Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 26 of 172
Found at i:8110494 original size:77 final size:77
Alignment explanation
Indices: 8110367--8110521 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
8110357 TAGAAACACA
8110367 AATCGTGAATTCTGAGCTATTTGACGTCGATTTTATCCTTCCCTTTTTTACTCGAAGATTCCAAT
1 AATCGTGAATTCTGAGCTATTTGACGTCGATTTTATCCTTCCCTTTTTTACTCGAAGATTCCAAT
8110432 ACGACGTTAGCT
66 ACGACGTTAGCT
8110444 AATCGTGAATTCTGAGCTATTTGACGTCGATTTTATCCTTCCCTTTTTTACTCGAAGATTCCAAT
1 AATCGTGAATTCTGAGCTATTTGACGTCGATTTTATCCTTCCCTTTTTTACTCGAAGATTCCAAT
8110509 ACGACGTTAGCT
66 ACGACGTTAGCT
8110521 A
1 A
8110522 CGGAATAAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (77 bp):
AATCGTGAATTCTGAGCTATTTGACGTCGATTTTATCCTTCCCTTTTTTACTCGAAGATTCCAAT
ACGACGTTAGCT
Found at i:8110597 original size:19 final size:18
Alignment explanation
Indices: 8110555--8110597 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
8110545 TTAATATTAC
* *
8110555 ATATTTTAATTTCACATT
1 ATATTTCAATTTCACACT
*
8110573 AAATTTCAATTTTCACACT
1 ATATTTCAA-TTTCACACT
8110592 ATATTT
1 ATATTT
8110598 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTCAATTTCACACT
Found at i:8114374 original size:42 final size:42
Alignment explanation
Indices: 8114274--8114404 Score: 167
Period size: 42 Copynumber: 3.1 Consensus size: 42
8114264 GGATTACCGA
*
8114274 GATATGAGATTTGTGTACGACCATGTCTGGGACATTGGCATC
1 GATATGAGATTTGTGTAAGACCATGTCTGGGACATTGGCATC
* ** * *
8114316 AACCTAATATTTGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATATGAGATTTGTGTAAGACCATGTCTGGGACATTGGCATC
*
8114358 GATATGAGATTCGTGTAAGACCATAG-CTGGG-CTATTGGCATC
1 GATATGAGATTTGTGTAAGACCAT-GTCTGGGAC-ATTGGCATC
8114400 GATAT
1 GATAT
8114405 ATGATAACAT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 73 0.97
43 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
GATATGAGATTTGTGTAAGACCATGTCTGGGACATTGGCATC
Found at i:8114439 original size:42 final size:42
Alignment explanation
Indices: 8114329--8114440 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
8114319 CTAATATTTG
* * * *
8114329 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCG
1 TGTAAGACCATATCTGGGATATTGGCATCGATATGAGATACA
* *
8114371 TGTAAGACCATAGCTGGGCTATTGGCATCGATAT-ATGATAACA
1 TGTAAGACCATATCTGGGATATTGGCATCGATATGA-GAT-ACA
*
8114414 TGTAAGACCATATATGGGATA-TGGCAT
1 TGTAAGACCATATCTGGGATATTGGCAT
8114441 TGTACGAGTT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 39 0.66
43 19 0.32
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATTGGCATCGATATGAGATACA
Found at i:8116466 original size:69 final size:70
Alignment explanation
Indices: 8116355--8116527 Score: 199
Period size: 69 Copynumber: 2.5 Consensus size: 70
8116345 GTGTGCCTAG
* ** ** * * *
8116355 CACTAGTCGAACGAATCAACAAATTATTATGCCTGGTTCTAGTCGGATAATCGATGATAG-TTGT
1 CACTAGTCGAACAAATTGACAAATTATTATGCCCAGTACTAGTCGGATAACCGACGATAGCTT-T
8116419 GCCCAA
65 GCCCAA
* *
8116425 TACTAGTCTAA-AAATTGACAAATTATTATGCCCAGTACTAGTCGGATAACCGACGATAGCTTTG
1 CACTAGTCGAACAAATTGACAAATTATTATGCCCAGTACTAGTCGGATAACCGACGATAGCTTTG
8116489 CCCAA
66 CCCAA
* * *
8116494 CATTAGTCGAACAAATTG-TAAATTATTACGCCCA
1 CACTAGTCGAACAAATTGACAAATTATTATGCCCA
8116528 ACGCTAATTA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
69 69 0.80
70 17 0.20
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (70 bp):
CACTAGTCGAACAAATTGACAAATTATTATGCCCAGTACTAGTCGGATAACCGACGATAGCTTTG
CCCAA
Found at i:8118392 original size:13 final size:13
Alignment explanation
Indices: 8118374--8118413 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 13
8118364 TAGATTTTCC
8118374 CTAAATATTATCA
1 CTAAATATTATCA
8118387 CTAAATA--ATC-
1 CTAAATATTATCA
8118397 CTAAATATTATCA
1 CTAAATATTATCA
8118410 -TAAA
1 CTAAA
8118414 ATAATTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.29
11 3 0.12
12 7 0.29
13 7 0.29
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:8118403 original size:23 final size:23
Alignment explanation
Indices: 8118373--8118418 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
8118363 ATAGATTTTC
8118373 CCTAAATATTATCACT-AAATAAT
1 CCTAAATATTATCA-TAAAATAAT
8118396 CCTAAATATTATCATAAAATAAT
1 CCTAAATATTATCATAAAATAAT
8118419 TCAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (23 bp):
CCTAAATATTATCATAAAATAAT
Found at i:8118425 original size:23 final size:23
Alignment explanation
Indices: 8118376--8118425 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
8118366 GATTTTCCCT
*
8118376 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
8118399 AAATATTATCA-TAAAATAATTCA
1 AAATATTATCACT-AAATAATCCA
8118422 AAAT
1 AAAT
8118426 TAAAAAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:8121267 original size:8 final size:8
Alignment explanation
Indices: 8121249--8121286 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
8121239 TATATTGTTA
8121249 TTTTTATTT
1 TTTTTA-TT
8121258 TTTTTATT
1 TTTTTATT
*
8121266 TTTTTATA
1 TTTTTATT
8121274 TTTTTATT
1 TTTTTATT
8121282 TTTTT
1 TTTTT
8121287 CAAACGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:8125998 original size:43 final size:44
Alignment explanation
Indices: 8125950--8126108 Score: 191
Period size: 43 Copynumber: 3.7 Consensus size: 44
8125940 GATTACCGAG
* *
8125950 ATGTGATTACATGAAAGACCATGTCTGGGACATTGAAATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGTAT
*
8125994 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGTAT
* * * * *
8126036 ATATGATTTCGTGTAATACCATGTCTGGGACATT-AGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGA-CATTGTAT
* *
8126079 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
8126109 TATGGCGTTG
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
42 1 0.01
43 96 0.99
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGTAT
Found at i:8126965 original size:20 final size:20
Alignment explanation
Indices: 8126942--8126986 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
8126932 TAGGGGTTGA
*
8126942 ATGAATGGTTTAT-AAATGGC
1 ATGAAT-GTTTATGAAATAGC
8126962 ATGAAATGTTTATGAAATAGC
1 ATG-AATGTTTATGAAATAGC
8126983 ATGA
1 ATGA
8126987 TTTGGTTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.33
Consensus pattern (20 bp):
ATGAATGTTTATGAAATAGC
Found at i:8137442 original size:22 final size:23
Alignment explanation
Indices: 8137388--8137469 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 23
8137378 CAAGTTGATG
* *
8137388 AACAGTAAGCTCTATATTGACCTGA
1 AACAGTAAGCTC--TATCGAGCTGA
*
8137413 AACGGTAAGCTCTATCGAGCT-A
1 AACAGTAAGCTCTATCGAGCTGA
8137435 AACAGTAAGCTC-ATACGAGCTGA
1 AACAGTAAGCTCTAT-CGAGCTGA
8137458 AAC-GATAAGCTC
1 AACAG-TAAGCTC
8137470 CAAAGAGCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
21 2 0.04
22 19 0.38
23 18 0.36
25 11 0.22
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTGA
Found at i:8137477 original size:23 final size:23
Alignment explanation
Indices: 8137409--8137478 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
8137399 CTATATTGAC
* * *
8137409 CTGAAACGGTAAGCTCTATCGAG
1 CTGAAACGATAAGCTCCAACGAG
8137432 CT-AAAC-AGTAAGCT-CATACGAG
1 CTGAAACGA-TAAGCTCCA-ACGAG
*
8137454 CTGAAACGATAAGCTCCAAAGAG
1 CTGAAACGATAAGCTCCAACGAG
8137477 CT
1 CT
8137479 AAAAATAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 16 0.42
23 18 0.47
24 3 0.08
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (23 bp):
CTGAAACGATAAGCTCCAACGAG
Found at i:8137478 original size:45 final size:47
Alignment explanation
Indices: 8137388--8137481 Score: 120
Period size: 45 Copynumber: 2.0 Consensus size: 47
8137378 CAAGTTGATG
* * * **
8137388 AACAGTAAGCTCTATATTGACCTGAAACGGTAAGCTCTATCGAGCTA
1 AACAGTAAGCTCTATATCGACCTGAAACGATAAGCTCCAAAGAGCTA
*
8137435 AACAGTAAGCTC-ATA-CGAGCTGAAACGATAAGCTCCAAAGAGCTA
1 AACAGTAAGCTCTATATCGACCTGAAACGATAAGCTCCAAAGAGCTA
8137480 AA
1 AA
8137482 AATAGTAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 26 0.63
46 3 0.07
47 12 0.29
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (47 bp):
AACAGTAAGCTCTATATCGACCTGAAACGATAAGCTCCAAAGAGCTA
Found at i:8140292 original size:92 final size:93
Alignment explanation
Indices: 8140179--8140353 Score: 228
Period size: 92 Copynumber: 1.9 Consensus size: 93
8140169 CATATCTGTG
* **
8140179 CCGATGCCATGTGCCAAACATGGTCTTACACTGACACATC-TCGTA-GCCGATGCATATCCCAGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGACAC-TCATAATAGGCCGATGCATATCCCAGA
*
8140242 CATGTCTTAAACTAGCTCTCGTCTCAACA
65 CATGTCTTAAACAAGCTCTCGTCTCAACA
** * * *
8140271 CCGATGCCATGTCCCGGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGACACTCATAATA-GGCCGATGCATATCCCAGA
*
8140336 CATGTCTTACACAAGCTC
65 CATGTCTTAAACAAGCTC
8140354 ACACAAGTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
91 2 0.03
92 35 0.50
94 33 0.47
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (93 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGACACTCATAATAGGCCGATGCATATCCCAGAC
ATGTCTTAAACAAGCTCTCGTCTCAACA
Found at i:8145078 original size:13 final size:13
Alignment explanation
Indices: 8145060--8145088 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8145050 GATATAAATG
8145060 AAATCAACTCATT
1 AAATCAACTCATT
8145073 AAATCAACTCATT
1 AAATCAACTCATT
8145086 AAA
1 AAA
8145089 CTTGAGAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATCAACTCATT
Found at i:8146849 original size:46 final size:45
Alignment explanation
Indices: 8146791--8146963 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 45
8146781 TTTGGGTTGT
* * *
8146791 GAGCTAGTGTAAGACATGTTTGAGACATGCATCGGCCATATTATGA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATC-GCCATATGATGA
* * *
8146837 GAGCCAGTGTAAGACCATGTCTGGGAAATTGCATCGACAT-TGAGATGA
1 GAGCCAGTGTAAGA-CATGTTTGGGACA-TGCATCGCCATAT--GATGA
* * *
8146885 GTGCTAGCGTAAGACATGTTTGGGACATGCATCAGCC-TCGA-GATGTA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATC-GCCAT--ATGATG-A
*
8146932 -AGCCAGTGGAAGACATGTTTGGGACATGCATC
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATC
8146964 AGCTACGAGA
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
46 53 0.52
47 28 0.27
48 21 0.21
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTTTGGGACATGCATCGCCATATGATGA
Found at i:8148775 original size:147 final size:147
Alignment explanation
Indices: 8148595--8148959 Score: 419
Period size: 147 Copynumber: 2.5 Consensus size: 147
8148585 TAATAGCATA
* * * ** *
8148595 GAACTACAAGTGTTAATGGATCCCATCCATTTAAAGCTCCAAGTGGGTCAAAGAGACGATCACTG
1 GAACTACAAGGGTTGATGAATCCCATCTGTTTAAAGCTACAAGTGGGTCAAAGAGACGATCACTG
* ** *
8148660 AGTGGGCTACCAAGTTATAATTGAGCTAGAAATAGCTTAGTGACTTAGTTGTCGGAACATGAAAC
66 AGTGGACTACCAAGTTATAATTGAAATAGAAATAGCTTAGTGACTTAGTTGTCAGAACATGAAAC
* * **
8148725 TCCACATTAGTTGTTTG
131 TCCACAATAGTCGCCTG
* * * * *
8148742 TAACTATC-AGGGTTGATGAATCCCATTTGTTTAAAGCTACAAGTAGGT-AAGTGAGATGATCAC
1 GAACTA-CAAGGGTTGATGAATCCCATCTGTTTAAAGCTACAAGTGGGTCAA-AGAGACGATCAC
* * * * * * *
8148805 TAAGTGGACTACCGAGTTATAGTTGAAATAGACATAGGTTAGTGACTTAGTTGTTAGAACATGCA
64 TGAGTGGACTACCAAGTTATAATTGAAATAGAAATAGCTTAGTGACTTAGTTGTCAGAACATGAA
8148870 ACTCCACAATAGTCGCCTG
129 ACTCCACAATAGTCGCCTG
* * * * *
8148889 GAACTACAAGTGTTGATGCATCTCATCTGTTTAAATCTTCAAGTGGGTCAAAGAGACGATCACTG
1 GAACTACAAGGGTTGATGAATCCCATCTGTTTAAAGCTACAAGTGGGTCAAAGAGACGATCACTG
8148954 AGTGGA
66 AGTGGA
8148960 TGATAACTCT
Statistics
Matches: 177, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
146 3 0.02
147 171 0.97
148 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (147 bp):
GAACTACAAGGGTTGATGAATCCCATCTGTTTAAAGCTACAAGTGGGTCAAAGAGACGATCACTG
AGTGGACTACCAAGTTATAATTGAAATAGAAATAGCTTAGTGACTTAGTTGTCAGAACATGAAAC
TCCACAATAGTCGCCTG
Found at i:8158834 original size:12 final size:12
Alignment explanation
Indices: 8158817--8158846 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8158807 CTGTGTGTCG
*
8158817 CACACGGCCTAC
1 CACACGGCCAAC
8158829 CACACGGCCAAC
1 CACACGGCCAAC
8158841 CACACG
1 CACACG
8158847 ACCGTGTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.50, G:0.17, T:0.03
Consensus pattern (12 bp):
CACACGGCCAAC
Found at i:8161066 original size:27 final size:27
Alignment explanation
Indices: 8161035--8161212 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
8161025 TAAATTGTAC
8161035 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
8161062 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
8161088 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
8161116 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
8161144 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
8161171 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
8161198 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
8161213 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:8161149 original size:82 final size:81
Alignment explanation
Indices: 8161036--8161191 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
8161026 AAATTGTACA
* *
8161036 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
8161100 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
8161117 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
8161182 TGCGAGTTGA
65 TGCGAATTGA
8161192 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:8161203 original size:82 final size:81
Alignment explanation
Indices: 8161032--8161212 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
8161022 GATTAAATTG
* *
8161032 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
8161097 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
8161113 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
8161177 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
8161195 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
8161213 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:8169129 original size:27 final size:27
Alignment explanation
Indices: 8169098--8169275 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
8169088 TAAATTGTAC
8169098 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
8169125 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
8169151 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
8169179 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
8169207 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
8169234 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
8169261 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
8169276 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:8169212 original size:82 final size:81
Alignment explanation
Indices: 8169099--8169254 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
8169089 AAATTGTACA
* *
8169099 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
8169163 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
8169180 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
8169245 TGCGAGTTGA
65 TGCGAATTGA
8169255 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:8169266 original size:82 final size:81
Alignment explanation
Indices: 8169095--8169275 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
8169085 GATTAAATTG
* *
8169095 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
8169160 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
8169176 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
8169240 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
8169258 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
8169276 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:8177393 original size:47 final size:48
Alignment explanation
Indices: 8177339--8177470 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 48
8177329 CAAAATCGAT
* * *
8177339 AAGTACCTATACCATGGTCTGTAGCCAAATCAAGGTAACTTATCTC-G
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
* * * *
8177386 GAGTACCTATACCATGGCCCATAGCCAAATTAAGGTAACTCCTCTCTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
* *
8177434 AAATAACTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
8177471 TCACTCGCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 39 0.54
48 33 0.46
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
Found at i:8181470 original size:23 final size:23
Alignment explanation
Indices: 8181419--8181463 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
8181409 TGTTAACTCA
*
8181419 TAAG-TTT-TTCTGAAAATAAGT
1 TAAGTTTTCTTCTGAAAATAAAT
8181440 TAAGTTTTCTTCT-AAAATAAAT
1 TAAGTTTTCTTCTGAAAATAAAT
8181462 TA
1 TA
8181464 TTGTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 13 0.62
23 4 0.19
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (23 bp):
TAAGTTTTCTTCTGAAAATAAAT
Found at i:8182751 original size:30 final size:30
Alignment explanation
Indices: 8182669--8182756 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 30
8182659 TTTTTTTATT
* *
8182669 AAAATAATATAAAA-ATAAATTTAATTT-TC
1 AAAATAATATAAAAGATAAAATT-ATTTACC
* *
8182698 AAAATAATGT--AAGTTATAAATTATTTACC
1 AAAATAATATAAAAGATA-AAATTATTTACC
*
8182727 AAAATAATATAAAAGCTAAAATTATTTACC
1 AAAATAATATAAAAGATAAAATTATTTACC
8182757 GACATTCCTA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.04
28 6 0.12
29 23 0.48
30 12 0.25
31 5 0.10
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATAATATAAAAGATAAAATTATTTACC
Found at i:8184304 original size:84 final size:84
Alignment explanation
Indices: 8184213--8184380 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
8184203 AACGCTTGCA
8184213 AAAGAGGAAAAAAAAAAGAAGACAAGCGGCAAAAAAATAGCATAGAAACAGTAGCAGAAATGGAA
1 AAAGAGGAAAAAAAAAAGAAGACAAGCGGCAAAAAAATAGCATAGAAACAGTAGCAGAAATGGAA
8184278 GCAAAGAGTAGCAAAATAG
66 GCAAAGAGTAGCAAAATAG
8184297 AAAGAGGAAAAAAAAAAGAAGACAAGCGGCAAAAAAATAGCATAGAAACAGTAGCAGAAATGGAA
1 AAAGAGGAAAAAAAAAAGAAGACAAGCGGCAAAAAAATAGCATAGAAACAGTAGCAGAAATGGAA
8184362 GCAAAGAGTAGCAAAATAG
66 GCAAAGAGTAGCAAAATAG
8184381 TGAAATAAAC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.60, C:0.10, G:0.24, T:0.07
Consensus pattern (84 bp):
AAAGAGGAAAAAAAAAAGAAGACAAGCGGCAAAAAAATAGCATAGAAACAGTAGCAGAAATGGAA
GCAAAGAGTAGCAAAATAG
Found at i:8199859 original size:21 final size:21
Alignment explanation
Indices: 8199816--8199869 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
8199806 GCATGTGCCC
* * **
8199816 CCTCCACACTGGCTTGTGGGG
1 CCTCCACACGGGCATGTAAGG
8199837 CCTCCACACGGGCATGTAAGG
1 CCTCCACACGGGCATGTAAGG
*
8199858 CCTTCACACGGG
1 CCTCCACACGGG
8199870 TGTGTGTGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.30, T:0.19
Consensus pattern (21 bp):
CCTCCACACGGGCATGTAAGG
Found at i:8204203 original size:15 final size:16
Alignment explanation
Indices: 8204162--8204205 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
8204152 GTACACTACC
*
8204162 ATATATTTCAATTTTTTT
1 ATATATTT--ATTTTTTA
8204180 ATATATTTATTTTTTA
1 ATATATTTATTTTTTA
8204196 ATAT-TTTATT
1 ATATATTTATT
8204206 ATACTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 6 0.24
16 11 0.44
18 8 0.32
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
ATATATTTATTTTTTA
Found at i:8204486 original size:21 final size:21
Alignment explanation
Indices: 8204449--8204488 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8204439 AAAAATTCCA
8204449 ATATCTTTTAAAGTTTTATAT
1 ATATCTTTTAAAGTTTTATAT
*
8204470 ATAT-TTTTACAATTTTTAT
1 ATATCTTTTA-AAGTTTTAT
8204489 TTTTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
ATATCTTTTAAAGTTTTATAT
Found at i:8204526 original size:17 final size:17
Alignment explanation
Indices: 8204513--8204563 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
8204503 TTGTTTTTTC
*
8204513 ATTTTTATACTTTTACA
1 ATTTTTATATTTTTACA
*
8204530 ATTTTTATATTTTTAATA
1 ATTTTTATATTTTT-ACA
8204548 ATTTCTTATAGTTTTT
1 ATTT-TTATA-TTTTT
8204564 TTAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 13 0.45
18 6 0.21
19 5 0.17
20 5 0.17
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTTTTATATTTTTACA
Found at i:8207052 original size:51 final size:51
Alignment explanation
Indices: 8206996--8207105 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 51
8206986 ACCCTTAAAG
* * *
8206996 TTTACATATTCTGTCAATTTGGTTTTGTTTTAACAAATTCAGTCTT-CAACA
1 TTTACATATTCTATCAATTTGATTTTGATTTAACAAATTCAG-CTTGCAACA
* * * *
8207047 TTTACATATTCTATCATTTTGATTTTGATTTAGCAAATTTAGCTTGTAACA
1 TTTACATATTCTATCAATTTGATTTTGATTTAACAAATTCAGCTTGCAACA
8207098 TTTACATA
1 TTTACATA
8207106 GAATATATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 3 0.06
51 48 0.94
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (51 bp):
TTTACATATTCTATCAATTTGATTTTGATTTAACAAATTCAGCTTGCAACA
Found at i:8209266 original size:29 final size:30
Alignment explanation
Indices: 8209233--8209293 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
8209223 TTTCACGTAC
*
8209233 ATAATT-ACATCAAATTAAAATTTATTTAT
1 ATAATTAACATCAAATCAAAATTTATTTAT
* *
8209262 ATAATTACACATTAAATCAAAGTTTATTTAT
1 ATAATTA-ACATCAAATCAAAATTTATTTAT
8209293 A
1 A
8209294 ATTTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 6 0.22
31 21 0.78
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (30 bp):
ATAATTAACATCAAATCAAAATTTATTTAT
Found at i:8214998 original size:29 final size:28
Alignment explanation
Indices: 8214965--8215032 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
8214955 AAAGTTTCAC
* *
8214965 ATATATAATTAT-ATTAATTTAAAATTT
1 ATATATAATTATAATTAAATCAAAATTT
8214992 ATGTATATAATTATACATTAAATCAAAATTT
1 A--TATATAATTATA-ATTAAATCAAAATTT
8215023 ATATATAATT
1 ATATATAATT
8215033 TTAAGATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 1 0.03
29 20 0.57
31 14 0.40
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (28 bp):
ATATATAATTATAATTAAATCAAAATTT
Found at i:8218777 original size:20 final size:20
Alignment explanation
Indices: 8218754--8218800 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8218744 GGGTTAAGAT
8218754 TGAGCTGAATTGAGCTT-GAG
1 TGAGCTGAATTGAG-TTCGAG
* *
8218774 TGAGTTGACTTGAGTTCGAG
1 TGAGCTGAATTGAGTTCGAG
8218794 TGAGCTG
1 TGAGCTG
8218801 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.21, C:0.11, G:0.36, T:0.32
Consensus pattern (20 bp):
TGAGCTGAATTGAGTTCGAG
Found at i:8221008 original size:49 final size:49
Alignment explanation
Indices: 8220955--8221061 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 49
8220945 CCACCCGGTC
* * * * *
8220955 GTGTGAAATCGTGCAGACCT-TGTGGGTAGA-TAGTGTGTACCACATGATT
1 GTGTGAAATCGTACAG-CCTGTGCGGGTAGACT-GTGTGGACCACACGACT
*
8221004 GTGTGAAATCGTACAGGCTGTGCGGGTAGACTGTGTGGACCACACGACT
1 GTGTGAAATCGTACAGCCTGTGCGGGTAGACTGTGTGGACCACACGACT
8221053 GTGTGAAAT
1 GTGTGAAAT
8221062 AGTGTAGTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 2 0.04
49 47 0.94
50 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (49 bp):
GTGTGAAATCGTACAGCCTGTGCGGGTAGACTGTGTGGACCACACGACT
Found at i:8221154 original size:80 final size:80
Alignment explanation
Indices: 8221000--8221156 Score: 215
Period size: 80 Copynumber: 2.0 Consensus size: 80
8220990 TGTACCACAT
* * * *
8221000 GATTGTGTGAAATCGTACAGGCTGTGCGGGTAGACTGTGTGGACCACACGACTGTGTGAAATAGT
1 GATTGCGTGAAATCGTACAGACCGTGCGGGTAGACTGTGTGGACCACACAACTGTGTGAAATAGT
* **
8221065 GTAGTCTGTGTAGGA
66 GCAAACTGTGTAGGA
* * * *
8221080 GATTGCGTGAAATTGTACAGACCGTGTGGGTAGACTGTGTGGACCACATAACTGTGTGAAATCGT
1 GATTGCGTGAAATCGTACAGACCGTGCGGGTAGACTGTGTGGACCACACAACTGTGTGAAATAGT
8221145 GCAAACTGTGTA
66 GCAAACTGTGTA
8221157 AACCACACAA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (80 bp):
GATTGCGTGAAATCGTACAGACCGTGCGGGTAGACTGTGTGGACCACACAACTGTGTGAAATAGT
GCAAACTGTGTAGGA
Found at i:8222665 original size:22 final size:24
Alignment explanation
Indices: 8222621--8222668 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
8222611 CATGTTAGTT
*
8222621 TAATTTTATATTTTATAAATTTAA
1 TAATTTTATATTATATAAATTTAA
8222645 TAATTTTA-ATTATA-AAATTTAA
1 TAATTTTATATTATATAAATTTAA
8222667 TA
1 TA
8222669 TTATTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.43
23 5 0.22
24 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TAATTTTATATTATATAAATTTAA
Found at i:8225166 original size:22 final size:21
Alignment explanation
Indices: 8225134--8225180 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
8225124 AAAAGAAGCT
*
8225134 TTGTATCAAGACATGGAGACCA
1 TTGTATCAAGAAATGGAGA-CA
* *
8225156 TTGTATTAAGAAATGGTGACA
1 TTGTATCAAGAAATGGAGACA
8225177 TTGT
1 TTGT
8225181 CTCGAGACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (21 bp):
TTGTATCAAGAAATGGAGACA
Found at i:8228827 original size:17 final size:17
Alignment explanation
Indices: 8228801--8228836 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
8228791 CTTTATATAC
8228801 TTTATGTATTATTTATT
1 TTTATGTATTATTTATT
*
8228818 TTTATTTATTATTTATT
1 TTTATGTATTATTTATT
8228835 TT
1 TT
8228837 ACGATCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTATGTATTATTTATT
Found at i:8229176 original size:19 final size:19
Alignment explanation
Indices: 8229152--8229189 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8229142 TTGGGATTGC
*
8229152 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
8229171 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
8229190 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:8241094 original size:23 final size:23
Alignment explanation
Indices: 8241068--8241112 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8241058 TGGGTATGTG
*
8241068 ATGACTTTATCTT-ATAAATATGC
1 ATGAATTTATCTTGA-AAATATGC
8241091 ATGAATTTATCTTGAAAATATG
1 ATGAATTTATCTTGAAAATATG
8241113 TTGAATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAATTTATCTTGAAAATATGC
Found at i:8247999 original size:30 final size:30
Alignment explanation
Indices: 8247963--8248039 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
8247953 GTCTTCTCAA
* *
8247963 TCCCAAGATCTTGAATGAGATATCGAGTTT
1 TCCCAAGATCCTGAATGAGATATCAAGTTT
* **
8247993 TCCCAAGCTCCTGAACAAGATATCAAGTTT
1 TCCCAAGATCCTGAATGAGATATCAAGTTT
* *
8248023 TCTCAAGTTCCTGAATG
1 TCCCAAGATCCTGAATG
8248040 TCCTCATAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (30 bp):
TCCCAAGATCCTGAATGAGATATCAAGTTT
Found at i:8250445 original size:26 final size:26
Alignment explanation
Indices: 8250416--8250466 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
8250406 AAATTACAAG
*
8250416 TTATTAGCAATTAATATTAATTAATA
1 TTATTAGCAATTAATATTAAGTAATA
* **
8250442 TTATTTGTTATTAATATTAAGTAAT
1 TTATTAGCAATTAATATTAAGTAAT
8250467 TAATAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (26 bp):
TTATTAGCAATTAATATTAAGTAATA
Found at i:8250532 original size:12 final size:13
Alignment explanation
Indices: 8250515--8250565 Score: 61
Period size: 12 Copynumber: 3.9 Consensus size: 13
8250505 TATATTACTA
8250515 TATTATT-TATTT
1 TATTATTCTATTT
8250527 TATTATTCTA-TT
1 TATTATTCTATTT
8250539 TATTATTCTATTAT
1 TATTATTCTATT-T
*
8250553 CTATTATTATATT
1 -TATTATTCTATT
8250566 ATTCTTACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
12 19 0.56
13 3 0.09
14 1 0.03
15 11 0.32
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTATTCTATTT
Found at i:8250533 original size:15 final size:15
Alignment explanation
Indices: 8250507--8250568 Score: 63
Period size: 15 Copynumber: 4.0 Consensus size: 15
8250497 TATAAATCTA
*
8250507 TATTACTATATTATT
1 TATTATTATATTATT
8250522 TATT-TTATTATTCTATT
1 TATTATTA-TA-T-TATT
* *
8250539 TATTATTCTATTATC
1 TATTATTATATTATT
8250554 TATTATTATATTATT
1 TATTATTATATTATT
8250569 CTTACAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
14 2 0.05
15 22 0.58
16 2 0.05
17 10 0.26
18 2 0.05
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTATTATATTATT
Found at i:8250586 original size:8 final size:8
Alignment explanation
Indices: 8250505--8250568 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
8250495 TTTATAAATC
*
8250505 TATATTAC
1 TATATTAT
8250513 TATATTATT
1 TATATTA-T
*
8250522 TATTTTAT
1 TATATTAT
8250530 TAT-TCTAT
1 TATAT-TAT
8250538 T-TATTAT
1 TATATTAT
*
8250545 TCTATTA-
1 TATATTAT
*
8250552 TCTATTAT
1 TATATTAT
8250560 TATATTAT
1 TATATTAT
8250568 T
1 T
8250569 CTTACAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
7 13 0.27
8 29 0.60
9 6 0.12
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (8 bp):
TATATTAT
Found at i:8250592 original size:12 final size:12
Alignment explanation
Indices: 8250513--8250596 Score: 57
Period size: 12 Copynumber: 6.9 Consensus size: 12
8250503 TCTATATTAC
8250513 TATATTATT-TA
1 TATATTATTATA
* *
8250524 TTTTATTATTCTA
1 -TATATTATTATA
* *
8250537 TTTATTATTCTA
1 TATATTATTATA
8250549 T-TATCTATTAT-
1 TATAT-TATTATA
*
8250560 TATATTATTCTTA
1 TATATTATT-ATA
*
8250573 CAATATTATTATA
1 -TATATTATTATA
8250586 TATATTATTAT
1 TATATTATTAT
8250597 TTCTATTTAG
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
11 8 0.13
12 40 0.67
13 4 0.07
14 8 0.13
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (12 bp):
TATATTATTATA
Found at i:8250666 original size:32 final size:33
Alignment explanation
Indices: 8250630--8250703 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
8250620 TATTATTATT
*
8250630 TAATTTAAGTTAAAGT-TAAATAGAA-AAATTAA
1 TAATTTAA-TTAAAGTATAAATAAAATAAATTAA
* * *
8250662 TAATTTAATTTAAGTATAATTAAAATAAATTAT
1 TAATTTAATTAAAGTATAAATAAAATAAATTAA
8250695 TAATTTAAT
1 TAATTTAAT
8250704 AATTTAGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 6 0.17
32 15 0.42
33 15 0.42
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (33 bp):
TAATTTAATTAAAGTATAAATAAAATAAATTAA
Found at i:8250699 original size:33 final size:31
Alignment explanation
Indices: 8250624--8250703 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 31
8250614 AGAATTTATT
*
8250624 ATTATTTAATTTAAGTTAAAGTTAAATAGAAAA
1 ATTA-TTAATTTAA-TTAAAGTTAAATAAAAAA
* * *
8250657 ATTAATAATTTAATTTAAGTATAATTAAAATAA
1 ATTATTAATTTAATTAAAGT-TAAATAAAA-AA
8250690 ATTATTAATTTAAT
1 ATTATTAATTTAAT
8250704 AATTTAGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 6 0.15
32 15 0.38
33 19 0.47
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (31 bp):
ATTATTAATTTAATTAAAGTTAAATAAAAAA
Found at i:8251798 original size:21 final size:22
Alignment explanation
Indices: 8251757--8251804 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
8251747 ATAGGTAGAT
*
8251757 TAAATTAATTGTTTGTTAATAA
1 TAAATTAATTGTTTGTAAATAA
8251779 TAAATTAATT-TTTGTAAATAA
1 TAAATTAATTGTTTGTAAATAA
8251800 TAAAT
1 TAAAT
8251805 ATCACTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (22 bp):
TAAATTAATTGTTTGTAAATAA
Found at i:8251865 original size:45 final size:46
Alignment explanation
Indices: 8251769--8251866 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
8251759 AATTAATTGT
*
8251769 TTGTTAATAATAAATTAATTTTTGTAAATAATAAATATCACTAAAA
1 TTGTTAATAATAAACTAATTTTTGTAAATAATAAATATCACTAAAA
* *
8251815 TTGTTAATAATAAACTAACTTTTT-T-TATAATAAATATCATTGAAAA
1 TTGTTAATAATAAACTAA-TTTTTGTAAATAATAAATATCACT-AAAA
8251861 -TGTTAA
1 TTGTTAA
8251867 AATTAATCGA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
45 20 0.43
46 22 0.47
47 5 0.11
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (46 bp):
TTGTTAATAATAAACTAATTTTTGTAAATAATAAATATCACTAAAA
Found at i:8253579 original size:22 final size:23
Alignment explanation
Indices: 8253554--8253609 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
8253544 CACTTAACTG
*
8253554 TTAATTTTTTTAATTTAAAT-TC
1 TTAATTTTTTTAAATTAAATATC
* * *
8253576 TTAAATTTTTAAAATTAAATATT
1 TTAATTTTTTTAAATTAAATATC
*
8253599 TTAATTATTTT
1 TTAATTTTTTT
8253610 CCGTTAGTTG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTAATTTTTTTAAATTAAATATC
Found at i:8256010 original size:4 final size:4
Alignment explanation
Indices: 8256001--8256035 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
8255991 TGTTTAACAA
8256001 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
8256036 AAGAAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:8256040 original size:6 final size:7
Alignment explanation
Indices: 8256002--8256050 Score: 57
Period size: 8 Copynumber: 6.9 Consensus size: 7
8255992 GTTTAACAAA
8256002 AAGAAAG
1 AAGAAAG
8256009 AAAGAAAG
1 -AAGAAAG
8256017 AAAGAAAG
1 -AAGAAAG
8256025 AAAGAAAG
1 -AAGAAAG
8256033 AA-AAAG
1 AAGAAAG
8256039 AAGAAA-
1 AAGAAAG
8256045 AAGAAA
1 AAGAAA
8256051 CCTTGTACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.30
7 5 0.12
8 23 0.57
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:8256740 original size:21 final size:21
Alignment explanation
Indices: 8256716--8256756 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8256706 TTAACAGGTA
8256716 TTATAATAAAATTAA-AAAAAT
1 TTATAATAAAA-TAATAAAAAT
8256737 TTATAATAAAATAATAAAAA
1 TTATAATAAAATAATAAAAA
8256757 CAAAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TTATAATAAAATAATAAAAAT
Found at i:8259867 original size:19 final size:19
Alignment explanation
Indices: 8259843--8259881 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8259833 AAATTTTATT
8259843 TAAATTTT-TTTTATATTAC
1 TAAATTTTATTTTAT-TTAC
8259862 TAAATTTTATTTTATTTAC
1 TAAATTTTATTTTATTTAC
8259881 T
1 T
8259882 TCTGGCAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TAAATTTTATTTTATTTAC
Found at i:8271231 original size:25 final size:25
Alignment explanation
Indices: 8271203--8271253 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8271193 AAAATTTGGT
8271203 TACTTATTGCAAAGTTCGAAAGCGA
1 TACTTATTGCAAAGTTCGAAAGCGA
8271228 TACTTATTGCAAAGTTCGAAAGCGA
1 TACTTATTGCAAAGTTCGAAAGCGA
8271253 T
1 T
8271254 CACCACGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (25 bp):
TACTTATTGCAAAGTTCGAAAGCGA
Found at i:8271501 original size:31 final size:31
Alignment explanation
Indices: 8271455--8271529 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
8271445 ACAGTTACTA
* *
8271455 GGCCGAAGCCATTTCATAAATCATACCACTG
1 GGCCGAAGCCTTTTCATAAATCATACAACTG
*
8271486 GGCTGAAGCCTTTTCATAAATCATACAACTG
1 GGCCGAAGCCTTTTCATAAATCATACAACTG
*
8271517 GGCCAAAGCCTTT
1 GGCCGAAGCCTTT
8271530 ACTGTAAACG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATACAACTG
Found at i:8271849 original size:21 final size:22
Alignment explanation
Indices: 8271819--8271876 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
8271809 AATGAGTATA
*
8271819 TCATAACATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
8271840 TCATAGCATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
8271862 -CAT-GTCATATCATGT
1 TCATAG-CATATCATGT
8271877 ATAACAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 1 0.03
21 32 0.94
22 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:8289701 original size:24 final size:24
Alignment explanation
Indices: 8289668--8289715 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8289658 TTGGATATAG
*
8289668 AACAATCATATAGTGATATATGGT
1 AACAACCATATAGTGATATATGGT
8289692 AACAACCATATAGTGATATATGGT
1 AACAACCATATAGTGATATATGGT
8289716 GCGCCATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (24 bp):
AACAACCATATAGTGATATATGGT
Found at i:8293710 original size:25 final size:25
Alignment explanation
Indices: 8293682--8293733 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
8293672 AAAGGGTGAT
8293682 ATAGTTAACTTAATAATAAGTAGAA
1 ATAGTTAACTTAATAATAAGTAGAA
* *
8293707 ATAGTTACCTTAATAATAAGTGGAA
1 ATAGTTAACTTAATAATAAGTAGAA
8293732 AT
1 AT
8293734 TTTGAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (25 bp):
ATAGTTAACTTAATAATAAGTAGAA
Found at i:8297208 original size:18 final size:18
Alignment explanation
Indices: 8297185--8297221 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8297175 TAGCACATTA
8297185 TGATGTTGTTTGAGGATG
1 TGATGTTGTTTGAGGATG
8297203 TGATGTTGTTTGAGGATG
1 TGATGTTGTTTGAGGATG
8297221 T
1 T
8297222 TTTTAAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (18 bp):
TGATGTTGTTTGAGGATG
Found at i:8297410 original size:13 final size:14
Alignment explanation
Indices: 8297383--8297411 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8297373 CTCAAAAATT
8297383 GGTTAGTAGAATCG
1 GGTTAGTAGAATCG
8297397 GGTTAGTA-AATCG
1 GGTTAGTAGAATCG
8297410 GG
1 GG
8297412 AGTTAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.28, C:0.07, G:0.38, T:0.28
Consensus pattern (14 bp):
GGTTAGTAGAATCG
Found at i:8306194 original size:13 final size:13
Alignment explanation
Indices: 8306176--8306209 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
8306166 AGCACAAGGG
8306176 CGTGTGACATGGT
1 CGTGTGACATGGT
8306189 CGTGTGACATGGT
1 CGTGTGACATGGT
8306202 CGTGTGAC
1 CGTGTGAC
8306210 CTTACTCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.15, C:0.18, G:0.38, T:0.29
Consensus pattern (13 bp):
CGTGTGACATGGT
Found at i:8310231 original size:46 final size:46
Alignment explanation
Indices: 8310161--8310251 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
8310151 GGGTTTTTGT
*
8310161 TACACACTTGATATGGATTCGACGTAATGATAATACTCTAAAATGG
1 TACACACTTGATATGGATTCGACGTAACGATAATACTCTAAAATGG
*
8310207 TACACACTTGATATGGATTTGACGTAACGATAATACTCTAAAATG
1 TACACACTTGATATGGATTCGACGTAACGATAATACTCTAAAATG
8310252 ACATACTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (46 bp):
TACACACTTGATATGGATTCGACGTAACGATAATACTCTAAAATGG
Found at i:8314083 original size:19 final size:18
Alignment explanation
Indices: 8314053--8314089 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
8314043 AGGCAACCCA
8314053 ATTTTATCTTTATTTTCT
1 ATTTTATCTTTATTTTCT
8314071 ATTTTATTCTTTATTTTCT
1 ATTTTA-TCTTTATTTTCT
8314090 TGCATGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTATCTTTATTTTCT
Found at i:8314995 original size:102 final size:102
Alignment explanation
Indices: 8314869--8315065 Score: 299
Period size: 102 Copynumber: 1.9 Consensus size: 102
8314859 GAATTAAATA
8314869 ATAATAATAAATAAGAGTGTGTTGGGCTAAGTAATCGGGGTGGGGTGCTTGGGTTGTCATCCCAC
1 ATAATAATAAATAAGAGTGTGTTGGGCTAAGTAATCGGGGTGGGGTGCTTGGGTTGTCATCCCAC
*
8314934 TTCATGTCAAAAGGG-AAAACATTCTTAACCAAAAAC
66 TTCACGTCAAAAGGGCAAAACATTCTTAACCAAAAAC
* *
8314970 ATAATAATAAAATATA-AGTGTGTTGGGCTGAGTAATTGGGGTGGGGTGCTTGGGTTGTCATCCC
1 ATAATAAT-AAATA-AGAGTGTGTTGGGCTAAGTAATCGGGGTGGGGTGCTTGGGTTGTCATCCC
* * *
8315034 TCTTCGCGTCAAAAGGGCCAATACATTCTTAA
64 ACTTCACGTCAAAAGGG-CAAAACATTCTTAA
8315066 GAAAAAAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
101 8 0.09
102 65 0.76
103 1 0.01
104 12 0.14
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
ATAATAATAAATAAGAGTGTGTTGGGCTAAGTAATCGGGGTGGGGTGCTTGGGTTGTCATCCCAC
TTCACGTCAAAAGGGCAAAACATTCTTAACCAAAAAC
Found at i:8317098 original size:9 final size:8
Alignment explanation
Indices: 8317069--8317107 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
8317059 AATGATAGGC
8317069 AAAAAGAA
1 AAAAAGAA
*
8317077 AAGAAAGTA
1 AA-AAAGAA
8317086 AAAAAGAA
1 AAAAAGAA
8317094 GAAAAAGAA
1 -AAAAAGAA
8317103 AAAAA
1 AAAAA
8317108 AACAGTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (8 bp):
AAAAAGAA
Found at i:8317107 original size:17 final size:17
Alignment explanation
Indices: 8317069--8317107 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
8317059 AATGATAGGC
*
8317069 AAAAAGAAAAGAAAGTA
1 AAAAAGAAAAGAAAGAA
8317086 AAAAAGAAGAA-AAAGAA
1 AAAAAGAA-AAGAAAGAA
8317103 AAAAA
1 AAAAA
8317108 AACAGTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAGAAAGAA
Found at i:8324315 original size:3 final size:3
Alignment explanation
Indices: 8324309--8324440 Score: 54
Period size: 3 Copynumber: 42.3 Consensus size: 3
8324299 ATTGTCACAG
* * *
8324309 TTA TTA TTA TTTA TTTA TTCA TTA TTA TTG TTA TTA TTA TT- TACA TGA
1 TTA TTA TTA -TTA -TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* ** * * *
8324357 TTA TTA TT- TTT TTA CGTTA CCA TTA CTG TTA TTA CTA TCT- TTA TTA
1 TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* ** *
8324403 TTA TCA TTA ACA TTA TTA CTA TTTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T
8324441 ATGCATATAT
Statistics
Matches: 95, Mismatches: 24, Indels: 20
0.68 0.17 0.14
Matches are distributed among these distances:
2 4 0.04
3 74 0.78
4 14 0.15
5 3 0.03
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:8324359 original size:27 final size:27
Alignment explanation
Indices: 8324312--8324364 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
8324302 GTCACAGTTA
*
8324312 TTATTATTTATTTATTCATTATTATTG
1 TTATTATTTATTTAATCATTATTATTG
*
8324339 TTATTA-TTATTTACATGATTATTATT
1 TTATTATTTATTTA-ATCATTATTATT
8324365 TTTTTACGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (27 bp):
TTATTATTTATTTAATCATTATTATTG
Found at i:8324363 original size:30 final size:30
Alignment explanation
Indices: 8324308--8324364 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8324298 TATTGTCACA
* *
8324308 GTTATTATTATTTATTTATTCATTATTATT
1 GTTATTATTATTTAATGATTCATTATTATT
8324338 GTTATTATTATTTACATGATT-ATTATT
1 GTTATTATTATTTA-ATGATTCATTATT
8324365 TTTTTACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (30 bp):
GTTATTATTATTTAATGATTCATTATTATT
Found at i:8324453 original size:28 final size:28
Alignment explanation
Indices: 8324422--8324497 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 28
8324412 ACATTATTAC
8324422 TATTTATTATTATTATTATATGCATATA
1 TATTTATTATTATTATTATATGCATATA
*** * *
8324450 TATTT-TTACCGTCATTAATTTGCATATA
1 TATTTATTATTATTATT-ATATGCATATA
8324478 TATATTATTATTCA-TATTAT
1 TAT-TTATTATT-ATTATTAT
8324498 TATTATTATT
Statistics
Matches: 35, Mismatches: 9, Indels: 7
0.69 0.18 0.14
Matches are distributed among these distances:
27 7 0.20
28 18 0.51
29 4 0.11
30 6 0.17
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (28 bp):
TATTTATTATTATTATTATATGCATATA
Found at i:8324552 original size:3 final size:3
Alignment explanation
Indices: 8324546--8324658 Score: 58
Period size: 3 Copynumber: 39.0 Consensus size: 3
8324536 TAACCTCATT
* * * * **
8324546 TTA TTA TTA TCA TTC TTA TTA ATA -CA TTA TTA TTA TT- TTA CCA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * **
8324591 TTG TTA TT- TTA TATA TTA TTA CTG TTA TTA ACA -TA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
8324635 TTA -TA TTTA TTA TTA ATA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA
8324659 GTACTAGTAT
Statistics
Matches: 81, Mismatches: 21, Indels: 16
0.69 0.18 0.14
Matches are distributed among these distances:
2 9 0.11
3 67 0.83
4 5 0.06
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:8324646 original size:38 final size:35
Alignment explanation
Indices: 8324571--8324658 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 35
8324561 TTATTAATAC
* * *
8324571 ATTATTATTATT-TTACCATATTGTTATTTTATAT
1 ATTATTAATATTATTAACATATTATTATTTTATAT
* *
8324605 ATTATTACTGTTATTAACATATTATTATTATTATATTT
1 ATTATTAATATTATTAACATATTATTATT-TTATA--T
8324643 ATTATTAATATTATTA
1 ATTATTAATATTATTA
8324659 GTACTAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
34 10 0.23
35 14 0.32
36 5 0.11
38 15 0.34
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (35 bp):
ATTATTAATATTATTAACATATTATTATTTTATAT
Found at i:8324655 original size:35 final size:34
Alignment explanation
Indices: 8324571--8324655 Score: 93
Period size: 35 Copynumber: 2.4 Consensus size: 34
8324561 TTATTAATAC
* * *
8324571 ATTATTATTATTTTACCATATTGTTATTTTATAT
1 ATTATTATTATATTAACATATTATTATTTTATAT
8324605 ATTATTACTGT-TATTAACATATTATTATTATTATAT
1 ATTATTA-T-TATATTAACATATTATTATT-TTATAT
8324641 -TTATTATTAATATTA
1 ATTATTATT-ATATTA
8324656 TTAGTACTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
33 1 0.02
34 8 0.19
35 27 0.63
36 7 0.16
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (34 bp):
ATTATTATTATATTAACATATTATTATTTTATAT
Found at i:8324800 original size:25 final size:24
Alignment explanation
Indices: 8324772--8324851 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
8324762 ATTGTATATG
8324772 TTTATATATATATCATGTATATTTT
1 TTTATATAT-TATCATGTATATTTT
*
8324797 TTTA-ATATTATTA-GTTATATATTT
1 TTTATATATTATCATG-TATAT-TTT
* *
8324821 TTTATACTATT-TCATATATATATT
1 TTTATA-TATTATCATGTATATTTT
8324845 TTTATAT
1 TTTATAT
8324852 TATCCTTGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
22 1 0.02
23 10 0.22
24 19 0.41
25 12 0.26
26 4 0.09
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (24 bp):
TTTATATATTATCATGTATATTTT
Found at i:8324831 original size:23 final size:23
Alignment explanation
Indices: 8324789--8324850 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
8324779 ATATATCATG
* **
8324789 TATAT-TTTTTTAATATTATTAGT
1 TATATATTTTTT-ATACTATTACA
*
8324812 TATATATTTTTTATACTATTTCA
1 TATATATTTTTTATACTATTACA
8324835 TATATATATTTTTATA
1 TATATAT-TTTTTATA
8324851 TTATCCTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 19 0.58
24 14 0.42
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (23 bp):
TATATATTTTTTATACTATTACA
Found at i:8324904 original size:21 final size:20
Alignment explanation
Indices: 8324872--8324912 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8324862 ATTATTATTG
* *
8324872 GTATATGTTTTATTATATAT
1 GTATATATTTTAATATATAT
8324892 GTATATATCTTTAATATATAT
1 GTATATAT-TTTAATATATAT
8324913 TTATGTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (20 bp):
GTATATATTTTAATATATAT
Found at i:8325011 original size:22 final size:21
Alignment explanation
Indices: 8324962--8325012 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
8324952 TTCTAATATG
*
8324962 TATATATTATGTAATATTTAA
1 TATATATTATGTAACATTTAA
**
8324983 TACTATATTATGTATACATTTTT
1 TA-TATATTATGTA-ACATTTAA
8325006 TATATAT
1 TATATAT
8325013 ATTACGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 16 0.64
23 7 0.28
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
TATATATTATGTAACATTTAA
Found at i:8325013 original size:24 final size:23
Alignment explanation
Indices: 8324962--8325027 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
8324952 TTCTAATATG
8324962 TATATATTATG--TAATATTTAA
1 TATATATTATGTATAATATTTAA
* *
8324983 TACTATATTATGTATACATTTTTTA
1 TA-TATATTATGTATA-ATATTTAA
*
8325008 TATATATTACGTATATATAT
1 TATATATTATGTATA-ATAT
8325028 CTTTTTAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.06
22 9 0.25
24 17 0.47
25 8 0.22
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (23 bp):
TATATATTATGTATAATATTTAA
Found at i:8325129 original size:25 final size:25
Alignment explanation
Indices: 8325101--8325174 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
8325091 ACATATTATC
8325101 TTATGTATATATTTTAATAACTATA
1 TTATGTATATATTTTAATAACTATA
* * *
8325126 TTATATATGTATTTT--TAACGCCATA
1 TTATGTATATATTTTAATAA--CTATA
*
8325151 TTATGTACATATTTTTAAT-ACTAT
1 TTATGTATATA-TTTTAATAACTAT
8325175 GTATACTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
23 3 0.08
25 28 0.76
26 4 0.11
27 1 0.03
28 1 0.03
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (25 bp):
TTATGTATATATTTTAATAACTATA
Found at i:8333557 original size:23 final size:24
Alignment explanation
Indices: 8333522--8333566 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
8333512 TTATTCAACA
8333522 GAAAAACAAG-TTTA-TGTTTTCT
1 GAAAAACAAGTTTTAGTGTTTTCT
*
8333544 GAAACAACATGTTTTAGTGTTTT
1 GAAA-AACAAGTTTTAGTGTTTT
8333567 TAAGCTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 5 0.26
24 4 0.21
25 6 0.32
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (24 bp):
GAAAAACAAGTTTTAGTGTTTTCT
Found at i:8340651 original size:18 final size:18
Alignment explanation
Indices: 8340628--8340699 Score: 56
Period size: 18 Copynumber: 3.7 Consensus size: 18
8340618 GAAATAACCA
8340628 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
8340646 AGATGAGAATTATTGAAT-TGG
1 AGATGAGAA--A-TGAATAT-G
*
8340667 CAAATATGAGAAATGAATATG
1 ---AGATGAGAAATGAATATG
*
8340688 AGATGACAAATG
1 AGATGAGAAATG
8340700 TGATATGAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
18 19 0.44
20 2 0.05
21 12 0.28
22 2 0.05
24 8 0.19
ACGTcount: A:0.47, C:0.03, G:0.25, T:0.25
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:8340661 original size:42 final size:42
Alignment explanation
Indices: 8340614--8340693 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
8340604 TTATAGTTGA
*
8340614 TATTGAAATAACCAAGATGAGAAATGAATATGAGATGAGAAT
1 TATTGAAATAACAAAGATGAGAAATGAATATGAGATGAGAAT
* ** *
8340656 TATTGAATTGGCAAATATGAGAAATGAATATGAGATGA
1 TATTGAAATAACAAAGATGAGAAATGAATATGAGATGA
8340694 CAAATGTGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.47, C:0.04, G:0.23, T:0.26
Consensus pattern (42 bp):
TATTGAAATAACAAAGATGAGAAATGAATATGAGATGAGAAT
Found at i:8341637 original size:42 final size:43
Alignment explanation
Indices: 8341570--8341677 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 43
8341560 CACACACGAG
* *
8341570 CGTGTGACC-CAAGTTAGT-AAGTTACACGGGCTGAGAAACGGC
1 CGTGTG-CCTCAAGTCAGTGAAGTTACACGGGCTAAGAAACGGC
* * *
8341612 CGTGTGCCTCAAGTCAGTGAA-TTACATGGGCTAAGACATGGC
1 CGTGTGCCTCAAGTCAGTGAAGTTACACGGGCTAAGAAACGGC
** *
8341654 TATGTGTCTCAAGTCAGTG-AGTTA
1 CGTGTGCCTCAAGTCAGTGAAGTTA
8341678 TAAGGGCAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
41 3 0.05
42 50 0.91
43 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (43 bp):
CGTGTGCCTCAAGTCAGTGAAGTTACACGGGCTAAGAAACGGC
Found at i:8345570 original size:20 final size:20
Alignment explanation
Indices: 8345545--8345582 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8345535 GACCATTTCA
*
8345545 AAAAAAATCAAAAAAATTTG
1 AAAAAAATAAAAAAAATTTG
*
8345565 AAAAAAGTAAAAAAAATT
1 AAAAAAATAAAAAAAATT
8345583 AGGAAATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAAAAATAAAAAAAATTTG
Found at i:8346432 original size:6 final size:6
Alignment explanation
Indices: 8346421--8346447 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8346411 ATATGCTTAC
8346421 ATATTT ATATTT ATATTT ATATTT ATA
1 ATATTT ATATTT ATATTT ATATTT ATA
8346448 AGCCAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
ATATTT
Found at i:8347443 original size:45 final size:45
Alignment explanation
Indices: 8347388--8347544 Score: 217
Period size: 45 Copynumber: 3.5 Consensus size: 45
8347378 TTACCATAGT
* * *
8347388 GTCTTTCAACTATGGTCTTACTCGTTTGATTCGTTATGCCATAAT
1 GTCTTTCAACTATGGTCTTACTCGATTGAATCGTTATGCCATAAC
* *
8347433 GTCTGTCAACTATGGTCTTACTCGATTGAATCG-TATGTCATAAC
1 GTCTTTCAACTATGGTCTTACTCGATTGAATCGTTATGCCATAAC
* ** * *
8347477 ATCTTTCAGTTATGGTCTTACTCGATGGAATCGTGATGCCATAAC
1 GTCTTTCAACTATGGTCTTACTCGATTGAATCGTTATGCCATAAC
8347522 GTCTTTCAACTATGGTCTTACTC
1 GTCTTTCAACTATGGTCTTACTC
8347545 ATTTCTGGTA
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 37 0.39
45 59 0.61
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (45 bp):
GTCTTTCAACTATGGTCTTACTCGATTGAATCGTTATGCCATAAC
Found at i:8347571 original size:45 final size:45
Alignment explanation
Indices: 8347522--8347638 Score: 164
Period size: 44 Copynumber: 2.6 Consensus size: 45
8347512 ATGCCATAAC
* * *
8347522 GTCTTTCAACTATGGTCTTACTCATTTCTGGTATGGTGTTATAGT
1 GTCTTTCAACTATGGTCTTAATCATTTCTGGTATAGTGTCATAGT
* *
8347567 GTC-TTCAACTATGGTCTTATTTATTTCTGGTATAGTGTCATAGT
1 GTCTTTCAACTATGGTCTTAATCATTTCTGGTATAGTGTCATAGT
* *
8347611 GTTTTTCAACTATGGTTTTAATCATTTC
1 GTCTTTCAACTATGGTCTTAATCATTTC
8347639 CTTCAAGCCA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 39 0.62
45 24 0.38
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.49
Consensus pattern (45 bp):
GTCTTTCAACTATGGTCTTAATCATTTCTGGTATAGTGTCATAGT
Found at i:8347585 original size:89 final size:89
Alignment explanation
Indices: 8347382--8347544 Score: 227
Period size: 89 Copynumber: 1.8 Consensus size: 89
8347372 GTCGTGTTAC
* * * * *
8347382 CATAGTGTCTTTCAACTATGGTCTTACTCGTTTGATTCGTTATGCCATAATGTCTGTCAACTATG
1 CATAGTGTCTTTCAACTATGGTCTTACTCGATGGAATCGTGATGCCATAACGTCTGTCAACTATG
8347447 GTCTTACTCGATTGAATCGTATGT
66 GTCTTACTCGATTGAATCGTATGT
*** ** *
8347471 CATAACATCTTTCAGTTATGGTCTTACTCGATGGAATCGTGATGCCATAACGTCTTTCAACTATG
1 CATAGTGTCTTTCAACTATGGTCTTACTCGATGGAATCGTGATGCCATAACGTCTGTCAACTATG
8347536 GTCTTACTC
66 GTCTTACTC
8347545 ATTTCTGGTA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 63 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (89 bp):
CATAGTGTCTTTCAACTATGGTCTTACTCGATGGAATCGTGATGCCATAACGTCTGTCAACTATG
GTCTTACTCGATTGAATCGTATGT
Found at i:8352849 original size:34 final size:34
Alignment explanation
Indices: 8352777--8352849 Score: 78
Period size: 34 Copynumber: 2.1 Consensus size: 34
8352767 CATGGTACTT
* **
8352777 TTAATTAGTGAAAATCATTGTATTGTATTACATG
1 TTAATTAGTGAAAATCATTGTATTGGATTACAAA
*
8352811 TTAATTAGTGAAAATC-TTTTAATTGGAGTTA-AAA
1 TTAATTAGTGAAAATCATTGT-ATTGGA-TTACAAA
8352845 TTAAT
1 TTAAT
8352850 GTTATATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
33 3 0.09
34 27 0.82
35 3 0.09
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.44
Consensus pattern (34 bp):
TTAATTAGTGAAAATCATTGTATTGGATTACAAA
Found at i:8353882 original size:62 final size:62
Alignment explanation
Indices: 8353785--8353909 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
8353775 CTCGAAAGAA
8353785 TAAACTGCTCCCAAACTTCTTGTGCCTTACAACAATCCCGAAGCACGCGAGTGGTGGATTCT
1 TAAACTGCTCCCAAACTTCTTGTGCCTTACAACAATCCCGAAGCACGCGAGTGGTGGATTCT
8353847 TAAACTGCTCCCAAACTTCTTGTGCCTTACAACAATCCCGAAGCACGCGAGTGGTGGATTCT
1 TAAACTGCTCCCAAACTTCTTGTGCCTTACAACAATCCCGAAGCACGCGAGTGGTGGATTCT
8353909 T
1 T
8353910 CAGCACAGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (62 bp):
TAAACTGCTCCCAAACTTCTTGTGCCTTACAACAATCCCGAAGCACGCGAGTGGTGGATTCT
Found at i:8362968 original size:3 final size:3
Alignment explanation
Indices: 8362954--8362988 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
8362944 CCCCATTTCT
*
8362954 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8362989 TTCTCCTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8368697 original size:19 final size:20
Alignment explanation
Indices: 8368662--8368706 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
8368652 TATTTTTTTA
8368662 TTTTTCCCAATTGTCCTTTC
1 TTTTTCCCAATTGTCCTTTC
* *
8368682 TTTTTCCCAGTT-TCCTTTT
1 TTTTTCCCAATTGTCCTTTC
8368701 TTTTTC
1 TTTTTC
8368707 TTCTTCCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.07, C:0.27, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTTCCCAATTGTCCTTTC
Found at i:8371094 original size:11 final size:13
Alignment explanation
Indices: 8371068--8371162 Score: 52
Period size: 12 Copynumber: 8.1 Consensus size: 13
8371058 ATAGGGTCTC
8371068 CAAATTCACATTT
1 CAAATTCACATTT
8371081 CAAA-TCAC-TTT
1 CAAATTCACATTT
8371092 C-AATGTCA-ATTT
1 CAAAT-TCACATTT
**
8371104 CACTTTCA-A-TT
1 CAAATTCACATTT
*
8371115 CAAATTCACAATT
1 CAAATTCACATTT
8371128 C-AATTCA-ATTCT
1 CAAATTCACATT-T
*
8371140 C--ATT--CAGTT
1 CAAATTCACATTT
8371149 CAAATTCACATTT
1 CAAATTCACATTT
8371162 C
1 C
8371163 CATTTTCTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
9 2 0.03
10 4 0.06
11 20 0.32
12 24 0.38
13 13 0.21
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (13 bp):
CAAATTCACATTT
Found at i:8371106 original size:18 final size:17
Alignment explanation
Indices: 8371085--8371137 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 17
8371075 ACATTTCAAA
8371085 TCACTTTCAATGTCAATT
1 TCACTTTCAAT-TCAATT
*
8371103 TCACTTTCAATTCAAAT
1 TCACTTTCAATTCAATT
*
8371120 TCACAATTCAATTCAATT
1 TCAC-TTTCAATTCAATT
8371138 CTCATTCAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 9 0.29
18 22 0.71
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.42
Consensus pattern (17 bp):
TCACTTTCAATTCAATT
Found at i:8371117 original size:34 final size:34
Alignment explanation
Indices: 8371079--8371162 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
8371069 AAATTCACAT
8371079 TTCAAA-TCAC-TTTCAATGTCAATT-TCACTTTCAA
1 TTCAAATTCACATTTCAAT-TCAATTCTCA--TTCAA
* *
8371113 TTCAAATTCACAATTCAATTCAATTCTCATTCAG
1 TTCAAATTCACATTTCAATTCAATTCTCATTCAA
8371147 TTCAAATTCACATTTC
1 TTCAAATTCACATTTC
8371163 CATTTTCTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
34 25 0.57
35 10 0.23
36 9 0.20
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.40
Consensus pattern (34 bp):
TTCAAATTCACATTTCAATTCAATTCTCATTCAA
Found at i:8371138 original size:17 final size:17
Alignment explanation
Indices: 8371079--8371160 Score: 87
Period size: 17 Copynumber: 4.8 Consensus size: 17
8371069 AAATTCACAT
*
8371079 TTCAAA-TCACTTTCAA
1 TTCAAATTCACATTCAA
* *
8371095 TGTCAATTTCACTTTCAA
1 T-TCAAATTCACATTCAA
8371113 TTCAAATTCACAATTCAA
1 TTCAAATTCAC-ATTCAA
* *
8371131 TTC-AATTCTCATTCAG
1 TTCAAATTCACATTCAA
8371147 TTCAAATTCACATT
1 TTCAAATTCACATT
8371161 TCCATTTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
16 9 0.16
17 28 0.50
18 19 0.34
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (17 bp):
TTCAAATTCACATTCAA
Found at i:8371311 original size:15 final size:16
Alignment explanation
Indices: 8371291--8371323 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
8371281 ATTCTTAAAC
8371291 TAATTC-ATTTTTATT
1 TAATTCAATTTTTATT
8371306 TAATTCATATTTTTATT
1 TAATTCA-ATTTTTATT
8371323 T
1 T
8371324 CATTTTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TAATTCAATTTTTATT
Found at i:8376706 original size:20 final size:20
Alignment explanation
Indices: 8376654--8376700 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8376644 GTGTTTAGCA
* *
8376654 AAAAAAAAAGG-AAATTGGG
1 AAAAAGAAAGGAAAATTAGG
*
8376673 AAGAAGAAAGGAAAATTAGG
1 AAAAAGAAAGGAAAATTAGG
8376693 AAAAAGAA
1 AAAAAGAA
8376701 GAGAAACAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (20 bp):
AAAAAGAAAGGAAAATTAGG
Found at i:8379384 original size:21 final size:22
Alignment explanation
Indices: 8379360--8379404 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
8379350 TACGGTTTTG
8379360 TTGTTCCA-TATGAGGGTTCTT
1 TTGTTCCATTATGAGGGTTCTT
*
8379381 TTGTTCCATTATGAGGTTTCTT
1 TTGTTCCATTATGAGGGTTCTT
8379403 TT
1 TT
8379405 CTTATTTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.13, C:0.13, G:0.20, T:0.53
Consensus pattern (22 bp):
TTGTTCCATTATGAGGGTTCTT
Found at i:8379564 original size:52 final size:51
Alignment explanation
Indices: 8379485--8379589 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 51
8379475 ATATGACTAA
*
8379485 GGGAAAGATCTTGCTTGTCGAGGTTAAACCTTAAGAAACTTTAACAATGGT
1 GGGAAAGAGCTTGCTTGTCGAGGTTAAACCTTAAGAAACTTTAACAATGGT
8379536 GNGGAAAGAGCTTGCTTGTCGAGGTTAAACCTTAAGAAACTTTAACAATGGT
1 G-GGAAAGAGCTTGCTTGTCGAGGTTAAACCTTAAGAAACTTTAACAATGGT
8379588 GG
1 GG
8379590 TCTTTATCAT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 2 0.04
52 50 0.96
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (51 bp):
GGGAAAGAGCTTGCTTGTCGAGGTTAAACCTTAAGAAACTTTAACAATGGT
Found at i:8381265 original size:56 final size:56
Alignment explanation
Indices: 8381179--8381290 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
8381169 GGAAGAGGGT
8381179 CGATCCACAGGGAGTTTAATGGAATTTTTGATTAAATTTCTTGTTCTCGACCTAGG
1 CGATCCACAGGGAGTTTAATGGAATTTTTGATTAAATTTCTTGTTCTCGACCTAGG
*
8381235 CGATCCACAGGGAGTTTAATGGAATTTTTGATTAACTTTCTTGTTCTCGACCTAGG
1 CGATCCACAGGGAGTTTAATGGAATTTTTGATTAAATTTCTTGTTCTCGACCTAGG
8381291 AGCTAAAATG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (56 bp):
CGATCCACAGGGAGTTTAATGGAATTTTTGATTAAATTTCTTGTTCTCGACCTAGG
Found at i:8383118 original size:31 final size:31
Alignment explanation
Indices: 8383083--8383150 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
8383073 TTTTTTGAAC
**
8383083 TTTTTTTCTTTTCTTTTGTCTT-TTCTTTCTT
1 TTTTTTTCTTTT-TTTTGAATTATTCTTTCTT
*
8383114 TTTTTTTCTTTTTTTTGAATTATTTTTTCTT
1 TTTTTTTCTTTTTTTTGAATTATTCTTTCTT
8383145 TTTTTT
1 TTTTTT
8383151 GTGTGCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.04, C:0.10, G:0.03, T:0.82
Consensus pattern (31 bp):
TTTTTTTCTTTTTTTTGAATTATTCTTTCTT
Found at i:8383127 original size:21 final size:21
Alignment explanation
Indices: 8383063--8383120 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
8383053 ATCAAACTTT
* *
8383063 TTTTCTTT-TTTTTTTTGAAC
1 TTTTCTTTCTTTTTTTTTATC
* *
8383083 TTTT-TTTCTTTTCTTTTGTC
1 TTTTCTTTCTTTTTTTTTATC
8383103 TTTTCTTTCTTTTTTTTT
1 TTTTCTTTCTTTTTTTTT
8383121 CTTTTTTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.10
20 16 0.52
21 12 0.39
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.81
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTTTTATC
Found at i:8383177 original size:51 final size:50
Alignment explanation
Indices: 8383068--8383184 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 50
8383058 ACTTTTTTTC
* *
8383068 TTTTTTTTTTTGAACTTTTTTTCTTTTCTTTTGTCTTTTCTTTCTTTTTT
1 TTTTTTTTTTTGAACTTTTTTTCTTTTCTTTTGTCTTTTCTTTCTTCTCT
* *
8383118 TTTCTTTTTTTTGAATTATTTTTTCTTTTTTTTGTGTGCTTTT-TTTC-TCTCT
1 TTT-TTTTTTTTGAACT-TTTTTTCTTTTCTTT-TGT-CTTTTCTTTCTTCTCT
*
8383170 TTTTTTTTGTTGAAC
1 TTTTTTTTTTTGAAC
8383185 ATGATCTCAC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
50 3 0.05
51 22 0.39
52 20 0.35
53 7 0.12
54 5 0.09
ACGTcount: A:0.06, C:0.11, G:0.07, T:0.76
Consensus pattern (50 bp):
TTTTTTTTTTTGAACTTTTTTTCTTTTCTTTTGTCTTTTCTTTCTTCTCT
Found at i:8390189 original size:50 final size:50
Alignment explanation
Indices: 8390127--8390225 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
8390117 AGGAAAATGT
*
8390127 ATCCCGAAGGGATTTAAGCAATATTCAATTCTCACGCGAGGAATTGATTC
1 ATCCCGAAGGGATTTAAGCAATATTCAATTCTCACACGAGGAATTGATTC
8390177 ATCCCGAAGGGATTTAAGCAATATTCAATTCTCACACGAGGAATTGATT
1 ATCCCGAAGGGATTTAAGCAATATTCAATTCTCACACGAGGAATTGATT
8390226 TGTACTAGCT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (50 bp):
ATCCCGAAGGGATTTAAGCAATATTCAATTCTCACACGAGGAATTGATTC
Found at i:8390336 original size:16 final size:16
Alignment explanation
Indices: 8390315--8390349 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8390305 ACATAAAATA
* *
8390315 AAATAAAGTAAAGTAG
1 AAATAAAATAAAGAAG
8390331 AAATAAAATAAAGAAG
1 AAATAAAATAAAGAAG
8390347 AAA
1 AAA
8390350 ATTTTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (16 bp):
AAATAAAATAAAGAAG
Found at i:8390653 original size:35 final size:35
Alignment explanation
Indices: 8390614--8390680 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
8390604 GTGCCCAGCA
*
8390614 TCGTGCCCACGACTCCAGCCGTGACAGAATAAGCG
1 TCGTGCCCACGACTCCAACCGTGACAGAATAAGCG
*
8390649 TCGTGCCCACGACTCCAACTGTGACAGAATAA
1 TCGTGCCCACGACTCCAACCGTGACAGAATAA
8390681 AAAGAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.16
Consensus pattern (35 bp):
TCGTGCCCACGACTCCAACCGTGACAGAATAAGCG
Found at i:8394383 original size:18 final size:18
Alignment explanation
Indices: 8394360--8394395 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8394350 GACCATTTAT
8394360 GGCACTATTCACGTATAC
1 GGCACTATTCACGTATAC
* *
8394378 GGCACTGTTCATGTATAC
1 GGCACTATTCACGTATAC
8394396 AGTAATTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (18 bp):
GGCACTATTCACGTATAC
Found at i:8400031 original size:25 final size:25
Alignment explanation
Indices: 8399985--8400032 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
8399975 AATAATTTAA
* *
8399985 AATTATAAAAATATTCACAAAAAAC
1 AATTATAAAAATATCCAAAAAAAAC
8400010 AATTATAAAAA-ATCCAAAAAAAA
1 AATTATAAAAATATCCAAAAAAAA
8400033 GTAAGTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (25 bp):
AATTATAAAAATATCCAAAAAAAAC
Found at i:8401350 original size:26 final size:28
Alignment explanation
Indices: 8401321--8401383 Score: 87
Period size: 26 Copynumber: 2.3 Consensus size: 28
8401311 TTATTCAAGA
*
8401321 TTTAGGGTTC-ATGGTTC-GGGTTTG-AG
1 TTTAGGGTTCAAT-GTTCAAGGTTTGTAG
8401347 TTTAGGGTTCAATGTTCAAGGTTTGTAG
1 TTTAGGGTTCAATGTTCAAGGTTTGTAG
8401375 TTTAGGGTT
1 TTTAGGGTT
8401384 TAAGGTTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 14 0.42
27 8 0.24
28 11 0.33
ACGTcount: A:0.16, C:0.06, G:0.33, T:0.44
Consensus pattern (28 bp):
TTTAGGGTTCAATGTTCAAGGTTTGTAG
Found at i:8410048 original size:24 final size:24
Alignment explanation
Indices: 8410021--8410067 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
8410011 TTCAGAATAA
8410021 CATAGTTTAATTTTAATAAAAATT
1 CATAGTTTAATTTTAATAAAAATT
8410045 CATAGTTTAATTTTAATAAAAAT
1 CATAGTTTAATTTTAATAAAAAT
8410068 ATCTAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (24 bp):
CATAGTTTAATTTTAATAAAAATT
Found at i:8429515 original size:51 final size:52
Alignment explanation
Indices: 8429424--8429543 Score: 142
Period size: 51 Copynumber: 2.4 Consensus size: 52
8429414 TCTTATTAAT
*
8429424 TTAAATTAATTAAGAGATAAATATTAAAAATTTATATTATCATTAATTAAAA
1 TTAAAATAATTAAGAGATAAATATTAAAAATTTATATTATCATTAATTAAAA
* * * *
8429476 TTAAAATAATTAAGTGAT-AATATTAAATGA-TTATTTTATCTTTAATT--AA
1 TTAAAATAATTAAGAGATAAATATTAAA-AATTTATATTATCATTAATTAAAA
*
8429525 TTAAATTAA-TAAGAGATAA
1 TTAAAATAATTAAGAGATAA
8429544 GTTGTAAAGC
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
48 7 0.12
49 11 0.19
51 24 0.41
52 17 0.29
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.42
Consensus pattern (52 bp):
TTAAAATAATTAAGAGATAAATATTAAAAATTTATATTATCATTAATTAAAA
Found at i:8431016 original size:33 final size:33
Alignment explanation
Indices: 8430974--8431039 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
8430964 TTCATGTGAT
8430974 TGGATCAAATAGAGTAGTTAAATTCTACAAGAA
1 TGGATCAAATAGAGTAGTTAAATTCTACAAGAA
8431007 TGGATCAAATAGAGTAGTTAAATTCTACAAGAA
1 TGGATCAAATAGAGTAGTTAAATTCTACAAGAA
8431040 CTCTATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.27
Consensus pattern (33 bp):
TGGATCAAATAGAGTAGTTAAATTCTACAAGAA
Found at i:8437281 original size:17 final size:16
Alignment explanation
Indices: 8437248--8437278 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8437238 AAAATAATTT
*
8437248 AAAACTTTAAATTTTG
1 AAAACTTAAAATTTTG
8437264 AAAACTTAAAATTTT
1 AAAACTTAAAATTTT
8437279 TGAGAAACGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAACTTAAAATTTTG
Done.