Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
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: 4817204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 18
Found at i:1786829 original size:5 final size:5
Alignment explanation
Indices: 1786819--1786846 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1786809 TAAGGAAGCA
1786819 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1786847 CTTGTCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:1787469 original size:2 final size:2
Alignment explanation
Indices: 1787462--1787512 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
1787452 CAAGTTTTTG
*
1787462 AT AT AT AT AT AT AT AT AT AT AT AT A- AG AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1787503 AT AT AT AT AT
1 AT AT AT AT AT
1787513 CATTTAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1788120 original size:59 final size:59
Alignment explanation
Indices: 1788006--1788132 Score: 177
Period size: 59 Copynumber: 2.1 Consensus size: 59
1787996 AAGTAGTCCT
*
1788006 CCGACTATAAGATATTACTTTGTTGAGTCCCTCGATTATTAAAAGTTATAAAATGATCCC
1 CCGACTATAAGATATTACTTTGTTGAGTCCCTC-ATTATTAAAAGTTACAAAATGATCCC
* * *
1788066 CCGACTATATGACT-TTGCTTTGTTGAGTCACCT-ATTATTAAAAGTTACAAAATGATCTC
1 CCGACTATAAGA-TATTACTTTGTTGAGTC-CCTCATTATTAAAAGTTACAAAATGATCCC
1788125 CCGACTAT
1 CCGACTAT
1788133 TTATATGTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
59 32 0.52
60 25 0.41
61 4 0.07
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (59 bp):
CCGACTATAAGATATTACTTTGTTGAGTCCCTCATTATTAAAAGTTACAAAATGATCCC
Found at i:1795090 original size:14 final size:13
Alignment explanation
Indices: 1795067--1795099 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
1795057 CTGGGTTTAT
1795067 AAATTTTTTAAAA
1 AAATTTTTTAAAA
1795080 AAATATTTTTAAAA
1 AAAT-TTTTTAAAA
1795094 AAATTT
1 AAATTT
1795100 AAAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTTTTTAAAA
Found at i:1795499 original size:13 final size:13
Alignment explanation
Indices: 1795483--1795507 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1795473 AAATAATTTA
1795483 AAATTTTTTTTTG
1 AAATTTTTTTTTG
1795496 AAATTTTTTTTT
1 AAATTTTTTTTT
1795508 TAAAAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
AAATTTTTTTTTG
Found at i:1798167 original size:60 final size:59
Alignment explanation
Indices: 1798103--1798236 Score: 189
Period size: 60 Copynumber: 2.2 Consensus size: 59
1798093 CATAGTACTA
* *
1798103 CTTTGTTGAGTCCCTTGTCTATTAAAAGTTACAAAATGG-TCTCCCAACTATAGGGAGTTG
1 CTTTGTTGAGTCCC-TGACTATTAAAAGTTACAAAATGGTTC-CCCAACTATAAGGAGTTG
* *
1798163 CTTTGTTGAGTCCACTGACTATTAAAAGTTACAAAATGGTTCCCCGACTATAATGAGTTG
1 CTTTGTTGAGTCC-CTGACTATTAAAAGTTACAAAATGGTTCCCCAACTATAAGGAGTTG
*
1798223 CTTTGTTTAGTCCC
1 CTTTGTTGAGTCCC
1798237 AATTAAATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
59 1 0.01
60 63 0.94
61 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (59 bp):
CTTTGTTGAGTCCCTGACTATTAAAAGTTACAAAATGGTTCCCCAACTATAAGGAGTTG
Found at i:1798270 original size:60 final size:59
Alignment explanation
Indices: 1798103--1798273 Score: 173
Period size: 60 Copynumber: 2.8 Consensus size: 59
1798093 CATAGTACTA
** * * * *
1798103 CTTTGTTGAGTCCCTTGTCTATTAAAAGTTACAAAATGGTCTCCCAACTATAGGGAGTTG
1 CTTTGTTGAGTCCAATGACAATTAAAAGTTACAAAATGGTCT-CCGACTATAAGGAGTTG
* * * *
1798163 CTTTGTTGAGTCCACTGACTATTAAAAGTTACAAAATGGTTCCCCGACTATAATGAGTTG
1 CTTTGTTGAGTCCAATGACAATTAAAAGTTACAAAATGG-TCTCCGACTATAAGGAGTTG
* * * *
1798223 CTTTGTTTAGTCCCAATTA-AATTAAAAATTATAAAATGGTCATCCGACTAT
1 CTTTGTTGAGT-CCAATGACAATTAAAAGTTACAAAATGGTC-TCCGACTAT
1798274 TTATTATGTT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
59 2 0.02
60 85 0.90
61 7 0.07
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (59 bp):
CTTTGTTGAGTCCAATGACAATTAAAAGTTACAAAATGGTCTCCGACTATAAGGAGTTG
Found at i:1798544 original size:115 final size:115
Alignment explanation
Indices: 1798414--1798623 Score: 402
Period size: 115 Copynumber: 1.8 Consensus size: 115
1798404 AGCTCAGATC
*
1798414 ACCATTAATTTTTTAACGGAAAATGACGAGTTTAGAACATAATGAATAGTCGAGTGATCATTTTG
1 ACCATTAATTTTTTAACGGAAAATGACGAGTTTAAAACATAATGAATAGTCGAGTGATCATTTTG
*
1798479 TAATTTTTAATAGTTGAGGGACTCAACAAAGCAACTCCCTATGTTGGGGG
66 TAACTTTTAATAGTTGAGGGACTCAACAAAGCAACTCCCTATGTTGGGGG
1798529 ACCATTAATTTTTTAACGGAAAATGACGAGTTTAAAACATAATGAATAGTCGAGTGATCATTTTG
1 ACCATTAATTTTTTAACGGAAAATGACGAGTTTAAAACATAATGAATAGTCGAGTGATCATTTTG
1798594 TAACTTTTAATAGTTGAGGGACTCAACAAA
66 TAACTTTTAATAGTTGAGGGACTCAACAAA
1798624 AATAGTATCT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 93 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (115 bp):
ACCATTAATTTTTTAACGGAAAATGACGAGTTTAAAACATAATGAATAGTCGAGTGATCATTTTG
TAACTTTTAATAGTTGAGGGACTCAACAAAGCAACTCCCTATGTTGGGGG
Found at i:1810823 original size:2 final size:2
Alignment explanation
Indices: 1810816--1810855 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1810806 CTATTTAAAT
1810816 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1810856 CACAATCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1810992 original size:12 final size:12
Alignment explanation
Indices: 1810949--1811026 Score: 72
Period size: 12 Copynumber: 6.6 Consensus size: 12
1810939 GTGTATGTTT
1810949 TTATATTATTATA
1 TTATATTA-TATA
* *
1810962 TT-TATCATGTA
1 TTATATTATATA
*
1810973 TCATATTATATA
1 TTATATTATATA
1810985 TTATATTATATA
1 TTATATTATATA
1810997 -TATA-TATATA
1 TTATATTATATA
*
1811007 TATATATTACATA
1 T-TATATTATATA
*
1811020 TTTTATT
1 TTATATT
1811027 TTTATCTACC
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
10 6 0.11
11 8 0.15
12 31 0.58
13 8 0.15
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.56
Consensus pattern (12 bp):
TTATATTATATA
Found at i:1810996 original size:2 final size:2
Alignment explanation
Indices: 1810975--1811013 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
1810965 ATCATGTATC
1810975 AT AT -T AT AT AT -T AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1811014 TACATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:1811010 original size:28 final size:29
Alignment explanation
Indices: 1810950--1811015 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
1810940 TGTATGTTTT
*
1810950 TATAT-TATTATATTTATCATGTATCATA
1 TATATATATTATATTTATCATATATCATA
1810978 T-TATATATTATATTATAT-ATATAT-ATA
1 TATATATATTATATT-TATCATATATCATA
1811005 TATATATATTA
1 TATATATATTA
1811016 CATATTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 7 0.21
28 24 0.71
29 3 0.09
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (29 bp):
TATATATATTATATTTATCATATATCATA
Found at i:1811668 original size:28 final size:28
Alignment explanation
Indices: 1811608--1811678 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
1811598 TTGAATTCTT
* * *
1811608 AACACCTTTGTGCTTGAATTAATAATTG
1 AACACCTATGTGCTTCAATTAATAAATG
*
1811636 AACACCTATGTGCTTCAATTTATAAAATG
1 AACACCTATGTGCTTCAATTAAT-AAATG
* *
1811665 -ACACATCTGTGCTT
1 AACACCTATGTGCTT
1811679 TAGAATGTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 32 0.89
29 4 0.11
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (28 bp):
AACACCTATGTGCTTCAATTAATAAATG
Found at i:1811731 original size:53 final size:54
Alignment explanation
Indices: 1811674--1811786 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
1811664 GACACATCTG
* * * * * *
1811674 TGCTTTAGAATG-TTGAGCATATGTGTGCTTCGATCTAAAATTTGGCACCTATA
1 TGCTTTAAAATGATTGAGCAAATATATGCTTCAATCTAAAATTTGACACCTATA
*
1811727 TGCTTTAAAATGATTGAGCAAATATATGCTTCAATCTAAAATTTGACACCTCTA
1 TGCTTTAAAATGATTGAGCAAATATATGCTTCAATCTAAAATTTGACACCTATA
*
1811781 TACTTT
1 TGCTTT
1811787 GATAAACGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 11 0.22
54 40 0.78
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (54 bp):
TGCTTTAAAATGATTGAGCAAATATATGCTTCAATCTAAAATTTGACACCTATA
Found at i:1811858 original size:28 final size:28
Alignment explanation
Indices: 1811820--1811895 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
1811810 GATTCAATCT
* *
1811820 ACAATTAAGCACCTTTGTGCTTTGAT-AA
1 ACAATTGAGCACCTTTGTGC-TTAATAAA
* *
1811848 ACGATTGAGCATCTTTGTGCTTAATAAA
1 ACAATTGAGCACCTTTGTGCTTAATAAA
* *
1811876 ACAATTGTGCACCATTGTGC
1 ACAATTGAGCACCTTTGTGC
1811896 ATCAATCAGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 4 0.10
28 35 0.90
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (28 bp):
ACAATTGAGCACCTTTGTGCTTAATAAA
Found at i:1812826 original size:12 final size:12
Alignment explanation
Indices: 1812809--1812859 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
1812799 TTCAAAGAGG
1812809 TTTTATATTTAA
1 TTTTATATTTAA
1812821 TTTTATA-TTATA
1 TTTTATATTTA-A
1812833 TTTTAT-TTTAA
1 TTTTATATTTAA
*
1812844 TATTA-ATATTAA
1 TTTTATAT-TTAA
1812856 TTTT
1 TTTT
1812860 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:1812833 original size:17 final size:18
Alignment explanation
Indices: 1812811--1812859 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
1812801 CAAAGAGGTT
1812811 TTATATTTAATTTT-ATA
1 TTATATTTAATTTTAATA
*
1812828 TTATATTTTATTTTAATA
1 TTATATTTAATTTTAATA
1812846 TTA-ATATTAATTTT
1 TTATAT-TTAATTTT
1812860 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATATTTAATTTTAATA
Found at i:1812875 original size:24 final size:27
Alignment explanation
Indices: 1812847--1812919 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 27
1812837 ATTTTAATAT
1812847 TAATATTAATTTTTTAA-A-TAAATTA
1 TAATATTAATTTTTTAATATTAAATTA
* *
1812872 -AATAATAATTTTTTAATATTATATTA
1 TAATATTAATTTTTTAATATTAAATTA
1812898 TAGATATTAA--TTTTAATATTAA
1 TA-ATATTAATTTTTTAATATTAA
1812920 TTTTTTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 15 0.38
25 1 0.03
26 17 0.43
27 1 0.03
28 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (27 bp):
TAATATTAATTTTTTAATATTAAATTA
Found at i:1812918 original size:12 final size:12
Alignment explanation
Indices: 1812817--1812923 Score: 69
Period size: 12 Copynumber: 8.7 Consensus size: 12
1812807 GGTTTTATAT
1812817 TTAATTTT-ATA
1 TTAATTTTAATA
*
1812828 TTATATTTT-ATT
1 TTA-ATTTTAATA
*
1812840 TTAATATTAATA
1 TTAATTTTAATA
1812852 TTAATTTTTTAA-A
1 TTAA--TTTTAATA
* *
1812865 -TAAATTAAATA
1 TTAATTTTAATA
*
1812876 ATAATTTTTTAATA
1 TTAA--TTTTAATA
*
1812890 TTATATTATAGATA
1 TTA-ATTTTA-ATA
1812904 TTAATTTTAATA
1 TTAATTTTAATA
1812916 TTAATTTT
1 TTAATTTT
1812924 TTAAATAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
10 4 0.05
11 8 0.11
12 33 0.44
13 10 0.13
14 19 0.25
15 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:1812920 original size:64 final size:65
Alignment explanation
Indices: 1812816--1812977 Score: 236
Period size: 64 Copynumber: 2.5 Consensus size: 65
1812806 AGGTTTTATA
* ** * * *
1812816 TTTAATTTTATATTATATTTTATTTTAATATTAATATTAATTTTTTAAATAAATTAAATAATAAT
1 TTTAATATTATATTATA-GATA-TTTAATTTTAATATTAATTTTTTAAATAAAATAAATAATAAA
1812881 TT
64 TT
*
1812883 TTTAATATTATATTATAGATA-TTAATTTTAATATTAATTTTTTAAATAAAATAAATATTAAATT
1 TTTAATATTATATTATAGATATTTAATTTTAATATTAATTTTTTAAATAAAATAAATAATAAATT
1812947 TTTAATATTATATTATAGATATTTAATTTTA
1 TTTAATATTATATTATAGATATTTAATTTTA
1812978 TATCATATAA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
64 60 0.69
65 9 0.10
66 2 0.02
67 16 0.18
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (65 bp):
TTTAATATTATATTATAGATATTTAATTTTAATATTAATTTTTTAAATAAAATAAATAATAAATT
Found at i:1813014 original size:64 final size:61
Alignment explanation
Indices: 1812819--1813022 Score: 172
Period size: 64 Copynumber: 3.3 Consensus size: 61
1812809 TTTTATATTT
* * * *
1812819 AATTTT-ATATTATATT-T-TATTTTAATATTAATATTAATTTTTTAAATAAATTAAATAATAA
1 AATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTT-AAT-AA-TAAATATTAA
**
1812880 TTTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAAATAAATATTAA
1 AATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTT-AAT--AATAAATATTAA
* *
1812944 ATTTTTAATATTATATTATAGATATTTAATTTTATATCATATAAATTATTTT-AT-AT-ATTATT
1 AATTTTAATATTATATTATAGATA-TTAATTTTA-AT-AT-T-AATT-TTTTAATAATAAATATT
1813006 AA
60 AA
1813008 AATTTT-ATATT-TATT
1 AATTTTAATATTATATT
1813023 TTAATTATTT
Statistics
Matches: 124, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
61 4 0.03
62 14 0.11
63 6 0.05
64 71 0.57
65 14 0.11
66 2 0.02
67 2 0.02
68 3 0.02
69 4 0.03
70 4 0.03
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (61 bp):
AATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAATAATAAATATTAA
Found at i:1813032 original size:20 final size:19
Alignment explanation
Indices: 1812972--1813033 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
1812962 TAGATATTTA
*
1812972 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
1812991 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
1813009 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
1813029 ATTTT
1 ATTTT
1813034 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:1813532 original size:31 final size:31
Alignment explanation
Indices: 1813497--1813556 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1813487 TAGTTGTATG
* *
1813497 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
1813528 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
1813557 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:1813595 original size:16 final size:16
Alignment explanation
Indices: 1813574--1813616 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
1813564 GTTTAAAAAA
1813574 TCAGTTTATTTATATT
1 TCAGTTTATTTATATT
1813590 TCAGTTTATTTATATT
1 TCAGTTTATTTATATT
1813606 TCAGTTTATTT
1 TCAGTTTATTT
1813617 TAACAGTCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (16 bp):
TCAGTTTATTTATATT
Found at i:1815083 original size:4 final size:4
Alignment explanation
Indices: 1815069--1815429 Score: 110
Period size: 4 Copynumber: 90.8 Consensus size: 4
1815059 AAATTAACTT
* * * *
1815069 TATG AATG TATG TATA TATG TATA TATG TATG TATG TATG TATG -ATT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
1815116 TAT- TAATG TATA TATG TAT- TATAG TTTG -ATCG AATG CATG AATCG
1 TATG T-ATG TATG TATG TATG TAT-G TATG TAT-G TATG TATG TAT-G
* * * * * *
1815161 ATATG TATG TAT- AATT TAAT- AATG CATG TACG TACG TATG TA-G TATG
1 -TATG TATG TATG TATG T-ATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * *
1815208 CATG TA-G AATT TAT- TAATG TATG TATC TTTG TAT- AATT TAT- TAACG
1 TATG TATG TATG TATG T-ATG TATG TATG TATG TATG TATG TATG T-ATG
* * * * *
1815254 CATG TGTG TACG ATATG TATG TATG TATG TATG TATG TATA TATG T-TT
1 TATG TATG TATG -TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
1815302 TATCG AATA TATGG TATG TAT- TATG CATT TATG TAT- AAT- TGAT- TCATG
1 TAT-G TATG TAT-G TATG TATG TATG TATG TATG TATG TATG T-ATG T-ATG
* * * * *
1815350 CACG TATG TATG T-TT TGATG CATG TATG TATG TATG ATATCG -ATG CATG
1 TATG TATG TATG TATG T-ATG TATG TATG TATG TATG -TAT-G TATG TATG
1815399 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
1815430 AAGATGCATA
Statistics
Matches: 262, Mismatches: 64, Indels: 62
0.68 0.16 0.16
Matches are distributed among these distances:
3 30 0.11
4 207 0.79
5 22 0.08
6 3 0.01
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.45
Consensus pattern (4 bp):
TATG
Found at i:1815443 original size:4 final size:4
Alignment explanation
Indices: 1815436--1815500 Score: 53
Period size: 4 Copynumber: 16.8 Consensus size: 4
1815426 GTATAAGATG
* * * *
1815436 CATA CATA CATG CATG CATG CATG CAT- CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1815483 TAT- TATA TATA CATA CAT
1 CATA CATA CATA CATA CAT
1815501 GCATGTTCTA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
3 6 0.11
4 50 0.89
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.31
Consensus pattern (4 bp):
CATA
Found at i:1815448 original size:12 final size:12
Alignment explanation
Indices: 1815433--1815481 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
1815423 TATGTATAAG
1815433 ATGCATACATAC
1 ATGCATACATAC
* *
1815445 ATGCATGCATGC
1 ATGCATACATAC
1815457 ATGCAT-CATAC
1 ATGCATACATAC
*
1815468 ATACATACATAC
1 ATGCATACATAC
1815480 AT
1 AT
1815482 ATATTATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 9 0.28
12 23 0.72
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (12 bp):
ATGCATACATAC
Found at i:1815533 original size:19 final size:19
Alignment explanation
Indices: 1815456--1815540 Score: 70
Period size: 19 Copynumber: 4.6 Consensus size: 19
1815446 TGCATGCATG
*
1815456 CATGCATCATACATACATA
1 CATGCATCATATATACATA
* *
1815475 CATACAT-ATATTATATATA
1 CATGCATCATA-TATACATA
* *
1815494 CATACATGCATGT-T-C-TA
1 CATGCAT-CATATATACATA
1815511 CATGCATCATATATACATA
1 CATGCATCATATATACATA
*
1815530 CATGTATCATA
1 CATGCATCATA
1815541 CATTCATGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.08
17 9 0.17
18 4 0.08
19 32 0.62
20 1 0.02
21 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (19 bp):
CATGCATCATATATACATA
Found at i:1815541 original size:15 final size:15
Alignment explanation
Indices: 1815494--1815551 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
1815484 ATTATATATA
1815494 CATACATGCATGT-T
1 CATACATGCATGTAT
*
1815508 C-TACATGCATCATAT
1 CATACATGCAT-GTAT
*
1815523 -ATACATACATGTAT
1 CATACATGCATGTAT
*
1815537 CATACATTCATGTAT
1 CATACATGCATGTAT
1815552 ATTTTTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
13 9 0.25
14 5 0.14
15 22 0.61
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (15 bp):
CATACATGCATGTAT
Found at i:1816198 original size:285 final size:281
Alignment explanation
Indices: 1815620--1816611 Score: 986
Period size: 285 Copynumber: 3.5 Consensus size: 281
1815610 AAATAAATGT
** * *
1815620 AATTTAGAATAATTTGATATTAATTTCAGCTTTACATTTTACAATTGTTTCAATTTGATCCATGC
1 AATTTAGTCTAATTTGATATTAATTTCAGCTTCACATTTTACAATTGTTTCAATTTGATCC-TAC
* * * * *
1815685 ATGTTGTTTAATTTATTTAAATTTCACTTTGTAATTTCATATTTTTTTCAATTTAGTCCTGAAAA
65 A---TGTTTAATTTATTTAAATTTAAGTTTGTAATTTCAT-GTTTGTTCAATTTAGTCCTTAAAA
* * * *
1815750 GTATATTTTTATCCAAAATTA-ACCCAT-AATTTTCTATTTTTAGTAATTTACTCAAACCCTATA
126 GTATA-TTTTATTCGAAATTAGA-CCATAAATTTTCTATTTTTTGTAATTTACTAAAACCCTATA
* *
1815813 AAGT-ACATCA-AAA-TTATCATTTCAAAACCTATAAATTATATCAAAATCTCCAAACTCTATAA
189 AA-TCACATCATAAACTT-T-ATTTCAAAACCTATAAATTATATCATAATCTCCAAACCCTATAA
* * *
1815875 ACTTTTGTTTACCAACTTTTAAAATGAATTC
251 ACTTTTGTTCACCAACTTTTTAAATGAATAC
* * *
1815906 AATTTAGTCTAATTTGATATTAATTTCAGCTTTACATTTAATAATTGTTTCAATTTGATCTCTAC
1 AATTTAGTCTAATTTGATATTAATTTCAGCTTCACATTTTACAATTGTTTCAATTTGATC-CTAC
* *
1815971 ATGTTTAATTAATTTTAATTTAAGTTTGTAATTTCATGTTTGTTCAATTTAGTCCTTAAAAGTAT
65 ATGTTTAATTTATTTAAATTTAAGTTTGTAATTTCATGTTTGTTCAATTTAGTCCTTAAAAGTAT
* *
1816036 ATTTGTATTCGAACTTAGACCATAAATGTTTATATTTTTTGTAATTTACTAAAAACCCTATAAAT
130 ATTT-TATTCGAAATTAGACCATAAAT-TTTCTATTTTTTGTAATTTACT-AAAACCCTATAAAT
* * *
1816101 CACATCATAAACTTTATTTCAAACCCTATAAATTATATCATAATCTTCAAACCCTAAAAACTTTT
192 CACATCATAAACTTTATTTCAAAACCTATAAATTATATCATAATCTCCAAACCCTATAAACTTTT
* *
1816166 ATTCACCAAGTTTTTAAATGAATAC
257 GTTCACCAACTTTTTAAATGAATAC
* ** * * *
1816191 AATTTAGTCTATTTTCTTATTAATTTGAACTTCACATTTTACAATTGTTTCATTTTGATCCCTAT
1 AATTTAGTCTAATTTGATATTAATTTCAGCTTCACATTTTACAATTGTTTCAATTTGAT-CCTA-
** * * * * * * * *
1816256 GTGTTGTTTAATTTATTTAAATTTTAGTTTGGAATTTTATGTTTGTTTAATGTATTTCTTAAAAT
64 --CATGTTTAATTTATTTAAATTTAAGTTTGTAATTTCATGTTTGTTCAATTTAGTCCTTAAAAG
* * * *
1816321 TATATTATTA-TCTGAAATTAGCCCATAATTATTTCTA--TTTT-AAATTTAATCT-AAACACTA
127 TATATT-TTATTC-GAAATTAGACCATAAAT-TTTCTATTTTTTGTAATTT-A-CTAAAACCCTA
** * *
1816381 TAAATCACA-CTATAAACTTTATTTCAAGTCCTATAAACTATATAATAATCTCCAAACCCTATAA
187 TAAATCACATC-ATAAACTTTATTTCAAAACCTATAAATTATATCATAATCTCCAAACCCTATAA
*
1816445 ACTTTTGTTCACCAACTTTTTAAATGAATGC
251 ACTTTTGTTCACCAACTTTTTAAATGAATAC
* * * * * * *
1816476 AATTTAGTCCATTTTTATATTAATTT-AGCTTCACATATTACAATTATTTTAAATTGATCCATTT
1 AATTTAGTCTAATTTGATATTAATTTCAGCTTCACATTTTACAATTGTTTCAATTTGATCC---T
** * ** * * *
1816540 GTATTGTTTAATTTATTAAAATTTCAA-TTCATAATTT-AAGTTTTTTTAATTTAGTCCTTAAAA
63 ACA-TGTTTAATTTATTTAAATTT-AAGTTTGTAATTTCATGTTTGTTCAATTTAGTCCTTAAAA
*
1816603 TTATATTTT
126 GTATATTTT
1816612 TCCTAAATTG
Statistics
Matches: 596, Mismatches: 87, Indels: 50
0.81 0.12 0.07
Matches are distributed among these distances:
281 3 0.01
282 41 0.07
283 66 0.11
284 74 0.12
285 256 0.43
286 70 0.12
287 7 0.01
288 78 0.13
289 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.46
Consensus pattern (281 bp):
AATTTAGTCTAATTTGATATTAATTTCAGCTTCACATTTTACAATTGTTTCAATTTGATCCTACA
TGTTTAATTTATTTAAATTTAAGTTTGTAATTTCATGTTTGTTCAATTTAGTCCTTAAAAGTATA
TTTTATTCGAAATTAGACCATAAATTTTCTATTTTTTGTAATTTACTAAAACCCTATAAATCACA
TCATAAACTTTATTTCAAAACCTATAAATTATATCATAATCTCCAAACCCTATAAACTTTTGTTC
ACCAACTTTTTAAATGAATAC
Found at i:1817467 original size:91 final size:91
Alignment explanation
Indices: 1817312--1817493 Score: 278
Period size: 91 Copynumber: 2.0 Consensus size: 91
1817302 AATAGCCCCC
* *
1817312 TTTGTTTTCGATATGACCAACTTTGGTCAATAGTTCAAAAACTAAGTGTGCTTGGTCCCTTACGT
1 TTTGTTTTCGATATGACCAACTTTGGGCAATAGTTCAAAAACTAAGTGTGCTTGATCCCTTACGT
*
1817377 TATCAGTTCGTTCGGTTTAAGTCCCT
66 TATCAGTTCATTCGGTTTAAGTCCCT
* *
1817403 TTTGTTTTCGGTATGACCAACTTTGGGCACT-GATTCAAAAA-TGAAGTGTGCTTGATCCCTTAC
1 TTTGTTTTCGATATGACCAACTTTGGGCAATAG-TTCAAAAACT-AAGTGTGCTTGATCCCTTAC
*
1817466 GTTATCGGTTCATTCGGTTTAAGTCCCT
64 GTTATCAGTTCATTCGGTTTAAGTCCCT
1817494 CCGATGTTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
90 2 0.02
91 81 0.98
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (91 bp):
TTTGTTTTCGATATGACCAACTTTGGGCAATAGTTCAAAAACTAAGTGTGCTTGATCCCTTACGT
TATCAGTTCATTCGGTTTAAGTCCCT
Found at i:1824580 original size:30 final size:31
Alignment explanation
Indices: 1824544--1824618 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 31
1824534 GTTCTTCTTC
*
1824544 AACTTGTTCATC-TTGTT-CATCGTCTACTTG
1 AACTTGTTCATCATT-TTCCATCCTCTACTTG
* *
1824574 AACTTGTTCTTCAAATTTTCCATCCTCTACTTT
1 AACTTGTTCATC--ATTTTCCATCCTCTACTTG
1824607 AACTTGTTCATC
1 AACTTGTTCATC
1824619 CTATGCTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 11 0.30
32 2 0.05
33 24 0.65
ACGTcount: A:0.20, C:0.25, G:0.08, T:0.47
Consensus pattern (31 bp):
AACTTGTTCATCATTTTCCATCCTCTACTTG
Found at i:1825678 original size:28 final size:28
Alignment explanation
Indices: 1825602--1825789 Score: 69
Period size: 32 Copynumber: 6.2 Consensus size: 28
1825592 AGTGTCAGAA
* **
1825602 AAAATAACAAAAATA-ACTAAAATAAAG
1 AAAATAACATAAATAGAAAAAAATAAAG
* *
1825629 AAAATAAAATAAAGGGCAAGAAAAAAATAAAG
1 AAAATAACATAAA----TAGAAAAAAATAAAG
***
1825661 ATAAATAA-ATAAATAGAAAGTGATAAAG
1 A-AAATAACATAAATAGAAAAAAATAAAG
* *
1825689 AAAATAACATAAAAAGATAAAGTAAGATAAAA
1 AAAATAACATAAATAGA-AAA--AA-ATAAAG
* *
1825721 AAAAGTAA-ATAAAATACATAAAATAA-AAAT
1 AAAA-TAACAT-AAATAGA-AAAA-AATAAAG
* *
1825751 AAAATAAAATAAATATAAATATAAAAATAAAG
1 AAAATAACAT-AA-ATAGA-A-AAAAATAAAG
1825783 AAAATAA
1 AAAATAA
1825790 TGTTGATATA
Statistics
Matches: 124, Mismatches: 19, Indels: 31
0.71 0.11 0.18
Matches are distributed among these distances:
27 17 0.14
28 20 0.16
29 5 0.04
30 12 0.10
31 11 0.09
32 41 0.33
33 18 0.15
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (28 bp):
AAAATAACATAAATAGAAAAAAATAAAG
Found at i:1825707 original size:22 final size:21
Alignment explanation
Indices: 1825623--1825743 Score: 76
Period size: 20 Copynumber: 5.9 Consensus size: 21
1825613 AATAACTAAA
*
1825623 ATAAAGAAAATAAA-ATAAAG
1 ATAAAGAAAATAAATAAAAAG
***
1825643 GGCAAGAAAA-AAAT--AAAG
1 ATAAAGAAAATAAATAAAAAG
* *
1825661 ATAAA-TAAATAAATAGAAAGTG
1 ATAAAGAAAATAAATA-AAA-AG
1825683 ATAAAGAAAATAACATAAAAAG
1 ATAAAGAAAATAA-ATAAAAAG
*
1825705 ATAAAGTAAGATAAA-AAAAAG
1 ATAAAG-AAAATAAATAAAAAG
* *
1825726 -TAAATAAAATACATAAAA
1 ATAAAGAAAATAAATAAAA
1825744 TAAAAATAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
17 3 0.04
18 10 0.13
19 9 0.12
20 15 0.19
21 8 0.10
22 14 0.18
23 15 0.19
24 3 0.04
ACGTcount: A:0.70, C:0.02, G:0.12, T:0.16
Consensus pattern (21 bp):
ATAAAGAAAATAAATAAAAAG
Found at i:1825718 original size:32 final size:27
Alignment explanation
Indices: 1825655--1825734 Score: 79
Period size: 32 Copynumber: 2.7 Consensus size: 27
1825645 CAAGAAAAAA
*
1825655 ATAAAGATAAATAAATAAATAGAAAGTG
1 ATAAAGA-AAATAAATAAAAAGAAAGTG
1825683 ATAAAGAAAATAACATAAAAAGATAAAGTAAG
1 ATAAAGAAAATAA-ATAAAAAG--AAAGT--G
*
1825715 ATAAAAAAAAGTAAATAAAA
1 ATAAAGAAAA-TAAATAAAA
1825735 TACATAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 6 0.14
28 14 0.32
30 5 0.11
32 16 0.36
33 3 0.07
ACGTcount: A:0.70, C:0.01, G:0.11, T:0.17
Consensus pattern (27 bp):
ATAAAGAAAATAAATAAAAAGAAAGTG
Found at i:1825743 original size:20 final size:20
Alignment explanation
Indices: 1825684--1825756 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
1825674 TAGAAAGTGA
*
1825684 TAAAGAAAATAACATAAAAAG
1 TAAATAAAAT-ACATAAAAAG
* *
1825705 ATAAAGTAAGATA-AAAAAAAG
1 -TAAA-TAAAATACATAAAAAG
1825726 TAAATAAAATACATAAAATA-
1 TAAATAAAATACATAAAA-AG
*
1825746 AAAATAAAATA
1 TAAATAAAATA
1825757 AAATAAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 6 0.14
20 19 0.45
21 8 0.19
22 5 0.12
23 4 0.10
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.18
Consensus pattern (20 bp):
TAAATAAAATACATAAAAAG
Found at i:1825746 original size:5 final size:5
Alignment explanation
Indices: 1825705--1825781 Score: 61
Period size: 5 Copynumber: 15.0 Consensus size: 5
1825695 ACATAAAAAG
* * *
1825705 ATAAA GTAAG ATAAA A-AAA AGT-AA ATAAA AT-AC ATAAA ATAAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA A-TAAA ATAAA ATAAA ATAAA AT-AAA ATAAA
1825754 ATAAA ATAAA TATAAA TATAAAA ATAAA
1 ATAAA ATAAA -ATAAA -AT-AAA ATAAA
1825782 GAAAATAATG
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
4 8 0.14
5 33 0.56
6 15 0.25
7 3 0.05
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:1825751 original size:6 final size:6
Alignment explanation
Indices: 1825740--1825781 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
1825730 TAAAATACAT
* *
1825740 AAAATA AAAAT- AAAAT- AAAATA AATATA AATATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
1825782 GAAAATAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 10 0.30
6 23 0.70
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:1825752 original size:11 final size:11
Alignment explanation
Indices: 1825738--1825781 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
1825728 AATAAAATAC
1825738 ATAAAATAAAA
1 ATAAAATAAAA
1825749 ATAAAAT-AAA
1 ATAAAATAAAA
*
1825759 ATAAATATAAAT
1 ATAAA-ATAAAA
1825771 ATAAAAATAAA
1 AT-AAAATAAA
1825782 GAAAATAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 8 0.28
11 9 0.31
12 9 0.31
13 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:1825754 original size:34 final size:34
Alignment explanation
Indices: 1825715--1825781 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
1825705 ATAAAGTAAG
1825715 ATAAAA-AAAAGTAAATA-AAATACATAAAATAAAA
1 ATAAAATAAAA-TAAATATAAATACA-AAAATAAAA
*
1825749 ATAAAATAAAATAAATATAAATATAAAAATAAA
1 ATAAAATAAAATAAATATAAATACAAAAATAAA
1825782 GAAAATAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 20 0.67
35 10 0.33
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (34 bp):
ATAAAATAAAATAAATATAAATACAAAAATAAAA
Found at i:1825838 original size:23 final size:24
Alignment explanation
Indices: 1825799--1825845 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
1825789 ATGTTGATAT
1825799 ACAAGTAATAAATAAATAAATAAA
1 ACAAGTAATAAATAAATAAATAAA
1825823 ACAA-TAAT-AATAAAATAAATAAA
1 ACAAGTAATAAAT-AAATAAATAAA
1825846 TATAAGGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 15 0.68
24 4 0.18
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (24 bp):
ACAAGTAATAAATAAATAAATAAA
Found at i:1825948 original size:21 final size:19
Alignment explanation
Indices: 1825909--1825954 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
1825899 AATATAAAAG
*
1825909 ATAAAAAATGAATAAAATA
1 ATAAAAAAAGAATAAAATA
*
1825928 ATTAAAATAAAGAATATAATA
1 A-TAAAA-AAAGAATAAAATA
1825949 ATAAAA
1 ATAAAA
1825955 CAGAACCCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 10 0.43
21 12 0.52
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (19 bp):
ATAAAAAAAGAATAAAATA
Found at i:1827262 original size:17 final size:17
Alignment explanation
Indices: 1827236--1827293 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 17
1827226 AAGTAAACAT
*
1827236 ATATTTTATAATTTATA
1 ATATTATATAATTTATA
*
1827253 ATATTATATAATAATATTA
1 ATATTATATAAT-TTA-TA
1827272 TATATATATTATAATTTATA
1 -ATAT-TA-TATAATTTATA
1827292 AT
1 AT
1827294 TTAAGCGGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 11 0.33
18 2 0.06
19 4 0.12
20 6 0.18
21 4 0.12
22 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTATATAATTTATA
Found at i:1827268 original size:13 final size:12
Alignment explanation
Indices: 1827249--1827284 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
1827239 TTTTATAATT
1827249 TATAATATTATA
1 TATAATATTATA
1827261 TAATAATATTATA
1 T-ATAATATTATA
1827274 TAT-ATATTATA
1 TATAATATTATA
1827285 ATTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 3 0.13
13 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATAATATTATA
Found at i:1828774 original size:28 final size:28
Alignment explanation
Indices: 1828742--1828798 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
1828732 CATAAGTTAC
* *
1828742 TGTTTGGTTTGATTTTTAATATAATGTT
1 TGTTTGGCTTGATTTTTAATAAAATGTT
1828770 TGTTTGGCTTGATTTTTAATAAAATGTT
1 TGTTTGGCTTGATTTTTAATAAAATGTT
1828798 T
1 T
1828799 CATATGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.58
Consensus pattern (28 bp):
TGTTTGGCTTGATTTTTAATAAAATGTT
Found at i:1831875 original size:20 final size:20
Alignment explanation
Indices: 1831852--1831958 Score: 151
Period size: 20 Copynumber: 5.3 Consensus size: 20
1831842 GAATATGTAA
* * *
1831852 ATCGCAATGCGAGTATGACT
1 ATCGCAACGCGATTCTGACT
1831872 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1831892 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1831912 ATCGCAACGCGATTCTAACT
1 ATCGCAACGCGATTCTGACT
* *
1831932 GTCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
1831952 ATCGCAA
1 ATCGCAA
1831959 TGTGATTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 77 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:1832590 original size:19 final size:20
Alignment explanation
Indices: 1832568--1832661 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 20
1832558 AGAATCGCAA
*
1832568 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCAGTTTCGTGT
1832587 TGCGATTTTCA-TTTCGTGT
1 TGCGATTTTCAGTTTCGTGT
** * *
1832606 TGCGATAGTCATTTTCATGT
1 TGCGATTTTCAGTTTCGTGT
* *
1832626 TGCGATTTTCATTTTAGTGT
1 TGCGATTTTCAGTTTCGTGT
*
1832646 TGCGATTTTAAGTTTC
1 TGCGATTTTCAGTTTC
1832662 AGAAACTATT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
19 25 0.40
20 37 0.60
ACGTcount: A:0.15, C:0.14, G:0.21, T:0.50
Consensus pattern (20 bp):
TGCGATTTTCAGTTTCGTGT
Found at i:1834411 original size:18 final size:18
Alignment explanation
Indices: 1834388--1834455 Score: 118
Period size: 18 Copynumber: 3.8 Consensus size: 18
1834378 TTTACTCGTA
1834388 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
1834406 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
1834424 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
**
1834442 ATTTTGCTTAGATT
1 ATTTCACTTAGATT
1834456 GCTTAGTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:1834630 original size:20 final size:20
Alignment explanation
Indices: 1834605--1834649 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1834595 TTTACTTTCA
1834605 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
**
1834625 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
1834645 CAACG
1 CAACG
1834650 AAAGAATCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.18
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:1834746 original size:20 final size:19
Alignment explanation
Indices: 1834692--1834747 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1834682 GCGATTCTCT
*
1834692 CGTTGCGATAGTCAAATTTG
1 CGTTGCGATAGTC-ATTTTG
*
1834712 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTT-G
1834732 CGTTGCGATAGTCATT
1 CGTTGCGATAGTCATT
1834748 CGTGTTGCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTTG
Found at i:1834754 original size:18 final size:19
Alignment explanation
Indices: 1834692--1834758 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
1834682 GCGATTCTCT
1834692 CGTTGCGATAGTCAAATTT-G
1 CGTTGCGATAGTC--ATTTCG
*
1834712 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
1834732 CGTTGCGATAGTCA-TTCG
1 CGTTGCGATAGTCATTTCG
*
1834750 TGTTGCGAT
1 CGTTGCGAT
1834759 TTTAAGTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 13 0.31
19 3 0.07
20 26 0.62
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:1835339 original size:21 final size:21
Alignment explanation
Indices: 1835248--1835352 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
1835238 GACTCATCTG
*
1835248 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
1835270 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
1835290 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
1835311 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
1835332 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
1835353 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:1835345 original size:42 final size:42
Alignment explanation
Indices: 1835245--1835355 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
1835235 CCCGACTCAT
* * * *
1835245 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
1835287 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
1835329 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
1835356 ACATTCTAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 52 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:1836971 original size:20 final size:20
Alignment explanation
Indices: 1836918--1836971 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1836908 AGGTACACTT
* **
1836918 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAAGACAAAA
*
1836938 TCGCAATGCGAAAGACAAAA
1 TCGCAACGCGAAAGACAAAA
1836958 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
1836972 TCAATTCGCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAGACAAAA
Found at i:1837039 original size:20 final size:20
Alignment explanation
Indices: 1837014--1837278 Score: 259
Period size: 20 Copynumber: 13.8 Consensus size: 20
1837004 GCAATTTTCT
* *
1837014 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
1837034 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
1837054 CGTTGAGATACTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
1837074 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
* *
1837094 CGTTGTGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
* *
1837108 CGTTGCGATAGTTAAA-TAG
1 CGTTGCGATAGTCAAATTCG
1837127 CCGTTGCGATAGTCAAATTCG
1 -CGTTGCGATAGTCAAATTCG
* *
1837148 CGTTGCAATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
1837168 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
1837188 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
1837208 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
1837222 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
1837242 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
1837262 TGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
1837279 GAATGTGTGA
Statistics
Matches: 201, Mismatches: 30, Indels: 28
0.78 0.12 0.11
Matches are distributed among these distances:
14 22 0.11
16 2 0.01
18 2 0.01
19 1 0.00
20 172 0.86
21 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:1837107 original size:94 final size:94
Alignment explanation
Indices: 1836974--1837186 Score: 302
Period size: 94 Copynumber: 2.3 Consensus size: 94
1836964 CGCGAAAGTC
* * * *
1836974 AATTCGCGTTGCGATAGTCTAATACGCTTTGCAATTTTCTCGTTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCACGTTGCAATTTTCTCGTTGCGATAGTCAAATACCCGTTG
*
1837039 CGATAATCAAATTCGCGTTG-AGATACTCA
66 CGATAATCAAATTCGCGTTGCA-ATACACA
** * *
1837068 AATTCGCGTTGCGATAGTCAAATTCACGTTGTGATTTTCTCGTTGCGATAGTTAAATAGCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCACGTTGCAATTTTCTCGTTGCGATAGTCAAATACCCGTTG
* *
1837133 CGATAGTCAAATTCGCGTTGCAATAGACA
66 CGATAATCAAATTCGCGTTGCAATACACA
*
1837162 AATTCGCGTTGCGATAGTCATATTC
1 AATTCGCGTTGCGATAGTCAAATTC
1837187 GTGTTGCGAT
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 105 0.99
95 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (94 bp):
AATTCGCGTTGCGATAGTCAAATTCACGTTGCAATTTTCTCGTTGCGATAGTCAAATACCCGTTG
CGATAATCAAATTCGCGTTGCAATACACA
Found at i:1837117 original size:74 final size:74
Alignment explanation
Indices: 1837034--1837172 Score: 190
Period size: 74 Copynumber: 1.9 Consensus size: 74
1837024 GTCAAATACC
* * *
1837034 CGTTGCGATAATCAAAT-TCGCGTTGAGATACTCAAATTCGCGTTGCGATAGTCAAATTCACGTT
1 CGTTGCGATAATCAAATAGC-CGTTGAGATACTCAAATTCGCGTTGCAATAGACAAATTCACGTT
1837098 GTGATTTTCT
65 GTGATTTTCT
* * * * *
1837108 CGTTGCGATAGTTAAATAGCCGTTGCGATAGTCAAATTCGCGTTGCAATAGACAAATTCGCGTTG
1 CGTTGCGATAATCAAATAGCCGTTGAGATACTCAAATTCGCGTTGCAATAGACAAATTCACGTTG
1837173 CGATAGTCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 55 0.98
75 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (74 bp):
CGTTGCGATAATCAAATAGCCGTTGAGATACTCAAATTCGCGTTGCAATAGACAAATTCACGTTG
TGATTTTCT
Found at i:1837187 original size:114 final size:114
Alignment explanation
Indices: 1837014--1837278 Score: 338
Period size: 114 Copynumber: 2.3 Consensus size: 114
1837004 GCAATTTTCT
* * *
1837014 CGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGAGATACTCAAATTCGCGTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCAATAATCAAATTCGCGTTGAGATACTCAAATTCGCGTTG
* * * *
1837079 CGATAGTCAAATTCACGTTGTGATTTTCT-CGTTGCGATAGTTAAATAGC-
66 CGATAGTCAAATTCACGTTGCGATTTT-TGAGTTGCGATAATCAAAT-GCG
* * * *
1837128 CGTTGCGATAGTCAAATTCGCGTTGCAATAGA-CAAATTCGCGTTGCGATAGTCATATTCGTGTT
1 CGTTGCGATAGTCAAATTCGCGTTGCAATA-ATCAAATTCGCGTTGAGATACTCAAATTCGCGTT
* *
1837192 GCGATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATTCG
65 GCGATAGTCAAATTCACGTTGCGATTTTTGAGTTGCGATAATCAAATGCG
* * *
1837242 CGTTGCGATAGTCAAATTCGTGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAATTCGCGTTGCAATAATCAAAT
1837279 GAATGTGTGA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
113 2 0.02
114 128 0.98
115 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (114 bp):
CGTTGCGATAGTCAAATTCGCGTTGCAATAATCAAATTCGCGTTGAGATACTCAAATTCGCGTTG
CGATAGTCAAATTCACGTTGCGATTTTTGAGTTGCGATAATCAAATGCG
Found at i:1837501 original size:140 final size:140
Alignment explanation
Indices: 1837249--1837518 Score: 504
Period size: 140 Copynumber: 1.9 Consensus size: 140
1837239 TCGCGTTGCG
** * *
1837249 ATAGTCAAATTCGTGTTGCGATATTCAAATGAATGTGTGATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1837314 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1837379 AATACACATA
131 AATACACATA
1837389 ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1837454 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1837519 TACAACGTTT
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:1837601 original size:18 final size:18
Alignment explanation
Indices: 1837578--1837612 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1837568 AAGCCGGTTG
* *
1837578 TGATTGGGATTTTGATTT
1 TGATTGCGACTTTGATTT
1837596 TGATTGCGACTTTGATT
1 TGATTGCGACTTTGATT
1837613 GCCTTTTTCT
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:0.17, C:0.06, G:0.26, T:0.51
Consensus pattern (18 bp):
TGATTGCGACTTTGATTT
Found at i:1839616 original size:14 final size:14
Alignment explanation
Indices: 1839597--1839623 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1839587 TCCCGTGGTA
1839597 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
1839611 TTTTCTTCGGGGA
1 TTTTCTTCGGGGA
1839624 TTTCTTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.19, G:0.30, T:0.44
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:1839629 original size:12 final size:13
Alignment explanation
Indices: 1839598--1839630 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1839588 CCCGTGGTAT
1839598 TTTCTTCGGGGAC
1 TTTCTTCGGGGAC
1839611 TTTTCTTCGGGGA-
1 -TTTCTTCGGGGAC
1839624 TTTCTTC
1 TTTCTTC
1839631 TTATTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
14 12 0.63
ACGTcount: A:0.06, C:0.21, G:0.24, T:0.48
Consensus pattern (13 bp):
TTTCTTCGGGGAC
Found at i:1840708 original size:20 final size:20
Alignment explanation
Indices: 1840684--1840872 Score: 159
Period size: 20 Copynumber: 9.3 Consensus size: 20
1840674 AAATTCAGTG
* *
1840684 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCA
1840704 TTGCGATAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCA
1840724 TTGCGATAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCA
*
1840744 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCAGAATCGCA
* * *
1840764 TTGCGAT-TTACATATTCGCA
1 TTGCGATAGT-CAGAATCGCA
* * *
1840784 TTGCGAT-TTACATATTCGCA
1 TTGCGATAGT-CAGAATCGCA
1840804 TTGCGATAGTCAGAAAATCGCA
1 TTGCGATAGTCAG--AATCGCA
** * * *
1840826 ACGCGA-ATTTGGAAAATCGCA
1 TTGCGATA-GT-CAGAATCGCA
* *
1840847 ATGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCA
1840867 TTGCGA
1 TTGCGA
1840873 ATCTGGAAAC
Statistics
Matches: 143, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.01
20 114 0.80
21 15 0.10
22 12 0.08
23 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCA
Found at i:1840831 original size:22 final size:22
Alignment explanation
Indices: 1840806--1840861 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
1840796 TATTCGCATT
1840806 GCGATAGTCAGAAAATCGCAAC
1 GCGATAGTCAGAAAATCGCAAC
* ** *
1840828 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTCAGAAAATCGCAAC
1840849 GCGATAGTCAGAA
1 GCGATAGTCAGAA
1840862 TCGCGTTGCG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (22 bp):
GCGATAGTCAGAAAATCGCAAC
Found at i:1840880 original size:41 final size:42
Alignment explanation
Indices: 1840799--1840881 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 42
1840789 ATTTACATAT
* *
1840799 TCGCATTGCGATAGTCAGAAAATCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGATAGTCAG-AAATCGCAACGCGAATCTGGAAAA
***
1840842 TCGCAATGCGATAGTCAG-AATCGCGTTGCGAATCTGGAAA
1 TCGCAATGCGATAGTCAGAAATCGCAACGCGAATCTGGAAA
1840882 CTGATTTGCG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 18 0.51
43 17 0.49
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (42 bp):
TCGCAATGCGATAGTCAGAAATCGCAACGCGAATCTGGAAAA
Found at i:1844397 original size:20 final size:20
Alignment explanation
Indices: 1844372--1844409 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1844362 AACCCTTACA
**
1844372 AATATCAAGTAGAAGCAAGC
1 AATATCAAACAGAAGCAAGC
1844392 AATATCAAACAGAAGCAA
1 AATATCAAACAGAAGCAA
1844410 ACAACAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (20 bp):
AATATCAAACAGAAGCAAGC
Found at i:1851536 original size:13 final size:13
Alignment explanation
Indices: 1851517--1851561 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
1851507 ATAATAAATA
1851517 AAAAAAATTACAAT
1 AAAAAAA-TACAAT
*
1851531 AAAAAAATCCAAT
1 AAAAAAATACAAT
* *
1851544 AAACAACTACAAT
1 AAAAAAATACAAT
1851557 AAAAA
1 AAAAA
1851562 GTATTAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 19 0.73
14 7 0.27
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAATACAAT
Found at i:1854279 original size:28 final size:27
Alignment explanation
Indices: 1854244--1854326 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 27
1854234 AATAAACTAT
1854244 TTATAATTAATATTAAAATAATTATATA
1 TTATAATTAATATTAAAATAATTA-ATA
*
1854272 TTATAATTAATATTAATATAATTAATA
1 TTATAATTAATATTAAAATAATTAATA
* *
1854299 TTA-ATATTAA-ATTATATTAATATAATA
1 TTATA-ATTAATATTAAAATAAT-TAATA
1854326 T
1 T
1854327 AATTTTTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 9 0.18
27 17 0.35
28 23 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TTATAATTAATATTAAAATAATTAATA
Found at i:1854286 original size:6 final size:6
Alignment explanation
Indices: 1854249--1854392 Score: 76
Period size: 6 Copynumber: 24.3 Consensus size: 6
1854239 ACTATTTATA
1854249 ATTAAT ATTAAAAT AATTATAT ATT-AT AATTAAT ATTAAT A-T-A- ATTAAT
1 ATTAAT ATT--AAT -ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT ATTAAT
* *
1854298 ATTAAT ATTAA- ATT-AT ATTAAT A-TAAT A-TAATT TTTAAT -TT-GT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAA-T ATTAAT ATTAAT
* ** *
1854341 AATTAAT ATTAAT ATTAAT ATAAAAT ATATCCT A-TAAA ATTAAT ATTAAT
1 -ATTAAT ATTAAT ATTAAT AT-TAAT AT-TAAT ATTAAT ATTAAT ATTAAT
1854391 AT
1 AT
1854393 AAACTATATG
Statistics
Matches: 109, Mismatches: 11, Indels: 36
0.70 0.07 0.23
Matches are distributed among these distances:
3 1 0.01
4 4 0.04
5 22 0.20
6 56 0.51
7 18 0.17
8 5 0.05
9 3 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (6 bp):
ATTAAT
Found at i:1854299 original size:43 final size:36
Alignment explanation
Indices: 1854249--1854358 Score: 66
Period size: 34 Copynumber: 3.3 Consensus size: 36
1854239 ACTATTTATA
* *
1854249 ATTAATATTAAAATA-ATT-ATATATTATAATTAAT
1 ATTAATATTAAATTATATTAATATAATATAATTAAT
1854283 ATTAATA-T-AATTAATATTAATAT--TA-AATT-AT
1 ATTAATATTAAATT-ATATTAATATAATATAATTAAT
*
1854314 ATTAATATAATATAATT-T-TTAAT-T--TGTAATTAAT
1 ATTAATAT--TA-AATTATATTAATATAATATAATTAAT
1854348 ATTAATATTAA
1 ATTAATATTAA
1854359 TATAAAATAT
Statistics
Matches: 64, Mismatches: 2, Indels: 23
0.72 0.02 0.26
Matches are distributed among these distances:
31 10 0.16
32 11 0.17
33 13 0.20
34 22 0.34
35 4 0.06
36 4 0.06
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (36 bp):
ATTAATATTAAATTATATTAATATAATATAATTAAT
Found at i:1854319 original size:31 final size:30
Alignment explanation
Indices: 1854248--1854532 Score: 157
Period size: 31 Copynumber: 9.3 Consensus size: 30
1854238 AACTATTTAT
* *
1854248 AATTAATATTAAAATAATT-ATA-TATTAT-
1 AATT-ATATTAATATAATTAATATTAATATA
1854276 AATTAATATTAATATAATTAATATTAATATTA
1 AATT-ATATTAATATAATTAATATTAATA-TA
1854308 AATTATATTAATATAATATAAT-TT--T-TA
1 AATTATATTAATATAAT-TAATATTAATATA
* *
1854335 ATTTGTAATT-A-AT-ATTAATATTAATATA
1 AATTAT-ATTAATATAATTAATATTAATATA
* *
1854363 AAATATATCCT-ATAAAATTAATATTAATATA
1 AATTATAT--TAATATAATTAATATTAATATA
* *
1854394 AACTATATGTTATA-AATTATATAGTATAATTTATA
1 AATTATAT-TAATATAATTA-ATA-T-TAA--TATA
*
1854429 AACTATAGTTAATATAATTAATATTAATATA
1 AATTATA-TTAATATAATTAATATTAATATA
* *
1854460 GTATAGTT-TATAAACTATATACT-ATATTAATATA
1 --A-A-TTATATTAA-TATA-ATTAATATTAATATA
* *
1854494 AATTATAGTTAAGATAATTAAAATTAATATA
1 AATTATA-TTAATATAATTAATATTAATATA
*
1854525 AACTATAT
1 AATTATAT
1854533 AGTACATTAA
Statistics
Matches: 207, Mismatches: 19, Indels: 60
0.72 0.07 0.21
Matches are distributed among these distances:
24 4 0.02
25 4 0.02
26 2 0.01
27 10 0.05
28 26 0.13
29 6 0.03
30 16 0.08
31 70 0.34
32 13 0.06
33 10 0.05
34 19 0.09
35 21 0.10
36 6 0.03
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (30 bp):
AATTATATTAATATAATTAATATTAATATA
Found at i:1854399 original size:24 final size:25
Alignment explanation
Indices: 1854354--1854400 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
1854344 TAATATTAAT
**
1854354 ATTAATATAAAATATATCCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
1854379 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
1854401 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:1854460 original size:43 final size:40
Alignment explanation
Indices: 1854412--1854502 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 40
1854402 GTTATAAATT
*
1854412 ATATAGTATAATTTATAAACTATAGTTAATATAATTAATATTA
1 ATATAGTATAATTTATAAACTATA--TAATAT-ATTAATATAA
* *
1854455 ATATAGTATAGTTTATAAACTATATACTATATTAATATAA
1 ATATAGTATAATTTATAAACTATATAATATATTAATATAA
1854495 ATTATAGT
1 A-TATAGT
1854503 TAAGATAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 10 0.23
41 11 0.25
43 23 0.52
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (40 bp):
ATATAGTATAATTTATAAACTATATAATATATTAATATAA
Found at i:1854465 original size:29 final size:29
Alignment explanation
Indices: 1854432--1854524 Score: 78
Period size: 29 Copynumber: 3.0 Consensus size: 29
1854422 ATTTATAAAC
1854432 TATAGTTAATATAATTAATATTAATATAG
1 TATAGTTAATATAATTAATATTAATATAG
* * *
1854461 TATAGTTTATAAACTATATACTATATTAATATAAAT
1 TATAGTTAATATA--AT-TA--ATATTAATAT--AG
* *
1854497 TATAGTTAAGATAATTAAAATTAATATA
1 TATAGTTAATATAATTAATATTAATATA
1854525 AACTATATAG
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
29 12 0.24
31 11 0.22
32 2 0.04
33 2 0.04
34 12 0.24
36 11 0.22
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.43
Consensus pattern (29 bp):
TATAGTTAATATAATTAATATTAATATAG
Found at i:1854520 original size:65 final size:64
Alignment explanation
Indices: 1854403--1854524 Score: 174
Period size: 65 Copynumber: 1.9 Consensus size: 64
1854393 AAACTATATG
* * * *
1854403 TTATAAATTATATAGTATAATTTATAAACTATAGTTAATATAATTAATATTAATATAGTATAGT
1 TTATAAACTATATACTATAATTTATAAACTATAGTTAAGATAATTAAAATTAATATAGTATAGT
*
1854467 TTATAAACTATATACTAT-ATTAATATAAATTATAGTTAAGATAATTAAAATTAATATA
1 TTATAAACTATATACTATAATT--TATAAACTATAGTTAAGATAATTAAAATTAATATA
1854525 AACTATATAG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
63 3 0.06
64 16 0.31
65 32 0.63
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.43
Consensus pattern (64 bp):
TTATAAACTATATACTATAATTTATAAACTATAGTTAAGATAATTAAAATTAATATAGTATAGT
Found at i:1854572 original size:21 final size:21
Alignment explanation
Indices: 1854390--1854595 Score: 84
Period size: 21 Copynumber: 9.5 Consensus size: 21
1854380 TTAATATTAA
*
1854390 TATAAACTAT-ATGTTATAAAT
1 TATATACTATAAT-TTATAAAT
* *
1854411 TATATAGTATAATTTATAAAC
1 TATATACTATAATTTATAAAT
* *
1854432 TATAGTTAATATAA-TTA-ATAT
1 TATA--TACTATAATTTATAAAT
* * *
1854453 TAATATAGTATAGTTTATAAAC
1 T-ATATACTATAATTTATAAAT
1854475 TATATACTAT-ATTAATATAAAT
1 TATATACTATAATT--TATAAAT
**
1854497 TATAGTTAAGATAA-TTA-AAAT
1 TATA--TACTATAATTTATAAAT
** *
1854518 TAATATAAACTATATAGTACATTAA-
1 T-ATAT--ACTATA-A-TTTATAAAT
*
1854543 TATAAACTATAATTTATAAAT
1 TATATACTATAATTTATAAAT
** *
1854564 TATATACTATAGGTTATAAAG
1 TATATACTATAATTTATAAAT
*
1854585 TATAAACTATA
1 TATATACTATA
1854596 TAATACACTA
Statistics
Matches: 137, Mismatches: 29, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
20 14 0.10
21 66 0.48
22 36 0.26
23 8 0.06
24 8 0.06
25 3 0.02
26 2 0.01
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.41
Consensus pattern (21 bp):
TATATACTATAATTTATAAAT
Found at i:1854687 original size:57 final size:56
Alignment explanation
Indices: 1854626--1854775 Score: 187
Period size: 57 Copynumber: 2.6 Consensus size: 56
1854616 TTGTTTATAA
* *
1854626 ACTATAGGTTACATATACAGTTTATATA-ACATATAAATAGATTGTATATATACATAT
1 ACTATAGGTTACATATATAGTTTATATATACATATAAATAG-TT-TATACATACATAT
* * *
1854683 ACTATAGGTTATATATATATAGTTTATATATAC-TATACATAGTTTATACATACATGT
1 ACTATAGG-T-TACATATATAGTTTATATATACATATAAATAGTTTATACATACATAT
* *
1854740 ACTATAAGTTACATATATAGTTTATGTATACATATA
1 ACTATAGGTTACATATATAGTTTATATATACATATA
1854776 TTATAGGTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
55 20 0.25
56 5 0.06
57 26 0.32
58 3 0.04
59 25 0.31
60 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (56 bp):
ACTATAGGTTACATATATAGTTTATATATACATATAAATAGTTTATACATACATAT
Found at i:1854689 original size:24 final size:23
Alignment explanation
Indices: 1854648--1854701 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
1854638 ATATACAGTT
*
1854648 TATATA-ACATATAAATAGATTG
1 TATATATACATATAAATAGATTA
* *
1854670 TATATATACATATACTATAGGTTA
1 TATATATACATATA-AATAGATTA
1854694 TATATATA
1 TATATATA
1854702 TAGTTTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 7 0.26
24 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (23 bp):
TATATATACATATAAATAGATTA
Found at i:1854703 original size:15 final size:16
Alignment explanation
Indices: 1854679--1854719 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
1854669 GTATATATAC
1854679 ATATACTATAGGTTAT
1 ATATACTATAGGTTAT
*
1854695 ATATA-TATAGTTTAT
1 ATATACTATAGGTTAT
1854710 ATATACTATA
1 ATATACTATA
1854720 CATAGTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (16 bp):
ATATACTATAGGTTAT
Found at i:1854719 original size:20 final size:21
Alignment explanation
Indices: 1854638--1854699 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
1854628 TATAGGTTAC
*
1854638 ATATACAGTTTATATA-ACAT
1 ATATATAGTTTATATATACAT
*
1854658 ATAAATAGATTGTATATATACAT
1 ATATATAG-TT-TATATATACAT
*
1854681 ATACTATAGGTTATATATA
1 ATA-TATAGTTTATATATA
1854700 TATAGTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 6 0.18
21 2 0.06
22 14 0.41
23 8 0.24
24 4 0.12
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.40
Consensus pattern (21 bp):
ATATATAGTTTATATATACAT
Found at i:1854724 original size:20 final size:21
Alignment explanation
Indices: 1854635--1854737 Score: 82
Period size: 20 Copynumber: 5.2 Consensus size: 21
1854625 AACTATAGGT
1854635 TACATATAC--AGTTTATATA
1 TACATATACATAGTTTATATA
*
1854654 -ACATATAAATAGATTGTATATA
1 TACATATACATAG-TT-TATATA
*
1854676 TACATATACTATAG-GT-TATA
1 TACATATAC-ATAGTTTATATA
1854696 T--ATAT--ATAGTTTATATA
1 TACATATACATAGTTTATATA
*
1854713 TAC-TATACATAGTTTATACA
1 TACATATACATAGTTTATATA
1854733 TACAT
1 TACAT
1854738 GTACTATAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 24
0.69 0.05 0.25
Matches are distributed among these distances:
15 4 0.06
16 1 0.02
17 5 0.08
18 14 0.21
20 21 0.32
21 4 0.06
22 6 0.09
23 7 0.11
24 4 0.06
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.42
Consensus pattern (21 bp):
TACATATACATAGTTTATATA
Found at i:1854760 original size:35 final size:35
Alignment explanation
Indices: 1854721--1854792 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
1854711 TATACTATAC
*
1854721 ATAGTTTATACATACATGTACTATAAGTTACATAT
1 ATAGTTTATACATACATATACTATAAGTTACATAT
** * *
1854756 ATAGTTTATGTATACATATATTATAGGTTACATAT
1 ATAGTTTATACATACATATACTATAAGTTACATAT
1854791 AT
1 AT
1854793 TAACTATTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (35 bp):
ATAGTTTATACATACATATACTATAAGTTACATAT
Found at i:1854987 original size:81 final size:81
Alignment explanation
Indices: 1854888--1855223 Score: 241
Period size: 79 Copynumber: 4.1 Consensus size: 81
1854878 TTCTATAAAC
*
1854888 TATATATATATA-TATATATATATATATATATATATATATATATATATATATATATATATATATA
1 TATATATATATAGT-TATATATACATATATATATATATATATATATATATATATATATATATATA
1854952 TATATATATTTATATA-
65 TATATATATTTATATAG
* * * * *
1854968 TACTATATATATAGTTATATACACACATATATACTATAT-TA-ATATAAAT-TATA-ATTTATAA
1 TA-TATATATATAGTTATATATACATATATATA-TATATATATATATATATATATATATATATAT
1855029 ACTATATAT-TTTATATAG
64 A-TATATATATTTATATAG
* * * *
1855047 TTTATACATATATAGTT-TATATACATACATATATACTATAT-TA-ATATAAAT-TATAT-TTTA
1 --TATATATATATAGTTATATATACATATATATATA-TATATATATATATATATATATATATATA
* *
1855107 TAAACTATATACTTTTTATAG
63 TATA-TATATA-TTTATATAG
* * * * * * * *
1855128 TTTATATAAATAG-TATATAAATATATATAGTATATAAATATAAACTATAGTATGTAGTATATAA
1 TATATATATATAGTTATATATACATATATA-TATATATATATATA-TATA-TATATA-TATATAT
*
1855192 ATATAAACTATAATTTATATA-
62 ATATATA-TAT-ATTTATATAG
1855213 TATAGTATATA
1 TATA-TATATA
1855224 CTATATAAAT
Statistics
Matches: 198, Mismatches: 31, Indels: 48
0.71 0.11 0.17
Matches are distributed among these distances:
78 19 0.10
79 67 0.34
80 32 0.16
81 38 0.19
82 10 0.05
83 2 0.01
84 2 0.01
85 7 0.04
86 20 0.10
87 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (81 bp):
TATATATATATAGTTATATATACATATATATATATATATATATATATATATATATATATATATAT
ATATATATTTATATAG
Found at i:1855157 original size:17 final size:17
Alignment explanation
Indices: 1855131--1855171 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
1855121 TTTATAGTTT
1855131 ATATAAATAGTATATAA
1 ATATAAATAGTATATAA
*
1855148 ATATATATAGTATATAA
1 ATATAAATAGTATATAA
1855165 ATATAAA
1 ATATAAA
1855172 CTATAGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (17 bp):
ATATAAATAGTATATAA
Found at i:1855243 original size:2 final size:2
Alignment explanation
Indices: 1854888--1855230 Score: 204
Period size: 2 Copynumber: 168.0 Consensus size: 2
1854878 TTCTATAAAC
1854888 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1854930 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
1854973 TA TA TA TA GT- TA TA TA CA CA CA TA TA TA CTA TA T- TA -A TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * * *
1855014 AA T- TA TA -A TT TA TA AA CTA TA TA T- TT TA TA TA GTT TA TA CA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA
* * * *
1855055 TA TA TA GTT TA TA TA CA TA CA TA TA TA CTA TA T- TA -A TA TA AA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * * * *
1855097 T- TA TA T- TT TA TA AA CTA TA TA CTT TT TA TA GTT TA TA TA AA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA
* * * *
1855138 TA GTA TA TA AA TA TA TA TA GTA TA TA AA TA TA AA CTA TA GTA TG
1 TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA -TA TA
* * *
1855182 TA GTA TA TA AA TA TA AA CTA TA -A TT TA TA TA TA TA GTA TA TA
1 TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA
1855224 CTA TA TA
1 -TA TA TA
1855231 AATAGTTTAT
Statistics
Matches: 266, Mismatches: 46, Indels: 58
0.72 0.12 0.16
Matches are distributed among these distances:
1 11 0.04
2 228 0.86
3 27 0.10
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1855296 original size:22 final size:20
Alignment explanation
Indices: 1855271--1855330 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
1855261 ATATATAGGC
1855271 CATATGTAAACTATATAGTTT
1 CATATGTAAACTATATAG-TT
* *
1855292 ACATAGTTTATAC-ATATAGTT
1 -CATA-TGTAAACTATATAGTT
1855313 CATATGTAAACTATATAG
1 CATATGTAAACTATATAG
1855331 AATATATAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 5 0.16
20 10 0.31
21 2 0.06
22 10 0.31
23 5 0.16
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
CATATGTAAACTATATAGTT
Found at i:1855320 original size:42 final size:40
Alignment explanation
Indices: 1855271--1855351 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 40
1855261 ATATATAGGC
**
1855271 CATATGTAAACTATATAGTTTACATAGTTTATACATATAGTT
1 CATATGTAAACTATATAGAATACATAG-TT-TACATATAGTT
*
1855313 CATATGTAAACTATATAGAATATATAGTTTACATATAGT
1 CATATGTAAACTATATAGAATACATAGTTTACATATAGT
1855352 ATAATTTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 10 0.28
41 2 0.06
42 24 0.67
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (40 bp):
CATATGTAAACTATATAGAATACATAGTTTACATATAGTT
Found at i:1855348 original size:11 final size:10
Alignment explanation
Indices: 1855334--1855385 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 10
1855324 TATATAGAAT
1855334 ATATAGTTTA
1 ATATAGTTTA
*
1855344 CATATAGTATA
1 -ATATAGTTTA
*
1855355 ATTTAGTTT-
1 ATATAGTTTA
*
1855364 ATATTGTTTA
1 ATATAGTTTA
1855374 TATATAGTTTA
1 -ATATAGTTTA
1855385 A
1 A
1855386 ATACTACTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
9 7 0.21
10 8 0.24
11 18 0.55
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (10 bp):
ATATAGTTTA
Found at i:1855348 original size:20 final size:21
Alignment explanation
Indices: 1855325--1855364 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1855315 TATGTAAACT
1855325 ATATAGAAT-ATATAGTTTAC
1 ATATAGAATAATATAGTTTAC
* *
1855345 ATATAGTATAATTTAGTTTA
1 ATATAGAATAATATAGTTTA
1855365 TATTGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (21 bp):
ATATAGAATAATATAGTTTAC
Found at i:1855478 original size:2 final size:2
Alignment explanation
Indices: 1855465--1855840 Score: 124
Period size: 2 Copynumber: 193.5 Consensus size: 2
1855455 ACCTTAAACC
* * *
1855465 AT AT AT ACT AT AT AT AT GT AA ACT AT AT AGT TT AT AT -T A- AT
1 AT AT AT A-T AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT
* * * *
1855506 AA ACT AT AT A- AT TT AT AC A- AT AT AT AT -T AT TT AT A- AT -T
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
1855544 AT AC AT A- AT AT AT AA AT AT AA AT -T GT AT AGT TT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * *
1855584 AT -T CAT AT AT A- ACT -T AT AT AT AA ACT AT A- AA AT TT AT AT
1 AT AT -AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * *
1855623 AT AA ACT AT AT A- AT TT AT AT -T A- AT AA ACT AT AT AGT AT -T
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
* * * *
1855662 AT AGT TT AT AT AT AT AT AT AT TT AT AC AT A- AT AT AT AC AT A-
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1855703 AT AT AT AGT TT AT AT AT -T GT AT AT A- AT A- AT AT A- AT AA ACT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * *
1855743 AT A- AT TT AT AT AT AT A- AT AC AT AT ACT TT AT AT AT AA ACT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT
*
1855785 AT AGT TT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1855826 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1855841 GTTGTTTCAT
Statistics
Matches: 271, Mismatches: 58, Indels: 90
0.65 0.14 0.21
Matches are distributed among these distances:
1 28 0.10
2 225 0.83
3 18 0.07
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1855641 original size:9 final size:10
Alignment explanation
Indices: 1855525--1855840 Score: 77
Period size: 9 Copynumber: 31.7 Consensus size: 10
1855515 AATTTATACA
1855525 ATATAT-ATT
1 ATATATAATT
*
1855534 ATTTATAATT
1 ATATATAATT
*
1855544 ATACATAATAT
1 ATATATAAT-T
1855555 ATAAATATAAATT
1 AT--ATAT-AATT
*
1855568 GTATAGT--TT
1 ATATA-TAATT
1855577 ATATATAATT
1 ATATATAATT
1855587 CATATATAACTT
1 -ATATATAA-TT
1855599 ATATATAA--
1 ATATATAATT
*
1855607 ACTATAAAATTT
1 A-TATATAA-TT
1855619 ATATATAA--
1 ATATATAATT
1855627 ACTATATAATT
1 A-TATATAATT
1855638 -TATATTAA-T
1 ATATA-TAATT
* *
1855647 AAACTATATAGT
1 ATA-TATA-ATT
*
1855659 AT-TATAGTT
1 ATATATAATT
1855668 -TATAT-A-T
1 ATATATAATT
*
1855675 ATATATATTT
1 ATATATAATT
*
1855685 ATACATAA-T
1 ATATATAATT
* *
1855694 ATATA-CATA
1 ATATATAATT
*
1855703 ATATATAGTT
1 ATATATAATT
1855713 -TATAT-ATT
1 ATATATAATT
*
1855721 GTATATAA-T
1 ATATATAATT
1855730 A-ATATAA-T
1 ATATATAATT
*
1855738 AAACTATAATTT
1 ATA-TATAA-TT
*
1855750 ATATATATAAT
1 ATATATA-ATT
* *
1855761 ACATATACTTT
1 ATATATA-ATT
1855772 ATATATAA--
1 ATATATAATT
* *
1855780 ACTACATAGTT
1 A-TATATAATT
*
1855791 -TATATTA-T
1 ATATATAATT
1855799 ATATATATATAT
1 ATATATA-AT-T
1855811 ATATATATATT
1 ATATATA-ATT
1855822 ATATATATATAT
1 ATATATA-AT-T
1855834 ATATATA
1 ATATATA
1855841 GTTGTTTCAT
Statistics
Matches: 226, Mismatches: 38, Indels: 83
0.65 0.11 0.24
Matches are distributed among these distances:
7 1 0.00
8 22 0.10
9 69 0.31
10 37 0.16
11 60 0.27
12 29 0.13
13 5 0.02
14 3 0.01
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (10 bp):
ATATATAATT
Found at i:1855666 original size:8 final size:7
Alignment explanation
Indices: 1855653--1855839 Score: 67
Period size: 7 Copynumber: 27.0 Consensus size: 7
1855643 TAATAAACTA
1855653 TATAGTAT
1 TATA-TAT
1855661 TATAGT-T
1 TATA-TAT
1855668 TATATAT
1 TATATAT
1855675 ATATATATT
1 -TATATA-T
*
1855684 TATACAT
1 TATATAT
*
1855691 AATATA-
1 TATATAT
* *
1855697 TACATAA
1 TATATAT
1855704 TATATAGTT
1 TATATA--T
1855713 TATATAT
1 TATATAT
*
1855720 TGTATAT
1 TATATAT
*
1855727 AATAATAT
1 TAT-ATAT
* * *
1855735 AATAAAC
1 TATATAT
1855742 TATA-AT
1 TATATAT
1855748 T-TATA-
1 TATATAT
1855753 TATATAAT
1 TATAT-AT
*
1855761 ACATATACT
1 -TATATA-T
1855770 T-TATA-
1 TATATAT
* *
1855775 TATAAAC
1 TATATAT
*
1855782 TACATAGT
1 TATATA-T
1855790 T-TATAT
1 TATATAT
1855796 TATATA-
1 TATATAT
1855802 TATATA-
1 TATATAT
1855808 TATATA-
1 TATATAT
1855814 TATATAT
1 TATATAT
1855821 TATATA-
1 TATATAT
1855827 TATATA-
1 TATATAT
1855833 TATATAT
1 TATATAT
1855840 AGTTGTTTCA
Statistics
Matches: 139, Mismatches: 21, Indels: 39
0.70 0.11 0.20
Matches are distributed among these distances:
5 4 0.03
6 46 0.33
7 51 0.37
8 26 0.19
9 12 0.09
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.48
Consensus pattern (7 bp):
TATATAT
Found at i:1855700 original size:11 final size:11
Alignment explanation
Indices: 1855669--1855709 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
1855659 ATTATAGTTT
*
1855669 ATATATATATA
1 ATATATACATA
*
1855680 TATTTATACATA
1 -ATATATACATA
1855692 ATATATACATA
1 ATATATACATA
1855703 ATATATA
1 ATATATA
1855710 GTTTATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATATACATA
Found at i:1856309 original size:216 final size:214
Alignment explanation
Indices: 1855917--1856608 Score: 1098
Period size: 209 Copynumber: 3.3 Consensus size: 214
1855907 TTGATCCTTT
* *
1855917 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTAATA-TTGATCAATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
* *
1855981 TTATATTTGTATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAATTGGCCCATAACT
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTAATTGGCCCATAACT
1856046 TTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCA-AATTTTAAAATTATTT
131 TTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAA-TTTAAAATTATTT
1856110 CGATTTGATCCATCATCAATG
195 CGATTTGATCC-TCATCAATG
*
1856131 TGTGTTGTTTAATTTATTTAATTTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
*
1856196 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGTCCCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATA-TTTTTAATTGGCCCATAAC
*
1856261 TTTTTAAATGAGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
130 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
*
1856326 CGATTTCATCC-C-T---T-
195 CGATTTGATCCTCATCAATG
* * * * **
1856340 TGTGTTGTTTAATTTATTTAAATTTTTATTTATAGTTTCATATTTGTTTAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
*
1856405 TTATATTTGCATTTGAAATTGACCCATACTTATTACTTATTTATATTTTTAATTGGCCCATAACT
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTAATTGGCCCATAACT
* * *
1856470 TTTTAAATGGGTATAATTTAGTAC-TTTTTGTATTAATTTCAACCTCACAATTT-AAATTTTTTT
131 TTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
1856533 GATTTGATCCCTCATCAATG
196 GATTTGAT-CCTCATCAATG
*
1856553 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTTTTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATA-TTTGTTCAATTTA
1856609 ATTATTAAAT
Statistics
Matches: 440, Mismatches: 27, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
206 15 0.03
207 30 0.07
208 43 0.10
209 103 0.23
210 1 0.00
212 1 0.00
213 40 0.09
214 52 0.12
215 64 0.15
216 89 0.20
217 2 0.00
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.51
Consensus pattern (214 bp):
TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTAATTGGCCCATAACT
TTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
GATTTGATCCTCATCAATG
Found at i:1859217 original size:3 final size:3
Alignment explanation
Indices: 1859209--1859246 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
1859199 GCAATTGGCT
*
1859209 AAG AAG AAG GAG AAG AA- AGAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AA
1859247 CTTGAGCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 29 0.94
4 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1860463 original size:174 final size:176
Alignment explanation
Indices: 1860167--1860870 Score: 915
Period size: 174 Copynumber: 4.0 Consensus size: 176
1860157 TGAGACTCAC
** * ** *
1860167 TCACCAAAGTCAGATGTGTGACACGGGTCGGTCCGGATTACTCTGGGCAAAACCCTGGGGAACCG
1 TCACCAAAACCAGATGTGTGACACGGGTCGGTCCGGATTAGTCAAGGCAAAACCCTAGGGAACCG
* * *
1860232 GA-AG-AATAACTAAAAAAACTACTTGTGCGCCTACTTAATTACCACCAATCTTTTCTAGCAACA
66 GAGGGCAACAACAAAAAAAACTACTTGTGCGCCTACTTAATTACCACCAATCTTTTCTAGCAACA
* *
1860295 GATGCAAGAAAATCTAGACAGCAGTTAGGTTCAAAATCATATTTAT
131 GATGCATGAAAATCTAGACAGCAGTTAGATTCAAAATCATATTTAT
* * * * *
1860341 TCACCAAAACCAAATGTGTGACACGGGTCGGTTCGGATTAATCAAGGCAGAACCCTAGGGAATCG
1 TCACCAAAACCAGATGTGTGACACGGGTCGGTCCGGATTAGTCAAGGCAAAACCCTAGGGAACCG
* *
1860406 G-GGGCAA-AA-AAAAAACCAACTACTTGTGCGCCTACTCAATTACAACCAATC-TTTCTAGCAA
66 GAGGGCAACAACAAAAAA--AACTACTTGTGCGCCTACTTAATTACCACCAATCTTTTCTAGCAA
*
1860467 CAGATGCATGAAAATCTAGACAGCAGTTAGATTCAAAACCATATTTAT
129 CAGATGCATGAAAATCTAGACAGCAGTTAGATTCAAAATCATATTTAT
* * ** * * * * *
1860515 TCACCAAAGCCAGATGTGTGACATGAATTGGTCTGAATTAGTCACGGTAAAACCCTAGGGAACCG
1 TCACCAAAACCAGATGTGTGACACGGGTCGGTCCGGATTAGTCAAGGCAAAACCCTAGGGAACCG
* *
1860580 AGAGGGCAACAATAAAAAAAAAACTACTTGTGCGCCTACTTAATTACCGCCAATCTTTTCTAGCA
66 -GAGGGCAAC-A-ACAAAAAAAACTACTTGTGCGCCTACTTAATTACCACCAATCTTTTCTAGCA
* *
1860645 ACAAATGCATGAAAATCTAGACAGCAGTTATATTCAAAA-CTATATTTAT
128 ACAGATGCATGAAAATCTAGACAGCAGTTAGATTCAAAATC-ATATTTAT
* * ** *
1860694 TCA-TAAAAGCCAGATGTGTGACACGGGTCGGTCCGGATTAGTCAAGACAAAGTCCTGGGGAACC
1 TCACCAAAA-CCAGATGTGTGACACGGGTCGGTCCGGATTAGTCAAGGCAAAACCCTAGGGAACC
*
1860758 GGAAGGGCAAC--CAAAGAAAACTACTTGTGCGCCTACTTAATTACCACCAATCTTTTCTAGCAA
65 GG-AGGGCAACAACAAAAAAAACTACTTGTGCGCCTACTTAATTACCACCAATCTTTTCTAGCAA
*
1860821 CAGATGCATGAAAATCTAAACAGCAGTTAGATTCAAAATCATATTTAT
129 CAGATGCATGAAAATCTAGACAGCAGTTAGATTCAAAATCATATTTAT
1860869 TC
1 TC
1860871 TTCAATAAAC
Statistics
Matches: 459, Mismatches: 56, Indels: 29
0.84 0.10 0.05
Matches are distributed among these distances:
173 5 0.01
174 165 0.36
175 129 0.28
176 7 0.02
178 37 0.08
179 110 0.24
180 6 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (176 bp):
TCACCAAAACCAGATGTGTGACACGGGTCGGTCCGGATTAGTCAAGGCAAAACCCTAGGGAACCG
GAGGGCAACAACAAAAAAAACTACTTGTGCGCCTACTTAATTACCACCAATCTTTTCTAGCAACA
GATGCATGAAAATCTAGACAGCAGTTAGATTCAAAATCATATTTAT
Found at i:1864007 original size:17 final size:17
Alignment explanation
Indices: 1863968--1864010 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1863958 CTACTTGATA
1863968 AAATATTTAATAAATTT
1 AAATATTTAATAAATTT
** **
1863985 TTATATTTTTTAAATTT
1 AAATATTTAATAAATTT
1864002 AAATATTTA
1 AAATATTTA
1864011 TTTTTACATG
Statistics
Matches: 19, Mismatches: 7, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATATTTAATAAATTT
Found at i:1865400 original size:213 final size:213
Alignment explanation
Indices: 1865033--1865456 Score: 821
Period size: 213 Copynumber: 2.0 Consensus size: 213
1865023 TACACATTCC
1865033 AATTAGGTATTGTATATGAAGAAGTTAAGCCCTGCCTATCTCTCAAAACTGTAAGTTATGTACCA
1 AATTAGGTATTGTATATGAAGAAGTTAAGCCCTGCCTATCTCTCAAAACTGTAAGTTATGTACCA
1865098 TCTCTAGATAAAGTTTGGGATTATCTTGTAAATATTAGTATTCTAGTTTATCTCTAACTCTAGCT
66 TCTCTAGATAAAGTTTGGGATTATCTTGTAAATATTAGTATTCTAGTTTATCTCTAACTCTAGCT
1865163 GATTTTGTAGATAAGGATAAAGTTCACTTAGCTAGGACTGTTAATTTAATTAGGACTCTAGCACA
131 GATTTTGTAGATAAGGATAAAGTTCACTTAGCTAGGACTGTTAATTTAATTAGGACTCTAGCACA
1865228 TTTCTTGTATAAAACTTT
196 TTTCTTGTATAAAACTTT
* * *
1865246 AATTAGGTATTGTATATGAAGAAGTTAAGGCCTGCCTATCTCTCAAAACTTTAAGTTATGTACCG
1 AATTAGGTATTGTATATGAAGAAGTTAAGCCCTGCCTATCTCTCAAAACTGTAAGTTATGTACCA
1865311 TCTCTAGATAAAGTTTGGGATTATCTTGTAAATATTAGTATTCTAGTTTATCTCTAACTCTAGCT
66 TCTCTAGATAAAGTTTGGGATTATCTTGTAAATATTAGTATTCTAGTTTATCTCTAACTCTAGCT
1865376 GATTTTGTAGATAAGGATAAAGTTCACTTAGCTAGGACTGTTAATTTAATTAGGACTCTAGCACA
131 GATTTTGTAGATAAGGATAAAGTTCACTTAGCTAGGACTGTTAATTTAATTAGGACTCTAGCACA
1865441 TTTCTTGTATAAAACT
196 TTTCTTGTATAAAACT
1865457 CTGTACTGTT
Statistics
Matches: 208, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 208 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.38
Consensus pattern (213 bp):
AATTAGGTATTGTATATGAAGAAGTTAAGCCCTGCCTATCTCTCAAAACTGTAAGTTATGTACCA
TCTCTAGATAAAGTTTGGGATTATCTTGTAAATATTAGTATTCTAGTTTATCTCTAACTCTAGCT
GATTTTGTAGATAAGGATAAAGTTCACTTAGCTAGGACTGTTAATTTAATTAGGACTCTAGCACA
TTTCTTGTATAAAACTTT
Found at i:1874430 original size:13 final size:13
Alignment explanation
Indices: 1874412--1874440 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1874402 AAACACCATC
1874412 CAAACTTATTTTT
1 CAAACTTATTTTT
1874425 CAAACTTATTTTT
1 CAAACTTATTTTT
1874438 CAA
1 CAA
1874441 GATCAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.48
Consensus pattern (13 bp):
CAAACTTATTTTT
Found at i:1875976 original size:35 final size:35
Alignment explanation
Indices: 1875915--1875981 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
1875905 TATGAAAAAC
*
1875915 TATATTATATATAATATAAATCATATACTATATGT
1 TATATTATATATAATAAAAATCATATACTATATGT
* *
1875950 TATATT-TATTATACTAAAAATTATATACTATA
1 TATATTATA-TATAATAAAAATCATATACTATA
1875982 CACATTAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 2 0.07
35 26 0.93
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (35 bp):
TATATTATATATAATAAAAATCATATACTATATGT
Found at i:1876597 original size:318 final size:315
Alignment explanation
Indices: 1875976--1876608 Score: 1131
Period size: 318 Copynumber: 2.0 Consensus size: 315
1875966 AAAATTATAT
1875976 ACTATACACATTAATGAAAATCATATACTAATAATATGTACATAATACTATGTACTAAACATTTT
1 ACTATACACATTAATGAAAATCATATACTAATAATATGTACATAATACTATGTACTAAACATTTT
* * *
1876041 ATATTTAAAAATTTTACACTAAGCCCATCATATAGTATATACTAAAACTTTATAATATATAAAAT
66 ATATTTAAAAACTATACACTAAGCCCATCATATAGTATATACTAAAACTATATAATATATAAAAT
*
1876106 GACATGTTACCAACGGAATAAAATGGATGATGACATTTTCCCCTTTGTTCATTAATGTGAAACAA
131 GACATGTTACCAACAGAATAAAATGGATGATGACATTTTCCCCTTTGTTCATTAATGTGAAACAA
* ** *
1876171 GGATGAAGCAAAGACAAAAAATGCCAATTTTATCCGACTGACCCTTTAAATCACGAGCTTTAGAT
196 GAATGAAGCAAAGACAAAAAACACCAATTTTATCCGACTGACCCTTCAAATCACGAGCTTTAGAT
*
1876236 CTTTCAGATTATGAAGCCTTCACTCTCTGATAAAGGTTAACTCTGAAATCTTAGC
261 CTTTCAGATTATGAACCCTTCACTCTCTGATAAAGGTTAACTCTGAAATCTTAGC
*
1876291 ACTATACACATTAATGAAAATCATATACTAATAATATGTACGTTAATACTATGTACTAAACATTT
1 ACTATACACATTAATGAAAATCATATACTAATAATATGTAC-ATAATACTATGTACTAAACATTT
*
1876356 TATATTTAAAAACTATACACTAAGCCCATCATATAGTATATATTAAAACTATATAATATATAAAA
65 TATATTTAAAAACTATACACTAAGCCCATCATATAGTATATACTAAAACTATATAATATATAAAA
1876421 TGACATGTTACCAACAGAATAAAATGGATGATGACATTTTCCCCTCTTTGTTCATTAATGTGAAA
130 TGACATGTTACCAACAGAATAAAATGGATGATGACATTTT-CCC-CTTTGTTCATTAATGTGAAA
*
1876486 CAAGAATGAAGCAAAGACAAAAAACACCAATTTTATCCGGCTGACCCTTCAAATCACGAGCTTTA
193 CAAGAATGAAGCAAAGACAAAAAACACCAATTTTATCCGACTGACCCTTCAAATCACGAGCTTTA
1876551 GATCTTTCAGATTATGAACCCTTCACTCTCTGATAAAGGTTAACTCTGAAATCTTAGC
258 GATCTTTCAGATTATGAACCCTTCACTCTCTGATAAAGGTTAACTCTGAAATCTTAGC
1876609 GAGCCCTCCT
Statistics
Matches: 303, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
315 41 0.14
316 122 0.40
317 3 0.01
318 137 0.45
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (315 bp):
ACTATACACATTAATGAAAATCATATACTAATAATATGTACATAATACTATGTACTAAACATTTT
ATATTTAAAAACTATACACTAAGCCCATCATATAGTATATACTAAAACTATATAATATATAAAAT
GACATGTTACCAACAGAATAAAATGGATGATGACATTTTCCCCTTTGTTCATTAATGTGAAACAA
GAATGAAGCAAAGACAAAAAACACCAATTTTATCCGACTGACCCTTCAAATCACGAGCTTTAGAT
CTTTCAGATTATGAACCCTTCACTCTCTGATAAAGGTTAACTCTGAAATCTTAGC
Found at i:1882612 original size:131 final size:132
Alignment explanation
Indices: 1882378--1882639 Score: 400
Period size: 131 Copynumber: 2.0 Consensus size: 132
1882368 AATCTTCTAG
* *
1882378 GTTTACTACTTTCTCCAATAATGTTGATGCACAGACCCTCCACAGGCTCGTCAAACATTTATTCG
1 GTTTACTACTTTCTCCAATAATGTTGATGCACAGACCCTCCACAGACTCGTCAAACATTTATTCA
* *
1882443 TCTCACATTTTCTTAGTTTCTCGAATTACACTGACCAACTGCTGC-CATTATCGTACATTCCTCC
66 TCTCACATTTTCTTAGCTTCTCGAATTACACTGACCAACTACTGCTCATTATCGTACATTCCTCC
1882507 AT
131 AT
* ** * *
1882509 GTTTACTACTTTCTCCAATAATGTTGATGCACAGACCCTCCATAGACTCGTTGAACTTTTCTTCA
1 GTTTACTACTTTCTCCAATAATGTTGATGCACAGACCCTCCACAGACTCGTCAAACATTTATTCA
* * * *
1882574 TCTCGCATTTTCTTAGCTTCTGGAATTGCACTGACCAACTACTGCTTATTATCGTACATTCCTCC
66 TCTCACATTTTCTTAGCTTCTCGAATTACACTGACCAACTACTGCTCATTATCGTACATTCCTCC
1882639 A
131 A
1882640 GATTTGATAA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
131 98 0.84
132 19 0.16
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (132 bp):
GTTTACTACTTTCTCCAATAATGTTGATGCACAGACCCTCCACAGACTCGTCAAACATTTATTCA
TCTCACATTTTCTTAGCTTCTCGAATTACACTGACCAACTACTGCTCATTATCGTACATTCCTCC
AT
Found at i:1886695 original size:15 final size:16
Alignment explanation
Indices: 1886675--1886711 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
1886665 GATTAGAATA
1886675 AAATAAACAAAAGAT-
1 AAATAAACAAAAGATG
*
1886690 AAATAAACGAAAGATG
1 AAATAAACAAAAGATG
1886706 AAATAA
1 AAATAA
1886712 GATAATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (16 bp):
AAATAAACAAAAGATG
Found at i:1891197 original size:15 final size:16
Alignment explanation
Indices: 1891177--1891213 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
1891167 GATTAGAATA
1891177 AAATAAACAAAAGAT-
1 AAATAAACAAAAGATG
*
1891192 AAATAAACGAAAGATG
1 AAATAAACAAAAGATG
1891208 AAATAA
1 AAATAA
1891214 GATAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (16 bp):
AAATAAACAAAAGATG
Found at i:1895492 original size:10 final size:10
Alignment explanation
Indices: 1895479--1895521 Score: 79
Period size: 10 Copynumber: 4.4 Consensus size: 10
1895469 TTTTTTGAAA
1895479 TTTTGGTTTT
1 TTTTGGTTTT
1895489 TTTTGGTTTT
1 TTTTGGTTTT
1895499 TTTTGG-TTT
1 TTTTGGTTTT
1895508 TTTTGGTTTT
1 TTTTGGTTTT
1895518 TTTT
1 TTTT
1895522 AAAAAATAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 9 0.28
10 23 0.72
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (10 bp):
TTTTGGTTTT
Found at i:1895501 original size:19 final size:20
Alignment explanation
Indices: 1895479--1895521 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
1895469 TTTTTTGAAA
1895479 TTTTGGTTTTTTTTGGTTTT
1 TTTTGGTTTTTTTTGGTTTT
1895499 TTTTGG-TTTTTTTGGTTTT
1 TTTTGGTTTTTTTTGGTTTT
1895518 TTTT
1 TTTT
1895522 AAAAAATAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (20 bp):
TTTTGGTTTTTTTTGGTTTT
Found at i:1898268 original size:34 final size:34
Alignment explanation
Indices: 1898218--1898284 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
1898208 TATAACAGTA
* * * *
1898218 TGAGGCCTGCATTATGTTTCTTCGCTAGACACTC
1 TGAGGCATGCACTATGTTCCTTCACTAGACACTC
1898252 TGAGGCATGCACTATGTTCCTTCACTAGACACT
1 TGAGGCATGCACTATGTTCCTTCACTAGACACT
1898285 ATGTACCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (34 bp):
TGAGGCATGCACTATGTTCCTTCACTAGACACTC
Found at i:1912045 original size:21 final size:21
Alignment explanation
Indices: 1912021--1912060 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1912011 ATTTAGTTAA
1912021 ATTAT-TATATTAATAATAATT
1 ATTATATATATTAA-AATAATT
1912042 ATTATATATATTAAAATAA
1 ATTATATATATTAAAATAA
1912061 ATAAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTATATATATTAAAATAATT
Found at i:1912559 original size:69 final size:70
Alignment explanation
Indices: 1912446--1912598 Score: 191
Period size: 69 Copynumber: 2.2 Consensus size: 70
1912436 TGATAACATT
* * *
1912446 AATGGTCACAAAAAGTACTTTCAGAGTCAAACAAATTTATCACAATTTCTATTGATAATAGTATT
1 AATGGTCACAAAAAATACTTTCAGAGTCAAACAAATTCATCACAATTTATATTGATAATAGTATT
1912511 GAACA
66 GAACA
** * * * * * *
1912516 TTTGGTCACAAAAAATATTTTTAGTGTTAAA-AAATTCATCACAATTTATATTGATAATTGTGTT
1 AATGGTCACAAAAAATACTTTCAGAGTCAAACAAATTCATCACAATTTATATTGATAATAGTATT
1912580 GAACA
66 GAACA
*
1912585 AATGATCACAAAAA
1 AATGGTCACAAAAA
1912599 TAATATGAAC
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
69 45 0.65
70 24 0.35
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (70 bp):
AATGGTCACAAAAAATACTTTCAGAGTCAAACAAATTCATCACAATTTATATTGATAATAGTATT
GAACA
Found at i:1914742 original size:17 final size:18
Alignment explanation
Indices: 1914699--1914742 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
1914689 TTTTTGAGAA
1914699 AATTAAAATCTGTGAAGG
1 AATTAAAATCTGTGAAGG
* * *
1914717 AATTGAAATCTGT-CAGT
1 AATTAAAATCTGTGAAGG
1914734 AATTAAAAT
1 AATTAAAAT
1914743 TTAATTTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (18 bp):
AATTAAAATCTGTGAAGG
Found at i:1915600 original size:262 final size:263
Alignment explanation
Indices: 1915122--1915692 Score: 810
Period size: 262 Copynumber: 2.2 Consensus size: 263
1915112 CCGGCCCGAT
* *
1915122 CAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATT----A---GA---AATCCGACCCG
1 CAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAACCCGACCCAACCCGACCCG
* *
1915177 AAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAATATATGTAGAG
66 AAATAATAAAAAAATTATTTTTATTCAATAAAAACAATAACTTAATTGAAAAAATATATATAGAG
* * *
1915242 GGGTATTATTGTAATTATTCTTAAATATATAAGGTAAAATTATATATTTTTTGGATCGGGTCGAG
131 GGATATTAGTGTAATTATTCTTAAATATATAAGGTAAAATTATATATTATTT-G-TCGGGTCGAG
*
1915307 TATTTTTCACCCTAAACCCGAACCCGACCCGACCTGAATATCACACTTAAAAAAA-CTAACCCGA
194 TATTTTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAAATC-AACCCGA
*
1915371 CCCAAT
258 CCCAAC
* * * *
1915377 TAAAATAAAGTTTCACCTGATCCGACCTGAATATATGAATTAGAAATCCGACCCAACCCGACCCG
1 CAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAACCCGACCCAACCCGACCCG
* *
1915442 AAATAATAAAAAAATTATTTTTATTTAATAAAAA-AGTAACTTAATTGAAAAAAATTATATATAG
66 AAATAATAAAAAAATTATTTTTATTCAATAAAAACAATAACTTAATTG-AAAAAA-TATATATAG
*
1915506 AGGGATATTAGTGTAATTATTCTTAAATATATAAGGTAAAATTATATA-TATTT-TCGGGTCGGG
129 AGGGATATTAGTGTAATTATTCTTAAATATATAAGGTAAAATTATATATTATTTGTCGGGTCGAG
* * * *
1915569 TATTTTTCACCCTAAACCCGAACTCGACCCGACCCGAATATCACACTTAAAAAAATCGATCTGAC
194 TATTTTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAAATCAACCCGAC
*
1915634 CCGAC
259 CCAAC
1915639 CAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAACCCGACCC
1 CAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAACCCGACCC
1915693 GAAATAATAA
Statistics
Matches: 279, Mismatches: 24, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
255 37 0.13
259 1 0.00
262 122 0.44
263 1 0.00
264 11 0.04
265 53 0.19
266 54 0.19
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (263 bp):
CAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAACCCGACCCAACCCGACCCG
AAATAATAAAAAAATTATTTTTATTCAATAAAAACAATAACTTAATTGAAAAAATATATATAGAG
GGATATTAGTGTAATTATTCTTAAATATATAAGGTAAAATTATATATTATTTGTCGGGTCGAGTA
TTTTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAAATCAACCCGACCC
AAC
Found at i:1917025 original size:21 final size:22
Alignment explanation
Indices: 1916993--1917034 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
1916983 GGCATTGATA
1916993 CTCTAGTAGTATCGATACTACT
1 CTCTAGTAGTATCGATACTACT
1917015 CTCTA-TAGTATCGATACTAC
1 CTCTAGTAGTATCGATACTAC
1917035 CCCTAATCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (22 bp):
CTCTAGTAGTATCGATACTACT
Found at i:1919184 original size:19 final size:20
Alignment explanation
Indices: 1919160--1919207 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1919150 AATGATTTTC
*
1919160 TTTTGAAAA-CAAAAACAGA
1 TTTTGAAAACCAAAAACAAA
**
1919179 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAAACAAA
1919199 TTTTGAAAA
1 TTTTGAAAA
1919208 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.27
Consensus pattern (20 bp):
TTTTGAAAACCAAAAACAAA
Found at i:1920340 original size:18 final size:18
Alignment explanation
Indices: 1920317--1920374 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 18
1920307 CAACAATTGA
1920317 TAACAATT-AGTATCTTTT
1 TAACAATTGA-TATCTTTT
1920335 TAACAATTGATATCATTTTCT
1 TAACAATTGATATC--TTT-T
1920356 TAACAATTGATATCTTTT
1 TAACAATTGATATCTTTT
1920374 T
1 T
1920375 CATTAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
18 14 0.39
19 4 0.11
20 3 0.08
21 15 0.42
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (18 bp):
TAACAATTGATATCTTTT
Found at i:1920360 original size:21 final size:22
Alignment explanation
Indices: 1920334--1920380 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
1920324 TAGTATCTTT
1920334 TTAACAATTGATATCATTTTC-
1 TTAACAATTGATATCATTTTCA
*
1920355 TTAACAATTGATATCTTTTTCA
1 TTAACAATTGATATCATTTTCA
1920377 TTAA
1 TTAA
1920381 ATATTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.34, C:0.13, G:0.04, T:0.49
Consensus pattern (22 bp):
TTAACAATTGATATCATTTTCA
Found at i:1925933 original size:23 final size:22
Alignment explanation
Indices: 1925907--1925960 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
1925897 GGAGGTATCA
1925907 ATACCCCCTTTGAATGGGTACCG
1 ATACCCCC-TTGAATGGGTACCG
*
1925930 ATACCCTCCTTGAGTGGGTACCG
1 ATACCC-CCTTGAATGGGTACCG
1925953 ATACCCCC
1 ATACCCCC
1925961 ACATGAGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 2 0.07
23 25 0.86
24 2 0.07
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.24
Consensus pattern (22 bp):
ATACCCCCTTGAATGGGTACCG
Found at i:1925973 original size:22 final size:22
Alignment explanation
Indices: 1925922--1925980 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
1925912 CCCTTTGAAT
* *
1925922 GGGTACCGATACCCTCCTTGAG
1 GGGTACCGATACCCCCCATGAG
1925944 TGGGTACCGATACCCCCACATGA-
1 -GGGTACCGATACCCCC-CATGAG
1925967 GGGTACCGATACCC
1 GGGTACCGATACCC
1925981 TCTACAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 14 0.42
23 15 0.45
24 4 0.12
ACGTcount: A:0.22, C:0.34, G:0.25, T:0.19
Consensus pattern (22 bp):
GGGTACCGATACCCCCCATGAG
Found at i:1928640 original size:19 final size:19
Alignment explanation
Indices: 1928616--1928675 Score: 111
Period size: 19 Copynumber: 3.1 Consensus size: 19
1928606 ACAGAATACT
1928616 CAGGAGGTACCGATACCCC
1 CAGGAGGTACCGATACCCC
1928635 CAGGAGGTACCGATACCCCC
1 CAGGAGGTACCGATA-CCCC
1928655 CAGGAGGTACCGATACCCC
1 CAGGAGGTACCGATACCCC
1928674 CA
1 CA
1928676 TCCTATAACG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 21 0.52
20 19 0.47
ACGTcount: A:0.27, C:0.38, G:0.25, T:0.10
Consensus pattern (19 bp):
CAGGAGGTACCGATACCCC
Found at i:1928656 original size:20 final size:20
Alignment explanation
Indices: 1928616--1928674 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
1928606 ACAGAATACT
1928616 CAGGAGGTACCGATA-CCCC
1 CAGGAGGTACCGATACCCCC
1928635 CAGGAGGTACCGATACCCCC
1 CAGGAGGTACCGATACCCCC
1928655 CAGGAGGTACCGATACCCCC
1 CAGGAGGTACCGATACCCCC
1928675 ATCCTATAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
19 15 0.38
20 24 0.62
ACGTcount: A:0.25, C:0.39, G:0.25, T:0.10
Consensus pattern (20 bp):
CAGGAGGTACCGATACCCCC
Found at i:1938847 original size:90 final size:88
Alignment explanation
Indices: 1938695--1938864 Score: 304
Period size: 90 Copynumber: 1.9 Consensus size: 88
1938685 ACACACTCTT
1938695 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
*
1938760 ATTAATTAGAATTTAATAATCCTC
66 ATTAATT-GAAATTAATAATCCTC
*
1938784 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
1938849 AATTAATTGAAATTAA
65 AATTAATTGAAATTAA
1938865 ATATTCGGGA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
89 37 0.47
90 41 0.53
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.44
Consensus pattern (88 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAATAATCCTC
Done.