Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 114 of 145
Found at i:38033204 original size:17 final size:18
Alignment explanation
Indices: 38033179--38033212 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
38033169 AAACATATTA
*
38033179 AATTAAAATTTAAAATAT
1 AATTAAAATTGAAAATAT
38033197 AATT-AAATTGAAAATA
1 AATTAAAATTGAAAATA
38033213 AACATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTAAAATTGAAAATAT
Found at i:38038292 original size:20 final size:17
Alignment explanation
Indices: 38038263--38038302 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
38038253 ATTTATTTTT
38038263 TATAATTTAAAAAATAAAA
1 TATAATTT--AAAATAAAA
38038282 TATATATTTAAAATAAAA
1 TATA-ATTTAAAATAAAA
38038300 TAT
1 TAT
38038303 TTTTTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAATTTAAAATAAAA
Found at i:38039455 original size:17 final size:17
Alignment explanation
Indices: 38039433--38039467 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
38039423 ACCCAGATCA
38039433 ATCAAGAGCAGCCTATG
1 ATCAAGAGCAGCCTATG
38039450 ATCAAGAGCAGCCTATG
1 ATCAAGAGCAGCCTATG
38039467 A
1 A
38039468 CAAAACACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (17 bp):
ATCAAGAGCAGCCTATG
Found at i:38047386 original size:19 final size:19
Alignment explanation
Indices: 38047339--38047388 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
38047329 TTTTAACCAT
** **
38047339 ATTTTAAATAATTTTAATG
1 ATTTTAAATTTTTTTAAAA
*
38047358 ATTTTTAATTTTTTTAAAA
1 ATTTTAAATTTTTTTAAAA
38047377 ATTTTAAATTTT
1 ATTTTAAATTTT
38047389 AAAATATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTAAATTTTTTTAAAA
Found at i:38052888 original size:16 final size:16
Alignment explanation
Indices: 38052864--38052897 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38052854 GTATATTTGG
38052864 ATGGAATATTTATAAT
1 ATGGAATATTTATAAT
* *
38052880 ATGGTATATTTATCAT
1 ATGGAATATTTATAAT
38052896 AT
1 AT
38052898 TAGTCCATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (16 bp):
ATGGAATATTTATAAT
Found at i:38058690 original size:16 final size:16
Alignment explanation
Indices: 38058669--38058738 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
38058659 TTTGGTTCGC
38058669 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
* *
38058685 TGTAATGAAATATAGG
1 TGTAATGGAATAGAGG
*
38058701 TGTAATGGAACAGAGG
1 TGTAATGGAATAGAGG
*
38058717 TGTAATGGAATAAAGG
1 TGTAATGGAATAGAGG
*
38058733 CGTAAT
1 TGTAAT
38058739 AGTAATTCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.40, C:0.03, G:0.31, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:38059009 original size:147 final size:146
Alignment explanation
Indices: 38058730--38059025 Score: 450
Period size: 147 Copynumber: 2.0 Consensus size: 146
38058720 AATGGAATAA
* * *
38058730 AGGCGTAATAGTAATTCAATTGTTTGGTTGAATAGAATGGAATAGAACTGTAATAGTATTCTTGT
1 AGGCGTAATAGTAATTCAATTGTTTGGTTGAATAGAATAGAATAGAACTGTAATAGTACTCTTAT
* * *
38058795 GTTTGGTTGAATGGAATGATGTTGTAATAGCATAAGGAAAAAAACTAAAATGACTAGAATACTCT
66 GTTTGGTTGAATGGAATGATGCTGTAATAGCATAAGAAAAAAAACTAAAATGACTAGAATACCCT
*
38058860 TAGCAGAATTTTTTTT
131 TAGCAGAATTTTTGTT
** **
38058876 AGGCGTAATAGATAATTCTTTTGTTTGGTTGAATAGAATAGAATAGAGGTGTAATAGTACTCTTA
1 AGGCGTAATAG-TAATTCAATTGTTTGGTTGAATAGAATAGAATAGAACTGTAATAGTACTCTTA
*
38058941 TGTTTGGTTGAATGTAATAGA-GCTGTAATAGCATAAGAAAAAAAACTAAAATGACTAGAATACC
65 TGTTTGGTTGAATGGAAT-GATGCTGTAATAGCATAAGAAAAAAAACTAAAATGACTAGAATACC
*
38059005 CTTAGTAGAATTTTTGTT
129 CTTAGCAGAATTTTTGTT
38059023 AGG
1 AGG
38059026 TAGATGATTA
Statistics
Matches: 135, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
146 11 0.08
147 122 0.90
148 2 0.01
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (146 bp):
AGGCGTAATAGTAATTCAATTGTTTGGTTGAATAGAATAGAATAGAACTGTAATAGTACTCTTAT
GTTTGGTTGAATGGAATGATGCTGTAATAGCATAAGAAAAAAAACTAAAATGACTAGAATACCCT
TAGCAGAATTTTTGTT
Found at i:38059206 original size:20 final size:21
Alignment explanation
Indices: 38059167--38059206 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
38059157 AATTTACTAA
*
38059167 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
38059188 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
38059207 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:38067174 original size:79 final size:80
Alignment explanation
Indices: 38067083--38067240 Score: 255
Period size: 81 Copynumber: 2.0 Consensus size: 80
38067073 AAATCATTTC
* *
38067083 ATAGAAATTATATATATTCTGACTTTA-GTTTAATTGATTCAAATAGTAAGTACTAAGAGGTGGT
1 ATAGAAATTATATATATTCTGAATTTACGCTTAATTGATTCAAATAGTAAGTACTAAGAGGTGGT
38067147 ATTAATTAAATTTTG
66 ATTAATTAAATTTTG
* *
38067162 ATAGAAATTATATATATTCTGAATTTAGCGCTTAATTGATTCAAATAGTAAGTATTAAGAGGTTG
1 ATAGAAATTATATATATTCTGAATTTA-CGCTTAATTGATTCAAATAGTAAGTACTAAGAGGTGG
*
38067227 TATTGATTAAATTT
65 TATTAATTAAATTT
38067241 GGGATTCAAC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
79 26 0.36
81 46 0.64
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (80 bp):
ATAGAAATTATATATATTCTGAATTTACGCTTAATTGATTCAAATAGTAAGTACTAAGAGGTGGT
ATTAATTAAATTTTG
Found at i:38067328 original size:24 final size:24
Alignment explanation
Indices: 38067301--38067353 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
38067291 TATTATATTT
38067301 ATAAACTGTTTATTTTTAAAAATA-
1 ATAAACTGTTTA-TTTTAAAAATAG
** *
38067325 ATAATGTGTTTATTTTAAATATAG
1 ATAAACTGTTTATTTTAAAAATAG
38067349 ATAAA
1 ATAAA
38067354 GTATAATTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (24 bp):
ATAAACTGTTTATTTTAAAAATAG
Found at i:38074224 original size:17 final size:17
Alignment explanation
Indices: 38074204--38074269 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 17
38074194 AAAATGAAAT
38074204 AAAAAATAAAAAAAAGA
1 AAAAAATAAAAAAAAGA
* *
38074221 AAAAAAGATGAAAAAAGA
1 AAAAAATA-AAAAAAAGA
*
38074239 AAATTAATGAAAAAAGAA-A
1 AAA-AAAT-AAAAAA-AAGA
*
38074258 ATAAAATAAAAA
1 AAAAAATAAAAA
38074270 TGAGTGAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 12 0.32
18 14 0.37
19 9 0.24
20 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (17 bp):
AAAAAATAAAAAAAAGA
Found at i:38075637 original size:86 final size:86
Alignment explanation
Indices: 38075492--38075937 Score: 766
Period size: 86 Copynumber: 5.2 Consensus size: 86
38075482 NNNNNNNACA
*
38075492 GCGAAGCAGATTGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGA
1 GCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGA
38075557 TCTTGCCTTCCTGCATTGACG
66 TCTTGCCTTCCTGCATTGACG
38075578 GCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGA
1 GCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGA
38075643 TCTTGCCTTCCTGCATTGACG
66 TCTTGCCTTCCTGCATTGACG
*
38075664 GCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAATAGA
1 GCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGA
*
38075729 TCTTGCCTTCCTGCATTGACA
66 TCTTGCCTTCCTGCATTGACG
*
38075750 GCGAAGCAGATTGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGA
1 GCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGA
*
38075815 TCTTGTCTTCCTGCATTGACG
66 TCTTGCCTTCCTGCATTGACG
* ** *
38075836 GCGAAGCAGATCAAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATTGCAAA
1 GCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGA
* * *
38075901 TCTTGCCTTCCTGTATTTGGCA
66 TCTTGCCTTCCTGCA-TTGACG
*
38075923 GCGAAGTAGATCGAA
1 GCGAAGCAGATCGAA
38075938 TATGGTAAAT
Statistics
Matches: 341, Mismatches: 18, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
86 324 0.95
87 17 0.05
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (86 bp):
GCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGA
TCTTGCCTTCCTGCATTGACG
Found at i:38076026 original size:45 final size:45
Alignment explanation
Indices: 38075975--38076160 Score: 112
Period size: 46 Copynumber: 4.2 Consensus size: 45
38075965 AGAGGAGTAC
*
38075975 ATTGAAGCTGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAG
1 ATTGAAGCTGATAACTCTACCTCCCTGTATTTGGCAGTGGAATAG
* * * * * * *
38076020 ATTGAAGATTGCAGATCT-TGCCTTCCTGTATTTGGCAG-CGAAGCAG
1 ATTGAAG-CTG-ATAACTCTACCTCCCTGTATTTGGCAGTGGAA-TAG
* * ** * * * * * * *
38076066 ATCGAAGATGGCAGATTTTACCTCCCTG-A-CT-ACAGAGGAGTAC
1 ATTGAAGCTGATA-ACTCTACCTCCCTGTATTTGGCAGTGGAATAG
* *
38076109 ATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAG
1 ATTGAAGCTGATAACTCTACCTCCCTGTATTTGGCAGTGGAATAG
38076154 ATTGAAG
1 ATTGAAG
38076161 ATAACAGATC
Statistics
Matches: 97, Mismatches: 35, Indels: 18
0.65 0.23 0.12
Matches are distributed among these distances:
42 11 0.11
43 13 0.13
44 5 0.05
45 29 0.30
46 35 0.36
47 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (45 bp):
ATTGAAGCTGATAACTCTACCTCCCTGTATTTGGCAGTGGAATAG
Found at i:38076127 original size:134 final size:134
Alignment explanation
Indices: 38075887--38076293 Score: 597
Period size: 134 Copynumber: 3.1 Consensus size: 134
38075877 GCAGAGCTGG
* * * *
38075887 TTGAAGATTGCAAATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCGAATATGGTAAATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAATATGGCAGATTTTA
*
38075952 CCTCCCTGACTACAGAGGAGTACATTGAAGCTGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
38076017 TAGA
131 TAGA
*
38076021 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAATATGGCAGATTTTA
38076086 CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
38076151 TAGA
131 TAGA
** * * * * *
38076155 TTGAAGATAACAGATCTTGCCCTCCTGCA-TCGTCAGCGAGGCAGATC-AGATATGGCAGATTTT
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGA-ATATGGCAGATTTT
* * * * * * *
38076218 ACCTCTCTGACTACAGTGGAGTACATTGAAGTCGATAATTCTATCTCCCTG--GTTAGCAGTTGA
65 ACCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
38076281 ATAGA
130 ATAGA
38076286 TTGAAGAT
1 TTGAAGAT
38076294 CAAAGATGGC
Statistics
Matches: 251, Mismatches: 21, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
131 22 0.09
132 1 0.00
133 75 0.30
134 153 0.61
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAATATGGCAGATTTTA
CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:38076309 original size:93 final size:94
Alignment explanation
Indices: 38076197--38076382 Score: 241
Period size: 95 Copynumber: 2.0 Consensus size: 94
38076187 TCAGCGAGGC
* * *
38076197 AGATCAGATATGGCAGATTTTACCT-CTCT-GACTACAGTGGAGTACATTGAAGTCGATAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCCT-TAGACTACAGTGGAGTACATTGAAGCCGATAATTCT
* ** *
38076260 ATCTCCCTGGTTAGCAGTTGAATAGATTGA
65 ATCCCCCTGGGCAGCAGTGGAATAGATTGA
* * * *
38076290 AGATCAAAGATGGCGGATTTTACCTCCTTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
1 AGATCAAAGATGGCAGATTTTACCTCCTT-AGACTACAGTGGAGTACATTGAAGCCGATAATTCT
38076355 ATCCCCCTGGGCAGCAGTGGAATAGATT
65 ATCCCCCTGGGCAGCAGTGGAATAGATT
38076383 TAAAACCACA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
93 23 0.29
94 2 0.03
95 54 0.68
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (94 bp):
AGATCAAAGATGGCAGATTTTACCTCCTTAGACTACAGTGGAGTACATTGAAGCCGATAATTCTA
TCCCCCTGGGCAGCAGTGGAATAGATTGA
Found at i:38084033 original size:18 final size:18
Alignment explanation
Indices: 38084010--38084044 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
38084000 TCCACGTCAT
38084010 GACGATGAAGGTACTCCC
1 GACGATGAAGGTACTCCC
38084028 GACGATGAAGGTACTCC
1 GACGATGAAGGTACTCC
38084045 ACGTTGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.17
Consensus pattern (18 bp):
GACGATGAAGGTACTCCC
Found at i:38087833 original size:31 final size:30
Alignment explanation
Indices: 38087795--38087878 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
38087785 CTACTTCCAA
** **
38087795 GGTCACTCAATTATTAGTAAGTATACACTTT
1 GGTCACTCAATTATTAAAAAGT-TACAAATT
38087826 GGTCACTCAATT-TTAAAAAGTTACAAATT
1 GGTCACTCAATTATTAAAAAGTTACAAATT
* **
38087855 GGTCACTGAATTATTCGAAAGTTA
1 GGTCACTCAATTATTAAAAAGTTA
38087879 TCTTTTAAGT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 17 0.38
30 16 0.36
31 12 0.27
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (30 bp):
GGTCACTCAATTATTAAAAAGTTACAAATT
Found at i:38087860 original size:29 final size:31
Alignment explanation
Indices: 38087795--38087869 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 31
38087785 CTACTTCCAA
** **
38087795 GGTCACTCAATTATTAGTAAGTATACACTTT
1 GGTCACTCAATTATTAAAAAGTATACAAATT
38087826 GGTCACTCAATT-TTAAAAAGT-TACAAATT
1 GGTCACTCAATTATTAAAAAGTATACAAATT
*
38087855 GGTCACTGAATTATT
1 GGTCACTCAATTATT
38087870 CGAAAGTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 17 0.45
30 9 0.24
31 12 0.32
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (31 bp):
GGTCACTCAATTATTAAAAAGTATACAAATT
Found at i:38091702 original size:60 final size:60
Alignment explanation
Indices: 38091618--38091737 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 60
38091608 CATATAGAGA
*
38091618 AATGGGTATGGGGTTATGATCTTCC-AAGAACCTG-TAAATACATGGAAATCTTGAAAAGT
1 AATGGGTATGGGGTTATGATCTTCCAAAG-ACCCGCTAAATACATGGAAATCTTGAAAAGT
* *
38091677 AATGGGTATGGGTTTTATGATCTTCCAAAGACCCGCTAAATACATGGAAATCTTGGAAAGT
1 AATGGGTATGGG-GTTATGATCTTCCAAAGACCCGCTAAATACATGGAAATCTTGAAAAGT
38091738 GAACATACCT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
59 12 0.22
60 16 0.29
61 27 0.49
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (60 bp):
AATGGGTATGGGGTTATGATCTTCCAAAGACCCGCTAAATACATGGAAATCTTGAAAAGT
Found at i:38094563 original size:18 final size:18
Alignment explanation
Indices: 38094527--38094579 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
38094517 TTTTTAATTA
*
38094527 AAAAATTATAATAAGTATT
1 AAAAATTATAA-AAATATT
38094546 AAAAATTATAAAAATATT
1 AAAAATTATAAAAATATT
* *
38094564 AAATATTAAAAAAATA
1 AAAAATTATAAAAATA
38094580 AAATATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
18 20 0.65
19 11 0.35
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATTATAAAAATATT
Found at i:38094573 original size:16 final size:16
Alignment explanation
Indices: 38094545--38094590 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
38094535 TAATAAGTAT
38094545 TAAAA-ATTATAAAAATA
1 TAAAATATTA-AAAAA-A
*
38094562 TTAAATATTAAAAAAA
1 TAAAATATTAAAAAAA
38094578 TAAAATATTAAAA
1 TAAAATATTAAAA
38094591 TTGATACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 13 0.50
17 9 0.35
18 4 0.15
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATATTAAAAAAA
Found at i:38095291 original size:16 final size:17
Alignment explanation
Indices: 38095260--38095292 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38095250 ATTGTTTACT
38095260 AAGTATTATATGATATA
1 AAGTATTATATGATATA
*
38095277 AAGTATT-TTTGATATA
1 AAGTATTATATGATATA
38095293 GTTAGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
AAGTATTATATGATATA
Found at i:38098919 original size:43 final size:43
Alignment explanation
Indices: 38098674--38099026 Score: 415
Period size: 43 Copynumber: 8.3 Consensus size: 43
38098664 AAAAAAAACA
* * *** * *
38098674 CCGCTAAAAGTCATGATTTATAGCGGCGTTTCTCCCAAAATCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* * * *
38098717 CCGCTAAAAGTCATGATCTATAACAG-ATTTGTGGGAAAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
38098759 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* *
38098802 CCGTTAAAAGTCATGATCTATAGCGGCATTTGTGGGAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* *
38098845 CTGCTCAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* * *
38098888 CCGCTAAAGGTCATGATCTATAGCGGCGTTTGAGGGAAAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* * *
38098931 TCGCTAAAGGTCATGATCTATAGCGGTGTTTGTGGTG-GAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGG-GAGAAGCG
* * * * * * * *
38098974 CCGCTAAAGGTCCTGACCTTTAGCGGCGTTT-TTGTAAAAGCA
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
38099016 CCGCTAAAAGT
1 CCGCTAAAAGT
38099027 TAGCAACGTT
Statistics
Matches: 269, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
42 50 0.19
43 218 0.81
44 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (43 bp):
CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
Found at i:38102390 original size:3 final size:3
Alignment explanation
Indices: 38102382--38102406 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
38102372 TTATTTTTTG
38102382 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
38102407 TATTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:38108400 original size:18 final size:18
Alignment explanation
Indices: 38108372--38108420 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
38108362 AAATAAAAAA
* *
38108372 AATATTTTGAAAATGAAT
1 AATAATTTGAAAATAAAT
*
38108390 AATGATTTGAAAATAAAT
1 AATAATTTGAAAATAAAT
38108408 AATAATTTGAAAA
1 AATAATTTGAAAA
38108421 CGAACGACGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (18 bp):
AATAATTTGAAAATAAAT
Found at i:38108774 original size:25 final size:25
Alignment explanation
Indices: 38108746--38108812 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
38108736 AACTGTCCTT
* *
38108746 GATAGTATATCCTGAAACTGCTATA
1 GATAGTATATACTGAAACTACTATA
*
38108771 GATAGTATATACTGAGACTACTATA
1 GATAGTATATACTGAAACTACTATA
38108796 GATAG-ACTATACTGAAA
1 GATAGTA-TATACTGAAA
38108813 ACACTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (25 bp):
GATAGTATATACTGAAACTACTATA
Found at i:38122674 original size:2 final size:2
Alignment explanation
Indices: 38122667--38122694 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38122657 AGATTTTAAC
38122667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38122695 TTATGACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38125186 original size:31 final size:31
Alignment explanation
Indices: 38125151--38125217 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
38125141 TTTAACAGCT
*
38125151 GGTGACCAGAAAAGAAAAAT-TTGAATAATTG
1 GGTGACCAGAAAAG-AAAATCTCGAATAATTG
*
38125182 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
38125213 GGTGA
1 GGTGA
38125218 TCATTTTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:38126699 original size:2 final size:2
Alignment explanation
Indices: 38126692--38126721 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
38126682 AGATTTTAAC
38126692 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38126722 TTATGACAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38129236 original size:31 final size:31
Alignment explanation
Indices: 38129180--38129246 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
38129170 TTTAACAGCT
*
38129180 GGTGACCAGAAAAGAAAAATTTGAATAATTG
1 GGTGACCAGAAAAGAAAAATATGAATAATTG
* *
38129211 GGTGACCAGAAAAG-AAAATCATGAATAGTTT
1 GGTGACCAGAAAAGAAAAAT-ATGAATAATTG
38129242 GGTGA
1 GGTGA
38129247 TCATTTTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.45, C:0.07, G:0.25, T:0.22
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAAATATGAATAATTG
Found at i:38137731 original size:2 final size:2
Alignment explanation
Indices: 38137724--38137755 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
38137714 GTGAAATTGC
38137724 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
38137756 AAGCTAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:38141372 original size:132 final size:132
Alignment explanation
Indices: 38140664--38141365 Score: 1359
Period size: 132 Copynumber: 5.3 Consensus size: 132
38140654 TCGGCTTTAC
* * *
38140664 TCTGCTTCCCATTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGG
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
38140729 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
66 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
38140794 AA
131 AA
38140796 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
38140861 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
66 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
38140926 AA
131 AA
38140928 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
38140993 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
66 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
38141058 AA
131 AA
38141060 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
38141125 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
66 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
38141190 AA
131 AA
38141192 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
38141257 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
66 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
38141322 AA
131 AA
* *
38141324 TCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGCCTTC
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTC
38141366 ACTCTGCCTC
Statistics
Matches: 565, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 565 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (132 bp):
TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
AA
Found at i:38141608 original size:217 final size:217
Alignment explanation
Indices: 38141346--38141878 Score: 904
Period size: 217 Copynumber: 2.5 Consensus size: 217
38141336 TATCTTAGAA
** * * *
38141346 AGATAAGATTTGCCGCCTTCACTCTGCCTCGCTGCCACTTCAGGAGGATAAGACTTGCTTAATTA
1 AGATAAGATTTGCCATCTTCAGTCTGCCTCGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
* * * *
38141411 ATTTGCTCCACTGTAGCTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
66 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
*
38141476 GATAAGATCTATGGTTTTAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
131 GATAAGATCTAAGGTTTTAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
38141541 CTGCTCCACTGCAACTTCAGGG
196 CTGCTCCACTGCAACTTCAGGG
* *
38141563 AGATAATATTTGCCATCTTCAGTCTGCCTCGCTGTAACTTCAGGAGGATAAGACTTGCTTATTTA
1 AGATAAGATTTGCCATCTTCAGTCTGCCTCGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
* * *
38141628 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAATTTCAGAGA
66 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
*
38141693 GATAAGATCTAAGGTTTTAACCTGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
131 GATAAGATCTAAGGTTTTAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
38141758 CTGCTCCACTGCAACTTCAGGG
196 CTGCTCCACTGCAACTTCAGGG
* *
38141780 AGATAAGATTTACCATCTTCAGTCTGCCTCGCTGCAACTTCAGAAGGATAAGACTTGCTTATTTA
1 AGATAAGATTTGCCATCTTCAGTCTGCCTCGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
38141845 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
66 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
38141879 CGATCTGTTA
Statistics
Matches: 295, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 295 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (217 bp):
AGATAAGATTTGCCATCTTCAGTCTGCCTCGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
GATAAGATCTAAGGTTTTAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
CTGCTCCACTGCAACTTCAGGG
Found at i:38141877 original size:44 final size:43
Alignment explanation
Indices: 38141377--38141878 Score: 300
Period size: 44 Copynumber: 11.6 Consensus size: 43
38141367 CTCTGCCTCG
* * * *
38141377 CTGCCACTTCA-GGAGGATAAGACTTGCTTAATTAATTTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTTGC-TATTTAGTCTGCTCCA
* * * ** *
38141421 CTGTAGCTTCAGGGAGATAAGACTAG--A-TGCGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACTTGCTATTTAG-TCTGCTCCA
* * ** *
38141461 CTGCAACTTCAGAGAGATAAGATCTATGGT-TTTAACCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGA-CT-TGCTATTTAGTCTGCTCCA
* ** *
38141505 CTGCAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTG-C-TATTTAGTCTGCTCCA
* * * *
38141549 CTGCAACTTCAGGGAGATAATATTTGCCATCTTCAGTCTGC-CTCG
1 CTGCAACTTCAGGGAGATAAGACTTGCTAT-TT-AGTCTGCTC-CA
*
38141594 CTGTAACTTCA-GGAGGATAAGACTTGCTTATTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTTGC-TATTTAGTCTGCTCCA
* * * *
38141638 CTGCAACTTTAGGGAGATAAGACTAG--ATGT-GATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACTTGCTATTTAG-TCTGCTCCA
* * * * **
38141678 CTGCAATTTCAGAGAGATAAGATCTAAGGT-TTTAACCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGA-CT-TGCTATTTAGTCTGCTCCA
* ** *
38141722 CTGCAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTG-C-TATTTAGTCTGCTCCA
* * * *
38141766 CTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGC-CTCG
1 CTGCAACTTCAGGGAGATAAGACTTGCTAT-TT-AGTCTGCTC-CA
*
38141811 CTGCAACTTCA-GAAGGATAAGACTTGCTTATTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTTGC-TATTTAGTCTGCTCCA
38141855 CTGCAACTTCAGGGAGATAAGACT
1 CTGCAACTTCAGGGAGATAAGACT
38141879 CGATCTGTTA
Statistics
Matches: 354, Mismatches: 67, Indels: 74
0.72 0.14 0.15
Matches are distributed among these distances:
40 42 0.12
41 22 0.06
42 5 0.01
43 13 0.04
44 194 0.55
45 74 0.21
46 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (43 bp):
CTGCAACTTCAGGGAGATAAGACTTGCTATTTAGTCTGCTCCA
Found at i:38143399 original size:124 final size:124
Alignment explanation
Indices: 38143174--38143421 Score: 478
Period size: 124 Copynumber: 2.0 Consensus size: 124
38143164 TTCTGATACA
*
38143174 TTTGGCCATGACGAATGGCTTTTAATCTTTTCTCTTCAATCAGGTTCAGTTGATCATACCGAGAT
1 TTTGACCATGACGAATGGCTTTTAATCTTTTCTCTTCAATCAGGTTCAGTTGATCATACCGAGAT
*
38143239 TGGATCCATTCGGCCTCATCCAATTTTAACTCGGCCAAAAGTCGGAGAGAAGGAATTTC
66 TGGATCCATTCGGCCTCATCCAATTTTAACTCGGCCAAAACTCGGAGAGAAGGAATTTC
38143298 TTTGACCATGACGAATGGCTTTTAATCTTTTCTCTTCAATCAGGTTCAGTTGATCATACCGAGAT
1 TTTGACCATGACGAATGGCTTTTAATCTTTTCTCTTCAATCAGGTTCAGTTGATCATACCGAGAT
38143363 TGGATCCATTCGGCCTCATCCAATTTTAACTCGGCCAAAACTCGGAGAGAAGGAATTTC
66 TGGATCCATTCGGCCTCATCCAATTTTAACTCGGCCAAAACTCGGAGAGAAGGAATTTC
38143422 AACCTCAATG
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 122 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (124 bp):
TTTGACCATGACGAATGGCTTTTAATCTTTTCTCTTCAATCAGGTTCAGTTGATCATACCGAGAT
TGGATCCATTCGGCCTCATCCAATTTTAACTCGGCCAAAACTCGGAGAGAAGGAATTTC
Found at i:38144945 original size:230 final size:224
Alignment explanation
Indices: 38144542--38144995 Score: 764
Period size: 230 Copynumber: 2.0 Consensus size: 224
38144532 CGCCCATTCC
* *
38144542 CCTCTTAGCTGGTATATTACCAATGCTGAGTCTCTGTACACCTCTAATGTCTTGATTTTCCGCTC
1 CCTCTTAGCTGGTATATTACCAATGCTGAGTCTCCGTACACCTCTAATGTCTTAATTTTCCGCTC
38144607 TATGCCTGCCCGTATACCCATGATGTAAGCTTCATACTCAGCCATGTTATTAGTGCAATCAAAGT
66 TATGCCTGCCCGTATACCCATGATGTAAGCTTCATACTCAGCCATGTTATTAGTGCAATCAAAGT
38144672 CTAATTTACTGGTGAAAGGATGATAATCTCCATTTGGAGACACCAGGACTGCTCCAATCCCATTG
131 CTAATTTACTGGTGAAAGGATGATAATCTCCATTTGGAGACACCAGGACTGCTCCAATCCCATTG
38144737 CCTAGTGCATTCGATGCTCCGTCAAAGTT
196 CCTAGTGCATTCGATGCTCCGTCAAAGTT
* * * * *
38144766 NNNNNNCCTCTTAGTTGGTATATTACCAATGCTGAGTCTCCGTATACTTCTAGTGTTTTAATTTT
1 ------CCTCTTAGCTGGTATATTACCAATGCTGAGTCTCCGTACACCTCTAATGTCTTAATTTT
** *
38144831 TTGCTCTATGGCTGCCCGTATACCCATGATGTAAGCTTCATACTCAGCCATGTTATTAGTGCAAT
60 CCGCTCTATGCCTGCCCGTATACCCATGATGTAAGCTTCATACTCAGCCATGTTATTAGTGCAAT
38144896 CAAAGTCTAATTTACTGGTGAAAGGATGATAATCTCCATTTGGAGACACCAGGACTGCTCCAATC
125 CAAAGTCTAATTTACTGGTGAAAGGATGATAATCTCCATTTGGAGACACCAGGACTGCTCCAATC
38144961 CCATTGCCTAGTGCATTCGATGCTCCGTCAAAGTT
190 CCATTGCCTAGTGCATTCGATGCTCCGTCAAAGTT
38144996 TAATCTCCAA
Statistics
Matches: 214, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
230 214 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (224 bp):
CCTCTTAGCTGGTATATTACCAATGCTGAGTCTCCGTACACCTCTAATGTCTTAATTTTCCGCTC
TATGCCTGCCCGTATACCCATGATGTAAGCTTCATACTCAGCCATGTTATTAGTGCAATCAAAGT
CTAATTTACTGGTGAAAGGATGATAATCTCCATTTGGAGACACCAGGACTGCTCCAATCCCATTG
CCTAGTGCATTCGATGCTCCGTCAAAGTT
Found at i:38177258 original size:18 final size:19
Alignment explanation
Indices: 38177219--38177259 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
38177209 ATTATTTGGA
38177219 TATTGTATAAATCTTATTT
1 TATTGTATAAATCTTATTT
38177238 TATTGT-TAAAT-TTATTAT
1 TATTGTATAAATCTTATT-T
38177256 TATT
1 TATT
38177260 TTAGAGGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (19 bp):
TATTGTATAAATCTTATTT
Found at i:38180602 original size:42 final size:42
Alignment explanation
Indices: 38180520--38180649 Score: 145
Period size: 42 Copynumber: 3.1 Consensus size: 42
38180510 CTCTAACTCA
* * * * * *
38180520 TATGAGTTTCCGTTCAACCCTAATGGGTTTCTGTTTAGCTCT
1 TATGAGCTTCCGTTTAACCCTTATAGGTTTCCGTTCAGCTCT
* *
38180562 TTTGAGCTTCTGTTTAACCCTTATAGGTTTCCGTTCAGCTCT
1 TATGAGCTTCCGTTTAACCCTTATAGGTTTCCGTTCAGCTCT
* * *
38180604 TATGAGCTTCCGTTTAACCCTTAT-GAGTTTCTGTTTAGCACT
1 TATGAGCTTCCGTTTAACCCTTATAG-GTTTCCGTTCAGCTCT
38180646 TATG
1 TATG
38180650 CGTTTCTATT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 1 0.01
42 73 0.99
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCCGTTTAACCCTTATAGGTTTCCGTTCAGCTCT
Found at i:38180654 original size:21 final size:21
Alignment explanation
Indices: 38180520--38180656 Score: 105
Period size: 21 Copynumber: 6.5 Consensus size: 21
38180510 CTCTAACTCA
* * *
38180520 TATGAGTTTCCGTTCAACCCT
1 TATGAGTTTCTGTTTAGCCCT
* * *
38180541 AATGGGTTTCTGTTTAGCTCT
1 TATGAGTTTCTGTTTAGCCCT
* * *
38180562 TTTGAGCTTCTGTTTAACCCT
1 TATGAGTTTCTGTTTAGCCCT
* * *
38180583 TAT-AGGTTTCCGTTCAGCTCT
1 TATGA-GTTTCTGTTTAGCCCT
* * *
38180604 TATGAGCTTCCGTTTAACCCT
1 TATGAGTTTCTGTTTAGCCCT
*
38180625 TATGAGTTTCTGTTTAGCACT
1 TATGAGTTTCTGTTTAGCCCT
*
38180646 TATGCGTTTCT
1 TATGAGTTTCT
38180657 ATTCAGCCTT
Statistics
Matches: 87, Mismatches: 27, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
20 1 0.01
21 85 0.98
22 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.45
Consensus pattern (21 bp):
TATGAGTTTCTGTTTAGCCCT
Found at i:38181173 original size:21 final size:21
Alignment explanation
Indices: 38181147--38181186 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38181137 CAAAACAGGT
*
38181147 TTTTAGCGGCGTTTTTTAGTA
1 TTTTAGCGGCGCTTTTTAGTA
38181168 TTTTAGCGGCGCTTTTTAG
1 TTTTAGCGGCGCTTTTTAG
38181187 CGCCACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (21 bp):
TTTTAGCGGCGCTTTTTAGTA
Found at i:38181280 original size:30 final size:30
Alignment explanation
Indices: 38181244--38181314 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
38181234 CGCTATTGAC
38181244 AACGTCGCTAAGGTTTGCGGCATTTCTATA
1 AACGTCGCTAAGGTTTGCGGCATTTCTATA
38181274 AACGTCGCTAAGGTTTGCGGCATTTCTATA
1 AACGTCGCTAAGGTTTGCGGCATTTCTATA
*
38181304 AACGCCGCTAA
1 AACGTCGCTAA
38181315 AGGTCATGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (30 bp):
AACGTCGCTAAGGTTTGCGGCATTTCTATA
Found at i:38181356 original size:43 final size:43
Alignment explanation
Indices: 38181303--38181394 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
38181293 GCATTTCTAT
* * *
38181303 AAACGCCGCTAAAGGTCATG-TTCTTTAGCGGCGCTTATCCCAC
1 AAACGTCGCTAAAGGTCATGACT-TTTAGCAGCGCTTATCCCAC
*
38181346 AAACGTCGCTAAAGGTCATGACTTTTAGCAGCGCTTTTCCCAC
1 AAACGTCGCTAAAGGTCATGACTTTTAGCAGCGCTTATCCCAC
38181389 AAACGT
1 AAACGT
38181395 TGCTTTTACA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (43 bp):
AAACGTCGCTAAAGGTCATGACTTTTAGCAGCGCTTATCCCAC
Found at i:38181529 original size:44 final size:43
Alignment explanation
Indices: 38181406--38181542 Score: 177
Period size: 43 Copynumber: 3.2 Consensus size: 43
38181396 GCTTTTACAC
* *
38181406 AAACGCCGCTATAAATCATGACTTTTAGCGGCGCTTTTATC-AC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT-TCTAT
38181449 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCTAT
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCTAT
* * * ** *
38181492 AAACGCTGCTATTGTTTGGTGACTTTTAGCGGTGCTTTTTCTAT
1 AAACGCCGCTATAG-ATCATGACTTTTAGCGGCGCTTTTTCTAT
38181536 AAACGCC
1 AAACGCC
38181543 ACTAATTTTG
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
42 2 0.02
43 50 0.60
44 31 0.37
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCTAT
Found at i:38183833 original size:9 final size:9
Alignment explanation
Indices: 38183819--38184247 Score: 268
Period size: 9 Copynumber: 48.2 Consensus size: 9
38183809 TATATTTATG
38183819 TATGTAAGT
1 TATGTAAGT
38183828 TATGT-A-T
1 TATGTAAGT
*
38183835 TATGTTAGT
1 TATGTAAGT
*
38183844 AATGTAAGT
1 TATGTAAGT
*
38183853 TGTGT-A-T
1 TATGTAAGT
38183860 TATGTAAGT
1 TATGTAAGT
38183869 TATGTAAGT
1 TATGTAAGT
*
38183878 TGTGTAAGT
1 TATGTAAGT
*
38183887 TCTGT-A-T
1 TATGTAAGT
38183894 TATGTAAGT
1 TATGTAAGT
38183903 TATGTAAGT
1 TATGTAAGT
*
38183912 TGTG-AA-T
1 TATGTAAGT
*
38183919 TATGTAATT
1 TATGTAAGT
38183928 TATGTAA-T
1 TATGTAAGT
38183936 TCATGT-A-T
1 T-ATGTAAGT
*
38183944 TATGGAAGT
1 TATGTAAGT
38183953 TATGTAAGT
1 TATGTAAGT
*
38183962 AATGT-A-T
1 TATGTAAGT
*
38183969 TATGTCAGT
1 TATGTAAGT
38183978 TATGT-A-T
1 TATGTAAGT
38183985 TATGTAAGT
1 TATGTAAGT
38183994 TATGT-A-T
1 TATGTAAGT
38184001 TATGTAAGTT
1 TATGTAAG-T
38184011 TATGTAAGT
1 TATGTAAGT
*
38184020 TATGTAAAT
1 TATGTAAGT
* *
38184029 TATATAATT
1 TATGTAAGT
* *
38184038 TATGAAATT
1 TATGTAAGT
* *
38184047 TGATCTTTAAAT
1 T-A--TGTAAGT
38184059 TATGTAAGT
1 TATGTAAGT
*
38184068 TATGTAAAT
1 TATGTAAGT
38184077 TATGTAAGT
1 TATGTAAGT
* * *
38184086 TAAGAAATT
1 TATGTAAGT
* *
38184095 TGATCTTTAAAT
1 T-A--TGTAAGT
38184107 TATGTAAGT
1 TATGTAAGT
*
38184116 CT-TGTAACT
1 -TATGTAAGT
38184125 TATGTAAGT
1 TATGTAAGT
* *
38184134 TATGAAATT
1 TATGTAAGT
* *
38184143 TGATTTTTAAAT
1 T-A--TGTAAGT
38184155 TATGTAAGT
1 TATGTAAGT
*
38184164 TATGTAAAT
1 TATGTAAGT
38184173 TATGTAAGT
1 TATGTAAGT
* *
38184182 TATGAAATT
1 TATGTAAGT
* *
38184191 TGATCTTTAAAT
1 T-A--TGTAAGT
38184203 TATGTAAGT
1 TATGTAAGT
38184212 TATGT-A-T
1 TATGTAAGT
*
38184219 TATGTAATT
1 TATGTAAGT
*
38184228 TATGTAAAT
1 TATGTAAGT
38184237 TATGTAAGT
1 TATGTAAGT
38184246 TA
1 TA
38184248 AAATATTTGA
Statistics
Matches: 331, Mismatches: 55, Indels: 68
0.73 0.12 0.15
Matches are distributed among these distances:
7 46 0.14
8 25 0.08
9 223 0.67
10 14 0.04
11 4 0.01
12 19 0.06
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (9 bp):
TATGTAAGT
Found at i:38183848 original size:16 final size:16
Alignment explanation
Indices: 38183845--38184009 Score: 87
Period size: 16 Copynumber: 10.5 Consensus size: 16
38183835 TATGTTAGTA
**
38183845 ATGTAAGTTGTGTATT
1 ATGTAAGTAATGTATT
*
38183861 ATGTAAGTTATGTAAGTT
1 ATGTAAGTAATGT-A-TT
* **
38183879 GTGTAAGTTCTGTATT
1 ATGTAAGTAATGTATT
* *
38183895 ATGTAAGTTATGTAAGT
1 ATGTAAGTAATGT-ATT
*
38183912 -TGTGAA-TTATGTAATTT
1 ATGT-AAGTAATGT-A-TT
* *
38183929 ATGTAATTCATGTATT
1 ATGTAAGTAATGTATT
38183945 ATG---G-AA-GT-T-
1 ATGTAAGTAATGTATT
38183954 ATGTAAGTAATGTATT
1 ATGTAAGTAATGTATT
* *
38183970 ATGTCAGTTATGTATT
1 ATGTAAGTAATGTATT
*
38183986 ATGTAAGTTATGTATT
1 ATGTAAGTAATGTATT
38184002 ATGTAAGT
1 ATGTAAGT
38184010 TTATGTAAGT
Statistics
Matches: 122, Mismatches: 13, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
9 3 0.02
10 1 0.01
11 2 0.02
12 2 0.02
13 2 0.02
14 2 0.02
15 1 0.01
16 78 0.64
17 10 0.08
18 21 0.17
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (16 bp):
ATGTAAGTAATGTATT
Found at i:38183993 original size:32 final size:35
Alignment explanation
Indices: 38183845--38184026 Score: 153
Period size: 34 Copynumber: 5.2 Consensus size: 35
38183835 TATGTTAGTA
**
38183845 ATGTAAGTTGTGTATTATGTAAG-TTATGTAAGTT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
* **
38183879 GTGTAAGTTCTGTATTATGTAAG-TTATGTAAGTT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
* * *
38183913 GTG-AA-TTATGTAATTTATGTAATTCATGTATTATGGAAGTT
1 ATGTAAGTAATGT-A-TTATGT-A---A-GT-TTATGTAAGTT
*
38183954 ATGTAAGTAATGTATTATGTCAG-TTATGT-A-TT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
*
38183986 ATGTAAGTTATGTATTATGTAAGTTTATGTAAGTT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
38184021 ATGTAA
1 ATGTAA
38184027 ATTATATAAT
Statistics
Matches: 124, Mismatches: 10, Indels: 27
0.77 0.06 0.17
Matches are distributed among these distances:
32 28 0.23
33 10 0.08
34 47 0.38
35 9 0.07
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
41 18 0.15
42 3 0.02
43 5 0.04
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.47
Consensus pattern (35 bp):
ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
Found at i:38184016 original size:26 final size:25
Alignment explanation
Indices: 38183819--38184242 Score: 230
Period size: 25 Copynumber: 17.0 Consensus size: 25
38183809 TATATTTATG
38183819 TATGTAAGTTATGT-A-TTATGTTAGT
1 TATGTAAGTTATGTAAGTTATG-TA-T
* *
38183844 AATGTAAGTTGTGT-A-TTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGT-A-T
* *
38183869 TATGTAAGTTGTGTAAGTTCTGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* *
38183894 TATGTAAGTTATGTAAGTTGTGAAT
1 TATGTAAGTTATGTAAGTTATGTAT
*
38183919 TATGTAATTTATGTAA-TTCATGTAT
1 TATGTAAGTTATGTAAGTT-ATGTAT
* *
38183944 TATGGAAGTTATGTAAGTAATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
*
38183969 TATGTCAGTTATGT-A-TTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGT-A-T
38183994 TATGT-A-TTATGTAAGTTTATGTAAGT
1 TATGTAAGTTATGTAAG-TTATGT-A-T
* * * *
38184020 TATGTAAATTATATAATTTATGAAATT
1 TATGTAAGTTATGTAAGTTATG-TA-T
* *
38184047 TGATCTTTAAATTATGTAAGTTATGTAAAT
1 T-A--TGTAAGTTATGTAAGTTATGT--AT
* *
38184077 TATGTAAGTTAAG-AAATT-TG-AT
1 TATGTAAGTTATGTAAGTTATGTAT
*
38184099 CT-T-TAAATTATGTAAGTCT-TGTAACT
1 -TATGTAAGTTATGTAAGT-TATGT-A-T
*
38184125 TATGTAAGTTATG-AAATT-TG-AT
1 TATGTAAGTTATGTAAGTTATGTAT
* *
38184147 T-TTTAAATTATGTAAGTTATGTAAAT
1 TATGTAAGTTATGTAAGTTATGT--AT
*
38184173 TATGTAAGTTATG-AAATT-TG-AT
1 TATGTAAGTTATGTAAGTTATGTAT
*
38184195 CT-T-TAAATTATGTAAGTTATGTAT
1 -TATGTAAGTTATGTAAGTTATGTAT
* *
38184219 TATGTAATTTATGTAAATTATGTA
1 TATGTAAGTTATGTAAGTTATGTA
38184243 AGTTAAAATA
Statistics
Matches: 318, Mismatches: 43, Indels: 76
0.73 0.10 0.17
Matches are distributed among these distances:
21 24 0.08
22 19 0.06
23 22 0.07
24 10 0.03
25 141 0.44
26 34 0.11
27 39 0.12
28 8 0.03
29 1 0.00
30 19 0.06
31 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTATGTAT
Found at i:38184067 original size:48 final size:48
Alignment explanation
Indices: 38184010--38184237 Score: 363
Period size: 48 Copynumber: 4.8 Consensus size: 48
38184000 TTATGTAAGT
* *
38184010 TTATGTAAGTTATGTAAATTATATAATTTATGAAATTTGATCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
*
38184058 TTATGTAAGTTATGTAAATTATGTAAGTTAAGAAATTTGATCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
* *
38184106 TTATGTAAGTCT-TGTAACTTATGTAAGTTATGAAATTTGATTTTTAAA
1 TTATGTAAGT-TATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
38184154 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
*
38184202 TTATGTAAGTTATGT--ATTATGTAATTTATGTAAATT
1 TTATGTAAGTTATGTAAATTATGTAAGTTATG-AAATT
38184238 ATGTAAGTTA
Statistics
Matches: 168, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
46 14 0.08
47 6 0.04
48 147 0.88
49 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (48 bp):
TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
Found at i:38184202 original size:30 final size:30
Alignment explanation
Indices: 38184168--38184278 Score: 109
Period size: 30 Copynumber: 3.6 Consensus size: 30
38184158 GTAAGTTATG
38184168 TAAATTATGTAAGTTATGAAATTTGATCTT
1 TAAATTATGTAAGTTATGAAATTTGATCTT
* *
38184198 TAAATTATGTAAGTTATG-TATTATGTAATTTAT
1 TAAATTATGTAAGTTATGAAATT-TG--ATCT-T
* *
38184231 GTAAATTATGTAAGTTA-AAATATTTGATGTT
1 -TAAATTATGTAAGTTATGAA-ATTTGATCTT
*
38184262 TGAATTATGTAAGTTAT
1 TAAATTATGTAAGTTAT
38184279 ATAAATTATG
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
29 3 0.04
30 35 0.52
31 1 0.01
32 6 0.09
33 1 0.01
34 18 0.27
35 3 0.04
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAAATTTGATCTT
Found at i:38184231 original size:64 final size:65
Alignment explanation
Indices: 38184152--38184302 Score: 218
Period size: 64 Copynumber: 2.3 Consensus size: 65
38184142 TTGATTTTTA
* *
38184152 AATTATGTAAGTTATGTAAATTATGTAAGTTATGAA-ATTTGATCTTTAAATTATGTAAGTTATG
1 AATTATGTAAGTTATGTAAATTATGTAAGTTA-AAATATTTGATCTTTAAATTATGTAAGTTATA
38184216 T
65 T
* * *
38184217 -ATTATGTAATTTATGTAAATTATGTAAGTTAAAATATTTGATGTTTGAATTATGTAAGTTATAT
1 AATTATGTAAGTTATGTAAATTATGTAAGTTAAAATATTTGATCTTTAAATTATGTAAGTTATAT
38184281 AAATTATGTAAGTTATG-AAATT
1 -AATTATGTAAGTTATGTAAATT
38184303 TTATCTTTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
63 2 0.03
64 56 0.73
65 5 0.06
66 14 0.18
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (65 bp):
AATTATGTAAGTTATGTAAATTATGTAAGTTAAAATATTTGATCTTTAAATTATGTAAGTTATAT
Found at i:38184249 original size:48 final size:50
Alignment explanation
Indices: 38183819--38184295 Score: 313
Period size: 48 Copynumber: 9.9 Consensus size: 50
38183809 TATATTTATG
* * * * *
38183819 TATGTAAGTTATGT-ATTATGTTAGTAATGTAAGTTGTGTATTA-TGTAAGT
1 TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTA-TAGT-TAAAT
* * * *
38183869 TATGTAAGTTGTGTAAGTTCTGT-A-TTATGTAAGTTATGTA-AGTTGTGAAT
1 TATGTAAGTTATGTAA-TTATGTAAGTTATGTAAATTATGTATAG-T-TAAAT
* * *
38183919 TATGTAATTTATGTAATTCATGT-A-TTATGGAAGTTATGTA-AG-TAATGTAT
1 TATGTAAGTTATGTAATT-ATGTAAGTTATGTAAATTATGTATAGTTAA---AT
*
38183969 TATGTCAGTTATGT-ATTATGTAAGTTATGT--ATTATGTA-AG-T---T
1 TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
* * **
38184011 TATGTAAGTTATGTAAATTATATAATTTATG-AAATT-TG-ATCTTTAAAT
1 TATGTAAGTTATGT-AATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
* **
38184059 TATGTAAGTTATGTAAATTATGTAAGTTAAG-AAATT-TG-ATCTTTAAAT
1 TATGTAAGTTATGT-AATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
**
38184107 TATGTAAGTCT-TGTAACTTATGTAAGTTATG-AAATT-TG-ATTTTTAAAT
1 TATGTAAGT-TATGTAA-TTATGTAAGTTATGTAAATTATGTATAGTTAAAT
**
38184155 TATGTAAGTTATGTAAATTATGTAAGTTATG-AAATT-TG-ATCTTTAAAT
1 TATGTAAGTTATGT-AATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
* *
38184203 TATGTAAGTTATGT-ATTATGTAATTTATGTAAATTATGTA-AGTTAAAA
1 TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
* * *
38184251 TATTTGATGTT-TG-AATTATGTAAGTTATATAAATTATGTA-AGTTA
1 TATGT-AAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTTA
38184296 TGAAATTTTA
Statistics
Matches: 365, Mismatches: 34, Indels: 58
0.80 0.07 0.13
Matches are distributed among these distances:
42 14 0.04
43 1 0.00
44 15 0.04
45 4 0.01
46 14 0.04
47 10 0.03
48 200 0.55
49 14 0.04
50 86 0.24
51 2 0.01
52 5 0.01
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.47
Consensus pattern (50 bp):
TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
Found at i:38184256 original size:112 final size:112
Alignment explanation
Indices: 38184105--38184324 Score: 345
Period size: 112 Copynumber: 2.0 Consensus size: 112
38184095 TGATCTTTAA
* * * *
38184105 ATTATGTAAGTCTTGTAACTTATGTAAGTTATGAAATTTGATTTTTAAATTATGTAAGTTATGTA
1 ATTATGTAAGTCTTGTAAATTATGTAAGTTATAAAATTTGATGTTTAAATTATGTAAGTTATATA
38184170 AATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
66 AATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
* *
38184217 ATTATGTAA-TTTATGTAAATTATGTAAGTTA-AAATATTTGATGTTTGAATTATGTAAGTTATA
1 ATTATGTAAGTCT-TGTAAATTATGTAAGTTATAAA-ATTTGATGTTTAAATTATGTAAGTTATA
*
38184280 TAAATTATGTAAGTTATGAAATTTTATCTTTAAATTATGTAAGTT
64 TAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTT
38184325 TATTAAGCGA
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
111 4 0.04
112 95 0.96
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (112 bp):
ATTATGTAAGTCTTGTAAATTATGTAAGTTATAAAATTTGATGTTTAAATTATGTAAGTTATATA
AATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
Found at i:38184316 original size:48 final size:48
Alignment explanation
Indices: 38184217--38184324 Score: 148
Period size: 48 Copynumber: 2.2 Consensus size: 48
38184207 TAAGTTATGT
* * * *
38184217 ATTATGTAATTTATGTAAATTATGTAAGTTAAAATATTTGATGTTTGA
1 ATTATGTAAGTTATATAAATTATGTAAGTTAAAATATTTGATCTTTAA
38184265 ATTATGTAAGTTATATAAATTATGTAAGTTATGAAAT-TTT-ATCTTTAA
1 ATTATGTAAGTTATATAAATTATGTAAGTTA--AAATATTTGATCTTTAA
38184313 ATTATGTAAGTT
1 ATTATGTAAGTT
38184325 TATTAAGCGA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
48 47 0.87
49 3 0.06
50 4 0.07
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (48 bp):
ATTATGTAAGTTATATAAATTATGTAAGTTAAAATATTTGATCTTTAA
Found at i:38186800 original size:40 final size:36
Alignment explanation
Indices: 38186740--38186825 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
38186730 AAACTAGTAT
* * *
38186740 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
38186776 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
38186816 TATTATTATT
1 TATTATTATT
38186826 TTTATTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:38191887 original size:159 final size:156
Alignment explanation
Indices: 38191470--38192242 Score: 654
Period size: 159 Copynumber: 4.9 Consensus size: 156
38191460 AAGTTGAAAA
* * *
38191470 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTCTCTCGGCATTTTATT
1 AAAAAAGTTAGTAAAACACTCCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATT
*
38191535 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATG-TT---
66 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTATATTATTTCAGTGCATTATGTTTGAA
* *
38191596 ATTTCTTTATTAATTTAGTGTATTTTTT
131 ATTT-TTTATTAATTTTGTG-AATTTTT
** * * *
38191624 AAATTAATTTAGTGTAAAAAAAACCCAAC-CCTTA-TTCCTGCCCTTTGCTCGTATTATTTTT-T
1 AAA--AA---AGT-T-AGTAAAA--C-ACTCCTTACTT-CGGCCATTTGTTCGTATT-TTTTTCT
* * * *
38191686 -CGAATTTTATTACTTCCAAAAAAATAT-ATTATTTTCGT-ATTTTATTATTTTATATTATTTCA
54 CCGCATTTTATTACTT--TAAAAAATATCA-TAATTTC-TAATTTTATAATTTTATATTATTTCA
* * *
38191748 GTACATTTTGTTTGAAATTTTTCTATTAATTTTTTCCGAATTTTT
115 GTGCATTATGTTTGAAATTTTT-TATTAATTTTGT--GAATTTTT
* *
38191793 AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATT
1 AAAAAAGTTAGTAAAACACTCCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATT
*
38191858 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTATATTATTTCAGTGCATTGTGTTTGAA
66 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTATATTATTTCAGTGCATTATGTTTGAA
* **
38191923 A---TTTATTAATTTAGGTGTGTTTTT
131 ATTTTTTATTAATTT-TGTGAATTTTT
* * * * * * * *
38191947 AAATTAATTTAGTGTAAAGAAAAC-CCTTA-TTCCTGCCCTTTGCTCGTATTATTTTCTCC-AAT
1 AAA-AAAGTTA--GT-AA-AACACTCCTTACTT-CGGCCATTTGTTCGTATTTTTTTCTCCGCAT
* * * *
38192009 TTTATTACTTCCAATGAAAATAT-ATTATTT-TCATATTTTATTATTTTATATTATTTCAGTACA
60 TTTATTACTT-TAA--AAAATATCATAATTTCT-A-ATTTTATAATTTTATATTATTTCAGTGCA
* * * *
38192072 TTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
120 TTATGTTTGAAAT-TTTTTATTAA-T-TTTGTGAATTTTT
* *
38192112 AAAAATGTTAGTAAAACACT-CTTACTTCGGTCATTTGTTCGT-TTTTTTATCT--GCATTTTAT
1 AAAAAAGTTAGTAAAACACTCCTTACTTCGGCCATTTGTTCGTATTTTTT-TCTCCGCATTTTAT
* * *
38192173 TACTTTAAAAGATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATATTTGA
65 TACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTATATTATTTCAGTGCATTATGTTTGA
38192238 AATTT
130 AATTT
38192243 ATTAAATATA
Statistics
Matches: 493, Mismatches: 73, Indels: 105
0.73 0.11 0.16
Matches are distributed among these distances:
154 12 0.02
155 16 0.03
156 47 0.10
157 23 0.05
158 36 0.07
159 91 0.18
160 89 0.18
161 25 0.05
162 22 0.04
163 23 0.05
164 65 0.13
165 14 0.03
166 2 0.00
167 4 0.01
168 14 0.03
169 9 0.02
170 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (156 bp):
AAAAAAGTTAGTAAAACACTCCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATT
ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTATATTATTTCAGTGCATTATGTTTGAA
ATTTTTTATTAATTTTGTGAATTTTT
Found at i:38192052 original size:16 final size:15
Alignment explanation
Indices: 38192031--38192060 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38192021 AATGAAAATA
38192031 TATTATTTTCATATTT
1 TATTATTTT-ATATTT
38192047 TATTATTTTATATT
1 TATTATTTTATATT
38192061 ATTTCAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTATATTT
Found at i:38192066 original size:160 final size:155
Alignment explanation
Indices: 38191527--38192084 Score: 524
Period size: 160 Copynumber: 3.5 Consensus size: 155
38191517 TTCTCTCGGC
* * * *
38191527 ATTTTATTACTT-TAAAAAATATCA-TAATTTCTAATTTTATAATTTTACATTATTTCAGTGCAT
1 ATTTTATTACTTCCAAAAAATAT-ATTATTTTCT-ATTTTATAATTTTATATTATTTCAGTACAT
* ***
38191590 TATGTTAT-TTCTTTATTAATTTAGTGTATTTTTTAAATTAATTTAGTGTAAAAAAAACCCAACC
64 TTTGTT-TGAAATTTATTAATTTAGTGTA-TTTTTAAATTAATTTAGTGT---AAAAA---AACC
* *
38191654 CTTATTCCTGCCCTTTGCTCGTATTATTTTTTCGA
121 CTTATTCCTGCCCTTTGCTCGTATTATTTTCTCCA
*
38191689 ATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACAT
1 ATTTTATTACTTCC-AAAAAATATATTATTTTC-TATTTTATAATTTTATATTATTTCAGTACAT
** * * * * *
38191754 TTTGTTTGAAATTTTTCTATTAATTTTTTCCGAATTTTTAAA-AAAGTTA--GT-AAAACACTCT
64 TTTGTTTGAAA---TT-TATTAATTTAGT--GTATTTTTAAATTAATTTAGTGTAAAAAAAC-CC
* * * * *
38191815 TTACTT-CAGCCATTTGTTCGTATTTTTTTCTCCGC
122 TTA-TTCCTGCCCTTTGCTCGTATTATTTTCTCC-A
* * *
38191850 ATTTTATTACTT-TAAAAAATATCA-TAATTTCTAATTTTATAATTTTATATTATTTCAGTGCAT
1 ATTTTATTACTTCCAAAAAATAT-ATTATTTTCT-ATTTTATAATTTTATATTATTTCAGTACAT
* *
38191913 TGTGTTTGAAATTTATTAATTTAGGTGTGTTTTTAAATTAATTTAGTGTAAAGAAAACCCTTATT
64 TTTGTTTGAAATTTATTAATTTA-GTGTATTTTTAAATTAATTTAGTGTAAA-AAAACCCTTATT
38191978 CCTGCCCTTTGCTCGTATTATTTTCTCCA
127 CCTGCCCTTTGCTCGTATTATTTTCTCCA
*
38192007 ATTTTATTACTTCCAATGAAAATATATTATTTTCATATTTTATTATTTTATATTATTTCAGTACA
1 ATTTTATTACTTCCAA--AAAATATATTATTTTC-TATTTTATAATTTTATATTATTTCAGTACA
*
38192072 TTTTGTTAGAAAT
63 TTTTGTTTGAAAT
38192085 ATTTGTATTA
Statistics
Matches: 321, Mismatches: 47, Indels: 58
0.75 0.11 0.14
Matches are distributed among these distances:
154 9 0.03
155 14 0.04
156 3 0.01
157 16 0.05
158 32 0.10
159 60 0.19
160 77 0.24
161 15 0.05
162 16 0.05
163 2 0.01
164 47 0.15
165 1 0.00
166 2 0.01
167 2 0.01
168 15 0.05
169 8 0.02
170 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (155 bp):
ATTTTATTACTTCCAAAAAATATATTATTTTCTATTTTATAATTTTATATTATTTCAGTACATTT
TGTTTGAAATTTATTAATTTAGTGTATTTTTAAATTAATTTAGTGTAAAAAAACCCTTATTCCTG
CCCTTTGCTCGTATTATTTTCTCCA
Found at i:38192355 original size:316 final size:313
Alignment explanation
Indices: 38191470--38192253 Score: 1065
Period size: 323 Copynumber: 2.5 Consensus size: 313
38191460 AAGTTGAAAA
* *
38191470 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTCTCTCGGCATTTTATT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTTTCTC-GCATTTTATT
* *
38191535 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTAT-T
65 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATATT-TGA
** * * * *
38191599 TCTTTATTAATTTA-GTGTATTTTTTAAATTAATTTAGTGTAAAAAAAACCCAACCCTTATTCCT
129 AATTTATTAATATACATGT-GTTTTTAAATTAATTTAGTGT--AAAGAA---AACCCTTATT-CT
* * * ** *
38191663 GCCCTTTGCTCGTATTATTTTTTCGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTT
187 GCCCTTTGCTCGTATTATTTTCTCCAATTATATTA-TT--ATGAAAATATATTATTTTCATATTT
* * *
38191728 TATTATTTTATATTATTTCAGTACATTTTGTTTGAAATTTTTCTATTAATTTTTTCCGAATTTTT
249 TATTATTTTATATTATTTCAGTACATTTTGTTAGAAATATTTCTATTAATTATTTCCGAATTTTT
38191793 AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTTTCT-CGCATTTTATT
* * *
38191858 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTATATTATTTCAGTGCATTGTGTTTGAA
65 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATATTTGAA
* **
38191923 ATTTATTAATTTAGGTGTGTTTTTAAATTAATTTAGTGTAAAGAAAACCCTTATTCCTGCCCTTT
130 ATTTATTAATATACATGTGTTTTTAAATTAATTTAGTGTAAAGAAAACCCTTATT-CTGCCCTTT
*
38191988 GCTCGTATTATTTTCTCCAATTTTATTACTTCCAATGAAAATATATTATTTTCATATTTTATTAT
194 GCTCGTATTATTTTCTCCAATTATATTA-TT---ATGAAAATATATTATTTTCATATTTTATTAT
* *
38192053 TTTATATTATTTCAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
255 TTTATATTATTTCAGTACATTTTGTTAGAAATATTTCTATTAATTATTTCCGAATTTTT
* * *
38192112 AAAAATGTTAGTAAAACACTC-TTACTTCGGTCATTTGTTCGT-TTTTTTATCT-GCATTTTATT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTT-TCTCGCATTTTATT
*
38192174 ACTTTAAAAGATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATATTTGAA
65 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATATTTGAA
38192239 ATTTATTAAATATAC
130 ATTTATT-AATATAC
38192254 CATTTTTTTC
Statistics
Matches: 426, Mismatches: 29, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
316 78 0.18
317 11 0.03
318 71 0.17
319 103 0.24
321 5 0.01
322 1 0.00
323 152 0.36
324 5 0.01
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (313 bp):
AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTTTCTCGCATTTTATTA
CTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATATTTGAAA
TTTATTAATATACATGTGTTTTTAAATTAATTTAGTGTAAAGAAAACCCTTATTCTGCCCTTTGC
TCGTATTATTTTCTCCAATTATATTATTATGAAAATATATTATTTTCATATTTTATTATTTTATA
TTATTTCAGTACATTTTGTTAGAAATATTTCTATTAATTATTTCCGAATTTTT
Found at i:38192606 original size:22 final size:22
Alignment explanation
Indices: 38192576--38192720 Score: 83
Period size: 22 Copynumber: 6.6 Consensus size: 22
38192566 AAAAAAATTA
38192576 CCTTTTTTTCTTTCCCTCTTCT
1 CCTTTTTTTCTTTCCCTCTTCT
**
38192598 CCTTATTTTT-TTTTTCTCTTCT
1 CCTT-TTTTTCTTTCCCTCTTCT
* *
38192620 CCTTTCTTTTTCTTTCCTTCTTTT
1 CC-TT-TTTTTCTTTCCCTCTTCT
* * *
38192644 TCTTTCTTTC-TT-CTTCTTCT
1 CCTTTTTTTCTTTCCCTCTTCT
38192664 CCTTTCCTTTTCTTT--C-CTTCT
1 CCTTT--TTTTCTTTCCCTCTTCT
38192685 --TTTTCTTTCTTTCCTCTCCTT-T
1 CCTTTT-TTTCTTTCC-CT-CTTCT
38192707 CCTTTTCTTTCTTT
1 CCTTTT-TTTCTTT
38192721 TTCTTTCTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
17 1 0.01
18 7 0.07
19 3 0.03
20 11 0.11
21 8 0.08
22 26 0.27
23 19 0.20
24 21 0.22
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (22 bp):
CCTTTTTTTCTTTCCCTCTTCT
Found at i:38192634 original size:10 final size:10
Alignment explanation
Indices: 38192622--38192745 Score: 82
Period size: 10 Copynumber: 12.8 Consensus size: 10
38192612 TCTCTTCTCC
38192622 TTTCTTT-TT
1 TTTCTTTCTT
*
38192631 CTTTCCTTCTT
1 -TTTCTTTCTT
38192642 TTTCTTTCTT
1 TTTCTTTCTT
38192652 TCTTC-TTCTT
1 T-TTCTTTCTT
* * *
38192662 CTCCTTTCCT
1 TTTCTTTCTT
38192672 TTTCTTTC--
1 TTTCTTTCTT
*
38192680 CTTCTTT-TT
1 TTTCTTTCTT
*
38192689 CTTTCTTTCCT
1 -TTTCTTTCTT
* * *
38192700 CTCCTTTCCT
1 TTTCTTTCTT
38192710 TTTCTTTCTT
1 TTTCTTTCTT
38192720 TTTCTTTC--
1 TTTCTTTCTT
38192728 TTTCTTTCTT
1 TTTCTTTCTT
*
38192738 CTTCTTTC
1 TTTCTTTC
38192746 CCTCTCATTC
Statistics
Matches: 89, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
8 14 0.16
9 2 0.02
10 67 0.75
11 6 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:38192664 original size:44 final size:44
Alignment explanation
Indices: 38192614--38192743 Score: 182
Period size: 44 Copynumber: 3.1 Consensus size: 44
38192604 TTTTTTTTTC
38192614 TCTTCTCCTTTCTTTTTCTTTCCTTCTTTTTCTTTCTTTCTTCT
1 TCTTCTCCTTTCTTTTTCTTTCCTTCTTTTTCTTTCTTTCTTCT
* *
38192658 TCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCT
1 TCTTCTCCTTTCTTTTTCTTTCCTTCTTTTTCTTTCTTTCTTCT
* *
38192702 CCTT-TCCTTT-TCTTTCTTT--TTC--TTTCTTTCTTTCTTCT
1 TCTTCTCCTTTCTTTTTCTTTCCTTCTTTTTCTTTCTTTCTTCT
38192740 TCTT
1 TCTT
38192744 TCCCTCTCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
38 18 0.23
40 3 0.04
42 7 0.09
43 6 0.08
44 45 0.57
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (44 bp):
TCTTCTCCTTTCTTTTTCTTTCCTTCTTTTTCTTTCTTTCTTCT
Found at i:38192685 original size:38 final size:39
Alignment explanation
Indices: 38192621--38192746 Score: 151
Period size: 38 Copynumber: 3.4 Consensus size: 39
38192611 TTCTCTTCTC
* *
38192621 CTTTCTTTTTCTTTCC--TTCTTT-TTCTTTCTTTC-TT
1 CTTTCTTCTCCTTTCCTTTTCTTTCTTCTTTCTTTCTTT
38192656 C-TTCTTCTCCTTTCCTTTTCTTTCCTTC-TT-TTTCTTT
1 CTTTCTTCTCCTTTCCTTTTCTTT-CTTCTTTCTTTCTTT
*
38192693 CTTTCCTCTCCTTTCCTTTTCTTTCTT-TTTCTTTCTTT
1 CTTTCTTCTCCTTTCCTTTTCTTTCTTCTTTCTTTCTTT
*
38192731 CTTTCTTCTTCTTTCC
1 CTTTCTTCTCCTTTCC
38192747 CTCTCATTCT
Statistics
Matches: 78, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
34 12 0.15
35 1 0.01
36 10 0.13
37 10 0.13
38 45 0.58
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (39 bp):
CTTTCTTCTCCTTTCCTTTTCTTTCTTCTTTCTTTCTTT
Found at i:38192728 original size:82 final size:82
Alignment explanation
Indices: 38192592--38192743 Score: 220
Period size: 82 Copynumber: 1.9 Consensus size: 82
38192582 TTTCTTTCCC
* *
38192592 TCTTCTCCTTATTTTTTTTTTCTCTTCTCCTTTCTTTTTCTTTCCTTCTTTTTCTTTCTTTCTTC
1 TCTTCTCCTTATTTTTTTTTTCTCCTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCTTC
38192657 TTCTTCTCCTTTCCTTT
66 TTCTTCTCCTTTCCTTT
* *
38192674 TCTT-TCCTTCTTTTTCTTTCTT-TCCTCTCCTTTCCTTTTCTTT-CTTTTTCTTTCTTTCTTTC
1 TCTTCTCCTTATTTTT-TTT-TTCTCCTCTCCTTTCCTTTTCTTTCCTTCTT-TTTCTTTCTTTC
38192736 TTCTTCTT
63 TTCTTCTT
38192744 TCCCTCTCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
81 15 0.24
82 46 0.73
83 2 0.03
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.70
Consensus pattern (82 bp):
TCTTCTCCTTATTTTTTTTTTCTCCTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCTTC
TTCTTCTCCTTTCCTTT
Found at i:38193708 original size:8 final size:7
Alignment explanation
Indices: 38193683--38193779 Score: 63
Period size: 7 Copynumber: 13.4 Consensus size: 7
38193673 CCTATACTTT
38193683 AACCCTA
1 AACCCTA
38193690 AACCCTA
1 AACCCTA
38193697 AACCCTTA
1 AACCC-TA
38193705 AACCC-A
1 AACCCTA
*
38193711 TAACCTTA
1 -AACCCTA
*
38193719 AGCCACTA
1 AACC-CTA
*
38193727 ACCCCTA
1 AACCCTA
*
38193734 GACCCT-
1 AACCCTA
*
38193740 AAGCCTA
1 AACCCTA
38193747 TAACCCCTA
1 -AA-CCCTA
38193756 AACCCTA
1 AACCCTA
* *
38193763 AGCCCTC
1 AACCCTA
*
38193770 ACCCCTA
1 AACCCTA
38193777 AAC
1 AAC
38193780 ACTTAACATG
Statistics
Matches: 69, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
6 5 0.07
7 43 0.62
8 17 0.25
9 4 0.06
ACGTcount: A:0.36, C:0.43, G:0.04, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:38193715 original size:29 final size:28
Alignment explanation
Indices: 38193682--38193779 Score: 74
Period size: 29 Copynumber: 3.4 Consensus size: 28
38193672 CCCTATACTT
38193682 TAACCCTAAACCCTAAACCCTTAAACCC
1 TAACCCTAAACCCTAAACCCTTAAACCC
* * * *
38193710 ATAACCTTAAGCCACT-AACCCCTAGACCC
1 -TAACCCTAAACC-CTAAACCCTTAAACCC
* *
38193739 TAAGCCTATAACCCCTAAACCC-TAAGCCC
1 TAACCCTA-AA-CCCTAAACCCTTAAACCC
*
38193768 TCACCCCTAAAC
1 T-AACCCTAAAC
38193780 ACTTAACATG
Statistics
Matches: 53, Mismatches: 11, Indels: 11
0.71 0.15 0.15
Matches are distributed among these distances:
28 7 0.13
29 32 0.60
30 14 0.26
ACGTcount: A:0.36, C:0.43, G:0.04, T:0.17
Consensus pattern (28 bp):
TAACCCTAAACCCTAAACCCTTAAACCC
Found at i:38193743 original size:22 final size:22
Alignment explanation
Indices: 38193685--38193779 Score: 90
Period size: 22 Copynumber: 4.4 Consensus size: 22
38193675 TATACTTTAA
* *
38193685 CCCTAAACCCTAAACC-CTTAAA
1 CCCTAAACCCTAAGCCAC-TAAC
*
38193707 CCC-ATAACCTTAAGCCACTAAC
1 CCCTA-AACCCTAAGCCACTAAC
*
38193729 CCCTAGACCCTAAGCCTA-TAAC
1 CCCTAAACCCTAAGCC-ACTAAC
*
38193751 CCCTAAACCCTAAGCC-CTCAC
1 CCCTAAACCCTAAGCCACTAAC
38193772 CCCTAAAC
1 CCCTAAAC
38193780 ACTTAACATG
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
21 12 0.20
22 46 0.75
23 3 0.05
ACGTcount: A:0.35, C:0.44, G:0.04, T:0.17
Consensus pattern (22 bp):
CCCTAAACCCTAAGCCACTAAC
Found at i:38193838 original size:13 final size:13
Alignment explanation
Indices: 38193798--38193842 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
38193788 TGTAAATTGA
*
38193798 AAACGTACACCAT
1 AAACCTACACCAT
38193811 AAACACTGA-ACCAT
1 AAAC-CT-ACACCAT
38193825 AAACCTACACCAT
1 AAACCTACACCAT
38193838 AAACC
1 AAACC
38193843 GTAAACACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 1 0.04
13 16 0.57
14 10 0.36
15 1 0.04
ACGTcount: A:0.49, C:0.33, G:0.04, T:0.13
Consensus pattern (13 bp):
AAACCTACACCAT
Found at i:38193953 original size:22 final size:24
Alignment explanation
Indices: 38193928--38193973 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
38193918 TATCTATAAC
38193928 CCTAACC-CTTAAACCAT-AATAG
1 CCTAACCTCTTAAACCATGAATAG
*
38193950 CCTAACCTGTTAAACCATGAATAG
1 CCTAACCTCTTAAACCATGAATAG
38193974 TAATTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 9 0.43
24 5 0.24
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.24
Consensus pattern (24 bp):
CCTAACCTCTTAAACCATGAATAG
Found at i:38194518 original size:125 final size:125
Alignment explanation
Indices: 38194291--38194733 Score: 721
Period size: 125 Copynumber: 3.5 Consensus size: 125
38194281 ATTAGTGGCA
* * **
38194291 TTTCTAGATAAACGCCACTAGTGCCACTACAGGTCAAAGTTAAACGACGGTGTTCTGCTTAATTA
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGACGTTCTGCTTAATTA
* *
38194356 TTTGCT-GAGCATTAGTGGCGTTTTTT-AGTAAGCGCCGCAAATGTTAGATCTTTACCGACG
66 TTTG-TGGAGCATTAGTGGCGTTTTTTGA-TAAGCGCCGCAAATGCTAGATCTTTACCGGCG
*
38194416 TTTCCAGATAAATGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGACGTTCTGCTTAATTA
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGACGTTCTGCTTAATTA
*
38194481 TTTGTGGAGCATTAGTGGCGTTTTTTGATAAGAGCCGCAAATGCTAGATCTTTACCGGCG
66 TTTGTGGAGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCG
38194541 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGA-GTTCTGCTTAATT
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGAC-GACGTTCTGCTTAATT
* * *
38194605 ATTTGCGGAGCATTAGTGGCATTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACTGGCG
65 ATTTGTGGAGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCG
* *
38194666 TTTCCAGATAAACGTCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGACGTTCTGCTTAATTA
38194731 TTT
66 TTT
38194734 ACGGCGCTTT
Statistics
Matches: 299, Mismatches: 15, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
124 2 0.01
125 294 0.98
126 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (125 bp):
TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGACGTTCTGCTTAATTA
TTTGTGGAGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCG
Found at i:38196332 original size:90 final size:91
Alignment explanation
Indices: 38196222--38196402 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 91
38196212 TATATTGATT
38196222 TAATATTTAAAATTTTAAATATAAACAAATTAACATATTTTTAATGTTTACATGGTATTATATTA
1 TAATATTTAAAATTTTAAATATAAACAAATTAACATATTTTTAATGTTTACATGGTATTATATTA
38196287 TTATATATTTAATTTTATGTGATATA
66 TTATATATTTAATTTTATGTGATATA
38196313 TAATATTT-AAATTTTAAATATAAACAAATTAACATATTTTTAATGTTTACATGGTATTATATTA
1 TAATATTTAAAATTTTAAATATAAACAAATTAACATATTTTTAATGTTTACATGGTATTATATTA
38196377 TTATATATTTAATTTTATGTGATATA
66 TTATATATTTAATTTTATGTGATATA
38196403 AATTACATCA
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 82 0.91
91 8 0.09
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (91 bp):
TAATATTTAAAATTTTAAATATAAACAAATTAACATATTTTTAATGTTTACATGGTATTATATTA
TTATATATTTAATTTTATGTGATATA
Found at i:38196959 original size:29 final size:29
Alignment explanation
Indices: 38196900--38196960 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
38196890 ATATTCCCCT
* *
38196900 TAATTTTTAAGGCTAAACTAGGATCTTTC
1 TAATTTTTAAGGCTAAACTAGAATCTCTC
* *
38196929 TAATTTTTATGGCTCAACTAGTAATC-CTC
1 TAATTTTTAAGGCTAAACTAG-AATCTCTC
38196958 TAA
1 TAA
38196961 CCCCTTAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (29 bp):
TAATTTTTAAGGCTAAACTAGAATCTCTC
Found at i:38203609 original size:12 final size:13
Alignment explanation
Indices: 38203592--38203620 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
38203582 ATGGTAAAGC
38203592 AAAATAAAAA-TA
1 AAAATAAAAATTA
38203604 AAAATAAAAATTA
1 AAAATAAAAATTA
38203617 AAAA
1 AAAA
38203621 AATCTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATTA
Found at i:38214589 original size:19 final size:20
Alignment explanation
Indices: 38214552--38214591 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
38214542 TCTTTTCGCA
* *
38214552 TTCATTTCATGCATTTGCAT
1 TTCATTGCATGCATATGCAT
38214572 TTCATTGCAT-CATATGCAT
1 TTCATTGCATGCATATGCAT
38214591 T
1 T
38214592 AAAAACCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (20 bp):
TTCATTGCATGCATATGCAT
Found at i:38214787 original size:45 final size:42
Alignment explanation
Indices: 38214736--38214831 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 42
38214726 TAAATACAAA
* *
38214736 AGATCTTGTCTTCCCATACTAGTGG-TGAAGTAGATCCAAGAAAAC
1 AGATCTTGTCTT--CAT-CTACTGGATGAAGTAGATCAAAG-AAAC
* *
38214781 AGATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGAAAC
1 AGATCTTGTCTTCATCTACTGG-ATGAAGTAGATCAAAGAAAC
38214824 AGATCTTG
1 AGATCTTG
38214832 CCTCCCTAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
42 5 0.11
43 14 0.32
44 14 0.32
45 11 0.25
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (42 bp):
AGATCTTGTCTTCATCTACTGGATGAAGTAGATCAAAGAAAC
Found at i:38215101 original size:44 final size:44
Alignment explanation
Indices: 38214957--38215411 Score: 403
Period size: 44 Copynumber: 10.2 Consensus size: 44
38214947 AGAAAAAGCG
* *
38214957 GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACA
1 GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGATAGCA
* * * *** * * * *
38215001 AATCTCGCCTTCCCATACTGGTGGCGAAGAGTAGATCGAAGAAAACA
1 GATCTTGTCTTCATGTACTGG-CGTG-A-AGTAGATCGAAGATAGCA
*
38215048 GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCA
1 GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGATAGCA
* * * * * * *
38215092 AATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGAT-GCA
1 GATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCGAAGATAGCA
* *
38215136 GATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCA
1 GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGATAGCA
* * *
38215180 GATCTTGTCTTTCCA--TACTGGTGGCGAAGTAGATCGAAGAGAGCA
1 GATCTTGTC-TT-CATGTACTGG-CGTGAAGTAGATCGAAGATAGCA
* * * * * * *
38215225 AATTTTATCTTCATGTATTGGCGTGAAGTAGATTGAAGAAAACA
1 GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGATAGCA
* * *
38215269 GATCTTGTCGTCATGTACTGGCGTGAAGTAGATCAAAGATAACA
1 GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGATAGCA
*** * * *
38215313 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCA
1 GATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCGAAGATAGCA
* * * *
38215358 GGTCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATATCGCA
1 GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGATAGCA
*
38215402 GATCTGGTCT
1 GATCTTGTCT
38215412 CTCTGAAGTT
Statistics
Matches: 321, Mismatches: 79, Indels: 22
0.76 0.19 0.05
Matches are distributed among these distances:
43 19 0.06
44 180 0.56
45 86 0.27
46 5 0.02
47 31 0.10
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGATAGCA
Found at i:38215283 original size:133 final size:132
Alignment explanation
Indices: 38214958--38215394 Score: 457
Period size: 133 Copynumber: 3.3 Consensus size: 132
38214948 GAAAAAGCGG
* * * * * * *** *
38214958 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTCGCCTTCCCATACTGGT
1 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA-AACAGATCTTGTCGTCATGTACTAG-
* * * * * *
38215023 GGCGAAGAGTAGATCGAAGAAAACAGATCTTGTC-TT-CATGTACTGG-CGTGAAGTAGATCAAA
64 CGTG-A-AGTAGATCGAAGATAACAGATCTTGTCTTTCCA--TACTGGTGGCGAAGTAGATCGAA
*
38215085 GATAGCAA
125 GAAAGCAA
* * * * * ** * *
38215093 ATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTAGC
1 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAACAGATCTTGTCGTCATGTACTAGC
* *
38215158 GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTTCCATACTGGTGGCGAAGTAGATCGAAGAGAG
65 GTGAAGTAGATCGAAGATAACAGATCTTGTCTTTCCATACTGGTGGCGAAGTAGATCGAAGAAAG
38215223 CAA
130 CAA
* * * *
38215226 ATTTTATCTTCATGTATTGGCGTGAAGTAGATTGAAGAAAACAGATCTTGTCGTCATGTACTGGC
1 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG-AAACAGATCTTGTCGTCATGTACTAGC
* *
38215291 GTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
65 GTGAAGTAGATCGAAGATAACAGATCTTGTCTTTCCATACTGGTGGCGAAGTAGATCGAAGAAAG
*
38215356 CAG
130 CAA
*
38215359 GTCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA
1 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA
38215395 TATCGCAGAT
Statistics
Matches: 250, Mismatches: 47, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
132 45 0.18
133 155 0.62
134 4 0.02
135 31 0.12
136 15 0.06
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (132 bp):
ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAACAGATCTTGTCGTCATGTACTAGCG
TGAAGTAGATCGAAGATAACAGATCTTGTCTTTCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
AA
Found at i:38215404 original size:89 final size:89
Alignment explanation
Indices: 38215249--38215411 Score: 236
Period size: 89 Copynumber: 1.8 Consensus size: 89
38215239 GTATTGGCGT
*
38215249 GAAGTAGATTGAAGAAAACAGATCTTGTCGTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
1 GAAGTAGATCGAAGAAAACAGATCTTGTCGTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
*
38215314 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTGGTCTTCCCATACTGGTGGC
* * * * * * **
38215338 GAAGTAGATCGAAGAAAGCAGGTCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATATCGCAG
1 GAAGTAGATCGAAGAAAACAGATCTTGTCGTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
38215403 ATCTGGTCT
66 ATCTGGTCT
38215412 CTCTGAAGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (89 bp):
GAAGTAGATCGAAGAAAACAGATCTTGTCGTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
ATCTGGTCTTCCCATACTGGTGGC
Found at i:38215404 original size:133 final size:132
Alignment explanation
Indices: 38215030--38215406 Score: 468
Period size: 133 Copynumber: 2.8 Consensus size: 132
38215020 GGTGGCGAAG
* *** * * * *
38215030 AGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGCAAA
1 AGTAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAAA
* * * * * * *
38215094 TCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTAGCG
66 TCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATGCAGATCTTGTCGTCATGTACTAGCG
38215159 TGA
130 TGA
* * *
38215162 AGTAGATCGAAGATAGCAGATCTTGTCTTTCCATACTGGTGGCGAAGTAGATCGAAGAGAGCAAA
1 AGTAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAAA
* * * ** *
38215227 TTTTATCTTCATGTATTGGCGTGAAGTAGATTGAAGAAAACAGATCTTGTCGTCATGTACTGGCG
66 TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG-ATGCAGATCTTGTCGTCATGTACTAGCG
38215292 TGA
130 TGA
* **
38215295 AGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGG
1 AGTAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAAA
*
38215360 TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATATCGCAGATCT
66 TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT-GCAGATCT
38215407 GGTCTCTCTG
Statistics
Matches: 207, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
132 48 0.23
133 159 0.77
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (132 bp):
AGTAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAAA
TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATCTTGTCGTCATGTACTAGCGT
GA
Found at i:38215767 original size:18 final size:16
Alignment explanation
Indices: 38215740--38215783 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
38215730 CACATGCACG
38215740 TTTTAAAATACACATGT
1 TTTTAAAATACACAT-T
38215757 TTTTCAAAATACACATT
1 TTTT-AAAATACACATT
*
38215774 TTTTATAATA
1 TTTTAAAATA
38215784 GATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 9 0.36
18 11 0.44
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTTAAAATACACATT
Found at i:38223872 original size:1 final size:1
Alignment explanation
Indices: 38223866--38223939 Score: 121
Period size: 1 Copynumber: 74.0 Consensus size: 1
38223856 TAAGAAAATG
* * *
38223866 AAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
38223931 AAAAAAAAA
1 AAAAAAAAA
38223940 GAGTATTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:38228065 original size:19 final size:19
Alignment explanation
Indices: 38228041--38228079 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38228031 GCAAATACTT
38228041 TAAAA-TTAGAAAAGAAATA
1 TAAAATTTAGAAAA-AAATA
*
38228060 TAAAATTTATAAAAAAATA
1 TAAAATTTAGAAAAAAATA
38228079 T
1 T
38228080 TATTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
TAAAATTTAGAAAAAAATA
Found at i:38228107 original size:21 final size:20
Alignment explanation
Indices: 38228050--38228107 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
38228040 TTAAAATTAG
*
38228050 AAAAGAAATATA-AAATTTAT
1 AAAA-AAATATATAATTTTAT
38228070 AAAAAAATATTATTAATTTTAT
1 AAAAAAATA-TA-TAATTTTAT
*
38228092 CAAAATAATATATAAT
1 -AAAAAAATATATAAT
38228108 AAATAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 5 0.16
20 6 0.19
21 4 0.12
22 9 0.28
23 8 0.25
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAAAATATATAATTTTAT
Found at i:38229082 original size:22 final size:23
Alignment explanation
Indices: 38229048--38229106 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
38229038 TATATTTGGT
*
38229048 TAAAAATTAAAAATGATTTGAAAA
1 TAAAAATT-AAAATGATGTGAAAA
* *
38229072 TGAAAA-TAAAAT-ATGTGAAAT
1 TAAAAATTAAAATGATGTGAAAA
38229093 TAAAAATTAAAATG
1 TAAAAATTAAAATG
38229107 TTTTCTAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 12 0.41
22 11 0.38
23 1 0.03
24 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (23 bp):
TAAAAATTAAAATGATGTGAAAA
Found at i:38229685 original size:21 final size:22
Alignment explanation
Indices: 38229639--38229685 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
38229629 TATAAAAAAA
*
38229639 TTAAAAAATAAAATTGATTTTC
1 TTAAAAAATAAAAATGATTTTC
*
38229661 -TAAAAATTAAAAAT-ATTTTC
1 TTAAAAAATAAAAATGATTTTC
38229681 TTAAA
1 TTAAA
38229686 TCAAATGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
TTAAAAAATAAAAATGATTTTC
Found at i:38237611 original size:25 final size:25
Alignment explanation
Indices: 38237583--38237630 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
38237573 TCCAAGCTGA
*
38237583 ATAACGGGAAG-ATCATGTGAGCTAT
1 ATAACAGGAAGCA-CATGTGAGCTAT
38237608 ATAACAGGAAGCACATGTGAGCT
1 ATAACAGGAAGCACATGTGAGCT
38237631 GTGGTGTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.21
Consensus pattern (25 bp):
ATAACAGGAAGCACATGTGAGCTAT
Found at i:38240787 original size:20 final size:19
Alignment explanation
Indices: 38240757--38240797 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
38240747 TTTTAAAAAA
* *
38240757 TTTAAAATTTTCATACTTT
1 TTTAAAATTTTAATAATTT
38240776 TTTAATAATTTTAATAATTT
1 TTTAA-AATTTTAATAATTT
38240796 TT
1 TT
38240798 AATTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAAAATTTTAATAATTT
Found at i:38240803 original size:27 final size:26
Alignment explanation
Indices: 38240742--38240811 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
38240732 ATTCTAGTAA
* *
38240742 TTAA-TTTTTAAAAAATTTAAAATTT
1 TTAATTTTTTAATAATTTTAAAATTT
*
38240767 TCATACTTTTTTAATAATTTTAATAATTT
1 T--TAATTTTTTAATAATTTTAA-AATTT
*
38240796 TTAATTTTTAAATAAT
1 TTAATTTTTTAATAAT
38240812 AGTTTTGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 1 0.03
27 15 0.42
28 14 0.39
29 6 0.17
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (26 bp):
TTAATTTTTTAATAATTTTAAAATTT
Found at i:38240809 original size:18 final size:18
Alignment explanation
Indices: 38240774--38240825 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
38240764 TTTTCATACT
38240774 TTTTTAATAATTTTAATAA
1 TTTTTAAT-ATTTTAATAA
38240793 TTTTTAAT-TTTTAAATAA
1 TTTTTAATATTTT-AATAA
*
38240811 TAGTTTTGATATTTT
1 T--TTTTAATATTTT
38240826 TTGAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 8 0.29
20 6 0.21
21 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTTAATATTTTAATAA
Found at i:38240827 original size:30 final size:31
Alignment explanation
Indices: 38240778--38240838 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
38240768 CATACTTTTT
38240778 TAATAATTTTAATAATTTTT-AATTTTTAAA
1 TAATAATTTTAATAATTTTTGAATTTTTAAA
* * *
38240808 TAATAGTTTTGATATTTTTTGAATTTTTAAA
1 TAATAATTTTAATAATTTTTGAATTTTTAAA
38240839 ATTAATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (31 bp):
TAATAATTTTAATAATTTTTGAATTTTTAAA
Found at i:38245417 original size:310 final size:311
Alignment explanation
Indices: 38244844--38245464 Score: 1235
Period size: 310 Copynumber: 2.0 Consensus size: 311
38244834 ACCTGGCTGT
38244844 GTGTCACACACGGTTGAGACACATGCCCGTGTGGATGAAAATAAGCCATTTTACAAGCCATATTT
1 GTGTCACACACGGTTGAGACACATGCCCGTGTGGATGAAAATAAGCCATTTTACAAGCCATATTT
38244909 CTCACCCAATTTTGTGTCTATCTACAATCAACATTACACATATCAACAAGGCATAATTAGACGTT
66 CTCACCCAATTTTGTGTCTATCTACAATCAACATTACACATATCAACAAGGCATAATTAGACGTT
38244974 CAAAACAAGCCAAAATAAGTCGCTAAACTCAACACATTACATATAAGGCATCATTAGACAAAATA
131 CAAAACAAGCCAAAATAAGTCGCTAAACTCAACACATTACATATAAGGCATCATTAGACAAAATA
38245039 CCTATACATGCCATTATAACCAAAATCAAAATATTCGAAAATACCGATAAAACCGATGGATAGTG
196 CCTATACATGCCATTATAACCAAAATCAAAATATTCGAAAATACCGATAAAACCGATGGATAGTG
38245104 TGATATATCTACCACAAGCTTCCAACCTAATCGAGCTTCCGGTAATCTGAA
261 TGATATATCTACCACAAGCTTCCAACCTAATCGAGCTTCCGGTAATCTGAA
38245155 GTGTCACACA-GGTTGAGACACATGCCCGTGTGGATGAAAATAAGCCATTTTACAAGCCATATTT
1 GTGTCACACACGGTTGAGACACATGCCCGTGTGGATGAAAATAAGCCATTTTACAAGCCATATTT
38245219 CTCACCCAATTTTGTGTCTATCTACAATCAACATTACACATATCAACAAGGCATAATTAGACGTT
66 CTCACCCAATTTTGTGTCTATCTACAATCAACATTACACATATCAACAAGGCATAATTAGACGTT
38245284 CAAAACAAGCCAAAATAAGTCGCTAAACTCAACACATTACATATAAGGCATCATTAGACAAAATA
131 CAAAACAAGCCAAAATAAGTCGCTAAACTCAACACATTACATATAAGGCATCATTAGACAAAATA
38245349 CCTATACATGCCATTATAACCAAAATCAAAATATTCGAAAATACCGATAAAACCGATGGATAGTG
196 CCTATACATGCCATTATAACCAAAATCAAAATATTCGAAAATACCGATAAAACCGATGGATAGTG
38245414 TGATATATCTACCACAAGCTTCCAACCTAATCGAGCTTCCGGTAATCTGAA
261 TGATATATCTACCACAAGCTTCCAACCTAATCGAGCTTCCGGTAATCTGAA
38245465 AAGTAGAAGA
Statistics
Matches: 310, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
310 300 0.97
311 10 0.03
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (311 bp):
GTGTCACACACGGTTGAGACACATGCCCGTGTGGATGAAAATAAGCCATTTTACAAGCCATATTT
CTCACCCAATTTTGTGTCTATCTACAATCAACATTACACATATCAACAAGGCATAATTAGACGTT
CAAAACAAGCCAAAATAAGTCGCTAAACTCAACACATTACATATAAGGCATCATTAGACAAAATA
CCTATACATGCCATTATAACCAAAATCAAAATATTCGAAAATACCGATAAAACCGATGGATAGTG
TGATATATCTACCACAAGCTTCCAACCTAATCGAGCTTCCGGTAATCTGAA
Found at i:38245909 original size:96 final size:97
Alignment explanation
Indices: 38245745--38245932 Score: 369
Period size: 96 Copynumber: 1.9 Consensus size: 97
38245735 ACACTCATTC
38245745 CATATGCATAACACACAAGTCATAAGCACATCATTCAACCATAGATACAGGCTAGTACATTTAAA
1 CATATGCATAACACACAAGTCATAAGCACATCATTCAACCATAGATACAGGCTAGTACATTTAAA
38245810 CATAGTCCTTTTTCGAATTAAT-ACACCAATT
66 CATAGTCCTTTTTCGAATTAATCACACCAATT
38245841 CATATGCATAACACACAAGTCATAAGCACATCATTCAACCATAGATACAGGCTAGTACATTTAAA
1 CATATGCATAACACACAAGTCATAAGCACATCATTCAACCATAGATACAGGCTAGTACATTTAAA
38245906 CATAGTCCTTTTTCGAATTAATCACAC
66 CATAGTCCTTTTTCGAATTAATCACAC
38245933 GATAACTCAT
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 87 0.96
97 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (97 bp):
CATATGCATAACACACAAGTCATAAGCACATCATTCAACCATAGATACAGGCTAGTACATTTAAA
CATAGTCCTTTTTCGAATTAATCACACCAATT
Found at i:38246701 original size:13 final size:13
Alignment explanation
Indices: 38246683--38246709 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38246673 CACTCAACTC
38246683 TTGTAATAGGAAT
1 TTGTAATAGGAAT
38246696 TTGTAATAGGAAT
1 TTGTAATAGGAAT
38246709 T
1 T
38246710 CAGTGGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (13 bp):
TTGTAATAGGAAT
Found at i:38247435 original size:48 final size:48
Alignment explanation
Indices: 38247328--38247444 Score: 159
Period size: 48 Copynumber: 2.4 Consensus size: 48
38247318 GTGGGTTGGG
*
38247328 GGGA-GGGGGGGAGAGCATTGAAAAAATGATAATGGAGGATTAAATGA
1 GGGAGGGGGGGGAGAGCATTGAAAAAAGGATAATGGAGGATTAAATGA
* *
38247375 GGGTAGGAGGGGGTGAGCATTG-AAAAAGGATAATGGAGGATTAAATGA
1 GGG-AGGGGGGGGAGAGCATTGAAAAAAGGATAATGGAGGATTAAATGA
38247423 GGG-GGCCGGGGGGAGAGCATTG
1 GGGAGG--GGGGGGAGAGCATTG
38247445 GAACAAATTA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
46 2 0.03
47 3 0.05
48 42 0.69
49 14 0.23
ACGTcount: A:0.34, C:0.04, G:0.45, T:0.16
Consensus pattern (48 bp):
GGGAGGGGGGGGAGAGCATTGAAAAAAGGATAATGGAGGATTAAATGA
Found at i:38247868 original size:16 final size:16
Alignment explanation
Indices: 38247847--38247909 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
38247837 TGAATTACTG
*
38247847 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
* * * *
38247863 ATTATAGTTTTATTAC
1 ATTACAGCTCTATTCC
* *
38247879 ATTACAGTTCTATTTC
1 ATTACAGCTCTATTCC
*
38247895 ATTACAGCCCTATTC
1 ATTACAGCTCTATTC
38247910 TATTCCAGTG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:38250556 original size:17 final size:17
Alignment explanation
Indices: 38250534--38250589 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
38250524 TTTTTGAGAA
*
38250534 ACACGGGCGTGTGTCGT
1 ACACGGGCGTGTGTCGC
38250551 ACAC-GG-GTG-GTC-C
1 ACACGGGCGTGTGTCGC
*
38250564 ACACGGGCGTGTGCCGC
1 ACACGGGCGTGTGTCGC
38250581 ACACGGGCG
1 ACACGGGCG
38250590 GTCCACACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 4 0.12
14 5 0.15
15 6 0.18
16 4 0.12
17 14 0.42
ACGTcount: A:0.14, C:0.30, G:0.41, T:0.14
Consensus pattern (17 bp):
ACACGGGCGTGTGTCGC
Found at i:38250570 original size:30 final size:30
Alignment explanation
Indices: 38250534--38250610 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
38250524 TTTTTGAGAA
* * *
38250534 ACACGGGCGTGTGTCGTACACGGGTGGTCC
1 ACACGGGCGTGTGCCGCACACGGGCGGTCC
38250564 ACACGGGCGTGTGCCGCACACGGGCGGTCC
1 ACACGGGCGTGTGCCGCACACGGGCGGTCC
*
38250594 ACACAGGCGTGTGCCGC
1 ACACGGGCGTGTGCCGC
38250611 TTAAGAAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.14, C:0.32, G:0.39, T:0.14
Consensus pattern (30 bp):
ACACGGGCGTGTGCCGCACACGGGCGGTCC
Found at i:38250835 original size:21 final size:20
Alignment explanation
Indices: 38250811--38250861 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
38250801 CGTGTCTCTC
*
38250811 AGCCACACGACCCTGTATCTT
1 AGCCACACGA-CCTGTACCTT
* *
38250832 AGCCACACAGACTTGTCCCTT
1 AGCCACAC-GACCTGTACCTT
38250853 AGCCACACG
1 AGCCACACG
38250862 GTCATGTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.88
22 2 0.08
ACGTcount: A:0.25, C:0.39, G:0.16, T:0.20
Consensus pattern (20 bp):
AGCCACACGACCTGTACCTT
Found at i:38253828 original size:14 final size:13
Alignment explanation
Indices: 38253791--38253843 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
38253781 TGGAAATTCC
38253791 ATTAGGTTAATTTA
1 ATTA-GTTAATTTA
*
38253805 GGTTAGTTAATTTA
1 -ATTAGTTAATTTA
*
38253819 ATTAGTTTAATTAA
1 ATTAG-TTAATTTA
38253833 ATTA-TTAATTT
1 ATTAGTTAATTT
38253844 GGATCTGCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
12 6 0.18
13 4 0.12
14 20 0.61
15 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (13 bp):
ATTAGTTAATTTA
Found at i:38255714 original size:10 final size:10
Alignment explanation
Indices: 38255679--38255737 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
38255669 ATGTTCAAGC
38255679 TTTTTATGAT-
1 TTTTTAT-ATA
*
38255689 TTTTTTTATA
1 TTTTTATATA
**
38255699 AGTTTATATA
1 TTTTTATATA
38255709 TTTTTAATATA
1 TTTTT-ATATA
38255720 TTTTTATGAT-
1 TTTTTAT-ATA
38255730 TTTTTATA
1 TTTTTATA
38255738 AGTACGTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 3 0.08
10 25 0.62
11 12 0.30
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (10 bp):
TTTTTATATA
Found at i:38257655 original size:43 final size:43
Alignment explanation
Indices: 38257605--38257693 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
38257595 ATATGAAGTT
* *
38257605 TTTCGCTAAGCCCCT-ACGTTAATTGTGAAAAGATATAATACTC
1 TTTCGCTAAG-CCCTAACATTAATTATGAAAAGATATAATACTC
* *
38257648 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATACTATTC
1 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATACTC
38257691 TTT
1 TTT
38257694 TGTAGTGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (43 bp):
TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATACTC
Found at i:38258618 original size:17 final size:17
Alignment explanation
Indices: 38258593--38258631 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
38258583 TCAGACTCTA
* *
38258593 GGTGAGTTTGGATGGGC
1 GGTGCGTTTGGATGGAC
38258610 GGTGCGTTTGGATGGAC
1 GGTGCGTTTGGATGGAC
38258627 GGTGC
1 GGTGC
38258632 ATTTACCTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.51, T:0.28
Consensus pattern (17 bp):
GGTGCGTTTGGATGGAC
Found at i:38259649 original size:14 final size:14
Alignment explanation
Indices: 38259630--38259656 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38259620 TGTTTTGTGA
38259630 TTATTAGTATTAAC
1 TTATTAGTATTAAC
38259644 TTATTAGTATTAA
1 TTATTAGTATTAA
38259657 ACTGAGTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (14 bp):
TTATTAGTATTAAC
Found at i:38263067 original size:43 final size:43
Alignment explanation
Indices: 38263017--38263105 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
38263007 ATATGAAGTT
* * *
38263017 TTTCGCTAAGCCCTGACGTTAATTGTGAAAAGATATAATACTC
1 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATACTC
* *
38263060 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATACTATTC
1 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATACTC
38263103 TTT
1 TTT
38263106 TGTAGTGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (43 bp):
TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATACTC
Found at i:38274394 original size:33 final size:33
Alignment explanation
Indices: 38274352--38274506 Score: 117
Period size: 33 Copynumber: 4.6 Consensus size: 33
38274342 ATATAAAGGG
38274352 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
38274385 GGTTGCTAAGTGCTGA-TCCCAACGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCC--CG-A--TT-CAT-T---GGT
*
38274427 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
38274454 GATTGCTAAGTGCTCATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
38274487 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
38274507 ACCATATCTT
Statistics
Matches: 96, Mismatches: 9, Indels: 34
0.69 0.06 0.24
Matches are distributed among these distances:
27 20 0.21
28 2 0.02
31 2 0.02
32 6 0.06
33 35 0.36
34 2 0.02
35 1 0.01
37 2 0.02
38 2 0.02
39 1 0.01
41 1 0.01
42 18 0.19
43 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:38274434 original size:75 final size:76
Alignment explanation
Indices: 38274275--38274448 Score: 253
Period size: 75 Copynumber: 2.3 Consensus size: 76
38274265 ATTCCCCCAA
* * ** *
38274275 GGGGTTGCTAAGT-CTGATTCTCTGACTCATTGGTGGTTGCTAAGTGCTGATTTCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTATCTT
*
38274339 TGAATATAAAG
66 TAAATATAAAG
*
38274350 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTAT-TT
1 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTATCTT
* *
38274414 TAAATGTGAAG
66 TAAATATAAAG
38274425 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
38274449 CAAGGGATTG
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
75 47 0.53
76 42 0.47
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (76 bp):
GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTATCTT
TAAATATAAAG
Found at i:38274460 original size:102 final size:103
Alignment explanation
Indices: 38274354--38274550 Score: 315
Period size: 102 Copynumber: 1.9 Consensus size: 103
38274344 ATAAAGGGGG
* * *
38274354 TTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTAT-TTTAAA
1 TTGCTAAGTGCTCATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCAACATATCTTTAAA
*
38274418 TGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGA
66 TGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGA
* * *
38274456 TTGCTAAGTGCTCATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTTTGAA
1 TTGCTAAGTGCTCATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCAACATATCTTTAAA
*
38274521 TGTGAAAGGGGTTGCTAAGTTCTGATTCCC
66 TGTGAAAGGGGTTGCTAAGTGCTGATTCCC
38274551 TGAATCACTG
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 53 0.62
103 33 0.38
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (103 bp):
TTGCTAAGTGCTCATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCAACATATCTTTAAA
TGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGA
Found at i:38274548 original size:178 final size:177
Alignment explanation
Indices: 38274245--38274576 Score: 522
Period size: 178 Copynumber: 1.9 Consensus size: 177
38274235 ATTGAATATA
* * * * * *
38274245 AAGGGGGTTGCTAAGTGTTGATTCCCCCAAGGGGTTGCTAAGTCTGATTCTCTGACTCATTGGTG
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTCTCATTCCCCGAATCATTGGTG
* *
38274310 GTTGCTAAGTGCTGATTTCACCGTATCTTTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCG
66 GTTGCTAAGTGCTGATTCCACCATATCTTTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCG
* *
38274375 ATTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTATTTTAAATGTG
131 AATCACTGGTGGTTGCTAAGTGCTGATCCCAACGTATTTTAAATGTG
38274422 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGCTCATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGT-CTCATTCCCCGAATCATTGGT
* *
38274487 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAA-GGGGTTGCTAAGTTCTGATTCCC
65 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATAT-AAAGGGGGTTGCTAAGTGCTGATTCCC
*
38274551 TGAATCACTGGTGGTTGCTAAGTGCT
129 CGAATCACTGGTGGTTGCTAAGTGCT
38274577 AAATCCACCG
Statistics
Matches: 140, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
177 41 0.29
178 96 0.69
179 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (177 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTCTCATTCCCCGAATCATTGGTG
GTTGCTAAGTGCTGATTCCACCATATCTTTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCG
AATCACTGGTGGTTGCTAAGTGCTGATCCCAACGTATTTTAAATGTG
Found at i:38276257 original size:43 final size:43
Alignment explanation
Indices: 38276203--38276291 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 43
38276193 ATATGAAGTT
* * * *
38276203 TTTCGCTAAGCCTTGACGTTAATTGTGAAAAGATATAATATTC
1 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATATTC
* *
38276246 TTTCGCTAAGCCCTAACATTGATTATGAAAAGATATACTATTC
1 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATATTC
38276289 TTT
1 TTT
38276292 TGTGGTGGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (43 bp):
TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATATTC
Found at i:38282001 original size:213 final size:213
Alignment explanation
Indices: 38281627--38282060 Score: 751
Period size: 213 Copynumber: 2.0 Consensus size: 213
38281617 TAGAAGTGTG
* * *
38281627 TTGCCCTCCACACTGAAAGAACTTGATATAAACAAGTGTCCAAAGCTAGAGTCCATATCCCAAGA
1 TTGCCCACCACACTGAAAGAACTTGAAATAAACAAGTGTCCAAAACTAGAGTCCATATCCCAAGA
* **
38281692 AATTCAAGATAACTCTTCTCTTGAATCTATTAAAATCTGTGGATGTGATATGCTTAAGGGTTTAC
66 AATTCAAGATAACTCTTCTCTTGAATCTATTAAAATCTGTGAATGCCATATGCTTAAGGGTTTAC
*
38281757 CTCAAGGATTGAACAAGCTCAATCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
131 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
38281822 TCCTTAGGAGAGAGTGGT
196 TCCTTAGGAGAGAGTGGT
* * *
38281840 TTGCCCACCACACTGGAAGTACTTGAAATAAAGAAGTGTCCAAAACTAGAGTCCATATCCCAAGA
1 TTGCCCACCACACTGAAAGAACTTGAAATAAACAAGTGTCCAAAACTAGAGTCCATATCCCAAGA
*
38281905 AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTGTGAATGCCATATGCTTAAGGGTTTAC
66 AATTCAAGATAACTCTTCTCTTGAATCTATTAAAATCTGTGAATGCCATATGCTTAAGGGTTTAC
* *
38281970 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAGAGTATTGTTCAAATTTGATT
131 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
38282035 TCCTTAGGAGAGAGTGGT
196 TCCTTAGGAGAGAGTGGT
38282053 TTGCCCAC
1 TTGCCCAC
38282061 TACAAACCTT
Statistics
Matches: 208, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
213 208 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (213 bp):
TTGCCCACCACACTGAAAGAACTTGAAATAAACAAGTGTCCAAAACTAGAGTCCATATCCCAAGA
AATTCAAGATAACTCTTCTCTTGAATCTATTAAAATCTGTGAATGCCATATGCTTAAGGGTTTAC
CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
TCCTTAGGAGAGAGTGGT
Found at i:38285956 original size:15 final size:17
Alignment explanation
Indices: 38285936--38285973 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
38285926 TTTCATATAT
*
38285936 TTTTTAAT-T-TAGTAA
1 TTTTTAATATCTAATAA
38285951 TTTTTAATATCTAATAA
1 TTTTTAATATCTAATAA
38285968 TTTTTA
1 TTTTTA
38285974 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTTAATATCTAATAA
Found at i:38285982 original size:10 final size:9
Alignment explanation
Indices: 38285744--38285981 Score: 51
Period size: 9 Copynumber: 25.6 Consensus size: 9
38285734 CAATTCAAGT
38285744 TTTTTATAA
1 TTTTTATAA
38285753 TTTTTATAA
1 TTTTTATAA
* *
38285762 GTTTATAACAA
1 -TTT-TTATAA
* *
38285773 TTTTAATAC
1 TTTTTATAA
* *
38285782 TTTTGA-AT
1 TTTTTATAA
*
38285790 TTTTTATAT
1 TTTTTATAA
38285799 TTTTTAT-A
1 TTTTTATAA
* *
38285807 TTTATAAAA
1 TTTTTATAA
* *
38285816 TTTTAATACG
1 TTTTTATA-A
38285826 TTTTTATACA
1 TTTTTATA-A
* *
38285836 CTTTTAAAA
1 TTTTTATAA
*
38285845 TATTTTAAATAT
1 T-TTTT--ATAA
*
38285857 TTTTTATTA
1 TTTTTATAA
*
38285866 CTTTTATAA
1 TTTTTATAA
* *
38285875 TTTATTAGAT
1 TTT-TTATAA
* *
38285885 TTTATTAGAT
1 TTT-TTATAA
*
38285895 TTCCTTTATCA
1 TT--TTTATAA
38285906 -TTTTATAA
1 TTTTTATAA
*
38285914 CTTTATATCAA
1 -TTTTTAT-AA
*
38285925 TTTTCATATA
1 TTTTTATA-A
38285935 TTTTT-TAA
1 TTTTTATAA
38285943 --TTTAGTAA
1 TTTTTA-TAA
38285951 -TTTT-TAA
1 TTTTTATAA
* *
38285958 TATCTAATAA
1 T-TTTTATAA
38285968 TTTTTATAA
1 TTTTTATAA
38285977 TTTTT
1 TTTTT
38285982 TTCTGATTTT
Statistics
Matches: 168, Mismatches: 40, Indels: 42
0.67 0.16 0.17
Matches are distributed among these distances:
6 3 0.02
7 3 0.02
8 21 0.12
9 64 0.38
10 60 0.36
11 13 0.08
12 4 0.02
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:38288756 original size:10 final size:9
Alignment explanation
Indices: 38288691--38288844 Score: 62
Period size: 9 Copynumber: 16.3 Consensus size: 9
38288681 CCAGTTCAAG
*
38288691 TTTTTATACT
1 TTTTTATA-A
*
38288701 TTTTTCTAA
1 TTTTTATAA
38288710 TTTTTATAA
1 TTTTTATAA
*
38288719 GTTTATATCAA
1 -TTTTTAT-AA
* *
38288730 TTTTAATAC
1 TTTTTATAA
*
38288739 TTTTTA-AT
1 TTTTTATAA
38288747 TTTTTATAA
1 TTTTTATAA
38288756 TTTTT-T-A
1 TTTTTATAA
38288763 TTTTTATAAAA
1 TTTTTAT--AA
* *
38288774 TTTTAATATG
1 TTTTTATA-A
38288784 TTTTTATACA
1 TTTTTATA-A
* *
38288794 CTTTTAAAA
1 TTTTTATAA
*
38288803 TATTTTAAATAT
1 T-TTTT--ATAA
*
38288815 TTTTTATTA
1 TTTTTATAA
* *
38288824 CTTTTATTA
1 TTTTTATAA
*
38288833 CTTTTATAA
1 TTTTTATAA
38288842 TTT
1 TTT
38288845 ATTAGATTTT
Statistics
Matches: 108, Mismatches: 25, Indels: 23
0.69 0.16 0.15
Matches are distributed among these distances:
7 6 0.06
8 9 0.08
9 42 0.39
10 35 0.32
11 13 0.12
12 3 0.03
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:38288760 original size:18 final size:18
Alignment explanation
Indices: 38288739--38288777 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
38288729 ATTTTAATAC
* *
38288739 TTTTTAATTTTT-TATAA
1 TTTTTTATTTTTATAAAA
38288756 TTTTTTATTTTTATAAAA
1 TTTTTTATTTTTATAAAA
38288774 TTTT
1 TTTT
38288778 AATATGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTTATTTTTATAAAA
Found at i:38288808 original size:21 final size:21
Alignment explanation
Indices: 38288761--38288808 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
38288751 TATAATTTTT
*
38288761 TATTTTTATAAAATTTTAATA
1 TATTTTTATAAAATTTTAAAA
* * *
38288782 TGTTTTTATACACTTTTAAAA
1 TATTTTTATAAAATTTTAAAA
38288803 TATTTT
1 TATTTT
38288809 AAATATTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
TATTTTTATAAAATTTTAAAA
Found at i:38288808 original size:31 final size:30
Alignment explanation
Indices: 38288764--38288830 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
38288754 AATTTTTTAT
38288764 TTTTATAAAATTTT-AATATGTTTTTATACAC
1 TTTTATAAAATTTTAAATAT-TTTTTAT-CAC
*
38288795 TTTTA-AAATATTTTAAATATTTTTTATTAC
1 TTTTATAAA-ATTTTAAATATTTTTTATCAC
38288825 TTTTAT
1 TTTTAT
38288831 TACTTTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
30 10 0.31
31 17 0.53
32 5 0.16
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTTATAAAATTTTAAATATTTTTTATCAC
Found at i:38288923 original size:15 final size:17
Alignment explanation
Indices: 38288903--38288940 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
38288893 TTTCATATAT
*
38288903 TTTTTAAT-T-TAGTAA
1 TTTTTAATATCTAATAA
38288918 TTTTTAATATCTAATAA
1 TTTTTAATATCTAATAA
38288935 TTTTTA
1 TTTTTA
38288941 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTTAATATCTAATAA
Found at i:38288949 original size:27 final size:26
Alignment explanation
Indices: 38288910--38288974 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 26
38288900 TATTTTTTAA
38288910 TTTAGTAA-TTTTTAAT-ATCTAATAATT
1 TTTA-TAATTTTTTAATAATCTAAT--TT
**
38288937 TTTATAATTTTTTTCTGAATCTAATTT
1 TTTATAATTTTTTAAT-AATCTAATTT
38288964 TTTATAATTTT
1 TTTATAATTTT
38288975 AATAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.09
27 23 0.70
29 7 0.21
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTATAATTTTTTAATAATCTAATTT
Found at i:38290707 original size:6 final size:6
Alignment explanation
Indices: 38290689--38290730 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
38290679 CTAAGTCCTT
* * *
38290689 TACAGA TATAGA TAAAGA TACAGA TACAGA TACAGT TACAGA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
38290731 GACAAATATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
TACAGA
Found at i:38292213 original size:43 final size:43
Alignment explanation
Indices: 38292101--38292214 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
38292091 AGTGTTTCTG
* * * *
38292101 TGTAAGACCACGTCTAGGACGTTGGCATCGACTTGTGTTTTCG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGACTAGTGATTACA
*
38292144 TGTAAGAACC-TGTCTAGGACAG-TGGCATCGA-TCAGTGATTACA
1 TGTAAG-ACCACGTCTAGGAC-GTTGGCATCGACT-AGTGATTACA
*
38292187 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACGTTGGCAT
38292215 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
42 5 0.08
43 50 0.85
44 4 0.07
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGACTAGTGATTACA
Found at i:38292921 original size:40 final size:38
Alignment explanation
Indices: 38292866--38292982 Score: 155
Period size: 40 Copynumber: 3.0 Consensus size: 38
38292856 CGTTTAGATA
*
38292866 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
1 AAAAAACGCCACTAAAAAT-AAGCATTAGCGGCGCTTTT
* *
38292905 AATAAAACGCCACTAAAGATAGAGTATTAGCGGCGCTTTTT
1 AA-AAAACGCCACTAAAAATA-AGCATTAGCGGCGC-TTTT
*
38292946 AAAAAACGCCACTAAAAATGAGCATTAGCGGCG-TTTT
1 AAAAAACGCCACTAAAAATAAGCATTAGCGGCGCTTTT
38292983 CCATAAAGCG
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
37 4 0.06
39 15 0.22
40 44 0.64
41 6 0.09
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (38 bp):
AAAAAACGCCACTAAAAATAAGCATTAGCGGCGCTTTT
Done.