Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 114 of 136
Found at i:38515867 original size:31 final size:28
Alignment explanation
Indices: 38515829--38515910 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 28
38515819 TGCATGTTTT
38515829 AATGAGTTCAAACTATATCAAATGGATATCA
1 AATGAGTTCAAACTATATCAAAT-G-T-TCA
* **
38515860 AATGAGTTCAAACTATATTAAAATGTTTT
1 AATGAGTTCAAACTATA-TCAAATGTTCA
*
38515889 AATGAGTTCAAACTATTTCAAA
1 AATGAGTTCAAACTATATCAAA
38515911 AGAAATATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.09
29 17 0.38
30 1 0.02
31 18 0.40
32 5 0.11
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (28 bp):
AATGAGTTCAAACTATATCAAATGTTCA
Found at i:38522503 original size:21 final size:21
Alignment explanation
Indices: 38522477--38522522 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
38522467 CATGGGTGAG
** *
38522477 CACACGGGTGTGTGGAGTAGC
1 CACACGGGCATGTGGAATAGC
38522498 CACACGGGCATGTGGAATAGC
1 CACACGGGCATGTGGAATAGC
38522519 CACA
1 CACA
38522523 TGGCCTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.35, T:0.15
Consensus pattern (21 bp):
CACACGGGCATGTGGAATAGC
Found at i:38523709 original size:15 final size:15
Alignment explanation
Indices: 38523691--38523735 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
38523681 ACATATTGAG
* *
38523691 ATTAAACATCATTTC
1 ATTAAAGATCATGTC
38523706 ATTAAAGATCATGTC
1 ATTAAAGATCATGTC
38523721 ATTAAAGATCATGTC
1 ATTAAAGATCATGTC
38523736 CAAAAAGGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (15 bp):
ATTAAAGATCATGTC
Found at i:38524349 original size:21 final size:21
Alignment explanation
Indices: 38524303--38524343 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
38524293 ACAATTTTAG
*
38524303 CGATAC-T-TTTAAAAATTAT
1 CGATACTTGTTTAAAAAGTAT
38524322 CGATACTTGTTTAAAAAGTAT
1 CGATACTTGTTTAAAAAGTAT
38524343 C
1 C
38524344 AGTACTCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
CGATACTTGTTTAAAAAGTAT
Found at i:38539020 original size:29 final size:31
Alignment explanation
Indices: 38538972--38539036 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
38538962 TTGATAATTT
* * *
38538972 AAGTATCACATTAGACA-TTT-TTAATATAC
1 AAGTATCACATGAAACATTTTATTAAAATAC
*
38539001 AAGTATCACATGAAATATTTTATTAAAATAC
1 AAGTATCACATGAAACATTTTATTAAAATAC
38539032 AAGTA
1 AAGTA
38539037 CCAAATGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.47
30 3 0.10
31 13 0.43
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (31 bp):
AAGTATCACATGAAACATTTTATTAAAATAC
Found at i:38543857 original size:14 final size:14
Alignment explanation
Indices: 38543840--38543879 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
38543830 ACCTCATATA
38543840 AATTTTCTATAAAT
1 AATTTTCTATAAAT
* *
38543854 AATTTTTTAAAAAT
1 AATTTTCTATAAAT
38543868 AATTTTCTATAA
1 AATTTTCTATAA
38543880 TTATTTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTTCTATAAAT
Found at i:38544006 original size:19 final size:20
Alignment explanation
Indices: 38543984--38544040 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
38543974 CATTTTCAAC
38543984 ATTATTTTTAATAATTT-TT
1 ATTATTTTTAATAATTTCTT
* *
38544003 ATTAATTTTAACAATTTCTT
1 ATTATTTTTAATAATTTCTT
* *
38544023 ATCATTTTAAATAATTTC
1 ATTATTTTTAATAATTTC
38544041 CTTTTTTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATTTTTAATAATTTCTT
Found at i:38544038 original size:20 final size:20
Alignment explanation
Indices: 38543984--38544040 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
38543974 CATTTTCAAC
*
38543984 ATTATTTTTAATAATTT-TT
1 ATTAATTTTAATAATTTCTT
*
38544003 ATTAATTTTAACAATTTCTT
1 ATTAATTTTAATAATTTCTT
*
38544023 A-TCATTTTAAATAATTTC
1 ATTAATTTT-AATAATTTC
38544041 CTTTTTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 21 0.66
20 11 0.34
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTAATTTTAATAATTTCTT
Found at i:38544877 original size:21 final size:21
Alignment explanation
Indices: 38544848--38544888 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
38544838 TGCTTTTGTT
*
38544848 CTTTTATACTTTTATATAATC
1 CTTTCATACTTTTATATAATC
38544869 CTTTCATACTTTTATATAAT
1 CTTTCATACTTTTATATAAT
38544889 TTATATTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (21 bp):
CTTTCATACTTTTATATAATC
Found at i:38549231 original size:29 final size:30
Alignment explanation
Indices: 38549195--38549381 Score: 183
Period size: 29 Copynumber: 6.4 Consensus size: 30
38549185 TGTATAAGTG
*
38549195 AGCCTTTGTGGCT-ATCTCTGTTAAATGGA
1 AGCCTTTGTGGCTGATCTATGTTAAATGGA
* * *
38549224 AGTCTTTGTGGC-CATCTATGTTCAATGGA
1 AGCCTTTGTGGCTGATCTATGTTAAATGGA
38549253 AGCCTTTGTGGC-GATCTATGTTAATATGGA
1 AGCCTTTGTGGCTGATCTATGTTAA-ATGGA
* *
38549283 AGCCTTTGTGG-TGATCTCTGTTATAA-GAA
1 AGCCTTTGTGGCTGATCTATGTTA-AATGGA
** *
38549312 AGTGTTTGTGG-TGATCTATGTTATAA-GAA
1 AGCCTTTGTGGCTGATCTATGTTA-AATGGA
* *
38549341 AGCCTTTGTGG-TGATCTCTGTTAAAAGGA
1 AGCCTTTGTGGCTGATCTATGTTAAATGGA
*
38549370 AGCCTTTATGGC
1 AGCCTTTGTGGC
38549382 AACCTTTGCT
Statistics
Matches: 136, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.01
29 106 0.78
30 27 0.20
31 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (30 bp):
AGCCTTTGTGGCTGATCTATGTTAAATGGA
Found at i:38549344 original size:88 final size:87
Alignment explanation
Indices: 38549195--38549381 Score: 227
Period size: 88 Copynumber: 2.1 Consensus size: 87
38549185 TGTATAAGTG
* * *
38549195 AGCCTTTGTGGCTATCTCTGTTAAATGGAAGTCTTTGTGGCCATCTATGTTCAATGGAAGCCTTT
1 AGCCTTTGTGGCTATCTCTGTTAAATGAAAGTCTTTGTGGCCATCTATGTTCAAAGAAAGCCTTT
*
38549260 GTGGCGATCTATGTTAATATGGA
66 GTGGCGATCTATGTTAA-AAGGA
* **
38549283 AGCCTTTGTGG-TGATCTCTGTTATAA-GAAAGTGTTTGTGGTGATCTATGTT-ATAAGAAAGCC
1 AGCCTTTGTGGCT-ATCTCTGTTA-AATGAAAGTCTTTGTGGCCATCTATGTTCA-AAGAAAGCC
* *
38549345 TTTGTGGTGATCTCTGTTAAAAGGA
63 TTTGTGGCGATCTATGTTAAAAGGA
*
38549370 AGCCTTTATGGC
1 AGCCTTTGTGGC
38549382 AACCTTTGCT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
87 16 0.19
88 67 0.79
89 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (87 bp):
AGCCTTTGTGGCTATCTCTGTTAAATGAAAGTCTTTGTGGCCATCTATGTTCAAAGAAAGCCTTT
GTGGCGATCTATGTTAAAAGGA
Found at i:38568187 original size:184 final size:184
Alignment explanation
Indices: 38567878--38568235 Score: 603
Period size: 184 Copynumber: 1.9 Consensus size: 184
38567868 CTTGCGACAA
* * *
38567878 CCATCACATACCATCAACCCTATTGATCATATATCAGCTGCCTCTTTCAGGATCAATCGAGTCCT
1 CCATCACATACCATCAACCCTATTGATCACATATCAGCGGCCTCTTTCAGGATCAATCGAGTCCC
* *
38567943 AGCAAGCTCTGTCGATTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTGCG
66 AGCAAGCCCTATCGATTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTGCG
38568008 CCACCAGTCAACGACAACAGCAGAATTTTTTCAATAGTTTCCTTGGAGAGGCAG
131 CCACCAGTCAACGACAACAGCAGAATTTTTTCAATAGTTTCCTTGGAGAGGCAG
* * *
38568062 CCATCACATACCATTGATCCCTATTGATCACATA-CAGCGGCCTCTTTCGGGCA-CAATCGAGTC
1 CCATCACATACCA-TCAACCCTATTGATCACATATCAGCGGCCTCTTTCAGG-ATCAATCGAGTC
38568125 CCAGCAAGCCCTATCGATTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTG
64 CCAGCAAGCCCTATCGATTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTG
*
38568190 CGCCACCAGTCAACGGCAACAGCAGAATTTTTTCAATAGTTTCCTT
129 CGCCACCAGTCAACGACAACAGCAGAATTTTTTCAATAGTTTCCTT
38568236 AGATATTGTG
Statistics
Matches: 163, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
184 145 0.89
185 18 0.11
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (184 bp):
CCATCACATACCATCAACCCTATTGATCACATATCAGCGGCCTCTTTCAGGATCAATCGAGTCCC
AGCAAGCCCTATCGATTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTGCG
CCACCAGTCAACGACAACAGCAGAATTTTTTCAATAGTTTCCTTGGAGAGGCAG
Found at i:38570383 original size:20 final size:20
Alignment explanation
Indices: 38570358--38570410 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
38570348 TTATGTTAAC
* *
38570358 TTCAAATCATGTTGTTCATT
1 TTCAAATCATATTCTTCATT
38570378 TTCAAA--ATATTCTTCATT
1 TTCAAATCATATTCTTCATT
*
38570396 TACAAATCATTATTC
1 TTCAAATCA-TATTC
38570411 AATTTCAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 15 0.56
20 7 0.26
21 5 0.19
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (20 bp):
TTCAAATCATATTCTTCATT
Found at i:38570395 original size:18 final size:19
Alignment explanation
Indices: 38570372--38570419 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
38570362 AATCATGTTG
*
38570372 TTCATTTTCAAAAT-ATTC
1 TTCATTTTCAAAATCATTA
*
38570390 TTCATTTAC-AAATCATTA
1 TTCATTTTCAAAATCATTA
*
38570408 TTCAATTTCAAA
1 TTCATTTTCAAA
38570420 TTTCAATTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 4 0.17
18 18 0.75
19 2 0.08
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.46
Consensus pattern (19 bp):
TTCATTTTCAAAATCATTA
Found at i:38573435 original size:12 final size:11
Alignment explanation
Indices: 38573408--38573445 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
38573398 GAAAATAGTC
38573408 AAAATTAATA-
1 AAAATTAATAT
38573418 AAAATTAACTAT
1 AAAATTAA-TAT
38573430 AAAATTAAT-T
1 AAAATTAATAT
38573440 AAAATT
1 AAAATT
38573446 CATCATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:38578864 original size:40 final size:41
Alignment explanation
Indices: 38578799--38578888 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 41
38578789 TGAATTATGG
* *
38578799 AATT-CTGAATATTGTTTTTGAGTACTGAATTGAATTGTGA
1 AATTACTGAATATTGTTTATGAGTACTGAATTGAACTGTGA
* * *
38578839 AGTTACTGAATATTG-TTATGTGTACTGCATTGAACTGTGA
1 AATTACTGAATATTGTTTATGAGTACTGAATTGAACTGTGA
*
38578879 AATTATTGAA
1 AATTACTGAA
38578889 GTAATGAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 32 0.76
41 10 0.24
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (41 bp):
AATTACTGAATATTGTTTATGAGTACTGAATTGAACTGTGA
Found at i:38579160 original size:45 final size:45
Alignment explanation
Indices: 38579092--38579192 Score: 157
Period size: 45 Copynumber: 2.2 Consensus size: 45
38579082 GCCAACTACT
* **
38579092 GTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
* *
38579137 GTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
38579182 GTTACTGTTAC
1 GTTACTGTTAC
38579193 TGCCACCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
Found at i:38579882 original size:21 final size:21
Alignment explanation
Indices: 38579858--38579901 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
38579848 AATATTAGAG
38579858 TTATTTAAAATCCTACTAAGC
1 TTATTTAAAATCCTACTAAGC
38579879 TTATTTAAAATCCTACTAAGC
1 TTATTTAAAATCCTACTAAGC
38579900 TT
1 TT
38579902 GGGATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (21 bp):
TTATTTAAAATCCTACTAAGC
Found at i:38583415 original size:22 final size:22
Alignment explanation
Indices: 38583390--38583437 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
38583380 TTCTCTAATC
38583390 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
38583412 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
38583434 CTCT
1 CTCT
38583438 GAAACCCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:38583468 original size:51 final size:51
Alignment explanation
Indices: 38583412--38583524 Score: 190
Period size: 51 Copynumber: 2.2 Consensus size: 51
38583402 TTCCAAAATT
*
38583412 CTCTCAATTTCCTTCCAAAATTCTCTGAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
* *
38583463 CTCTCAATTTCCTTCGAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
38583514 CCCTCAATTTC
1 CTCTCAATTTC
38583525 ATTTTTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.42
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
Found at i:38585083 original size:18 final size:18
Alignment explanation
Indices: 38585057--38585091 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38585047 ATGTGTGTTT
* *
38585057 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
38585075 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
38585092 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:38585623 original size:29 final size:29
Alignment explanation
Indices: 38585586--38586216 Score: 1228
Period size: 29 Copynumber: 21.8 Consensus size: 29
38585576 ACACAATTAA
*
38585586 CTAACTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585615 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585644 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585673 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585702 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585731 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585760 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585789 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585818 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585847 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585876 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585905 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585934 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585963 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38585992 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38586021 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38586050 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38586079 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38586108 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38586137 CTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
*
38586166 CTAATTTAATTAAAAACCCTAACCCTAAA
1 CTAATTTAATTAAAAACCCTAACCCTAAC
38586195 C-AACTTTAATTAAAAACCCTAA
1 CTAA-TTTAATTAAAAACCCTAA
38586217 TTTAATTTTA
Statistics
Matches: 599, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
28 2 0.00
29 597 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
CTAATTTAATTAAAAACCCTAACCCTAAC
Found at i:38585660 original size:58 final size:58
Alignment explanation
Indices: 38585586--38586319 Score: 1266
Period size: 58 Copynumber: 12.9 Consensus size: 58
38585576 ACACAATTAA
*
38585586 CTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
38585644 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
38585702 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
38585760 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
38585818 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
38585876 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
38585934 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
38585992 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
38586050 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
38586108 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
*
38586166 CTAATTTAATTAAAAACCCTAACCCTAAAC-AACTTTAATTAAAAACCCTAA---T---
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAA-TTTAATTAAAAACCCTAACCCTAAC
* * * * *
38586218 TTAATTTTACTAACAA---TAA-CCTAA-CT----TAATTAAAAACCCTAACCCTAAA
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
* *
38586267 CTAACTTAATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAACC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACC
38586320 ATTAACACAA
Statistics
Matches: 648, Mismatches: 11, Indels: 34
0.94 0.02 0.05
Matches are distributed among these distances:
43 16 0.02
46 1 0.00
47 1 0.00
48 5 0.01
49 14 0.02
52 15 0.02
53 5 0.01
54 2 0.00
55 1 0.00
57 2 0.00
58 586 0.90
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (58 bp):
CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
Found at i:38585702 original size:87 final size:87
Alignment explanation
Indices: 38585586--38586319 Score: 1266
Period size: 87 Copynumber: 8.6 Consensus size: 87
38585576 ACACAATTAA
*
38585586 CTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
38585651 AATTAAAAACCCTAACCCTAAC
66 AATTAAAAACCCTAACCCTAAC
38585673 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
38585738 AATTAAAAACCCTAACCCTAAC
66 AATTAAAAACCCTAACCCTAAC
38585760 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
38585825 AATTAAAAACCCTAACCCTAAC
66 AATTAAAAACCCTAACCCTAAC
38585847 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
38585912 AATTAAAAACCCTAACCCTAAC
66 AATTAAAAACCCTAACCCTAAC
38585934 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
38585999 AATTAAAAACCCTAACCCTAAC
66 AATTAAAAACCCTAACCCTAAC
38586021 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
38586086 AATTAAAAACCCTAACCCTAAC
66 AATTAAAAACCCTAACCCTAAC
38586108 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
*
38586173 AATTAAAAACCCTAACCCTAAA
66 AATTAAAAACCCTAACCCTAAC
* * * *
38586195 C-AACTTTAATTAAAAACCCTAA---T---TTAATTTTACTAACAA---TAA-CCTAA-CT----
1 CTAA-TTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
*
38586244 TAATTAAAAACCCTAACCCTAAA
65 TAATTAAAAACCCTAACCCTAAC
* *
38586267 CTAACTTAATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAACC
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACC
38586320 ATTAACACAA
Statistics
Matches: 624, Mismatches: 11, Indels: 29
0.94 0.02 0.04
Matches are distributed among these distances:
72 41 0.07
73 2 0.00
75 1 0.00
76 2 0.00
77 5 0.01
78 15 0.02
81 15 0.02
82 1 0.00
84 1 0.00
86 2 0.00
87 539 0.86
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (87 bp):
CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
AATTAAAAACCCTAACCCTAAC
Found at i:38586251 original size:101 final size:101
Alignment explanation
Indices: 38586133--38586317 Score: 327
Period size: 101 Copynumber: 1.8 Consensus size: 101
38586123 ACCCTAACCC
* * *
38586133 TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAAC-A
1 TAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAATTAAAAACCCTAACCCTAAACTA
38586197 ACTTTAATTAAAAACCCTAATTTAATTTTACTAACAA
66 A-TTTAATTAAAAACCCTAATTTAATTTTACTAACAA
38586234 TAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAATTAAAAACCCTAACCCTAAACTA
1 TAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAATTAAAAACCCTAACCCTAAACTA
38586299 ATTTAATTAAAAACCCTAA
66 ATTTAATTAAAAACCCTAA
38586318 CCATTAACAC
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
101 78 0.98
102 2 0.03
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (101 bp):
TAACCTAACTTAATTAAAAACCCTAACCCTAAACTAACTTAATTAAAAACCCTAACCCTAAACTA
ATTTAATTAAAAACCCTAATTTAATTTTACTAACAA
Found at i:38586259 original size:29 final size:29
Alignment explanation
Indices: 38586238--38586319 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
38586228 TAACAATAAC
38586238 CTAACTTAATTAAAAACCCTAACCCTAAA
1 CTAACTTAATTAAAAACCCTAACCCTAAA
38586267 CTAACTTAATTAAAAACCCTAACCCTAAA
1 CTAACTTAATTAAAAACCCTAACCCTAAA
*
38586296 CTAATTTAATTAAAAACCCTAACC
1 CTAACTTAATTAAAAACCCTAACC
38586320 ATTAACACAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.26
Consensus pattern (29 bp):
CTAACTTAATTAAAAACCCTAACCCTAAA
Found at i:38586382 original size:55 final size:55
Alignment explanation
Indices: 38586314--38586469 Score: 242
Period size: 55 Copynumber: 2.8 Consensus size: 55
38586304 ATTAAAAACC
*
38586314 CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTTGATAATTTTA
1 CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTTGATAATATTA
* *
38586369 CTAACCATTAACACAATTTTAGGACTTAATAATTTTACATATTTTGATAATATTA
1 CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTTGATAATATTA
* *
38586424 CTAACCATTAACAAAAAAATTTTGG-CTTAATAATTTTACATAATTT
1 CTAACCATTAAC--ACAATTTTTGGACTTAATAATTTTACATAATTT
38586470 TACATAATGT
Statistics
Matches: 92, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
55 64 0.70
56 20 0.22
57 8 0.09
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (55 bp):
CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTTGATAATATTA
Found at i:38586468 original size:10 final size:10
Alignment explanation
Indices: 38586453--38586477 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38586443 TTTTGGCTTA
38586453 ATAATTTTAC
1 ATAATTTTAC
38586463 ATAATTTTAC
1 ATAATTTTAC
38586473 ATAAT
1 ATAAT
38586478 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:38586593 original size:121 final size:122
Alignment explanation
Indices: 38586396--38586621 Score: 418
Period size: 121 Copynumber: 1.9 Consensus size: 122
38586386 TTTAGGACTT
* *
38586396 AATAATTTTACATATTTTGATAATATTACTAACCATTAACAAAAAAATTTTGGCTTAATAATTTT
1 AATAATTTTACATATTTTGATAATATTACTAACCATTAACAAAAAAAATTTGGCTTAATAATTTC
38586461 ACATAATTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAACAATTA
66 ACATAATTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAACAATTA
38586518 AATAATTTTACATATTTTGATAATATTACTAACCATTAA-AAAAAAAATTTGGCTTAATAATTTC
1 AATAATTTTACATATTTTGATAATATTACTAACCATTAACAAAAAAAATTTGGCTTAATAATTTC
*
38586582 ACATACTTTTACATAATGTTAGATTTGGTAAAATGTTTTG
66 ACATAATTTTACATAATGTTAGATTTGGTAAAATGTTTTG
38586622 GCTTAATTAT
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
121 62 0.61
122 39 0.39
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (122 bp):
AATAATTTTACATATTTTGATAATATTACTAACCATTAACAAAAAAAATTTGGCTTAATAATTTC
ACATAATTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAACAATTA
Found at i:38586639 original size:53 final size:53
Alignment explanation
Indices: 38586565--38586674 Score: 193
Period size: 53 Copynumber: 2.1 Consensus size: 53
38586555 AAAAAAAAAA
*
38586565 TTTGGCTTAATAATTTCACATACTTTTACATAATGTTAGATTTGGTAAAATGT
1 TTTGGCTTAATAATTTCACATACTTGTACATAATGTTAGATTTGGTAAAATGT
* *
38586618 TTTGGCTTAATTATTTTACATACTTGTACATAATGTTAGATTTGGTAAAATGT
1 TTTGGCTTAATAATTTCACATACTTGTACATAATGTTAGATTTGGTAAAATGT
38586671 TTTG
1 TTTG
38586675 TCTGGAACTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (53 bp):
TTTGGCTTAATAATTTCACATACTTGTACATAATGTTAGATTTGGTAAAATGT
Found at i:38589846 original size:123 final size:123
Alignment explanation
Indices: 38589627--38589974 Score: 567
Period size: 123 Copynumber: 2.8 Consensus size: 123
38589617 CCCAAACTTG
*
38589627 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGAGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
38589692 TAGCAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
66 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
* *
38589750 CTACTGTAGCAAAATCGAGTCCACGAGGGCGCGATTTCACAATTTCTACTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGAGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
38589815 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
66 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
* * *
38589873 CTACTATAGCAAAATC-ACGTCCACGAGGGTGTGATTTCACAATTTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAATCGA-GTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTG
*
38589937 GTAGAAG-AGATTTTATACAATTTGAC-CAGAAACGTCAA
65 GTAGAAGCA-ATTTTATACTATTTG-CTCAGAAACGTCAA
38589975 CTCGAAATAA
Statistics
Matches: 211, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
122 2 0.01
123 208 0.99
124 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (123 bp):
CTACTGTAGCAAAATCGAGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
Found at i:38596211 original size:20 final size:19
Alignment explanation
Indices: 38596174--38596241 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
38596164 ACAATTTGGC
*
38596174 ATCGATACCATTTAAAAACT
1 ATCGATA-CATTTAAAAAAT
*
38596194 ATCGATACTTTTATAAAAAT
1 ATCGATACATTTA-AAAAAT
* **
38596214 ATTGATACATAAAATAAAAT
1 ATCGATACATTTAA-AAAAT
38596234 ATCGATAC
1 ATCGATAC
38596242 CTGTGGGTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 6 0.15
20 33 0.85
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (19 bp):
ATCGATACATTTAAAAAAT
Found at i:38600339 original size:18 final size:18
Alignment explanation
Indices: 38600316--38600352 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
38600306 AAGCTTCCTT
*
38600316 TAAAATTAATAAGTGAAG
1 TAAAATTAAGAAGTGAAG
38600334 TAAAATTAAGAAGTGAAG
1 TAAAATTAAGAAGTGAAG
38600352 T
1 T
38600353 GATGATCTCT
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:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (18 bp):
TAAAATTAAGAAGTGAAG
Found at i:38610357 original size:131 final size:131
Alignment explanation
Indices: 38610116--38610358 Score: 319
Period size: 131 Copynumber: 1.9 Consensus size: 131
38610106 ATTTTTAAAA
* * *
38610116 TAAATATTAATATTATAAGTATATTTAAATTTTCTATCTTCATCTTCTACTTCAACCCATTATTC
1 TAAATATTAATATTACAAGTATATTTAAATTTTCTATCTTCATCTTCTACTTCAACCCATCAATC
* *** *
38610181 TTGTTGTCATCTTCCATATTGGATCTTCTTCTTCAATCTATATCATCATCTGAAATCTATATTTT
66 TCGACATCATCTTCCATATTGGATCTTCTTCTACAATCTATATCATCATCTGAAATCTATATTTT
38610246 T
131 T
* * * * *
38610247 TAAATATTAATATTACAAGTATATTT-AATTTCTCTATTTTGATCTTTTGCTTTAACCCATCAAT
1 TAAATATTAATATTACAAGTATATTTAAATTT-TCTATCTTCATCTTCTACTTCAACCCATCAAT
* *
38610311 CTCGACATCATCTTTCATCTT-GATCTTCTTCTACAATCTATCATCATC
65 CTCGACATCATCTTCCATATTGGATCTTCTTCTACAATCTAT-ATCATC
38610359 TAGACCTACT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
130 24 0.25
131 71 0.75
ACGTcount: A:0.28, C:0.20, G:0.05, T:0.47
Consensus pattern (131 bp):
TAAATATTAATATTACAAGTATATTTAAATTTTCTATCTTCATCTTCTACTTCAACCCATCAATC
TCGACATCATCTTCCATATTGGATCTTCTTCTACAATCTATATCATCATCTGAAATCTATATTTT
T
Found at i:38619474 original size:23 final size:23
Alignment explanation
Indices: 38619444--38619489 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
38619434 TCAAGTAAGA
38619444 ACACTTACTTCTAGGAATTAGAT
1 ACACTTACTTCTAGGAATTAGAT
*
38619467 ACACTTACTTTTAGGAATTAGAT
1 ACACTTACTTCTAGGAATTAGAT
38619490 TAGATGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (23 bp):
ACACTTACTTCTAGGAATTAGAT
Found at i:38621416 original size:17 final size:17
Alignment explanation
Indices: 38621375--38621418 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
38621365 TTAGTGAATC
*
38621375 GGAAGCTCGTTCGGGTT
1 GGAAGCTTGTTCGGGTT
38621392 GGAAGCTTGTTCGGGTT
1 GGAAGCTTGTTCGGGTT
38621409 GGAAGCTTGT
1 GGAAGCTTGT
38621419 CAAAGTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.14, C:0.14, G:0.41, T:0.32
Consensus pattern (17 bp):
GGAAGCTTGTTCGGGTT
Found at i:38629188 original size:27 final size:27
Alignment explanation
Indices: 38629150--38629205 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
38629140 TTATCACACT
38629150 ATCCATCAACTATATC-GATACTTTTGG
1 ATCCATCAACTATATCAG-TACTTTTGG
*
38629177 ATCCATCGACTATATCAGTACTTTTGG
1 ATCCATCAACTATATCAGTACTTTTGG
38629204 AT
1 AT
38629206 GTTTTTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (27 bp):
ATCCATCAACTATATCAGTACTTTTGG
Found at i:38637045 original size:165 final size:164
Alignment explanation
Indices: 38636616--38637118 Score: 794
Period size: 165 Copynumber: 3.1 Consensus size: 164
38636606 TAATTTCATA
* * * * *
38636616 AAAAATCCCTTTACAAAATTTGTTTATTTTACAACAAGAACTCATAATATTTCATTAAATTTAAA
1 AAAAAT-CATTTACAAAACTTGTTTA-TTTACAACAAGGACTCATAATCTTTCATTAAATTTCAA
* * ** * * *
38636681 GAATCATGCAAACATGCTCATGGAAAAACCCTAAAACTTCACCAATTTTGCAAATTAGTCCCTAG
64 GAATCATGCAAACATTCTCATGGAAAAACCCTAAAACTTTAATAGTTTTGCAAAATAGTCCCTGG
38636746 GCTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
129 GCTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
* *
38636782 GAAAATCATTTAAAAAACTTGTTTATTT--AACAAGGACTCATAATCTTTCATTAAATTTCAAGA
1 AAAAATCATTTACAAAACTTGTTTATTTACAACAAGGACTCATAATCTTTCATTAAATTTCAAGA
* *
38636845 ATCATCCAAACATTCTCATGGAAAAACCCTAAAACTTTAATAGTTTTGCAAAATAGTCTCTGGGC
66 ATCATGCAAACATTCTCATGGAAAAACCCTAAAACTTTAATAGTTTTGCAAAATAGTCCCTGGGC
* *
38636910 TAACTAGATTAAGCTACAACGACTTTAAAAACAT
131 TAGCTAGATTAAGCTACAACGACTTCAAAAACAT
38636944 AAAAATCATTTACAAAACTTGTTTATTTAACAACAAGGACTCATAATCTTTCATTAAATTTCAAG
1 AAAAATCATTTACAAAACTTGTTTATTT-ACAACAAGGACTCATAATCTTTCATTAAATTTCAAG
*
38637009 AATCATGCAAACATTCTCATGGAAAAACCCTAAAACTTTAATAGTTTTACAAAATAGTCCCTGGG
65 AATCATGCAAACATTCTCATGGAAAAACCCTAAAACTTTAATAGTTTTGCAAAATAGTCCCTGGG
38637074 CTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
130 CTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
38637109 AAAAATCATT
1 AAAAATCATT
38637119 AAAAACGGGA
Statistics
Matches: 309, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
162 146 0.47
164 3 0.01
165 155 0.50
166 5 0.02
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (164 bp):
AAAAATCATTTACAAAACTTGTTTATTTACAACAAGGACTCATAATCTTTCATTAAATTTCAAGA
ATCATGCAAACATTCTCATGGAAAAACCCTAAAACTTTAATAGTTTTGCAAAATAGTCCCTGGGC
TAGCTAGATTAAGCTACAACGACTTCAAAAACAT
Found at i:38638935 original size:248 final size:249
Alignment explanation
Indices: 38638491--38638987 Score: 987
Period size: 248 Copynumber: 2.0 Consensus size: 249
38638481 TAAAAATAAA
38638491 AATTCAAAAAATAATTTTAAACTATAATTTTTTATTTGTCACCATCCTTCTAGTCTTTCTTCTCA
1 AATTCAAAAAATAATTTTAAACTATAATTTTTTATTTGTCACCATCCTTCTAGTCTTTCTTCTCA
38638556 CCTTCTTCATTAGAAAATGGAAACTTTTTGCATTCTTCAGTCTGTTTTTAATTCTCTTAACCTCT
66 CCTTCTTCATTAGAAAATGGAAACTTTTTGCATTCTTCAGTCTGTTTTTAATTCTCTTAACCTCT
38638621 TTTAAAGAAAGAAAGAAACAAAAGAAGTCATCTTCTTCAAAGCTTCCTACTTTAAAAAAGCTGGA
131 TTTAAAGAAAGAAAGAAACAAAAGAAGTCATCTTCTTCAAAGCTTCCTACTTTAAAAAAGCTGGA
38638686 CCTTTTTACTTGCCTCAATTCGCTGACTTCATTCAGATCTTGTTGGTAACAATT
196 CCTTTTTACTTGCCTCAATTCGCTGACTTCATTCAGATCTTGTTGGTAACAATT
38638740 AATTC-AAAAATAATTTTAAACTATAATTTTTTATTTGTCACCATCCTTCTAGTCTTTCTTCTCA
1 AATTCAAAAAATAATTTTAAACTATAATTTTTTATTTGTCACCATCCTTCTAGTCTTTCTTCTCA
38638804 CCTTCTTCATTAGAAAATGGAAACTTTTTGCATTCTTCAGTCTGTTTTTAATTCTCTTAACCTCT
66 CCTTCTTCATTAGAAAATGGAAACTTTTTGCATTCTTCAGTCTGTTTTTAATTCTCTTAACCTCT
38638869 TTTAAAGAAAGAAAGAAACAAAAGAAGTCATCTTCTTCAAAGCTTCCTACTTTAAAAAAGCTGGA
131 TTTAAAGAAAGAAAGAAACAAAAGAAGTCATCTTCTTCAAAGCTTCCTACTTTAAAAAAGCTGGA
38638934 CCTTTTTACTTGCCTCAATTCGCTGACTTCATTCAGATCTTGTTGGTAACAATT
196 CCTTTTTACTTGCCTCAATTCGCTGACTTCATTCAGATCTTGTTGGTAACAATT
38638988 TTTATAAAGA
Statistics
Matches: 248, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
248 243 0.98
249 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.40
Consensus pattern (249 bp):
AATTCAAAAAATAATTTTAAACTATAATTTTTTATTTGTCACCATCCTTCTAGTCTTTCTTCTCA
CCTTCTTCATTAGAAAATGGAAACTTTTTGCATTCTTCAGTCTGTTTTTAATTCTCTTAACCTCT
TTTAAAGAAAGAAAGAAACAAAAGAAGTCATCTTCTTCAAAGCTTCCTACTTTAAAAAAGCTGGA
CCTTTTTACTTGCCTCAATTCGCTGACTTCATTCAGATCTTGTTGGTAACAATT
Found at i:38642241 original size:16 final size:16
Alignment explanation
Indices: 38642211--38642240 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38642201 ACAATTGTTG
38642211 TTCTATTACTATTTTA
1 TTCTATTACTATTTTA
38642227 TTCTATTACT-TTTT
1 TTCTATTACTATTTT
38642241 TTTATCCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCTATTACTATTTTA
Found at i:38648548 original size:5 final size:5
Alignment explanation
Indices: 38648524--38648557 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
38648514 CCGATTCGTC
38648524 AGGAGA AGGAA AGAGAA AGGAA AGGAA AGGAA AG
1 AGGA-A AGGAA AG-GAA AGGAA AGGAA AGGAA AG
38648558 AGAAGTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.67
6 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
AGGAA
Found at i:38650909 original size:25 final size:25
Alignment explanation
Indices: 38650881--38650949 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
38650871 TTATCCCAGT
**
38650881 TAAATTTTGAAAAATTTACCCCTGG
1 TAAATTTTGAAAAATTTACCCCTAA
** *
38650906 TAAATTTTTGACGATTTTACCCCTAA
1 TAAA-TTTTGAAAAATTTACCCCTAA
38650932 TAAAATTTTGAGAAAATT
1 T-AAATTTTGA-AAAATT
38650950 CGTTCAATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
25 4 0.12
26 23 0.70
27 6 0.18
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (25 bp):
TAAATTTTGAAAAATTTACCCCTAA
Found at i:38653081 original size:21 final size:21
Alignment explanation
Indices: 38653055--38653094 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38653045 CAAAACGACG
*
38653055 TGGTTTTGCCTTTTAACTTAA
1 TGGTTTTGACTTTTAACTTAA
38653076 TGGTTTTGACTTTTAACTT
1 TGGTTTTGACTTTTAACTT
38653095 TAGAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.55
Consensus pattern (21 bp):
TGGTTTTGACTTTTAACTTAA
Found at i:38668688 original size:21 final size:21
Alignment explanation
Indices: 38668662--38668711 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
38668652 ATTACGTTTG
*
38668662 TTTTTTTAACTTAA-GAGTTA
1 TTTTTTTAACTTAATGAATTA
*
38668682 TTTTTTTAATTTAATGAATTA
1 TTTTTTTAACTTAATGAATTA
*
38668703 TTTATTTAA
1 TTTTTTTAA
38668712 ATTATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (21 bp):
TTTTTTTAACTTAATGAATTA
Found at i:38675093 original size:2 final size:2
Alignment explanation
Indices: 38675086--38675139 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
38675076 ATAACTATGT
38675086 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
38675128 CA CA CA CA CA CA
1 CA CA CA CA CA CA
38675140 TTTTCTAGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:38676619 original size:14 final size:14
Alignment explanation
Indices: 38676602--38676631 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38676592 TAACCCCCAA
*
38676602 TTACTAACTTGATT
1 TTACTAACTCGATT
38676616 TTACTAACTCGATT
1 TTACTAACTCGATT
38676630 TT
1 TT
38676632 TGGGATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (14 bp):
TTACTAACTCGATT
Found at i:38689694 original size:23 final size:23
Alignment explanation
Indices: 38689666--38689727 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
38689656 TTCTATGTGC
*
38689666 GCAAGTGATAGTGGCACTACGGT
1 GCAAGTGATAATGGCACTACGGT
* * *
38689689 GCAAGTGAAAACGACACTACGGT
1 GCAAGTGATAATGGCACTACGGT
*
38689712 GCAAGTGTTAATGGCA
1 GCAAGTGATAATGGCA
38689728 TTTCGGTGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.31, T:0.19
Consensus pattern (23 bp):
GCAAGTGATAATGGCACTACGGT
Found at i:38708009 original size:31 final size:31
Alignment explanation
Indices: 38707951--38708019 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
38707941 TTCGATCGTT
* *
38707951 AATTTTGGTTCTTATACTTTTCGAATTA-GA
1 AATTTTAGTTCTTATACTTTTCAAATTATGA
*
38707981 CAATTTTAGTCTCTT-TACTTTTTAAATTATGA
1 -AATTTTAGT-TCTTATACTTTTCAAATTATGA
38708013 AATTTTA
1 AATTTTA
38708020 ATCCTAACCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 27 0.82
32 6 0.18
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (31 bp):
AATTTTAGTTCTTATACTTTTCAAATTATGA
Found at i:38711749 original size:7 final size:7
Alignment explanation
Indices: 38711734--38711765 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
38711724 AAATAAAAGA
*
38711734 TTAGAGT
1 TTAGGGT
38711741 TTAGGGT
1 TTAGGGT
38711748 TTAGGGT
1 TTAGGGT
38711755 TTAGGGT
1 TTAGGGT
38711762 TTAG
1 TTAG
38711766 AATTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
TTAGGGT
Found at i:38712360 original size:261 final size:261
Alignment explanation
Indices: 38711896--38712365 Score: 897
Period size: 261 Copynumber: 1.8 Consensus size: 261
38711886 ATTTATTAAG
* *
38711896 GAAATCGCTCCCACGTGGACGCGCTTTTGGTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTAGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
38711961 GTTTCTAAGCAAATAGTGTGTAAAACGCTTTAAGCGGGATGCTTTATGAGAAGAAATATTGAAAT
66 GTTTCTAAGCAAATAGTGTGTAAAACGCTTTAAGCGGGATGCTTTATGAGAAGAAATATTGAAAT
38712026 CGCTCCCACGTGGACGTGTTTTTGCTACAGTAGCATGTTTGGGCTGAAGCTATAAATGAGGCAAA
131 CGCTCCCACGTGGACGTGTTTTTGCTACAGTAGCATGTTTGGGCTGAAGCTATAAATGAGGCAAA
38712091 AAATGTTCTCAGATAGAAAATAGTTAAAAAACGCTTCAAACAGGATGCTTTATCAGAAGAATTTC
196 AAATGTTCTCAGATAGAAAATAGTTAAAAAACGCTTCAAACAGGATGCTTTATCAGAAGAATTTC
38712156 T
261 T
*
38712157 GAAATCGCTCCCATC-TAGACGCGCTTTTGCTACAGTAGGTCTTGAAAAAATAATTTCGAGTTGA
1 GAAATCGCTCCCA-CGTAGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGA
38712221 CGTTTCTAAGCAAATAGTGTGTAAAACGCTTTAAGCGGGATGCTTTATGAGAAGAAATATTGAAA
65 CGTTTCTAAGCAAATAGTGTGTAAAACGCTTTAAGCGGGATGCTTTATGAGAAGAAATATTGAAA
38712286 TCGCTCCCACGTGGACGTGTTTTTGCTACAGTAGCATGTTTGGGCTGAAGCTATAAATGAGGCAA
130 TCGCTCCCACGTGGACGTGTTTTTGCTACAGTAGCATGTTTGGGCTGAAGCTATAAATGAGGCAA
38712351 AAAATGTTCTCAGAT
195 AAAATGTTCTCAGAT
38712366 TGCATAAGTT
Statistics
Matches: 205, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
261 204 1.00
262 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (261 bp):
GAAATCGCTCCCACGTAGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTAAGCAAATAGTGTGTAAAACGCTTTAAGCGGGATGCTTTATGAGAAGAAATATTGAAAT
CGCTCCCACGTGGACGTGTTTTTGCTACAGTAGCATGTTTGGGCTGAAGCTATAAATGAGGCAAA
AAATGTTCTCAGATAGAAAATAGTTAAAAAACGCTTCAAACAGGATGCTTTATCAGAAGAATTTC
T
Found at i:38713233 original size:14 final size:14
Alignment explanation
Indices: 38713214--38713242 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38713204 GCATACTCAC
38713214 CTCCAGCCCACATG
1 CTCCAGCCCACATG
38713228 CTCCAGCCCACATG
1 CTCCAGCCCACATG
38713242 C
1 C
38713243 ATAATGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.52, G:0.14, T:0.14
Consensus pattern (14 bp):
CTCCAGCCCACATG
Found at i:38715947 original size:18 final size:18
Alignment explanation
Indices: 38715921--38715963 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
38715911 GACTAGAAAA
* * *
38715921 AGGAAACATATAAGGGTT
1 AGGATACATAAAAAGGTT
38715939 AGGATACATAAAAAGGTT
1 AGGATACATAAAAAGGTT
38715957 AGGATAC
1 AGGATAC
38715964 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.07, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATAAAAAGGTT
Found at i:38717745 original size:14 final size:14
Alignment explanation
Indices: 38717716--38717745 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
38717706 TTTACGATTT
38717716 AAAAAAAATTTAAA
1 AAAAAAAATTTAAA
38717730 AAAATAAAATTTAAA
1 AAAA-AAAATTTAAA
38717745 A
1 A
38717746 CTATTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAAAATTTAAA
Found at i:38717781 original size:29 final size:26
Alignment explanation
Indices: 38717724--38717784 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 26
38717714 TTAAAAAAAA
38717724 TTTAAAAAAATAAAATTTAAAACTAT
1 TTTAAAAAAATAAAATTTAAAACTAT
* * *
38717750 TTTAAAAATAATTAAAAATTTGAAGCTCT
1 TTTAAAAA-AA-T-AAAATTTAAAACTAT
38717779 TTTAAA
1 TTTAAA
38717785 TAATCGTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 8 0.28
27 2 0.07
28 1 0.03
29 18 0.62
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (26 bp):
TTTAAAAAAATAAAATTTAAAACTAT
Found at i:38718146 original size:31 final size:29
Alignment explanation
Indices: 38718108--38718174 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 29
38718098 AATTTCAAAA
*
38718108 TTATATATAAATTATAATTTAATGTGTAATT
1 TTATATATAAATTATAATTT--TGTATAATT
* *
38718139 TTATATATAAATTTTTATTTTGTATAATT
1 TTATATATAAATTATAATTTTGTATAATT
38718168 TTATATA
1 TTATATA
38718175 AGAAATTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 15 0.45
31 18 0.55
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (29 bp):
TTATATATAAATTATAATTTTGTATAATT
Found at i:38718155 original size:27 final size:29
Alignment explanation
Indices: 38718125--38718183 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
38718115 TAAATTATAA
* *
38718125 TTTA-ATGTGTAATTTTATAT-ATAAATT
1 TTTATATGTATAATTTTATATAAGAAATT
*
38718152 TTTATTTTGTATAATTTTATATAAGAAATT
1 TTTA-TATGTATAATTTTATATAAGAAATT
38718182 TT
1 TT
38718184 GATTTTATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 4 0.15
29 14 0.54
30 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATATGTATAATTTTATATAAGAAATT
Found at i:38718199 original size:30 final size:29
Alignment explanation
Indices: 38718134--38718191 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
38718124 ATTTAATGTG
* * *
38718134 TAATTTTATATATAAATTTTTATTTTGTA
1 TAATTTTATATAGAAATTTTGATTTTATA
38718163 TAATTTTATATAAGAAATTTTGATTTTAT
1 TAATTTTATAT-AGAAATTTTGATTTTAT
38718192 CTTATTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (29 bp):
TAATTTTATATAGAAATTTTGATTTTATA
Found at i:38719367 original size:5 final size:5
Alignment explanation
Indices: 38719357--38719382 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
38719347 GAGATGGAAT
38719357 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
38719383 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:38722063 original size:16 final size:16
Alignment explanation
Indices: 38722012--38722074 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 16
38722002 GTAATAAGTT
*
38722012 ATGCGAACCCTTATGC
1 ATGCGAACCCTTATGA
* * *
38722028 ATGAGAACCATTATGT
1 ATGCGAACCCTTATGA
38722044 ATGCGAACCCTTATGA
1 ATGCGAACCCTTATGA
* *
38722060 ATGCAAACACTTATG
1 ATGCGAACCCTTATG
38722075 GATTTATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (16 bp):
ATGCGAACCCTTATGA
Found at i:38722185 original size:24 final size:24
Alignment explanation
Indices: 38722157--38722207 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
38722147 ATATTGTGCG
*
38722157 AACCCTCATACGATTTAATATGCA
1 AACCCTCATACGAATTAATATGCA
** *
38722181 AACCCTCATGTGAATTAGTATGCA
1 AACCCTCATACGAATTAATATGCA
38722205 AAC
1 AAC
38722208 TATCATGTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (24 bp):
AACCCTCATACGAATTAATATGCA
Found at i:38726521 original size:3 final size:3
Alignment explanation
Indices: 38726515--38726550 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
38726505 TATGTTGTTG
38726515 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38726551 AAGGGGATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38726569 original size:129 final size:130
Alignment explanation
Indices: 38726419--38726679 Score: 515
Period size: 129 Copynumber: 2.0 Consensus size: 130
38726409 TCAAATAAAA
38726419 TAAAGGGGATTAAATAGGAAATTATGCCAATTACCAAATTTGAGGCGGCATAAGCATAAAAAATC
1 TAAAGGGGATTAAATAGGAAATTATGCCAATTACCAAATTTGAGGCGGCATAAGCATAAAAAATC
38726484 TAAGACTTTTATGTGTTAAAATATGTTGTTGTTATTATTATTATTATTATTATTATTATTATTAT
66 TAAGACTTTTATGTGTTAAAATATGTTGTTGTTATTATTATTATTATTATTATTATTATTATTAT
38726549 TAAAGGGGATT-AATAGGAAATTATGCCAATTACCAAATTTGAGGCGGCATAAGCATAAAAAATC
1 TAAAGGGGATTAAATAGGAAATTATGCCAATTACCAAATTTGAGGCGGCATAAGCATAAAAAATC
38726613 TAAGACTTTTATGTGTTAAAATATGTTGTTGTTATTATTATTATTATTATTATTATTATTATTAT
66 TAAGACTTTTATGTGTTAAAATATGTTGTTGTTATTATTATTATTATTATTATTATTATTATTAT
38726678 TA
1 TA
38726680 TTATTATTAT
Statistics
Matches: 131, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
129 120 0.92
130 11 0.08
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.41
Consensus pattern (130 bp):
TAAAGGGGATTAAATAGGAAATTATGCCAATTACCAAATTTGAGGCGGCATAAGCATAAAAAATC
TAAGACTTTTATGTGTTAAAATATGTTGTTGTTATTATTATTATTATTATTATTATTATTATTAT
Found at i:38726650 original size:3 final size:3
Alignment explanation
Indices: 38726644--38726701 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
38726634 TATGTTGTTG
38726644 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38726692 TTA TTA TTA T
1 TTA TTA TTA T
38726702 ANNNNNNNNN
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38735583 original size:3 final size:3
Alignment explanation
Indices: 38735575--38735649 Score: 141
Period size: 3 Copynumber: 25.0 Consensus size: 3
38735565 ATGAGGTAAG
*
38735575 TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38735623 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
38735650 ATTGTGACTG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38737580 original size:24 final size:24
Alignment explanation
Indices: 38737547--38737605 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
38737537 GAACCTTCAA
* *
38737547 GCAAAACCTTATGTGATTTAGTAT
1 GCAAACCCTTATGTGATCTAGTAT
*
38737571 GCGAACCCTTATGTGATCTAGTAT
1 GCAAACCCTTATGTGATCTAGTAT
38737595 GCAAACCCTTA
1 GCAAACCCTTA
38737606 CATAAATAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (24 bp):
GCAAACCCTTATGTGATCTAGTAT
Found at i:38737711 original size:130 final size:129
Alignment explanation
Indices: 38737469--38737731 Score: 357
Period size: 130 Copynumber: 2.0 Consensus size: 129
38737459 ATTTCATCAG
* **
38737469 AACCCTTACATAAACATGTATACACACAAAATCTGTATAAATTGATAGGTAAACTGTAGCTGATA
1 AACCCTTACATAAACAGGTATACACACAAAATCTGTATAAATTGATAGACAAACTGTAGCTGATA
* ** *
38737534 TATGAACCTTCAAGCAAAACCTTATGTGATTTAGTATGCGAACCCTTATGTGATCTAGTATGCA
66 TATGAACCTTCAAGCAAAACCTTATGTAATTTAGTACACGAACCCTTATGTGATCCAGTATGCA
* * * * *
38737598 AACCCTTACATAAATAGGTATACATACTAACTCTGTTATAAATTGATAGACGAACTGTAGCTGAT
1 AACCCTTACATAAACAGGTATACACACAAAATCTG-TATAAATTGATAGACAAACTGTAGCTGAT
* * *
38737663 ATGA-GAACCTTCATGTAAAACCTTATGTAATTTAGTACACGAAGCCTTATGTGATCCAGTATGC
65 AT-ATGAACCTTCAAGCAAAACCTTATGTAATTTAGTACACGAACCCTTATGTGATCCAGTATGC
*
38737727 G
129 A
38737728 AACC
1 AACC
38737732 TTGTATGTGC
Statistics
Matches: 116, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
129 30 0.26
130 85 0.73
131 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (129 bp):
AACCCTTACATAAACAGGTATACACACAAAATCTGTATAAATTGATAGACAAACTGTAGCTGATA
TATGAACCTTCAAGCAAAACCTTATGTAATTTAGTACACGAACCCTTATGTGATCCAGTATGCA
Found at i:38744576 original size:18 final size:17
Alignment explanation
Indices: 38744540--38744587 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
38744530 CATATATGTA
**
38744540 TATATAAAGCAAAAAAG
1 TATATAAAAAAAAAAAG
38744557 TATATAAAAAAAAGAAAG
1 TATATAAAAAAAA-AAAG
*
38744575 TAAAATAAAAAAA
1 T-ATATAAAAAAA
38744588 TGTAGGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 11 0.42
18 5 0.19
19 10 0.38
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (17 bp):
TATATAAAAAAAAAAAG
Found at i:38744600 original size:19 final size:19
Alignment explanation
Indices: 38744553--38744601 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
38744543 ATAAAGCAAA
38744553 AAAGTAT-ATAAAAAAAAG
1 AAAGTATAATAAAAAAAAG
* *
38744571 AAAGTAAAATAAAAAAATG
1 AAAGTATAATAAAAAAAAG
* *
38744590 TAGGTATAATAA
1 AAAGTATAATAA
38744602 TAATAATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.20
Consensus pattern (19 bp):
AAAGTATAATAAAAAAAAG
Found at i:38752376 original size:26 final size:25
Alignment explanation
Indices: 38752347--38752427 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 25
38752337 TTCGATCACG
38752347 TGTGTAGTACTATGTGCAGGATACTA
1 TGTGTAGTACTATGTGCAGG-TACTA
* *
38752373 TGTGTA-T-CGGATAGT-AATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGT-ACTA
38752398 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGG-TACTA
38752424 TGTG
1 TGTG
38752428 AACTGATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (25 bp):
TGTGTAGTACTATGTGCAGGTACTA
Found at i:38752426 original size:51 final size:49
Alignment explanation
Indices: 38752239--38752427 Score: 157
Period size: 51 Copynumber: 3.8 Consensus size: 49
38752229 TGAAAGTCAT
* * * * * *
38752239 GGTCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAAAATGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACGATAGT-ATA
** * ** * *
38752289 GGTCGTATTTGTAGTACTATGTGCAGGCTTTTATGCGTACCAGATAGCT-TC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-C-GATAG-TATA
* * *
38752340 GATCACGTGTGTAGTACTATGTGCAGGATACTATGTGTATCGGATAGTA-A
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-C-GATAGTATA
38752390 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
38752428 AACTGATATC
Statistics
Matches: 106, Mismatches: 28, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
50 31 0.29
51 72 0.68
52 2 0.02
53 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACGATAGTATA
Found at i:38755254 original size:83 final size:81
Alignment explanation
Indices: 38755165--38755363 Score: 204
Period size: 83 Copynumber: 2.4 Consensus size: 81
38755155 TTAAACGAAA
* * * * * *
38755165 GGAATAAATCCCGAAATAGAATTGTTTGA-TTACGTCTTTG-TTTGGAAACAAAACAATATCGAA
1 GGAATAAATCCCGAAACAGAATTATTTAATTTA-G--TTCGATTTGGAAACAAAACAAAATCAAA
*
38755228 TAAAATCTTGTTAAACGGC
63 CAAAATCTTGTTAAACGGC
* * * *
38755247 GATAATAAATCCTGAAACAGATTTATTTAATTTAGTTCGAATTTGGAAACAAAATAAAATCAAAC
1 G-GAATAAATCCCGAAACAGAATTATTTAATTTAGTTCG-ATTTGGAAACAAAACAAAATCAAAC
*
38755312 AAAATCTTTTTAAACGGC
64 AAAATCTTGTTAAACGGC
* *
38755330 GGAATAAATCCCAAAACAGATTTTATTTAATTTA
1 GGAATAAATCCCGAAACAGA-ATTATTTAATTTA
38755364 ATATCTCCTT
Statistics
Matches: 97, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
81 3 0.03
82 17 0.18
83 74 0.76
84 3 0.03
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (81 bp):
GGAATAAATCCCGAAACAGAATTATTTAATTTAGTTCGATTTGGAAACAAAACAAAATCAAACAA
AATCTTGTTAAACGGC
Found at i:38755615 original size:77 final size:78
Alignment explanation
Indices: 38755372--38755680 Score: 467
Period size: 78 Copynumber: 4.0 Consensus size: 78
38755362 TAATATCTCC
* * * * * *
38755372 TTTTTGGAAATAAACCAAATTTGGAATGAAATTGTTGAACGGCGGGAATTAATCCTGAAAAGATT
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGATT
38755437 TTTATTTTACTCA
66 TTTATTTTACTCA
* * *
38755450 TTTTTGGAAATAAAACAAAATTGGAATAAAATCGTTGAAAGGCGGGAATCAATCCCGAAATGATT
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGATT
*
38755515 TTTATATTACTCA
66 TTTATTTTACTCA
* *
38755528 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCGATCTCGAAACGA-T
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGATT
*
38755592 TTTATTTTACTCG
66 TTTATTTTACTCA
* * *
38755605 TTTTTTGAAATAAAACAATTTTGGAATAAAATCGTTGAACGACGGGAATCAATCCCGAAACGATT
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGATT
38755670 TTTATTTTACT
66 TTTATTTTACT
38755681 TTTAATTTCC
Statistics
Matches: 209, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
77 70 0.33
78 139 0.67
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (78 bp):
TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGATT
TTTATTTTACTCA
Found at i:38755655 original size:155 final size:156
Alignment explanation
Indices: 38755372--38755680 Score: 469
Period size: 155 Copynumber: 2.0 Consensus size: 156
38755362 TAATATCTCC
* * * *
38755372 TTTTTGGAAATAAACCAAATTTGGAATGAAATTGTTGAACGGCGGGAATTAATCCTGAAAAGATT
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAATCCTGAAAAGATT
*
38755437 TTTATTTTACTCATTTTTGGAAATAAAACAAAATTGGAATAAAATCGTTGAAAGGCGGGAATCAA
66 TTTATTTTACTCATTTTTGGAAATAAAACAAAATTGGAATAAAATCGTTGAAAGACGGGAATCAA
*
38755502 TCCCGAAATGATTTTTATATTACTCA
131 TCCCGAAACGATTTTTATATTACTCA
* *
38755528 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCGAT-CTCGAAACGA-
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAATCCT-GAAAAGAT
* * ** *
38755591 TTTTATTTTACTCGTTTTTTGAAATAAAACAATTTTGGAATAAAATCGTTGAACGACGGGAATCA
65 TTTTATTTTACTCATTTTTGGAAATAAAACAAAATTGGAATAAAATCGTTGAAAGACGGGAATCA
*
38755656 ATCCCGAAACGATTTTTATTTTACT
130 ATCCCGAAACGATTTTTATATTACT
38755681 TTTAATTTCC
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
155 84 0.61
156 54 0.39
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (156 bp):
TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAATCCTGAAAAGATT
TTTATTTTACTCATTTTTGGAAATAAAACAAAATTGGAATAAAATCGTTGAAAGACGGGAATCAA
TCCCGAAACGATTTTTATATTACTCA
Found at i:38758213 original size:23 final size:21
Alignment explanation
Indices: 38758178--38758219 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
38758168 AGCTTTATTT
*
38758178 AATAAATTATTTTGATATAATA
1 AATAAAATATTTTGA-ATAATA
38758200 AATAAAATATTTTTGAATAA
1 AATAAAATA-TTTTGAATAA
38758220 ATATGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
AATAAAATATTTTGAATAATA
Found at i:38765694 original size:17 final size:16
Alignment explanation
Indices: 38765666--38765703 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
38765656 TAAATATTAG
38765666 ATTAAATTAATCTAAT
1 ATTAAATTAATCTAAT
38765682 ATTAAATTTAATCTAAT
1 ATTAAA-TTAATCTAAT
38765699 ATTAA
1 ATTAA
38765704 GATAATCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTAAATTAATCTAAT
Found at i:38767058 original size:50 final size:50
Alignment explanation
Indices: 38766994--38767099 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
38766984 GAGTTACACA
*
38766994 CACATGGTCAATGGCTAACTTAGGATTTAGGTAAATCACACCATGAATGT
1 CACAAGGTCAATGGCTAACTTAGGATTTAGGTAAATCACACCATGAATGT
38767044 CACAAGGTCAATGGCTAACTTAGGATTTAGGTAAATCACACCATGAATGT
1 CACAAGGTCAATGGCTAACTTAGGATTTAGGTAAATCACACCATGAATGT
38767094 CACAAG
1 CACAAG
38767100 TGAATTAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (50 bp):
CACAAGGTCAATGGCTAACTTAGGATTTAGGTAAATCACACCATGAATGT
Found at i:38769076 original size:13 final size:14
Alignment explanation
Indices: 38769057--38769154 Score: 75
Period size: 13 Copynumber: 7.2 Consensus size: 14
38769047 TCATCAGGTG
38769057 GAAAATGATTATAT
1 GAAAATGATTATAT
38769071 -AAAATGATTATAT
1 GAAAATGATTATAT
*
38769084 GAACCA-G-TTATAT
1 GAA-AATGATTATAT
38769097 GGAAAATGCA-TATAT
1 -GAAAATG-ATTATAT
38769112 -AAAATGATTATAT
1 GAAAATGATTATAT
**
38769125 GAATTTG-TTATAT
1 GAAAATGATTATAT
*
38769138 GCAAAT-AGTTATAT
1 GAAAATGA-TTATAT
38769152 GAA
1 GAA
38769155 TTGTGTATAC
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
12 1 0.02
13 40 0.61
14 19 0.29
15 6 0.09
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.36
Consensus pattern (14 bp):
GAAAATGATTATAT
Found at i:38769169 original size:26 final size:25
Alignment explanation
Indices: 38769113--38769178 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 25
38769103 TGCATATATA
38769113 AAATGATTATATGAATTTGTTATATGC
1 AAATG-TTATATGAATTTGTTATA-GC
38769140 AAATAGTTATATGAA-TTGTGTATA-C
1 AAAT-GTTATATGAATTTGT-TATAGC
38769165 AAAATGTCTATATG
1 -AAATGT-TATATG
38769179 GATAGATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
25 3 0.09
26 14 0.40
27 17 0.49
28 1 0.03
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (25 bp):
AAATGTTATATGAATTTGTTATAGC
Found at i:38770141 original size:15 final size:15
Alignment explanation
Indices: 38770121--38770164 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
38770111 CTATGTATGC
* *
38770121 AAAACATAATAGACG
1 AAAACACAAAAGACG
38770136 AAAACACAAAAGACG
1 AAAACACAAAAGACG
*
38770151 GAAACACAAAAGAC
1 AAAACACAAAAGAC
38770165 ATAATAGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.64, C:0.18, G:0.14, T:0.05
Consensus pattern (15 bp):
AAAACACAAAAGACG
Found at i:38778250 original size:44 final size:44
Alignment explanation
Indices: 38778187--38778406 Score: 440
Period size: 44 Copynumber: 5.0 Consensus size: 44
38778177 AATGATAAAA
38778187 AAGTAAAAATTCTAATGCACGATTTCAAAAAGATGAGTTTTAAT
1 AAGTAAAAATTCTAATGCACGATTTCAAAAAGATGAGTTTTAAT
38778231 AAGTAAAAATTCTAATGCACGATTTCAAAAAGATGAGTTTTAAT
1 AAGTAAAAATTCTAATGCACGATTTCAAAAAGATGAGTTTTAAT
38778275 AAGTAAAAATTCTAATGCACGATTTCAAAAAGATGAGTTTTAAT
1 AAGTAAAAATTCTAATGCACGATTTCAAAAAGATGAGTTTTAAT
38778319 AAGTAAAAATTCTAATGCACGATTTCAAAAAGATGAGTTTTAAT
1 AAGTAAAAATTCTAATGCACGATTTCAAAAAGATGAGTTTTAAT
38778363 AAGTAAAAATTCTAATGCACGATTTCAAAAAGATGAGTTTTAAT
1 AAGTAAAAATTCTAATGCACGATTTCAAAAAGATGAGTTTTAAT
38778407 CAATATGACA
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 176 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (44 bp):
AAGTAAAAATTCTAATGCACGATTTCAAAAAGATGAGTTTTAAT
Found at i:38800833 original size:16 final size:18
Alignment explanation
Indices: 38800807--38800839 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
38800797 TTAAATTAAC
38800807 TAAACTAA-TTTCTCAAT
1 TAAACTAATTTTCTCAAT
38800824 TAAA-TAATTTTCTCAA
1 TAAACTAATTTTCTCAA
38800840 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAACTAATTTTCTCAAT
Found at i:38804470 original size:224 final size:225
Alignment explanation
Indices: 38804070--38804521 Score: 888
Period size: 224 Copynumber: 2.0 Consensus size: 225
38804060 TATCTTATAA
38804070 AATATAATAAAATAATTAAAATATAAAAATATGACACAGGACAACTTTTAAAGTGGAATTAAAAA
1 AATATAAT-AAATAATTAAAATATAAAAATATGACACAGGACAACTTTTAAAGTGGAATTAAAAA
38804135 ATTCCACCGTTTTTATATGAAATGCTAAACCAATGCAAATATATATTAAACGTAAATTGTAATTG
65 ATTCCACCGTTTTTATATGAAATGCTAAACCAATGCAAATATATATTAAACGTAAATTGTAATTG
38804200 TAATCAAAATGGTAACTGAGAAAGAATCCAAATTAATTGTTGACCGTCAGATGAGATAATAGAAT
130 TAATCAAAATGGTAACTGAGAAAGAATCCAAATTAATTGTTGACCGTCAGATGAGATAATAGAAT
38804265 ATGACCGTTTGAAACGCTCCAGTCCCCACCG
195 ATGACCGTTTGAAACGCTCCAGTCCCCACCG
38804296 AATATAAT-AATAATTAAAATATAAAAATATGACACAGGACAACTTTTAAAGTGGAATTAAAAAA
1 AATATAATAAATAATTAAAATATAAAAATATGACACAGGACAACTTTTAAAGTGGAATTAAAAAA
38804360 TTCCACCGTTTTTATATGAAATGCTAAACCAATGCAAATATATATTAAACGTAAATTGTAATTGT
66 TTCCACCGTTTTTATATGAAATGCTAAACCAATGCAAATATATATTAAACGTAAATTGTAATTGT
38804425 AATCAAAATGGTAACTGAGAAAGAATCCAAATTAATTGTTGACCGTCAGATGAGATAATAGAATA
131 AATCAAAATGGTAACTGAGAAAGAATCCAAATTAATTGTTGACCGTCAGATGAGATAATAGAATA
38804490 TGACCGTTTGAAACGCTCCAGTCCCCACCG
196 TGACCGTTTGAAACGCTCCAGTCCCCACCG
38804520 AA
1 AA
38804522 AATTTAAATT
Statistics
Matches: 226, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
224 218 0.96
226 8 0.04
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (225 bp):
AATATAATAAATAATTAAAATATAAAAATATGACACAGGACAACTTTTAAAGTGGAATTAAAAAA
TTCCACCGTTTTTATATGAAATGCTAAACCAATGCAAATATATATTAAACGTAAATTGTAATTGT
AATCAAAATGGTAACTGAGAAAGAATCCAAATTAATTGTTGACCGTCAGATGAGATAATAGAATA
TGACCGTTTGAAACGCTCCAGTCCCCACCG
Found at i:38816120 original size:31 final size:31
Alignment explanation
Indices: 38816085--38816145 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 31
38816075 GTGTTCACTT
*
38816085 AACTATT-CAAAAATTTTAGTTTAAGTCATTG
1 AACTATTAAAAAAATTTTA-TTTAAGTCATTG
38816116 AACTATTGAAAAAAATTTTATTTAAGTCAT
1 AACTATT-AAAAAAATTTTATTTAAGTCAT
38816146 GAGGCTGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.26
32 10 0.37
33 10 0.37
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (31 bp):
AACTATTAAAAAAATTTTATTTAAGTCATTG
Found at i:38817764 original size:32 final size:31
Alignment explanation
Indices: 38817709--38817779 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 31
38817699 ACTGGTTTTT
* * *
38817709 TTAATTGATATGAGTTATCAAATTAAATTAA
1 TTAATTTATATGAGCTATCAAATTAAAGTAA
* *
38817740 TTAATTTATCATGAGCTATTAAATTCAAGTAA
1 TTAATTTAT-ATGAGCTATCAAATTAAAGTAA
38817772 TTAATTTA
1 TTAATTTA
38817780 CAAGTTTATG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 8 0.24
32 26 0.76
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (31 bp):
TTAATTTATATGAGCTATCAAATTAAAGTAA
Found at i:38818712 original size:43 final size:43
Alignment explanation
Indices: 38818665--38818758 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
38818655 TTAAATTTAC
* *
38818665 ATAAA-AAAAAGAGTAAAATTTTAATGGGTATTTAATGAAAATA
1 ATAAATAAAAA-ACTAAAATATTAATGGGTATTTAATGAAAATA
** * *
38818708 ATAAATAAAAAACTAAAATATTAATTTGTGTTTAATGAGAATA
1 ATAAATAAAAAACTAAAATATTAATGGGTATTTAATGAAAATA
38818751 ATTAAATA
1 A-TAAATA
38818759 TTATGATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
43 32 0.74
44 11 0.26
ACGTcount: A:0.55, C:0.01, G:0.11, T:0.33
Consensus pattern (43 bp):
ATAAATAAAAAACTAAAATATTAATGGGTATTTAATGAAAATA
Found at i:38819749 original size:22 final size:22
Alignment explanation
Indices: 38819702--38819754 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
38819692 AACTAGACTT
* *
38819702 GTATCAGTAAAAGGGTTCCCAT
1 GTATCGGTAAAAGGGTTCCCAA
* *
38819724 GTATTGGTAAAAGGGTTCTCAA
1 GTATCGGTAAAAGGGTTCCCAA
38819746 GTATCGGTA
1 GTATCGGTA
38819755 GAAGTTTGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (22 bp):
GTATCGGTAAAAGGGTTCCCAA
Found at i:38821947 original size:26 final size:25
Alignment explanation
Indices: 38821912--38821969 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
38821902 AAGCTTCAGG
38821912 GAGCCATTAATCAAGAAGCTCAAAAA
1 GAGCCATTAATCAAGAAGCTC-AAAA
* ** *
38821938 GAGCCTTTAATCGGGAAGCTCCAAA
1 GAGCCATTAATCAAGAAGCTCAAAA
38821963 GAGCCAT
1 GAGCCAT
38821970 ATAACGGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (25 bp):
GAGCCATTAATCAAGAAGCTCAAAA
Found at i:38821977 original size:25 final size:26
Alignment explanation
Indices: 38821926--38821978 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
38821916 CATTAATCAA
*
38821926 GAAGCTCAAAAAGAGCCTTTAATCGG
1 GAAGCTCAAAAAGAGCCTATAATCGG
*
38821952 GAAGCTC-CAAAGAGCCATATAA-CGG
1 GAAGCTCAAAAAGAGCC-TATAATCGG
38821977 GA
1 GA
38821979 CACTCATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.15
Consensus pattern (26 bp):
GAAGCTCAAAAAGAGCCTATAATCGG
Found at i:38824139 original size:58 final size:57
Alignment explanation
Indices: 38824007--38824197 Score: 162
Period size: 58 Copynumber: 3.4 Consensus size: 57
38823997 GGCTAAGATA
* *
38824007 GCCACAAAAGG-ATCCATTTAACAGAGGTAGCCACAAAGACATTCTTTTAATAGAGTTC
1 GCCAC-AAAGGCATCCTTTTAACAGAGGTA-CCACAAAGACATTCTTTTAACAGAGTTC
* *
38824065 GCCATAAAGGCATCCTTTTAACAGAGGTCACCACAAAGAC-TTCCTTTTAACAGA-TATT
1 GCCACAAAGGCATCCTTTTAACAGAGGT-ACCACAAAGACATT-CTTTTAACAGAGT-TC
* * * * * * *
38824123 GCTACAAATGCTTCCTTTTAATAGAGATTACCACAAA-AGCA-TCTTTT--CAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAG-GTACCACAAAGA-CATTCTTTTAACAGAGTTC
*
38824178 GCCACAAAGGCGTCCTTTTA
1 GCCACAAAGGCATCCTTTTA
38824198 TAGAAATTGC
Statistics
Matches: 110, Mismatches: 15, Indels: 19
0.76 0.10 0.13
Matches are distributed among these distances:
55 22 0.20
57 14 0.13
58 72 0.65
59 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (57 bp):
GCCACAAAGGCATCCTTTTAACAGAGGTACCACAAAGACATTCTTTTAACAGAGTTC
Found at i:38824165 original size:87 final size:83
Alignment explanation
Indices: 38824050--38824213 Score: 188
Period size: 84 Copynumber: 1.9 Consensus size: 83
38824040 CAAAGACATT
* * * * *
38824050 CTTTTAATAGAGTTCGCCATAAAGGCATCCTTTTAACAGAGGTCA-CCACAAAGACTTCCTTTTA
1 CTTTTAATAGAGTTCACCACAAAAGCAT-CTTTT--CAGAGAT-AGCCACAAAGACGTCCTTTT-
*
38824114 ACAGATATTGCTACAAATGCTTC
61 ACAGAAATTGCTACAAATGCTTC
* *
38824137 CTTTTAATAGAGATT-ACCACAAAAGCATCTTTTCAGAGATAGCCACAAAGGCGTCCTTTTATAG
1 CTTTTAATAGAG-TTCACCACAAAAGCATCTTTTCAGAGATAGCCACAAAGACGTCCTTTTACAG
38824201 AAATTGCTACAAA
65 AAATTGCTACAAA
38824214 GGAACTTTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
83 16 0.24
84 22 0.33
86 5 0.07
87 22 0.33
88 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (83 bp):
CTTTTAATAGAGTTCACCACAAAAGCATCTTTTCAGAGATAGCCACAAAGACGTCCTTTTACAGA
AATTGCTACAAATGCTTC
Found at i:38824213 original size:28 final size:29
Alignment explanation
Indices: 38824023--38824215 Score: 128
Period size: 29 Copynumber: 6.8 Consensus size: 29
38824013 AAAGGATCCA
* * *
38824023 TTTAACAGAGGTAGCCACAAAGACATT-CT
1 TTTAACAGAGATTGCCACAAAGGC-TTCCT
* * *
38824052 TTTAATAGAG-TTCGCCATAAAGGCATCCT
1 TTTAACAGAGATT-GCCACAAAGGCTTCCT
* ** *
38824081 TTTAACAGAGGTCACCACAAAGACTTCCT
1 TTTAACAGAGATTGCCACAAAGGCTTCCT
* * *
38824110 TTTAACAGATATTGCTACAAATGCTTCCT
1 TTTAACAGAGATTGCCACAAAGGCTTCCT
* * * *
38824139 TTTAATAGAGATTACCACAAAAGCAT-CT
1 TTTAACAGAGATTGCCACAAAGGCTTCCT
* *
38824167 TTT--CAGAGATAGCCACAAAGGCGTCCT
1 TTTAACAGAGATTGCCACAAAGGCTTCCT
* * *
38824194 TTT-ATAGAAATTGCTACAAAGG
1 TTTAACAGAGATTGCCACAAAGG
38824216 AACTTTTTTA
Statistics
Matches: 126, Mismatches: 33, Indels: 11
0.74 0.19 0.06
Matches are distributed among these distances:
26 16 0.13
27 5 0.04
28 21 0.17
29 83 0.66
30 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (29 bp):
TTTAACAGAGATTGCCACAAAGGCTTCCT
Found at i:38830978 original size:45 final size:44
Alignment explanation
Indices: 38830905--38831061 Score: 197
Period size: 45 Copynumber: 3.5 Consensus size: 44
38830895 CACATAGCAT
* * * * *
38830905 CACCCTTATAGTCAATGATACTCGGTGGAATCAGCACATAACAAC
1 CACCTTTATAATCAATG-TACCCAGTGGAATCAGCACACAACAAC
*
38830950 CACCTTCATAATCAATAGTACCCAGTGGAATCAGCACACAACAAC
1 CACCTTTATAATCAAT-GTACCCAGTGGAATCAGCACACAACAAC
* *
38830995 CACCTTTATAATCAATGATACCCGGTGGAATCAGCACACAGCAAC
1 CACCTTTATAATCAATG-TACCCAGTGGAATCAGCACACAACAAC
*
38831040 CATCTTTATAATCAATGGTACC
1 CACCTTTATAATCAAT-GTACC
38831062 TGGTACACGT
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.01
45 96 0.97
46 2 0.02
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.22
Consensus pattern (44 bp):
CACCTTTATAATCAATGTACCCAGTGGAATCAGCACACAACAAC
Found at i:38842206 original size:33 final size:33
Alignment explanation
Indices: 38842164--38842261 Score: 187
Period size: 33 Copynumber: 3.0 Consensus size: 33
38842154 CGACCATAAC
*
38842164 GCACACTTTGTGTAAGCTTCCCATGTATCCGAG
1 GCACACTTTGTGTAAGCTTCCCATGTATCCGAA
38842197 GCACACTTTGTGTAAGCTTCCCATGTATCCGAA
1 GCACACTTTGTGTAAGCTTCCCATGTATCCGAA
38842230 GCACACTTTGTGTAAGCTTCCCATGTATCCGA
1 GCACACTTTGTGTAAGCTTCCCATGTATCCGA
38842262 TATTATTCTA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (33 bp):
GCACACTTTGTGTAAGCTTCCCATGTATCCGAA
Found at i:38843168 original size:15 final size:14
Alignment explanation
Indices: 38843131--38843169 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
38843121 GTGTATCTCA
38843131 GCCGTGTGTGACAC
1 GCCGTGTGTGACAC
*
38843145 ACCGCTGTGTGACAC
1 GCCG-TGTGTGACAC
38843160 GGCCGTGTGT
1 -GCCGTGTGT
38843170 CCCCTGTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 15 0.71
16 3 0.14
ACGTcount: A:0.13, C:0.28, G:0.36, T:0.23
Consensus pattern (14 bp):
GCCGTGTGTGACAC
Found at i:38845732 original size:20 final size:21
Alignment explanation
Indices: 38845707--38845762 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
38845697 AGTCAATTTT
38845707 TATCGATACTTTATATA-AAG
1 TATCGATACTTTATATATAAG
*
38845727 TATCGAT-CTTTAGGA-ATAAG
1 TATCGATACTTTA-TATATAAG
38845747 TATCGATACTTTATAT
1 TATCGATACTTTATAT
38845763 TGGTATTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 6 0.20
20 19 0.63
21 5 0.17
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (21 bp):
TATCGATACTTTATATATAAG
Found at i:38856875 original size:21 final size:21
Alignment explanation
Indices: 38856849--38856902 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
38856839 ACATTAATCG
38856849 TTCCATACAAACGATACATTC
1 TTCCATACAAACGATACATTC
* * *
38856870 TTCCATACAAATGGTACATTT
1 TTCCATACAAACGATACATTC
*
38856891 TTCCATAGAAAC
1 TTCCATACAAAC
38856903 TTCATCATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (21 bp):
TTCCATACAAACGATACATTC
Found at i:38880431 original size:27 final size:27
Alignment explanation
Indices: 38880405--38880882 Score: 525
Period size: 27 Copynumber: 17.7 Consensus size: 27
38880395 ATACGTTCGA
* *
38880405 AGGGTAAAATGATCGAAATA-CCCTCG-
1 AGGGTAAAATGACCGTAATACCCCT-GT
* * * *
38880431 ATGGGTAAAATGACTGAAATGCCCTTGT
1 A-GGGTAAAATGACCGTAATACCCCTGT
38880459 AGGGTAAAATGACCGTAATACCCC-GAT
1 AGGGTAAAATGACCGTAATACCCCTG-T
* *
38880486 AGGATAAAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
*
38880513 AGGGTAAAATGACCGTAATACCCCGGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* * *
38880540 AGGATAAAATGACCATAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTGT
* *
38880567 AGGATAAAATGACTGTAATACCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* * *
38880594 AGGATAAAATGACCGTAATGCCTCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* *
38880621 AGGGTAAAATAACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTGT
** * *
38880648 AGGGTAAAATGATTGTAATGCCTCC-AT
1 AGGGTAAAATGACCGTAATACC-CCTGT
*
38880675 AGGGTAAAA-GAACCGAAATACCCCTGT
1 AGGGTAAAATG-ACCGTAATACCCCTGT
*
38880702 AGGGTAAAATGACCGTAATACCCCGGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* *
38880729 AGGGTAAAATGATCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* * ** *
38880756 AGGGTAAAATGATCGTAGTACCTTTAT
1 AGGGTAAAATGACCGTAATACCCCTGT
* *
38880783 AGGGTAAAATGATCGTAATACCTCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* *
38880810 AGGGTAAAATGACCGTAATGCCTCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* *
38880837 AGGGTAAAATTACTGTAATACCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
*
38880864 AGGGTAAAATGACCATAAT
1 AGGGTAAAATGACCGTAAT
38880883 GCCCTGGTGG
Statistics
Matches: 384, Mismatches: 59, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
26 5 0.01
27 371 0.97
28 8 0.02
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATACCCCTGT
Found at i:38881111 original size:26 final size:26
Alignment explanation
Indices: 38881073--38881126 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
38881063 TTGGCTACAT
38881073 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* *
38881099 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
38881125 AT
1 AT
38881127 GCTACTAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:38881138 original size:26 final size:26
Alignment explanation
Indices: 38881073--38881138 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
38881063 TTGGCTACAT
* *
38881073 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTACTAATGGCAGCTTTGCTGCG
** **
38881099 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTACTAATGGCAGCTTTGCTGCG
*
38881125 ATGCTACTAATGGC
1 ATACTACTAATGGC
38881139 TTTGTGCCGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (26 bp):
ATACTACTAATGGCAGCTTTGCTGCG
Found at i:38881175 original size:32 final size:32
Alignment explanation
Indices: 38881129--38881313 Score: 110
Period size: 32 Copynumber: 5.8 Consensus size: 32
38881119 GCTGCGATGC
* * *
38881129 TACTAATGGCTTTGTGCCGGTCATAGTACCAT
1 TACTGATGGCTGTGTGCCGATCATAGTACCAT
* * * * ** *
38881161 TACTGATGGCTTTGTGTCAATCATATTGTCGT
1 TACTGATGGCTGTGTGCCGATCATAGTACCAT
* * **
38881193 TA-TCGATGGCTGTGTGCCGGTCAT-TTCATTAT
1 TACT-GATGGCTGTGTGCCGATCATAGT-ACCAT
* * *
38881225 TACTGATGGCAGTGTGCTGATCATA-T-CAAT
1 TACTGATGGCTGTGTGCCGATCATAGTACCAT
* *
38881255 GCTACTGATGGCTTTGTGCCGATCAT-GTTACCGT
1 --TACTGATGGCTGTGTGCCGATCATAG-TACCAT
*
38881289 TATTGATGGCTGTGTGCCGATCATA
1 TACTGATGGCTGTGTGCCGATCATA
38881314 TCACTGCTAT
Statistics
Matches: 116, Mismatches: 27, Indels: 19
0.72 0.17 0.12
Matches are distributed among these distances:
30 2 0.02
31 3 0.03
32 107 0.92
33 2 0.02
34 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTGTGTGCCGATCATAGTACCAT
Found at i:38881265 original size:64 final size:64
Alignment explanation
Indices: 38881125--38881337 Score: 191
Period size: 64 Copynumber: 3.3 Consensus size: 64
38881115 CTTTGCTGCG
* * ** * * *
38881125 ATGCTACTAATGGCTTTGTGCCGGTCATAG-TACCATTACTGATGGCTTTGTGTCAATCATAT-T
1 ATGCTACTGATGGCTTTGTGCCGATCAT-GTTACCATTACTGATGGCAGTGTGCCGATCATATCA
* * * * ** *
38881188 GTCGTTA-TCGATGGCTGTGTGCCGGTCAT-TTCATTATTACTGATGGCAGTGTGCTGATCATAT
1 AT-GCTACT-GATGGCTTTGTGCCGATCATGTT-ACCATTACTGATGGCAGTGTGCCGATCATAT
38881251 CA
63 CA
* * *
38881253 ATGCTACTGATGGCTTTGTGCCGATCATGTTACCGTTATTGATGGCTGTGTGCCGATCATATCA
1 ATGCTACTGATGGCTTTGTGCCGATCATGTTACCATTACTGATGGCAGTGTGCCGATCATATCA
* *
38881317 CTGCTATTGATGGCTTTGTGC
1 ATGCTACTGATGGCTTTGTGC
38881338 TTATCACATT
Statistics
Matches: 119, Mismatches: 24, Indels: 13
0.76 0.15 0.08
Matches are distributed among these distances:
63 3 0.03
64 112 0.94
65 4 0.03
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (64 bp):
ATGCTACTGATGGCTTTGTGCCGATCATGTTACCATTACTGATGGCAGTGTGCCGATCATATCA
Found at i:38881325 original size:32 final size:32
Alignment explanation
Indices: 38881197--38881337 Score: 138
Period size: 32 Copynumber: 4.4 Consensus size: 32
38881187 TGTCGTTATC
* * * **
38881197 GATGGCTGTGTGCCGGTCATTTCATTATTACT
1 GATGGCTGTGTGCCGATCATATCACTGCTACT
* * *
38881229 GATGGCAGTGTGCTGATCATATCAATGCTACT
1 GATGGCTGTGTGCCGATCATATCACTGCTACT
* * * * * *
38881261 GATGGCTTTGTGCCGATCATGTTACCGTTATT
1 GATGGCTGTGTGCCGATCATATCACTGCTACT
*
38881293 GATGGCTGTGTGCCGATCATATCACTGCTATT
1 GATGGCTGTGTGCCGATCATATCACTGCTACT
*
38881325 GATGGCTTTGTGC
1 GATGGCTGTGTGC
38881338 TTATCACATT
Statistics
Matches: 87, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 87 1.00
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (32 bp):
GATGGCTGTGTGCCGATCATATCACTGCTACT
Found at i:38885890 original size:28 final size:26
Alignment explanation
Indices: 38885850--38885901 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
38885840 GAATTTGAGT
*
38885850 AATTAGGGCTAAATTGTAAAATAATA
1 AATTAGGGCTAAAATGTAAAATAATA
*
38885876 AATTAAGGGACTAAAATGTGAAATAA
1 AATT-AGGG-CTAAAATGTAAAATAA
38885902 ATGAAATGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 4 0.18
28 14 0.64
ACGTcount: A:0.52, C:0.04, G:0.17, T:0.27
Consensus pattern (26 bp):
AATTAGGGCTAAAATGTAAAATAATA
Found at i:38889565 original size:14 final size:15
Alignment explanation
Indices: 38889548--38889578 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38889538 CTACTGTGTG
38889548 TTTTC-TTTACTTTT
1 TTTTCTTTTACTTTT
38889562 TTTTCTTTTACTTTT
1 TTTTCTTTTACTTTT
38889577 TT
1 TT
38889579 CTTGTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTCTTTTACTTTT
Found at i:38891154 original size:24 final size:24
Alignment explanation
Indices: 38891122--38891170 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
38891112 AAACATGCAA
* *
38891122 CAGAGTATGTTGCCAATTGTGAGT
1 CAGAGTATGTTGCCAAATGTAAGT
38891146 CAGAGTATGTTGCCAAATGTAAGT
1 CAGAGTATGTTGCCAAATGTAAGT
38891170 C
1 C
38891171 CTGCCAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (24 bp):
CAGAGTATGTTGCCAAATGTAAGT
Found at i:38892571 original size:21 final size:21
Alignment explanation
Indices: 38892532--38892571 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38892522 TAAGTTTTCA
*
38892532 TTTTATTAAGTTTTAATTATG
1 TTTTATTAAGTTTCAATTATG
* *
38892553 TTTTCTTAAGTTTCCATTA
1 TTTTATTAAGTTTCAATTA
38892572 AGTTAATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTATTAAGTTTCAATTATG
Found at i:38899976 original size:22 final size:21
Alignment explanation
Indices: 38899924--38899977 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
38899914 TTTAAATATT
* *
38899924 TTAATATAATTTAATATAAAAA
1 TTAATATATTTTAATA-CAAAA
* *
38899946 TAAAAATATTTTAATACAAAA
1 TTAATATATTTTAATACAAAA
38899967 TTAATTATATT
1 TTAA-TATATT
38899978 AAGAATGTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAATATATTTTAATACAAAA
Found at i:38920748 original size:29 final size:29
Alignment explanation
Indices: 38920706--38920793 Score: 142
Period size: 29 Copynumber: 3.0 Consensus size: 29
38920696 TCGTGGAAGA
* *
38920706 GGTGGAGAAATTGTTCGTTGAGAATTCGT
1 GGTGAAGAACTTGTTCGTTGAGAATTCGT
38920735 GGTGAAGAACTTGTTC-TGTGAGAATTCGT
1 GGTGAAGAACTTGTTCGT-TGAGAATTCGT
38920764 GGTGAAGAACTTGTTCGTTGAGAATTCGT
1 GGTGAAGAACTTGTTCGTTGAGAATTCGT
38920793 G
1 G
38920794 TCAATGTGGT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.02
29 53 0.96
30 1 0.02
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.34
Consensus pattern (29 bp):
GGTGAAGAACTTGTTCGTTGAGAATTCGT
Found at i:38920907 original size:24 final size:24
Alignment explanation
Indices: 38920879--38920941 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
38920869 TTTTTAGAAG
*
38920879 ATTTAGTATTTATTAATATAATAT
1 ATTTAGTATTTATTAACATAATAT
* *
38920903 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGTATTTATTAACATAATAT
* *
38920927 ATTTGGTATTGATTA
1 ATTTAGTATTTATTA
38920942 GAATTAAGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.51
Consensus pattern (24 bp):
ATTTAGTATTTATTAACATAATAT
Found at i:38925208 original size:15 final size:15
Alignment explanation
Indices: 38925188--38925225 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
38925178 AAATTATATG
**
38925188 AAAAGTAATAATGTT
1 AAAAGTAATAATAAT
38925203 AAAAGTAATAATAAT
1 AAAAGTAATAATAAT
38925218 AAAAGTAA
1 AAAAGTAA
38925226 AAAACATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (15 bp):
AAAAGTAATAATAAT
Found at i:38928012 original size:2 final size:2
Alignment explanation
Indices: 38928007--38928031 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38927997 TATATATATA
38928007 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
38928032 TTGGGATCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:38928846 original size:45 final size:41
Alignment explanation
Indices: 38928693--38928849 Score: 156
Period size: 40 Copynumber: 3.8 Consensus size: 41
38928683 GTCCGATATA
* *
38928693 AGTAAGACCATAGCTAAAAGATGCTATGGCATCATA-AATG
1 AGTAAGACCATAGCTGAAAGATGCTATGACATCATATAATG
* * * *
38928733 AGTAAGACCATAGCTGTAATATGTTATGGCATCATAT-ATG
1 AGTAAGACCATAGCTGAAAGATGCTATGACATCATATAATG
* *** *
38928773 AGTAAGACCTTAGCTGAAAGACATTATGACATCATGATAGAAG
1 AGTAAGACCATAGCTGAAAGATGCTATGACATCAT-ATA-ATG
*
38928816 AGTGTAAGACCATTGCTGAAAGATGCTATGACAT
1 A--GTAAGACCATAGCTGAAAGATGCTATGACAT
38928850 ATTTTGATAG
Statistics
Matches: 95, Mismatches: 16, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
40 64 0.67
41 2 0.02
43 3 0.03
45 26 0.27
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (41 bp):
AGTAAGACCATAGCTGAAAGATGCTATGACATCATATAATG
Found at i:38930480 original size:26 final size:25
Alignment explanation
Indices: 38930431--38930485 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
38930421 CAACAAAACT
* * *
38930431 AAAATCTAACCTAAAAAGAAAAGAG
1 AAAACCTAAACTAAAAAGAAAAGAA
*
38930456 AAAACCTAAACTAAAAATGACAAGAA
1 AAAACCTAAACTAAAAA-GAAAAGAA
38930482 AAAA
1 AAAA
38930486 AAAGGAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.67, C:0.13, G:0.09, T:0.11
Consensus pattern (25 bp):
AAAACCTAAACTAAAAAGAAAAGAA
Found at i:38933502 original size:11 final size:11
Alignment explanation
Indices: 38933486--38933510 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38933476 AAAAGCGTTG
38933486 GAATATGCTAA
1 GAATATGCTAA
38933497 GAATATGCTAA
1 GAATATGCTAA
38933508 GAA
1 GAA
38933511 GTGTTGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (11 bp):
GAATATGCTAA
Found at i:38934497 original size:40 final size:40
Alignment explanation
Indices: 38934453--38934601 Score: 102
Period size: 39 Copynumber: 4.0 Consensus size: 40
38934443 TACGCCAAAT
38934453 ATGAGTAAGACCATAACTGAAAGATGCTATGGCATCATAA
1 ATGAGTAAGACCATAACTGAAAGATGCTATGGCATCATAA
* ** *
38934493 ATGAGT-AG-----GA--GAAAGATTTTGTGGCATCATAA
1 ATGAGTAAGACCATAACTGAAAGATGCTATGGCATCATAA
* * *
38934525 ATGAGTAAAACCATAGCTAAAAGAT-CTTATGGCATCAT-A
1 ATGAGTAAGACCATAACTGAAAGATGC-TATGGCATCATAA
* * ** * *
38934564 ACGAGTAAGAGCATAGTTGAAAGATGTTATGACATCAT
1 ATGAGTAAGACCATAACTGAAAGATGCTATGGCATCAT
38934602 GATAGAAGTG
Statistics
Matches: 82, Mismatches: 17, Indels: 21
0.68 0.14 0.17
Matches are distributed among these distances:
32 25 0.30
33 1 0.01
34 1 0.01
39 33 0.40
40 22 0.27
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (40 bp):
ATGAGTAAGACCATAACTGAAAGATGCTATGGCATCATAA
Found at i:38934507 original size:32 final size:32
Alignment explanation
Indices: 38934471--38934531 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
38934461 GACCATAACT
38934471 GAAAGATGCTATGGCATCATAAATGAGTAGGA
1 GAAAGATGCTATGGCATCATAAATGAGTAGGA
** *
38934503 GAAAGATTTTGTGGCATCATAAATGAGTA
1 GAAAGATGCTATGGCATCATAAATGAGTA
38934532 AAACCATAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (32 bp):
GAAAGATGCTATGGCATCATAAATGAGTAGGA
Found at i:38934587 original size:39 final size:40
Alignment explanation
Indices: 38934503--38934601 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 40
38934493 ATGAGTAGGA
* * *
38934503 GAAAGATTTTGTGGCATCATAAATGAGTAAAACCATAGCT
1 GAAAGATCTTATGGCATCATAAACGAGTAAAACCATAGCT
* * * *
38934543 AAAAGATCTTATGGCATCAT-AACGAGTAAGAGCATAGTT
1 GAAAGATCTTATGGCATCATAAACGAGTAAAACCATAGCT
* *
38934582 GAAAGATGTTATGACATCAT
1 GAAAGATCTTATGGCATCAT
38934602 GATAGAAGTG
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
39 32 0.65
40 17 0.35
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (40 bp):
GAAAGATCTTATGGCATCATAAACGAGTAAAACCATAGCT
Found at i:38934785 original size:26 final size:27
Alignment explanation
Indices: 38934738--38934807 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
38934728 CTGTTGGGAC
* * * *
38934738 AATAAACACGAGATAGTTTATCGGGAT
1 AATAAAAACGGGATAGTCTATCAGGAT
*
38934765 AAT-AAAATGGGATAGTCTATCAGGAT
1 AATAAAAACGGGATAGTCTATCAGGAT
38934791 AATAAAAACGGGATAGT
1 AATAAAAACGGGATAGT
38934808 TTTTTAGGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
26 21 0.58
27 15 0.42
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (27 bp):
AATAAAAACGGGATAGTCTATCAGGAT
Found at i:38934816 original size:27 final size:27
Alignment explanation
Indices: 38934738--38934823 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
38934728 CTGTTGGGAC
* * *
38934738 AATAAACACGAGATAGTTTATCGGGAT
1 AATAAAAACGGGATAGTTTATCAGGAT
* *
38934765 AAT-AAAATGGGATAGTCTATCAGGAT
1 AATAAAAACGGGATAGTTTATCAGGAT
* *
38934791 AATAAAAACGGGATAGTTTTTTAGGAT
1 AATAAAAACGGGATAGTTTATCAGGAT
*
38934818 AGTAAA
1 AATAAA
38934824 CAGGGGAAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 21 0.44
27 27 0.56
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (27 bp):
AATAAAAACGGGATAGTTTATCAGGAT
Found at i:38938517 original size:43 final size:44
Alignment explanation
Indices: 38938470--38938592 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 44
38938460 TTGGCTTTGC
* * * * *
38938470 GCCATATTTTTTAACAAATACTATGTATTGGTGTTGGA-TTTAT
1 GCCATATTATTTAGCAGATACTATGTACTGGTGTTGGACATTAT
* * *
38938513 GCCATAGTATTTAGCAGGTACTATGTACTGGTGTT-GACATTGT
1 GCCATATTATTTAGCAGATACTATGTACTGGTGTTGGACATTAT
* *
38938556 GCCATATTATTCAGCAGATACTATGTACTAGTGTTGG
1 GCCATATTATTTAGCAGATACTATGTACTGGTGTTGG
38938593 TTATTTTACC
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.03
43 63 0.95
44 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (44 bp):
GCCATATTATTTAGCAGATACTATGTACTGGTGTTGGACATTAT
Done.