Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 122 of 226
Found at i:37759471 original size:31 final size:31
Alignment explanation
Indices: 37759413--37759471 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
37759403 TGATGACCAT
* *
37759413 AAAAGAAATTTACTAATAGTAGGGTGACTAA
1 AAAAGAAATGTACTAATAGTAGAGTGACTAA
*
37759444 AAAAGAAATGTACTAATAGTTGAGTGAC
1 AAAAGAAATGTACTAATAGTAGAGTGAC
37759472 CATTTTCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAAGAAATGTACTAATAGTAGAGTGACTAA
Found at i:37759531 original size:31 final size:30
Alignment explanation
Indices: 37759406--37759531 Score: 85
Period size: 31 Copynumber: 4.1 Consensus size: 30
37759396 AGCCAGCTGA
* * *
37759406 TGACCATAAAAGAAATTTACTAATAGTAGGG
1 TGACCAAAAAAGAAA-TTACTAATAGTTGAG
*
37759437 TGACTAAAAAAGAAATGTACTAATAGTTGAG
1 TGACCAAAAAAGAAAT-TACTAATAGTTGAG
***** * * *
37759468 TGACCATTTTCTG-ACTT-TTCATAGTTGAG
1 TGACCA-AAAAAGAAATTACTAATAGTTGAG
*
37759497 TGACCAAAAAAGAAAGTTACTAATAGTTGGG
1 TGACCAAAAAAGAAA-TTACTAATAGTTGAG
37759528 TGAC
1 TGAC
37759532 TACTAGTGTA
Statistics
Matches: 68, Mismatches: 22, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
28 1 0.01
29 17 0.25
30 4 0.06
31 45 0.66
32 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (30 bp):
TGACCAAAAAAGAAATTACTAATAGTTGAG
Found at i:37761191 original size:12 final size:12
Alignment explanation
Indices: 37761176--37761214 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
37761166 AGGAAACTAA
*
37761176 TTTAAAAATTGT
1 TTTAAAAATTAT
37761188 TTTAAAAATATTAT
1 TTT-AAAA-ATTAT
37761202 TTTAAAAATTAT
1 TTTAAAAATTAT
37761214 T
1 T
37761215 AAAACAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 9 0.38
13 8 0.33
14 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (12 bp):
TTTAAAAATTAT
Found at i:37761206 original size:14 final size:15
Alignment explanation
Indices: 37761187--37761215 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37761177 TTAAAAATTG
37761187 TTTTAAAAA-TATTA
1 TTTTAAAAATTATTA
37761201 TTTTAAAAATTATTA
1 TTTTAAAAATTATTA
37761216 AAACAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTAAAAATTATTA
Found at i:37761223 original size:26 final size:26
Alignment explanation
Indices: 37761176--37761225 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
37761166 AGGAAACTAA
* *
37761176 TTTAAAAATTGTTTTAAAAATATTAT
1 TTTAAAAATTGATTAAAAAATATTAT
37761202 TTTAAAAATT-ATTAAAACAATATT
1 TTTAAAAATTGATTAAAA-AATATT
37761226 TAATGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
TTTAAAAATTGATTAAAAAATATTAT
Found at i:37761843 original size:20 final size:21
Alignment explanation
Indices: 37761808--37761869 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
37761798 AATTTAAAAA
*
37761808 TTTAAAAAATATAAAATTATT
1 TTTAAAAAATAAAAAATTATT
37761829 TTTAAAAAATAAAAAATTATT
1 TTTAAAAAATAAAAAATTATT
37761850 TTT-AAAAATAAAAAATTATT
1 TTTAAAAAATAAAAAATTATT
37761870 AAAGACGTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
20 17 0.43
21 23 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAAAAAATAAAAAATTATT
Found at i:37773109 original size:31 final size:32
Alignment explanation
Indices: 37773066--37773138 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
37773056 TTTCATTTTT
* *
37773066 TAAAATTTTTA-TTCTGAAATATGTTTTTATA
1 TAAATTTTTTATTTCTGAAATATGTTTTTACA
* *
37773097 TAAATTTTTTATTTTTTAAATATGTTTTTACA
1 TAAATTTTTTATTTCTGAAATATGTTTTTACA
*
37773129 TAAGTTTTTT
1 TAAATTTTTT
37773139 CATCATGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 10 0.28
32 26 0.72
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (32 bp):
TAAATTTTTTATTTCTGAAATATGTTTTTACA
Found at i:37773965 original size:20 final size:20
Alignment explanation
Indices: 37773940--37773979 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37773930 TCATATTATT
37773940 GTGGTTTTGTCCACAATTTC
1 GTGGTTTTGTCCACAATTTC
37773960 GTGGTTTTGTCCACAATTTC
1 GTGGTTTTGTCCACAATTTC
37773980 ATAGTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (20 bp):
GTGGTTTTGTCCACAATTTC
Found at i:37773986 original size:20 final size:20
Alignment explanation
Indices: 37773943--37773987 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
37773933 TATTATTGTG
* *
37773943 GTTTTGTCCACAATTTCGTG
1 GTTTTGTCCACAATTTCATA
37773963 GTTTTGTCCACAATTTCATA
1 GTTTTGTCCACAATTTCATA
37773983 GTTTT
1 GTTTT
37773988 ATCCCGTCGA
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:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (20 bp):
GTTTTGTCCACAATTTCATA
Found at i:37775791 original size:14 final size:14
Alignment explanation
Indices: 37775757--37775785 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37775747 ATTTTTTTGC
37775757 AACAGTTATAAGGT
1 AACAGTTATAAGGT
37775771 AACAGTTATAAGGT
1 AACAGTTATAAGGT
37775785 A
1 A
37775786 TTAGTTCGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
AACAGTTATAAGGT
Found at i:37782402 original size:40 final size:40
Alignment explanation
Indices: 37782346--37782486 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
37782336 AAGTGTAAAT
*
37782346 AGGGGCACGTAAGTGCAATCAAGAGTACCAAAGTACGAAC
1 AGGGGCACGTATGTGCAATCAAGAGTACCAAAGTACGAAC
* * *
37782386 AGGGGCACATATGTGCAATTAAGGGTACCAAAGTACGAAC
1 AGGGGCACGTATGTGCAATCAAGAGTACCAAAGTACGAAC
* * * * * *
37782426 AGGGGCACGTATGTGTAATTAGGGGTACCGAAGTAC-AATT
1 AGGGGCACGTATGTGCAATCAAGAGTACCAAAGTACGAA-C
* *
37782466 AAGGGAACGTATGTGCAATCA
1 AGGGGCACGTATGTGCAATCA
37782487 GGGTATGATT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.02
40 85 0.98
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (40 bp):
AGGGGCACGTATGTGCAATCAAGAGTACCAAAGTACGAAC
Found at i:37785910 original size:26 final size:26
Alignment explanation
Indices: 37785880--37786296 Score: 445
Period size: 26 Copynumber: 16.0 Consensus size: 26
37785870 AAATGGGCCC
37785880 AAATTATCGAAATACCCTCGATGGGT
1 AAATTATCGAAATACCCTCGATGGGT
* *
37785906 AAATTA-CTGAAATACCCTTGATGGTT
1 AAATTATC-GAAATACCCTCGATGGGT
* **
37785932 AAATTATCGAAATACCCTTGATCAGT
1 AAATTATCGAAATACCCTCGATGGGT
*
37785958 AAATT-TCCAAAATACCCTCGATGGGT
1 AAATTAT-CGAAATACCCTCGATGGGT
37785984 AAATTATCGAAATACCCTCGATGGGT
1 AAATTATCGAAATACCCTCGATGGGT
* *
37786010 AAATTA-CTAAAATACCCTCGAAGGGT
1 AAATTATC-GAAATACCCTCGATGGGT
* * * *
37786036 AAATTTTTGAAATACCCTCAAAGGGT
1 AAATTATCGAAATACCCTCGATGGGT
* * *
37786062 AAATTA-CTGAAATACCTTTGATAGGT
1 AAATTATC-GAAATACCCTCGATGGGT
* * *
37786088 AAATTACCAAAATACCCTCGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGT
* *
37786114 AAATTATCGAAATACCCTTGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGT
** *
37786140 AAATTATATAAAATACCCTCGATGAGT
1 AAATTAT-CGAAATACCCTCGATGGGT
* *
37786167 AAATTA-CTAAAATACCCT-TAGTGGGT
1 AAATTATC-GAAATACCCTCGA-TGGGT
37786193 AAATTA-CAGAAATACCCTCGATGGGT
1 AAATTATC-GAAATACCCTCGATGGGT
*
37786219 AAATTATTGAAATACCCTCGAT-GGT
1 AAATTATCGAAATACCCTCGATGGGT
*
37786244 AAATTACCGAAATACCCTCGATGGGT
1 AAATTATCGAAATACCCTCGATGGGT
* *
37786270 AAATTATCGAAATACCCTTGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGT
37786296 A
1 A
37786297 GAATGACCGT
Statistics
Matches: 329, Mismatches: 48, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
25 27 0.08
26 278 0.84
27 24 0.07
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (26 bp):
AAATTATCGAAATACCCTCGATGGGT
Found at i:37785960 original size:52 final size:52
Alignment explanation
Indices: 37785880--37786296 Score: 493
Period size: 52 Copynumber: 8.0 Consensus size: 52
37785870 AAATGGGCCC
*
37785880 AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGTT
1 AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
* ** * ** *
37785932 AAATTATCGAAATACCCTTGATCAGTAAATTTCCAAAATACCCTCGATGGGT
1 AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
* * *
37785984 AAATTATCGAAATACCCTCGATGGGTAAATTACTAAAATACCCTCGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
* * * * * *
37786036 AAATTTTTGAAATACCCTCAAAGGGTAAATTACTGAAATACCTTTGATAGGT
1 AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
* * * *
37786088 AAATTACCAAAATACCCTCGAAGGGTAAATTA-TCGAAATACCCTTGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGTAAATTACT-GAAATACCCTTGATGGGT
** * *
37786140 AAATTATATAAAATACCCTCGATGAGTAAATTACTAAAATACCCTT-AGTGGGT
1 AAATTAT-CGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGA-TGGGT
* *
37786193 AAATTA-CAGAAATACCCTCGATGGGTAAATTATTGAAATACCCTCGAT-GGT
1 AAATTATC-GAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
* *
37786244 AAATTACCGAAATACCCTCGATGGGTAAATTA-TCGAAATACCCTTGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGTAAATTACT-GAAATACCCTTGATGGGT
37786296 A
1 A
37786297 GAATGACCGT
Statistics
Matches: 311, Mismatches: 45, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
50 1 0.00
51 46 0.15
52 220 0.71
53 43 0.14
54 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (52 bp):
AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
Found at i:37787009 original size:18 final size:18
Alignment explanation
Indices: 37786986--37787020 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37786976 AAAACAAATA
37786986 TGTTTTCATA-ACAAACAT
1 TGTTTTCA-AGACAAACAT
37787004 TGTTTTCAAGACAAACA
1 TGTTTTCAAGACAAACA
37787021 CATATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
TGTTTTCAAGACAAACAT
Found at i:37792254 original size:12 final size:12
Alignment explanation
Indices: 37792237--37792268 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
37792227 TATTAAAATG
37792237 AATTAAAAACAA
1 AATTAAAAACAA
37792249 AATTAAAAACAA
1 AATTAAAAACAA
37792261 AATTAAAA
1 AATTAAAA
37792269 GCCAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (12 bp):
AATTAAAAACAA
Found at i:37793278 original size:50 final size:50
Alignment explanation
Indices: 37793153--37793314 Score: 157
Period size: 50 Copynumber: 3.1 Consensus size: 50
37793143 CATTAAGATT
*
37793153 ATGAGAGGTCCCATGA-AAGACCATGTTTGGGACATGGCGTTGGCATTAGCACCGAG
1 ATGAGAGGTCCCAT-ATAAGACCATGTCTGGGACATGGCGTT-G-----GCACCGAG
*
37793209 ATAAGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * * * * *
37793259 ATGAGAGTTCCC-TCGTAAGACCATGTCTGGGATATGGCATGGGCACCTAT
1 ATGAGAGGTCCCAT-ATAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
37793309 ATGAGA
1 ATGAGA
37793315 ACTCTCATGC
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
49 1 0.01
50 54 0.57
55 2 0.02
56 37 0.39
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:37793329 original size:50 final size:50
Alignment explanation
Indices: 37793225--37793353 Score: 143
Period size: 50 Copynumber: 2.6 Consensus size: 50
37793215 GGTCCCATAT
* * ** * *
37793225 AAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGTTCCCTCGT
1 AAGACCATGTCTGGGATATGGCATTGGCACCGAGATGAGAACTCCATCGC
* * *
37793275 AAGACCATGTCTGGGATATGGCATGGGCACCTATATGAGAACTCTCAT-GC
1 AAGACCATGTCTGGGATATGGCATTGGCACCGAGATGAGAACTC-CATCGC
* *
37793325 AAGACCATATCTGGGGTATGGCATTGGCA
1 AAGACCATGTCTGGGATATGGCATTGGCA
37793354 GTACAAGAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 64 0.97
51 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
AAGACCATGTCTGGGATATGGCATTGGCACCGAGATGAGAACTCCATCGC
Found at i:37796558 original size:26 final size:26
Alignment explanation
Indices: 37796527--37796897 Score: 460
Period size: 26 Copynumber: 14.3 Consensus size: 26
37796517 GAAATGGGTC
* *
37796527 TAAATTATCGAAATGCCCTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
* *
37796553 TAAATTACCAAAATACCCTCGATGGA
1 TAAATTACCGAAATACCCTCGATGGG
37796579 TAAATTACC-AAATTACCCTCGATGGG
1 TAAATTACCGAAA-TACCCTCGATGGG
* *
37796605 TAAAGTATCGAAATACCCTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
*
37796631 TAAATTACCAAAATACCCTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
* *
37796657 TAACTTACCGAAATACCCTTGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
* * * *
37796683 TAAATTATCAAAATACACTCGATGGA
1 TAAATTACCGAAATACCCTCGATGGG
** *
37796709 TAAATTACTAAAATACCCT-GAAAGGG
1 TAAATTACCGAAATACCCTCG-ATGGG
* * *
37796735 TACATTGCCGAAATACCCTCGA-AGG
1 TAAATTACCGAAATACCCTCGATGGG
37796760 TAAATTACCGAAATACCCTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
** * *
37796786 TAAATTACTAAAATACCCTCAAAGGG
1 TAAATTACCGAAATACCCTCGATGGG
*
37796812 TAAATTACCGAAATACCCTCAATGGG
1 TAAATTACCGAAATACCCTCGATGGG
* *
37796838 TAAAATATCGAAATACCCTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
*
37796864 TAAATTACCAAAATACCCTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
37796890 TAAATTAC
1 TAAATTAC
37796898 TGAACTGGCA
Statistics
Matches: 295, Mismatches: 45, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
25 26 0.09
26 265 0.90
27 4 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.24
Consensus pattern (26 bp):
TAAATTACCGAAATACCCTCGATGGG
Found at i:37796665 original size:78 final size:78
Alignment explanation
Indices: 37796527--37796897 Score: 532
Period size: 78 Copynumber: 4.8 Consensus size: 78
37796517 GAAATGGGTC
* *
37796527 TAAATTATCGAAATGCCCTCGATGGGTAAATTACCAAAATACCCTCGATGGATAAATTACC-AAA
1 TAAATTATCGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTACCGAAA
37796591 TTACCCTCGATGGG
66 -TACCCTCGATGGG
* *
37796605 TAAAGTATCGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAACTTACCGAAA
1 TAAATTATCGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTACCGAAA
*
37796670 TACCCTTGATGGG
66 TACCCTCGATGGG
* * * * * * *
37796683 TAAATTATCAAAATACACTCGATGGATAAATTACTAAAATACCCT-GAAAGGGTACATTGCCGAA
1 TAAATTATCGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCG-ATGGGTAAATTACCGAA
*
37796747 ATACCCTCGA-AGG
65 ATACCCTCGATGGG
* * * *
37796760 TAAATTACCGAAATACCCTCGATGGGTAAATTACTAAAATACCCTCAAAGGGTAAATTACCGAAA
1 TAAATTATCGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTACCGAAA
*
37796825 TACCCTCAATGGG
66 TACCCTCGATGGG
*
37796838 TAAAATATCGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTAC
1 TAAATTATCGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTAC
37796898 TGAACTGGCA
Statistics
Matches: 259, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
77 68 0.26
78 188 0.73
79 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.24
Consensus pattern (78 bp):
TAAATTATCGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTACCGAAA
TACCCTCGATGGG
Found at i:37797457 original size:18 final size:19
Alignment explanation
Indices: 37797434--37797476 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
37797424 AACAAATAAG
37797434 TTTTCACAACAAACAC-TA
1 TTTTCACAACAAACACGTA
**
37797452 TTTTCAGGACAAACACGTA
1 TTTTCACAACAAACACGTA
37797471 TTTTCA
1 TTTTCA
37797477 ACTTCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (19 bp):
TTTTCACAACAAACACGTA
Found at i:37797960 original size:54 final size:54
Alignment explanation
Indices: 37797878--37798031 Score: 159
Period size: 54 Copynumber: 2.9 Consensus size: 54
37797868 CGCGACACAA
* * *
37797878 CCGTGTAACCC-ACTTTTGAATTGCACATGGTTTGAG-AAATGATCTTTGACATGG
1 CCGTGTGACCCTA-TTTTGAATTGCACATGGTTTG-GCAAACGATCTATGACATGG
*
37797932 CCGTGTGACCCTATTTTGAATTGCACATGGTTTGGCAAACGTTCTATGACATGG
1 CCGTGTGACCCTATTTTGAATTGCACATGGTTTGGCAAACGATCTATGACATGG
* * ** * * * * *
37797986 ACATGTGGTCCTATTTTAAATTACACATGGTTGGGCACACGGTCTA
1 CCGTGTGACCCTATTTTGAATTGCACATGGTTTGGCAAACGATCTA
37798032 CCGAAACGGC
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 83 0.98
55 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (54 bp):
CCGTGTGACCCTATTTTGAATTGCACATGGTTTGGCAAACGATCTATGACATGG
Found at i:37818324 original size:37 final size:38
Alignment explanation
Indices: 37818258--37818346 Score: 96
Period size: 38 Copynumber: 2.3 Consensus size: 38
37818248 TTTTAATCTT
*
37818258 TTTTTGTTGTTTCAAACATTCTTGCACAAA-ATAG-TTTG
1 TTTTTGTT-TTTCAAACATTCTTGAACAAATAT-GTTTTG
37818296 TTTTTGTTTTTCAAATCAATTC-T-AACAAATATGTTTTG
1 TTTTTGTTTTTCAAA-C-ATTCTTGAACAAATATGTTTTG
37818334 TATTTTGTTTTTC
1 T-TTTTGTTTTTC
37818347 CAGATCTGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
37 13 0.29
38 17 0.38
39 15 0.33
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (38 bp):
TTTTTGTTTTTCAAACATTCTTGAACAAATATGTTTTG
Found at i:37820162 original size:45 final size:45
Alignment explanation
Indices: 37820052--37820152 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
37820042 GATAAAAACA
* *
37820052 AGTAAGACCATAGCCGAAAGACATTATGGCATCAGGATGGAAGTG
1 AGTAAGACCATAGCCGAAAGACACTATGGAATCAGGATGGAAGTG
* * * *
37820097 TGTAAGCCCATAGCCGAAAGACGCTATGGAATCATGATGGAAGTG
1 AGTAAGACCATAGCCGAAAGACACTATGGAATCAGGATGGAAGTG
37820142 AGTAAGACCAT
1 AGTAAGACCAT
37820153 GGTTGAAAGA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.19
Consensus pattern (45 bp):
AGTAAGACCATAGCCGAAAGACACTATGGAATCAGGATGGAAGTG
Found at i:37820176 original size:45 final size:45
Alignment explanation
Indices: 37820052--37820176 Score: 124
Period size: 45 Copynumber: 2.8 Consensus size: 45
37820042 GATAAAAACA
*** * *
37820052 AGTAAGACCATAGCCGAAAGACATTATGGCATCAGGATGGAAGTG
1 AGTAAGACCATAGCCGAAAGACGCAATCGCATCATGATGGAAGTG
* * * * *
37820097 TGTAAGCCCATAGCCGAAAGACGCTATGGAATCATGATGGAAGTG
1 AGTAAGACCATAGCCGAAAGACGCAATCGCATCATGATGGAAGTG
* ** *
37820142 AGTAAGACCATGGTTGAAAGATGCAATCGCATCAT
1 AGTAAGACCATAGCCGAAAGACGCAATCGCATCAT
37820177 TGTAAATAGG
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (45 bp):
AGTAAGACCATAGCCGAAAGACGCAATCGCATCATGATGGAAGTG
Found at i:37827437 original size:30 final size:30
Alignment explanation
Indices: 37827401--37827480 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
37827391 ACACGAGAAT
*
37827401 AAGTTGCTCACACAAACTGACAATATATCA
1 AAGTTGCTCACACAAACTGACAATATAACA
** * * *
37827431 GGGTTGCTCACACAAGCTTACATTATAACA
1 AAGTTGCTCACACAAACTGACAATATAACA
*
37827461 AAATTGCTCACACAAACTGA
1 AAGTTGCTCACACAAACTGA
37827481 TATTATATTA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (30 bp):
AAGTTGCTCACACAAACTGACAATATAACA
Found at i:37836604 original size:6 final size:6
Alignment explanation
Indices: 37836593--37836623 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
37836583 ATTGATAATA
37836593 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
37836624 AAAATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:37837961 original size:29 final size:29
Alignment explanation
Indices: 37837864--37837985 Score: 140
Period size: 29 Copynumber: 4.2 Consensus size: 29
37837854 CACTATTGAT
* * *
37837864 GCCACACGGTCATGTGCCAGACCATGTGA
1 GCCACACGGTCGTGTGTCAGGCCATGTGA
** *
37837893 GCCACACAATCGTGTG-CCGGACCATGTGA
1 GCCACACGGTCGTGTGTCAGG-CCATGTGA
37837922 GCCACACGGTCGTGTGTCAGGCCATGTGA
1 GCCACACGGTCGTGTGTCAGGCCATGTGA
* *
37837951 GTCACATGGTCGTGTGTCAGGCCATGT-A
1 GCCACACGGTCGTGTGTCAGGCCATGTGA
37837979 GGCCACA
1 -GCCACA
37837986 TGGGATGGAT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
28 3 0.04
29 73 0.92
30 3 0.04
ACGTcount: A:0.21, C:0.29, G:0.30, T:0.20
Consensus pattern (29 bp):
GCCACACGGTCGTGTGTCAGGCCATGTGA
Found at i:37839807 original size:15 final size:15
Alignment explanation
Indices: 37839787--37839843 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
37839777 ATTCAATATT
37839787 AATATTTTAATAATA
1 AATATTTTAATAATA
*
37839802 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
37839821 AATATATTAATAATA
1 AATATTTTAATAATA
37839836 AATATTTT
1 AATATTTT
37839844 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:37839831 original size:34 final size:32
Alignment explanation
Indices: 37839775--37839842 Score: 100
Period size: 34 Copynumber: 2.1 Consensus size: 32
37839765 ATTATTGAAA
* *
37839775 TTATTCAATATTAATATTTTAATAATAAATAT
1 TTATTCAATATAAATATATTAATAATAAATAT
37839807 TTATTACAATTATAAATATATTAATAATAAATAT
1 TTATT-CAA-TATAAATATATTAATAATAAATAT
37839841 TT
1 TT
37839843 TGTAGTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 5 0.16
33 3 0.09
34 24 0.75
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TTATTCAATATAAATATATTAATAATAAATAT
Found at i:37842672 original size:3 final size:3
Alignment explanation
Indices: 37842664--37842694 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
37842654 TTTAACAGTG
37842664 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
37842695 TGAAAAGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37861806 original size:21 final size:20
Alignment explanation
Indices: 37861782--37861821 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37861772 CACCAATTAA
*
37861782 AATTAATTAGTTAATATTTGT
1 AATTAATTA-CTAATATTTGT
*
37861803 AATTTATTACTAATATTTG
1 AATTAATTACTAATATTTG
37861822 CTGATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (20 bp):
AATTAATTACTAATATTTGT
Found at i:37864135 original size:13 final size:13
Alignment explanation
Indices: 37864117--37864142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37864107 GGTTTTAGTC
37864117 CGGGTCTTTTCAG
1 CGGGTCTTTTCAG
37864130 CGGGTCTTTTCAG
1 CGGGTCTTTTCAG
37864143 AGCAGGCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.31, T:0.38
Consensus pattern (13 bp):
CGGGTCTTTTCAG
Found at i:37865661 original size:14 final size:13
Alignment explanation
Indices: 37865642--37865677 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
37865632 TTTTATTTCA
37865642 TATTATTTTAAACT
1 TATTATTTTAAA-T
37865656 TATTATTTTAAAT
1 TATTATTTTAAAT
*
37865669 TAATATTTT
1 TATTATTTT
37865678 TAATACATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATTTTAAAT
Found at i:37865680 original size:14 final size:14
Alignment explanation
Indices: 37865645--37865677 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
37865635 TATTTCATAT
*
37865645 TATTTTAAACTTAT
1 TATTTTAAACTTAA
37865659 TATTTTAAA-TTAA
1 TATTTTAAACTTAA
37865672 TATTTT
1 TATTTT
37865678 TAATACATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTTAAACTTAA
Found at i:37869393 original size:23 final size:23
Alignment explanation
Indices: 37869348--37870118 Score: 446
Period size: 23 Copynumber: 33.8 Consensus size: 23
37869338 ACATAGTTTC
* *
37869348 CAGCACTTAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* * *
37869371 CATCATTTGAGCACCTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* * *
37869394 CAGCAATCAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
*
37869417 CAGCATTTAAACACCTCAACTTA
1 CAGCATTTAAACACCTCAATTTA
* *
37869440 CAACACTTT-AACATCC-CAATTAA
1 CAGCA-TTTAAACA-CCTCAATTTA
* *
37869463 CAACATTTATACACCTCAA-TTA
1 CAGCATTTAAACACCTCAATTTA
* *
37869485 CAGCGA--TAAACATCTCAATTTC
1 CAGC-ATTTAAACACCTCAATTTA
** ** *
37869507 CAGCAACTAAACAATTCAATTTG
1 CAGCATTTAAACACCTCAATTTA
* *
37869530 CAGCACTTAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* *
37869553 CATCATTTAAGCACCTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* * *
37869576 CAACAATTAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* *
37869599 CAGCATTTAAACACCTCAACTTC
1 CAGCATTTAAACACCTCAATTTA
* *
37869622 CAACACTTT-AACATCC-CAATTAA
1 CAGCA-TTTAAACA-CCTCAATTTA
* *
37869645 CAACATTTATACACCTCAA-TTA
1 CAGCATTTAAACACCTCAATTTA
* * * *
37869667 CAACA-ATAAACATCTCAATTTC
1 CAGCATTTAAACACCTCAATTTA
** * *
37869689 CAGCAACTAAACA-TTCAATTTG
1 CAGCATTTAAACACCTCAATTTA
* * *
37869711 TAGCACTTAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* * *
37869734 CATCATTTGAGCACCTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* * *
37869757 CAGTAATTAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* *
37869780 TAGCATTTAAACACCTCAACTTA
1 CAGCATTTAAACACCTCAATTTA
* *
37869803 CAACACTTT-AACATCC-CAATTAA
1 CAGCA-TTTAAACA-CCTCAATTTA
* *
37869826 CAACATTTATACACCTCAA-TTA
1 CAGCATTTAAACACCTCAATTTA
* * *
37869848 CAG--TGATAAACATCTCAATTTC
1 CAGCAT-TTAAACACCTCAATTTA
** ** *
37869870 CAGCAACTAAACAATTCAATTTG
1 CAGCATTTAAACACCTCAATTTA
* * *
37869893 CAGTACTTAAAACACTTCAATTTA
1 CAGCA-TTTAAACACCTCAATTTA
* * * *
37869917 CAACATTTAAACACTTAAATTTG
1 CAGCATTTAAACACCTCAATTTA
* *
37869940 CAGCACTTT-AACACTTCAATTCA
1 CAGCA-TTTAAACACCTCAATTTA
* * * *
37869963 CAACATTTAAATACTTCAATTTG
1 CAGCATTTAAACACCTCAATTTA
* *
37869986 CAACAGTTT-AACACTTCAATTTA
1 CAGCA-TTTAAACACCTCAATTTA
** *
37870009 CAATATTTAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* * *
37870032 CAGCACTTT-AACATCTCTATTAA
1 CAGCA-TTTAAACACCTCAATTTA
* *
37870055 CAACATTTATACACCTCAA-TTA
1 CAGCATTTAAACACCTCAATTTA
* * * * *
37870077 CAGCAATAAAACATCTTAATTTC
1 CAGCATTTAAACACCTCAATTTA
** *
37870100 CAGCAACTAAACACTTCAA
1 CAGCATTTAAACACCTCAA
37870119 ATTGCAGTAC
Statistics
Matches: 577, Mismatches: 140, Indels: 62
0.74 0.18 0.08
Matches are distributed among these distances:
20 1 0.00
21 31 0.05
22 89 0.15
23 416 0.72
24 40 0.07
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.31
Consensus pattern (23 bp):
CAGCATTTAAACACCTCAATTTA
Found at i:37869406 original size:46 final size:46
Alignment explanation
Indices: 37869348--37870118 Score: 521
Period size: 46 Copynumber: 16.9 Consensus size: 46
37869338 ACATAGTTTC
* * * *
37869348 CAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTA
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* *
37869394 CAGCAATCAAACACTTCAATTTACAGCATTTAAACACCTCAACTTA
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * * *
37869440 CAACACTTTAACA-TCCCAATTAACAACATTTATACACCTCAA-TTA
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* * ** ** *
37869485 CAGCGA-TAAACA-TCTCAATTTCCAGCAACTAAACAATTCAATTTG
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* * *
37869530 CAGCACTTAAACACTTCAATTTACATCATTTAAGCACCTCAATTTA
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * *
37869576 CAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTC
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * * *
37869622 CAACACTTTAACA-TCCCAATTAACAACATTTATACACCTCAA-TTA
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* * ** * *
37869667 CAACAA-TAAACA-TCTCAATTTCCAGCAACTAAACA-TTCAATTTG
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* * * * *
37869711 TAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTA
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * *
37869757 CAGTAATTAAACACTTCAATTTATAGCATTTAAACACCTCAACTTA
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * * *
37869803 CAACACTTTAACA-TCCCAATTAACAACATTTATACACCTCAA-TTA
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
** * ** ** *
37869848 CAGTGA-TAAACA-TCTCAATTTCCAGCAACTAAACAATTCAATTTG
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * *
37869893 CAGTACTTAAAACACTTCAATTTACAACATTTAAACACTTAAATTTG
1 CAGCAATT-AAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * * *
37869940 CAGCACTTTAACACTTCAATTCACAACATTTAAATACTTCAATTTG
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * ** *
37869986 CAACAGTTTAACACTTCAATTTACAATATTTAAACACTTCAATTTA
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * *
37870032 CAGCACTTTAACA-TCTCTATTAACAACATTTATACACCTCAA-TTA
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* * ** *
37870077 CAGCAATAAAACATCTT-AATTTCCAGCAACTAAACACTTCAA
1 CAGCAATTAAACA-CTTCAATTTACAGCATTTAAACACCTCAA
37870119 ATTGCAGTAC
Statistics
Matches: 566, Mismatches: 142, Indels: 35
0.76 0.19 0.05
Matches are distributed among these distances:
43 4 0.01
44 76 0.13
45 85 0.15
46 361 0.64
47 39 0.07
48 1 0.00
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.31
Consensus pattern (46 bp):
CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
Found at i:37869595 original size:113 final size:114
Alignment explanation
Indices: 37869385--37869602 Score: 282
Period size: 113 Copynumber: 1.9 Consensus size: 114
37869375 ATTTGAGCAC
* *
37869385 CTCAATTTACAGCAATCAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTA
1 CTCAATTTACAGCAATCAAACAATTCAATTTACAGCACTTAAACACCTCAACTTACAACACTTTA
* *
37869450 ACATCCCAATTAACAACATTTATACACCTCAA-TTACAGCGATAAACAT
66 ACATCCCAATTAACAACAATTAAACACCTCAATTTACAGCGATAAACAT
* * * * *
37869498 CTCAATTTCCAGCAA-CTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACATCA-TTT
1 CTCAATTTACAGCAATC-AAACAATTCAATTTACAGCACTTAAACACCTCAACTTACAACACTTT
* *
37869561 AAGCA-CCTCAATTTACAACAATTAAACACTTCAATTTACAGC
65 AA-CATCC-CAATTAACAACAATTAAACACCTCAATTTACAGC
37869603 ATTTAAACAC
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
112 8 0.09
113 75 0.83
114 7 0.08
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (114 bp):
CTCAATTTACAGCAATCAAACAATTCAATTTACAGCACTTAAACACCTCAACTTACAACACTTTA
ACATCCCAATTAACAACAATTAAACACCTCAATTTACAGCGATAAACAT
Found at i:37872032 original size:24 final size:25
Alignment explanation
Indices: 37872000--37872050 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
37871990 ACTTATTTTG
*
37872000 AAAT-TTTTTTTTCATTAGATGTAC
1 AAATGTTTTTTTTCACTAGATGTAC
37872024 AAATGTTTTTTTTTCACTAGATGTAC
1 AAATG-TTTTTTTTCACTAGATGTAC
37872050 A
1 A
37872051 TTTACTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.17
26 20 0.83
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (25 bp):
AAATGTTTTTTTTCACTAGATGTAC
Found at i:37873816 original size:21 final size:21
Alignment explanation
Indices: 37873790--37873832 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
37873780 TACTTGAGAT
37873790 TAATGATGATTGGATTTACAA
1 TAATGATGATTGGATTTACAA
37873811 TAATGATGATTGGATTTACAA
1 TAATGATGATTGGATTTACAA
37873832 T
1 T
37873833 TGGGAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (21 bp):
TAATGATGATTGGATTTACAA
Found at i:37874025 original size:22 final size:22
Alignment explanation
Indices: 37873999--37874043 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
37873989 CTTCTAGGGC
37873999 CCGTTTATTTCATTGAAAATGG
1 CCGTTTATTTCATTGAAAATGG
37874021 CCGTTTATTTCATTGAAAATGG
1 CCGTTTATTTCATTGAAAATGG
37874043 C
1 C
37874044 TTTGGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (22 bp):
CCGTTTATTTCATTGAAAATGG
Found at i:37875679 original size:39 final size:39
Alignment explanation
Indices: 37875657--37875773 Score: 180
Period size: 39 Copynumber: 3.0 Consensus size: 39
37875647 ACATTACACG
*
37875657 TATAATTACATAATGTTCAAGCACATGTTGCAATACTCA
1 TATAATTACATAATGTTCAAGCACATATTGCAATACTCA
* *
37875696 TATAATTATATAATGTTCAAGCACATCTTGCAATACTCA
1 TATAATTACATAATGTTCAAGCACATATTGCAATACTCA
** *
37875735 TATAATCGCATAATGTTCAAGCATATATTGCAATACTCA
1 TATAATTACATAATGTTCAAGCACATATTGCAATACTCA
37875774 AAAACATTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.34
Consensus pattern (39 bp):
TATAATTACATAATGTTCAAGCACATATTGCAATACTCA
Found at i:37875938 original size:43 final size:43
Alignment explanation
Indices: 37875877--37875961 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
37875867 TGAAACATAA
37875877 AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAAC
1 AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAAC
*
37875920 AAGTGAGCTCTATCATCACTCATTGGATACACGGATCTCCAA
1 AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAA
37875962 TACACCAAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAAC
Found at i:37882675 original size:21 final size:21
Alignment explanation
Indices: 37882532--37882741 Score: 99
Period size: 21 Copynumber: 10.1 Consensus size: 21
37882522 GTATATCGTT
* *
37882532 AACAGAAGCTCAT-A-AGCTG
1 AACAGAAACTCATAAGAGTTG
* * * *
37882551 AACAGAAGCTCATAAAAGCTA
1 AACAGAAACTCATAAGAGTTG
* * *
37882572 AAAAGAAACCCATAAGGGTTG
1 AACAGAAACTCATAAGAGTTG
* * ** *
37882593 TACAGAAGCTTGTAAGAGCTG
1 AACAGAAACTCATAAGAGTTG
* *
37882614 AAC-GAAAAGC-CATAAGGGTTA
1 AACAG-AAA-CTCATAAGAGTTG
* *
37882635 AACAGAAGCTTA-ATAGAGTTG
1 AACAGAAACTCATA-AGAGTTG
*
37882656 AACGGAAACTCATAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
* *
37882677 AACAGAAGCTCA-ATAGAGCTG
1 AACAGAAACTCATA-AGAGTTG
* * *
37882698 AGCAGAAACTCATATGAGTTA
1 AACAGAAACTCATAAGAGTTG
* * *
37882719 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAACTCATAAGAGTTG
37882740 AA
1 AA
37882742 TGGAAAGTAA
Statistics
Matches: 137, Mismatches: 44, Indels: 18
0.69 0.22 0.09
Matches are distributed among these distances:
19 13 0.09
20 5 0.04
21 115 0.84
22 4 0.03
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.18
Consensus pattern (21 bp):
AACAGAAACTCATAAGAGTTG
Found at i:37882706 original size:42 final size:42
Alignment explanation
Indices: 37882607--37882729 Score: 151
Period size: 42 Copynumber: 2.9 Consensus size: 42
37882597 GAAGCTTGTA
* *
37882607 AGAGCTGAAC-GAAAAGC-CATAAGGGTTAAACAGAAGCTTAAT
1 AGAGCTGAACAG-AAA-CTCATAAGAGTTAAACAGAAGCTCAAT
* * *
37882649 AGAGTTGAACGGAAACTCATAAGAGTTGAACAGAAGCTCAAT
1 AGAGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCAAT
* *
37882691 AGAGCTGAGCAGAAACTCATATGAGTTAAACAGAAGCTC
1 AGAGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTC
37882730 GTAAGAGCTG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.97
43 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.18
Consensus pattern (42 bp):
AGAGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCAAT
Found at i:37882737 original size:42 final size:41
Alignment explanation
Indices: 37882576--37882741 Score: 142
Period size: 42 Copynumber: 4.0 Consensus size: 41
37882566 AAGCTAAAAA
* * ** *
37882576 GAAACCCATAAGGGTTGTACAGAAGCT-TGTAAGAGCTGAAC
1 GAAACTCATAAGAGTTAAACAGAAGCTCTAT-AGAGCTGAAC
* *
37882617 GAAAAGC-CATAAGGGTTAAACAGAAGCT-TAATAGAGTTGAAC
1 G-AAA-CTCATAAGAGTTAAACAGAAGCTCT-ATAGAGCTGAAC
* * *
37882659 GGAAACTCATAAGAGTTGAACAGAAGCTCAATAGAGCTGAGC
1 -GAAACTCATAAGAGTTAAACAGAAGCTCTATAGAGCTGAAC
*
37882701 AGAAACTCATATGAGTTAAACAGAAGCTCGTA-AGAGCTGAA
1 -GAAACTCATAAGAGTTAAACAGAAGCTC-TATAGAGCTGAA
37882742 TGGAAAGTAA
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.02
42 98 0.94
43 4 0.04
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.19
Consensus pattern (41 bp):
GAAACTCATAAGAGTTAAACAGAAGCTCTATAGAGCTGAAC
Found at i:37885955 original size:27 final size:27
Alignment explanation
Indices: 37885887--37885960 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
37885877 GATGATTGAA
37885887 AGGGTTGATGAAATTTTTGAAGTAAAG
1 AGGGTTGATGAAATTTTTGAAGTAAAG
* * *
37885914 AGAGTTGCTGAAAATTTTTGAACG-AAAT
1 AGGGTTGATG-AAATTTTTGAA-GTAAAG
37885942 AGGGTTCG-TGAAATGTTTT
1 AGGGTT-GATGAAAT-TTTT
37885961 AGGGATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 12 0.31
28 25 0.64
29 2 0.05
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (27 bp):
AGGGTTGATGAAATTTTTGAAGTAAAG
Found at i:37892574 original size:19 final size:19
Alignment explanation
Indices: 37892526--37892583 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
37892516 TTTAAATTTT
* *
37892526 TTGTATGAATATTATAATTTT
1 TTGTATGAATATTGTAA--TG
*
37892547 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
37892566 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
37892584 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:37892705 original size:27 final size:26
Alignment explanation
Indices: 37892669--37892954 Score: 212
Period size: 27 Copynumber: 11.8 Consensus size: 26
37892659 ATTATAAATT
37892669 TTTTGTATGAATATTGTAATATTATA
1 TTTTGTATGAATATTGTAATATTATA
*
37892695 GTTTTGTATGAATATTG-CA-A-T-T-
1 -TTTTGTATGAATATTGTAATATTATA
* *
37892717 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATTAT-A
*
37892744 TTTTGTATGAATA-T-T-ATATT-TT
1 TTTTGTATGAATATTGTAATATTATA
*
37892766 TTTTGAATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTAT-A
37892793 TTTTGTATGAATATTGT-A-A-T-T-
1 TTTTGTATGAATATTGTAATATTATA
*
37892814 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATTAT-A
*
37892841 TTTTGTATGAATA---TCATA--AT-
1 TTTTGTATGAATATTGTAATATTATA
*
37892861 TTTTTTATGAATATTGT------A-A
1 TTTTGTATGAATATTGTAATATTATA
* *
37892880 TGTTGTATGAATATTGTAATATTGCATT
1 TTTTGTATGAATATTGTAATATT--ATA
*
37892908 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATTAT-A
*
37892935 TTTTGTATGAATATTATAAT
1 TTTTGTATGAATATTGTAAT
37892955 GTGGGGATAT
Statistics
Matches: 210, Mismatches: 18, Indels: 62
0.72 0.06 0.21
Matches are distributed among these distances:
19 16 0.08
20 12 0.06
21 33 0.16
22 15 0.07
23 6 0.03
24 13 0.06
25 10 0.05
26 5 0.02
27 78 0.37
28 22 0.10
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.53
Consensus pattern (26 bp):
TTTTGTATGAATATTGTAATATTATA
Found at i:37892736 original size:48 final size:48
Alignment explanation
Indices: 37892637--37893007 Score: 443
Period size: 48 Copynumber: 7.7 Consensus size: 48
37892627 TTTTTATATG
*
37892637 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT-AATTTTTTGTATGAATATTGT
* * *
37892686 AATATTATAGTTTTGTATGAATATTGCAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGT
* * * *
37892734 AATTTTGTAATTTTGTATGAATATTATATTTTTTTTGAATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTA-ATTTTTTGTATGAATATTGT
*
37892783 AATATTATAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGT
**
37892831 AATATTGTAATTTTGTATGAATATCATAATTTTTT-TATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGT
* * *
37892878 AATGTTGTATGAATATTG--T-AATATTG-CATTTTTTGTATGAATATTGT
1 AATATTG--T-AATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGT
* * ** *
37892925 AATATTGTAATTTTGTATGAATATTATAA-TGTGGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGT
37892970 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTT
1 AATATTGTAA--TTTTGTATGAATATTGTAATT-TTTT
37893008 ATAATTAATT
Statistics
Matches: 273, Mismatches: 36, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
44 6 0.02
45 18 0.07
46 8 0.03
47 70 0.26
48 97 0.36
49 68 0.25
50 6 0.02
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (48 bp):
AATATTGTAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGT
Found at i:37892746 original size:145 final size:144
Alignment explanation
Indices: 37892495--37892953 Score: 394
Period size: 145 Copynumber: 3.2 Consensus size: 144
37892485 TATAGTTTAG
* * *
37892495 ATTAGAATTTTGTATGAATATTTTAAATTTTTTGTATGAATATTAT-A-ATTT-TTTT-TATGAA
1 ATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTTATTTTGTATGAA
* * **
37892556 TATTGTAA--TGTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTATTTATAGT-T-TTG
66 TATTGTAATTTTTTGTATGAATATTGT-A--ATTTTGTAA-T---TTTGTATGAATAGTATATTG
***
37892617 GATTAGTAATTTTTTATATG-AAT
124 GATTAG-AA-TGAATAT-TGTAAT
*
37892640 ATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTTGTATG
1 ATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATT-TA-TTTTGTATG
* * *** *
37892705 AATATTGCAATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATATTTTTTTT
64 AATATTGTAATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATAGTATATTGGATTA
37892770 GAATGAATATTGTAAT
129 GAATGAATATTGTAAT
*
37892786 ATTATAATTTTGTATGAATATTGT-AATTTTTTGTATGAATATTGTAATATTGTAATTTTGTATG
1 ATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATT-T-ATTTTGTATG
** * * * *
37892850 AATATCATAATTTTTT-TATGAATATTGTAATGTTGT-A---TGAAT--ATTGTAATATTGCATT
64 AATATTGTAATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATAGT-ATATTGGA--
* *
37892908 TTTTGTATGAATATTGTAAT
126 -TTAGAATGAATATTGTAAT
*
37892928 ATTGTAATTTTGTATGAATATTATAA
1 ATTATAATTTTGTATGAATATTATAA
37892954 TGTGGGGATA
Statistics
Matches: 264, Mismatches: 33, Indels: 36
0.79 0.10 0.11
Matches are distributed among these distances:
138 3 0.01
139 5 0.02
140 4 0.02
142 40 0.15
143 2 0.01
144 19 0.07
145 94 0.36
146 42 0.16
147 6 0.02
148 6 0.02
149 1 0.00
150 12 0.05
151 13 0.05
152 1 0.00
153 16 0.06
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.54
Consensus pattern (144 bp):
ATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTTATTTTGTATGAA
TATTGTAATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATAGTATATTGGATTAGA
ATGAATATTGTAAT
Found at i:37892752 original size:97 final size:97
Alignment explanation
Indices: 37892637--37892953 Score: 484
Period size: 97 Copynumber: 3.3 Consensus size: 97
37892627 TTTTTATATG
*
37892637 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTTGT
1 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGT
37892702 ATGAATATTGCAATTTTTTGTATGAATATTGT
66 ATGAATATTGCAATTTTTTGTATGAATATTGT
* ** *
37892734 AATTTTGTAATTTTGTATGAATATTATATTTTTTTTGAATGAATATTGTAATATTATAATTTTGT
1 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGT
*
37892799 ATGAATATTGTAATTTTTTGTATGAATATTGT
66 ATGAATATTGCAATTTTTTGTATGAATATTGT
* * *
37892831 AATATTGTAATTTTGTATGAATATCAT-AATTTTTT-TATGAATATTGTAATGTTGTATGAATAT
1 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAAT-AT-TAT-AATTT
37892894 TG--T-AATATTGC-ATTTTTTGTATGAATATTGT
63 TGTATGAATATTGCAATTTTTTGTATGAATATTGT
37892925 AATATTGTAATTTTGTATGAATATTATAA
1 AATATTGTAATTTTGTATGAATATTATAA
37892954 TGTGGGGATA
Statistics
Matches: 201, Mismatches: 15, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
94 46 0.23
95 22 0.11
96 8 0.04
97 119 0.59
98 6 0.03
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (97 bp):
AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGT
ATGAATATTGCAATTTTTTGTATGAATATTGT
Found at i:37892949 original size:74 final size:74
Alignment explanation
Indices: 37892861--37893001 Score: 205
Period size: 74 Copynumber: 1.9 Consensus size: 74
37892851 ATATCATAAT
* * * *
37892861 TTTTTTATGAATATTGTAATGTTGTATGA-ATATTGTAATATTG-CATTTTTTGTATGAATATTG
1 TTTTGTATGAATATTATAATG-TG-AGGATATATTGTAATATTGTAATTTTTTGTATGAATATTG
37892924 TAATATTGTAA
64 TAATATTGTAA
*
37892935 TTTTGTATGAATATTATAATGTGGGGATATATTGTAATATTGTAATTTTTTGTATGAATATTGTA
1 TTTTGTATGAATATTATAATGTGAGGATATATTGTAATATTGTAATTTTTTGTATGAATATTGTA
37893000 AT
66 AT
37893002 TATTTTATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
72 2 0.03
73 16 0.27
74 42 0.70
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (74 bp):
TTTTGTATGAATATTATAATGTGAGGATATATTGTAATATTGTAATTTTTTGTATGAATATTGTA
ATATTGTAA
Found at i:37893085 original size:27 final size:27
Alignment explanation
Indices: 37893054--37893105 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
37893044 ATATTTTGTT
37893054 CACCATTGGCGCCTCCCAAATAGGCAC
1 CACCATTGGCGCCTCCCAAATAGGCAC
* *
37893081 CACCATTGGCGCCTTCCAGATAGGC
1 CACCATTGGCGCCTCCCAAATAGGC
37893106 GCCAATACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.17
Consensus pattern (27 bp):
CACCATTGGCGCCTCCCAAATAGGCAC
Found at i:37894715 original size:26 final size:23
Alignment explanation
Indices: 37894676--37894731 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 23
37894666 CACCGGATTC
37894676 CCCTCTCTTCTCTTTCCTTCTCTCTT
1 CCCTCTCTTCTCTTT--TTCTCT-TT
*
37894702 CCCTCTC-TCTTCTTTTTTTCTTT
1 CCCTCTCTTC-TCTTTTTCTCTTT
37894725 CCCTCTC
1 CCCTCTC
37894732 CCCAAATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 9 0.32
24 5 0.18
25 2 0.07
26 12 0.43
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (23 bp):
CCCTCTCTTCTCTTTTTCTCTTT
Found at i:37895210 original size:3 final size:3
Alignment explanation
Indices: 37895176--37895238 Score: 54
Period size: 3 Copynumber: 20.3 Consensus size: 3
37895166 AATATCCTTG
* * * *
37895176 TTA TTT TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* *
37895222 GTA TATA TTT TTA TTA T
1 TTA T-TA TTA TTA TTA T
37895239 GTATGTGTAT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
3 40 0.87
4 6 0.13
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:37895249 original size:23 final size:23
Alignment explanation
Indices: 37895182--37895242 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
37895172 CTTGTTATTT
*
37895182 TTATTAGTAT-TATTAGTATTACTA
1 TTATTATTATGTATTAGTA-TA-TA
37895206 TTATTATTATGTATTAGTATATA
1 TTATTATTATGTATTAGTATATA
*
37895229 TTTTTATTATGTAT
1 TTATTATTATGTAT
37895243 GTGTATACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 15 0.44
24 11 0.32
25 8 0.24
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (23 bp):
TTATTATTATGTATTAGTATATA
Found at i:37899552 original size:15 final size:16
Alignment explanation
Indices: 37899534--37899564 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
37899524 GACATTCATG
37899534 CATTCATTCA-TGCAT
1 CATTCATTCATTGCAT
37899549 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
37899565 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (16 bp):
CATTCATTCATTGCAT
Found at i:37908770 original size:72 final size:72
Alignment explanation
Indices: 37908446--37909579 Score: 1342
Period size: 72 Copynumber: 15.4 Consensus size: 72
37908436 AGGTATTTTT
* * * * * * * *
37908446 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAGTTTAT-A
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
37908509 TTTT--A
66 TTTTCAA
** *
37908514 AATTGACTCATATTGCGA-A-ATGAGTTGAGCCTCAGG--ACGCTGAGGTAATTTCAATTT-TGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
37908574 TTTTCAA
66 TTTTCAA
*
37908581 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
*
37908645 TTGTCAAAAA
66 TTTTC---AA
** *
37908655 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
37908720 TTTTCAA
66 TTTTCAA
* * *
37908727 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCCCAGGACACGCCGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
***
37908792 TGTAAAAAAA
66 T-T--TTCAA
* ** * *
37908802 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
37908867 TTTTCAAGA
66 TTTTC-A-A
* * *
37908876 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCTGTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA---T-TT
37908941 CAATTTTGTTTTTCAA
62 C-----TGTTTTTCAA
*
37908957 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
37909022 TTTTCAA
66 TTTTCAA
*
37909029 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
***
37909094 TTCAAAA
66 TTTTCAA
** *
37909101 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
37909166 TTTTCAA
66 TTTTCAA
37909173 AATCAACTCATATTGC-AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTCAATTTCTG
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTTCAATTTCTG
*
37909237 -TTGTCAAAAA
65 TTTTTC---AA
* ** * *
37909247 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGA
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
37909312 TTTTCAAGAA
66 TTTTC---AA
* *
37909322 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-----T-AA----T-T
*
37909387 TCAATTTATGTTTTTCAAA
55 TCAATTTCTGTTTTTC-AA
37909406 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
37909471 TTTTTCAAA
65 TTTTTC-AA
* * * * *
37909480 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTCAAATTCT-A
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
*
37909543 CTTTCAA
66 TTTTCAA
*
37909550 AATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATCAACTCATATTGCGAGAGGTGAGTTGA
37909580 ACCTTTTAAT
Statistics
Matches: 940, Mismatches: 81, Indels: 88
0.85 0.07 0.08
Matches are distributed among these distances:
64 1 0.00
65 21 0.02
66 13 0.01
67 19 0.02
68 17 0.02
69 16 0.02
70 31 0.03
71 66 0.07
72 233 0.25
73 35 0.04
74 196 0.21
75 151 0.16
77 3 0.00
78 6 0.01
79 1 0.00
80 1 0.00
81 57 0.06
82 1 0.00
83 7 0.01
84 49 0.05
85 1 0.00
86 15 0.02
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (72 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
TTTTCAA
Found at i:37909549 original size:159 final size:159
Alignment explanation
Indices: 37909244--37909536 Score: 475
Period size: 159 Copynumber: 1.9 Consensus size: 159
37909234 CTGTTGTCAA
* *
37909244 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
**
37909309 TGATTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TGATTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTAT
37909374 TTTCAATTCCTGTTCAATTTATGTTTTTC
131 TTTCAATTCCTGTTCAATTTATGTTTTTC
* *
37909403 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
* * *
37909468 TGTTTTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCCGAGGTA
66 TG-ATTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTA
37909530 TTTTCAA
130 TTTTCAA
37909537 ATTCTACTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
157 18 0.15
158 37 0.30
159 64 0.52
160 5 0.04
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (159 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
TGATTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTAT
TTTCAATTCCTGTTCAATTTATGTTTTTC
Found at i:37909747 original size:50 final size:50
Alignment explanation
Indices: 37909682--37909779 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
37909672 TGTTTTAATT
* * * *
37909682 TCAACTCATATTGCGA-GAGGTGAGTTGAGCCTC-GGGTCACATGCCGAGAG
1 TCAACTCATACTGCGAGGA-ATGAGTTGA-ACTCAGGATCACATGCCGAGAG
*
37909732 TCAATTCATACTGCGAGGAATGAGTTGAACTCAGGATCACATGCCGAG
1 TCAACTCATACTGCGAGGAATGAGTTGAACTCAGGATCACATGCCGAG
37909780 TAAGAATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
49 3 0.07
50 36 0.88
51 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
TCAACTCATACTGCGAGGAATGAGTTGAACTCAGGATCACATGCCGAGAG
Found at i:37911021 original size:11 final size:12
Alignment explanation
Indices: 37910989--37911021 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
37910979 ATTCCCCTCT
37910989 CTTCTCT-TTCC
1 CTTCTCTCTTCC
37911000 CTTCTCTCTTCC
1 CTTCTCTCTTCC
37911012 C-TCTCTCTTC
1 CTTCTCTCTTC
37911022 TTTTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (12 bp):
CTTCTCTCTTCC
Found at i:37911523 original size:3 final size:3
Alignment explanation
Indices: 37911484--37911549 Score: 51
Period size: 3 Copynumber: 21.3 Consensus size: 3
37911474 AATATCCTTG
* * * * *
37911484 TTA TTT TTA TTA GTA TTA TTA GTA TTA CTA TTG TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
37911530 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
37911550 GTACGTGTAT
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:37911662 original size:3 final size:3
Alignment explanation
Indices: 37911649--37911684 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
37911639 TATTCCAATG
* *
37911649 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37911685 GTTTATGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37917655 original size:27 final size:27
Alignment explanation
Indices: 37917604--37917808 Score: 209
Period size: 27 Copynumber: 7.6 Consensus size: 27
37917594 TTTGGTTAAT
*
37917604 TACATAACTTACAAAAATTAAATAACT
1 TACATAACTTACATAAATTAAATAACT
* * *
37917631 TACATAAATTA-AGTAACTTACATAACT
1 TACATAACTTACA-TAAATTAAATAACT
* * ** **
37917658 TACATAAATTAAATATCTTGCATAACT
1 TACATAACTTACATAAATTAAATAACT
*
37917685 TACATAAATTA-AGTAAATTAAATAACT
1 TACATAACTTACA-TAAATTAAATAACT
* *
37917712 TACAAAAATTA-AGTAAATTAAATAACT
1 TACATAACTTACA-TAAATTAAATAACT
*
37917739 TACATAACTTACATAAATTAAATATCT
1 TACATAACTTACATAAATTAAATAACT
* *
37917766 TACATAACTTACATAAATTAAGTAAAT
1 TACATAACTTACATAAATTAAATAACT
*
37917793 TAAATAACTTACATAA
1 TACATAACTTACATAA
37917809 CTCACATAAT
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 152 0.97
28 2 0.01
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (27 bp):
TACATAACTTACATAAATTAAATAACT
Found at i:37917656 original size:9 final size:9
Alignment explanation
Indices: 37917603--37917817 Score: 168
Period size: 9 Copynumber: 23.9 Consensus size: 9
37917593 ATTTGGTTAA
37917603 TTACATAAC
1 TTACATAAC
* *
37917612 TTACAAAAA
1 TTACATAAC
*
37917621 TTAAATAAC
1 TTACATAAC
*
37917630 TTACATAAA
1 TTACATAAC
37917639 TTA-AGTAAC
1 TTACA-TAAC
37917648 TTACATAAC
1 TTACATAAC
*
37917657 TTACATAAA
1 TTACATAAC
* *
37917666 TTAAATATC
1 TTACATAAC
*
37917675 TTGCATAAC
1 TTACATAAC
*
37917684 TTACATAAA
1 TTACATAAC
*
37917693 TTA-AGTAAA
1 TTACA-TAAC
*
37917702 TTAAATAAC
1 TTACATAAC
* *
37917711 TTACAAAAA
1 TTACATAAC
*
37917720 TTA-AGTAAA
1 TTACA-TAAC
*
37917729 TTAAATAAC
1 TTACATAAC
37917738 TTACATAAC
1 TTACATAAC
*
37917747 TTACATAAA
1 TTACATAAC
* *
37917756 TTAAATATC
1 TTACATAAC
37917765 TTACATAAC
1 TTACATAAC
*
37917774 TTACATAAA
1 TTACATAAC
*
37917783 TTA-AGTAAA
1 TTACA-TAAC
*
37917792 TTAAATAAC
1 TTACATAAC
37917801 TTACATAAC
1 TTACATAAC
*
37917810 TCACATAA
1 TTACATAA
37917818 TGATGTAGTA
Statistics
Matches: 164, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
8 4 0.02
9 156 0.95
10 4 0.02
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (9 bp):
TTACATAAC
Found at i:37917809 original size:36 final size:36
Alignment explanation
Indices: 37917603--37917817 Score: 191
Period size: 36 Copynumber: 6.5 Consensus size: 36
37917593 ATTTGGTTAA
* * * * *
37917603 TTACATAACTTACAAAAATTAAATAACTTACATAAA
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
* *
37917639 TTA-AGTAACTTACATAACTTACA-TAAATTAAATATC
1 TTACA-TAACTTACATAAATTA-AGTAAATTAAATAAC
*
37917675 TTGCATAACTTACATAAATTAAGTAAATTAAATAAC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
37917711 -T---T-AC--A-A-AAATTAAGTAAATTAAATAAC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
37917738 TTACATAACTTACATAAATT-A--A-A-T--AT--C
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
37917765 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAAC
*
37917801 TTACATAACTCACATAA
1 TTACATAACTTACATAA
37917818 TGATGTAGTA
Statistics
Matches: 147, Mismatches: 10, Indels: 44
0.73 0.05 0.22
Matches are distributed among these distances:
27 42 0.29
28 3 0.02
29 3 0.02
30 1 0.01
31 5 0.03
32 5 0.03
33 1 0.01
34 3 0.02
35 5 0.03
36 77 0.52
37 2 0.01
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (36 bp):
TTACATAACTTACATAAATTAAGTAAATTAAATAAC
Found at i:37923379 original size:12 final size:12
Alignment explanation
Indices: 37923358--37923418 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
37923348 AACAGAGGTC
*
37923358 GCAGCAAGAGAA
1 GCAGCGAGAGAA
37923370 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
37923382 GCA--GAG-GCCA
1 GCAGCGAGAG-AA
*
37923392 -CAGCGAAAGAA
1 GCAGCGAGAGAA
37923403 GCAGCGAGAGAA
1 GCAGCGAGAGAA
37923415 GCAG
1 GCAG
37923419 AGGTTCAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
9 3 0.08
10 4 0.10
11 3 0.08
12 29 0.74
ACGTcount: A:0.43, C:0.20, G:0.38, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:37923403 original size:33 final size:33
Alignment explanation
Indices: 37923343--37923421 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 33
37923333 CGGCTACAGT
* *
37923343 GAGAGAA-CAGAGGTCGCAGCAAGAGAAGCAGC
1 GAGAGAAGCAGAGGCCACAGCAAGAGAAGCAGC
37923375 GAGAGAAGCAGAGGCCACAGCGAA-AGAAGCAGC
1 GAGAGAAGCAGAGGCCACAGC-AAGAGAAGCAGC
37923408 GAGAGAAGCAGAGG
1 GAGAGAAGCAGAGG
37923422 TTCAAAAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
32 7 0.16
33 34 0.79
34 2 0.05
ACGTcount: A:0.42, C:0.18, G:0.39, T:0.01
Consensus pattern (33 bp):
GAGAGAAGCAGAGGCCACAGCAAGAGAAGCAGC
Found at i:37923890 original size:42 final size:43
Alignment explanation
Indices: 37923825--37923917 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 43
37923815 TCAAAACAGT
* *
37923825 GGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTTTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGA
* *
37923868 GGCGTTTTTG-AATAAGCGCCGCTATAGAACATTACTTTTAGA
1 GGCGTTTTTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGA
37923910 GGCGTTTT
1 GGCGTTTT
37923918 CTTCCATGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 37 0.80
43 9 0.20
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
GGCGTTTTTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGA
Found at i:37923975 original size:67 final size:66
Alignment explanation
Indices: 37923862--37923988 Score: 157
Period size: 67 Copynumber: 1.9 Consensus size: 66
37923852 GAACACTACT
* *
37923862 TTTAGCGGCGTTTTTGAATAAGCGCCGCTATAGAACATTACTTTTAGAGGCGTTTTCTTCCATGT
1 TTTAGCGGCGTTTTTGAATAAGCGCCGCTAAAGAACATGACTTTTAGAGGCGTTTT-TTCCATGT
37923927 TC
65 TC
* *** * *
37923929 TTTAGCGGTGTTTTTTCCTAAGCGTCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTCC
1 TTTAGCGGCGTTTTTGAATAAGCGCCGCTAAAGAACATGACT-TTTAGAGGCGTTTTTTCC
37923989 TAAGCGCCGC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
66 5 0.10
67 46 0.90
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (66 bp):
TTTAGCGGCGTTTTTGAATAAGCGCCGCTAAAGAACATGACTTTTAGAGGCGTTTTTTCCATGTT
C
Found at i:37924071 original size:42 final size:42
Alignment explanation
Indices: 37923922--37924070 Score: 253
Period size: 42 Copynumber: 3.5 Consensus size: 42
37923912 CGTTTTCTTC
* * *
37923922 CATGTTCTTTAGCGGTGTTTTTTCCTAAGCGTCGCTAAAGAA
1 CATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAA
*
37923964 CATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAG
1 CATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAA
*
37924006 CATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
1 CATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAA
37924048 CATGATCTTTAGCGGCGTTTTTT
1 CATGATCTTTAGCGGCGTTTTTT
37924071 TATGTAAGCG
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 101 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (42 bp):
CATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAA
Found at i:37924186 original size:21 final size:21
Alignment explanation
Indices: 37924160--37924202 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37924150 TTAGTGGCGT
* * *
37924160 TAAAAAGCTCCGCTAAAGACC
1 TAAAAAACGCCGCTAAAAACC
37924181 TAAAAAACGCCGCTAAAAACC
1 TAAAAAACGCCGCTAAAAACC
37924202 T
1 T
37924203 GTTCTACTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.28, G:0.12, T:0.14
Consensus pattern (21 bp):
TAAAAAACGCCGCTAAAAACC
Found at i:37927884 original size:37 final size:37
Alignment explanation
Indices: 37927823--37927901 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
37927813 TTATTACGAA
* * *
37927823 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGAAAAAATCTCCACACGAAGTCATCGG
*
37927860 GTCTTACCCGGAAAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGGAAAAAATCT-CCACACGAAGTCATCGG
37927897 GTCTT
1 GTCTT
37927902 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGAAAAAATCTCCACACGAAGTCATCGG
Found at i:37928098 original size:47 final size:47
Alignment explanation
Indices: 37928020--37928513 Score: 763
Period size: 47 Copynumber: 10.5 Consensus size: 47
37928010 CCCTTCGGGA
* * * * * * *
37928020 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37928067 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37928114 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37928161 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37928208 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37928255 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37928302 CTTATCACACATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37928349 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37928398 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37928445 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37928492 CTTATCACATATATATACTTTC
1 CTTATCACATATATACACTTTC
37928514 TTGGCTGAAT
Statistics
Matches: 419, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 374 0.89
49 45 0.11
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37928406 original size:143 final size:143
Alignment explanation
Indices: 37928075--37928509 Score: 766
Period size: 143 Copynumber: 3.1 Consensus size: 143
37928065 GCCCTGTCAC
*
37928075 ATATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
* * * *
37928140 TCATCACATCGGCCATTAGGTCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTA
66 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
37928205 GGCCTTATCAC--
131 GGCCTTATCACAT
* *
37928216 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
*
37928281 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACTATTA
66 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
37928346 GGCCTTATCACAT
131 GGCCTTATCACAT
*
37928359 ATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
*
37928424 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
37928489 GGCCTTATCACAT
131 GGCCTTATCACAT
37928502 ATATATAC
1 ATATATAC
37928510 TTTCTTGGCT
Statistics
Matches: 279, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 133 0.48
143 146 0.52
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
GGCCTTATCACAT
Found at i:37932538 original size:22 final size:22
Alignment explanation
Indices: 37932510--37932585 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
37932500 GTGTATATAT
37932510 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
37932532 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
37932557 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
37932579 ATGTGAT
1 ATGTGAT
37932586 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:37932546 original size:47 final size:47
Alignment explanation
Indices: 37932505--37933089 Score: 999
Period size: 47 Copynumber: 12.3 Consensus size: 47
37932495 TGTGAGTGTA
37932505 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
37932552 TGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
37932599 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
37932648 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
37932695 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
37932742 TATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
37932791 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
37932838 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
37932885 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
37932934 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
37932981 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
37933028 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
37933075 TATAAATGTGATAAG
1 TATATATGTGATAAG
37933090 TCCCGAAGGG
Statistics
Matches: 512, Mismatches: 20, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
47 373 0.73
49 139 0.27
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:37932621 original size:96 final size:96
Alignment explanation
Indices: 37932499--37933089 Score: 1000
Period size: 96 Copynumber: 6.2 Consensus size: 96
37932489 TTGTGATGTG
*
37932499 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
37932564 AAGGCCTAATGGCCGATGTGATGAATGTGAA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAA
37932595 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
37932660 AAGGCCTAATGGCCGATGTGATGAATGTGAA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAA
37932691 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
*
37932754 ATAAGGCTTAATGGCCGATGTGATGAATGTGAA
64 ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
37932787 AGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
37932850 AAGGCCTAATGGCCGATGTGATGAATGTGAA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAA
37932881 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
*
37932946 AAGGCCTAATAGCCGATGTGATGAATGTGAA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
37932977 AGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
* * * * * *
37933040 AGGGCCGAGTGGCCAACGTGATGGATGTGAA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAA
37933071 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
37933090 TCCCGAAGGG
Statistics
Matches: 473, Mismatches: 16, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
94 187 0.40
95 1 0.00
96 285 0.60
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:37932716 original size:143 final size:143
Alignment explanation
Indices: 37932505--37933089 Score: 1039
Period size: 143 Copynumber: 4.1 Consensus size: 143
37932495 TGTGAGTGTA
* *
37932505 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
37932570 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
37932635 GAATGTGAAAGTG
131 GAATGTGAAAGTG
*
37932648 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
37932713 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
37932778 GAATGTGAAAGTG
131 GAATGTGAAAGTG
37932791 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
37932856 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
37932921 GAATGTGAAAGTG
131 GAATGTGAAAGTG
*
37932934 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
37932999 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
37933062 GGATGTGAAAGTG
131 GAATGTGAAAGTG
*
37933075 TATAAATGTGATAAG
1 TATATATGTGATAAG
37933090 TCCCGAAGGG
Statistics
Matches: 429, Mismatches: 13, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
141 54 0.13
143 375 0.87
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTG
Found at i:37940859 original size:13 final size:13
Alignment explanation
Indices: 37940841--37940874 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
37940831 GAACACTAAA
37940841 TTTTTATAATAAT
1 TTTTTATAATAAT
*
37940854 TTTTTAAAATAAT
1 TTTTTATAATAAT
37940867 TATTTTAT
1 T-TTTTAT
37940875 TTAAATTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTATAATAAT
Found at i:37946776 original size:22 final size:21
Alignment explanation
Indices: 37946745--37946786 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
37946735 ATTTAGATAA
37946745 AAAATTAAATA-AATAACTAAG
1 AAAATTAAATAGAAT-ACTAAG
37946766 AAAATTAAAATAGAATACTAA
1 AAAATT-AAATAGAATACTAA
37946787 ATTTACAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 10 0.53
23 3 0.16
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (21 bp):
AAAATTAAATAGAATACTAAG
Found at i:37961871 original size:41 final size:43
Alignment explanation
Indices: 37961764--37961882 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
37961754 AGATGTGATT
37961764 TCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAGA
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAGA
* * *
37961807 ACGTGTAAGACCATGTCTAGGACATTGGCATCGTA-T-ATGAG-
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGA-GAGA
* * *
37961848 TCGTATAAGACCCTGTCTGGGACAGTGGCATCGAA
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGAA
37961883 ATGTGCTAGC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 30 0.45
42 4 0.06
43 32 0.48
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAGA
Found at i:37976785 original size:95 final size:95
Alignment explanation
Indices: 37976665--37976853 Score: 308
Period size: 95 Copynumber: 2.0 Consensus size: 95
37976655 TAGTGTACAA
*
37976665 TAAGTGTAACCAACACATACCAAATCACGCATTCATTTACACACTAATTATAACATCGACCATAT
1 TAAGTGTAACCAAAACATACCAAATCACGCATTCATTTACACACTAATTATAACATC-ACCATAT
37976730 TCCCATGCTAC-AATGCTCACACAATCAAAG
65 TCCCATGCTACAAATGCTCACACAATCAAAG
* *
37976760 TAAGTGTAATCAAAACATACCAAATCACGCATTCATTTACACACTAATTATAACATCATCATATT
1 TAAGTGTAACCAAAACATACCAAATCACGCATTCATTTACACACTAATTATAACATCACCATATT
* * *
37976825 TCCATGTTACAAATGCTCATACAATCAAA
66 CCCATGCTACAAATGCTCACACAATCAAA
37976854 CATATGTTCC
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 15 0.17
95 72 0.83
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.27
Consensus pattern (95 bp):
TAAGTGTAACCAAAACATACCAAATCACGCATTCATTTACACACTAATTATAACATCACCATATT
CCCATGCTACAAATGCTCACACAATCAAAG
Found at i:37983263 original size:26 final size:24
Alignment explanation
Indices: 37983229--37983288 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 24
37983219 TATTCATGTG
37983229 TTTTC-TTTTCG-TTTCATTTTTAT
1 TTTTCTTTTTCGTTTTC-TTTTTAT
*
37983252 TTTGTCTATTTTTGTTTTCTTTTTAT
1 TTT-TCT-TTTTCGTTTTCTTTTTAT
37983278 TTTTCTTTTTC
1 TTTTCTTTTTC
37983289 TTGAGAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 3 0.10
24 6 0.19
25 3 0.10
26 15 0.48
27 4 0.13
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.77
Consensus pattern (24 bp):
TTTTCTTTTTCGTTTTCTTTTTAT
Found at i:37983280 original size:11 final size:12
Alignment explanation
Indices: 37983240--37983287 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
37983230 TTTCTTTTCG
37983240 TTTCATTTTTATT
1 TTTC-TTTTTATT
37983253 TTGTCTATTTT-TGT
1 TT-TCT-TTTTAT-T
37983267 TTTCTTTTTATT
1 TTTCTTTTTATT
37983279 TTTCTTTTT
1 TTTCTTTTT
37983288 CTTGAGAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
12 14 0.45
13 8 0.26
14 9 0.29
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTATT
Found at i:37986854 original size:20 final size:20
Alignment explanation
Indices: 37986810--37986848 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
37986800 AAAATTAAAG
*
37986810 ACGAGCTCGATTGAGCTGAA
1 ACGAGCTCGATGGAGCTGAA
37986830 ACGAGCTC-ATGGAGCTGAA
1 ACGAGCTCGATGGAGCTGAA
37986849 TTCGAGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.18
Consensus pattern (20 bp):
ACGAGCTCGATGGAGCTGAA
Found at i:37992214 original size:17 final size:17
Alignment explanation
Indices: 37992192--37992225 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37992182 ATTTGAATAG
37992192 TACTTATGAATAATTAA
1 TACTTATGAATAATTAA
37992209 TACTTATGAATAATTAA
1 TACTTATGAATAATTAA
37992226 ATTTGTAAGA
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:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
TACTTATGAATAATTAA
Found at i:38001198 original size:7 final size:7
Alignment explanation
Indices: 38001181--38001237 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
38001171 TGAGTCAGAA
38001181 AAAATATG
1 AAAA-ATG
38001189 AAAAATG
1 AAAAATG
38001196 AAAAAATG
1 -AAAAATG
38001204 -AAAATG
1 AAAAATG
*
38001210 AAAAATT
1 AAAAATG
*
38001217 AAAAATT
1 AAAAATG
*
38001224 AAAAATT
1 AAAAATG
38001231 AAAAATG
1 AAAAATG
38001238 GAGAGGCTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
6 6 0.13
7 28 0.62
8 11 0.24
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (7 bp):
AAAAATG
Found at i:38001211 original size:21 final size:21
Alignment explanation
Indices: 38001181--38001237 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
38001171 TGAGTCAGAA
38001181 AAAATATGAAAAATGAAAAAAT
1 AAAA-ATGAAAAATGAAAAAAT
* * *
38001203 GAAAATGAAAAATTAAAAATT
1 AAAAATGAAAAATGAAAAAAT
*
38001224 AAAAATTAAAAATG
1 AAAAATGAAAAATG
38001238 GAGAGGCTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (21 bp):
AAAAATGAAAAATGAAAAAAT
Found at i:38001229 original size:14 final size:14
Alignment explanation
Indices: 38001189--38001237 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
38001179 AAAAAATATG
*
38001189 AAAAATGAAAAAAT
1 AAAAATGAAAAATT
*
38001203 GAAAATGAAAAATT
1 AAAAATGAAAAATT
*
38001217 AAAAATTAAAAATT
1 AAAAATGAAAAATT
38001231 AAAAATG
1 AAAAATG
38001238 GAGAGGCTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.20
Consensus pattern (14 bp):
AAAAATGAAAAATT
Found at i:38002538 original size:44 final size:44
Alignment explanation
Indices: 38002475--38002726 Score: 425
Period size: 44 Copynumber: 5.7 Consensus size: 44
38002465 AAATCATAAA
*
38002475 CCTAGCTCACTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
38002519 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
38002563 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGAAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
38002607 CCTAGCTCTCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
38002651 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAATT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
** *
38002695 CCTATATCCCT-AGTCAGCAGTGGAATAGGTTG
1 CCTAGCTCCCTGA-CCAGCAGTGGAATAGGTTG
38002727 GGAAATTACA
Statistics
Matches: 198, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
43 1 0.01
44 197 0.99
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (44 bp):
CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
Found at i:38002851 original size:129 final size:129
Alignment explanation
Indices: 38002690--38003074 Score: 594
Period size: 129 Copynumber: 3.0 Consensus size: 129
38002680 TTGAAGATTG
* *
38002690 CAATTCCTATATCCCTAGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGT
1 CAATTCCTATATCCATGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGT
* *
38002755 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTCAGGAAGCAGATTTAAGTCA
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* *
38002819 CAATTCCTATATCCATGGTCAGCAGTGGAATAGGTTGGAAAATTACAGATCTTGTCTCCTTAAGT
1 CAATTCCTATATCCATGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGT
38002884 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* * * * *
38002948 CAAGTCCTATGTCCTTGGTCAGCAGTGGAATAAGTT-GGAAATTACAGATCTTGTCTCCCTAAGC
1 CAATTCCTATATCCATGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGT
* * * ** *
38003012 AGTA-CTGGAGTAGATCGAAGATGGCGAATCCTATCTTCAAGCATAAGGAAGCAGATTGAAGCC
66 AGTAGC-GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
38003075 GATAATCCTA
Statistics
Matches: 236, Mismatches: 19, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
127 1 0.00
128 80 0.34
129 155 0.66
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (129 bp):
CAATTCCTATATCCATGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGT
AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
Found at i:38012206 original size:20 final size:20
Alignment explanation
Indices: 38012183--38012233 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
38012173 GTATTCTCTA
38012183 AGAAATTTTGGAATTCCGTT-
1 AGAAATTTTGGAATTCC-TTC
* * *
38012203 AGAATTTTTCGTATTCCTTC
1 AGAAATTTTGGAATTCCTTC
*
38012223 AAAAATTTTGG
1 AGAAATTTTGG
38012234 TTTTGAAATG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (20 bp):
AGAAATTTTGGAATTCCTTC
Found at i:38014518 original size:28 final size:28
Alignment explanation
Indices: 38014486--38014540 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
38014476 AATATATAGA
*
38014486 TGCACCGAAGTACAATAACTAAACAAAG
1 TGCACCGAAGTACAATAACAAAACAAAG
* *
38014514 TGCACCGAAGTGCAATATCAAAACAAA
1 TGCACCGAAGTACAATAACAAAACAAA
38014541 ATGGCACTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.49, C:0.22, G:0.15, T:0.15
Consensus pattern (28 bp):
TGCACCGAAGTACAATAACAAAACAAAG
Found at i:38017332 original size:11 final size:11
Alignment explanation
Indices: 38017318--38017350 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
38017308 ATTTTTTTTC
38017318 GAATTAGATAA
1 GAATTAGATAA
38017329 GAATTAGATAA
1 GAATTAGATAA
38017340 GAATTAGATAA
1 GAATTAGATAA
38017351 AATAAATAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (11 bp):
GAATTAGATAA
Found at i:38023140 original size:51 final size:51
Alignment explanation
Indices: 38023049--38023361 Score: 331
Period size: 51 Copynumber: 6.1 Consensus size: 51
38023039 GAAAGGTCAA
* * * * *
38023049 TGAACTATATATGCAAAGTATCTGCATACTGATTACGTAAAGTTCTATGCG
1 TGAACTATCTATGCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
* * *
38023100 TGAACTATCTATACAAAGTATGTGCGTACTAATTATGTAAAGTTCTATGTT
1 TGAACTATCTATGCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
* * * *
38023151 TGAATTATCTATGCAAAGTATGTGCATACTAGTTATGTGACA-TTCTATATG
1 TGAACTATCTATGCAAAGTATGTGCATACTAATTATGT-AAAGTTCTATGTG
* * ** * * ** * *
38023202 TGAATTGTCTATAAAAAGTATGTCCGTACTGGTTATGTAAAGTTTTATGTA
1 TGAACTATCTATGCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
* * *
38023253 TGAACTGTGTATGCAAAGTATGTGCATACTAATTATGTAAAGTTTTATGTG
1 TGAACTATCTATGCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
* * * * *
38023304 TGAATTGTCTATGCAAAGGATGTGCGTACTAATTATGTAAAGTTCTATATG
1 TGAACTATCTATGCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
*
38023355 TGCACTA
1 TGAACTA
38023362 GCACTGTAGC
Statistics
Matches: 217, Mismatches: 43, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
50 2 0.01
51 213 0.98
52 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (51 bp):
TGAACTATCTATGCAAAGTATGTGCATACTAATTATGTAAAGTTCTATGTG
Found at i:38023238 original size:102 final size:102
Alignment explanation
Indices: 38023048--38023351 Score: 387
Period size: 102 Copynumber: 3.0 Consensus size: 102
38023038 GGAAAGGTCA
* * * * *
38023048 ATGAACTATATATGCAAAGTATCTGCATACT-GATTACGTAAAGTTCTATGCGTGAACTATCTAT
1 ATGAACTATATATGCAAAGTATGTGCATACTAG-TTATGTAAAGTTCTATGTGTGAATTGTCTAT
38023112 ACAAAGTATGTGCGTACTAATTATGTAAAGTTCTATGT
65 ACAAAGTATGTGCGTACTAATTATGTAAAGTTCTATGT
* * * * *
38023150 TTGAATTATCTATGCAAAGTATGTGCATACTAGTTATGTGACA-TTCTATATGTGAATTGTCTAT
1 ATGAACTATATATGCAAAGTATGTGCATACTAGTTATGT-AAAGTTCTATGTGTGAATTGTCTAT
* * ** *
38023214 AAAAAGTATGTCCGTACTGGTTATGTAAAGTTTTATGT
65 ACAAAGTATGTGCGTACTAATTATGTAAAGTTCTATGT
* * * * *
38023252 ATGAACTGTGTATGCAAAGTATGTGCATACTAATTATGTAAAGTTTTATGTGTGAATTGTCTATG
1 ATGAACTATATATGCAAAGTATGTGCATACTAGTTATGTAAAGTTCTATGTGTGAATTGTCTATA
*
38023317 CAAAGGATGTGCGTACTAATTATGTAAAGTTCTAT
66 CAAAGTATGTGCGTACTAATTATGTAAAGTTCTAT
38023352 ATGTGCACTA
Statistics
Matches: 169, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
101 2 0.01
102 164 0.97
103 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (102 bp):
ATGAACTATATATGCAAAGTATGTGCATACTAGTTATGTAAAGTTCTATGTGTGAATTGTCTATA
CAAAGTATGTGCGTACTAATTATGTAAAGTTCTATGT
Found at i:38023341 original size:153 final size:153
Alignment explanation
Indices: 38023075--38023356 Score: 404
Period size: 153 Copynumber: 1.8 Consensus size: 153
38023065 AGTATCTGCA
* *
38023075 TACTGATTACGTAAAGTTCTATGCGTGAACTATCTATACAAAGTATGTGCGTACTAATTATGTAA
1 TACTGATTACGTAAAGTTCTATGCATGAACTATCTATACAAAGTATGTGCATACTAATTATGTAA
* * * *
38023140 AGTTCTATGTTTGAATTATCTATGCAAAGTATGTGCATACTAGTTATGTGACA-TTCTATATGTG
66 AGTTCTATGTGTGAATTATCTATGCAAAGGATGTGCATACTAATTATGT-AAAGTTCTATATGTG
38023204 AATTGTCTATAAAAAGTATGTCCG
130 AATTGTCTATAAAAAGTATGTCCG
* * * * * * *
38023228 TACTGGTTATGTAAAGTTTTATGTATGAACTGTGTATGCAAAGTATGTGCATACTAATTATGTAA
1 TACTGATTACGTAAAGTTCTATGCATGAACTATCTATACAAAGTATGTGCATACTAATTATGTAA
* * *
38023293 AGTTTTATGTGTGAATTGTCTATGCAAAGGATGTGCGTACTAATTATGTAAAGTTCTATATGTG
66 AGTTCTATGTGTGAATTATCTATGCAAAGGATGTGCATACTAATTATGTAAAGTTCTATATGTG
38023357 CACTAGCACT
Statistics
Matches: 112, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
152 2 0.02
153 110 0.98
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (153 bp):
TACTGATTACGTAAAGTTCTATGCATGAACTATCTATACAAAGTATGTGCATACTAATTATGTAA
AGTTCTATGTGTGAATTATCTATGCAAAGGATGTGCATACTAATTATGTAAAGTTCTATATGTGA
ATTGTCTATAAAAAGTATGTCCG
Found at i:38036137 original size:37 final size:37
Alignment explanation
Indices: 38036074--38036195 Score: 165
Period size: 37 Copynumber: 3.3 Consensus size: 37
38036064 TACTCCCTAT
** *
38036074 TTTGGCGTGTTATCGGGAGGATTAGCTCTTATGAGCA
1 TTTGGCGTGTTATCGGTTGGACTAGCTCTTATGAGCA
*
38036111 TTTGGCGTGTTTTCGGTTGGACTAGCTCTT-TGGAGCA
1 TTTGGCGTGTTATCGGTTGGACTAGCTCTTAT-GAGCA
* *
38036148 ATTGGCGTGTTATCGGTTGGATTAGCTCTTATGAGCA
1 TTTGGCGTGTTATCGGTTGGACTAGCTCTTATGAGCA
*
38036185 TTTGGCATGTT
1 TTTGGCGTGTT
38036196 TTCAGTTCGA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
36 1 0.01
37 72 0.97
38 1 0.01
ACGTcount: A:0.16, C:0.14, G:0.31, T:0.39
Consensus pattern (37 bp):
TTTGGCGTGTTATCGGTTGGACTAGCTCTTATGAGCA
Found at i:38037429 original size:25 final size:26
Alignment explanation
Indices: 38037344--38037431 Score: 78
Period size: 25 Copynumber: 3.5 Consensus size: 26
38037334 CGAGCTCTAG
* * *
38037344 ATCGGTATGCTCTTACGAGCT--ATA
1 ATCGGTAAGCTCATCCGAGCTGAATA
*
38037368 AACGGTAAGCTTC-TCCGAGCTGAATA
1 ATCGGTAAGC-TCATCCGAGCTGAATA
* *
38037394 AT-GGTAAGCTCATGCGAGCTGAGT-
1 ATCGGTAAGCTCATCCGAGCTGAATA
38037418 ATCGGTAAGCTCAT
1 ATCGGTAAGCTCAT
38037432 ACGAATTGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
24 19 0.36
25 30 0.57
26 4 0.08
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (26 bp):
ATCGGTAAGCTCATCCGAGCTGAATA
Found at i:38037622 original size:36 final size:36
Alignment explanation
Indices: 38037582--38037654 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
38037572 TCTAATTCAA
*
38037582 TCAAAGCATATAATTACACAATTTAATTACACGAAC
1 TCAAAGCAAATAATTACACAATTTAATTACACGAAC
38037618 TCAAAGCAAATAATTACACAATTTAATTACACGAAC
1 TCAAAGCAAATAATTACACAATTTAATTACACGAAC
38037654 T
1 T
38037655 TACCTCGACG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.27
Consensus pattern (36 bp):
TCAAAGCAAATAATTACACAATTTAATTACACGAAC
Found at i:38039513 original size:20 final size:20
Alignment explanation
Indices: 38039485--38039525 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
38039475 AAAATAAATG
38039485 CCTTAAGAAATA-TATCGATA
1 CCTTAAGAAA-AGTATCGATA
*
38039505 CCTTCAGAAAAGTATCGATA
1 CCTTAAGAAAAGTATCGATA
38039525 C
1 C
38039526 TGGATCGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (20 bp):
CCTTAAGAAAAGTATCGATA
Found at i:38041462 original size:20 final size:21
Alignment explanation
Indices: 38041418--38041468 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
38041408 CGCAGCCTTA
*
38041418 TGTTGAGCCACAGCAGTCCTG
1 TGTTGAGCCACAGCAGACCTG
* *
38041439 TGTTGAGCCACATCA-ACTTG
1 TGTTGAGCCACAGCAGACCTG
*
38041459 TGTTGTGCCA
1 TGTTGAGCCA
38041469 TAAAGCCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.29
Consensus pattern (21 bp):
TGTTGAGCCACAGCAGACCTG
Found at i:38051864 original size:19 final size:20
Alignment explanation
Indices: 38051840--38051887 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
38051830 GATCAGTTGG
38051840 ACCTTT-GATTAATTAACAT
1 ACCTTTGGATTAATTAACAT
38051859 ACCTTTTTTGGATTAATTAACAT
1 ACC---TTTGGATTAATTAACAT
*
38051882 GCCTTT
1 ACCTTT
38051888 TTTTGACTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
22 3 0.12
23 15 0.62
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (20 bp):
ACCTTTGGATTAATTAACAT
Found at i:38051872 original size:23 final size:23
Alignment explanation
Indices: 38051846--38051890 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
38051836 TTGGACCTTT
38051846 GATTAATTAACATACCTTTTTTG
1 GATTAATTAACATACCTTTTTTG
*
38051869 GATTAATTAACATGCCTTTTTT
1 GATTAATTAACATACCTTTTTT
38051891 TGACTGATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (23 bp):
GATTAATTAACATACCTTTTTTG
Found at i:38054477 original size:50 final size:50
Alignment explanation
Indices: 38054353--38054543 Score: 220
Period size: 50 Copynumber: 3.7 Consensus size: 50
38054343 GGGAATGAGA
* *
38054353 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGTAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAGATGA-GAG--G
* *
38054409 TCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * **
38054459 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
38054509 TCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
38054544 TAGTACAGAA
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 73 0.62
52 3 0.03
53 6 0.05
55 1 0.01
56 35 0.30
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:38054811 original size:12 final size:12
Alignment explanation
Indices: 38054794--38054832 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
38054784 ATGAGTTATT
38054794 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
38054806 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
38054818 TAAGTGAGTAAG
1 TAAGTAAGCAAG
38054830 TAA
1 TAA
38054833 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:38058123 original size:23 final size:23
Alignment explanation
Indices: 38058097--38058171 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
38058087 ATAAGTGCCA
**
38058097 CACTGATATGTAGCTAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
38058120 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
38058143 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
38058166 CACTGA
1 CACTGA
38058172 GCAATAACAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:38060013 original size:15 final size:16
Alignment explanation
Indices: 38059993--38060032 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
38059983 TGTTTAGTTC
* *
38059993 TAGGGTTTTT-TGGTT
1 TAGGGTTTTTAAGATT
38060008 TAGGGTTTTTAAGATT
1 TAGGGTTTTTAAGATT
38060024 TAGGGTTTT
1 TAGGGTTTT
38060033 GTTAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (16 bp):
TAGGGTTTTTAAGATT
Found at i:38060121 original size:34 final size:34
Alignment explanation
Indices: 38060083--38060209 Score: 145
Period size: 33 Copynumber: 3.8 Consensus size: 34
38060073 GATTTATAGT
*
38060083 TTATGGTTTATGGTTTTTTTTAAAAA-TAATTAAA
1 TTATGGTTTA-GGTTTTTTTAAAAAATTAATTAAA
* * *
38060117 TTATGTTTTTGG--GTTTTAAATAAATTAATTAAA
1 TTATGGTTTAGGTTTTTTTAAA-AAATTAATTAAA
* *
38060150 TTAGGGTTTAGGGTTTTTTAAAAAATTAATTAAA
1 TTATGGTTTAGGTTTTTTTAAAAAATTAATTAAA
*
38060184 TTATGGTTTA-GTTTTTTTAAATAATT
1 TTATGGTTTAGGTTTTTTTAAAAAATT
38060210 TGATGTTTAG
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
31 6 0.08
32 3 0.04
33 33 0.42
34 29 0.37
35 7 0.09
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (34 bp):
TTATGGTTTAGGTTTTTTTAAAAAATTAATTAAA
Found at i:38060226 original size:7 final size:7
Alignment explanation
Indices: 38060214--38060263 Score: 73
Period size: 7 Copynumber: 7.1 Consensus size: 7
38060204 ATAATTTGAT
38060214 GTTTAGG
1 GTTTAGG
38060221 GTTTAGG
1 GTTTAGG
*
38060228 GTTTAGA
1 GTTTAGG
38060235 GTTTAGG
1 GTTTAGG
*
38060242 GTTTAGA
1 GTTTAGG
*
38060249 GTTTAGA
1 GTTTAGG
38060256 GTTTAGG
1 GTTTAGG
38060263 G
1 G
38060264 AAAATTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:38060238 original size:21 final size:21
Alignment explanation
Indices: 38060214--38060263 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
38060204 ATAATTTGAT
*
38060214 GTTTAGGGTTTAGGGTTTAGA
1 GTTTAGGGTTTAGAGTTTAGA
38060235 GTTTAGGGTTTAGAGTTTAGA
1 GTTTAGGGTTTAGAGTTTAGA
38060256 GTTTAGGG
1 GTTTAGGG
38060264 AAAATTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAGAGTTTAGA
Found at i:38060429 original size:126 final size:125
Alignment explanation
Indices: 38060298--38060692 Score: 533
Period size: 126 Copynumber: 3.1 Consensus size: 125
38060288 CTTTTGTTTT
* * **
38060298 TTTTTCTACAGTTGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAA-ATGGTGTCAAAA
* * ** *
38060363 ATGCTTCAAGTAGGATGCAGTGTCAACAAAATT-ACTAAAAAAAGCTCCCACGTGGATGCTC
65 ATGCTTCAAGCAGGATGCACTGTCAGTAAAATTGA-TGAAAAAAGCTCCCACGTGGATGCTC
* * * *
38060424 TTTTTCTACAGTAGATCCTGAAAAAATAATTTTGAGATGAAGGTTCTAAACAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAA-AAATGGTGTCAAAA
** * *
38060489 ACACTTAAAGCAGGATGCACTGTCAGTAAAATTGATGAAAAAAGCTCCCACGTAGACT-CTC
65 ATGCTTCAAGCAGGATGCACTGTCAGTAAAATTGATGAAAAAAGCTCCCACGTGGA-TGCTC
38060550 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAA-AAATGGTGTCAAAA
* * * *
38060615 ATGCTTCAAGCAAGATGCACTATCAGTAAAATTGATGGAAAAAGCTCCCACGTGGACGCTC
65 ATGCTTCAAGCAGGATGCACTGTCAGTAAAATTGATGAAAAAAGCTCCCACGTGGATGCTC
*
38060676 TTTTTCTATAGTAGTTC
1 TTTTTCTACAGTAGTTC
38060693 ATGTTTGGCC
Statistics
Matches: 235, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
126 231 0.98
127 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATGGTGTCAAAAA
TGCTTCAAGCAGGATGCACTGTCAGTAAAATTGATGAAAAAAGCTCCCACGTGGATGCTC
Found at i:38065850 original size:24 final size:24
Alignment explanation
Indices: 38065798--38065849 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
38065788 GACTGTTATA
38065798 AAAATTATA-AAATAAAAAGTAATT
1 AAAATTATATAAATAAAAAG-AATT
*
38065822 AAAATTATATAAATAAAAAAATATT
1 AAAATTATATAAATAAAAAGA-ATT
38065847 AAA
1 AAA
38065850 TAATATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATTATATAAATAAAAAGAATT
Found at i:38066568 original size:50 final size:50
Alignment explanation
Indices: 38066438--38066575 Score: 172
Period size: 50 Copynumber: 2.8 Consensus size: 50
38066428 TTCTGCATTT
* * * *
38066438 AATAAAGTCATGCATTATGTAACTTTCC-TATTAGTTAAGTATGCATCATA
1 AATAATGTCATGCATTATGTAAC-TCCCATGTTAGTTAAGTATACATCATA
* *
38066488 AATAATGACATGCATTATGTAACTCTCATGTTAGTTAAG-ATTACATCATA
1 AATAATGTCATGCATTATGTAACTCCCATGTTAGTTAAGTA-TACATCATA
* *
38066538 AATTATGTCATGCATTATGTAACTCCCATGTCAGTTAA
1 AATAATGTCATGCATTATGTAACTCCCATGTTAGTTAA
38066576 AGTTTGCATC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
49 3 0.04
50 73 0.96
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (50 bp):
AATAATGTCATGCATTATGTAACTCCCATGTTAGTTAAGTATACATCATA
Found at i:38066612 original size:52 final size:50
Alignment explanation
Indices: 38066442--38066614 Score: 156
Period size: 50 Copynumber: 3.4 Consensus size: 50
38066432 GCATTTAATA
* *
38066442 AAGTCATGCATTATGTAACTTTCCTAT-T-AGTTAAG-TATGCATCATAAAT-
1 AAGTCATGCATTATGTAAC--TCCCATGTCAGTTAAGAT-TACATCATAAATG
* * * *
38066491 AATGACATGCATTATGTAACTCTCATGTTAGTTAAGATTACATCATAAATT
1 AA-GTCATGCATTATGTAACTCCCATGTCAGTTAAGATTACATCATAAATG
* * * *
38066542 ATGTCATGCATTATGTAACTCCCATGTCAGTTAAAGTTTGCATCTTTAAATG
1 AAGTCATGCATTATGTAACTCCCATGTCAGTT-AAGATTACATC-ATAAATG
* *
38066594 AAGTCGTGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
38066615 ATTGTTCATT
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
48 4 0.04
49 3 0.03
50 61 0.60
51 11 0.11
52 23 0.23
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCATGTCAGTTAAGATTACATCATAAATG
Found at i:38075297 original size:31 final size:31
Alignment explanation
Indices: 38075261--38075327 Score: 127
Period size: 30 Copynumber: 2.2 Consensus size: 31
38075251 ACTACCATCT
38075261 ATTCCCCTTATTTTTATGGGTTTTTTCATTA
1 ATTCCCCTTATTTTTATGGGTTTTTTCATTA
38075292 ATT-CCCTTATTTTTATGGGTTTTTTCATTA
1 ATTCCCCTTATTTTTATGGGTTTTTTCATTA
38075322 ATTCCC
1 ATTCCC
38075328 ATTTTTCTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.16, C:0.18, G:0.09, T:0.57
Consensus pattern (31 bp):
ATTCCCCTTATTTTTATGGGTTTTTTCATTA
Found at i:38081016 original size:126 final size:126
Alignment explanation
Indices: 38080874--38081101 Score: 402
Period size: 126 Copynumber: 1.8 Consensus size: 126
38080864 TGGGTAAAAT
*
38080874 AATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATCCGTTAGCAAGTTAAT
1 AATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATCCGTTAGCAAATTAAT
*
38080939 AAAAAGATAATTTAAATGATAAATTTTGAATAGTTAAGTGATTAAATTGTAAGTTTTCATA
66 AAAAAGATAATTTAAATGATAAATTTTGAATAATTAAGTGATTAAATTGTAAGTTTTCATA
* *
38081000 AATTAGTAGTATATATGATGAATAGTGATTAAACAACTCATGTTGAGATTCGTTAGCAAATTAAT
1 AATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATCCGTTAGCAAATTAAT
* *
38081065 AAAGAGATAATTTAAGTGATAAATTTTGAATAATTAA
66 AAAAAGATAATTTAAATGATAAATTTTGAATAATTAA
38081102 ATTAGTAGTA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 96 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (126 bp):
AATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATCCGTTAGCAAATTAAT
AAAAAGATAATTTAAATGATAAATTTTGAATAATTAAGTGATTAAATTGTAAGTTTTCATA
Found at i:38081150 original size:101 final size:101
Alignment explanation
Indices: 38080998--38081202 Score: 356
Period size: 101 Copynumber: 2.0 Consensus size: 101
38080988 TAAGTTTTCA
*
38080998 TAAATTAGTAGTATATATGATGAATAGTGATTAAACAACTCATGTTGAGATTCGTTAGCAAATTA
1 TAAATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATTCGTTAGCAAATTA
* *
38081063 ATAAAGAGATAATTTAAGTGATAAATTTTGAATAAT
66 ATAAAGAGATAATTTAAATGATAAATTTCGAATAAT
* * *
38081099 TAAATTAGTAGTATATATGAGGAATAGTGATTAAACAGCTCATGTTGAGATTTGTTAGCAAGTTA
1 TAAATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATTCGTTAGCAAATTA
38081164 ATAAAGAGATAATTTAAATGATAAATTTCGAATAAT
66 ATAAAGAGATAATTTAAATGATAAATTTCGAATAAT
38081200 TAA
1 TAA
38081203 GTGATTAAAT
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.35
Consensus pattern (101 bp):
TAAATTAGTAGTATATATGAGGAATAGTGATTAAACAACTCATGTTGAGATTCGTTAGCAAATTA
ATAAAGAGATAATTTAAATGATAAATTTCGAATAAT
Found at i:38082497 original size:18 final size:19
Alignment explanation
Indices: 38082463--38082503 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
38082453 TTTGATTGCT
38082463 GGGTCGTTGCCAAGTTT-C
1 GGGTCGTTGCCAAGTTTAC
**
38082481 GGGTCGTTGCCGGGTTTAC
1 GGGTCGTTGCCAAGTTTAC
38082500 GGGT
1 GGGT
38082504 TTTGAGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.07, C:0.20, G:0.41, T:0.32
Consensus pattern (19 bp):
GGGTCGTTGCCAAGTTTAC
Done.