Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 1 of 144
Found at i:1513 original size:4 final size:4
Alignment explanation
Indices: 1504--1538 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
1494 TGGACTGTGG
*
1504 TTAT TTAT TTAT TTAT TTAT TTAT TT-T ATAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1539 ATATATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 26 0.93
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:9764 original size:58 final size:58
Alignment explanation
Indices: 9666--9776 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
9656 CAATTTTATA
* * * *
9666 TGTTTTGTGTTCTTTCCCTTGTTTAATTAGTCCTCCAAAAATTCTAAAAATAAGAATG
1 TGTTTTGTGTTATTTCCCTTGTATAATAAATCCTCCAAAAATTCTAAAAATAAGAATG
* * *
9724 TGTTTTGTGTTATTTCCGTTGTATAATAAATCTTCTAAAAATTCTAAAAATAA
1 TGTTTTGTGTTATTTCCCTTGTATAATAAATCCTCCAAAAATTCTAAAAATAA
9777 ATATGTTAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (58 bp):
TGTTTTGTGTTATTTCCCTTGTATAATAAATCCTCCAAAAATTCTAAAAATAAGAATG
Found at i:12488 original size:18 final size:18
Alignment explanation
Indices: 12465--12533 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
12455 TTTTTACAAT
*
12465 TTTTTATGATTTCTAATA
1 TTTTTATAATTTCTAATA
* * *
12483 TTTTTATGATTTTTACAATT
1 TTTTTATAATTTCT--AATA
*
12503 TTTTTACAATTTCTAATAA
1 TTTTTATAATTTCTAAT-A
12522 TTTTTATAATTT
1 TTTTTATAATTT
12534 TTTTTGTAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
18 16 0.39
19 11 0.27
20 14 0.34
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTTCTAATA
Found at i:12506 original size:38 final size:38
Alignment explanation
Indices: 12455--12535 Score: 119
Period size: 38 Copynumber: 2.1 Consensus size: 38
12445 TTAAATAATT
** *
12455 TTTTTACAATTTTTTATGATTTCTAAT-ATTTTTATGA
1 TTTTTACAATTTTTTACAATTTCTAATAATTTTTATAA
12492 TTTTTACAATTTTTTTACAATTTCTAATAATTTTTATAA
1 TTTTTACAA-TTTTTTACAATTTCTAATAATTTTTATAA
12531 TTTTT
1 TTTTT
12536 TTTGTAGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
37 9 0.23
38 16 0.41
39 14 0.36
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.63
Consensus pattern (38 bp):
TTTTTACAATTTTTTACAATTTCTAATAATTTTTATAA
Found at i:12534 original size:48 final size:50
Alignment explanation
Indices: 12451--12557 Score: 123
Period size: 48 Copynumber: 2.2 Consensus size: 50
12441 TTTTTTAAAT
* * *
12451 AATTTTTTTACAATTTTTTATGATTTCTAATA-TTTTTATG-A-TTTTTA
1 AATTTTTTTACAATTTCTAATAATTTCTAATATTTTTTATGTAGTTTTTA
* *
12498 CAATTTTTTTACAATTTCTAATAATTT-TTATAATTTTTTTTGTAGTTTTTA
1 -AATTTTTTTACAATTTCTAATAATTTCTAAT-ATTTTTTATGTAGTTTTTA
12549 AATTTTTTT
1 AATTTTTTT
12558 TTTATTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
47 3 0.06
48 24 0.48
49 7 0.14
50 10 0.20
51 6 0.12
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (50 bp):
AATTTTTTTACAATTTCTAATAATTTCTAATATTTTTTATGTAGTTTTTA
Found at i:12552 original size:20 final size:21
Alignment explanation
Indices: 12522--12575 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
12512 TTTCTAATAA
*
12522 TTTTTATAATTTTTTTTGTAG
1 TTTTTACAATTTTTTTTGTAG
* *
12543 TTTTTA-AATTTTTTTTTTAT
1 TTTTTACAATTTTTTTTGTAG
12563 TTTTTACAATTTT
1 TTTTTACAATTTT
12576 GAAAAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTTACAATTTTTTTTGTAG
Found at i:12607 original size:44 final size:44
Alignment explanation
Indices: 12540--12627 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
12530 ATTTTTTTTG
** *
12540 TAGTTTTTAAATTTTTTTTTTATTTTTTACAATTTTGAAAAATT
1 TAGTTTTTAAAAATTTTTATTATTTTTTACAATTTTGAAAAATT
12584 TAGTTTTTAAAAATTTTTATTATTTTTTACAATTTTGAAAAATT
1 TAGTTTTTAAAAATTTTTATTATTTTTTACAATTTTGAAAAATT
12628 CTAACATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (44 bp):
TAGTTTTTAAAAATTTTTATTATTTTTTACAATTTTGAAAAATT
Found at i:18657 original size:21 final size:21
Alignment explanation
Indices: 18625--18665 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18615 AGGCTCGAGG
18625 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
18646 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
18666 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:23154 original size:21 final size:21
Alignment explanation
Indices: 23122--23162 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
23112 AGGCTCGAGG
23122 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
23143 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
23163 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:35942 original size:89 final size:88
Alignment explanation
Indices: 35835--36006 Score: 254
Period size: 89 Copynumber: 1.9 Consensus size: 88
35825 AAAATATATA
** * * * * *
35835 TTTTCTTTTGATTTTTCCATTTTTCCTACTAAGCACACATATGAAAAGAAAATTTATATTTTTCC
1 TTTTCTTTCAATTTTTCCATCTTTCCTACGAAGCACACACATGAAAAGAAAATTTAT-GTTCTCC
*
35900 ATCTTTCTATTTTTCTACCTTTTC
65 ATATTTCTATTTTTCTACCTTTTC
*
35924 TTTTCTTTCAATTTTTCCATCTTTCCTACGAAGCACACACATGGAAAGAAAATTTATGTTCTCCA
1 TTTTCTTTCAATTTTTCCATCTTTCCTACGAAGCACACACATGAAAAGAAAATTTATGTTCTCCA
35989 TATTTCTATTTTTCTACC
66 TATTTCTATTTTTCTACC
36007 CCTTCAATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
88 23 0.31
89 51 0.69
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.48
Consensus pattern (88 bp):
TTTTCTTTCAATTTTTCCATCTTTCCTACGAAGCACACACATGAAAAGAAAATTTATGTTCTCCA
TATTTCTATTTTTCTACCTTTTC
Found at i:37092 original size:14 final size:14
Alignment explanation
Indices: 37073--37102 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
37063 AGAAGGTTAC
37073 AGTTGAATACCTTA
1 AGTTGAATACCTTA
37087 AGTTGAATACCTTA
1 AGTTGAATACCTTA
37101 AG
1 AG
37103 ATCAGCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (14 bp):
AGTTGAATACCTTA
Found at i:41345 original size:74 final size:74
Alignment explanation
Indices: 41224--41371 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
41214 GCATCATATC
*
41224 CAGTGAGTTAGGACACAATGTCTCGAATTCCCGATACGCGGATGAATGGCAAAATTTACTTATTT
1 CAGTGAGTTAGGACACAATGTCTCGAATTCCCGATACACGGATGAATGGCAAAATTTACTTATTT
41289 AAAAGATGT
66 AAAAGATGT
41298 CAGTGAGTTAGGACACAATGTCTCGAATTCCCGATACACGGATGAATGGCAAAATTTACTTATTT
1 CAGTGAGTTAGGACACAATGTCTCGAATTCCCGATACACGGATGAATGGCAAAATTTACTTATTT
41363 AAAAGATGT
66 AAAAGATGT
41372 TTAATTATCT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (74 bp):
CAGTGAGTTAGGACACAATGTCTCGAATTCCCGATACACGGATGAATGGCAAAATTTACTTATTT
AAAAGATGT
Found at i:42113 original size:3 final size:3
Alignment explanation
Indices: 42105--42139 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
42095 ATATAATGAG
*
42105 AAT AAT AAT GAT ATAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT A
42140 TAAAATTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:42121 original size:22 final size:22
Alignment explanation
Indices: 42092--42141 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
42082 TATAAATGAA
*
42092 AATATATAATGAGAATAATAAT
1 AATATATAATAAGAATAATAAT
* *
42114 GATATATAATAATAATAATAAT
1 AATATATAATAAGAATAATAAT
42136 AATATA
1 AATATA
42142 AAATTGCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (22 bp):
AATATATAATAAGAATAATAAT
Found at i:42508 original size:16 final size:17
Alignment explanation
Indices: 42489--42522 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
42479 ATTAATGTTT
42489 TGGGCTA-TTTGGGCTG
1 TGGGCTAGTTTGGGCTG
*
42505 TGGGTTAGTTTGGGCTG
1 TGGGCTAGTTTGGGCTG
42522 T
1 T
42523 TAATTTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.06, C:0.09, G:0.44, T:0.41
Consensus pattern (17 bp):
TGGGCTAGTTTGGGCTG
Found at i:43228 original size:46 final size:46
Alignment explanation
Indices: 43124--43416 Score: 182
Period size: 44 Copynumber: 6.6 Consensus size: 46
43114 GTTTTAATCC
* * * * *
43124 GCTCCATTGTAATCTCAAGGAGATAGGAT-T--ACTATCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGATCT
* * *
43168 GCTCCGCTGCAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * *
43214 GTTCCACTGTAATCTCAGGGAAATAAGACCTG--A--C-GCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* ** * ** * *
43255 ACTCTGCTGTAA-CTTCAGAGAGATAAGATCCT-TCATT-TT-AATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGAT-CTGAAATTCTTCGATCT
* ** * ** *
43299 ACTCCACTGTAATCTCAATGAGATAGGAT-TGCCA-TCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* *
43343 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* *
43389 GTTCCACTGTAATCTCAGGGAAATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
43417 CCTGGTGCGA
Statistics
Matches: 189, Mismatches: 44, Indels: 30
0.72 0.17 0.11
Matches are distributed among these distances:
40 1 0.01
41 25 0.13
42 5 0.03
43 5 0.03
44 78 0.41
45 5 0.03
46 68 0.36
47 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (46 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
Found at i:43256 original size:175 final size:175
Alignment explanation
Indices: 43066--43545 Score: 800
Period size: 175 Copynumber: 2.7 Consensus size: 175
43056 GTGAGGTAAA
* *
43066 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCAT
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCAC
* *
43131 TGTAATCTCAAGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGCAATCTCAGGGAGATAAGA
66 TGTAATCTCAAGGAGATAGGATTACCATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
43196 TCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAG
131 TCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAG
* * * *
43241 ACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCAC
* *
43306 TGTAATCTCAATGAGATAGGATTGCCATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
66 TGTAATCTCAAGGAGATAGGATTACCATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
43371 TCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAG
131 TCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAG
* * *
43416 ACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCAC
* **
43481 TGTAATCTC-TGAGAGATAGGATTACCATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAG
66 TGTAATCTCAAG-GAGATAGGATTACCATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAG
43545 A
130 A
43546 CCTGTATAAT
Statistics
Matches: 282, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
175 282 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (175 bp):
ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCAC
TGTAATCTCAAGGAGATAGGATTACCATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
TCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAG
Found at i:43366 original size:44 final size:44
Alignment explanation
Indices: 43119--43545 Score: 171
Period size: 44 Copynumber: 9.8 Consensus size: 44
43109 CCTTTGTTTT
* * * * * *
43119 AATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTGCAATCTTC
* * *
43163 AATCTGCTCCGCTGCAATCTCAGGGAGATAAGATCTGAAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-TGCAA-TCTTC
** * * * *
43209 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG--A-C-GC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTGCAATCTTC
* * ** * * *
43250 GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTC-AT-TTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TGCAATCTTC
** ** * *
43294 AATCCACTCCACTGTAATCTCAATGAGATAGGATTGCCATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTGCAATCTTC
* *
43338 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-TGCAA-TCTTC
** * * * * *
43384 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGA---C-CTGGTGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTGCAAT-CTTC
* * * * * * *
43425 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-T-CATTGGTTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTGCAAT--CTTC
* * * * * * *
43469 AATCCGCTCCACTGTAATCTCTGAGAGATAGGATTACCATCTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTGCAATCTTC
* *
43513 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA
43546 CCTGTATAAT
Statistics
Matches: 282, Mismatches: 79, Indels: 44
0.70 0.20 0.11
Matches are distributed among these distances:
40 3 0.01
41 52 0.18
42 5 0.02
43 4 0.01
44 141 0.50
45 8 0.03
46 69 0.24
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTGCAATCTTC
Found at i:55308 original size:66 final size:66
Alignment explanation
Indices: 55202--55332 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
55192 ACACGTTCCA
*
55202 CGTTAATCGAGAAAGAAAGCATCATATCTAGTGAGTTAGGACACAATGTCTCGAATTCCCGATAC
1 CGTTAATCGAGAAAGAAAGCATCATATCCAGTGAGTTAGGACACAATGTCTCGAATTCCCGATAC
55267 G
66 G
55268 CGTTAATCGAGAAAGAAAGCATCATATCCAGTGAGTTAGGACACAATGTCTCGAATTCCCGATAC
1 CGTTAATCGAGAAAGAAAGCATCATATCCAGTGAGTTAGGACACAATGTCTCGAATTCCCGATAC
55333 ACGGATGAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (66 bp):
CGTTAATCGAGAAAGAAAGCATCATATCCAGTGAGTTAGGACACAATGTCTCGAATTCCCGATAC
G
Found at i:56113 original size:3 final size:3
Alignment explanation
Indices: 56105--56139 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
56095 ATATAATGAG
*
56105 AAT AAT AAT GAT ATAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT A
56140 TAAAATTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:56121 original size:22 final size:22
Alignment explanation
Indices: 56092--56141 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
56082 TATAAATGAA
*
56092 AATATATAATGAGAATAATAAT
1 AATATATAATAAGAATAATAAT
* *
56114 GATATATAATAATAATAATAAT
1 AATATATAATAAGAATAATAAT
56136 AATATA
1 AATATA
56142 AAATTGCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (22 bp):
AATATATAATAAGAATAATAAT
Found at i:56521 original size:93 final size:93
Alignment explanation
Indices: 56400--56585 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
56390 AACCCAAAAG
*
56400 TCAGAAACACGCGGATCCTCCCCTCGGGTCGGGTCACCGCGCGGGTCAAGGGCCTCAAAACGGCA
1 TCAGAAACACGCGGATCCTCCCCTCGGGTCAGGTCACCGCGCGGGTCAAGGGCCTCAAAACGGCA
56465 TCGTTTCGTGACCTCTATTTAAAACAAA
66 TCGTTTCGTGACCTCTATTTAAAACAAA
*
56493 TCAGAAACACGCGGATCCTCCCCTCGGGTTAGGTCACCGCGCGGGTCAAGGGCCTCAAAACGGCA
1 TCAGAAACACGCGGATCCTCCCCTCGGGTCAGGTCACCGCGCGGGTCAAGGGCCTCAAAACGGCA
56558 TCGTTTCGTGACCTCTATTTAAAACAAA
66 TCGTTTCGTGACCTCTATTTAAAACAAA
56586 ATTTTTTTGA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (93 bp):
TCAGAAACACGCGGATCCTCCCCTCGGGTCAGGTCACCGCGCGGGTCAAGGGCCTCAAAACGGCA
TCGTTTCGTGACCTCTATTTAAAACAAA
Found at i:57973 original size:103 final size:103
Alignment explanation
Indices: 57861--58051 Score: 283
Period size: 103 Copynumber: 1.9 Consensus size: 103
57851 ATTTATTTTG
* *
57861 ACATCTAGTGGTAATAATTTTAAAAAGAAAAGAAAAACACTAGTGGTGCTACTTCATGAGTTATA
1 ACATCTAGTGGTAATAATTTTAAAAAGAAAAGAAAAACACTAGTGGTGCTACTTCAAGAATTATA
*
57926 ATTTACATTTAGTGGAGCTACTTTAAGAATTATAATTT
66 ATTTACATCTAGTGGAGCTACTTTAAGAATTATAATTT
* ** * * *
57964 ACATTTAGTGGTGCTAATTTTAAAAAGAAAAGAAAATCAGTAGTGGTGCTACTTTAAGAATTATA
1 ACATCTAGTGGTAATAATTTTAAAAAGAAAAGAAAAACACTAGTGGTGCTACTTCAAGAATTATA
* *
58029 ATTTACATCTCGTGGTGCTACTT
66 ATTTACATCTAGTGGAGCTACTT
58052 AACCCTGCTT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 77 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (103 bp):
ACATCTAGTGGTAATAATTTTAAAAAGAAAAGAAAAACACTAGTGGTGCTACTTCAAGAATTATA
ATTTACATCTAGTGGAGCTACTTTAAGAATTATAATTT
Found at i:58044 original size:34 final size:34
Alignment explanation
Indices: 57900--58051 Score: 137
Period size: 34 Copynumber: 4.4 Consensus size: 34
57890 AAGAAAAACA
* * *
57900 CTAGTGGTGCTACTTCATGAGTTATAATTTACAT
1 CTAGTGGTGCTACTTTAAGAATTATAATTTACAT
* *
57934 TTAGTGGAGCTACTTTAAGAATTATAATTTACAT
1 CTAGTGGTGCTACTTTAAGAATTATAATTTACAT
* * ** *** *
57968 TTAGTGGTGCTAATTTTAA-AAAGA-AAAGAAAAT
1 CTAGTGGTGCT-ACTTTAAGAATTATAATTTACAT
58001 CAGTAGTGGTGCTACTTTAAGAATTATAATTTACAT
1 C--TAGTGGTGCTACTTTAAGAATTATAATTTACAT
*
58037 CTCGTGGTGCTACTT
1 CTAGTGGTGCTACTT
58052 AACCCTGCTT
Statistics
Matches: 91, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
33 5 0.05
34 61 0.67
35 19 0.21
36 6 0.07
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (34 bp):
CTAGTGGTGCTACTTTAAGAATTATAATTTACAT
Found at i:64919 original size:25 final size:25
Alignment explanation
Indices: 64851--64942 Score: 73
Period size: 25 Copynumber: 3.6 Consensus size: 25
64841 TTCTTTTATG
**
64851 TTATATAAATTTTTTATTTGATTAATAA
1 TTATA-AAATTTTTTACAT-ATT-ATAA
64879 GTTATATAAA-TTTTTACA-ATTATAA
1 -TTATA-AAATTTTTTACATATTATAA
* *
64904 TTATAAAATTTATTTATATATT-TCA
1 TTATAAAATTT-TTTACATATTATAA
64929 TTATAAAATTTTTT
1 TTATAAAATTTTTT
64943 GTATGTTACA
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
23 3 0.05
24 10 0.18
25 22 0.39
26 6 0.11
28 6 0.11
29 9 0.16
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
TTATAAAATTTTTTACATATTATAA
Found at i:66420 original size:25 final size:25
Alignment explanation
Indices: 66392--66456 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
66382 CATATAATGG
*
66392 GAAGCTCAAAAGAGCTAGTTATCGA
1 GAAGCTCAAAAGAGCTAATTATCGA
**
66417 GAAGCTCTGAAGAGCTAATTATCGA
1 GAAGCTCAAAAGAGCTAATTATCGA
*
66442 GAAGCTCATAAGAGC
1 GAAGCTCAAAAGAGC
66457 CATAACGGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (25 bp):
GAAGCTCAAAAGAGCTAATTATCGA
Found at i:66477 original size:23 final size:24
Alignment explanation
Indices: 66442--66496 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
66432 TAATTATCGA
* * *
66442 GAAGCTCATAAGAGCC-ATAACGG
1 GAAGCTCACAAGAACCAATAACAG
*
66465 GAAGCTCGCAAGAACCAGATAACAG
1 GAAGCTCACAAGAACCA-ATAACAG
66490 GAAGCTC
1 GAAGCTC
66497 TGGAGAGCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 13 0.50
25 13 0.50
ACGTcount: A:0.40, C:0.24, G:0.25, T:0.11
Consensus pattern (24 bp):
GAAGCTCACAAGAACCAATAACAG
Found at i:67006 original size:16 final size:16
Alignment explanation
Indices: 66970--67008 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
66960 TTTAACATCA
*
66970 ATTTAATAAAATTTGC
1 ATTTAATAAAATTTAC
66986 ATTTAATAAAATTTAC
1 ATTTAATAAAATTTAC
*
67002 TTTTAAT
1 ATTTAAT
67009 TAATTCTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (16 bp):
ATTTAATAAAATTTAC
Found at i:67873 original size:3 final size:3
Alignment explanation
Indices: 67865--67905 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
67855 TTTTTATGTA
67865 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
67906 ACACTATAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:68231 original size:76 final size:76
Alignment explanation
Indices: 68145--68297 Score: 281
Period size: 76 Copynumber: 2.0 Consensus size: 76
68135 ATTTAATATA
68145 AAACCTAAAATGGACACCACGTAATTATTAAATACGAGATAACACAATATTAACAATACATG-TA
1 AAACCTAAAATGGACACCACGTAATTATTAAATACGAGATAACACAATATTAACAATACATGTTA
68209 CCTTCAAAAAAT
66 -CTTCAAAAAAT
68221 AAACCTAAAATGGACACCACGTAATTATTAAATACGAGATAACACAATATTAACAATACATGTTA
1 AAACCTAAAATGGACACCACGTAATTATTAAATACGAGATAACACAATATTAACAATACATGTTA
*
68286 CTTTAAAAAAT
66 CTTCAAAAAAT
68297 A
1 A
68298 CATTGCTGCT
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
76 73 0.97
77 2 0.03
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (76 bp):
AAACCTAAAATGGACACCACGTAATTATTAAATACGAGATAACACAATATTAACAATACATGTTA
CTTCAAAAAAT
Found at i:68664 original size:20 final size:19
Alignment explanation
Indices: 68626--68664 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
68616 ATATATATTT
* *
68626 AATAATTTTTTAAACTTAA
1 AATAATTTTTAAAAATTAA
68645 AATATATTTTTAAAAATTAA
1 AATA-ATTTTTAAAAATTAA
68665 CTTTTAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAATTTTTAAAAATTAA
Found at i:72669 original size:19 final size:19
Alignment explanation
Indices: 72615--72669 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
72605 GATACAATAG
* * *
72615 TTTTTATAATTTTGTAAAA
1 TTTTTATAATTTTCTTACA
*
72634 ATTTTAT-A-TTTCTTTACA
1 TTTTTATAATTTTC-TTACA
72652 TTTTTATAATTTTCTTAC
1 TTTTTATAATTTTCTTAC
72670 GACTTTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
17 3 0.11
18 10 0.36
19 11 0.39
20 4 0.14
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTATAATTTTCTTACA
Found at i:72743 original size:20 final size:20
Alignment explanation
Indices: 72714--72819 Score: 56
Period size: 20 Copynumber: 5.2 Consensus size: 20
72704 TATATATTTG
*
72714 ATAAATTTTTAATTATTTTT
1 ATAAAATTTTAATTATTTTT
72734 ATAAAATTTTACAATT-TTTTT
1 ATAAAATTTT--AATTATTTTT
* * ** *
72755 ACAATTTATTTTTCTAATTTTT
1 ATAA--AATTTTAATTATTTTT
* *
72777 A-ATAACTTTTAAATATTTTT
1 ATA-AAATTTTAATTATTTTT
*
72797 ATTAAAA-TTTAATAATTTTT
1 A-TAAAATTTTAATTATTTTT
72817 ATA
1 ATA
72820 TCTTTAATTG
Statistics
Matches: 63, Mismatches: 15, Indels: 17
0.66 0.16 0.18
Matches are distributed among these distances:
19 2 0.03
20 32 0.51
21 12 0.19
22 12 0.19
23 5 0.08
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
ATAAAATTTTAATTATTTTT
Found at i:79521 original size:7 final size:7
Alignment explanation
Indices: 79510--79606 Score: 95
Period size: 7 Copynumber: 13.9 Consensus size: 7
79500 TTCTTTTTAA
*
79510 CTCAATA
1 CTCAATC
79517 CTCAATC
1 CTCAATC
79524 CTCAATC
1 CTCAATC
* *
79531 CTAAATT
1 CTCAATC
79538 CTCAATC
1 CTCAATC
*
79545 CTCAATT
1 CTCAATC
* * *
79552 TTCATTT
1 CTCAATC
*
79559 CTCAATT
1 CTCAATC
* *
79566 CTCATTT
1 CTCAATC
79573 CTCAATC
1 CTCAATC
79580 CTCAATC
1 CTCAATC
79587 CTCAATC
1 CTCAATC
*
79594 CCCAATC
1 CTCAATC
79601 CTCAAT
1 CTCAAT
79607 TCTTAATTCT
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 75 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.36
Consensus pattern (7 bp):
CTCAATC
Found at i:79618 original size:14 final size:14
Alignment explanation
Indices: 79510--79628 Score: 103
Period size: 14 Copynumber: 8.5 Consensus size: 14
79500 TTCTTTTTAA
* *
79510 CTCAATACTCAATC
1 CTCAATTCTCAATT
* *
79524 CTCAATCCTAAATT
1 CTCAATTCTCAATT
*
79538 CTCAATCCTCAATT
1 CTCAATTCTCAATT
* *
79552 TTCATTTCTCAATT
1 CTCAATTCTCAATT
* *
79566 CTCATTTCTCAATC
1 CTCAATTCTCAATT
* *
79580 CTCAATCCTCAATC
1 CTCAATTCTCAATT
* *
79594 CCCAATCCTCAATT
1 CTCAATTCTCAATT
* *
79608 CTTAATTCTCATTT
1 CTCAATTCTCAATT
79622 CTCAATT
1 CTCAATT
79629 AATTTTTTAA
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 87 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (14 bp):
CTCAATTCTCAATT
Found at i:79628 original size:21 final size:21
Alignment explanation
Indices: 79510--79628 Score: 103
Period size: 21 Copynumber: 5.7 Consensus size: 21
79500 TTCTTTTTAA
* * *
79510 CTCAATACTCAATCCTCAATC
1 CTCAATTCTCAATTCTCAATT
* *
79531 CTAAATTCTCAATCCTCAATT
1 CTCAATTCTCAATTCTCAATT
* * *
79552 TTCATTTCTCAATTCTCATTT
1 CTCAATTCTCAATTCTCAATT
* * *
79573 CTCAATCCTCAATCCTCAATC
1 CTCAATTCTCAATTCTCAATT
* * *
79594 CCCAATCCTCAATTCTTAATT
1 CTCAATTCTCAATTCTCAATT
*
79615 CTCATTTCTCAATT
1 CTCAATTCTCAATT
79629 AATTTTTTAA
Statistics
Matches: 77, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (21 bp):
CTCAATTCTCAATTCTCAATT
Found at i:81464 original size:63 final size:63
Alignment explanation
Indices: 81389--81526 Score: 172
Period size: 63 Copynumber: 2.2 Consensus size: 63
81379 GCATCACAAT
* * * * * *
81389 ATGCACAATCATTCCCCG-ATTTAACACCTTTAGCTCCAGTTTATTTTACACAAATACCATAGC
1 ATGCACAATCATTCCCCGCA-TCAACACCTTCAACACCAATTTATTTTACACAAACACCATAGC
* *
81452 ATGCACAATCATTCCCTGCATCAACACCTTCAACACCAATTTATTTTACACAAGCACCATAGC
1 ATGCACAATCATTCCCCGCATCAACACCTTCAACACCAATTTATTTTACACAAACACCATAGC
81515 ACT-CACAATCAT
1 A-TGCACAATCAT
81527 ATTAGACACC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
63 63 0.97
64 2 0.03
ACGTcount: A:0.34, C:0.31, G:0.07, T:0.28
Consensus pattern (63 bp):
ATGCACAATCATTCCCCGCATCAACACCTTCAACACCAATTTATTTTACACAAACACCATAGC
Found at i:83086 original size:21 final size:21
Alignment explanation
Indices: 83060--83105 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
83050 TATATGAATG
*
83060 AATTTAACA-TCAATTTAATAC
1 AATTT-ACATTCAATTCAATAC
*
83081 AATTTACATTCAATTCAATCC
1 AATTTACATTCAATTCAATAC
83102 AATT
1 AATT
83106 CAATTCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTTACATTCAATTCAATAC
Found at i:84030 original size:3 final size:3
Alignment explanation
Indices: 84022--84049 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
84012 ATTGATAGAG
84022 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
84050 AGCAATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:84728 original size:20 final size:19
Alignment explanation
Indices: 84699--84737 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
84689 ATATATATTT
*
84699 AATAATTTTTTAAACTTAA
1 AATAATTTTTTAAAATTAA
84718 AATATATTTTTTAAAATTAA
1 AATA-ATTTTTTAAAATTAA
84738 CTTTTAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AATAATTTTTTAAAATTAA
Found at i:93689 original size:17 final size:18
Alignment explanation
Indices: 93657--93690 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93647 TAGAGGACAG
93657 AAAAGGAAGGAGATAGAA
1 AAAAGGAAGGAGATAGAA
*
93675 AAAAGGCAGGA-ATAGA
1 AAAAGGAAGGAGATAGA
93691 GAATGGCGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.03, G:0.32, T:0.06
Consensus pattern (18 bp):
AAAAGGAAGGAGATAGAA
Found at i:99156 original size:44 final size:44
Alignment explanation
Indices: 98973--99812 Score: 261
Period size: 44 Copynumber: 19.2 Consensus size: 44
98963 AAAATTGTAG
* *
98973 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
99017 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** * * * * ** * *
99061 GCCTTATCTCCCTAAGCAGCAGCT-TA-AAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAG-TGGAGCAGATTGAAGACGGCAA
*
99104 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
99148 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** ** * * * **** *
99192 GCCTTGCCTCTCTAAGCAG-A---GAGAAGGTTGAAGATTATAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* *
99232 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
99276 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** ** * * * * * * ** * *
99320 GCCTTGCCTCTCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* *
99364 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
99408 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** ** * * * * * * ** * *
99452 GCCTTGCCTCTCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* *
99496 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
99540 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** ** * * * * * * ** * *
99584 GCCTTGCCTCTCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* *
99628 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
99672 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** ** * * * * * * ** * *
99716 GCCTTGCCTCTCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
*
99760 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
99804 ATCTTATCT
1 ATCTTATCT
99813 TTACAAGATA
Statistics
Matches: 523, Mismatches: 230, Indels: 86
0.62 0.27 0.10
Matches are distributed among these distances:
40 23 0.04
41 2 0.00
42 25 0.05
43 59 0.11
44 370 0.71
45 33 0.06
46 10 0.02
47 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
Found at i:99439 original size:132 final size:132
Alignment explanation
Indices: 98874--99852 Score: 1797
Period size: 132 Copynumber: 7.5 Consensus size: 132
98864 GAGGCAGACT
*
98874 GAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
1 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
98939 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
66 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
99004 TC
131 TC
**
99006 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTATCTC
1 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
* ** * *
99071 CCTAAGCAGCAGCTTA-AAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
66 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
99135 TC
131 TC
99137 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
1 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
* *
99202 TCTAAGCAG-A---GAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
66 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
99263 TC
131 TC
99265 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
1 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
99330 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
66 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
99395 TC
131 TC
99397 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
1 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
99462 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
66 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
99527 TC
131 TC
99529 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
1 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
99594 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
66 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
99659 TC
131 TC
99661 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
1 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
*
99726 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
66 TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
99791 TC
131 TC
* * *
99793 GAAGACGGCAAATCTTATCTTTACAAGATAGTAGGAAGCAGATTTAAGCCACTAAGCCTT
1 GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTT
99853 ATCTCCATGA
Statistics
Matches: 822, Mismatches: 20, Indels: 10
0.96 0.02 0.01
Matches are distributed among these distances:
127 1 0.00
128 122 0.15
129 1 0.00
130 1 0.00
131 119 0.14
132 578 0.70
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (132 bp):
GAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGCCTC
TCTAAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
TC
Found at i:101676 original size:20 final size:21
Alignment explanation
Indices: 101636--101676 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
101626 GTTTTATTTA
101636 TTTAATTAATTTTGAAATTAT
1 TTTAATTAATTTTGAAATTAT
101657 TTTAATT-ATTTT-AAACTTAT
1 TTTAATTAATTTTGAAA-TTAT
101677 ATATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 9 0.47
21 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTAATTAATTTTGAAATTAT
Found at i:105613 original size:24 final size:24
Alignment explanation
Indices: 105586--105631 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
105576 AGAACAATCC
* *
105586 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
105610 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
105632 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:112927 original size:132 final size:133
Alignment explanation
Indices: 112756--113078 Score: 515
Period size: 132 Copynumber: 2.4 Consensus size: 133
112746 ACTGAAGATG
*
112756 ACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCCCCAAGCCTTGTCTCCCTAAGC
1 ACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGC
* *
112821 AGCAGTGGAGAAGGTTGAAGTTTGTAAATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAG-
66 AGCAGAGGAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGA
112885 CCA
131 CCA
* * *
112888 ACAAATCTTATCTTTCCAATATAGTGGGAAGCAGATTTAAGCCACCAAGCATTGTCTCTCTAAGC
1 ACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGC
* *
112953 AGCAGAGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
66 AGCAGAGGAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGA
**
113018 CGG
131 CCA
* * *
113021 A-AAATCTTATCTTTCCAAGATAGTAGGAAGTAGATTTAAGCCACCAAGCCTTATCTCC
1 ACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCC
113079 ACGAAGTTGC
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
132 172 0.99
133 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (133 bp):
ACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGC
AGCAGAGGAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGA
CCA
Found at i:114700 original size:21 final size:20
Alignment explanation
Indices: 114676--114714 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
114666 ATACTTGTTT
*
114676 TATTTTTTTAATTAATTTTGA
1 TATTATTTTAATT-ATTTTGA
114697 TATTATTTTAATTATTTT
1 TATTATTTTAATTATTTT
114715 AAACTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TATTATTTTAATTATTTTGA
Found at i:118813 original size:3 final size:3
Alignment explanation
Indices: 118805--118955 Score: 302
Period size: 3 Copynumber: 50.3 Consensus size: 3
118795 GTATAAAAGT
118805 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
118853 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
118901 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
118949 ATA ATA A
1 ATA ATA A
118956 AAGAAACCAA
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 148 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:119281 original size:41 final size:41
Alignment explanation
Indices: 119205--119305 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
119195 AATAAAAGCA
*
119205 CTTTCAGTTGGAAGCA-TTTTCTATCAATACGTTGAAAATG
1 CTTTCAGTTGGAAACATTTTTCTATCAATACGTTGAAAATG
119245 C-TTCTAGTTGGAAACATTTTTCTA-CAAATCAC-TTGAAAATG
1 CTTTC-AGTTGGAAACATTTTTCTATC-AAT-ACGTTGAAAATG
* *
119286 CTTTCAATTGGAAATATTTT
1 CTTTCAGTTGGAAACATTTT
119306 CCAAAAATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
39 3 0.06
40 12 0.23
41 33 0.62
42 5 0.09
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (41 bp):
CTTTCAGTTGGAAACATTTTTCTATCAATACGTTGAAAATG
Found at i:124111 original size:17 final size:16
Alignment explanation
Indices: 124070--124114 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
124060 AAATCAAATA
124070 AATTATTAAAATATTAT
1 AATTA-TAAAATATTAT
**
124087 AAAAATAAAATATTAAT
1 AATTATAAAATATT-AT
124104 AATTATAAAAT
1 AATTATAAAAT
124115 GCGATTCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTATAAAATATTAT
Found at i:124112 original size:23 final size:24
Alignment explanation
Indices: 124065--124113 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
124055 AGTGCAAATC
*
124065 AAATAAATTATTAAAATATTATAA
1 AAATAAAATATTAAAATATTATAA
*
124089 AAATAAAATATTAATA-ATTATAA
1 AAATAAAATATTAAAATATTATAA
124112 AA
1 AA
124114 TGCGATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATAAAATATTAAAATATTATAA
Found at i:126837 original size:15 final size:15
Alignment explanation
Indices: 126813--126846 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
126803 AACAATTACG
*
126813 ATAATGCGAGTAAAA
1 ATAATACGAGTAAAA
126828 ATAATACGAGTAAAA
1 ATAATACGAGTAAAA
126843 ATAA
1 ATAA
126847 CAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.21
Consensus pattern (15 bp):
ATAATACGAGTAAAA
Found at i:130328 original size:14 final size:14
Alignment explanation
Indices: 130309--130335 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
130299 AGATAGGTGC
130309 AATAAATTATACAT
1 AATAAATTATACAT
130323 AATAAATTATACA
1 AATAAATTATACA
130336 AATTTTTTAC
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:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAAATTATACAT
Found at i:130821 original size:74 final size:74
Alignment explanation
Indices: 130732--130879 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
130722 CATTCATTTC
*
130732 CCTCAAGCAAAATAACAACGCCAATGGGTTTTCACTTACCGCTTTACTTCCTCTTCCTCTTCCTG
1 CCTCAAGCAAAATAACAACGCCAATGGGTTTTCACTTACCGCTTTACTTCCCCTTCCTCTTCCTG
130797 TTATGCCCA
66 TTATGCCCA
*
130806 CCTCAAGCAAAATAACAACGCCAATGGGTTTTCACTTACCGCTTTACTTCCCCTTCCTGTTCCTG
1 CCTCAAGCAAAATAACAACGCCAATGGGTTTTCACTTACCGCTTTACTTCCCCTTCCTCTTCCTG
*
130871 TTGTGCCCA
66 TTATGCCCA
130880 ATTTTACAAG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (74 bp):
CCTCAAGCAAAATAACAACGCCAATGGGTTTTCACTTACCGCTTTACTTCCCCTTCCTCTTCCTG
TTATGCCCA
Found at i:133053 original size:81 final size:82
Alignment explanation
Indices: 132918--133082 Score: 296
Period size: 81 Copynumber: 2.0 Consensus size: 82
132908 AAAAGAAAAC
* *
132918 TTATAGGTAAAACTTTTGTATTTCAAAAACTTAAATTAATACCTAAAAGGTTTTAGGTAAGAAGC
1 TTATAAGTAAAACTTTTGTATTTCAAAAACTTAAATTAATACCTAAAAGGTTTTAGGTAAGAAAC
132983 TTGTACCTT-AAAGGTT
66 TTGTACCTTAAAAGGTT
*
132999 TTATAAGTAAAACTTTTGTATTTCAAAAGCTTAAATTAATACCTAAAAGGTTTTAGGTAAGAAAC
1 TTATAAGTAAAACTTTTGTATTTCAAAAACTTAAATTAATACCTAAAAGGTTTTAGGTAAGAAAC
133064 TTGTACCTTAAAAGGTT
66 TTGTACCTTAAAAGGTT
133081 TT
1 TT
133083 TGAAGGGCAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 71 0.89
82 9 0.11
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (82 bp):
TTATAAGTAAAACTTTTGTATTTCAAAAACTTAAATTAATACCTAAAAGGTTTTAGGTAAGAAAC
TTGTACCTTAAAAGGTT
Found at i:140267 original size:18 final size:18
Alignment explanation
Indices: 140244--140318 Score: 114
Period size: 18 Copynumber: 4.2 Consensus size: 18
140234 CCCAACTACT
*
140244 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
140262 GTATACGTGAATAATACT
1 GTATACGTGAATAGTACC
*
140280 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
140298 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
140316 GTA
1 GTA
140319 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:144375 original size:26 final size:27
Alignment explanation
Indices: 144346--144402 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
144336 TTAATTAAAA
* * *
144346 TTATTT-TTATTATGTTATATAACTTT
1 TTATTTATTAATAAGTTATATAAATTT
144372 TTATTTGATTAATAAGTTATATAAATTT
1 TTATTT-ATTAATAAGTTATATAAATTT
144400 TTA
1 TTA
144403 CAATTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.23
28 20 0.77
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (27 bp):
TTATTTATTAATAAGTTATATAAATTT
Found at i:148757 original size:18 final size:18
Alignment explanation
Indices: 148734--148790 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
148724 TTTTAAAAAA
148734 TATAAATTTTGGAATTTT
1 TATAAATTTTGGAATTTT
* *
148752 TATAAATATTTTGAA-ATT
1 TATAAAT-TTTGGAATTTT
*
148770 TAAAAATTATTGTGAATTTT
1 TATAAATT-TTG-GAATTTT
148790 T
1 T
148791 GAAATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 1 0.03
18 17 0.57
19 9 0.30
20 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TATAAATTTTGGAATTTT
Found at i:151242 original size:29 final size:29
Alignment explanation
Indices: 151205--151262 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
151195 TTTGATTATT
*
151205 TTTAATAATATAA-GTACTAAATTGATCCG
1 TTTAATAATAGAATGT-CTAAATTGATCCG
* *
151234 TTTAGTAATAGAATGTCTAATTTGATCCG
1 TTTAATAATAGAATGTCTAAATTGATCCG
151263 ATCTATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (29 bp):
TTTAATAATAGAATGTCTAAATTGATCCG
Found at i:151905 original size:109 final size:110
Alignment explanation
Indices: 151712--151917 Score: 353
Period size: 109 Copynumber: 1.9 Consensus size: 110
151702 CTCATTGTTG
* *
151712 ATTTTAATTTTCAGATTTACCTTTTAACTATGTTTCTTATATCTATATAGGTTGCAGCACTAGTA
1 ATTTTAATTTTCAAATTCACCTTTTAACTATGTTTCTTATATCTATATAGGTTGCAGCACTAGTA
151777 TTGGGACACTATTTCTACTACTCGCAACATGGTTTTTTAGCCTGT
66 TTGGGACACTATTTCTACTACTCGCAACATGGTTTTTTAGCCTGT
* *
151822 ATTTTAATTTTCAAATTCACC-TTTAACTATGTTTCTTATATCTATATAGGTTGTAGCACTAGTG
1 ATTTTAATTTTCAAATTCACCTTTTAACTATGTTTCTTATATCTATATAGGTTGCAGCACTAGTA
151886 TTGGGACACTACTTT-TACTACTCGCAACATGG
66 TTGGGACACTA-TTTCTACTACTCGCAACATGG
151918 AGTATGTACA
Statistics
Matches: 91, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
109 69 0.76
110 22 0.24
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (110 bp):
ATTTTAATTTTCAAATTCACCTTTTAACTATGTTTCTTATATCTATATAGGTTGCAGCACTAGTA
TTGGGACACTATTTCTACTACTCGCAACATGGTTTTTTAGCCTGT
Found at i:155723 original size:50 final size:50
Alignment explanation
Indices: 155444--155887 Score: 247
Period size: 50 Copynumber: 8.9 Consensus size: 50
155434 TGCGTCGCCT
* * * * *
155444 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCAG
* ** ** * ** * *
155494 GGAAGTGAGATTTGCCATTGTAGCTTCAATCTGTTCCACTGC-ATCGCCA-
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAAATTGCAAT-GTCAG
* * * * * * * *
155543 -AAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTTAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCAG
* * * ** * ** *
155592 GGACGCAAGATTCG-TCGTTGT-GACTTCAATCTGTTTCCACTGC-ATCACCTG
1 GGAAGTAAGATCCGCT-GTTGTAG-CTTCAATCT-TTTAAATTGCAAT-GTCAG
* * * * * *
155643 GGAAGATAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCCATGTCGG
1 GGAAG-TAAGATCCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCAG
* * * **
155694 GGAAGCAAGATCCGCTGCTGTAGCTTCAATCTGTTCCATTGCAATG-CTAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTC-AG
* * *
155744 GAAAGTGAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCAG
* * * ** * *
155794 GGAAGTAAGATCCACTATTGTAGCTTCAATCTGTTCCACTGCAACG-CTAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTC-AG
* * * *
155844 GAAAGTGAGATCCGCTGTCGTAGCTTCAATCTTTTTAATTGCAA
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAAATTGCAA
155888 ACTATGGTTT
Statistics
Matches: 294, Mismatches: 85, Indels: 30
0.72 0.21 0.07
Matches are distributed among these distances:
48 31 0.11
49 7 0.02
50 205 0.70
51 27 0.09
52 23 0.08
53 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCAG
Found at i:155791 original size:100 final size:100
Alignment explanation
Indices: 155446--155887 Score: 455
Period size: 100 Copynumber: 4.4 Consensus size: 100
155436 CGTCGCCTGG
* * ** ** *
155446 AAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTTGCCA
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCAAGATCCGCTA
*
155511 TTGTAGCTTCAATCTGTTCCACTGCATCGCCA--A
66 TTGTAGCTTCAATCTGTTCCACTGCATCGCTAGGA
* * * * * *
155544 AAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTTAGGGACGCAAGATTCG-TC
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCAAGATCCGCT-
* * *
155608 GTTGT-GACTTCAATCTGTTTCCACTGCATCACCT-GGG
65 ATTGTAG-CTTCAATCTG-TTCCACTGCATC-GCTAGGA
* * *
155645 AAGATAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCCATGTCGGGGAAGCAAGATCCGCT
1 AAG-TAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCAAGATCCGCT
** *
155710 GCTGTAGCTTCAATCTGTTCCATTGCAAT-GCTAGGA
65 ATTGTAGCTTCAATCTGTTCCACTGC-ATCGCTAGGA
* * * * * * *
155746 AAGTGAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTA
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCAAGATCCGCTA
*
155811 TTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGA
66 TTGTAGCTTCAATCTGTTCCACTGCATCGCTAGGA
* * * * * *
155846 AAGTGAGATCCGCTGTCGTAGCTTCAATCTTTTTAATTGCAA
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAA
155888 ACTATGGTTT
Statistics
Matches: 291, Mismatches: 41, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
97 1 0.00
98 68 0.23
99 13 0.04
100 125 0.43
101 15 0.05
102 67 0.23
103 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCAAGATCCGCTA
TTGTAGCTTCAATCTGTTCCACTGCATCGCTAGGA
Found at i:170940 original size:40 final size:40
Alignment explanation
Indices: 170892--171125 Score: 213
Period size: 40 Copynumber: 5.8 Consensus size: 40
170882 GTGGTTTTAG
170892 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * *
170932 TCTACTCCACTACTGCTTAGGG-GAATAAGATCTGTGGTTCTG-
1 TCTGCTCCACTACTGCTTAGGGAG-ATAAGA-C--TGGATGTGA
* * * * *
170974 TCTGCTCCACTATTGCTTGGGGAGATAAGACTTGAAGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * *
171014 TCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGA
* * * * **
171056 TCCGCTCCGCTACTACTTAGGGAGATAAGACTTGATACGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* *
171096 TCCGCTCCACTATTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
171126 TCTATGGTTT
Statistics
Matches: 156, Mismatches: 28, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
39 8 0.05
40 83 0.53
41 4 0.03
42 51 0.33
43 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
Found at i:170979 original size:82 final size:82
Alignment explanation
Indices: 170876--171136 Score: 362
Period size: 82 Copynumber: 3.2 Consensus size: 82
170866 CATGGGGATG
* * * *
170876 AGATTTGTGGTTTTAGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCTACTCCA
1 AGATCTGTGGTTTT-GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCA
*
170941 CTACTGCTTAGGG-GAATA
65 CTATTGCTTAGGGAG-ATA
* * * *
170959 AGATCTGTGGTTCTGTCTGCTCCACTATTGCTTGGGGAGATAAGACTTGAAGCGATCTGCTCCAC
1 AGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCAC
171024 TATTGCTTAGGGAGATA
66 TATTGCTTAGGGAGATA
* * * * *
171041 AGATCTGTGGTTTTGTCCGCTCCGCTACTACTTAGGGAGATAAGACTTGATACGATCCGCTCCAC
1 AGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCAC
171106 TATTGCTTAGGGAGATA
66 TATTGCTTAGGGAGATA
*
171123 AGATCTATGGTTTT
1 AGATCTGTGGTTTT
171137 CACTCTATTC
Statistics
Matches: 158, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
82 145 0.92
83 13 0.08
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (82 bp):
AGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCAC
TATTGCTTAGGGAGATA
Found at i:171109 original size:122 final size:122
Alignment explanation
Indices: 170892--171125 Score: 289
Period size: 122 Copynumber: 1.9 Consensus size: 122
170882 GTGGTTTTAG
* *
170892 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCTACTCCACTACTGCTTAGGGGAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCCACTCCACTACTACTTAGGGGAA
* * * *
170957 TAAGATCTGTGGTTCTGTCTGCTCCACTATTGCTTGGGGAGATAAGACTTGAAGCGA
66 TAAGATCTGTGATACTGTCCGCTCCACTATTGCTTAGGGAGATAAGACTTGAAGCGA
* * * * *
171014 TCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTG-TCCGCTCCGCTACTACTTA-GG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGATCCACTCCACTACTACTTAGGG
171077 GAGATAAGA-CT-TGATAC-GATCCGCTCCACTATTGCTTAGGGAGATAAGA
63 GA-ATAAGATCTGTGATACTG-TCCGCTCCACTATTGCTTAGGGAGATAAGA
171126 TCTATGGTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
121 1 0.01
122 61 0.64
123 7 0.07
124 21 0.22
125 6 0.06
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (122 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCCACTCCACTACTACTTAGGGGAA
TAAGATCTGTGATACTGTCCGCTCCACTATTGCTTAGGGAGATAAGACTTGAAGCGA
Found at i:171446 original size:44 final size:45
Alignment explanation
Indices: 171241--171805 Score: 474
Period size: 44 Copynumber: 12.8 Consensus size: 45
171231 GCTTCGCTGC
* * * * * *
171241 CCAATACAGGAAGGCAAGATCTGCAATCCTCAATCTA-TTCCACTGT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT-CACT-A
* * * *
171287 CAAATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCACCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * * *
171330 CTAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * *
171375 CCAGTATGGGAAGACAAGATCTG-TATCTTGGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * * *
171418 TCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * * * *
171462 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * *
171507 CCAA-ATGGGAAGACAAGATCTGC-ATCTTGGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * * *
171549 TCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * * * *
171593 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* *
171638 CCAA-ATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * *
171680 CCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * * * * *
171724 CCAATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * *
171769 CCAATATGGGAAGACAAGATCTGCAATCTTCAATCTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTA
171806 TTCCACTGCC
Statistics
Matches: 414, Mismatches: 91, Indels: 29
0.78 0.17 0.05
Matches are distributed among these distances:
42 11 0.03
43 81 0.20
44 216 0.52
45 97 0.23
46 9 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (45 bp):
CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
Found at i:171548 original size:131 final size:131
Alignment explanation
Indices: 171305--171798 Score: 812
Period size: 131 Copynumber: 3.7 Consensus size: 131
171295 GGGACAAGAT
* * * *
171305 CTGCTTTCTTCGATCTACTTCA--CCACTAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTAC
1 CTGCTATCTTCGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTGCTTTCTGCGATCTAC
* * *
171368 TTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGAT
63 TTCGCCACCA-AATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGAT
171433 AGGAC
127 AGGAC
171438 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
171503 GCCACCAAATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGA
66 GCCACCAAATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGA
171568 C
131 C
171569 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
* *
171634 GCCACCAAATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGA
66 GCCACCAAATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGA
*
171699 T
131 C
* *
171700 CTGCTACCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
171765 GCCACCAATATGGGAAGACAAGATCTGCAATCTT
66 GCCACCAA-ATGGGAAGACAAGATCTGC-ATCTT
171799 CAATCTATTC
Statistics
Matches: 345, Mismatches: 12, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
131 256 0.74
132 56 0.16
133 26 0.08
134 2 0.01
135 5 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (131 bp):
CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
GCCACCAAATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGA
C
Found at i:171937 original size:136 final size:134
Alignment explanation
Indices: 171777--172071 Score: 502
Period size: 136 Copynumber: 2.2 Consensus size: 134
171767 CACCAATATG
*
171777 GGAAGACAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
1 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
*
171842 TTCAATCTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
66 TTCAATCTACTCCACTATAGT--CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
171907 AATACA
129 AATACA
*
171913 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCGGC
1 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
* *
171978 TTCAATGTACTCCACTATTGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
66 TTCAATCTACTCCACTATAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
172043 TACA
131 TACA
*
172047 GGAAAGCAAGATCTG-ATATCTTCAA
1 GGAAGGCAAGATCTGCA-ATCTTCAA
172072 CCAGCTCTGC
Statistics
Matches: 152, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
133 1 0.01
134 70 0.46
136 81 0.53
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (134 bp):
GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
TTCAATCTACTCCACTATAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
TACA
Found at i:171951 original size:46 final size:46
Alignment explanation
Indices: 171237--171960 Score: 145
Period size: 44 Copynumber: 16.3 Consensus size: 46
171227 ATCTGCTTCG
* * *
171237 CTGCCCAATACAGGAAGGCAAGATCTGCAATCCTCAATCTATTCCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
* ** *
171283 CTGTCAAATACAGG--GACAAGATCTGCTTTCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* * ** ** *
171327 C--CACTAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTT-CA
1 CTGC-CAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
** * ** * ** *
171372 CCACC-AGTATGGGAAGACAAGATCTG-TATCTTGGATCCACTTCCTA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCC-A
* * * * * *
171418 -T--C-AATATAGGAAGATAGGACCTGCTATCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* ** * *
171460 C-GCC-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGC-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTC-CA
* * ** *
171505 C-ACCAAAT--GGGAAGACAAGATCTGC-ATCTTGGATCCACTTCCTA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCC-A
* * * * * *
171549 -T--C-AATATAGGAAGATAGGACCTGCTATCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* ** * *
171591 C-GCC-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGC-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTC-CA
* * * *
171636 C-ACCAAAT--GGGAAGACAAGATCTGC-ATCTTCGATCCACTT-C-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* * * * * * *
171677 CTACC-AATATAGGAAGATAGGATCTGCTACCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* * ** * *
171722 C-GCC-AATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGC-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTC-CA
* **
171767 C-ACC-AATATGGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
* * * * ** *
171811 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATCTACTCCA
1 CTGCCAAATACAGGAAGACA-AGATCTGCAATCTTCAATCTATTCCA
* * * ** * * * * *
171856 CTG--TAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT-CG
1 CTGCCAAAT-ACAGGAAGACAAGATCTGCAATCTTCAATCT-ATTCCA
*
171901 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
*
171947 CTGCCAGATACAGG
1 CTGCCAAATACAGG
171961 GAGATAGAGT
Statistics
Matches: 524, Mismatches: 109, Indels: 90
0.72 0.15 0.12
Matches are distributed among these distances:
41 8 0.02
42 7 0.01
43 82 0.16
44 220 0.42
45 125 0.24
46 75 0.14
47 7 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
Found at i:172165 original size:86 final size:86
Alignment explanation
Indices: 172019--172368 Score: 547
Period size: 86 Copynumber: 4.1 Consensus size: 86
172009 AAATCTGCCA
* * * *
172019 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
*
172084 CAAATGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* *
172106 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
172171 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
*
172192 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* *
172257 AAATGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
172278 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
172343 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
172364 TCTTC
1 TCTTC
172369 AATTTTTACT
Statistics
Matches: 245, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
86 225 0.92
87 20 0.08
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:172228 original size:42 final size:42
Alignment explanation
Indices: 172094--172314 Score: 116
Period size: 42 Copynumber: 5.2 Consensus size: 42
172084 CAAATGAGAG
*
172094 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
1 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * *
172136 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA
*
172179 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * *
172222 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAAATG-A-GA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTC-AATGCAGGA
*
172265 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
172308 AGGCAAG
1 AGGCAAG
172315 ATCTGATAAC
Statistics
Matches: 124, Mismatches: 35, Indels: 40
0.62 0.18 0.20
Matches are distributed among these distances:
41 28 0.23
42 31 0.25
43 14 0.11
44 23 0.19
45 28 0.23
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (42 bp):
AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
Found at i:176514 original size:19 final size:20
Alignment explanation
Indices: 176490--176533 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
176480 CGTGAAAGTC
* *
176490 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
176509 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
176529 -AATGC
1 TAATGC
176534 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:186283 original size:12 final size:12
Alignment explanation
Indices: 186268--186339 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 12
186258 TCCCTTATTA
186268 TTTATTATTTAT
1 TTTATTATTTAT
*
186280 TTTATTATTAAT
1 TTTATTATTTAT
186292 TTT-TTA-TTAT
1 TTTATTATTTAT
186302 CATTT-TTATTTACAT
1 --TTTATTATTT--AT
*
186317 ATTTATTTTTTATT
1 -TTTATTATTTA-T
186331 TTTATTATT
1 TTTATTATT
186340 GTTTTCTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
10 3 0.06
11 3 0.06
12 20 0.41
13 11 0.22
14 5 0.10
15 7 0.14
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTATTATTTAT
Found at i:186284 original size:19 final size:18
Alignment explanation
Indices: 186262--186336 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
186252 TTCATTTCCC
186262 TTATTATTTATTATTTATT
1 TTATTATTTATT-TTTATT
*
186281 TTATTATTAATTTTTTATT
1 TTATTATTTA-TTTTTATT
* **
186300 ATCATT-TTTATTTACATAT
1 -TTATTATTTATTTTTAT-T
*
186319 TTATTTTTTATTTTTATT
1 TTATTATTTATTTTTATT
186337 ATTGTTTTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
18 10 0.23
19 28 0.64
20 6 0.14
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTATTTATTTTTATT
Found at i:187771 original size:14 final size:14
Alignment explanation
Indices: 187752--187781 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
187742 GTTGCGTTCG
187752 TAGTTAAACTAGAT
1 TAGTTAAACTAGAT
*
187766 TAGTTAAATTAGAT
1 TAGTTAAACTAGAT
187780 TA
1 TA
187782 AAAACAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.40
Consensus pattern (14 bp):
TAGTTAAACTAGAT
Found at i:196952 original size:18 final size:18
Alignment explanation
Indices: 196929--196963 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
196919 GAGAATAATT
196929 TATTAAAAATCATAAAAA
1 TATTAAAAATCATAAAAA
* *
196947 TATTAATAATTATAAAA
1 TATTAAAAATCATAAAA
196964 TACGATTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TATTAAAAATCATAAAAA
Found at i:200804 original size:16 final size:16
Alignment explanation
Indices: 200763--200804 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
200753 TTTTAATGTA
*
200763 TGTTATTTTGTTAAAT
1 TGTTATTTTATTAAAT
200779 TGTTATTTTTATT-AAT
1 TGTTA-TTTTATTAAAT
200795 TGATTATTTT
1 TG-TTATTTT
200805 CTGAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.67
Consensus pattern (16 bp):
TGTTATTTTATTAAAT
Found at i:201168 original size:9 final size:9
Alignment explanation
Indices: 201106--201249 Score: 67
Period size: 9 Copynumber: 15.0 Consensus size: 9
201096 AACTGCCTTG
*
201106 AATTCTTAT
1 AATTTTTAT
201115 AATTTATATAT
1 AATTT-T-TAT
*
201126 ATATTTCTAT
1 A-ATTTTTAT
*
201136 -ATATTCTAT
1 AAT-TTTTAT
201145 AATTTTT-T
1 AATTTTTAT
201153 ATATTTTTAT
1 A-ATTTTTAT
*
201163 AATTTTTCT
1 AATTTTTAT
201172 AATTTTTACT
1 AATTTTTA-T
** *
201182 AAAATTTAA
1 AATTTTTAT
*
201191 ATATTTTTTT
1 A-ATTTTTAT
201201 ATATTTTTAAT
1 A-ATTTTT-AT
* *
201212 AAAATTTAAT
1 -AATTTTTAT
201222 AATTTTTAT
1 AATTTTTAT
*
201231 AAATTTTATT
1 AATTTTTA-T
*
201241 GATTTTTAT
1 AATTTTTAT
201250 TTGTTATCAT
Statistics
Matches: 103, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
8 4 0.04
9 49 0.48
10 36 0.35
11 9 0.09
12 5 0.05
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:201207 original size:30 final size:29
Alignment explanation
Indices: 201161--201238 Score: 95
Period size: 30 Copynumber: 2.7 Consensus size: 29
201151 TTATATTTTT
* *
201161 ATAATTTTTCTAATTTTTACTAAAATTTA
1 ATAATTTTTATAATTTTTAATAAAATTTA
*
201190 A-ATATTTTTTTATATTTTTAATAAAATTTA
1 ATA-ATTTTTATA-ATTTTTAATAAAATTTA
*
201220 ATAATTTTTATAAATTTTA
1 ATAATTTTTATAATTTTTA
201239 TTGATTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 1 0.02
29 15 0.36
30 25 0.60
31 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (29 bp):
ATAATTTTTATAATTTTTAATAAAATTTA
Found at i:201245 original size:19 final size:19
Alignment explanation
Indices: 201203--201249 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
201193 ATTTTTTTAT
201203 ATTTTTAATAAAATTTAATA
1 ATTTTT-ATAAAATTTAATA
* * *
201223 ATTTTTATAAATTTTATTG
1 ATTTTTATAAAATTTAATA
201242 ATTTTTAT
1 ATTTTTAT
201250 TTGTTATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTTATAAAATTTAATA
Found at i:202841 original size:16 final size:16
Alignment explanation
Indices: 202800--202841 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
202790 TTTTAATGTA
*
202800 TGTTATTTTGTTAAAT
1 TGTTATTTTATTAAAT
202816 TGTTATTTTTATT-AAT
1 TGTTA-TTTTATTAAAT
202832 TGATTATTTT
1 TG-TTATTTT
202842 CTGAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.67
Consensus pattern (16 bp):
TGTTATTTTATTAAAT
Found at i:203205 original size:9 final size:9
Alignment explanation
Indices: 203143--203286 Score: 67
Period size: 9 Copynumber: 15.0 Consensus size: 9
203133 AACTGCCTTG
*
203143 AATTCTTAT
1 AATTTTTAT
203152 AATTTATATAT
1 AATTT-T-TAT
*
203163 ATATTTCTAT
1 A-ATTTTTAT
*
203173 -ATATTCTAT
1 AAT-TTTTAT
203182 AATTTTT-T
1 AATTTTTAT
203190 ATATTTTTAT
1 A-ATTTTTAT
*
203200 AATTTTTCT
1 AATTTTTAT
203209 AATTTTTACT
1 AATTTTTA-T
** *
203219 AAAATTTAA
1 AATTTTTAT
*
203228 ATATTTTTTT
1 A-ATTTTTAT
203238 ATATTTTTAAT
1 A-ATTTTT-AT
* *
203249 AAAATTTAAT
1 -AATTTTTAT
203259 AATTTTTAT
1 AATTTTTAT
*
203268 AAATTTTATT
1 AATTTTTA-T
*
203278 GATTTTTAT
1 AATTTTTAT
203287 TTGTTATCAT
Statistics
Matches: 103, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
8 4 0.04
9 49 0.48
10 36 0.35
11 9 0.09
12 5 0.05
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:203244 original size:30 final size:29
Alignment explanation
Indices: 203198--203275 Score: 95
Period size: 30 Copynumber: 2.7 Consensus size: 29
203188 TTATATTTTT
* *
203198 ATAATTTTTCTAATTTTTACTAAAATTTA
1 ATAATTTTTATAATTTTTAATAAAATTTA
*
203227 A-ATATTTTTTTATATTTTTAATAAAATTTA
1 ATA-ATTTTTATA-ATTTTTAATAAAATTTA
*
203257 ATAATTTTTATAAATTTTA
1 ATAATTTTTATAATTTTTA
203276 TTGATTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 1 0.02
29 15 0.36
30 25 0.60
31 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (29 bp):
ATAATTTTTATAATTTTTAATAAAATTTA
Found at i:203282 original size:19 final size:19
Alignment explanation
Indices: 203240--203286 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
203230 ATTTTTTTAT
203240 ATTTTTAATAAAATTTAATA
1 ATTTTT-ATAAAATTTAATA
* * *
203260 ATTTTTATAAATTTTATTG
1 ATTTTTATAAAATTTAATA
203279 ATTTTTAT
1 ATTTTTAT
203287 TTGTTATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTTATAAAATTTAATA
Found at i:204377 original size:10 final size:10
Alignment explanation
Indices: 204343--204385 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
204333 TAAATTCCCA
204343 AAAGATAAAT
1 AAAGATAAAT
* ** *
204353 ACATTTAATT
1 AAAGATAAAT
204363 AAAGATAAAT
1 AAAGATAAAT
204373 AAAGATAAAT
1 AAAGATAAAT
204383 AAA
1 AAA
204386 AAAATCCTAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:204433 original size:15 final size:14
Alignment explanation
Indices: 204412--204447 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
204402 ATAATCCTTA
*
204412 ATAATTATCTTAAT
1 ATAATTATCCTAAT
204426 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
204441 ATAATTA
1 ATAATTA
204448 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:205754 original size:150 final size:150
Alignment explanation
Indices: 205483--205777 Score: 581
Period size: 150 Copynumber: 2.0 Consensus size: 150
205473 GTATCCACTT
205483 TGTATTAAACGTGATCAATTTTACGAAAAGCAAGATAAAGTTGACTCTATGAATCACAATTATTT
1 TGTATTAAACGTGATCAATTTTACGAAAAGCAAGATAAAGTTGACTCTATGAATCACAATTATTT
205548 TTAGTCTCATAAGAATAAAACAGTGGAGATGGCATCAATTATGAAAAATCTGTAATTTTCCCAGA
66 TTAGTCTCATAAGAATAAAACAGTGGAGATGGCATCAATTATGAAAAATCTGTAATTTTCCCAGA
205613 TTTTTACCAATAATTAATTA
131 TTTTTACCAATAATTAATTA
205633 TGTATTAAACGTGATCAATTTTACGAAAAGCAAGATAAAGTTGACTCTATGAATCACAATTATTT
1 TGTATTAAACGTGATCAATTTTACGAAAAGCAAGATAAAGTTGACTCTATGAATCACAATTATTT
205698 TTAGTCTCATAAGAATAAAACAGTGGAGATGGCATCAATTATGAAAAATCTGTAATTTTCCCAGA
66 TTAGTCTCATAAGAATAAAACAGTGGAGATGGCATCAATTATGAAAAATCTGTAATTTTCCCAGA
*
205763 TTTTTATCAATAATT
131 TTTTTACCAATAATT
205778 CTTGGTAAAA
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 144 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (150 bp):
TGTATTAAACGTGATCAATTTTACGAAAAGCAAGATAAAGTTGACTCTATGAATCACAATTATTT
TTAGTCTCATAAGAATAAAACAGTGGAGATGGCATCAATTATGAAAAATCTGTAATTTTCCCAGA
TTTTTACCAATAATTAATTA
Found at i:206231 original size:22 final size:22
Alignment explanation
Indices: 206175--206241 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
206165 ATTAATATCC
206175 AAATAAGTAAAATAAAATAAAAT
1 AAATAA-TAAAATAAAATAAAAT
* *
206198 AAAGTAAT-AAATAAAGTAGAGA-
1 AAA-TAATAAAATAAAATA-AAAT
206220 AAATAATAAAATAAAAATAAAA
1 AAATAATAAAAT-AAAATAAAA
206242 ATTGGGTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
21 4 0.11
22 18 0.50
23 11 0.31
24 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.19
Consensus pattern (22 bp):
AAATAATAAAATAAAATAAAAT
Found at i:211464 original size:27 final size:30
Alignment explanation
Indices: 211419--211483 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 30
211409 TTCTAAAAAA
**
211419 TATAATAATAAAAATTAAAATTAGAAAATG
1 TATAATAATAAAAATTAAAAAGAGAAAATG
*
211449 TATAA-AAT-AAAA-TAAAAAGAGAAAATTT
1 TATAATAATAAAAATTAAAAAGAGAAAA-TG
211477 TATAATA
1 TATAATA
211484 TGGTAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 11 0.37
28 10 0.33
29 4 0.13
30 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (30 bp):
TATAATAATAAAAATTAAAAAGAGAAAATG
Found at i:214260 original size:73 final size:73
Alignment explanation
Indices: 214149--214293 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
214139 ATTAAAATGG
214149 CCAATTTACATGTTTTACGTTCAGGGACTAAATTGAACAAATGTGAAACTTTAAGGGTAAATTTG
1 CCAATTTACATGTTTTACGTTCAGGGACTAAATTGAACAAATGTGAAACTTTAAGGGTAAATTTG
214214 TAAAAATA
66 TAAAAATA
*
214222 CCAATTTACATGTTTTAGGTTCAGGGACTAAATTGAACAAATGTGAAACTTTAAGGGTAAATTTG
1 CCAATTTACATGTTTTACGTTCAGGGACTAAATTGAACAAATGTGAAACTTTAAGGGTAAATTTG
214287 TAAAAAT
66 TAAAAAT
214294 GTCAAAAAGT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.33
Consensus pattern (73 bp):
CCAATTTACATGTTTTACGTTCAGGGACTAAATTGAACAAATGTGAAACTTTAAGGGTAAATTTG
TAAAAATA
Found at i:214790 original size:15 final size:15
Alignment explanation
Indices: 214770--214826 Score: 87
Period size: 15 Copynumber: 3.8 Consensus size: 15
214760 TGAATGCTTG
*
214770 ATGGAATGAAATGCT
1 ATGGAATGAAATGGT
214785 ATGGAATGAAATGGT
1 ATGGAATGAAATGGT
* *
214800 ATGGAATGGAATGGA
1 ATGGAATGAAATGGT
214815 ATGGAATGAAAT
1 ATGGAATGAAAT
214827 AAAATAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.42, C:0.02, G:0.32, T:0.25
Consensus pattern (15 bp):
ATGGAATGAAATGGT
Found at i:214797 original size:5 final size:5
Alignment explanation
Indices: 214770--214822 Score: 61
Period size: 5 Copynumber: 10.6 Consensus size: 5
214760 TGAATGCTTG
* ** * *
214770 ATGGA ATGAA ATGCT ATGGA ATGAA ATGGT ATGGA ATGGA ATGGA ATGGA
1 ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA
214820 ATG
1 ATG
214823 AAATAAAATA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.40, C:0.02, G:0.34, T:0.25
Consensus pattern (5 bp):
ATGGA
Found at i:217148 original size:34 final size:34
Alignment explanation
Indices: 217108--217177 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
217098 AGATGAAAGA
217108 TTAAATTTTTCATAGTTTCATCACATAAAGATTT
1 TTAAATTTTTCATAGTTTCATCACATAAAGATTT
217142 TTAAATTTTTCATAGTTTCATCACATAAAGATTT
1 TTAAATTTTTCATAGTTTCATCACATAAAGATTT
217176 TT
1 TT
217178 TTTTTCCTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (34 bp):
TTAAATTTTTCATAGTTTCATCACATAAAGATTT
Found at i:218178 original size:34 final size:34
Alignment explanation
Indices: 218138--218207 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
218128 AGATGAAAGA
218138 TTAAATTTTTCATAGTTTCATCACATAAAGATTT
1 TTAAATTTTTCATAGTTTCATCACATAAAGATTT
218172 TTAAATTTTTCATAGTTTCATCACATAAAGATTT
1 TTAAATTTTTCATAGTTTCATCACATAAAGATTT
218206 TT
1 TT
218208 TTTTTCCTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (34 bp):
TTAAATTTTTCATAGTTTCATCACATAAAGATTT
Found at i:218526 original size:6 final size:6
Alignment explanation
Indices: 218517--218546 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
218507 AAAGCAAAAG
218517 CACTGC CACTGC CACTGC CACTGC CACTGC
1 CACTGC CACTGC CACTGC CACTGC CACTGC
218547 AACAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.17
Consensus pattern (6 bp):
CACTGC
Found at i:223286 original size:20 final size:20
Alignment explanation
Indices: 223261--223300 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
223251 AATATTTTTC
*
223261 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
223281 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
223301 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:223302 original size:34 final size:35
Alignment explanation
Indices: 223249--223315 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
223239 CAAACACCAG
* *
223249 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
223284 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
223316 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:223307 original size:14 final size:14
Alignment explanation
Indices: 223284--223323 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
223274 ACAGAAAAGT
*
223284 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
223298 AAATCATTTTACGG
1 AAAACATTTTACAG
223312 AAAACATTTTAC
1 AAAACATTTTAC
223324 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:226972 original size:23 final size:20
Alignment explanation
Indices: 226938--226983 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
226928 AGCAGGAGAA
*
226938 TTTTAAAGCACAACAATTTTTT
1 TTTTAAACCAC-A-AATTTTTT
226960 TTTTGAAACCACAAATTTTTT
1 TTTT-AAACCACAAATTTTTT
226981 TTT
1 TTT
226984 AAATACAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 5 0.23
23 6 0.27
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTTAAACCACAAATTTTTT
Found at i:227081 original size:20 final size:18
Alignment explanation
Indices: 227033--227085 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
227023 AAAATGAAAA
227033 TTTTGAAACACGAGATTTT
1 TTTTGAAACACGA-ATTTT
**
227052 TTAGGAAACACGAATTTTCT
1 TTTTGAAACACGAA-TTT-T
227072 TTTTGAAACACGAA
1 TTTTGAAACACGAA
227086 AATTTTTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 1 0.04
19 14 0.50
20 13 0.46
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (18 bp):
TTTTGAAACACGAATTTT
Found at i:227104 original size:17 final size:17
Alignment explanation
Indices: 227071--227104 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
227061 ACGAATTTTC
* *
227071 TTTTTGAAACACGAAAA
1 TTTTTCAAACACAAAAA
227088 TTTTTCAAACACAAAAA
1 TTTTTCAAACACAAAAA
227105 AAAATTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (17 bp):
TTTTTCAAACACAAAAA
Found at i:227218 original size:18 final size:17
Alignment explanation
Indices: 227158--227407 Score: 119
Period size: 17 Copynumber: 13.8 Consensus size: 17
227148 GAGGATTTTT
227158 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
227175 TTTATGAAACACGGTCAATT
1 TTTTTGAAACAC-G--AAAA
227195 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* ** *
227213 TTTTTGAAAGACGGGAT
1 TTTTTGAAACACGAAAA
*
227230 TTTTTGAAAACACAAAAA
1 TTTTTG-AAACACGAAAA
* *
227248 TTTATGAAACACGAAATTTTTT
1 TTTTTGAAACACGAAA-----A
*
227270 TTTTTGAAAACAAGAAAA
1 TTTTTG-AAACACGAAAA
* * * *
227288 TTTTCGAAATATG-AGA
1 TTTTTGAAACACGAAAA
* *
227304 CTTTTGAAAACAAGGAAAA
1 TTTTTG-AAAC-ACGAAAA
*
227323 TTTTTTGAAAACACGACAA
1 -TTTTTG-AAACACGAAAA
*
227342 TTTTTGAAACACTG-GAA
1 TTTTTGAAACAC-GAAAA
*
227359 -TTTTGAAAACACGAAGA
1 TTTTTG-AAACACGAAAA
*
227376 TTTTTGAAATACGAAAA
1 TTTTTGAAACACGAAAA
227393 TTTTTTGAAAACACG
1 -TTTTTG-AAACACG
227408 GAAACATGAA
Statistics
Matches: 173, Mismatches: 39, Indels: 40
0.69 0.15 0.16
Matches are distributed among these distances:
16 12 0.07
17 65 0.38
18 45 0.26
19 13 0.08
20 18 0.10
21 6 0.03
22 5 0.03
23 9 0.05
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:227241 original size:73 final size:73
Alignment explanation
Indices: 227157--227296 Score: 192
Period size: 75 Copynumber: 1.9 Consensus size: 73
227147 CGAGGATTTT
* * * *
227157 TTTTTTGAAACACGAAAATTTATGAAACACG-GTCAATTTTTTTGAAAACACGAAAATTTTTGAA
1 TTTTTTGAAACACAAAAATTTATGAAACACGAATCAATTTTTTTGAAAACAAGAAAATTTTCGAA
227221 AGACGGGA
66 AGACGGGA
***
227229 TTTTTTGAAAACACAAAAATTTATGAAACACGAAATTTTTTTTTTTGAAAACAAGAAAATTTTCG
1 TTTTTTG-AAACACAAAAATTTATGAAACACG-AATCAATTTTTTTGAAAACAAGAAAATTTTCG
227294 AAA
64 AAA
227297 TATGAGACTT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
72 7 0.12
73 23 0.40
75 28 0.48
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (73 bp):
TTTTTTGAAACACAAAAATTTATGAAACACGAATCAATTTTTTTGAAAACAAGAAAATTTTCGAA
AGACGGGA
Found at i:227267 original size:35 final size:35
Alignment explanation
Indices: 227157--227269 Score: 138
Period size: 35 Copynumber: 3.2 Consensus size: 35
227147 CGAGGATTTT
*
227157 TTTTTTG-AAACACGAAAATTTATGAAACACGGTCAAT
1 TTTTTTGAAAACACGAAAATTTATGAAACAC-G--AAA
* * **
227194 TTTTTTGAAAACACGAAAATTTTTGAAAGACGGGA
1 TTTTTTGAAAACACGAAAATTTATGAAACACGAAA
*
227229 TTTTTTGAAAACACAAAAATTTATGAAACACGAAA
1 TTTTTTGAAAACACGAAAATTTATGAAACACGAAA
227264 TTTTTT
1 TTTTTT
227270 TTTTTGAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
35 36 0.55
37 8 0.12
38 21 0.32
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (35 bp):
TTTTTTGAAAACACGAAAATTTATGAAACACGAAA
Found at i:227323 original size:75 final size:78
Alignment explanation
Indices: 227193--227346 Score: 192
Period size: 75 Copynumber: 2.0 Consensus size: 78
227183 ACACGGTCAA
* * * *
227193 TTTTTTTGAAAACACGAAAATTTTTGAAAGACGGGATTTTTTGAAAACACAAAAA-TTTATG-AA
1 TTTTTTTGAAAACAAGAAAATTTTCGAAAGACGAGATCTTTTGAAAACACAAAAATTTTATGAAA
227256 ACACGA-AATTTT
66 ACACGACAATTTT
* * *
227268 TTTTTTTGAAAACAAGAAAATTTTCGAAATATGAGA-CTTTTGAAAACA-AGGAAAATTTTTTGA
1 TTTTTTTGAAAACAAGAAAATTTTCGAAAGACGAGATCTTTTGAAAACACA--AAAATTTTATGA
227331 AAACACGACAATTTT
64 AAACACGACAATTTT
227346 T
1 T
227347 GAAACACTGG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
73 1 0.01
74 11 0.16
75 35 0.52
76 5 0.07
77 8 0.12
78 7 0.10
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (78 bp):
TTTTTTTGAAAACAAGAAAATTTTCGAAAGACGAGATCTTTTGAAAACACAAAAATTTTATGAAA
ACACGACAATTTT
Found at i:227664 original size:18 final size:17
Alignment explanation
Indices: 227623--227671 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
227613 TATTATTATT
227623 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGAGAA
*
227640 ATTTTGAAGACATGA-AA
1 ATTTTGAA-ACACGAGAA
227657 ATTTTTGAAACACGA
1 A-TTTTGAAACACGA
227672 TTTTTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (17 bp):
ATTTTGAAACACGAGAA
Found at i:228263 original size:19 final size:19
Alignment explanation
Indices: 228239--228278 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
228229 CTGCTGTTCT
228239 AGGCTTGCTGGACTGGGTC
1 AGGCTTGCTGGACTGGGTC
*
228258 AGGCTTGTTGGACTGGGTC
1 AGGCTTGCTGGACTGGGTC
228277 AG
1 AG
228279 ACTTATTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.17, G:0.42, T:0.28
Consensus pattern (19 bp):
AGGCTTGCTGGACTGGGTC
Found at i:228287 original size:19 final size:19
Alignment explanation
Indices: 228247--228287 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
228237 CTAGGCTTGC
* *
228247 TGGACTGGGTCAGGCTTGT
1 TGGACTGGGTCAGACTTAT
228266 TGGACTGGGTCAGACTTAT
1 TGGACTGGGTCAGACTTAT
228285 TGG
1 TGG
228288 GCTTGGACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.39, T:0.32
Consensus pattern (19 bp):
TGGACTGGGTCAGACTTAT
Found at i:228345 original size:19 final size:20
Alignment explanation
Indices: 228313--228351 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
228303 CTGGGTTTTT
*
228313 TTTTTTTTGCTGTTGCTTGCC
1 TTTTTTTT-CTGTTGATTGCC
228334 TTTTTTTT-TGTTGATTGC
1 TTTTTTTTCTGTTGATTGC
228352 TGTTTTGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.03, C:0.13, G:0.18, T:0.67
Consensus pattern (20 bp):
TTTTTTTTCTGTTGATTGCC
Found at i:228495 original size:19 final size:20
Alignment explanation
Indices: 228471--228513 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
228461 AGCTTTTTAT
228471 TTTTTTCTCTTTTTC-TTCC
1 TTTTTTCTCTTTTTCTTTCC
*
228490 TTTTTTTTCTTTTTCTTTCC
1 TTTTTTCTCTTTTTCTTTCC
228510 TTTT
1 TTTT
228514 CACCTTGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTCTCTTTTTCTTTCC
Found at i:228495 original size:20 final size:20
Alignment explanation
Indices: 228470--228513 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
228460 TAGCTTTTTA
228470 TTTTTTTCTCTTTTTC-TTCC
1 TTTTTTT-TCTTTTTCTTTCC
228490 TTTTTTTTCTTTTTCTTTCC
1 TTTTTTTTCTTTTTCTTTCC
228510 TTTT
1 TTTT
228514 CACCTTGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTTTCTTTTTCTTTCC
Found at i:229143 original size:30 final size:29
Alignment explanation
Indices: 229105--229204 Score: 128
Period size: 30 Copynumber: 3.3 Consensus size: 29
229095 ATGGGGCTAC
* *
229105 AATGTAATTTCTAGAAAGTTAAGGGGTCAA
1 AATGTAATTTATAGAAAGTT-TGGGGTCAA
* * *
229135 AGTGTAATTTAAAGAAAATTTTGGGGTCAA
1 AATGTAATTTATAG-AAAGTTTGGGGTCAA
229165 AATGTAATTTATAGAAAAGTTTGGGGTCAA
1 AATGTAATTTATAG-AAAGTTTGGGGTCAA
229195 AATGTAATTT
1 AATGTAATTT
229205 TTGAAAAGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 56 0.92
31 5 0.08
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (29 bp):
AATGTAATTTATAGAAAGTTTGGGGTCAA
Found at i:229227 original size:30 final size:30
Alignment explanation
Indices: 229105--229236 Score: 126
Period size: 30 Copynumber: 4.4 Consensus size: 30
229095 ATGGGGCTAC
* *
229105 AATGTAATTTCTAG-AAAGTTAAGGGGTCAA
1 AATGTAATTTATAGAAAAG-TCAGGGGTCAA
* * * **
229135 AGTGTAATTTAAAGAAAATTTTGGGGTCAA
1 AATGTAATTTATAGAAAAGTCAGGGGTCAA
**
229165 AATGTAATTTATAGAAAAGTTTGGGGTCAA
1 AATGTAATTTATAGAAAAGTCAGGGGTCAA
*
229195 AATGTAATTT-TTGAAAAGATCAGGGG-CTAA
1 AATGTAATTTATAGAAAAG-TCAGGGGTC-AA
229225 AATGTAATTTAT
1 AATGTAATTTAT
229237 GTTTTTTTTG
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
29 8 0.09
30 74 0.86
31 4 0.05
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (30 bp):
AATGTAATTTATAGAAAAGTCAGGGGTCAA
Found at i:229227 original size:60 final size:60
Alignment explanation
Indices: 229097--229236 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 60
229087 AGGAAAATAT
* * * * **
229097 GGGGCTACAATGTAATTTCTAGAAAGTTAAGGGGTCAAAGTGTAATTTAAAGAAAATTTT
1 GGGGCTAAAATGTAATTTATAGAAAGTTAAGGGGTCAAAATGTAATTTAAAGAAAAATCA
* **
229157 GGGG-TCAAAATGTAATTTATAGAAAAGTT-TGGGGTCAAAATGTAATTT-TTGAAAAGATCA
1 GGGGCT-AAAATGTAATTTATAG-AAAGTTAAGGGGTCAAAATGTAATTTAAAGAAAA-ATCA
229217 GGGGCTAAAATGTAATTTAT
1 GGGGCTAAAATGTAATTTAT
229237 GTTTTTTTTG
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
59 6 0.09
60 54 0.81
61 7 0.10
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.32
Consensus pattern (60 bp):
GGGGCTAAAATGTAATTTATAGAAAGTTAAGGGGTCAAAATGTAATTTAAAGAAAAATCA
Found at i:229694 original size:78 final size:76
Alignment explanation
Indices: 229603--230630 Score: 196
Period size: 76 Copynumber: 13.2 Consensus size: 76
229593 TGAAAAATAG
* * *
229603 AAATTGAAGAATACCTCGGCATATGAC-CTAAGACTCAACTCACATCTTGCAATATGAGTTGATT
1 AAATTGAAAAATACCTC-G-ACATGACTC-AAGACTCAACTCACATCTCGCAATATGAGTTGATT
229667 TTTGTGAAAACCAA
63 TTTGTGAAAACCAA
* * * *
229681 AAATTGAAAAATACCTCGACGTGACTCAAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAAATACCTCGACATGACTCAAGACTCAACTCACATCTCGCAATATGAGTTGATTTTT
* *********
229746 TTTTCCTTTTT
66 GTGAAAACCAA
*** * ** * * * * *
229757 CTTTTGAAAAACAGAAATTGAAAAAT-ACCTCAGGATGACCCGAGGCTCAACCCACCTCTCGCAT
1 AAATTG-AAAA-ATACCTCG--ACATGA-CTCA--A-GACTC-A-ACTC-A--CA--TCTCGCAA
* * *
229821 TATGAGTTGATTTTTTTGAAAAACAG
51 TATGAGTTGATTTTTGTGAAAACCAA
* * * * *
229847 AAATTGAAAAATACCTC-AGGATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAAATACCTCGA-CATGACTCAAGACTCAACTCACATCTCGCAATATGAGTTGATTTT
** *
229911 TGAAAAAAACAGA
65 TGTGAAAACCA-A
* * * * * * * * *
229924 AATTTAAAAAAAAATACCTC-AGCGTGACCCGATG-CTCAACTCACCTCTCGTATTATTAGTTGA
1 AAATT---GAAAAATACCTCGA-CATGACTC-AAGACTCAACTCACATCTCGCAATATGAGTTGA
** **
229987 TTTTTGAAAAAAACGGA
61 TTTTTG-TGAAAACCAA
* * * * * * * * *
230004 AATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-TT
1 AAATT-GAA-AAATACCTCGACATGACTCAAGACTCAACTCACATCTCGCAATATGAGTTGATTT
*
230067 TT-TGAAAAACAA
64 TTGTGAAAACCAA
* * * * * * *
230079 AAATTTGAAAGAAATACCCCTG-CATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-
1 AAA-TTG-AA-AAATACCTC-GACATGACTCAAGACTCAACTCACATCTCGCAATATGAGTTGAT
*
230141 TTTT-TGAAAAACAA
62 TTTTGTGAAAACCAA
* * * * * * *
230155 AAATTTGAAAGAAATACCCCTG-CATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-
1 AAA-TTG-AA-AAATACCTC-GACATGACTCAAGACTCAACTCACATCTCGCAATATGAGTTGAT
*
230217 TTTT-TGAAAAACAGA
62 TTTTGTGAAAACCA-A
* * * * * * * * *
230232 AATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTT
1 AAATT-GAA-AAATACCTCGACATGACTCAAGACTCAACTCACATCTCGCAATATGAGTTGATTT
** **
230296 TTGAAAAAACGGA
64 TTGTGAAAACCAA
* * * * * * * * * *
230309 AATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCTCCTCT-GTATTATGAGTTGATTT
1 AAATT-GAA-AAATACCTCGACATGACTCAAGACTCAACTCACATCTCGCAATATGAGTTGA-TT
* **
230373 TTTTTGAAAAACGGA
63 TTTGTG-AAAACCAA
* * * * * ** * * *
230388 AATTTAAAAGAAATACCTCGGCATGACCCGAGGTTCAACTCACCTCT-GTATTATGAGTTGATTT
1 AAATT-GAA-AAATACCTCGACATGACTCAAGACTCAACTCACATCTCGCAATATGAGTTGATTT
* **
230452 TTG-AAAAACTGA
64 TTGTGAAAACCAA
* * * * * * *
230464 AATTTGAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGGCAATATGAGTTGA-TT
1 AAATTG-AA-AAATACCTCGACATGACTCAAGACTCAACTCACATCTCGCAATATGAGTTGATTT
*
230528 TT-TGAAAAACATA
64 TTGTGAAAACCA-A
* * * * * * *
230541 AATTTAAAAGAAATACCTCGGCATGACCCGAAG-CTCAACTCACCTCT-GTATTATGAGTTGATT
1 AAATT-GAA-AAATACCTCGACATGACTC-AAGACTCAACTCACATCTCGCAATATGAGTTGATT
** * *
230604 TTTGAAAAAAACAG
63 TTTGTGAAAACCAA
*
230618 AGATTGAAAAATA
1 AAATTGAAAAATA
230631 TTTCTTGAAA
Statistics
Matches: 785, Mismatches: 120, Indels: 93
0.79 0.12 0.09
Matches are distributed among these distances:
75 13 0.02
76 340 0.43
77 144 0.18
78 62 0.08
79 98 0.12
80 64 0.08
81 10 0.01
82 2 0.00
83 6 0.01
84 2 0.00
85 3 0.00
86 5 0.01
87 1 0.00
88 4 0.01
89 4 0.01
90 27 0.03
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (76 bp):
AAATTGAAAAATACCTCGACATGACTCAAGACTCAACTCACATCTCGCAATATGAGTTGATTTTT
GTGAAAACCAA
Found at i:229779 original size:90 final size:90
Alignment explanation
Indices: 229671--229837 Score: 246
Period size: 90 Copynumber: 1.9 Consensus size: 90
229661 TTGATTTTTG
* * **
229671 TGAAAACCAAAAATTGAAAAATACCTCGACG-TGACTCAAGGCTCAACTTACCTCTCGCAATATG
1 TGAAAAACAAAAATTGAAAAATACCTC-ACGATGACCCAAGGCTCAACCCACCTCTCGCAATATG
229735 AGTTGATTTTTTTTTCCTTTTTCTTT
65 AGTTGATTTTTTTTTCCTTTTTCTTT
* * * *
229761 TGAAAAACAGAAATTGAAAAATACCTCAGGATGACCCGAGGCTCAACCCACCTCTCGCATTATGA
1 TGAAAAACAAAAATTGAAAAATACCTCACGATGACCCAAGGCTCAACCCACCTCTCGCAATATGA
229826 GTTGATTTTTTT
66 GTTGATTTTTTT
229838 GAAAAACAGA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
89 2 0.03
90 66 0.97
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (90 bp):
TGAAAAACAAAAATTGAAAAATACCTCACGATGACCCAAGGCTCAACCCACCTCTCGCAATATGA
GTTGATTTTTTTTTCCTTTTTCTTT
Found at i:229838 original size:76 final size:76
Alignment explanation
Indices: 229758--230612 Score: 1231
Period size: 76 Copynumber: 11.1 Consensus size: 76
229748 TTCCTTTTTC
* * *
229758 TTTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGG-ATGACCCGAGGCTCAACCCACCTCTCGC
1 TTTTGAAAAACAGAAATTTAAAAGAAATACCTC-GGCATGACCCGAGGCTCAACTCACCTCT-GT
229819 ATTATGAGTTGATTT
64 ATTATGAGTTGA--T
* *
229834 TTTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGG-ATGACCCGAGGCTCAACTCACCTCTCGC
1 TTTTGAAAAACAGAAATTTAAAAGAAATACCTC-GGCATGACCCGAGGCTCAACTCACCTCT-GT
*
229895 AATATGAGTTGAT
64 ATTATGAGTTGAT
* * * *
229908 TTTTGAAAAAAACAGAAATTTAAAAAAAAATACCTCAGCGTGACCCGATGCTCAACTCACCTCTC
1 TTTTG--AAAAACAGAAATTT-AAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-
*
229973 GTATTATTAGTTGAT
62 GTATTATGAGTTGAT
*
229988 TTTTGAAAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGT
1 TTTTG--AAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGT
230053 ATTATGAGTTGAT
64 ATTATGAGTTGAT
* * * *
230066 TTTTGAAAAACAAAAATTTGAAAGAAATACCCCTGCATGACCCGAGGCTCAACTCACCTCTGTAT
1 TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTAT
230131 TATGAGTTGAT
66 TATGAGTTGAT
* * * *
230142 TTTTGAAAAACAAAAATTTGAAAGAAATACCCCTGCATGACCCGAGGCTCAACTCACCTCTGTAT
1 TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTAT
230207 TATGAGTTGAT
66 TATGAGTTGAT
230218 TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTAT
1 TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTAT
230283 TATGAGTTGAT
66 TATGAGTTGAT
* *
230294 TTTTGAAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCTCCTCTGTA
1 TTTTG-AAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTA
230359 TTATGAGTTGATTTT
65 TTATGAGTTGA---T
* *
230374 TTTTGAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGTTCAACTCACCTCTGTAT
1 TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTAT
230439 TATGAGTTGAT
66 TATGAGTTGAT
* * *
230450 TTTTGAAAAACTGAAATTTGAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGGCA
1 TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTA
*
230515 ATATGAGTTGAT
65 TTATGAGTTGAT
* *
230527 TTTTGAAAAACATAAATTTAAAAGAAATACCTCGGCATGACCCGAAGCTCAACTCACCTCTGTAT
1 TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTAT
230592 TATGAGTTGAT
66 TATGAGTTGAT
230603 TTTTGAAAAA
1 TTTTGAAAAA
230613 AACAGAGATT
Statistics
Matches: 728, Mismatches: 39, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
74 6 0.01
76 383 0.53
77 140 0.19
78 19 0.03
79 109 0.15
80 71 0.10
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (76 bp):
TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTAT
TATGAGTTGAT
Found at i:229881 original size:166 final size:166
Alignment explanation
Indices: 229591--229911 Score: 448
Period size: 166 Copynumber: 1.9 Consensus size: 166
229581 CGAGTTGAGC
* * * * *
229591 TTTGAAAAATAGAAATTGAAGAATACCTCGGCATATGACCTAAGACTCAACTCACATCTTGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCGG-A-ATGACCCAAGACTCAACCCACATCTCGCAAT
* * *
229656 ATGAGTTGATTTTTGTGAAAACCAAAAATTGAAAAATACCTCGACGTGACTCAAGGCTCAACTTA
64 ATGAGTTGATTTTTGTGAAAAACAAAAATTGAAAAATACCTCGACGTGACCCAAGGCTCAACTCA
229721 CCTCTCGCAATATGAGTTGATTTTTTTTTCCTTTTTCT
129 CCTCTCGCAATATGAGTTGATTTTTTTTTCCTTTTTCT
* * * *
229759 TTTGAAAAACAGAAATTGAAAAATACCTCAGG-ATGACCCGAGGCTCAACCCACCTCTCGCATTA
1 TTTGAAAAACAGAAATTGAAAAATACCTC-GGAATGACCCAAGACTCAACCCACATCTCGCAATA
* * * *
229823 TGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC-AGGATGACCCGAGGCTCAACTCA
65 TGAGTTGATTTTTGTGAAAAACAAAAATTGAAAAATACCTCGACG-TGACCCAAGGCTCAACTCA
229887 CCTCTCGCAATATGAGTTGATTTTT
129 CCTCTCGCAATATGAGTTGATTTTT
229912 GAAAAAAACA
Statistics
Matches: 135, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
165 2 0.01
166 104 0.77
168 27 0.20
169 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (166 bp):
TTTGAAAAACAGAAATTGAAAAATACCTCGGAATGACCCAAGACTCAACCCACATCTCGCAATAT
GAGTTGATTTTTGTGAAAAACAAAAATTGAAAAATACCTCGACGTGACCCAAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTTTTTCCTTTTTCT
Found at i:230349 original size:384 final size:385
Alignment explanation
Indices: 229758--230630 Score: 1305
Period size: 384 Copynumber: 2.3 Consensus size: 385
229748 TTCCTTTTTC
* * * *
229758 TTTTGAAAAACAGAAA-TTG-AA-AAATACCTCAGGATGACCCGAGGCTCAACCCACCTCTCGCA
1 TTTTGAAAAACAAAAATTTGAAAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCT-GTA
*
229820 TTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGACCCGAGGCTCAACT
65 TTATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAAATACCTCAGGATGACCCGAGGCTCAACT
*
229885 CACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAAAAATACCTCAGCGTG
128 CACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAAAAATACCTCAGCATG
* *
229950 ACCCGATGCTCAACTCACCTCTCGTATTATTAGTTGA-TTTTTGAAAAAAACGGAAATTTAAAAG
193 ACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAAACGGAAATTTAAAAG
230014 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAA
257 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAA
* * *
230079 AAATTTGAAAGAAATACCCCTGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGAT
322 AAATTTGAAAGAAATACCCCGGCATGACCCGAGGCTCAACTCACCTCTGGCAATATGAGTTGAT
* *
230142 TTTTGAAAAACAAAAATTTGAAAGAAATACCCCTGCATGACCCGAGGCTCAACTCACCTCTGTAT
1 TTTTGAAAAACAAAAATTTGAAAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTAT
230207 TATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTC-GGCATGACCCGAGGCTCAAC
66 TATGAGTTGATTTTTGAAAAACAGAAA-TT-AAA-AAATACCTCAGG-ATGACCCGAGGCTCAAC
* * * * *
230271 TCACCTCT-GTATTATGAGTTGATTTTTG-AAAAAACGGAAATTT-AAAAGAAATACCTCGGCAT
127 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAAAAATACCTCAGCAT
* ***
230333 GACCCGAGGCTCAACTCTCCTCTGTATTATGAGTTGATTTTTTTTGAAAAACGGAAATTTAAAAG
192 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAACGGAAATTTAAAAG
* **
230398 AAATACCTCGGCATGACCCGAGGTTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACTG
257 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAA
*
230463 AAATTTGAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGGCAATATGAGTTGAT
322 AAATTTGAAAGAAATACCCCGGCATGACCCGAGGCTCAACTCACCTCTGGCAATATGAGTTGAT
* * * *
230527 TTTTGAAAAACATAAATTTAAAAGAAATACCTCGGCATGACCCGAAGCTCAACTCACCTCTGTAT
1 TTTTGAAAAACAAAAATTTGAAAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTAT
* *
230592 TATGAGTTGATTTTTGAAAAAAACAGAGATTGAAAAATA
66 TATGAGTTGATTTTTG--AAAAACAGAAATTAAAAAATA
230631 TTTCTTGAAA
Statistics
Matches: 445, Mismatches: 33, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
383 13 0.03
384 206 0.46
385 110 0.25
386 39 0.09
387 77 0.17
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (385 bp):
TTTTGAAAAACAAAAATTTGAAAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTAT
TATGAGTTGATTTTTGAAAAACAGAAATTAAAAAATACCTCAGGATGACCCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAAAAATACCTCAGCATGACC
CGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAACGGAAATTTAAAAGAAAT
ACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAAAAAT
TTGAAAGAAATACCCCGGCATGACCCGAGGCTCAACTCACCTCTGGCAATATGAGTTGAT
Found at i:230459 original size:232 final size:231
Alignment explanation
Indices: 229758--230606 Score: 1209
Period size: 232 Copynumber: 3.7 Consensus size: 231
229748 TTCCTTTTTC
* *
229758 TTTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGG-ATGACCCGAGGCTCAACCCACCTCTCGC
1 TTTTGAAAAACAGAAATTTAAAAGAAATACCTC-GGCATGACCCGAGGCTCAACTCACCTCTCGC
*
229819 ATTATGAGTTGATTTTTTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGG-ATGACCCGAGGCT
65 ATTATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAGAAATACCTC-GGCATGACCCGAGGCT
* * *** *
229880 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAAAAATACCTCA
127 CAACTCACCTCT-GTATTATGAGTTGATTTTTTTGAAAAACAGAAATTT-AAAAGAAATACCTCA
* * *
229945 GCGTGACCCGATGCTCAACTCACCTCTCGTATTATTAGTTGAT
190 GCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGAT
*
229988 TTTTGAAAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-G
1 TTTTG--AAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCG
* * * * *
230052 TATTATGAGTTGATTTTTGAAAAACAAAAATTTGAAAGAAATACCCCTGCATGACCCGAGGCTCA
64 CATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCA
* * * *
230117 ACTCACCTCTGTATTATGAGTTGA--TTTTTGAAAAACAAAAATTTGAAAGAAATACCCCTGCAT
129 ACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCAT
230180 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAT
194 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAT
*
230218 TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTA
1 TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCA
*
230282 TTATGAGTTGATTTTTGAAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAA
66 TTATGAGTTGATTTTTG-AAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAA
* * *
230347 CTCTCCTCTGTATTATGAGTTGATTTTTTTTGAAAAACGGAAATTTAAAAGAAATACCTCGGCAT
130 CTCACCTCTGTATTATGAGTTGA-TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCAT
*
230412 GACCCGAGGTTCAACTCACCTCTGTATTATGAGTTGAT
194 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAT
* * *
230450 TTTTGAAAAACTGAAATTTGAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGGCA
1 TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCA
* * *
230515 ATATGAGTTGATTTTTGAAAAACATAAATTTAAAAGAAATACCTCGGCATGACCCGAAGCTCAAC
66 TTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAAC
230580 TCACCTCTGTATTATGAGTTGATTTTT
131 TCACCTCTGTATTATGAGTTGATTTTT
230607 GAAAAAAACA
Statistics
Matches: 562, Mismatches: 42, Indels: 29
0.89 0.07 0.05
Matches are distributed among these distances:
228 75 0.13
229 64 0.11
230 24 0.04
231 41 0.07
232 238 0.42
233 22 0.04
234 32 0.06
235 66 0.12
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (231 bp):
TTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCA
TTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAAC
TCACCTCTGTATTATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCATGA
CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAT
Done.