Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 214 of 216
Found at i:66414928 original size:23 final size:23
Alignment explanation
Indices: 66414898--66414971 Score: 107
Period size: 22 Copynumber: 3.3 Consensus size: 23
66414888 TATTGATCAA
66414898 TGGTAGCTTCGGCTACATTTCAG
1 TGGTAGCTTCGGCTACATTTCAG
* *
66414921 TGGTAGCTTTGGCTACA-TCCAG
1 TGGTAGCTTCGGCTACATTTCAG
*
66414943 TGGTAGCTTCGGCTACATATCAG
1 TGGTAGCTTCGGCTACATTTCAG
66414966 T-GTAGC
1 TGGTAGC
66414972 ACTTATGTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
22 25 0.56
23 20 0.44
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (23 bp):
TGGTAGCTTCGGCTACATTTCAG
Found at i:66419615 original size:30 final size:29
Alignment explanation
Indices: 66419571--66419630 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
66419561 TCCGAGCATT
*
66419571 GGGGAAAAAATGTAATTATGTAAAAATTTA
1 GGGGAAAAAATGTAATTATG-AAAAAGTTA
* * *
66419601 GGGGCAAAATTGTAATTTTGAAAAAGTTA
1 GGGGAAAAAATGTAATTATGAAAAAGTTA
66419630 G
1 G
66419631 AGTCGAGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (29 bp):
GGGGAAAAAATGTAATTATGAAAAAGTTA
Found at i:66420043 original size:50 final size:50
Alignment explanation
Indices: 66419968--66420158 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
66419958 TTGGGTAAAG
66419968 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAT
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAT
* *
66420018 AGGTCGCC-TGTAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAG
1 AGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAT
* * *
66420068 AGGTTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATGAGT
1 AGG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-T
** * *
66420119 ACATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
66420159 TGTTATGATC
Statistics
Matches: 125, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
50 92 0.74
51 33 0.26
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.21
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAT
Found at i:66422047 original size:185 final size:186
Alignment explanation
Indices: 66421734--66422069 Score: 593
Period size: 185 Copynumber: 1.8 Consensus size: 186
66421724 TAGCATACTG
*
66421734 GTGGTATTTGATGAGATGTCAATGTGGAACTAAGAGAAGAAAGAACCAGAGGTAGTTTCTGAAGA
1 GTGGTATTTGATGAGATGTCAAGGTGGAACTAAGAGAAGAAAGAACCAGAGGTAGTTTCTGAAGA
* *
66421799 CCTTGTTGCAGATCAGACTGAATCTGATCAGAATGGTCCTGAAATGGACATTGATGATGAACCAG
66 CCTTGTAGCAGATCAGACTGAACCTGATCAGAATGGTCCTGAAATGGACATTGATGATGAACCAG
*
66421864 TCAGGGGCATTAGACCCTTGGATCCTTCAGCAAACAAGGTGCTTGTGAGTAGAGAT
131 TCAGGGGCACTAGACCCTTGGATCCTTCAGCAAACAAGGTGCTTGTGAGTAGAGAT
** *
66421920 GTGGTATTTGATGAGATGTCAAGGTGGAACTGGGAGAAGAAAGAACCATA-GTAGTTTCTGAAGA
1 GTGGTATTTGATGAGATGTCAAGGTGGAACTAAGAGAAGAAAGAACCAGAGGTAGTTTCTGAAGA
*
66421984 CCTTGTAGCAGATCAGATTGAACCTGATCAGAATGGTCCTGAAATGGACATTGATGATGAACCAG
66 CCTTGTAGCAGATCAGACTGAACCTGATCAGAATGGTCCTGAAATGGACATTGATGATGAACCAG
66422049 TCAGGGGCACTAGACCCTTGG
131 TCAGGGGCACTAGACCCTTGG
66422070 CTGAGATTTA
Statistics
Matches: 142, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
185 96 0.68
186 46 0.32
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (186 bp):
GTGGTATTTGATGAGATGTCAAGGTGGAACTAAGAGAAGAAAGAACCAGAGGTAGTTTCTGAAGA
CCTTGTAGCAGATCAGACTGAACCTGATCAGAATGGTCCTGAAATGGACATTGATGATGAACCAG
TCAGGGGCACTAGACCCTTGGATCCTTCAGCAAACAAGGTGCTTGTGAGTAGAGAT
Found at i:66449911 original size:42 final size:42
Alignment explanation
Indices: 66449861--66449958 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
66449851 TCTTGGTATT
* * * **
66449861 GCACACTTAGTGCCTGTTAGTCGACATTGTCATTTTTTTTTC
1 GCACACTTAGTGCCCGTTAGTCAACATCGTCATTTTAATTTC
*
66449903 GCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTC
1 GCACACTTAGTGCCCGTTAGTCAACATCGTCATTTTAATTTC
66449945 GCACACTTAGTGCC
1 GCACACTTAGTGCC
66449959 ATTCGTATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (42 bp):
GCACACTTAGTGCCCGTTAGTCAACATCGTCATTTTAATTTC
Found at i:66464968 original size:17 final size:18
Alignment explanation
Indices: 66464948--66464985 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
66464938 TTTCTTCAAC
* *
66464948 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
66464965 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
66464983 TTC
1 TTC
66464986 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:66469841 original size:7 final size:7
Alignment explanation
Indices: 66469826--66469857 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
66469816 TCTGATACAT
*
66469826 GAACGAA
1 GAACCAA
66469833 GAACCAA
1 GAACCAA
66469840 GAACCAA
1 GAACCAA
66469847 GAACCAA
1 GAACCAA
66469854 GAAC
1 GAAC
66469858 AATATACCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.56, C:0.25, G:0.19, T:0.00
Consensus pattern (7 bp):
GAACCAA
Found at i:66471687 original size:83 final size:83
Alignment explanation
Indices: 66471585--66471747 Score: 299
Period size: 83 Copynumber: 2.0 Consensus size: 83
66471575 ACATTAGAAT
66471585 CTAAATTTTAGAGTTTTCAATGAAATATAATGTACTAACTTAAACAAAAAGAAAGTTCAAACTCT
1 CTAAATTTTAGAGTTTTCAATGAAATATAATGTACTAACTTAAACAAAAAGAAAGTTCAAACTCT
*
66471650 AATGTGAGAACAATTGTC
66 AATGTAAGAACAATTGTC
* *
66471668 CTAAATTTTAGAGTTTTCAATGAAATATCATGTACTAACTTAAACAAAAAGAAAGTTCAAGCTCT
1 CTAAATTTTAGAGTTTTCAATGAAATATAATGTACTAACTTAAACAAAAAGAAAGTTCAAACTCT
66471733 AATGTAAGAACAATT
66 AATGTAAGAACAATT
66471748 ATCAAGTTCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (83 bp):
CTAAATTTTAGAGTTTTCAATGAAATATAATGTACTAACTTAAACAAAAAGAAAGTTCAAACTCT
AATGTAAGAACAATTGTC
Found at i:66482937 original size:17 final size:17
Alignment explanation
Indices: 66482879--66482938 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
66482869 TTATATCTAC
66482879 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
* *
66482896 TAAATTTCACATT-TTATAT
1 T--ATTT-ATATTATTAAAT
66482915 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
*
66482932 TGTTTAT
1 TATTTAT
66482939 TGAATATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.12
17 16 0.47
19 10 0.29
20 4 0.12
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTAAAT
Found at i:66485056 original size:8 final size:8
Alignment explanation
Indices: 66485043--66485072 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
66485033 ATCCAAAAAT
66485043 TTAATAAA
1 TTAATAAA
66485051 TTAATAAA
1 TTAATAAA
66485059 TTTAATAAA
1 -TTAATAAA
66485068 TTAAT
1 TTAAT
66485073 TTAATTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TTAATAAA
Found at i:66485061 original size:17 final size:17
Alignment explanation
Indices: 66485039--66485072 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
66485029 CCTAATCCAA
66485039 AAATTTAATAAATTAAT
1 AAATTTAATAAATTAAT
66485056 AAATTTAATAAATTAAT
1 AAATTTAATAAATTAAT
66485073 TTAATTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTTAATAAATTAAT
Found at i:66485063 original size:9 final size:9
Alignment explanation
Indices: 66485039--66485069 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
66485029 CCTAATCCAA
66485039 AAATTTAAT
1 AAATTTAAT
66485048 AAA-TTAAT
1 AAATTTAAT
66485056 AAATTTAAT
1 AAATTTAAT
66485065 AAATT
1 AAATT
66485070 AATTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAATTTAAT
Found at i:66485490 original size:3 final size:3
Alignment explanation
Indices: 66485482--66485511 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
66485472 ACAATTATTT
*
66485482 TTC TTC TTC TTC TTA TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
66485512 CTTTGCTCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:66488574 original size:19 final size:19
Alignment explanation
Indices: 66488531--66488584 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
66488521 AAAAATATAA
* *
66488531 ATTTTGGAACTTTTATAAAT
1 ATTTT-GAAATTTTAAAAAT
66488551 ATTTT-AAATTTTAAAAATT
1 ATTTTGAAATTTTAAAAA-T
*
66488570 ATTTTGTAATTTTAA
1 ATTTTGAAATTTTAA
66488585 TTGAGAGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 10 0.34
19 6 0.21
20 13 0.45
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (19 bp):
ATTTTGAAATTTTAAAAAT
Found at i:66489601 original size:31 final size:32
Alignment explanation
Indices: 66489560--66489622 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
66489550 TCTTTTTTTA
*
66489560 AATTAAATTTGA-CATTCAATCTTTT-AAAAAG
1 AATTAAATTTGACCATT-AACCTTTTCAAAAAG
*
66489591 AATTGAATTTGACCATTAACCTTTTCAAAAAG
1 AATTAAATTTGACCATTAACCTTTTCAAAAAG
66489623 TGTTGACTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.37
Consensus pattern (32 bp):
AATTAAATTTGACCATTAACCTTTTCAAAAAG
Found at i:66495725 original size:25 final size:25
Alignment explanation
Indices: 66495691--66495740 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
66495681 TGGCTGGTGG
*
66495691 TGCAGCATGCTGGCTC-ACTTCATCA
1 TGCAGCATGCTAGC-CAACTTCATCA
66495716 TGCAGCATGCTAGCCAACTTCATCA
1 TGCAGCATGCTAGCCAACTTCATCA
66495741 GCTTTGCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (25 bp):
TGCAGCATGCTAGCCAACTTCATCA
Found at i:66507582 original size:13 final size:13
Alignment explanation
Indices: 66507564--66507588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66507554 CCTCATTGGG
66507564 TTTTTCTTTCTTT
1 TTTTTCTTTCTTT
66507577 TTTTTCTTTCTT
1 TTTTTCTTTCTT
66507589 ATAATGATCG
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCTTTCTTT
Found at i:66516585 original size:14 final size:14
Alignment explanation
Indices: 66516566--66516601 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
66516556 GCTAAGCAAA
66516566 CAAGAGAATTCGAG
1 CAAGAGAATTCGAG
66516580 CAAGAGAATTCGAG
1 CAAGAGAATTCGAG
66516594 CAAGAGAA
1 CAAGAGAA
66516602 AGGAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.28, T:0.11
Consensus pattern (14 bp):
CAAGAGAATTCGAG
Found at i:66519417 original size:16 final size:16
Alignment explanation
Indices: 66519384--66519417 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66519374 GCTGAGTGTT
* *
66519384 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
66519400 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
66519416 AA
1 AA
66519418 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:66522242 original size:21 final size:21
Alignment explanation
Indices: 66522216--66522256 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66522206 AGACGAGCAA
* *
66522216 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
66522237 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
66522257 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:66524195 original size:16 final size:16
Alignment explanation
Indices: 66524162--66524195 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66524152 GGAGATTGTT
* *
66524162 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
66524178 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
66524194 AA
1 AA
66524196 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:66527010 original size:13 final size:11
Alignment explanation
Indices: 66526984--66527031 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
66526974 ATTGATTTTT
66526984 AAAAATTATAA
1 AAAAATTATAA
66526995 AAAAATTATTTAAA
1 AAAAATTA--T-AA
*
66527009 AAAAACTATAA
1 AAAAATTATAA
*
66527020 AAAAGTTATAA
1 AAAAATTATAA
66527031 A
1 A
66527032 TATATATAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 20 0.65
12 1 0.03
13 1 0.03
14 9 0.29
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:66528464 original size:16 final size:16
Alignment explanation
Indices: 66528445--66528489 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
66528435 TCTCAATTTT
*
66528445 AAATAATCCAAATCCA
1 AAATAATCCAAACCCA
66528461 AAATAA-CTCAAACCCA
1 AAATAATC-CAAACCCA
66528477 AAATAATCCAAAC
1 AAATAATCCAAAC
66528490 TTAAAACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.16
Consensus pattern (16 bp):
AAATAATCCAAACCCA
Found at i:66528495 original size:16 final size:16
Alignment explanation
Indices: 66528445--66528495 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
66528435 TCTCAATTTT
66528445 AAATAATCCAAA-TCCA
1 AAATAATCCAAACT-CA
*
66528461 AAATAA-CTCAAACCCA
1 AAATAATC-CAAACTCA
*
66528477 AAATAATCCAAACTTA
1 AAATAATCCAAACTCA
66528493 AAA
1 AAA
66528496 CATTCAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.18
Consensus pattern (16 bp):
AAATAATCCAAACTCA
Found at i:66536129 original size:44 final size:44
Alignment explanation
Indices: 66536055--66536156 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
66536045 TATTACTTAT
* *
66536055 TTAATTTCACTTGAATCCACCATTTATACGAATTTATGATAATA
1 TTAATGTCAATTGAATCCACCATTTATACGAATTTATGATAATA
* * * *
66536099 TTAATGTCAATTGAATCTACTATTTCTACGAATTTATGATGATA
1 TTAATGTCAATTGAATCCACCATTTATACGAATTTATGATAATA
66536143 TTAATGTCAATTGA
1 TTAATGTCAATTGA
66536157 GTAATTATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (44 bp):
TTAATGTCAATTGAATCCACCATTTATACGAATTTATGATAATA
Found at i:66553662 original size:19 final size:19
Alignment explanation
Indices: 66553623--66553660 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
66553613 AAAGTGAATC
*
66553623 TTGGTCCTTAACTTTCAAA
1 TTGGTCCTTAACTATCAAA
66553642 TTGGTCCTTAAACTATCAA
1 TTGGTCCTT-AACTATCAA
66553661 TTAAGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (19 bp):
TTGGTCCTTAACTATCAAA
Found at i:66565584 original size:24 final size:23
Alignment explanation
Indices: 66565518--66565586 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
66565508 TCAGACTCGC
** *
66565518 TTCATTTAACCTTCGTGAACATG
1 TTCATTTAATGTTCATGAACATG
** *
66565541 TTTGTTTAATGTTCACGAACATG
1 TTCATTTAATGTTCATGAACATG
66565564 TTCATTTATATGTTCATGAACAT
1 TTCATTTA-ATGTTCATGAACAT
66565587 TAAACAAACA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 23 0.64
24 13 0.36
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (23 bp):
TTCATTTAATGTTCATGAACATG
Found at i:66565631 original size:23 final size:23
Alignment explanation
Indices: 66565582--66565643 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
66565572 TATGTTCATG
** ** *
66565582 AACATTAAACAAACATGTTTGCG
1 AACATTAAACAAACACATTCACA
66565605 AACATTAAACAAACACATTCACA
1 AACATTAAACAAACACATTCACA
*
66565628 AACAGTAAACCAAACA
1 AACATTAAA-CAAACA
66565644 AACAAACAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 26 0.81
24 6 0.19
ACGTcount: A:0.53, C:0.23, G:0.06, T:0.18
Consensus pattern (23 bp):
AACATTAAACAAACACATTCACA
Found at i:66565666 original size:24 final size:23
Alignment explanation
Indices: 66565639--66565686 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
66565629 ACAGTAAACC
66565639 AAACAAACAAACAAAATATTAAAT
1 AAACAAACAAACAAAAT-TTAAAT
*
66565663 AAACAAACCAACAAAATTTAAAT
1 AAACAAACAAACAAAATTTAAAT
66565686 A
1 A
66565687 TAAAAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.17
Consensus pattern (23 bp):
AAACAAACAAACAAAATTTAAAT
Found at i:66567971 original size:5 final size:5
Alignment explanation
Indices: 66567961--66568003 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
66567951 AAGGCATGTA
*
66567961 ATAAT ATAAT ATAAT ACAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
66568004 GGCATAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:66572374 original size:25 final size:25
Alignment explanation
Indices: 66572345--66572395 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
66572335 ATTTGAATGC
66572345 TTTTATTTTTAATCTACTCTTTCCA
1 TTTTATTTTTAATCTACTCTTTCCA
66572370 TTTTATTTTTAATCTACTCTTTCCA
1 TTTTATTTTTAATCTACTCTTTCCA
66572395 T
1 T
66572396 ATAGCCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTTATTTTTAATCTACTCTTTCCA
Found at i:66583105 original size:12 final size:13
Alignment explanation
Indices: 66583088--66583125 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
66583078 TTTATTCTGT
66583088 TTAGTTAGTTAG-
1 TTAGTTAGTTAGA
66583100 TTAGTTAGTTAGAA
1 TTAGTTAGTTAG-A
66583114 TTGAGTTAGTTA
1 TT-AGTTAGTTA
66583126 TTCAGTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.52
14 2 0.09
15 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (13 bp):
TTAGTTAGTTAGA
Found at i:66587470 original size:98 final size:98
Alignment explanation
Indices: 66587300--66587494 Score: 266
Period size: 98 Copynumber: 2.0 Consensus size: 98
66587290 ACCCTAAAGG
* * * **
66587300 TTTGTTCGATTAGCTGAAGTTTGGTTGCTCGGTTAATTCGAGAATATTGCTATATTCATTGTTTG
1 TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATATTCATTGTTTG
* *
66587365 TTGAAGATTATCATAGAATGTGTAGGAGCATGT
66 TTGAAGATGATCATACAATGTGTAGGAGCATGT
* *
66587398 TTTGTTCGATGAGCTGAAATTTGTTTGCTTGGTAAATTCGAGAATATCACTATATGT-ATTGTTT
1 TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATAT-TCATTGTTT
* * *
66587462 GTTTAAGATGATGATACATTGTGTAGGAGCATG
65 GTTGAAGATGATCATACAATGTGTAGGAGCATG
66587495 CTTTCTTCAG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 83 0.99
99 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.42
Consensus pattern (98 bp):
TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATATTCATTGTTTG
TTGAAGATGATCATACAATGTGTAGGAGCATGT
Found at i:66587713 original size:186 final size:186
Alignment explanation
Indices: 66587399--66588060 Score: 995
Period size: 186 Copynumber: 3.6 Consensus size: 186
66587389 GGAGCATGTT
* * * * *
66587399 TTGTTCGATGAGCTGAAATTTGTTTGCTTGGTAAATTCGAGAATATCACTATATGTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
66587464 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
* *
66587529 GAACTGTTTATATGCTGCTTCTGAGTCTGCTGAGGCTGCTCATCAACCCCAAAGGC
131 GAACTGTTTATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* * * ** *
66587585 TTGTTCGGTTAGCTGAAATTCGATTGCTCGTTTAATTTGAGAATATCACTATATTTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
*
66587650 TTAAGACGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
*
66587715 GAACTGTTTATATGCTGCTTCAGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
131 GAACTGTTTATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* *
66587771 TTGTTCCATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATTTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
* * * *
66587836 TTACGATGATGATACATAGTGTAGGAGCATGCTTTCTTCAGTATGAAGCTCATTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
* * *
66587901 GAACT-TTCTATATGCTGCTGCTGAGTCTGTTGAGGCTGCTAATCAACCCTAAAGGT
131 GAACTGTT-TATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* ** * **
66587957 TTGTTCAATTAGCTGAAATTTGATTGCTCAATTAATTCAAGAACATTGCTATATGTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
* * * *
66588022 TTAAGATGATAATACATT-TTTAGTAGCATGTTTTCTTCA
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCA
66588061 TTTAGCTGAA
Statistics
Matches: 434, Mismatches: 41, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
185 20 0.05
186 414 0.95
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (186 bp):
TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
GAACTGTTTATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
Found at i:66588134 original size:97 final size:97
Alignment explanation
Indices: 66587960--66588136 Score: 241
Period size: 97 Copynumber: 1.8 Consensus size: 97
66587950 TAAAGGTTTG
* *
66587960 TTCAATTAGCTGAAATTTGATTGCTCAATTAATTCAAGAACATTGCTATATGTATTGTTTGTTTA
1 TTCAATTAGCTGAAATTAGATTGCTCAATTAATTCAAGAACATGGCTATATGTATTGTTTGTTTA
66588025 AGATGATAATACATTTTTAGTAGCATGTTTTC
66 AGATGATAATACATTTTTAGTAGCATGTTTTC
* ** * *
66588057 TTCATTTAGCTGAAATTAGATTGCTCGGTTAATTCGAGAATTC-TGGC-ATATTTATTGTTTGTT
1 TTCAATTAGCTGAAATTAGATTGCTCAATTAATTCAAGAA--CATGGCTATATGTATTGTTTGTT
* *
66588120 TAAGGTGATGATACATT
64 TAAGATGATAATACATT
66588137 GTGTAGGAGC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
97 65 0.94
98 3 0.04
99 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (97 bp):
TTCAATTAGCTGAAATTAGATTGCTCAATTAATTCAAGAACATGGCTATATGTATTGTTTGTTTA
AGATGATAATACATTTTTAGTAGCATGTTTTC
Found at i:66589251 original size:72 final size:72
Alignment explanation
Indices: 66589165--66589304 Score: 280
Period size: 72 Copynumber: 1.9 Consensus size: 72
66589155 CATCATTAGT
66589165 TGATGTAATTGTTCGAGTTGTTGATTCGAATAAATCTCTTTTTTTTTTATGTCCATATCAACAGA
1 TGATGTAATTGTTCGAGTTGTTGATTCGAATAAATCTCTTTTTTTTTTATGTCCATATCAACAGA
66589230 TACCTAA
66 TACCTAA
66589237 TGATGTAATTGTTCGAGTTGTTGATTCGAATAAATCTCTTTTTTTTTTATGTCCATATCAACAGA
1 TGATGTAATTGTTCGAGTTGTTGATTCGAATAAATCTCTTTTTTTTTTATGTCCATATCAACAGA
66589302 TAC
66 TAC
66589305 GTGAATAATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (72 bp):
TGATGTAATTGTTCGAGTTGTTGATTCGAATAAATCTCTTTTTTTTTTATGTCCATATCAACAGA
TACCTAA
Found at i:66592458 original size:31 final size:31
Alignment explanation
Indices: 66592421--66592481 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
66592411 AAAAAACTTG
66592421 ACTTAAATAAAAACTTTCAAATAGTTCAGTA
1 ACTTAAATAAAAACTTTCAAATAGTTCAGTA
* * *
66592452 ACTTAAATGACAACTTTCGAATAGTTCAGT
1 ACTTAAATAAAAACTTTCAAATAGTTCAGT
66592482 GACCATATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAGTTCAGTA
Found at i:66599798 original size:30 final size:32
Alignment explanation
Indices: 66599739--66599798 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
66599729 TACTAAAAAA
66599739 AAAGAGGCAAATTAGTCATTATATGTTAAATC
1 AAAGAGGCAAATTAGTCATTATATGTTAAATC
*
66599771 AAAGA-GCAAATT-GATCATT-TTTGTTAAA
1 AAAGAGGCAAATTAG-TCATTATATGTTAAA
66599799 ATTTGATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 9 0.35
31 12 0.46
32 5 0.19
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (32 bp):
AAAGAGGCAAATTAGTCATTATATGTTAAATC
Found at i:66600377 original size:31 final size:31
Alignment explanation
Indices: 66600337--66600412 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
66600327 AAAAGCTCAG
66600337 TATTTAATTTGGTAT-TCGAGTTTAGCTTCAA
1 TATTTAATTTGGTATCT-GAGTTTAGCTTCAA
* *
66600368 TGTTTAATTTGGTATCTGAGTTTGGCTTCAA
1 TATTTAATTTGGTATCTGAGTTTAGCTTCAA
66600399 TATTTAATTTGGTA
1 TATTTAATTTGGTA
66600413 GTCAAACCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (31 bp):
TATTTAATTTGGTATCTGAGTTTAGCTTCAA
Found at i:66600557 original size:31 final size:30
Alignment explanation
Indices: 66600518--66600596 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
66600508 AAAAGCGCAA
* *
66600518 TATATTCAATTTGGTATTTGAGCTTGGCTT
1 TATATTCAATTTGGTACTTGAACTTGGCTT
* *
66600548 TGATATTCAATTTGTTACTTGAATTTGGCTT
1 T-ATATTCAATTTGGTACTTGAACTTGGCTT
*
66600579 TAGTATTCAATTTAGTAC
1 TA-TATTCAATTTGGTAC
66600597 CTAACGTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.49
Consensus pattern (30 bp):
TATATTCAATTTGGTACTTGAACTTGGCTT
Found at i:66606653 original size:25 final size:25
Alignment explanation
Indices: 66606601--66606650 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
66606591 AAACCCATTA
* * *
66606601 TATTTTAAAAAATATATATTTATAT
1 TATTTAAAAAAATATAAAATTATAT
66606626 TATTTAAAAAAAT-TAAAATTATAT
1 TATTTAAAAAAATATAAAATTATAT
66606650 T
1 T
66606651 TATATTACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTTAAAAAAATATAAAATTATAT
Found at i:66607969 original size:22 final size:22
Alignment explanation
Indices: 66607944--66608003 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
66607934 TTGCTGTTCT
* *
66607944 TTTTATTACTATTTTGCCATTG
1 TTTTATTACTATTTTGCAATTA
* * *
66607966 TTTTTTTATTGTTTTGCAATTA
1 TTTTATTACTATTTTGCAATTA
* *
66607988 TATTACTACTATTTTG
1 TTTTATTACTATTTTG
66608004 TTATTGTTAT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.62
Consensus pattern (22 bp):
TTTTATTACTATTTTGCAATTA
Found at i:66609466 original size:16 final size:16
Alignment explanation
Indices: 66609447--66609488 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
66609437 AAATTTTATT
66609447 ATTTAAATTTTTTAAA
1 ATTTAAATTTTTTAAA
*
66609463 ATTTTAAA-ATTTTAAA
1 A-TTTAAATTTTTTAAA
66609479 ATTCTAAATT
1 ATT-TAAATT
66609489 AGTAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
15 2 0.10
16 13 0.62
17 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTAAATTTTTTAAA
Found at i:66609467 original size:8 final size:8
Alignment explanation
Indices: 66609456--66609486 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
66609446 TATTTAAATT
66609456 TTTTAAAA
1 TTTTAAAA
66609464 TTTTAAAA
1 TTTTAAAA
66609472 TTTTAAAA
1 TTTTAAAA
*
66609480 TTCTAAA
1 TTTTAAA
66609487 TTAGTAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (8 bp):
TTTTAAAA
Found at i:66615479 original size:3 final size:3
Alignment explanation
Indices: 66615471--66615499 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
66615461 CAGCATTCTG
66615471 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
66615500 GCCGTTCGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:66620476 original size:13 final size:13
Alignment explanation
Indices: 66620458--66620484 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66620448 TGTAAGATGC
66620458 ATTGTGTTGTTTA
1 ATTGTGTTGTTTA
66620471 ATTGTGTTGTTTA
1 ATTGTGTTGTTTA
66620484 A
1 A
66620485 GAAAGGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (13 bp):
ATTGTGTTGTTTA
Found at i:66632413 original size:57 final size:57
Alignment explanation
Indices: 66632325--66632437 Score: 208
Period size: 57 Copynumber: 2.0 Consensus size: 57
66632315 GAAACTACCC
* *
66632325 CGACGACAGGTTCAACACCACAAGGATCAGGGTCGGAATCGGGGTTAACTTATTCGT
1 CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCGT
66632382 CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCG
1 CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCG
66632438 GGTAATGGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (57 bp):
CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCGT
Found at i:66634451 original size:32 final size:31
Alignment explanation
Indices: 66634369--66634464 Score: 95
Period size: 32 Copynumber: 3.1 Consensus size: 31
66634359 AAACACAATC
* *
66634369 TTTG-AGGGCTTAATGAGAATTTTTCAAAAT
1 TTTGAAGGGCTTAATGAAAATATTTCAAAAT
* ** * * *
66634399 TCTGAAAAGTTTAATAAAAATCTTTCAAAAT
1 TTTGAAGGGCTTAATGAAAATATTTCAAAAT
*
66634430 ATTTGAAGGGCTTAATGAAAATATTTAAAAAT
1 -TTTGAAGGGCTTAATGAAAATATTTCAAAAT
66634462 TTT
1 TTT
66634465 CAGTAATTTT
Statistics
Matches: 50, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
30 3 0.06
31 23 0.46
32 24 0.48
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTGAAGGGCTTAATGAAAATATTTCAAAAT
Found at i:66639914 original size:17 final size:19
Alignment explanation
Indices: 66639877--66639919 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
66639867 TAATCCCAAA
66639877 TTTGGTA-ATTATATCTAT
1 TTTGGTATATTATATCTAT
66639895 TTTGGTATA-TATAT-TAT
1 TTTGGTATATTATATCTAT
*
66639912 TTTAGTAT
1 TTTGGTAT
66639920 CTAAACCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 12 0.52
19 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (19 bp):
TTTGGTATATTATATCTAT
Found at i:66641944 original size:101 final size:99
Alignment explanation
Indices: 66641795--66642735 Score: 758
Period size: 101 Copynumber: 9.3 Consensus size: 99
66641785 AGGAATACAC
* * * * * *
66641795 GTGAACTATACATGATCTATACCTGA-TCTTTACATGCTACACACTTGTCTCATGAGATTTGAGG
1 GTGAACTATACACGATCTACACGTGACT-TTTACATCCCACACACTTGTCTCATGAGATTTGA-T
*
66641859 GGCATATAAGCCTCCCATCATAATTGGGGGGAGACAA
64 GGCATATAAGCCTCCCATCATAATT-GAGGGAGACAA
* * * * * * *
66641896 GTGAACTATACATGATTTATATGTGACTTTTAAATCCCACTCACTTGTC-CTATGAAATTTGATG
1 GTGAACTATACACGATCTACACGTGACTTTTACATCCCACACACTTGTCTC-ATGAGATTTGATG
* *
66641960 AC-TATAAGCCTTCCATCATAACTTGAGGGAGACAA
65 GCATATAAGCCTCCCATCATAA-TTGAGGGAGACAA
* * * * * * * ** *
66641995 ATGAATTCTACATGA-CTTACACGTGACATTTACATGCTC-CACACTTGTCTTACAAGACTTGAT
1 GTGAACTATACACGATC-TACACGTGACTTTTACAT-CCCACACACTTGTCTCATGAGATTTGAT
* *
66642058 GGCTATATAAGCCTCCCATCATAACTTAAGGGAGAAAA
64 GGC-ATATAAGCCTCCCATCATAA-TTGAGGGAGACAA
* * * * *
66642096 GTGAACTATACACGATCTACACGTGACCTTTACATACTACACACTTGTATCATGAGATTTGAGGG
1 GTGAACTATACACGATCTACACGTGACTTTTACATCCCACACACTTGTCTCATGAGATTTGA-TG
*
66642161 GCATATAAGCCTCCCATCATAATT-ACGGGGAGACAT
65 GCATATAAGCCTCCCATCATAATTGA--GGGAGACAA
* * * * * * *
66642197 GTGGACTATACACGATCTGCACGTGACCTTTACATACTACACACTTGTAC-CATGCGATTTGAGG
1 GTGAACTATACACGATCTACACGTGACTTTTACATCCCACACACTTGT-CTCATGAGATTTGA-T
66642261 GGCATATAAGCCTCCCATCATAATT-AGGAGGAGACAA
64 GGCATATAAGCCTCCCATCATAATTGA-G-GGAGACAA
* * *
66642298 GTGGACTATACACGATCTACACGTGACTTTTAAATCCCACACACTTGTCTTATGAGATTTGATGG
1 GTGAACTATACACGATCTACACGTGACTTTTACATCCCACACACTTGTCTCATGAGATTTGATGG
*
66642363 C-TATAAGCCTCCCATCATAGTTTGAGGGAGACAAATGGGA
66 CATATAAGCCTCCCATCATA-ATTGAGGGAGAC--A----A
* * * * * *
66642403 GACAAATGAACTATACACGA-CTTACATGTGGCTTTTACATGCTC-CACACTTGTCTGATAAGAC
1 G-----TGAACTATACACGATC-TACACGTGACTTTTACAT-CCCACACACTTGTCTCATGAGAT
*
66642466 TTGATGGCTATATCAGCCTCCCATCATAACTTGAGGGAGACAA
59 TTGATGGC-ATATAAGCCTCCCATCATAA-TTGAGGGAGACAA
* * * * * * * *
66642509 GTGAACTATACACAATCTACATGTGACCTTTACATGCTC-CACACTTGTCCCACGGGATTTGAAG
1 GTGAACTATACACGATCTACACGTGACTTTTACAT-CCCACACACTTGTCTCATGAGATTTGATG
* ** * *
66642573 AGCATATAAGGCTCTTATTATAATCAGAGGGAGACAA
65 -GCATATAAGCCTCCCATCATAAT-TGAGGGAGACAA
* * * * * *
66642610 GTGGACAATACATGATCTGCATGTGACTTTTACA-CGCCACACACTTGTC-CTACGAGATTTGAT
1 GTGAACTATACACGATCTACACGTGACTTTTACATC-CCACACACTTGTCTC-ATGAGATTTGAT
* *
66642673 GGCTATATAAACCTCACATCATAATTTGAGGGAGACAA
64 GGC-ATATAAGCCTCCCATCATAA-TTGAGGGAGACAA
**
66642711 GTGAACTATACATAATCTACACGTG
1 GTGAACTATACACGATCTACACGTG
66642736 GCCTTTTCAT
Statistics
Matches: 691, Mismatches: 107, Indels: 84
0.78 0.12 0.10
Matches are distributed among these distances:
99 99 0.14
100 23 0.03
101 472 0.68
102 9 0.01
105 2 0.00
106 2 0.00
109 1 0.00
110 53 0.08
111 2 0.00
112 28 0.04
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (99 bp):
GTGAACTATACACGATCTACACGTGACTTTTACATCCCACACACTTGTCTCATGAGATTTGATGG
CATATAAGCCTCCCATCATAATTGAGGGAGACAA
Found at i:66642520 original size:312 final size:312
Alignment explanation
Indices: 66641795--66642710 Score: 818
Period size: 312 Copynumber: 3.0 Consensus size: 312
66641785 AGGAATACAC
* * * * * * * *
66641795 GTGAACTATACATGATCTATACCTGATCTTTACATGCTACACACTTGTCTCATGAGATTTGAGGG
1 GTGAACTATACACGATCTACACGTGACCTTTACATACTACACACTTGTATCATAAGACTTGAGGG
** ** * * * *
66641860 GCATATAAGCCTCCCATCATAATTGGGGGGAGACAAGTGAACTATACATGATTTATATGTGACTT
66 GCATATAAGCCTCCCATCATAATT-ACGGGAGACAAGTGAACTATACACAATCTACACGTGACCT
* * * * * ** * * *
66641925 TTAAATCCCACTCACTTGT-CCTATGAAATTTGATGA-C-TATAAGCCTTCCATCATAA-CTTGA
130 TTACATACTACACACTTGTACC-ACGCGATTTGAAGAGCATATAAGCCTCCCATCATAATC-AGA
* * *** * * * * * *
66641986 GGGAGACAAATGAATTCTACATGA-CTTACACGTGACATTTACATGCTC-CACACTTGTCTTACA
193 GGGAGACAAGTGGACAATACACGATC-TACACGTGACTTTTAAACGC-CACACACTTGTCCTACG
* * * *
66642049 AGACTTGATGGCTATATAAGCCTCCCATCATAACTT----------AA-GGGAGAAAA
256 AGATTTGATGGC-ATATAAACCTCACATCATAATTTGAGGGAGACAAATGGGAGAAAA
* *
66642096 GTGAACTATACACGATCTACACGTGACCTTTACATACTACACACTTGTATCATGAGATTTGAGGG
1 GTGAACTATACACGATCTACACGTGACCTTTACATACTACACACTTGTATCATAAGACTTGAGGG
* * * *
66642161 GCATATAAGCCTCCCATCATAATTACGGGGAGACATGTGGACTATACACGATCTGCACGTGACCT
66 GCATATAAGCCTCCCATCATAATTAC-GGGAGACAAGTGAACTATACACAATCTACACGTGACCT
* * * *
66642226 TTACATACTACACACTTGTACCATGCGATTTGAGGGGCATATAAGCCTCCCATCATAATTAG-GA
130 TTACATACTACACACTTGTACCACGCGATTTGAAGAGCATATAAGCCTCCCATCATAATCAGAG-
* * *
66642290 GGAGACAAGTGGACTATACACGATCTACACGTGACTTTTAAATC-CCACACACTTGTCTTATGAG
194 GGAGACAAGTGGACAATACACGATCTACACGTGACTTTTAAA-CGCCACACACTTGTCCTACGAG
* * *
66642354 ATTTGATGGC-TATAAGCCTCCCATCATAGTTTGAGGGAGACAAATGGGAGACAAA
258 ATTTGATGGCATATAAACCTCACATCATAATTTGAGGGAGACAAATGGGAGA-AAA
* * * * * * * *
66642409 -TGAACTATACACGA-CTTACATGTGGCTTTTACATGCTCCACACTTGTCTGATAAGACTTGA-T
1 GTGAACTATACACGATC-TACACGTGACCTTTACATACTACACACTTGTATCATAAGACTTGAGG
* *
66642471 GGCTATATCAGCCTCCCATCATAACTTGA-GGGAGACAAGTGAACTATACACAATCTACATGTGA
65 GGC-ATATAAGCCTCCCATCATAA-TT-ACGGGAGACAAGTGAACTATACACAATCTACACGTGA
* * * * * ** *
66642535 CCTTTACATGCTCCACACTTGTCCCACGGGATTTGAAGAGCATATAAGGCTCTTATTATAATCAG
127 CCTTTACATACTACACACTTGTACCACGCGATTTGAAGAGCATATAAGCCTCCCATCATAATCAG
* * * *
66642600 AGGGAGACAAGTGGACAATACATGATCTGCATGTGACTTTTACACGCCACACACTTGTCCTACGA
192 AGGGAGACAAGTGGACAATACACGATCTACACGTGACTTTTAAACGCCACACACTTGTCCTACGA
66642665 GATTTGATGGCTATATAAACCTCACATCATAATTTGAGGGAGACAA
257 GATTTGATGGC-ATATAAACCTCACATCATAATTTGAGGGAGACAA
66642711 GTGAACTATA
Statistics
Matches: 508, Mismatches: 78, Indels: 45
0.81 0.12 0.07
Matches are distributed among these distances:
301 158 0.31
302 5 0.01
303 77 0.15
304 1 0.00
311 7 0.01
312 223 0.44
313 6 0.01
314 31 0.06
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (312 bp):
GTGAACTATACACGATCTACACGTGACCTTTACATACTACACACTTGTATCATAAGACTTGAGGG
GCATATAAGCCTCCCATCATAATTACGGGAGACAAGTGAACTATACACAATCTACACGTGACCTT
TACATACTACACACTTGTACCACGCGATTTGAAGAGCATATAAGCCTCCCATCATAATCAGAGGG
AGACAAGTGGACAATACACGATCTACACGTGACTTTTAAACGCCACACACTTGTCCTACGAGATT
TGATGGCATATAAACCTCACATCATAATTTGAGGGAGACAAATGGGAGAAAA
Found at i:66642607 original size:413 final size:400
Alignment explanation
Indices: 66641799--66642735 Score: 1176
Period size: 413 Copynumber: 2.3 Consensus size: 400
66641789 ATACACGTGA
** * *
66641799 ACTATACATGATCTATACCTGATCTTTACATGCTACACACTTGTCTCATGAGATTTGAGGGGCAT
1 ACTATACATGATCTGCACGTGACCTTTACATGCTACACACTTGTC-CATGAGATTTGAGGGGCAT
* * * *
66641864 ATAAGCCTCCCATCATAATTGGGGGGAGACAAGTGAACTATACATGATTTATATGTGACTTTTAA
65 ATAAGCCTCCCATCATAATT-GGAGGAGACAAGTGAACTATACATGATCTACACGTGACTTTTAA
* *
66641929 ATCCCACTCACTTGTCCTATGAAATTTGATGACTATAAGCCTTCCATCATAACTTGAGGGAGACA
129 ATCCCACACACTTGTCCTATGAAATTTGATGACTATAAGCCTCCCATCATAACTTGAGGGAGACA
* * *
66641994 AATGAATTCTACATGACTTACACGTGACATTTACATGCTCCACACTTGTCTTACAAGACTTGATG
194 AATGAATTATACACGACTTACACGTGACATTTACATGCTCCACACTTGTCTGACAAGACTTGATG
*
66642059 GCTATATAAGCCTCCCATCATAACTTAAGGGAGAAAAGTGAACTATACACGATCTACACGTGACC
259 GCTATATAAGCCTCCCATCATAACTTAAGGGAGAAAAGTGAACTATACACAATCTACACGTGACC
* * * * *
66642124 TTTACATACTACACACTTGTATCATGAGATTTGAGGGGCATATAAGCCTCCCATCATAATTACGG
324 TTTACATACTACACACTTGTACCACGAGATTTGAAGAGCATATAAGCCTCCCATCATAATCACGG
*
66642189 GGAGACATGTGG
389 GGAGACAAGTGG
* * *
66642201 ACTATACACGATCTGCACGTGACCTTTACATACTACACACTTGTACCATGCGATTTGAGGGGCAT
1 ACTATACATGATCTGCACGTGACCTTTACATGCTACACACTTGT-CCATGAGATTTGAGGGGCAT
* *
66642266 ATAAGCCTCCCATCATAATTAGGAGGAGACAAGTGGACTATACACGATCTACACGTGACTTTTAA
65 ATAAGCCTCCCATCATAATT-GGAGGAGACAAGTGAACTATACATGATCTACACGTGACTTTTAA
* * * **
66642331 ATCCCACACACTTGTCTTATGAGATTTGATGGCTATAAGCCTCCCATCATAGTTTGAGGGAGACA
129 ATCCCACACACTTGTCCTATGAAATTTGATGACTATAAGCCTCCCATCATAACTTGAGGGAGACA
* * * *
66642396 AATGGGAGACAAATGAACTATACACGACTTACATGTGGCTTTTACATGCTCCACACTTGTCTGAT
194 AAT----G---AAT----TATACACGACTTACACGTGACATTTACATGCTCCACACTTGTCTGAC
* * *
66642461 AAGACTTGATGGCTATATCAGCCTCCCATCATAACTTGAGGGAGACAAGTGAACTATACACAATC
248 AAGACTTGATGGCTATATAAGCCTCCCATCATAACTTAAGGGAGAAAAGTGAACTATACACAATC
* * * * * * **
66642526 TACATGTGACCTTTACATGCTCCACACTTGTCCCACGGGATTTGAAGAGCATATAAGGCTCTTAT
313 TACACGTGACCTTTACATACTACACACTTGTACCACGAGATTTGAAGAGCATATAAGCCTCCCAT
*
66642591 TATAATCA-GAGGGAGACAAGTGG
378 CATAATCACG-GGGAGACAAGTGG
* * * * * * *
66642614 ACAATACATGATCTGCATGTGACTTTTACACGCCACACACTTGTCCTACGAGATTTGA-TGGCTA
1 ACTATACATGATCTGCACGTGACCTTTACATGCTACACACTTGTCC-ATGAGATTTGAGGGGC-A
* * * *
66642678 TATAAACCTCACATCATAATTTGAGGGAGACAAGTGAACTATACATAATCTACACGTG
64 TATAAGCCTCCCATCATAATTGGA-GGAGACAAGTGAACTATACATGATCTACACGTG
66642736 GCCTTTTCAT
Statistics
Matches: 456, Mismatches: 63, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
402 175 0.38
403 1 0.00
406 1 0.00
409 3 0.01
412 8 0.02
413 268 0.59
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (400 bp):
ACTATACATGATCTGCACGTGACCTTTACATGCTACACACTTGTCCATGAGATTTGAGGGGCATA
TAAGCCTCCCATCATAATTGGAGGAGACAAGTGAACTATACATGATCTACACGTGACTTTTAAAT
CCCACACACTTGTCCTATGAAATTTGATGACTATAAGCCTCCCATCATAACTTGAGGGAGACAAA
TGAATTATACACGACTTACACGTGACATTTACATGCTCCACACTTGTCTGACAAGACTTGATGGC
TATATAAGCCTCCCATCATAACTTAAGGGAGAAAAGTGAACTATACACAATCTACACGTGACCTT
TACATACTACACACTTGTACCACGAGATTTGAAGAGCATATAAGCCTCCCATCATAATCACGGGG
AGACAAGTGG
Found at i:66642756 original size:101 final size:102
Alignment explanation
Indices: 66642399--66642778 Score: 378
Period size: 101 Copynumber: 3.8 Consensus size: 102
66642389 GGAGACAAAT
* * ** *
66642399 GGGAGACAAATGAACTATACACGA-CTTACATGTGG-CTTTTACATGCTCCACACTTGTCTGATA
1 GGGAGACAAGTGAACTATACACAATC-TACATGTGGCCTTTTACATGCTCCACACTTGTCCCACA
* * * *
66642462 AGACTTGATGGCTATATCAGCCTCCCATCATAACTTGA
65 AGATTTGATGGCTATATAAGCCTCACATCATAATTTGA
* **
66642500 GGGAGACAAGTGAACTATACACAATCTACATGTGACC-TTTACATGCTCCACACTTGTCCCACGG
1 GGGAGACAAGTGAACTATACACAATCTACATGTGGCCTTTTACATGCTCCACACTTGTCCCACAA
* * ** * **
66642564 GATTTGAAGAGC-ATATAAGGCTCTTATTATAATCAGA
66 GATTTGATG-GCTATATAAGCCTCACATCATAATTTGA
* * ** * * * * *
66642601 GGGAGACAAGTGGACAATACATGATCTGCATGT-GACTTTTACACGC-CACACACTTGTCCTACG
1 GGGAGACAAGTGAACTATACACAATCTACATGTGGCCTTTTACATGCTC-CACACTTGTCCCACA
*
66642664 AGATTTGATGGCTATATAAACCTCACATCATAATTTGA
65 AGATTTGATGGCTATATAAGCCTCACATCATAATTTGA
* * * *
66642702 GGGAGACAAGTGAACTATACATAATCTACACGTGGCCTTTT-CATGCTCCGCACTTATCCCACAA
1 GGGAGACAAGTGAACTATACACAATCTACATGTGGCCTTTTACATGCTCCACACTTGTCCCACAA
*
66642766 AATTTGATGGCTA
66 GATTTGATGGCTA
66642779 AAATTAAAAC
Statistics
Matches: 223, Mismatches: 48, Indels: 16
0.78 0.17 0.06
Matches are distributed among these distances:
100 4 0.02
101 208 0.93
102 11 0.05
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (102 bp):
GGGAGACAAGTGAACTATACACAATCTACATGTGGCCTTTTACATGCTCCACACTTGTCCCACAA
GATTTGATGGCTATATAAGCCTCACATCATAATTTGA
Found at i:66647748 original size:25 final size:25
Alignment explanation
Indices: 66647719--66647766 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
66647709 AAGGTTGCGG
66647719 AAAAGTAATTAAAGTGAAAGTGAGA
1 AAAAGTAATTAAAGTGAAAGTGAGA
*
66647744 AAAAGTAATTAAAGTGGAAGTGA
1 AAAAGTAATTAAAGTGAAAGTGA
66647767 TTCACATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (25 bp):
AAAAGTAATTAAAGTGAAAGTGAGA
Found at i:66660013 original size:16 final size:16
Alignment explanation
Indices: 66659994--66660037 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
66659984 TTTTATCGAG
* *
66659994 TCATTTTAGGTTTGAA
1 TCATTTTGGGTTTCAA
*
66660010 TCATTTCGGGTTTCAA
1 TCATTTTGGGTTTCAA
66660026 TCATTTTGGGTT
1 TCATTTTGGGTT
66660038 ATTTGTTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.18, C:0.11, G:0.20, T:0.50
Consensus pattern (16 bp):
TCATTTTGGGTTTCAA
Found at i:66662267 original size:21 final size:24
Alignment explanation
Indices: 66662242--66662288 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
66662232 AAAATAAAAG
*
66662242 TATTTT-T-AAAATAA-TATTTTT
1 TATTTTATAAAAATAATTAATTTT
66662263 TATTTTATAAAAATAATTAATTTT
1 TATTTTATAAAAATAATTAATTTT
66662287 TA
1 TA
66662289 GTAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 1 0.05
23 7 0.32
24 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTTTATAAAAATAATTAATTTT
Found at i:66663272 original size:15 final size:16
Alignment explanation
Indices: 66663254--66663292 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
66663244 CAAAACAAAA
*
66663254 AAAAT-ATCTAAATTT
1 AAAATGATCTAAATTC
66663269 AAAATGATCTAAATTC
1 AAAATGATCTAAATTC
66663285 AAAATGAT
1 AAAATGAT
66663293 TCGAATAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (16 bp):
AAAATGATCTAAATTC
Found at i:66665249 original size:20 final size:19
Alignment explanation
Indices: 66665221--66665268 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
66665211 CAAGATTTAT
66665221 ATTTTAAAAAAATATAAAA
1 ATTTTAAAAAAATATAAAA
* *
66665240 ATTCTTAAAAAAATTTTAAA
1 ATT-TTAAAAAAATATAAAA
66665260 ATTTTAAAA
1 ATTTTAAAA
66665269 TTTTTCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTTTAAAAAAATATAAAA
Found at i:66671225 original size:27 final size:26
Alignment explanation
Indices: 66671174--66671226 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
66671164 ACTCTCTCTT
*
66671174 TTTCTCTTTATTTTCCATTATCTTCTG
1 TTTCTCTTTATTTTCCA-TACCTTCTG
66671201 TTTCTCTTTCTATTTTCC-TACCTTCT
1 TTTCTC-TT-TATTTTCCATACCTTCT
66671227 CCATATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 13 0.57
28 2 0.09
29 8 0.35
ACGTcount: A:0.09, C:0.26, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTCTCTTTATTTTCCATACCTTCTG
Found at i:66677638 original size:31 final size:30
Alignment explanation
Indices: 66677580--66677638 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
66677570 TTAATTTATT
* *
66677580 ATTTGGTATCTGATTTGAATTCGATGTTCA
1 ATTTGGTACCTGATTTGAATTCAATGTTCA
**
66677610 ATTTGGTACCTAGATTTGGTTTCAATGTT
1 ATTTGGTACCT-GATTTGAATTCAATGTT
66677639 GGTACCGAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 10 0.42
31 14 0.58
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.47
Consensus pattern (30 bp):
ATTTGGTACCTGATTTGAATTCAATGTTCA
Found at i:66677655 original size:21 final size:21
Alignment explanation
Indices: 66677606--66677673 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
66677596 GAATTCGATG
* *
66677606 TTCAATTTGGTACCTAGATTTGGT
1 TTCAATTTGGTA-CTCGAGTT--T
66677630 TTCAATGTTGGTAC-CGAGTTT
1 TTCAAT-TTGGTACTCGAGTTT
*
66677651 TTCAATTTGGTACTTGAGTTT
1 TTCAATTTGGTACTCGAGTTT
66677672 TT
1 TT
66677674 TTTTTTCCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 7 0.18
21 15 0.38
23 4 0.10
24 7 0.18
25 6 0.15
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.49
Consensus pattern (21 bp):
TTCAATTTGGTACTCGAGTTT
Found at i:66680758 original size:2 final size:2
Alignment explanation
Indices: 66680751--66680791 Score: 55
Period size: 2 Copynumber: 19.5 Consensus size: 2
66680741 GTATACTTTT
*
66680751 TA TA TA TA TCA CA TGA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
66680792 CACAATTCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 32 0.91
3 3 0.09
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:66689053 original size:19 final size:22
Alignment explanation
Indices: 66689013--66689060 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
66689003 AAACAATGGA
66689013 AAAATAGTAGGAAAACAACAAC
1 AAAATAGTAGGAAAACAACAAC
*
66689035 AAAATAGT-GGAAAAACAACAAT
1 AAAATAGTAGG-AAAACAACAAC
66689057 AAAA
1 AAAA
66689061 CAACAGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.67, C:0.10, G:0.12, T:0.10
Consensus pattern (22 bp):
AAAATAGTAGGAAAACAACAAC
Found at i:66689539 original size:19 final size:19
Alignment explanation
Indices: 66689502--66689539 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
66689492 TTTTTTATTT
*
66689502 TTTTATATATAAAGTTAAA
1 TTTTATATATAAAGATAAA
66689521 TTTTATATATTAAA-ATAAA
1 TTTTATATA-TAAAGATAAA
66689540 ATAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTTATATATAAAGATAAA
Found at i:66691927 original size:194 final size:194
Alignment explanation
Indices: 66691601--66692154 Score: 838
Period size: 194 Copynumber: 2.8 Consensus size: 194
66691591 TATAATTCTG
* * * * *
66691601 GTCACTAACATCATCAATTATTAGTTTTTTAGAATGATCAATAGAGGCATGAAGTTTTTTGCTTG
1 GTCAATAACAACATCAATTATTAG-TGTTTA-AATGATCAATAGAGGAATGAAGTTTTTTGCTCG
* * *
66691666 GTTTGTGCTTTGTTGTACCTTCTCAGGGCTGCTATAAGTAGTTTTGTTCTTGTGTGTTTATGTTG
64 GTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTTTATGTTG
* * *
66691731 AAGTTATTTGTTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGGTAGTTCT
129 AAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGGTAATTCC
*
66691796 G
194 A
* * *
66691797 GTCCATAGCAACATCAATTATTAGTGATTAAATGATCAATAGAGGAATGAAGTTTTTTGCTCGGT
1 GTCAATAACAACATCAATTATTAGTGTTTAAATGATCAATAGAGGAATGAAGTTTTTTGCTCGGT
* *
66691862 TTGTGCTTTGTTTTACCTTGTCAGGGCTGCCATAAGGAGTTCTGTTCTTGTGTGTTTATGTTGAA
66 TTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTTTATGTTGAA
* *
66691927 GTTATATGCTGTAATTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGGTAATTCCA
131 GTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGGTAATTCCA
* *
66691991 GTCAATAACAACATCAATTATGAGAGTTTAGAATATGATCAATAGAGGAATGAAGTTTTTTGCTC
1 GTCAATAACAACATCAATTATTAGTGTTT--AA-ATGATCAATAGAGGAATGAAGTTTTTTGCTC
* *
66692056 GGTTTGTGCTTCGTTTCACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTTTATGTT
63 GGTTTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTTTATGTT
* *
66692121 GAAGTTATTTGCTGTAACTATACAGTTCGTTTAT
128 GAAGTTATTTGCTGTAACTATATAGTTCATTTAT
66692155 GGCAATTCTG
Statistics
Matches: 323, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
194 175 0.54
195 4 0.01
196 22 0.07
197 122 0.38
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.43
Consensus pattern (194 bp):
GTCAATAACAACATCAATTATTAGTGTTTAAATGATCAATAGAGGAATGAAGTTTTTTGCTCGGT
TTGTGCTTTGTTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTTTATGTTGAA
GTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGGTAATTCCA
Found at i:66692646 original size:5 final size:6
Alignment explanation
Indices: 66692631--66692655 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
66692621 TCGAATTGTG
66692631 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
66692656 CATTCTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:66694232 original size:33 final size:35
Alignment explanation
Indices: 66694136--66694232 Score: 80
Period size: 33 Copynumber: 2.8 Consensus size: 35
66694126 TTAATATTTT
*
66694136 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* * *
66694171 AATAAATATTAATTAT-TTATAAA-CTTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
66694204 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
66694233 ATATAACCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 11 0.22
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:66706818 original size:30 final size:31
Alignment explanation
Indices: 66706754--66706825 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
66706744 TTAATATAAA
*
66706754 AATTTA-TACTTAAGTTTGATTTTAATGTTC
1 AATTTAGTACTTAAGTTTGATTTTAATGTCC
**
66706784 AATTTAGTACTTAAG-TTG-TTTTTTTGTCC
1 AATTTAGTACTTAAGTTTGATTTTAATGTCC
*
66706813 TAATTTGGTACTT
1 -AATTTAGTACTT
66706826 GATTTTGACT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.22
30 20 0.56
31 8 0.22
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.54
Consensus pattern (31 bp):
AATTTAGTACTTAAGTTTGATTTTAATGTCC
Found at i:66711375 original size:16 final size:16
Alignment explanation
Indices: 66711339--66711369 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66711329 AAACTCTGAT
66711339 AATTTGAATCCAAAAC
1 AATTTGAATCCAAAAC
*
66711355 AATTTGAATCTAAAA
1 AATTTGAATCCAAAA
66711370 TGATTTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (16 bp):
AATTTGAATCCAAAAC
Found at i:66711417 original size:16 final size:16
Alignment explanation
Indices: 66711396--66711431 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
66711386 TCAAAATTCA
66711396 AAATTAACCTCAATCT
1 AAATTAACCTCAATCT
* *
66711412 AAATTAACTTTAATCT
1 AAATTAACCTCAATCT
66711428 AAAT
1 AAAT
66711432 AAATCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATTAACCTCAATCT
Found at i:66713372 original size:169 final size:169
Alignment explanation
Indices: 66713043--66713384 Score: 551
Period size: 169 Copynumber: 2.0 Consensus size: 169
66713033 ATAGTCACTT
* * *
66713043 AATTATTAATAATTATTTTATTTAGACTTATTTATGAAAAATTATAAAAAAATTATCTAACTATT
1 AATTATTAATAATTATTTTATTCAAACTTATTTATGAAAAATTATAAAAAAATCATCTAACTATT
* * *
66713108 AATAAATTTCTTTTTTATATCACCAAGTTATGAAAAATTACAAGATGTTCACCTAATATTCAATT
66 AATAAATTTCTTTTTTATATCACCAAATTATGAAAAATTACAAAATGGTCACCTAATATTCAATT
*
66713173 CTAACTTTTTTTATCAACAACTTGCTAACGTGCTTTTTAA
131 CTAACTTTTTTTATCAACAACTTACTAACGTGC-TTTTAA
* **
66713213 AATTATTAGTAATTATTTTATTCAAACTTATTTATGAAAAATTATAAAATGATCATCTAACTATT
1 AATTATTAATAATTATTTTATTCAAACTTATTTATGAAAAATTATAAAAAAATCATCTAACTATT
* *
66713278 AGTAAATTTC-TTTTTATATCACCAAATTATGAAAAGTTACAAAATGGTCACCTAATATTCAATT
66 AATAAATTTCTTTTTTATATCACCAAATTATGAAAAATTACAAAATGGTCACCTAATATTCAATT
*
66713342 CTATCTTTTTTTATCAACAACTTACTAACGTGCTTTTAA
131 CTAACTTTTTTTATCAACAACTTACTAACGTGCTTTTAA
66713381 AATT
1 AATT
66713385 GGCATTATAG
Statistics
Matches: 159, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
168 10 0.06
169 81 0.51
170 68 0.43
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (169 bp):
AATTATTAATAATTATTTTATTCAAACTTATTTATGAAAAATTATAAAAAAATCATCTAACTATT
AATAAATTTCTTTTTTATATCACCAAATTATGAAAAATTACAAAATGGTCACCTAATATTCAATT
CTAACTTTTTTTATCAACAACTTACTAACGTGCTTTTAA
Found at i:66724955 original size:66 final size:66
Alignment explanation
Indices: 66724849--66725034 Score: 284
Period size: 65 Copynumber: 2.8 Consensus size: 66
66724839 CTGGAATGTA
* *
66724849 ATGTATTAATTTTGATCTAATGTATAAGAATTAATTTGTCAGTTTTTTAATAGATAACTCATGGT
1 ATGTATTAATTTTGATCTAACGTATAAGAATTAATTTGTCAGTTTTTTAATAGATAACTCACGGT
66724914 G
66 G
* *
66724915 ATGTATTAATTTTGATCTAACGTATAAGAATTAATTTGTCAG-TTTTTAACAGGTAACTCACGGT
1 ATGTATTAATTTTGATCTAACGTATAAGAATTAATTTGTCAGTTTTTTAATAGATAACTCACGGT
66724979 G
66 G
* * * *
66724980 ATGTATTATTTTTTATCTAACTTATAAGAATTAATTTGTCAATTTTTTAGATAGA
1 ATGTATTAATTTTGATCTAACGTATAAGAATTAATTTGTCAGTTTTTTA-ATAGA
66725035 GAAAATAAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
65 58 0.54
66 47 0.44
67 3 0.03
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (66 bp):
ATGTATTAATTTTGATCTAACGTATAAGAATTAATTTGTCAGTTTTTTAATAGATAACTCACGGT
G
Found at i:66727909 original size:350 final size:351
Alignment explanation
Indices: 66727249--66727951 Score: 1051
Period size: 350 Copynumber: 2.0 Consensus size: 351
66727239 TTTGCCTAAG
* * *
66727249 CTTTAGCCACTACTAAAGACGGATTACTAAGCTTTAGCCCTTACCTCGAAGTAATTTAAGGTTAT
1 CTTTAGCCACTACCAAAGACGGATCACTAAGCTTTAGCCCTTACCTCGAAGTAATTTAAGGCTAT
* *
66727314 ACTCTATAGTTTTTGGATGATGACAAGCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATT
66 ACTATATAGTTCTTGGATGATGACAAGCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATT
* * * *
66727379 TCTATATCTAATGTTTGCTGGTTGATCATGAGACTTCGATTGGGACTTAAGGGGTTAGTTTTGCT
131 TCTATATATAATGTTTGCTGGTTGATCATGAGACTTCGATTAGGACTTAAGGAGTTAGCTTTGCT
* * *
66727444 TATATAGAAACTCGGGGAAATTTTGATGGTTGTTTCTGCTGAAATCATACCTATTTCAGCCATTT
196 TATAAAGAAACTCGGGGAAATTTTGATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCATTT
* * *
66727509 TATTTATTGATTTCCTAGCTTGTGATTTTTTTGCTCCGTTGTAGATTTTCCTATGCAGAATTCTG
261 TATTTATTGATTTCCTAGCTTGTGATTATTTTGCTCCGTTGTAGATTTTCCTACGCAGAATTATG
* * *
66727574 CTAGGTGGTTGAGTTTCCTCGTAGAA
326 CTAGGTGGTCGAGATTCATCGTAGAA
*
66727600 CTTTAGCCACTACCAATA-ATGGATCACTAAGCTTTAGCCCTTACCTCGAAGTAATTTAAGGCTA
1 CTTTAGCCACTACCAA-AGACGGATCACTAAGCTTTAGCCCTTACCTCGAAGTAATTTAAGGCTA
* * *
66727664 TACTATATAG-TCTTGGATGATGACAATCTATGGAAGTAATTGTGAGTAAATTCTCATGATGTAT
65 TACTATATAGTTCTTGGATGATGACAAGCTATGGAAGTAATTGCGAGTAAATTCTCATGATATAT
66727728 TTCTATATATAATGTTTGCTGGTTGATCATGAGACTTCGA-TAGGACTT-AGGAGTTAGACTTT-
130 TTCTATATATAATGTTTGCTGGTTGATCATGAGACTTCGATTAGGACTTAAGGAGTTAG-CTTTG
66727790 CTTATAAAGAAACTCTGGGGAAA-TTTGATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCA
194 CTTATAAAGAAACTC-GGGGAAATTTTGATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCA
* * * *
66727854 TTTTATTTGTTGATTTCGTAGCTTGTGA-TATTTTGCTCTGTTGTCGATTATTTTCCTACGCAGA
258 TTTTATTTATTGATTTCCTAGCTTGTGATTATTTTGCTCCGTTGT--A-GATTTTCCTACGCAGA
* *
66727918 ATTATGTTAGGTGGTCGAGATTCATTGTAGAA
320 ATTATGCTAGGTGGTCGAGATTCATCGTAGAA
66727950 CT
1 CT
66727952 ATAGGGTTGA
Statistics
Matches: 318, Mismatches: 28, Indels: 13
0.89 0.08 0.04
Matches are distributed among these distances:
347 14 0.04
348 87 0.27
349 18 0.06
350 131 0.41
351 67 0.21
352 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (351 bp):
CTTTAGCCACTACCAAAGACGGATCACTAAGCTTTAGCCCTTACCTCGAAGTAATTTAAGGCTAT
ACTATATAGTTCTTGGATGATGACAAGCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATT
TCTATATATAATGTTTGCTGGTTGATCATGAGACTTCGATTAGGACTTAAGGAGTTAGCTTTGCT
TATAAAGAAACTCGGGGAAATTTTGATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCATTT
TATTTATTGATTTCCTAGCTTGTGATTATTTTGCTCCGTTGTAGATTTTCCTACGCAGAATTATG
CTAGGTGGTCGAGATTCATCGTAGAA
Found at i:66741517 original size:75 final size:75
Alignment explanation
Indices: 66741385--66741686 Score: 453
Period size: 75 Copynumber: 4.0 Consensus size: 75
66741375 AGCATTCATG
* * * * ** * * * *
66741385 TTTTGGGGTGGTTGCCGTCGTTGATATGGGAACTGGGGTGCTGACCTAACTGTCTCTCTCGTATT
1 TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
66741450 CTGGCCCATA
66 CTGGCCCATA
*
66741460 TTTTGTGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
1 TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
66741525 CTGGCCCATA
66 CTGGCCCATA
*
66741535 TTTTGAGGTGGTTGCCGTGGTGGAT-TATGGAACCAGGGTTCTGACCTGACTGACTCGCTTGTAT
1 TTTTGAGGTGGTTGCCGTGGTGGATAT-TGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTAT
*
66741599 CCTGGCCCATA
65 TCTGGCCCATA
* *
66741610 TTTTGAGGTGGTTGCCGTGGTGGATTTTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTACT
1 TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
66741675 CTGGCCCATA
66 CTGGCCCATA
66741685 TT
1 TT
66741687 AGGTTGTTCC
Statistics
Matches: 209, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
74 1 0.00
75 207 0.99
76 1 0.00
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.35
Consensus pattern (75 bp):
TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
CTGGCCCATA
Found at i:66748100 original size:44 final size:44
Alignment explanation
Indices: 66747952--66748602 Score: 278
Period size: 44 Copynumber: 15.0 Consensus size: 44
66747942 TAGGTTTATT
* **
66747952 ATACAGG-TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA
1 ATACAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-A
* ** * *
66747997 ATTTCA-GATCTTATCTCCCTGAGATTACAACGGAGTAGATT-GA
1 A-TACAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
* * * *
66748040 A-GCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
1 ATAC-AG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
* * ** * ***
66748085 ATAAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGC
1 ATACAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAA
* * * * **
66748128 AT-CAGG-TCTTATCACCCTGAGGTTACATTGGAGTAGACCGAAGA
1 ATACAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-A
* * *
66748172 ATTTCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GA
1 A-TACAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
** * *
66748215 AGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAA
1 ATACAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
* * * * *
66748260 GAT--AGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATT---
1 -ATACAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
* * * * *
66748301 A-A-AGGATCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCAC
1 ATACAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAA
* * * **
66748342 AT-CAGG-TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAA
1 ATACAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA--TTA-AA
* * * *
66748387 TTTCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GA
1 ATACAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
** * **
66748429 AGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCGA
1 ATACAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
* ** * *
66748473 AGACACTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA
1 ATACAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAA
* * * ** * ***
66748517 ATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGA-TCGC
1 ATACAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
* *
66748560 AT-CAGG-TCTTATCTCCCTGATATTACAGTGGAGTAGACTTAAA
1 ATACAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAAA
66748603 CCTAAAACCT
Statistics
Matches: 447, Mismatches: 118, Indels: 84
0.69 0.18 0.13
Matches are distributed among these distances:
38 2 0.00
39 23 0.05
40 3 0.01
41 77 0.17
42 16 0.04
43 40 0.09
44 182 0.41
45 12 0.03
46 92 0.21
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
ATACAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
Found at i:66748378 original size:214 final size:216
Alignment explanation
Indices: 66748002--66748597 Score: 930
Period size: 214 Copynumber: 2.7 Consensus size: 216
66747992 AAAGAATTTC
* * * *
66748002 AGATCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATT
66748067 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATT---ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
* *
66748132 GGTCTTATCACCCTGAGGTTACATTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGT
128 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGT
66748197 TACAGTGGAGCAGATTGAAGCCAG
193 TACAGTGGAGCAGATTGAAGCCAG
* *
66748221 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATT
* * * *
66748286 ACAATGGAGCGGA-T-TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGT
66 ACAGTGGAGCGGATTATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGT
* *
66748349 CTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTTCAGATCTTATCTCCCTGAGGTTAC
131 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
66748414 AGTGGAGCAGATTGAAGCCAG
196 AGTGGAGCAGATTGAAGCCAG
* *
66748435 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGA-T
*
66748498 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATC
65 TACAGTGGAGCGGATT---ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
**
66748563 AGGTCTTATCTCCCTGATATTACAGTGGAGTAGAC
127 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGAC
66748598 TTAAACCTAA
Statistics
Matches: 345, Mismatches: 26, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
212 1 0.00
213 28 0.08
214 171 0.50
218 74 0.21
219 71 0.21
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (216 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATT
ACAGTGGAGCGGATTATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGT
CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
AGTGGAGCAGATTGAAGCCAG
Found at i:66748488 original size:87 final size:86
Alignment explanation
Indices: 66747959--66748601 Score: 337
Period size: 87 Copynumber: 7.4 Consensus size: 86
66747949 ATTATACAGG
* * ** **
66747959 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-TTAAG-A-TAGAGATCTTATCTCCCTGAGATTA
* *
66748024 CAACGGAGTAGATTGAAG-CTA-GTAA
63 CAGCGGAGTAGATCGAAGAC-ACG--A
* * * * * *
66748049 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTAC
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAGATAGA-GATCTTATCTCCCTGAGA-TTAC
* * * *
66748113 AGCAGAGTAGATCGCA-TCA-GG
64 AGCGGAGTAGATCGAAGACACGA
* * * ** ** *
66748134 TCTTATCACCCTGAGGTTACATTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-TTAAG-A-TAGAGATCTTATCTCCCTGAGATTA
* * * * *
66748199 CAGTGGAGCAGATTGAAGCCAGAGA
63 CAGCGGAGTAGATCGAAGACA-CGA
* * * * *
66748224 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTA-ATCCTATCTCCTTGAGATTAC
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGAT-TAAGATAG-AGATCTTATCTCCCTGAGATTAC
** ** * *
66748288 AATGGAGCGGAT--TA-A-AGGA
64 AGCGGAGTAGATCGAAGACACGA
* * * * * * * *
66748307 TCTTATCTCTCTGAAGTTACAGTAGAGAAGA-TCACATCAG-G-TCTTATTTCCCTGAGGTTACA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAGAT-AGAGATCTTATCTCCCTGAGATTACA
* * *
66748369 GTGGAGTAGACCGGAGA-ATTTCAGA
65 GCGGAGTAGATCGAAGACA---C-GA
**
66748394 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-AAGATAGAGATCTTATCTCCCTGAGATTACA
* *
66748459 GCGGAGCAGATCGAAGACACTA
65 GCGGAGTAGATCGAAGACACGA
* * * * * * *
66748481 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAGATAGA-GATCTTATCTCCCTGAGATTACA
* * * *
66748546 GCAGAGTAGATCGCA-TCA-GG
65 GCGGAGTAGATCGAAGACACGA
** *
66748566 TCTTATCTCCCTGATATTACAGTGGAGTAGACTTAA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-TTAA
66748602 ACCTAAAACC
Statistics
Matches: 420, Mismatches: 105, Indels: 60
0.72 0.18 0.10
Matches are distributed among these distances:
80 24 0.06
81 3 0.01
82 3 0.01
83 29 0.07
84 1 0.00
85 51 0.12
86 13 0.03
87 129 0.31
88 70 0.17
89 6 0.01
90 90 0.21
91 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (86 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAGATAGAGATCTTATCTCCCTGAGATTACAG
CGGAGTAGATCGAAGACACGA
Found at i:66750039 original size:3 final size:3
Alignment explanation
Indices: 66750031--66750079 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
66750021 TTTAGCAATT
*
66750031 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
66750079 T
1 T
66750080 AATTGTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:66763986 original size:6 final size:6
Alignment explanation
Indices: 66763975--66763999 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
66763965 CTTGATTTCT
66763975 TATATG TATATG TATATG TATATG T
1 TATATG TATATG TATATG TATATG T
66764000 GCCTTCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:66770268 original size:67 final size:67
Alignment explanation
Indices: 66770156--66770291 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 67
66770146 TGTTCAAGTG
*
66770156 CTTTAGATGTTGATGACTGAAAGCTTTTAGGTGTCACTTACGTAATCATTAAGGTTCTCAAAACA
1 CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTTACGTAATCATTAAGGTTCTCAAAACA
66770221 TA
66 TA
*
66770223 CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTTATGTAATCATTAAGGTTCTCAAAACA
1 CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTTACGTAATCATTAAGGTTCTCAAAACA
66770288 TA
66 TA
66770290 CT
1 CT
66770292 ATAGGAGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (67 bp):
CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTTACGTAATCATTAAGGTTCTCAAAACA
TA
Found at i:66774241 original size:2 final size:2
Alignment explanation
Indices: 66774234--66774267 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
66774224 TCAGTGTTAA
66774234 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
66774268 TAAACATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:66778809 original size:31 final size:31
Alignment explanation
Indices: 66778774--66778834 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
66778764 ATGAAGGGTT
*
66778774 AATATACCAA-TTAGTACTTGAATTTTGTTTC
1 AATAT-CCAATTTAGTACTTAAATTTTGTTTC
* *
66778805 AATATTCAATTTGGTACTTAAATTTTGTTT
1 AATATCCAATTTAGTACTTAAATTTTGTTT
66778835 TGTCTCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (31 bp):
AATATCCAATTTAGTACTTAAATTTTGTTTC
Found at i:66787403 original size:15 final size:16
Alignment explanation
Indices: 66787378--66787411 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
66787368 AAAATGTAAT
66787378 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
66787394 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
66787409 TTT
1 TTT
66787412 TTAAATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:66793319 original size:45 final size:45
Alignment explanation
Indices: 66793263--66793352 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
66793253 GTTCAAATTG
66793263 AAATTGAGTTAACATATACTGTAAATGAAATCATCTGCTTGTAAC
1 AAATTGAGTTAACATATACTGTAAATGAAATCATCTGCTTGTAAC
66793308 AAATTGAGTTAACATATACTGTAAATGAAATCATCTGCTTGTAAC
1 AAATTGAGTTAACATATACTGTAAATGAAATCATCTGCTTGTAAC
66793353 TGAACTACAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (45 bp):
AAATTGAGTTAACATATACTGTAAATGAAATCATCTGCTTGTAAC
Found at i:66798355 original size:18 final size:18
Alignment explanation
Indices: 66798334--66798376 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
66798324 CGTCATTGCT
*
66798334 ATCATCGCCATCATTGTC
1 ATCATCGCCATCATTATC
* *
66798352 ATCATCACCGTCATTATC
1 ATCATCGCCATCATTATC
66798370 ATCATCG
1 ATCATCG
66798377 GACCAGGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.33, G:0.09, T:0.33
Consensus pattern (18 bp):
ATCATCGCCATCATTATC
Found at i:66805883 original size:7 final size:7
Alignment explanation
Indices: 66805862--66805904 Score: 70
Period size: 7 Copynumber: 6.1 Consensus size: 7
66805852 AAATAAATAA
66805862 AAATATT
1 AAATATT
66805869 AAATTATT
1 AAA-TATT
66805877 AAATATT
1 AAATATT
66805884 AAATATT
1 AAATATT
66805891 AAATATT
1 AAATATT
66805898 AAA-ATT
1 AAATATT
66805904 A
1 A
66805905 TTTTGTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 4 0.11
7 24 0.69
8 7 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATATT
Found at i:66805887 original size:22 final size:20
Alignment explanation
Indices: 66805862--66805904 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 20
66805852 AAATAAATAA
66805862 AAATATTAAATTATTAAATATT
1 AAATATTAAA-TATTAAA-ATT
66805884 AAATATTAAATATTAAAATT
1 AAATATTAAATATTAAAATT
66805904 A
1 A
66805905 TTTTGTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.19
21 7 0.33
22 10 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATATTAAATATTAAAATT
Found at i:66807754 original size:20 final size:21
Alignment explanation
Indices: 66807729--66807769 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
66807719 GACGAAGCGG
*
66807729 TTTATAA-TTATTTAGTAATT
1 TTTATAATTTATTTACTAATT
66807749 TTTATAATTTATTTACTAATT
1 TTTATAATTTATTTACTAATT
66807770 ATTGAGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTATAATTTATTTACTAATT
Found at i:66811597 original size:2 final size:2
Alignment explanation
Indices: 66811585--66811618 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
66811575 CACAACTGGG
*
66811585 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
66811619 CTGTTTGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:66817686 original size:14 final size:13
Alignment explanation
Indices: 66817654--66817683 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
66817644 ACACTCAAAA
66817654 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
66817667 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
66817680 TTTT
1 TTTT
66817684 TCACGGCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:66819416 original size:20 final size:20
Alignment explanation
Indices: 66819391--66819440 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66819381 TGGCTTAAAA
66819391 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66819411 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66819428 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66819441 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66824055 original size:20 final size:20
Alignment explanation
Indices: 66824030--66824079 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66824020 TGGCTTAAAA
66824030 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66824050 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66824067 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66824080 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66825903 original size:17 final size:18
Alignment explanation
Indices: 66825864--66825905 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 18
66825854 GTTGTTGAGG
66825864 GTTTTGAG-TGTTTCTAA
1 GTTTTGAGTTGTTTCTAA
66825881 --TTTGAGTTGTTT-TAA
1 GTTTTGAGTTGTTTCTAA
66825896 GTTTTGAGTT
1 GTTTTGAGTT
66825906 TAATCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.41
16 5 0.23
17 8 0.36
ACGTcount: A:0.17, C:0.02, G:0.24, T:0.57
Consensus pattern (18 bp):
GTTTTGAGTTGTTTCTAA
Found at i:66828096 original size:21 final size:20
Alignment explanation
Indices: 66828072--66828114 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
66828062 TATATACGAG
66828072 TTTTGTTCAAATTATTTTTGA
1 TTTTG-TCAAATTATTTTTGA
*
66828093 TTTTGTCCAATTATTTTTGA
1 TTTTGTCAAATTATTTTTGA
66828113 TT
1 TT
66828115 CTTTATGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.21, C:0.07, G:0.09, T:0.63
Consensus pattern (20 bp):
TTTTGTCAAATTATTTTTGA
Found at i:66848069 original size:26 final size:26
Alignment explanation
Indices: 66848040--66848092 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
66848030 TATACAAAAT
66848040 ATTAAAGAAGAAGAGCACACCAGATA
1 ATTAAAGAAGAAGAGCACACCAGATA
66848066 ATTAAAGAAGAAGAGCACACCAGATA
1 ATTAAAGAAGAAGAGCACACCAGATA
66848092 A
1 A
66848093 CATATAGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.15, G:0.19, T:0.11
Consensus pattern (26 bp):
ATTAAAGAAGAAGAGCACACCAGATA
Found at i:66849258 original size:4 final size:4
Alignment explanation
Indices: 66849249--66849303 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
66849239 AACTTTGGTA
66849249 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
66849297 TATG TAT
1 TATG TAT
66849304 AATTCGTTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:66850462 original size:46 final size:46
Alignment explanation
Indices: 66850395--66850485 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
66850385 CTAAAAAAAG
*
66850395 TTATAACTTGATTATTGAATTACTAAAAGTTTTGATTGCACCGATT
1 TTATAACTTGATTATTGAATTACCAAAAGTTTTGATTGCACCGATT
66850441 TTATAACTTGATTATTGAATTACCAAAAGTTTTGATTGCACCGAT
1 TTATAACTTGATTATTGAATTACCAAAAGTTTTGATTGCACCGAT
66850486 CAAAAATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (46 bp):
TTATAACTTGATTATTGAATTACCAAAAGTTTTGATTGCACCGATT
Found at i:66856175 original size:35 final size:35
Alignment explanation
Indices: 66856129--66856198 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
66856119 CAATTAAACT
66856129 TTCTACTAGAGATAACCTAGCTTAGATGCCATGAA
1 TTCTACTAGAGATAACCTAGCTTAGATGCCATGAA
*
66856164 TTCTACTAGAGATAACCTATCTTAGATGCCATGAA
1 TTCTACTAGAGATAACCTAGCTTAGATGCCATGAA
66856199 AGTTTTCAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (35 bp):
TTCTACTAGAGATAACCTAGCTTAGATGCCATGAA
Found at i:66856351 original size:41 final size:41
Alignment explanation
Indices: 66856290--66856379 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
66856280 ACCTAATTGT
* * *
66856290 AAAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAAG
1 AAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAA
*
66856331 AAAAATAATTCCCTTCTTCTAATAAACTACTAAAACATAAA
1 AAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAA
66856372 ATAAAATA
1 A-AAAATA
66856380 TTTCTAGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 38 0.86
42 6 0.14
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.30
Consensus pattern (41 bp):
AAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAA
Found at i:66874403 original size:17 final size:17
Alignment explanation
Indices: 66874381--66874414 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
66874371 ATCCACTAAT
*
66874381 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
66874398 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
66874415 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:66879042 original size:17 final size:17
Alignment explanation
Indices: 66879020--66879053 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
66879010 ATCCACTAAT
*
66879020 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
66879037 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
66879054 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:66881497 original size:15 final size:15
Alignment explanation
Indices: 66881477--66881509 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
66881467 GCCAAACCCA
66881477 AAAAGGATAAGGAGG
1 AAAAGGATAAGGAGG
66881492 AAAAGGATAAGGAGG
1 AAAAGGATAAGGAGG
66881507 AAA
1 AAA
66881510 TTCTTGAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.36, T:0.06
Consensus pattern (15 bp):
AAAAGGATAAGGAGG
Found at i:66885764 original size:34 final size:34
Alignment explanation
Indices: 66885721--66885788 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
66885711 AGGAAGGAGA
*
66885721 AAACTTTTTTAAAGAATGAAACTTTTCTTCCCTT
1 AAACTTTTTTAAAGAATGAAACTTTCCTTCCCTT
* *
66885755 AAACTTTTTTAAGGGATGAAACTTTCCTTCCCTT
1 AAACTTTTTTAAAGAATGAAACTTTCCTTCCCTT
66885789 CCCTTTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (34 bp):
AAACTTTTTTAAAGAATGAAACTTTCCTTCCCTT
Found at i:66888019 original size:24 final size:24
Alignment explanation
Indices: 66887988--66888038 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
66887978 AATACACGTG
66887988 ATAATAAGTTTGTCGCATATGAAA
1 ATAATAAGTTTGTCGCATATGAAA
66888012 ATAATAAGTTTGTCGCATATGAAA
1 ATAATAAGTTTGTCGCATATGAAA
66888036 ATA
1 ATA
66888039 TCATAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (24 bp):
ATAATAAGTTTGTCGCATATGAAA
Found at i:66890275 original size:26 final size:26
Alignment explanation
Indices: 66890227--66890315 Score: 78
Period size: 27 Copynumber: 3.5 Consensus size: 26
66890217 AAACTATTAT
* *
66890227 GAGCGTCCCGA-TAAGGGCT-TTTCG
1 GAGCTTCCCGATTAAAGGCTCTTTCG
*
66890251 GAGCTTCCCGATTAAAGGCTCTTTCAT
1 GAGCTTCCCGATTAAAGGCTCTTTC-G
*
66890278 GAGCTTCCCAATTAATTA-GCTC-TTCG
1 GAGCTTCCCGATTAA--AGGCTCTTTCG
*
66890304 AAGCTTCCCGAT
1 GAGCTTCCCGAT
66890316 ATTGGCTCGC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
24 10 0.19
25 7 0.13
26 14 0.26
27 17 0.32
28 4 0.08
29 1 0.02
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (26 bp):
GAGCTTCCCGATTAAAGGCTCTTTCG
Found at i:66890438 original size:25 final size:25
Alignment explanation
Indices: 66890378--66890439 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
66890368 GGTTCTTCGA
*
66890378 AGCTTTCCGTTACATGGCTCACATG
1 AGCTTTCCGTTACATGGCTCACAAG
* *
66890403 AAC-TTCTCGTTATATGGCTCGA-AAG
1 AGCTTTC-CGTTACATGGCTC-ACAAG
66890428 AGCTTTCCGTTA
1 AGCTTTCCGTTA
66890440 AGTGCTCGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 3 0.10
25 23 0.77
26 4 0.13
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (25 bp):
AGCTTTCCGTTACATGGCTCACAAG
Found at i:66893650 original size:19 final size:19
Alignment explanation
Indices: 66893628--66893667 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
66893618 ATGCGCATTT
66893628 TGGCACACAAAGTGCATCC
1 TGGCACACAAAGTGCATCC
* *
66893647 TGGCACACGAGGTGCATCC
1 TGGCACACAAAGTGCATCC
66893666 TG
1 TG
66893668 ACGCATAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (19 bp):
TGGCACACAAAGTGCATCC
Found at i:66894777 original size:18 final size:15
Alignment explanation
Indices: 66894739--66894769 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66894729 GTTTAATTAT
66894739 AATTAAATCTTAATC
1 AATTAAATCTTAATC
66894754 AATTAAATCTTAATC
1 AATTAAATCTTAATC
66894769 A
1 A
66894770 TCAATTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTAAATCTTAATC
Found at i:66908409 original size:20 final size:20
Alignment explanation
Indices: 66908384--66908433 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66908374 TGGCTTAAAA
66908384 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66908404 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66908421 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66908434 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66913048 original size:20 final size:20
Alignment explanation
Indices: 66913023--66913072 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66913013 TGGCTTAAAA
66913023 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66913043 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66913060 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66913073 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66916523 original size:15 final size:16
Alignment explanation
Indices: 66916503--66916532 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66916493 TAACAAGAAG
66916503 TATATA-ATTTTTTTA
1 TATATACATTTTTTTA
66916518 TATATACATTTTTTT
1 TATATACATTTTTTT
66916533 TGTTGATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATACATTTTTTTA
Found at i:66917784 original size:17 final size:17
Alignment explanation
Indices: 66917762--66917795 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
66917752 ATCCACTAAT
*
66917762 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
66917779 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
66917796 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:66922423 original size:17 final size:17
Alignment explanation
Indices: 66922401--66922434 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
66922391 ATCCACTAAT
*
66922401 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
66922418 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
66922435 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:66925200 original size:5 final size:5
Alignment explanation
Indices: 66925190--66925225 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
66925180 AAAATTCAAA
66925190 TTATT TTATT TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT T
66925226 CTGACACTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:66934944 original size:39 final size:37
Alignment explanation
Indices: 66934877--66934969 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
66934867 ACCAGAATGG
* *
66934877 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
66934916 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
66934953 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
66934970 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:66935333 original size:3 final size:3
Alignment explanation
Indices: 66935325--66935372 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
66935315 ATTCCCACTC
* * * *
66935325 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
66935373 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:66935373 original size:18 final size:18
Alignment explanation
Indices: 66935326--66935374 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
66935316 TTCCCACTCA
*
66935326 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
66935344 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
66935362 TAATATTAATACT
1 TAATAATAATACT
66935375 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:66935374 original size:12 final size:12
Alignment explanation
Indices: 66935325--66935372 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
66935315 ATTCCCACTC
*
66935325 ATAATAATAATA
1 ATAATACTAATA
66935337 ATAATACTAATA
1 ATAATACTAATA
66935349 ATAATACTAATA
1 ATAATACTAATA
* *
66935361 CTAATATTAATA
1 ATAATACTAATA
66935373 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:66936040 original size:11 final size:11
Alignment explanation
Indices: 66936024--66936049 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
66936014 CTTTTTCTTC
66936024 TTTCTCCCCTG
1 TTTCTCCCCTG
66936035 TTTCTCCCCTG
1 TTTCTCCCCTG
66936046 TTTC
1 TTTC
66936050 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:66936431 original size:21 final size:21
Alignment explanation
Indices: 66936407--66936449 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
66936397 AATAATAACT
66936407 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
66936428 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
66936449 A
1 A
66936450 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Done.