483 AAGTGCTCAA-ATCATGGCCCGAAGCCAACTCAATA-TATCTCGTACCTG
1 AAGTGCT-AATATCATGGCCCGAAGCCAAATCAA-AGAAGCCCGTACCTG
74360531 AAGTGCTAATATCATGGCCCGAAGCCAAATCAAAGAAGCCCGTACCTG
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAAAGAAGCCCGTACCTG
** *
74360579 AAGTG-TTGTATCATGGACCGAAGCCAAATCAA
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAA
74360611 CGTATCCCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
47 27 0.38
48 44 0.62
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (48 bp):
AAGTGCTAATATCATGGCCCGAAGCCAAATCAAAGAAGCCCGTACCTG
Found at i:74367782 original size:40 final size:40
Alignment explanation
Indices: 74367716--74367791 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
74367706 TCAAGCACAA
* ** **
74367716 ATAAAACACAAAATTAAAAATTAAAAACTATTAAAAATCT
1 ATAAAACACAAAATGAAAAAGAAAAAAAAATTAAAAATCT
74367756 ATAAAA-ACAAAATGAAATAAGAAAAAAAAATTAAAA
1 ATAAAACACAAAATGAAA-AAGAAAAAAAAATTAAAA
74367792 TTTTCTATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 10 0.33
40 20 0.67
ACGTcount: A:0.71, C:0.07, G:0.03, T:0.20
Consensus pattern (40 bp):
ATAAAACACAAAATGAAAAAGAAAAAAAAATTAAAAATCT
Found at i:74374137 original size:16 final size:16
Alignment explanation
Indices: 74374113--74374147 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
74374103 TTAAGAAGCA
*
74374113 AAAAGTTGTTGGAACC
1 AAAAGTTGTTGAAACC
*
74374129 AAAATTTGTTGAAACC
1 AAAAGTTGTTGAAACC
74374145 AAA
1 AAA
74374148 TGTGAGACTG
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:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (16 bp):
AAAAGTTGTTGAAACC
Found at i:74375132 original size:30 final size:30
Alignment explanation
Indices: 74375098--74375155 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
74375088 GAAGATGAAA
*
74375098 GAAATATGGTTGAATTGGAACTCGAACTAG
1 GAAATATGGTTAAATTGGAACTCGAACTAG
74375128 GAAATATGGTTAAATTGGAACTCGAACT
1 GAAATATGGTTAAATTGGAACTCGAACT
74375156 GAAGGGAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (30 bp):
GAAATATGGTTAAATTGGAACTCGAACTAG
Found at i:74376812 original size:42 final size:42
Alignment explanation
Indices: 74376753--74376881 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 42
74376743 TTAGGGTTAC
*
74376753 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGGTA
* * * *
74376795 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGGTA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATTGGTA
* * ** **
74376838 CGAAATTACAAGTAAGACCATATCTAAGATATGGCATTGGTA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGGTA
74376880 TG
1 TG
74376882 GTACTGTGTG
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 39 0.56
43 31 0.44
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGGTA
Found at i:74378618 original size:118 final size:118
Alignment explanation
Indices: 74378410--74378645 Score: 463
Period size: 118 Copynumber: 2.0 Consensus size: 118
74378400 ATGTACGTGA
*
74378410 CTTCAAGTATAGTTGTCACATAGGTTCAAACTTACCGAGCTCAACACCAAGTATAAGCATAGTAC
1 CTTCAAGTATAGTTGTCACATAGGTTCAAACTTACCGAGCTCAACACCAAGTATAAGCATAGCAC
74378475 CTATTAGCCATGTACTCAAGACACTTACCCGATCCGCTGTCCGCGATCGACTC
66 CTATTAGCCATGTACTCAAGACACTTACCCGATCCGCTGTCCGCGATCGACTC
74378528 CTTCAAGTATAGTTGTCACATAGGTTCAAACTTACCGAGCTCAACACCAAGTATAAGCATAGCAC
1 CTTCAAGTATAGTTGTCACATAGGTTCAAACTTACCGAGCTCAACACCAAGTATAAGCATAGCAC
74378593 CTATTAGCCATGTACTCAAGACACTTACCCGATCCGCTGTCCGCGATCGACTC
66 CTATTAGCCATGTACTCAAGACACTTACCCGATCCGCTGTCCGCGATCGACTC
74378646 AATAGTGTCG
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 117 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (118 bp):
CTTCAAGTATAGTTGTCACATAGGTTCAAACTTACCGAGCTCAACACCAAGTATAAGCATAGCAC
CTATTAGCCATGTACTCAAGACACTTACCCGATCCGCTGTCCGCGATCGACTC
Found at i:74378728 original size:27 final size:27
Alignment explanation
Indices: 74378698--74378875 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
74378688 ATATTGAGTC
* * * *
74378698 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
74378725 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
74378752 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
74378780 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
74378807 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
74378834 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
74378861 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
74378876 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:74378837 original size:82 final size:81
Alignment explanation
Indices: 74378719--74378874 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
74378709 TGCTATATAA
* *
74378719 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
74378784 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
74378801 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
74378865 CACTTAGTGC
65 CACTTAGTGC
74378875 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:74383779 original size:46 final size:46
Alignment explanation
Indices: 74383723--74383847 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
74383713 TGGTTGAGCA
74383723 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* **
74383769 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
74383815 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCACTT
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTT
74383848 TGGGGTGGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 4 0.06
46 68 0.94
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:74386300 original size:31 final size:31
Alignment explanation
Indices: 74386262--74386325 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
74386252 CCTTTTCATA
74386262 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
74386293 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
74386324 TT
1 TT
74386326 ACTGTAAACG
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:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:74386568 original size:23 final size:24
Alignment explanation
Indices: 74386517--74386611 Score: 133
Period size: 23 Copynumber: 4.0 Consensus size: 24
74386507 GCTTTATCAT
*
74386517 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
74386542 ATAACTGGGGCA-AAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
74386565 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
74386588 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
74386612 CACTTCCTCC
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
23 39 0.61
24 17 0.27
25 8 0.12
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:74386685 original size:20 final size:20
Alignment explanation
Indices: 74386660--74386726 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
74386650 TTATGAATAC
74386660 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
74386680 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
74386700 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
74386720 ACCATGT
1 ATCATGT
74386727 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:74386691 original size:11 final size:11
Alignment explanation
Indices: 74386660--74386715 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
74386650 TTATGAATAC
74386660 ATCATGTGCAT
1 ATCATGTGCAT
*
74386671 ATCA--TACAT
1 ATCATGTGCAT
74386680 ATCATGTGCAT
1 ATCATGTGCAT
*
74386691 ATCA--TACAT
1 ATCATGTGCAT
*
74386700 GTCATGTGCAT
1 ATCATGTGCAT
74386711 ATCAT
1 ATCAT
74386716 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:74386795 original size:25 final size:25
Alignment explanation
Indices: 74386763--74386810 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
74386753 ATACATAAAC
* * *
74386763 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
74386788 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
74386811 CATGTTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:74391266 original size:408 final size:408
Alignment explanation
Indices: 74390511--74391326 Score: 1605
Period size: 408 Copynumber: 2.0 Consensus size: 408
74390501 AAACCGGTCC
74390511 AAATACTGTCTGAAGATCCGATTCATCAAGTCCATAAATACCACAGGGGCATTAATGAGCCCAAA
1 AAATACTGTCTGAAGATCCGATTCATCAAGTCCATAAATACCACAGGGGCATTAATGAGCCCAAA
74390576 CGGCATCACTAAGAACTCGTAATGACCATATCTTGTTCTGAAAGCAGTTTTGGGCACATCTTAGT
66 CGGCATCACTAAGAACTCGTAATGACCATATCTTGTTCTGAAAGCAGTTTTGGGCACATCTTAGT
74390641 CTCGCACTCGCAACTGATAATAACCCGATCTCAAATCTATCTTTGAAAACACTGAGGCTCCTTTC
131 CTCGCACTCGCAACTGATAATAACCCGATCTCAAATCTATCTTTGAAAACACTGAGGCTCCTTTC
74390706 AGCTGATCAAACAAATCATCGATACGCGGTAACAGATATTTGTTCTTGATTGTCACTTTATTTAA
196 AGCTGATCAAACAAATCATCGATACGCGGTAACAGATATTTGTTCTTGATTGTCACTTTATTTAA
74390771 TTGACGACAGTCGATGCACATTCTCATAGTTCCGTCTTTCTTTTTCACAAACAATACTGGTGCAC
261 TTGACGACAGTCGATGCACATTCTCATAGTTCCGTCTTTCTTTTTCACAAACAATACTGGTGCAC
*
74390836 CCCAAGGTGAGAAACTCGATCGAGCGAAACCTCTATCCGTCAACTCTTGCAACTGAGCTTCCAAT
326 CCCAAGGTGAGAAACTCGATCGAGCGAAACCTCTATCCATCAACTCTTGCAACTGAGCTTCCAAT
*
74390901 TCCTTCAATTCGGTTGAT
391 TCCTTCAATTCAGTTGAT
74390919 AAATACTGTCTGAAGATCCGATTCATCAAGTCCATAAATACCACAGGGGCATTAATGAGCCCAAA
1 AAATACTGTCTGAAGATCCGATTCATCAAGTCCATAAATACCACAGGGGCATTAATGAGCCCAAA
74390984 CGGCATCACTAAGAACTCGTAATGACCATATCTTGTTCTGAAAGCAGTTTTGGGCACATCTTAGT
66 CGGCATCACTAAGAACTCGTAATGACCATATCTTGTTCTGAAAGCAGTTTTGGGCACATCTTAGT
74391049 CTCGCACTCGCAACTGATAATAACCCGATCTCAAATCTATCTTTGAAAACACTGAGGCTCCTTTC
131 CTCGCACTCGCAACTGATAATAACCCGATCTCAAATCTATCTTTGAAAACACTGAGGCTCCTTTC
74391114 AGCTGATCAAACAAATCATCGATACGCGGTAACAGATATTTGTTCTTGATTGTCACTTTATTTAA
196 AGCTGATCAAACAAATCATCGATACGCGGTAACAGATATTTGTTCTTGATTGTCACTTTATTTAA
74391179 TTGACGACAGTCGATGCACATTCTCATAGTTCCGTCTTTCTTTTTCACAAACAATACTGGTGCAC
261 TTGACGACAGTCGATGCACATTCTCATAGTTCCGTCTTTCTTTTTCACAAACAATACTGGTGCAC
*
74391244 CCCAAGGTGAGAAACTCGATCGAGCGAAACCTCTATCCATCAACTCTTGCAACTGAGCTTTCAAT
326 CCCAAGGTGAGAAACTCGATCGAGCGAAACCTCTATCCATCAACTCTTGCAACTGAGCTTCCAAT
74391309 TCCTTCAATTCAGTTGAT
391 TCCTTCAATTCAGTTGAT
74391327 GCCATACGAT
Statistics
Matches: 405, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
408 405 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (408 bp):
AAATACTGTCTGAAGATCCGATTCATCAAGTCCATAAATACCACAGGGGCATTAATGAGCCCAAA
CGGCATCACTAAGAACTCGTAATGACCATATCTTGTTCTGAAAGCAGTTTTGGGCACATCTTAGT
CTCGCACTCGCAACTGATAATAACCCGATCTCAAATCTATCTTTGAAAACACTGAGGCTCCTTTC
AGCTGATCAAACAAATCATCGATACGCGGTAACAGATATTTGTTCTTGATTGTCACTTTATTTAA
TTGACGACAGTCGATGCACATTCTCATAGTTCCGTCTTTCTTTTTCACAAACAATACTGGTGCAC
CCCAAGGTGAGAAACTCGATCGAGCGAAACCTCTATCCATCAACTCTTGCAACTGAGCTTCCAAT
TCCTTCAATTCAGTTGAT
Found at i:74414503 original size:38 final size:38
Alignment explanation
Indices: 74414453--74414529 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
74414443 GATGATTAAC
74414453 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
1 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
74414491 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
1 ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
74414529 A
1 A
74414530 ACCTAAGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (38 bp):
ATATATTAGACTAAATGCAATGATCCTTAATGCAAATT
Found at i:74419678 original size:40 final size:40
Alignment explanation
Indices: 74419584--74419728 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
74419574 TACTCGAATG
*
74419584 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
74419625 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
74419665 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
74419705 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
74419729 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:74427669 original size:79 final size:81
Alignment explanation
Indices: 74427533--74427717 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
74427523 TTGAATGATG
*
74427533 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
74427597 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
74427612 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
74427674 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
74427692 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
74427718 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:74427731 original size:40 final size:40
Alignment explanation
Indices: 74427534--74427717 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
74427524 TGAATGATGT
* * * *
74427534 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
74427574 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
74427614 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
74427652 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
74427693 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
74427718 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:74427739 original size:79 final size:79
Alignment explanation
Indices: 74427586--74427750 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
74427576 GGACTAAGAT
* **
74427586 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
74427651 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
74427665 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
74427728 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
74427744 CCGAAGG
1 CCGAAGG
74427751 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:74442332 original size:13 final size:13
Alignment explanation
Indices: 74442314--74442343 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
74442304 TGTGCTCTGA
74442314 ATTCTTCCATCTC
1 ATTCTTCCATCTC
74442327 ATTCTTCCATCTC
1 ATTCTTCCATCTC
74442340 ATTC
1 ATTC
74442344 AACTCCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTCTTCCATCTC
Found at i:74444275 original size:40 final size:40
Alignment explanation
Indices: 74444208--74444304 Score: 142
Period size: 40 Copynumber: 2.4 Consensus size: 40
74444198 CGGGTACCTA
* *
74444208 TCAGCTTGTGTGAGCAGCCCAAGTAGTTCCGTCCTGACTG
1 TCAGCTTGTGTGAGTAGCCCAAGTAGTTACGTCCTGACTG
*
74444248 TCAGCTTGTGTGAGTAGCTCGAA-TAGTTACGTCCTGACTG
1 TCAGCTTGTGTGAGTAGC-CCAAGTAGTTACGTCCTGACTG
*
74444288 TCAGCTTGTATGAGTAG
1 TCAGCTTGTGTGAGTAG
74444305 GCCCGTGATT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 49 0.94
41 3 0.06
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.31
Consensus pattern (40 bp):
TCAGCTTGTGTGAGTAGCCCAAGTAGTTACGTCCTGACTG
Found at i:74452872 original size:22 final size:24
Alignment explanation
Indices: 74452842--74452885 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
74452832 TAGCATAATT
74452842 AATGAATATGAAA-T-TGATGTGG
1 AATGAATATGAAAGTATGATGTGG
*
74452864 AATGTATATGAAAGTATGATGT
1 AATGAATATGAAAGTATGATGT
74452886 TTTGGATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 1 0.05
24 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (24 bp):
AATGAATATGAAAGTATGATGTGG
Found at i:74453483 original size:20 final size:20
Alignment explanation
Indices: 74453458--74453504 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
74453448 AGGAAAATTA
*
74453458 TTCTAAATTTCCCTAAAGTT
1 TTCTAAATTGCCCTAAAGTT
74453478 TTCTAAATTGCCCTAAAGTT
1 TTCTAAATTGCCCTAAAGTT
74453498 TTCTAAA
1 TTCTAAA
74453505 GTCCTCGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (20 bp):
TTCTAAATTGCCCTAAAGTT
Found at i:74456517 original size:43 final size:42
Alignment explanation
Indices: 74456424--74456571 Score: 170
Period size: 43 Copynumber: 3.5 Consensus size: 42
74456414 GATTACCGAG
* *
74456424 ATGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
*
74456466 ATTGTGATTACATGTAAAACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * * * * *
74456510 ATATGATTTCGTATAAGACCTTGTCTGGGACAGTGGCATCGAA
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
*
74456553 ATGTGATAACATGTAAGAC
1 ATGTGATTACATGTAAGAC
74456572 TATATCTAGG
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.01
43 84 0.97
44 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:74457927 original size:27 final size:27
Alignment explanation
Indices: 74457893--74458085 Score: 235
Period size: 27 Copynumber: 7.1 Consensus size: 27
74457883 GTTTGCCAAG
*
74457893 TTACTGAAATACACCTGTAGGGTAAAA
1 TTACTGAAATACCCCTGTAGGGTAAAA
* * * *
74457920 TTATTGAAATACCCCTATAGGGGAGAA
1 TTACTGAAATACCCCTGTAGGGTAAAA
74457947 TTACTGAAATACCCCTGTAGGGTAAAA
1 TTACTGAAATACCCCTGTAGGGTAAAA
* *
74457974 TTACTGAAATACCCCCGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAAAA
* *
74458001 TTACCGAAATACCCTTGTAGGGTAAAA
1 TTACTGAAATACCCCTGTAGGGTAAAA
* * *
74458028 ATACCGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAAAA
* * *
74458055 TTA-TCGAGATACCCTTGTGGGGTAAAA
1 TTACT-GAAATACCCCTGTAGGGTAAAA
74458082 TTAC
1 TTAC
74458086 CATTTTTCCT
Statistics
Matches: 140, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
TTACTGAAATACCCCTGTAGGGTAAAA
Found at i:74457975 original size:54 final size:54
Alignment explanation
Indices: 74457893--74458085 Score: 262
Period size: 54 Copynumber: 3.6 Consensus size: 54
74457883 GTTTGCCAAG
* * * *
74457893 TTACTGAAATACACCTGTAGGGTAAAATTATTGAAATACCCCTATAGGGGAGAA
1 TTACTGAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAA
*
74457947 TTACTGAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCCGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAA
* * * *
74458001 TTACCGAAATACCCTTGTAGGGTAAAAATACCGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAA
* * *
74458055 TTA-TCGAGATACCCTTGTGGGGTAAAATTAC
1 TTACT-GAAATACCCCTGTAGGGTAAAATTAC
74458086 CATTTTTCCT
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
54 124 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (54 bp):
TTACTGAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAA
Found at i:74458471 original size:20 final size:20
Alignment explanation
Indices: 74458448--74458488 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
74458438 TGTGTGCCGT
* *
74458448 TATTGTGGGCTTCGTATCGA
1 TATTGTAGGCTTCGTACCGA
74458468 TATTGTAGGCTTCGTACCGA
1 TATTGTAGGCTTCGTACCGA
74458488 T
1 T
74458489 TATAGACCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (20 bp):
TATTGTAGGCTTCGTACCGA
Found at i:74458545 original size:25 final size:25
Alignment explanation
Indices: 74458514--74458569 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
74458504 GATGGCTTTA
74458514 TGCCACGTATTCTATTAAGTGGCTT
1 TGCCACGTATTCTATTAAGTGGCTT
74458539 TGCCACGTATTCTATTAAGTGGCTT
1 TGCCACGTATTCTATTAAGTGGCTT
74458564 TGCCAC
1 TGCCAC
74458570 ATTATCTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (25 bp):
TGCCACGTATTCTATTAAGTGGCTT
Found at i:74458734 original size:6 final size:6
Alignment explanation
Indices: 74458725--74458824 Score: 89
Period size: 6 Copynumber: 16.3 Consensus size: 6
74458715 TTGCATTCAC
* *
74458725 ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * *
74458774 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
74458823 AT
1 AT
74458825 AATGTTTCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
5 4 0.05
6 63 0.83
7 7 0.09
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:74458756 original size:25 final size:25
Alignment explanation
Indices: 74458728--74458798 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
74458718 CATTCACATT
*
74458728 CTGATTCTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTCAC
* *
74458753 CTGATACTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGTCAC
74458778 CTGATTCTGATTCTGATTCTG
1 CTGATTCTGATTCTGATTCTG
74458799 ATTCTCATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTCAC
Found at i:74460836 original size:27 final size:27
Alignment explanation
Indices: 74460802--74461021 Score: 314
Period size: 27 Copynumber: 8.1 Consensus size: 27
74460792 GTTTACCAAG
* * *
74460802 TTACTGAAATACCCTTATAGGGTAAAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
74460829 TTATTGAAATACCACTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
74460856 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
74460883 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
74460910 TTACTAAAATACCCCTGTAAGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
** * *
74460937 TTACCAAAATACCCTTGTAGGGTAAAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* * *
74460964 ATACCGAAACACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
74460991 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
74461018 TTAC
1 TTAC
74461022 CATTTTGCCC
Statistics
Matches: 172, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 172 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
TTACTGAAATACCCCTGTAGGGTAGAA
Found at i:74461380 original size:144 final size:144
Alignment explanation
Indices: 74461120--74461407 Score: 567
Period size: 144 Copynumber: 2.0 Consensus size: 144
74461110 TATATGTTGG
74461120 TGATATGAATGACTTGACTGTGATTATTTGATTCAAATATGGGCATGACATTCTGCATACATGAC
1 TGATATGAATGACTTGACTGTGATTATTTGATTCAAATATGGGCATGACATTCTGCATACATGAC
74461185 ATGTTGCATGGGTTGGGATTTTGTATGGAGGAAGATCTGATCTGTTAGGATCGCATGGTTGGTTG
66 ATGTTGCATGGGTTGGGATTTTGTATGGAGGAAGATCTGATCTGTTAGGATCGCATGGTTGGTTG
74461250 ACAACTGTGGATTC
131 ACAACTGTGGATTC
74461264 TGATATGAATGACTTGACTGTGATTATTTGATTCAAATATGGGCATGACATTCTGCATACATGAC
1 TGATATGAATGACTTGACTGTGATTATTTGATTCAAATATGGGCATGACATTCTGCATACATGAC
74461329 ATGTTGCATGGGTTGGGATTTTGTATGGAGGAAGATCTGATCTGTTAGGATCGCATGGTTGGTTG
66 ATGTTGCATGGGTTGGGATTTTGTATGGAGGAAGATCTGATCTGTTAGGATCGCATGGTTGGTTG
*
74461394 GCAACTGTGGATTC
131 ACAACTGTGGATTC
74461408 ACCGAAGGCT
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 143 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (144 bp):
TGATATGAATGACTTGACTGTGATTATTTGATTCAAATATGGGCATGACATTCTGCATACATGAC
ATGTTGCATGGGTTGGGATTTTGTATGGAGGAAGATCTGATCTGTTAGGATCGCATGGTTGGTTG
ACAACTGTGGATTC
Found at i:74461771 original size:6 final size:6
Alignment explanation
Indices: 74461760--74461884 Score: 87
Period size: 6 Copynumber: 20.3 Consensus size: 6
74461750 TTGTATTTAC
* * * *
74461760 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTA ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
74461810 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACTTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG
* *
74461859 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
74461885 AATGTTTCTT
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:74461791 original size:25 final size:25
Alignment explanation
Indices: 74461763--74461827 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
74461753 TATTTACATT
* *
74461763 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
* *
74461788 CTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
74461813 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
74461828 ATTCTGATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:74461795 original size:31 final size:31
Alignment explanation
Indices: 74461760--74461863 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
74461750 TTGTATTTAC
*
74461760 ATTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
* * *
74461791 ATTCTAATTCTG-TCACCTAATT--CTGATTCTG
1 ATTCTGATTCTGAT--TCT-GTTACCTGATTCTG
* * *
74461822 ATTCTGATTCTGATTCTGTCACTTGATTCTA
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
74461853 ATTCTGATTCT
1 ATTCTGATTCT
74461864 CATTTTGATT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
29 1 0.02
30 3 0.05
31 48 0.84
32 3 0.05
33 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATTCTG
Found at i:74461861 original size:37 final size:37
Alignment explanation
Indices: 74461782--74461875 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
74461772 ATTCTGTTAC
* * *
74461782 CTGATACTGATTCTAATTCTGTCACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
* *
74461819 CTGATTCTGATTCTGATTCTGTCACTTGATTCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
* *
74461856 CTGATTCTCATTTTGATTCT
1 CTGATTCTGATTCTGATTCT
74461876 AGTTCTGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
Found at i:74464058 original size:442 final size:442
Alignment explanation
Indices: 74463234--74464118 Score: 1770
Period size: 442 Copynumber: 2.0 Consensus size: 442
74463224 TGGTTTATGG
74463234 TGTGGGAAAAAGGTCCAGGGCTCGGCCCATAGCTTTAGCAAAATTCTTAAATTTTGTCTCTTAAG
1 TGTGGGAAAAAGGTCCAGGGCTCGGCCCATAGCTTTAGCAAAATTCTTAAATTTTGTCTCTTAAG
74463299 GAAATCTAGGCAGTAGGCCTTATTAATAACTTGGGTCTGAGTATGTTGGTGGGCCTTTTAAATTT
66 GAAATCTAGGCAGTAGGCCTTATTAATAACTTGGGTCTGAGTATGTTGGTGGGCCTTTTAAATTT
74463364 AATTCGAGGCAATTCCTAAATTTTAATTTTGGGAGAGAGGGTTCTGGCGATATGGGCTTTTAAAG
131 AATTCGAGGCAATTCCTAAATTTTAATTTTGGGAGAGAGGGTTCTGGCGATATGGGCTTTTAAAG
74463429 TTGAGGTGGTAAAATAGGACACAAAAAGATCTGTGGTAAAGTGGCATGTGGCGCCACCTAGGTGT
196 TTGAGGTGGTAAAATAGGACACAAAAAGATCTGTGGTAAAGTGGCATGTGGCGCCACCTAGGTGT
74463494 TTGGGGAGTGACGTGTGGATGATTAGGGGGAGCCAGAGTTCAAGTCACAAGGTAAGCGTGTTGTT
261 TTGGGGAGTGACGTGTGGATGATTAGGGGGAGCCAGAGTTCAAGTCACAAGGTAAGCGTGTTGTT
74463559 ACTTTTATTTTTGTGTGCATGTGCCGGGCATGTGATAGAGCTTAAGTGGAAATTCGGCTAAGGCT
326 ACTTTTATTTTTGTGTGCATGTGCCGGGCATGTGATAGAGCTTAAGTGGAAATTCGGCTAAGGCT
74463624 TTAGGAAGGTTGGGCCGTGGGTCTGAATGGCCATTGGGGCAAGCTTTATTTT
391 TTAGGAAGGTTGGGCCGTGGGTCTGAATGGCCATTGGGGCAAGCTTTATTTT
74463676 TGTGGGAAAAAGGTCCAGGGCTCGGCCCATAGCTTTAGCAAAATTCTTAAATTTTGTCTCTTAAG
1 TGTGGGAAAAAGGTCCAGGGCTCGGCCCATAGCTTTAGCAAAATTCTTAAATTTTGTCTCTTAAG
74463741 GAAATCTAGGCAGTAGGCCTTATTAATAACTTGGGTCTGAGTATGTTGGTGGGCCTTTTAAATTT
66 GAAATCTAGGCAGTAGGCCTTATTAATAACTTGGGTCTGAGTATGTTGGTGGGCCTTTTAAATTT
74463806 AATTCGAGGCAATTCCTAAATTTTAATTTTGGGAGAGAGGGTTCTGGCGATATGGGCTTTTAAAG
131 AATTCGAGGCAATTCCTAAATTTTAATTTTGGGAGAGAGGGTTCTGGCGATATGGGCTTTTAAAG
74463871 TTGAGGTGGTAAAATAGGACACAAAAAGATCTGTGGTAAAGTGGCATGTGGCGCCACCTAGGTGT
196 TTGAGGTGGTAAAATAGGACACAAAAAGATCTGTGGTAAAGTGGCATGTGGCGCCACCTAGGTGT
74463936 TTGGGGAGTGACGTGTGGATGATTAGGGGGAGCCAGAGTTCAAGTCACAAGGTAAGCGTGTTGTT
261 TTGGGGAGTGACGTGTGGATGATTAGGGGGAGCCAGAGTTCAAGTCACAAGGTAAGCGTGTTGTT
74464001 ACTTTTATTTTTGTGTGCATGTGCCGGGCATGTGATAGAGCTTAAGTGGAAATTCGGCTAAGGCT
326 ACTTTTATTTTTGTGTGCATGTGCCGGGCATGTGATAGAGCTTAAGTGGAAATTCGGCTAAGGCT
74464066 TTAGGAAGGTTGGGCCGTGGGTCTGAATGGCCATTGGGGCAAGCTTTATTTT
391 TTAGGAAGGTTGGGCCGTGGGTCTGAATGGCCATTGGGGCAAGCTTTATTTT
74464118 T
1 T
74464119 TTTTTGTTTT
Statistics
Matches: 443, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
442 443 1.00
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (442 bp):
TGTGGGAAAAAGGTCCAGGGCTCGGCCCATAGCTTTAGCAAAATTCTTAAATTTTGTCTCTTAAG
GAAATCTAGGCAGTAGGCCTTATTAATAACTTGGGTCTGAGTATGTTGGTGGGCCTTTTAAATTT
AATTCGAGGCAATTCCTAAATTTTAATTTTGGGAGAGAGGGTTCTGGCGATATGGGCTTTTAAAG
TTGAGGTGGTAAAATAGGACACAAAAAGATCTGTGGTAAAGTGGCATGTGGCGCCACCTAGGTGT
TTGGGGAGTGACGTGTGGATGATTAGGGGGAGCCAGAGTTCAAGTCACAAGGTAAGCGTGTTGTT
ACTTTTATTTTTGTGTGCATGTGCCGGGCATGTGATAGAGCTTAAGTGGAAATTCGGCTAAGGCT
TTAGGAAGGTTGGGCCGTGGGTCTGAATGGCCATTGGGGCAAGCTTTATTTT
Found at i:74465374 original size:27 final size:27
Alignment explanation
Indices: 74465344--74465405 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
74465334 ATTTACTAAA
74465344 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
74465371 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
74465397 ATACCCCTA
1 ATACCCCTA
74465406 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 22 0.69
27 8 0.25
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:74465576 original size:27 final size:27
Alignment explanation
Indices: 74465509--74465623 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
74465499 TGGAGGAAGC
*
74465509 GTTCTAGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
74465536 ATTTCTGGTAGCTCTGCCACAAATATCT
1 -GTTCTGGTGGCTCTGCCACAAATATCT
*
74465564 GTTCTGGTGGCTCTGCCA-TAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
74465590 GTATCTGGTGACTCTGTCAC-AATATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
74465617 GTTCTGG
1 GTTCTGG
74465624 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
26 14 0.18
27 39 0.51
28 24 0.31
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:74470540 original size:24 final size:24
Alignment explanation
Indices: 74470508--74470568 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
74470498 AAAATCCAAT
* * *
74470508 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTATAAT-TA
74470532 GCACTATGTGTGCGAGTATAATTA
1 GCACTATGTGTGCGAGTATAATTA
74470556 GCACTATGTGTGC
1 GCACTATGTGTGC
74470569 AAATTCGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTATAATTA
Found at i:74476654 original size:24 final size:24
Alignment explanation
Indices: 74476599--74476665 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
74476589 GGAAGCTCAT
* * *
74476599 AAGAGCCATAATCAAGATGTTCACA
1 AAGAACCAT-ATCAGGAAGTTCACA
*
74476624 AAGAACCTTATCAGGAAGTTCACA
1 AAGAACCATATCAGGAAGTTCACA
*
74476648 ACA-AACCATATCGGGAAG
1 A-AGAACCATATCAGGAAG
74476666 CTCCGGATAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
24 27 0.77
25 8 0.23
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (24 bp):
AAGAACCATATCAGGAAGTTCACA
Found at i:74482031 original size:27 final size:27
Alignment explanation
Indices: 74481991--74482077 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
74481981 AGGAAGCGTC
*
74481991 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
74482018 CTGGTGGCTCTGCCAC-ATAAATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
74482045 CTGGTGGCTCTGCCACAA-TATCTATAT
1 CTGGTGGCTCTGCCACAATTATCT-GAT
74482072 CTGGTG
1 CTGGTG
74482078 ACTTCGTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
26 6 0.12
27 44 0.86
28 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:74482861 original size:12 final size:12
Alignment explanation
Indices: 74482844--74482872 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
74482834 ATGAGTACAA
74482844 GAGGCCGTGGTC
1 GAGGCCGTGGTC
74482856 GAGGCCGTGGTC
1 GAGGCCGTGGTC
74482868 GAGGC
1 GAGGC
74482873 TGAGGTAGTA
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:0.10, C:0.24, G:0.52, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:74488852 original size:27 final size:26
Alignment explanation
Indices: 74488814--74488899 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
74488804 NNNNNNNAAT
*
74488814 TATCTGATCTGGTGGCTCTGCCACATA
1 TATCTGTTCTGGTGGCTCTGCCACA-A
74488841 TATCTGTTCTGGTGGCTCTGCCACAA
1 TATCTGTTCTGGTGGCTCTGCCACAA
* * **
74488867 TATCTGTATCTGGTGACTTTGTAACAA
1 TATCTGT-TCTGGTGGCTCTGCCACAA
74488894 TATCTG
1 TATCTG
74488900 GCAGCCTCGC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
26 8 0.15
27 45 0.85
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (26 bp):
TATCTGTTCTGGTGGCTCTGCCACAA
Found at i:74488877 original size:32 final size:27
Alignment explanation
Indices: 74488814--74488881 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
74488804 NNNNNNNAAT
74488814 TATCTGATCTGGTGGCTCTGCCACATA
1 TATCTGATCTGGTGGCTCTGCCACATA
*
74488841 TATCTGTTCTGGTGGCTCTGCCACA-A
1 TATCTGATCTGGTGGCTCTGCCACATA
74488867 TATCTGTATCTGGTG
1 TATCTG-ATCTGGTG
74488882 ACTTTGTAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 7 0.18
27 31 0.82
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.37
Consensus pattern (27 bp):
TATCTGATCTGGTGGCTCTGCCACATA
Found at i:74490118 original size:21 final size:21
Alignment explanation
Indices: 74490094--74490136 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
74490084 ATACGCCAAG
*
74490094 TAAAATAATTTCATGCTAACA
1 TAAAACAATTTCATGCTAACA
74490115 TAAAACAATTTCATGCTAACA
1 TAAAACAATTTCATGCTAACA
74490136 T
1 T
74490137 GTGGCAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (21 bp):
TAAAACAATTTCATGCTAACA
Found at i:74505235 original size:42 final size:43
Alignment explanation
Indices: 74505175--74505267 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 43
74505165 TATTTACGTA
* ** * *
74505175 TAAGACCATGTCTAGGACATCGGCATCG-TATCTG-ATTTCATT
1 TAAGACCATCTCTAGGACAGAGGCATCGATAT-TGAATTACATG
* *
74505217 TAAGACCCTCTCTGGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATCTCTAGGACAGAGGCATCGATATTGAATTACATG
74505260 TAAGACCA
1 TAAGACCA
74505268 CGTCAGGGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
42 25 0.61
43 16 0.39
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (43 bp):
TAAGACCATCTCTAGGACAGAGGCATCGATATTGAATTACATG
Found at i:74510190 original size:20 final size:19
Alignment explanation
Indices: 74510163--74510204 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
74510153 CTTTCCAAAT
74510163 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
74510182 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
74510202 TTT
1 TTT
74510205 AATTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:74512923 original size:27 final size:27
Alignment explanation
Indices: 74512867--74512926 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
74512857 NNNNNNNNNN
* * *
74512867 TAATTTTATAAATCGGGGGTACTTTGG
1 TAATTTTACAAATCGAGGGTACTTTAG
*
74512894 TAATTTTACAAGTCGAGGGTA-TTTCAG
1 TAATTTTACAAATCGAGGGTACTTT-AG
74512921 TAATTT
1 TAATTT
74512927 GGTAAACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTACTTTAG
Found at i:74515024 original size:27 final size:26
Alignment explanation
Indices: 74514976--74515035 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
74514966 GCGAGGCTGC
* *
74514976 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
74515003 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
74515029 CAGATAT
1 CAGATAT
74515036 ATATATGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:74515288 original size:27 final size:27
Alignment explanation
Indices: 74515256--74515314 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
74515246 ATAATCCTAG
74515256 GGGTAAAATCA-TAATTCTGTAAATCGA
1 GGGTAAAA-CAGTAATTCTGTAAATCGA
* *
74515283 GGGTAAAACAGTAATTTTGTAATTCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
74515310 GGGTA
1 GGGTA
74515315 CTTTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (27 bp):
GGGTAAAACAGTAATTCTGTAAATCGA
Found at i:74515324 original size:27 final size:27
Alignment explanation
Indices: 74515266--74515381 Score: 87
Period size: 27 Copynumber: 4.3 Consensus size: 27
74515256 GGGTAAAATC
* * ***
74515266 ATAATTCTGTAAATCGAGGGTAAAACA
1 ATAATTTTGTAATTCGAGGGTATTTCA
*
74515293 GTAATTTTGTAATTCGAGGGTACTTT-A
1 ATAATTTTGTAATTCGAGGGTA-TTTCA
74515320 ATAA-TTT-TACATGTCGAGGGTATTTCA
1 ATAATTTTGTA-AT-TCGAGGGTATTTCA
* * *
74515347 GTAATTTTGCAAATT-GAGGGTATTTCG
1 ATAATTTTG-TAATTCGAGGGTATTTCA
74515374 ATAATTTT
1 ATAATTTT
74515382 ACAAATCGAG
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
25 2 0.03
26 8 0.11
27 54 0.76
28 4 0.06
29 2 0.03
30 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
ATAATTTTGTAATTCGAGGGTATTTCA
Found at i:74515386 original size:27 final size:27
Alignment explanation
Indices: 74515306--74515460 Score: 129
Period size: 27 Copynumber: 5.8 Consensus size: 27
74515296 ATTTTGTAAT
* **
74515306 TCGAGGGTACTTT-AATAATTTTACATG
1 TCGAGGGTA-TTTCGATAATTTTACAAA
*
74515333 TCGAGGGTATTTC-AGTAATTTTGCAAA
1 TCGAGGGTATTTCGA-TAATTTTACAAA
*
74515360 TTGAGGGTATTTCGATAATTTTACAAA
1 TCGAGGGTATTTCGATAATTTTACAAA
* * * *
74515387 TCGAGGATATTTGGGTAATTTTATAAA
1 TCGAGGGTATTTCGATAATTTTACAAA
* * * *
74515414 CCGGGGGTACTTT-GGTAATTTTACAAC
1 TCGAGGGTA-TTTCGATAATTTTACAAA
*
74515441 TCG-GGGTATTTCAATAATTT
1 TCGAGGGTATTTCGATAATTT
74515461 GGTAAACTAA
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
25 3 0.03
26 15 0.14
27 83 0.79
28 4 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
TCGAGGGTATTTCGATAATTTTACAAA
Found at i:74515391 original size:54 final size:53
Alignment explanation
Indices: 74515276--74515460 Score: 167
Period size: 54 Copynumber: 3.5 Consensus size: 53
74515266 ATAATTCTGT
*** * *
74515276 AAATCGAGGGTAAAACAGTAATTTTGTAATTCGAGGGTACTTTAATAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTGAAATT-GAGGGTACTTTGATAATTTTAC
**
74515330 ATGTCGAGGGTATTTCAGTAATTTTGCAAATTGAGGGTA-TTTCGATAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTG-AAATTGAGGGTACTTT-GATAATTTTAC
* ** * ** * *
74515384 AAATCGAGGATATTTGGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTT-GAAATTGAGGGTACTTTGATAATTTTAC
* *
74515438 AACTCG-GGGTATTTCAATAATTT
1 AAATCGAGGGTATTTCAGTAATTT
74515461 GGTAAACTAA
Statistics
Matches: 105, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
53 16 0.15
54 82 0.78
55 7 0.07
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTGAAATTGAGGGTACTTTGATAATTTTAC
Found at i:74526036 original size:51 final size:51
Alignment explanation
Indices: 74525959--74526056 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
74525949 ACATAGTACT
74525959 ATTAATAAGGCTTTAGATACACGATTAAATTTCAGTACTATGTTCCAACCC
1 ATTAATAAGGCTTTAGATACACGATTAAATTTCAGTACTATGTTCCAACCC
* * * *
74526010 ATTAATAAGGCTTTAGGTACATGATTAGATTTCAGTACTGTGTTCCA
1 ATTAATAAGGCTTTAGATACACGATTAAATTTCAGTACTATGTTCCA
74526057 TCCTCGAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (51 bp):
ATTAATAAGGCTTTAGATACACGATTAAATTTCAGTACTATGTTCCAACCC
Found at i:74527140 original size:22 final size:22
Alignment explanation
Indices: 74527115--74527156 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
74527105 ATTTTTAAAA
* *
74527115 AAAATTAATTTATTTATTTTTT
1 AAAATTAATTAATTAATTTTTT
*
74527137 AAAATTGATTAATTAATTTT
1 AAAATTAATTAATTAATTTT
74527157 ACCCCAAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
AAAATTAATTAATTAATTTTTT
Found at i:74545519 original size:9 final size:9
Alignment explanation
Indices: 74545505--74545549 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
74545495 TAATGTTCAT
74545505 TTAACCAAA
1 TTAACCAAA
74545514 TTAACCAAA
1 TTAACCAAA
74545523 TT-A--AAA
1 TTAACCAAA
74545529 TTAACCAAAA
1 TTAACC-AAA
74545539 TTAACCAAA
1 TTAACCAAA
74545548 TT
1 TT
74545550 GGTAATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 5 0.16
7 1 0.03
8 1 0.03
9 16 0.50
10 9 0.28
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.27
Consensus pattern (9 bp):
TTAACCAAA
Found at i:74545531 original size:15 final size:16
Alignment explanation
Indices: 74545511--74545542 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
74545501 TCATTTAACC
74545511 AAATTAACC-AAATTA
1 AAATTAACCAAAATTA
74545526 AAATTAACCAAAATTA
1 AAATTAACCAAAATTA
74545542 A
1 A
74545543 CCAAATTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATTAACCAAAATTA
Found at i:74550201 original size:17 final size:17
Alignment explanation
Indices: 74550179--74550212 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
74550169 TACAAAATCA
*
74550179 AATCTTATCAAATTACT
1 AATCTTATAAAATTACT
*
74550196 AATCTTCTAAAATTACT
1 AATCTTATAAAATTACT
74550213 TTCCTTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (17 bp):
AATCTTATAAAATTACT
Found at i:74564080 original size:179 final size:179
Alignment explanation
Indices: 74563780--74564134 Score: 710
Period size: 179 Copynumber: 2.0 Consensus size: 179
74563770 ATGACAATCG
74563780 AAAAATTCATTATAATTAAAACTTCAAAACTAGAATACACCTTCTCTTAAATTGATTGTTGCAAA
1 AAAAATTCATTATAATTAAAACTTCAAAACTAGAATACACCTTCTCTTAAATTGATTGTTGCAAA
74563845 ATTCAGCCCATCAAACCTCCTAGTTACTACAAAATCTTCGAACTAAAATGCCAACTAGAATATTT
66 ATTCAGCCCATCAAACCTCCTAGTTACTACAAAATCTTCGAACTAAAATGCCAACTAGAATATTT
74563910 CTATGATGTGGTCAAGGATAGATTAAAAGATTTAATAAATATTTCATCC
131 CTATGATGTGGTCAAGGATAGATTAAAAGATTTAATAAATATTTCATCC
74563959 AAAAATTCATTATAATTAAAACTTCAAAACTAGAATACACCTTCTCTTAAATTGATTGTTGCAAA
1 AAAAATTCATTATAATTAAAACTTCAAAACTAGAATACACCTTCTCTTAAATTGATTGTTGCAAA
74564024 ATTCAGCCCATCAAACCTCCTAGTTACTACAAAATCTTCGAACTAAAATGCCAACTAGAATATTT
66 ATTCAGCCCATCAAACCTCCTAGTTACTACAAAATCTTCGAACTAAAATGCCAACTAGAATATTT
74564089 CTATGATGTGGTCAAGGATAGATTAAAAGATTTAATAAATATTTCA
131 CTATGATGTGGTCAAGGATAGATTAAAAGATTTAATAAATATTTCA
74564135 ATGACTTTTA
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 176 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (179 bp):
AAAAATTCATTATAATTAAAACTTCAAAACTAGAATACACCTTCTCTTAAATTGATTGTTGCAAA
ATTCAGCCCATCAAACCTCCTAGTTACTACAAAATCTTCGAACTAAAATGCCAACTAGAATATTT
CTATGATGTGGTCAAGGATAGATTAAAAGATTTAATAAATATTTCATCC
Found at i:74570831 original size:20 final size:20
Alignment explanation
Indices: 74570806--74570843 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
74570796 TTTAATAACG
74570806 TTTAATAAATG-AATAAAACA
1 TTTAATAAA-GAAATAAAACA
74570826 TTTAATAAAGAAATAAAA
1 TTTAATAAAGAAATAAAA
74570844 AATATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
TTTAATAAAGAAATAAAACA
Found at i:74571103 original size:17 final size:16
Alignment explanation
Indices: 74571063--74571102 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
74571053 AAGAAAGAAA
*
74571063 GAAAAAATTGTCACTT
1 GAAAAAAATGTCACTT
74571079 GAAAAAAATGTCACTT
1 GAAAAAAATGTCACTT
74571095 GAAAAAAA
1 GAAAAAAA
74571103 AACCTACTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (16 bp):
GAAAAAAATGTCACTT
Found at i:74576456 original size:22 final size:22
Alignment explanation
Indices: 74576431--74576488 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
74576421 AGTGCACTAA
*
74576431 CAAAATAGTAGGCATCGAAGTG
1 CAAAATAGTAGGCATCGAAATG
* * *
74576453 C-AAATCACTAAGCGTCGAAATG
1 CAAAAT-AGTAGGCATCGAAATG
*
74576475 CAAAACAGTAGGCA
1 CAAAATAGTAGGCA
74576489 CTAAAGTGCA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
21 4 0.15
22 19 0.73
23 3 0.12
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (22 bp):
CAAAATAGTAGGCATCGAAATG
Found at i:74576498 original size:22 final size:21
Alignment explanation
Indices: 74576473--74576543 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 21
74576463 AGCGTCGAAA
* *
74576473 TGCAAAACAGTAGGCACTAAAG
1 TGCAAAAC-GTAAGCACCAAAG
*
74576495 TGCAGAACGATAAGCACCAAAG
1 TGCAAAACG-TAAGCACCAAAG
74576517 TGCAAAACGGTAAGCACCAAAG
1 TGCAAAAC-GTAAGCACCAAAG
*
74576539 CGCAA
1 TGCAA
74576544 GATGATAAGC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 1 0.02
22 40 0.95
23 1 0.02
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (21 bp):
TGCAAAACGTAAGCACCAAAG
Found at i:74576552 original size:22 final size:22
Alignment explanation
Indices: 74576486--74576555 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
74576476 AAAACAGTAG
* * *
74576486 GCACTAAAGTGCAGAACGATAA
1 GCACCAAAGCGCAAAACGATAA
* *
74576508 GCACCAAAGTGCAAAACGGTAA
1 GCACCAAAGCGCAAAACGATAA
* *
74576530 GCACCAAAGCGCAAGATGATAA
1 GCACCAAAGCGCAAAACGATAA
74576552 GCAC
1 GCAC
74576556 GCTAAAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.10
Consensus pattern (22 bp):
GCACCAAAGCGCAAAACGATAA
Found at i:74577399 original size:18 final size:18
Alignment explanation
Indices: 74577376--74577414 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
74577366 TTATTCAACA
74577376 TATAAAATTGTAATTAAG
1 TATAAAATTGTAATTAAG
*
74577394 TATAAATTTGTAATTAAG
1 TATAAAATTGTAATTAAG
74577412 TAT
1 TAT
74577415 CATATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (18 bp):
TATAAAATTGTAATTAAG
Found at i:74578598 original size:16 final size:17
Alignment explanation
Indices: 74578569--74578601 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
74578559 TATTAGTTTT
74578569 ATTTTTATTATTTTTGG
1 ATTTTTATTATTTTTGG
74578586 ATTTTTATT-TTTTTGG
1 ATTTTTATTATTTTTGG
74578602 GAAGTTCACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (17 bp):
ATTTTTATTATTTTTGG
Found at i:74586575 original size:24 final size:24
Alignment explanation
Indices: 74586548--74586595 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
74586538 TTTTGAAGAA
* *
74586548 TGAATGATAGATTTTGAGGTTTTT
1 TGAAAGATAGATTTGGAGGTTTTT
* *
74586572 TGAAAGTTAGGTTTGGAGGTTTTT
1 TGAAAGATAGATTTGGAGGTTTTT
74586596 GTTTCGGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (24 bp):
TGAAAGATAGATTTGGAGGTTTTT
Found at i:74587438 original size:31 final size:31
Alignment explanation
Indices: 74587397--74587460 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
74587387 CCTTTTCATA
*
74587397 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
74587428 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
74587459 TT
1 TT
74587461 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:74587725 original size:23 final size:23
Alignment explanation
Indices: 74587675--74587770 Score: 156
Period size: 23 Copynumber: 4.1 Consensus size: 23
74587665 CCTAGCCTCT
* * *
74587675 TTTAATAACTTGGGCAAAAGGCCT
1 TTTAATAACTGGGGCATAA-GCCC
74587699 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
74587722 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
74587745 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
74587768 TTT
1 TTT
74587771 TTCACTTCCT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
23 52 0.75
24 17 0.25
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:74587846 original size:20 final size:20
Alignment explanation
Indices: 74587821--74587887 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
74587811 TTATGAATAC
74587821 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
74587841 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
74587861 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
74587881 ACCATGT
1 ATCATGT
74587888 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:74587852 original size:11 final size:11
Alignment explanation
Indices: 74587821--74587876 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
74587811 TTATGAATAC
74587821 ATCATGTGCAT
1 ATCATGTGCAT
*
74587832 ATCA--TACAT
1 ATCATGTGCAT
74587841 ATCATGTGCAT
1 ATCATGTGCAT
*
74587852 ATCA--TACAT
1 ATCATGTGCAT
*
74587861 GTCATGTGCAT
1 ATCATGTGCAT
74587872 ATCAT
1 ATCAT
74587877 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:74596754 original size:20 final size:20
Alignment explanation
Indices: 74596731--74596793 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
74596721 GTATCGGTAG
74596731 TTTTGTTAAAATATCAATAC
1 TTTTGTTAAAATATCAATAC
* * **
74596751 TTTT-TCTGAAGTATCAATTTT
1 TTTTGT-TAAAATATCAA-TAC
74596772 TTTTGTTAAAATATCAATAC
1 TTTTGTTAAAATATCAATAC
74596792 TT
1 TT
74596794 AAGTGCCCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 1 0.03
20 16 0.50
21 14 0.44
22 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (20 bp):
TTTTGTTAAAATATCAATAC
Found at i:74596786 original size:21 final size:21
Alignment explanation
Indices: 74596731--74596793 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
74596721 GTATCGGTAG
74596731 TTTTGTTAAAATATCAATACT
1 TTTTGTTAAAATATCAATACT
* * * **
74596752 TTTT-CTGAAGTATCAATTTT
1 TTTTGTTAAAATATCAATACT
74596772 TTTTGTTAAAATATCAATACT
1 TTTTGTTAAAATATCAATACT
74596793 T
1 T
74596794 AAGTGCCCAA
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (21 bp):
TTTTGTTAAAATATCAATACT
Found at i:74602274 original size:21 final size:21
Alignment explanation
Indices: 74602237--74602278 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
74602227 TGTTTTGGCA
*
74602237 TGTTTTGAGCTTGTTTAATTG
1 TGTTTTGAGCTAGTTTAATTG
74602258 TGTTTTGAG-TAGTTTTAATTG
1 TGTTTTGAGCTAG-TTTAATTG
74602279 CTAGTCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.17, C:0.02, G:0.24, T:0.57
Consensus pattern (21 bp):
TGTTTTGAGCTAGTTTAATTG
Found at i:74602651 original size:18 final size:20
Alignment explanation
Indices: 74602628--74602670 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
74602618 CCTGCTTTAA
74602628 AAAATTGTC-AAATT-TTCC
1 AAAATTGTCTAAATTCTTCC
* *
74602646 AAAATTTTCTAATTTCTTCC
1 AAAATTGTCTAAATTCTTCC
74602666 AAAAT
1 AAAAT
74602671 GATCCCTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 4 0.19
20 9 0.43
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (20 bp):
AAAATTGTCTAAATTCTTCC
Found at i:74605749 original size:28 final size:28
Alignment explanation
Indices: 74605709--74605787 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
74605699 GCAATCAAAT
* * *
74605709 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
74605737 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
74605765 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
74605788 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:74614993 original size:9 final size:9
Alignment explanation
Indices: 74614979--74615006 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
74614969 TAATTAAAAC
74614979 ATAAAATAA
1 ATAAAATAA
74614988 ATAAAATAA
1 ATAAAATAA
74614997 ATAAAATAA
1 ATAAAATAA
74615006 A
1 A
74615007 CAAATAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
ATAAAATAA
Found at i:74622796 original size:43 final size:40
Alignment explanation
Indices: 74622693--74622809 Score: 101
Period size: 43 Copynumber: 2.8 Consensus size: 40
74622683 GTGATTTATG
* * * *
74622693 TGTAAGACCATGTCTGGGACTTTGGCATCGTATTGGATTTCG
1 TGTAAGACCA-GTCTGGGAC-GTGGCATTGTATTGGATTACA
* *
74622735 TGTAAGACTCTA-TTTGGGACAGTGGCATTGATATTTGATTACA
1 TGTAAGAC-C-AGTCTGGGAC-GTGGCATTG-TATTGGATTACA
74622778 TGTAAGACCACGTCTGGGACGTTGGCATTGTA
1 TGTAAGACCA-GTCTGGGACG-TGGCATTGTA
74622810 CGAGCTTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 33 0.54
44 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.34
Consensus pattern (40 bp):
TGTAAGACCAGTCTGGGACGTGGCATTGTATTGGATTACA
Found at i:74628893 original size:44 final size:43
Alignment explanation
Indices: 74628825--74628925 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 43
74628815 CTGATATGTG
*
74628825 TTATCGTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGAT
1 TTAT-GTGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGAT
*
74628870 TTATGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGAT
1 TTATGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGAT
*
74628913 TT-CGTGTAAGACC
1 TTATGTGTAAGACC
74628926 CAGTGGTATC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
42 10 0.19
43 6 0.12
44 31 0.60
45 5 0.10
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (43 bp):
TTATGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGAT
Found at i:74631176 original size:46 final size:46
Alignment explanation
Indices: 74631126--74631298 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
74631116 TGGTTGAGCA
*
74631126 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
74631172 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
74631219 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
74631265 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
74631299 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:74631282 original size:93 final size:93
Alignment explanation
Indices: 74631123--74631293 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
74631113 GGATGGTTGA
* *
74631123 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
74631188 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
74631216 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
74631281 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
74631294 ACTTAGGGGC
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:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:74631560 original size:19 final size:20
Alignment explanation
Indices: 74631523--74631560 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
74631513 ATAAGGTGGT
74631523 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
74631543 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
74631561 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:74640566 original size:28 final size:26
Alignment explanation
Indices: 74640485--74640568 Score: 87
Period size: 28 Copynumber: 3.1 Consensus size: 26
74640475 TACTAATAAT
*
74640485 AATATCGTGGCAAAGCCACCAGTATTAG
1 AATA-CGTGGCAAAGCCACCAGTA-CAG
* * *
74640513 AATATGTGGCTAAGCCACCAGAACAG
1 AATACGTGGCAAAGCCACCAGTACAG
*
74640539 CAAATACGTGGCAAAGCCACTAGTACAG
1 --AATACGTGGCAAAGCCACCAGTACAG
74640567 AA
1 AA
74640569 CTTCCTCCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 4 0.09
27 16 0.35
28 26 0.57
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
AATACGTGGCAAAGCCACCAGTACAG
Found at i:74644365 original size:8 final size:8
Alignment explanation
Indices: 74644352--74644378 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
74644342 AAAATAAATA
74644352 AAATAAAG
1 AAATAAAG
74644360 AAATAAAG
1 AAATAAAG
74644368 AAATAAAG
1 AAATAAAG
74644376 AAA
1 AAA
74644379 CAATTGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAATAAAG
Found at i:74645774 original size:22 final size:22
Alignment explanation
Indices: 74645746--74645788 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
74645736 AAATACTTGG
74645746 TGATGTATTTTATTTTGAAAAT
1 TGATGTATTTTATTTTGAAAAT
74645768 TGATGTATTTTATTTTGAAAA
1 TGATGTATTTTATTTTGAAAA
74645789 ATGGCATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (22 bp):
TGATGTATTTTATTTTGAAAAT
Found at i:74650439 original size:18 final size:18
Alignment explanation
Indices: 74650413--74650449 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
74650403 TTGAATATAT
*
74650413 GTTTGAATAATGAAATTC
1 GTTTAAATAATGAAATTC
74650431 GTTTAAATAATGAAATTC
1 GTTTAAATAATGAAATTC
74650449 G
1 G
74650450 ATGGATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (18 bp):
GTTTAAATAATGAAATTC
Found at i:74650840 original size:24 final size:23
Alignment explanation
Indices: 74650766--74650840 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 23
74650756 TATCTGGTGC
**
74650766 TTCCTGATAATAACTCTTCGGAGT
1 TTCCTGATAA-AACTCTTATGAGT
* * *
74650790 TACCT-ATAAAGCT-TTATGAGC
1 TTCCTGATAAAACTCTTATGAGT
*
74650811 TCCCTGATTAAAACTCTTATGAGT
1 TTCCTGA-TAAAACTCTTATGAGT
74650835 TTCCTG
1 TTCCTG
74650841 TTTAGCCCAG
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 9 0.23
22 4 0.10
23 10 0.26
24 16 0.41
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (23 bp):
TTCCTGATAAAACTCTTATGAGT
Found at i:74653200 original size:9 final size:9
Alignment explanation
Indices: 74653181--74653217 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
74653171 TGAGTTTTCG
74653181 AATTCGAAT
1 AATTCGAAT
74653190 AACTT-GAAT
1 AA-TTCGAAT
74653199 AATTCGAAT
1 AATTCGAAT
74653208 AATTCGAAT
1 AATTCGAAT
74653217 A
1 A
74653218 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:74656788 original size:46 final size:45
Alignment explanation
Indices: 74656735--74656910 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
74656725 TATTTGGGCA
74656735 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
74656781 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
74656828 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
74656874 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
74656911 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:74656890 original size:93 final size:93
Alignment explanation
Indices: 74656731--74656902 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
74656721 GGGATATTTG
* *
74656731 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
74656796 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
74656824 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
74656889 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
74656903 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:74659258 original size:25 final size:26
Alignment explanation
Indices: 74659189--74659262 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
74659179 TTTCTCATCT
74659189 CAATTTTACCCCCGATAAAATTTTGA
1 CAATTTTACCCCCGATAAAATTTTGA
** * *
74659215 TGATTCTACCCCCGGTAAAATTTTGA
1 CAATTTTACCCCCGATAAAATTTTGA
74659241 CAATTTTA-CCCCGATAAAATTT
1 CAATTTTACCCCCGATAAAATTT
74659263 CCAGAAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 13 0.32
26 27 0.68
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.35
Consensus pattern (26 bp):
CAATTTTACCCCCGATAAAATTTTGA
Found at i:74659416 original size:6 final size:6
Alignment explanation
Indices: 74659405--74659432 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
74659395 AGAATTGCAA
74659405 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
74659433 TTGGAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTCC
Found at i:74678400 original size:37 final size:36
Alignment explanation
Indices: 74678263--74678399 Score: 202
Period size: 37 Copynumber: 3.7 Consensus size: 36
74678253 ATTCCGGGTG
*
74678263 AGACCCGATGACTACGTGTGGAGAGTATGTCCGGATA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCGG-TA
74678300 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCC-GGTA
*
74678337 AGACCCGATGACTACGTGTGGAGATTTTGTCCAGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCC-GGTA
* * *
74678374 AGACCCGATAACTTCATGTGGAGATT
1 AGACCCGATGACTACGTGTGGAGATT
74678400 TCATCTGAGC
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
37 91 0.98
38 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (36 bp):
AGACCCGATGACTACGTGTGGAGATTATGTCCGGTA
Found at i:74678867 original size:134 final size:134
Alignment explanation
Indices: 74678627--74678896 Score: 540
Period size: 134 Copynumber: 2.0 Consensus size: 134
74678617 AATAGACTAG
74678627 TAGAGGGAGGATATTTTGGTTAATGTATATAAGCAATGCGAAAATGGCATCTTTTGAATGTGTAC
1 TAGAGGGAGGATATTTTGGTTAATGTATATAAGCAATGCGAAAATGGCATCTTTTGAATGTGTAC
74678692 TTATAGAAGTTTAAATCTGTATCCCTGACTGTCTTTAGTACTTATCTAAAGGAATGTTCAAAAAA
66 TTATAGAAGTTTAAATCTGTATCCCTGACTGTCTTTAGTACTTATCTAAAGGAATGTTCAAAAAA
74678757 AAAT
131 AAAT
74678761 TAGAGGGAGGATATTTTGGTTAATGTATATAAGCAATGCGAAAATGGCATCTTTTGAATGTGTAC
1 TAGAGGGAGGATATTTTGGTTAATGTATATAAGCAATGCGAAAATGGCATCTTTTGAATGTGTAC
74678826 TTATAGAAGTTTAAATCTGTATCCCTGACTGTCTTTAGTACTTATCTAAAGGAATGTTCAAAAAA
66 TTATAGAAGTTTAAATCTGTATCCCTGACTGTCTTTAGTACTTATCTAAAGGAATGTTCAAAAAA
74678891 AAAT
131 AAAT
74678895 TA
1 TA
74678897 CTGTTCTGAT
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 136 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (134 bp):
TAGAGGGAGGATATTTTGGTTAATGTATATAAGCAATGCGAAAATGGCATCTTTTGAATGTGTAC
TTATAGAAGTTTAAATCTGTATCCCTGACTGTCTTTAGTACTTATCTAAAGGAATGTTCAAAAAA
AAAT
Found at i:74680166 original size:26 final size:26
Alignment explanation
Indices: 74680132--74680204 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
74680122 CTCTTTTAAT
* *
74680132 AACTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
74680158 AACTGGGGCATGAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
74680184 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
74680205 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:74680279 original size:20 final size:20
Alignment explanation
Indices: 74680254--74680310 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
74680244 TTATGAATAC
74680254 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
74680274 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
**
74680294 ATCATGTAAATATCATA
1 ATCATGTGCATATCATA
74680311 TCAATCAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:74680285 original size:11 final size:11
Alignment explanation
Indices: 74680254--74680309 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
74680244 TTATGAATAC
*
74680254 ATCATGTGCAT
1 ATCATGTACAT
74680265 ATCA--TACAT
1 ATCATGTACAT
*
74680274 ATCATGTGCAT
1 ATCATGTACAT
74680285 ATC--GTACAT
1 ATCATGTACAT
*
74680294 ATCATGTAAAT
1 ATCATGTACAT
74680305 ATCAT
1 ATCAT
74680310 ATCAATCAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:74683136 original size:27 final size:27
Alignment explanation
Indices: 74683105--74683282 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
74683095 TAAATTGTAC
74683105 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
74683132 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
74683158 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
74683186 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
74683214 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
74683241 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
74683268 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
74683283 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:74683219 original size:82 final size:81
Alignment explanation
Indices: 74683106--74683261 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
74683096 AAATTGTACA
* *
74683106 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
74683170 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
74683187 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
74683252 TGCGAGTTGA
65 TGCGAATTGA
74683262 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:74683273 original size:82 final size:81
Alignment explanation
Indices: 74683102--74683282 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
74683092 GATTAAATTG
* *
74683102 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
74683167 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
74683183 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
74683247 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
74683265 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
74683283 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:74688851 original size:16 final size:16
Alignment explanation
Indices: 74688830--74688861 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
74688820 AATGATCTTG
74688830 AAACGAAATAAAGTTT
1 AAACGAAATAAAGTTT
74688846 AAACGAAATAAAGTTT
1 AAACGAAATAAAGTTT
74688862 TAGGGACATC
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:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
AAACGAAATAAAGTTT
Found at i:74694560 original size:14 final size:14
Alignment explanation
Indices: 74694519--74694572 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
74694509 AAAAATTCTC
*
74694519 ATTTTTAAAAATAAT
1 ATTTTT-AAATTAAT
*
74694534 ATATTTAACATT-AT
1 ATTTTTAA-ATTAAT
74694548 ATTTTTTAAATTAAT
1 A-TTTTTAAATTAAT
74694563 ATTTTTAAAT
1 ATTTTTAAAT
74694573 ATTAAAGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 17 0.52
15 16 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTTTTAAATTAAT
Done.