Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 289 of 356
Found at i:94059460 original size:55 final size:54
Alignment explanation
Indices: 94059396--94059575 Score: 270
Period size: 55 Copynumber: 3.3 Consensus size: 54
94059386 TAAATTGTGC
94059396 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
*
94059451 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * * *
94059506 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAAT-TGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
94059561 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
94059576 GACTTAATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
54 1 0.01
55 88 0.76
56 27 0.23
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:94059511 original size:83 final size:82
Alignment explanation
Indices: 94059396--94059575 Score: 288
Period size: 83 Copynumber: 2.2 Consensus size: 82
94059386 TAAATTGTGC
*
94059396 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
* *
94059461 GTGCGAGTTTGACTATGT
66 GTGCGAG-CTGACTATAT
* *
94059479 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
*
94059544 GTGCGAGCTGATTATAT
66 GTGCGAGCTGACTATAT
*
94059561 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
94059576 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 21 0.23
83 69 0.77
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
GTGCGAGCTGACTATAT
Found at i:94067447 original size:28 final size:27
Alignment explanation
Indices: 94067390--94067541 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
94067380 TAAATTGTGC
*
94067390 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
94067417 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
94067445 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
94067472 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* * *
94067500 AGCACTAAGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
94067527 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
94067542 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:94067454 original size:55 final size:55
Alignment explanation
Indices: 94067390--94067541 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
94067380 TAAATTGTGC
* *
94067390 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGT
*
94067445 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * * *
94067500 AGCACTAAGTGTGCGAGCTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
94067542 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:94076738 original size:40 final size:40
Alignment explanation
Indices: 94076676--94076973 Score: 374
Period size: 40 Copynumber: 7.5 Consensus size: 40
94076666 AAACCAAGTA
* * * *
94076676 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
** *
94076715 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
94076755 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
94076795 CCTTCGGGACTTAGCCCGGA-ATTAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
94076835 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
94076875 CCTTCGGGACTTAGCTCGGA-ATTAGTAACTCGCA-ACAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA-AATG
* * * *
94076915 CCTTCGGGACTTAGCCC-GAAATTTGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
94076955 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
94076974 TTATCATCCG
Statistics
Matches: 230, Mismatches: 20, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
39 18 0.08
40 209 0.91
41 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:94076903 original size:120 final size:120
Alignment explanation
Indices: 94076711--94076973 Score: 413
Period size: 120 Copynumber: 2.2 Consensus size: 120
94076701 TACTCGCTCG
** *
94076711 AATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGGACAAATGCCTTCGGGACTTAGCCCGGAA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
* * *
94076776 ATAGTAACTCGC-ACAAATGCCTTCGGGACTTAGCCCGGAATTAGT-AGTTCGCACA
66 ATAGTAACTCGCAAC-AATGCCTTCGGGACTTAGCCCGAAATTAGTCA-CTAGCACA
*
94076831 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCTCGGAA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
* *
94076896 TTAGTAACTCGCAACAATGCCTTCGGGACTTAGCCCGAAATTTGTCACTAGCACA
66 ATAGTAACTCGCAACAATGCCTTCGGGACTTAGCCCGAAATTAGTCACTAGCACA
94076951 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
94076974 TTATCATCCG
Statistics
Matches: 132, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
120 129 0.98
121 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
ATAGTAACTCGCAACAATGCCTTCGGGACTTAGCCCGAAATTAGTCACTAGCACA
Found at i:94081793 original size:22 final size:24
Alignment explanation
Indices: 94081732--94081783 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
94081722 CGCTTTTATG
94081732 CTCTCTTAATACTTGGAGTAATTC
1 CTCTCTTAATACTTGGAGTAATTC
94081756 CTCTCTTAATACTTGGAGTAATTC
1 CTCTCTTAATACTTGGAGTAATTC
94081780 CTCT
1 CTCT
94081784 TTCTCCTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (24 bp):
CTCTCTTAATACTTGGAGTAATTC
Found at i:94086735 original size:22 final size:23
Alignment explanation
Indices: 94086709--94086751 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
94086699 TCATTGATGT
*
94086709 TGAACTCGTGTTTTG-ATTGTGA
1 TGAACGCGTGTTTTGAATTGTGA
*
94086731 TGAACGCTTGTTTTGAATTGT
1 TGAACGCGTGTTTTGAATTGT
94086752 TGTTGGGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.47
Consensus pattern (23 bp):
TGAACGCGTGTTTTGAATTGTGA
Found at i:94087170 original size:17 final size:18
Alignment explanation
Indices: 94087148--94087182 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
94087138 CAATCTGGGT
94087148 GTGTGGGC-CACACGAGC
1 GTGTGGGCTCACACGAGC
94087165 GTGTGGGCTCACACGAGC
1 GTGTGGGCTCACACGAGC
94087183 ATGTAAGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.29, G:0.40, T:0.14
Consensus pattern (18 bp):
GTGTGGGCTCACACGAGC
Found at i:94088111 original size:28 final size:29
Alignment explanation
Indices: 94088063--94088118 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
94088053 ACTCCTATTG
* *
94088063 TAAATAATGTTTTGGCAAATT-ATATAAT
1 TAAATAACGTTTTGACAAATTGATATAAT
94088091 TAAATAACGTTTTTGAC-AATTGATATAA
1 TAAATAACG-TTTTGACAAATTGATATAA
94088119 GCGAAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (29 bp):
TAAATAACGTTTTGACAAATTGATATAAT
Found at i:94108367 original size:26 final size:26
Alignment explanation
Indices: 94108338--94108390 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
94108328 AGTATGCAGA
94108338 AGCTTAGCCATTGATCCATCAGGCTC
1 AGCTTAGCCATTGATCCATCAGGCTC
94108364 AGCTTAGCCATTGATCCATCAGGCTC
1 AGCTTAGCCATTGATCCATCAGGCTC
94108390 A
1 A
94108391 TTCTTGGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (26 bp):
AGCTTAGCCATTGATCCATCAGGCTC
Found at i:94109374 original size:9 final size:9
Alignment explanation
Indices: 94109360--94109384 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
94109350 TGTATTTTAC
94109360 TTTATTTGT
1 TTTATTTGT
94109369 TTTATTTGT
1 TTTATTTGT
94109378 TTTATTT
1 TTTATTT
94109385 TTGAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (9 bp):
TTTATTTGT
Found at i:94113952 original size:43 final size:43
Alignment explanation
Indices: 94113890--94113974 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
94113880 TATACATTAC
* *
94113890 TATTGAATTAAATGGTGATACATCAACAAAAAATAAAACAAAG
1 TATTGAATCAAATGATGATACATCAACAAAAAATAAAACAAAG
*
94113933 TATTGAATCAAATGATGATACATCACCAAAAAATAAAACAAA
1 TATTGAATCAAATGATGATACATCAACAAAAAATAAAACAAA
94113975 CTAATTGTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.22
Consensus pattern (43 bp):
TATTGAATCAAATGATGATACATCAACAAAAAATAAAACAAAG
Found at i:94114064 original size:18 final size:18
Alignment explanation
Indices: 94114043--94114077 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
94114033 TTGATAATAC
94114043 ATAAATTATACCAACAAT
1 ATAAATTATACCAACAAT
94114061 ATAAATTATACCAACAA
1 ATAAATTATACCAACAA
94114078 CACATCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAATTATACCAACAAT
Found at i:94114088 original size:21 final size:18
Alignment explanation
Indices: 94114041--94114079 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
94114031 TATTGATAAT
94114041 ACATAAATTATACCAACA
1 ACATAAATTATACCAACA
*
94114059 ATATAAATTATACCAACA
1 ACATAAATTATACCAACA
94114077 ACA
1 ACA
94114080 CATCAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (18 bp):
ACATAAATTATACCAACA
Found at i:94120756 original size:33 final size:31
Alignment explanation
Indices: 94120698--94120761 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 31
94120688 CTAAAAATTA
94120698 AAAAAAATATATAAAAATACATAAATATTTATC
1 AAAAAAATATATAAAAATA-ATAAAT-TTTATC
*
94120731 AAAAAAATATAATAATAAAT-TTAAATTTTAT
1 AAAAAAATAT-ATAA-AAATAATAAATTTTAT
94120762 ACTAATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 5 0.18
33 15 0.54
34 4 0.14
35 4 0.14
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAAAAATATATAAAAATAATAAATTTTATC
Found at i:94121243 original size:19 final size:18
Alignment explanation
Indices: 94121221--94121259 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
94121211 AAATTTATTA
94121221 TTATAT-TTTTTGATAATAT
1 TTATATATTTTT-AT-ATAT
94121240 TTATATATTTTTATATAT
1 TTATATATTTTTATATAT
94121258 TT
1 TT
94121260 CTTTGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 8 0.42
20 5 0.26
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATATATTTTTATATAT
Found at i:94123588 original size:18 final size:18
Alignment explanation
Indices: 94123562--94123631 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
94123552 TCAAGTCAAT
* *
94123562 AAATGATTTAAAATTTATA
1 AAATAATTTAAAAATTA-A
*
94123581 AAAT-ATTTAAAAAATAA
1 AAATAATTTAAAAATTAA
*
94123598 AAATAAATTAAAAATTAA
1 AAATAATTTAAAAATTAA
94123616 AAA-ATATTTAAAAATT
1 AAATA-ATTTAAAAATT
94123632 CATTAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.14
18 34 0.77
19 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (18 bp):
AAATAATTTAAAAATTAA
Found at i:94126487 original size:3 final size:3
Alignment explanation
Indices: 94126481--94126511 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
94126471 AAACACATAC
94126481 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
94126512 ATCATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:94128251 original size:12 final size:12
Alignment explanation
Indices: 94128224--94128261 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
94128214 CTTCCAAAAT
*
94128224 TAATTATTTTAA
1 TAATTAATTTAA
94128236 -AATTAATTTAA
1 TAATTAATTTAA
*
94128247 TAATTAATTCAA
1 TAATTAATTTAA
94128259 TAA
1 TAA
94128262 AATAATTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATTAATTTAA
Found at i:94128281 original size:14 final size:12
Alignment explanation
Indices: 94128236--94128283 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
94128226 ATTATTTTAA
*
94128236 AATTAATTTAAT
1 AATTAATTCAAT
94128248 AATTAATTCAAT
1 AATTAATTCAAT
*
94128260 AAAATAATTCACAT
1 -AATTAATTCA-AT
94128274 AACTTAATTC
1 AA-TTAATTC
94128284 TGATTCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 11 0.37
13 11 0.37
14 8 0.27
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTAATTCAAT
Found at i:94130337 original size:29 final size:29
Alignment explanation
Indices: 94130298--94130376 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
94130288 CTTAATAATC
*
94130298 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
94130328 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
94130357 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
94130377 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:94143862 original size:27 final size:27
Alignment explanation
Indices: 94143801--94143863 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
94143791 GCTTAGTTCT
* * * *
94143801 GGAAGTTAGGGAAGTTTTGGTTGTTGG
1 GGAAGTTTGGAAAGTATTGGTTGTTAG
94143828 GGAAGTTTGGAAAGTATTGGTTGTTAG
1 GGAAGTTTGGAAAGTATTGGTTGTTAG
94143855 GGAAGTTTG
1 GGAAGTTTG
94143864 AGTCCTTGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (27 bp):
GGAAGTTTGGAAAGTATTGGTTGTTAG
Found at i:94153064 original size:42 final size:41
Alignment explanation
Indices: 94153002--94153080 Score: 113
Period size: 42 Copynumber: 1.9 Consensus size: 41
94152992 CATGTAATCA
* *
94153002 CATATCGATGCCACTATCCCAGACAAGGTCTTACACGAACT
1 CATATCGATGCCAATATCCCAAACAAGGTCTTACACGAACT
* *
94153043 CATATACGATGCCAATGTCCCAAACATGGTCTTACACG
1 CATAT-CGATGCCAATATCCCAAACAAGGTCTTACACG
94153081 TAAATCACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 5 0.15
42 28 0.85
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (41 bp):
CATATCGATGCCAATATCCCAAACAAGGTCTTACACGAACT
Found at i:94154262 original size:13 final size:13
Alignment explanation
Indices: 94154244--94154268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94154234 ACAAACAATA
94154244 AAATTTTCACACG
1 AAATTTTCACACG
94154257 AAATTTTCACAC
1 AAATTTTCACAC
94154269 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:94160329 original size:17 final size:17
Alignment explanation
Indices: 94160307--94160340 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
94160297 GGTGATACGG
94160307 TGTTTCTAAAAGTATCA
1 TGTTTCTAAAAGTATCA
94160324 TGTTTCTAAAAGTATCA
1 TGTTTCTAAAAGTATCA
94160341 CATTGGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
TGTTTCTAAAAGTATCA
Found at i:94165197 original size:118 final size:118
Alignment explanation
Indices: 94164989--94165224 Score: 472
Period size: 118 Copynumber: 2.0 Consensus size: 118
94164979 TATGAAGTCA
94164989 GAAATAGCTTTAAGGTCAAACACCCTCATCACGTCCTCTATCTAGTCAATGCATTGTGAGTAATC
1 GAAATAGCTTTAAGGTCAAACACCCTCATCACGTCCTCTATCTAGTCAATGCATTGTGAGTAATC
94165054 ACCAACGAGAAGATTATTATTGAGGCCGCCTAATACCAGGATTTCACGAGCAG
66 ACCAACGAGAAGATTATTATTGAGGCCGCCTAATACCAGGATTTCACGAGCAG
94165107 GAAATAGCTTTAAGGTCAAACACCCTCATCACGTCCTCTATCTAGTCAATGCATTGTGAGTAATC
1 GAAATAGCTTTAAGGTCAAACACCCTCATCACGTCCTCTATCTAGTCAATGCATTGTGAGTAATC
94165172 ACCAACGAGAAGATTATTATTGAGGCCGCCTAATACCAGGATTTCACGAGCAG
66 ACCAACGAGAAGATTATTATTGAGGCCGCCTAATACCAGGATTTCACGAGCAG
94165225 TGAGACAATC
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (118 bp):
GAAATAGCTTTAAGGTCAAACACCCTCATCACGTCCTCTATCTAGTCAATGCATTGTGAGTAATC
ACCAACGAGAAGATTATTATTGAGGCCGCCTAATACCAGGATTTCACGAGCAG
Found at i:94168155 original size:106 final size:106
Alignment explanation
Indices: 94167946--94168149 Score: 327
Period size: 107 Copynumber: 1.9 Consensus size: 106
94167936 ATAATATTTG
* * * *
94167946 GGTTAGTAGCAATAAGGAGTTGCTTGAGCTCATGAACTATCGCAAGGTTCCCAATCTCTTGACAG
1 GGTTAGTAGCAATAAGGAGTTGCTTGAGCTCATGAACTATCACAAGGTTCCCAAGCCCTTGAAAG
94168011 TTCCAACAAAAAAACCTCATTGCTCTAGGCGGTAGCTGGCA
66 TTCCAACAAAAAAACCTCATTGCTCTAGGCGGTAGCTGGCA
* * *
94168052 GGTTAGTAGCAATAAGGGGTTGCTTGAGCTCATGAACTATCATAGGGTTTCCCAAGCCCTTGAAA
1 GGTTAGTAGCAATAAGGAGTTGCTTGAGCTCATGAACTATCACAAGG-TTCCCAAGCCCTTGAAA
*
94168117 GTTCCAACAAAAGAACCTCATTGCTCTAGGCGG
65 GTTCCAACAAAAAAACCTCATTGCTCTAGGCGG
94168150 GGCTGGTTGC
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
106 43 0.48
107 46 0.52
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (106 bp):
GGTTAGTAGCAATAAGGAGTTGCTTGAGCTCATGAACTATCACAAGGTTCCCAAGCCCTTGAAAG
TTCCAACAAAAAAACCTCATTGCTCTAGGCGGTAGCTGGCA
Found at i:94168966 original size:20 final size:20
Alignment explanation
Indices: 94168938--94168979 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
94168928 TGGGGATAGG
94168938 TTTAAGATCCACATTCTATC
1 TTTAAGATCCACATTCTATC
*
94168958 TTTAGGATCCACATTCTATC
1 TTTAAGATCCACATTCTATC
94168978 TT
1 TT
94168980 CTATAACGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (20 bp):
TTTAAGATCCACATTCTATC
Found at i:94172014 original size:43 final size:43
Alignment explanation
Indices: 94171859--94172015 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 43
94171849 TGTGATTTTG
* * *
94171859 TGTAAGACCACATCTGGGACGTTGGCATCGAT-TTGAGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTACA
* *** * * *
94171903 TGTAAGACCATGTCTGGGGTATTGGCATC-ATAATTGATTTCC
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
* * ** *
94171945 TATATGACCTTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTGGGA-CGTTGGCATCGATATTTGATTACA
*
94171988 TGTAAGGCCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
94172016 TGTACGAGCT
Statistics
Matches: 85, Mismatches: 24, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
42 26 0.31
43 34 0.40
44 25 0.29
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:94175133 original size:24 final size:24
Alignment explanation
Indices: 94175097--94175144 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
94175087 AAAGTCTACT
94175097 GAATTTGTAATTAGAGTATCGAAC
1 GAATTTGTAATTAGAGTATCGAAC
*
94175121 GAATTTGTGATTAGAGTATCGAAC
1 GAATTTGTAATTAGAGTATCGAAC
94175145 CCTTTAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.33
Consensus pattern (24 bp):
GAATTTGTAATTAGAGTATCGAAC
Found at i:94179664 original size:44 final size:44
Alignment explanation
Indices: 94179597--94179727 Score: 160
Period size: 44 Copynumber: 3.0 Consensus size: 44
94179587 TCCGATATGT
* *
94179597 GATTTTGTGTAAGACCACATCTGGGATATTGGCATCA-ATTTGA
1 GATTTCGTGTAAGACCATATCTGGGATATTGGCATCATATTTGA
* *
94179640 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCATATTT--
1 GATTT-CGTGTAAGACCATATCTGGGATATTGGCATCATATTTGA
* * *
94179683 GATTTCGTGTAAGACCCTTTCTGGGATAGTGGCATTCATATTTGA
1 GATTTCGTGTAAGACCATATCTGGGATATTGGCA-TCATATTTGA
94179728 TTACACGTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 25 0.33
43 18 0.24
44 28 0.37
45 4 0.05
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (44 bp):
GATTTCGTGTAAGACCATATCTGGGATATTGGCATCATATTTGA
Found at i:94179738 original size:43 final size:42
Alignment explanation
Indices: 94179605--94179760 Score: 118
Period size: 43 Copynumber: 3.6 Consensus size: 42
94179595 GTGATTTTGT
** * * **
94179605 GTAAGACCACATCTGGGATATTGGCATCA-ATTTGAGATTTACGT
1 GTAAGACCATGTCTGGGACAGTGGCATCATATTT--GA-TTACAC
* * **
94179649 GTAAGACCATGTCTGGGACATTGGCATCATATTTGATTTCGT
1 GTAAGACCATGTCTGGGACAGTGGCATCATATTTGATTACAC
* * *
94179691 GTAAGACCCTTTCTGGGATAGTGGCATTCATATTTGATTACAC
1 GTAAGACCATGTCTGGGACAGTGGCA-TCATATTTGATTACAC
* *
94179734 GTAAGACCACGTTTGGGAC-GTTGGCAT
1 GTAAGACCATGTCTGGGACAG-TGGCAT
94179761 TGTACGAGTT
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 29 0.31
43 34 0.37
44 26 0.28
45 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACAGTGGCATCATATTTGATTACAC
Found at i:94186084 original size:49 final size:49
Alignment explanation
Indices: 94186028--94186487 Score: 688
Period size: 49 Copynumber: 9.6 Consensus size: 49
94186018 TATTTGAATA
*
94186028 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
94186077 AATGTGAAAGTGTATATATATGTGGTAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
94186126 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
94186175 AATGTGAAAGTG--TGTATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
94186222 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
94186271 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
94186320 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* **
94186367 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
94186414 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
94186461 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
94186488 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 24, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
47 182 0.48
48 1 0.00
49 200 0.52
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:94186293 original size:145 final size:145
Alignment explanation
Indices: 94186028--94186487 Score: 721
Period size: 145 Copynumber: 3.2 Consensus size: 145
94186018 TATTTGAATA
*
94186028 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
94186093 TATATGTGGTAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
64 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
94186158 TAATGGCCGATGTGATG
129 TAATGGCCGATGTGATG
*
94186175 AATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
94186240 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
94186305 ATGGCCGATGTGATG
131 ATGGCCGATGTGATG
* * *
94186320 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* ** * * *
94186383 TATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
* * *
94186446 GTGGCCAACGTGATG
131 ATGGCCGATGTGATG
* *
94186461 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
94186488 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
141 54 0.18
143 44 0.15
145 185 0.63
147 12 0.04
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (145 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
ATGGCCGATGTGATG
Found at i:94194255 original size:8 final size:8
Alignment explanation
Indices: 94194244--94194288 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
94194234 CAAAATTTTA
*
94194244 AAAAATAG
1 AAAAATAT
*
94194252 AAAATTAT
1 AAAAATAT
*
94194260 AAAAGATAA
1 AAAA-ATAT
94194269 AAAAATAT
1 AAAAATAT
94194277 AAAAATAT
1 AAAAATAT
94194285 AAAA
1 AAAA
94194289 TATTAGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
8 25 0.81
9 6 0.19
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (8 bp):
AAAAATAT
Found at i:94194255 original size:17 final size:17
Alignment explanation
Indices: 94194226--94194318 Score: 71
Period size: 17 Copynumber: 5.2 Consensus size: 17
94194216 GATTTCCCAC
* *
94194226 TAAAAAAT-CAAAATTT
1 TAAAAAATAAAAAATTA
*
94194242 TAAAAAATAGAAAATTA
1 TAAAAAATAAAAAATTA
* *
94194259 TAAAAGATAAAAAAATA
1 TAAAAAATAAAAAATTA
*
94194276 TAAAAATATAAAATATTAGA
1 TAAAAA-ATAAAAAATT--A
*
94194296 AAAATAAATAAAAAAGTTA
1 TAAA-AAATAAAAAA-TTA
94194315 TAAA
1 TAAA
94194319 GCTCAGTATT
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
16 8 0.13
17 25 0.42
18 8 0.13
19 4 0.07
20 11 0.18
21 4 0.07
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (17 bp):
TAAAAAATAAAAAATTA
Found at i:94194263 original size:25 final size:25
Alignment explanation
Indices: 94194227--94194301 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
94194217 ATTTCCCACT
*
94194227 AAAAA-ATCAAAATTTTAAAAAATAG
1 AAAAATAT-AAAATATTAAAAAATAG
* * * *
94194252 AAAATTATAAAAGATAAAAAAATAT
1 AAAAATATAAAATATTAAAAAATAG
94194277 AAAAATATAAAATATTAGAAAAATA
1 AAAAATATAAAATATTA-AAAAATA
94194302 AATAAAAAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
25 31 0.77
26 9 0.22
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (25 bp):
AAAAATATAAAATATTAAAAAATAG
Found at i:94195792 original size:26 final size:26
Alignment explanation
Indices: 94195753--94195806 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
94195743 TTTTGGAAGA
94195753 TTACATTAACCACCAAAGTGGCTCGG
1 TTACATTAACCACCAAAGTGGCTCGG
*
94195779 TTACATTAATCACCAAAGTGGCTCGG
1 TTACATTAACCACCAAAGTGGCTCGG
94195805 TT
1 TT
94195807 TTTATCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (26 bp):
TTACATTAACCACCAAAGTGGCTCGG
Found at i:94196765 original size:16 final size:16
Alignment explanation
Indices: 94196744--94196775 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
94196734 GGGTACACAA
94196744 TGAGACTATCACAGAT
1 TGAGACTATCACAGAT
94196760 TGAGACTATCACAGAT
1 TGAGACTATCACAGAT
94196776 GGAACCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (16 bp):
TGAGACTATCACAGAT
Found at i:94210324 original size:48 final size:48
Alignment explanation
Indices: 94210266--94210489 Score: 231
Period size: 48 Copynumber: 4.7 Consensus size: 48
94210256 GGTGAATTTA
* * *
94210266 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATGCCTAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGCCAAGG
* * * * *
94210314 CTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGT-CTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGC-CAAGG
* * *
94210362 CCGATACCATGTCCCAGAAATGGTCTTACACTAGCTCTCACAATG---TGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCAC-ATGCCAAGG
* * ** *
94210410 CCGACGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGCCAAGG
*
94210458 CCGATGCCATATCCCAGACATGGTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
94210490 GCCTCTCATT
Statistics
Matches: 143, Mismatches: 25, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
45 2 0.01
46 4 0.03
47 1 0.01
48 131 0.92
50 4 0.03
51 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGCCAAGG
Found at i:94210431 original size:96 final size:96
Alignment explanation
Indices: 94210266--94210497 Score: 299
Period size: 96 Copynumber: 2.4 Consensus size: 96
94210256 GGTGAATTTA
* * * *
94210266 CCGATGCCATGTCCCAGACATGGTCTTACATTG-GCTCACATGCCTAGGCTGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCACATG-CTAGGCCGACGCCATGTCCCA
* * * *
94210330 AACATGGTCTTACACTAGCTCTCGTCTCAATG
65 AACATGGTCTTACACTAGCGCACATATCAATG
* *
94210362 CCGATACCATGTCCCAGAAATGGTCTTACACTAGCTCTCACAATG-T-GGCCGACGCCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCAC-ATGCTAGGCCGACGCCATGTCCC
*
94210425 AGACATGGTCTTACACTAGCGCACATATCAATG
64 AAACATGGTCTTACACTAGCGCACATATCAATG
*
94210458 CCGATGCCATATCCCAGACATGGTCTTACACTGCCTCTCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTCA
94210498 TTACATTATC
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
95 1 0.01
96 107 0.91
97 2 0.02
98 5 0.04
99 3 0.03
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (96 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCACATGCTAGGCCGACGCCATGTCCCAA
ACATGGTCTTACACTAGCGCACATATCAATG
Found at i:94210517 original size:96 final size:95
Alignment explanation
Indices: 94210266--94210586 Score: 285
Period size: 96 Copynumber: 3.3 Consensus size: 95
94210256 GGTGAATTTA
* * * * ** *
94210266 CCGATGCCATGTCCCAGACATGGTCTTACATTG-GCTCAC-ATGCCTAGGCTGATGCCATGTCCC
1 CCGATGCCATATCCCAGACATGGTCTTACACTGCTCTCACAATG--T-GACCAACGCCATGTCCC
* *
94210329 AAACATGGTCTTACACTAGCTCTCGTCTCAATG
63 AAACATGGTCTTACACTAGCTCTCATATCAATG
* * * * * *
94210362 CCGATACCATGTCCCAGAAATGGTCTTACACTAGCTCTCACAATGTGGCCGACGCCATGTCCCAG
1 CCGATGCCATATCCCAGACATGGTCTTACACT-GCTCTCACAATGTGACCAACGCCATGTCCCAA
* *
94210427 ACATGGTCTTACACTAGCGCACATATCAATG
65 ACATGGTCTTACACTAGCTCTCATATCAATG
* * * * *
94210458 CCGATGCCATATCCCAGACATGGTCTTACACTGCCTCTCATTACAT-T-ATCAATGTCATGTTCC
1 CCGATGCCATATCCCAGACATGGTCTTACACTG-CTCTCA-CA-ATGTGACCAACGCCATGTCCC
* *
94210521 AAACATGGTCTAACAC-AGGCTCTCATAT-TATGG
63 AAACATGGTCTTACACTA-GCTCTCATATCAAT-G
* *
94210554 CTGAAGCCATATCCCAGACATGGTCTTACACTG
1 CCGATGCCATATCCCAGACATGGTCTTACACTG
94210587 GCTCACATGT
Statistics
Matches: 189, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
95 4 0.02
96 171 0.90
97 4 0.02
98 7 0.04
99 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (95 bp):
CCGATGCCATATCCCAGACATGGTCTTACACTGCTCTCACAATGTGACCAACGCCATGTCCCAAA
CATGGTCTTACACTAGCTCTCATATCAATG
Found at i:94210531 original size:144 final size:144
Alignment explanation
Indices: 94210266--94210594 Score: 360
Period size: 144 Copynumber: 2.3 Consensus size: 144
94210256 GGTGAATTTA
* * * * * *
94210266 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATGCCTAGGCTGATGCCATGTCCCAA
1 CCGAAGCCATGTCCCAGACATGGTCTTACACTGGCTCACATACCAAGGCCGATGCCATATCCCAA
* * * *
94210331 ACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATACCATGTCCCAGAAATGGTCTTACACTA-
66 ACATGGTCTTACACTAGCTCTCATCTCAATACCAATACCATGTCCCAGAAATGGTCTAACAC-AG
*
94210395 GCTCTCACAATGTGG
130 GCTCTCACAATATGG
* * * * * *
94210410 CCGACGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATATCCCAG
1 CCGAAGCCATGTCCCAGACATGGTCTTACACTGGCTCACATACCAAGGCCGATGCCATATCCCAA
* * ** *
94210475 ACATGGTCTTACACT-GCCTCTCAT-TACATTATCAATGTCATGTTCCA-AACATGGTCTAACAC
66 ACATGGTCTTACACTAG-CTCTCATCT-CAATACCAATACCATGTCCCAGAA-ATGGTCTAACAC
* *
94210537 AGGCTCTCATATTATGG
128 AGGCTCTCACAATATGG
* *
94210554 CTGAAGCCATATCCCAGACATGGTCTTACACTGGCTCACAT
1 CCGAAGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
94210595 GTCACCCAAA
Statistics
Matches: 153, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
143 5 0.03
144 148 0.97
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (144 bp):
CCGAAGCCATGTCCCAGACATGGTCTTACACTGGCTCACATACCAAGGCCGATGCCATATCCCAA
ACATGGTCTTACACTAGCTCTCATCTCAATACCAATACCATGTCCCAGAAATGGTCTAACACAGG
CTCTCACAATATGG
Found at i:94210575 original size:48 final size:47
Alignment explanation
Indices: 94210266--94210590 Score: 196
Period size: 48 Copynumber: 6.8 Consensus size: 47
94210256 GGTGAATTTA
* ** * ** *
94210266 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATGCCTAGG
1 CCGAAGCCATGTCCCAGACATGGTCTTACACAGGCTCTCAT-ATTATG
* * * * * *
94210314 CTGATGCCATGTCCCAAACATGGTCTTACACTA-GCTCTCGTCTCAATG
1 CCGAAGCCATGTCCCAGACATGGTCTTACAC-AGGCTCTCATAT-TATG
* * * *
94210362 CCGATA-CCATGTCCCAGAAATGGTCTTACACTA-GCTCTCACAATGTGG
1 CCGA-AGCCATGTCCCAGACATGGTCTTACAC-AGGCTCTCATATTAT-G
* * * *
94210410 CCGACGCCATGTCCCAGACATGGTCTTACACTA-GCGCACATATCAATG
1 CCGAAGCCATGTCCCAGACATGGTCTTACAC-AGGCTCTCATAT-TATG
* * * *
94210458 CCGATGCCATATCCCAGACATGGTCTTACACTGCCTCTCATTACATTAT-
1 CCGAAGCCATGTCCCAGACATGGTCTTACACAGGCTCTCA-T--ATTATG
* * * *
94210507 -C-AATGTCATGTTCCAAACATGGTCTAACACAGGCTCTCATATTATGG
1 CCGAA-GCCATGTCCCAGACATGGTCTTACACAGGCTCTCATATTAT-G
* * *
94210554 CTGAAGCCATATCCCAGACATGGTCTTACACTGGCTC
1 CCGAAGCCATGTCCCAGACATGGTCTTACACAGGCTC
94210591 ACATGTCACC
Statistics
Matches: 213, Mismatches: 49, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
45 5 0.02
47 4 0.02
48 196 0.92
49 4 0.02
50 2 0.01
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
CCGAAGCCATGTCCCAGACATGGTCTTACACAGGCTCTCATATTATG
Found at i:94212886 original size:20 final size:21
Alignment explanation
Indices: 94212861--94212902 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
94212851 TGAGAACTAT
94212861 TTTTTTTATTTC-TTAAGTAA
1 TTTTTTTATTTCTTTAAGTAA
94212881 TTTTTTTATTTCTTTAAGTAA
1 TTTTTTTATTTCTTTAAGTAA
94212902 T
1 T
94212903 AAAAGTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTTTATTTCTTTAAGTAA
Found at i:94214079 original size:55 final size:55
Alignment explanation
Indices: 94213995--94214103 Score: 218
Period size: 55 Copynumber: 2.0 Consensus size: 55
94213985 AATGTAAGCC
94213995 AATAAAAACTTGATTTGAGGATTTTATATGTTGTTCTAACCCCACTGTAGTATCT
1 AATAAAAACTTGATTTGAGGATTTTATATGTTGTTCTAACCCCACTGTAGTATCT
94214050 AATAAAAACTTGATTTGAGGATTTTATATGTTGTTCTAACCCCACTGTAGTATC
1 AATAAAAACTTGATTTGAGGATTTTATATGTTGTTCTAACCCCACTGTAGTATC
94214104 CTCACGTTGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (55 bp):
AATAAAAACTTGATTTGAGGATTTTATATGTTGTTCTAACCCCACTGTAGTATCT
Found at i:94221270 original size:21 final size:21
Alignment explanation
Indices: 94221227--94221270 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
94221217 TTTAAAAATT
* *
94221227 AAATTAAAATAAAAAATGTTA
1 AAATAAAAATAAAAAATGCTA
94221248 AAATAAAAAT-AAAAATGGCTA
1 AAATAAAAATAAAAAAT-GCTA
94221269 AA
1 AA
94221271 TGAATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (21 bp):
AAATAAAAATAAAAAATGCTA
Found at i:94222665 original size:23 final size:24
Alignment explanation
Indices: 94222639--94222685 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
94222629 AATATTTCAC
94222639 ATATAAATGT-AATGATTAAAAAA
1 ATATAAATGTAAATGATTAAAAAA
*
94222662 ATATAAATTTAAAATGATTAAAAA
1 ATATAAATGT-AAATGATTAAAAA
94222686 TATCATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (24 bp):
ATATAAATGTAAATGATTAAAAAA
Found at i:94222861 original size:20 final size:20
Alignment explanation
Indices: 94222838--94222875 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
94222828 TTTTTTTTGG
94222838 ATTGTATTT-TAATTATTTTT
1 ATTGTATTTGT-ATTATTTTT
94222858 ATTGTATTTGTATTATTT
1 ATTGTATTTGTATTATTT
94222876 GGGAGATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (20 bp):
ATTGTATTTGTATTATTTTT
Found at i:94223743 original size:24 final size:24
Alignment explanation
Indices: 94223715--94223767 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
94223705 TTTCTAGAAG
*
94223715 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
* *
94223739 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAATAT
94223763 ATTTA
1 ATTTA
94223768 ACTTACTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:94226965 original size:18 final size:18
Alignment explanation
Indices: 94226942--94226981 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
94226932 CTTATCCATA
94226942 TGATAAAAATAAAAAAAT
1 TGATAAAAATAAAAAAAT
*
94226960 TGATAAAAATATAAAAAT
1 TGATAAAAATAAAAAAAT
94226978 TGAT
1 TGAT
94226982 TATTAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (18 bp):
TGATAAAAATAAAAAAAT
Found at i:94227327 original size:14 final size:14
Alignment explanation
Indices: 94227308--94227338 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
94227298 TAAAATTATT
94227308 AGTATTTATTTACA
1 AGTATTTATTTACA
94227322 AGTATTTATTTACA
1 AGTATTTATTTACA
94227336 AGT
1 AGT
94227339 CTTTCATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (14 bp):
AGTATTTATTTACA
Found at i:94234057 original size:11 final size:11
Alignment explanation
Indices: 94234014--94234086 Score: 55
Period size: 11 Copynumber: 6.6 Consensus size: 11
94234004 CTTTTAAAAT
94234014 TTAAAAA-TTA
1 TTAAAAATTTA
*
94234024 GTTAAAAAATTA
1 -TTAAAAATTTA
*
94234036 TAAACAAAATTTA
1 T-TA-AAAATTTA
94234049 TTAAAAATTTA
1 TTAAAAATTTA
*
94234060 -T-ATAATTTA
1 TTAAAAATTTA
94234069 -TAAAAATTTTA
1 TTAAAAA-TTTA
94234080 TTAAAAA
1 TTAAAAA
94234087 ATAACAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
9 8 0.16
10 4 0.08
11 20 0.39
12 11 0.22
13 8 0.16
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (11 bp):
TTAAAAATTTA
Found at i:94234225 original size:21 final size:20
Alignment explanation
Indices: 94234194--94234256 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
94234184 AAATTTAACA
*
94234194 TTTAAATTTTTTATAATTTT
1 TTTATATTTTTTATAATTTT
* *
94234214 TTTATGATTTTTGT-TTATATT
1 TTTAT-ATTTTT-TATAATTTT
*
94234235 TTTATATTTCTTAATAATTTT
1 TTTATATTT-TTTATAATTTT
94234256 T
1 T
94234257 AAAATTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 8 0.24
21 24 0.73
22 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTATATTTTTTATAATTTT
Found at i:94237340 original size:23 final size:21
Alignment explanation
Indices: 94237304--94237347 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
94237294 ATTGGATAAT
94237304 ATGTTTTGATATAACAAATTAAA
1 ATGTTTTGATAT-A-AAATTAAA
94237327 ATGTTCTTGA-ATAAAATTAAA
1 ATGTT-TTGATATAAAATTAAA
94237348 GTTGACCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.40
22 1 0.05
23 7 0.35
24 4 0.20
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGTTTTGATATAAAATTAAA
Found at i:94237594 original size:20 final size:20
Alignment explanation
Indices: 94237569--94237617 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
94237559 TATCGATCCA
*
94237569 GTATCGATACATTTCTTAAC
1 GTATCGATACATTTCCTAAC
* *
94237589 GTATCGATATATTTCCTAAG
1 GTATCGATACATTTCCTAAC
*
94237609 GTAACGATA
1 GTATCGATA
94237618 TTCCTGCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (20 bp):
GTATCGATACATTTCCTAAC
Found at i:94240862 original size:47 final size:47
Alignment explanation
Indices: 94240791--94241757 Score: 1619
Period size: 47 Copynumber: 20.3 Consensus size: 47
94240781 CCCTTCGGGA
* * * * * *
94240791 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94240838 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94240885 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94240932 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94240979 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94241026 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94241073 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
94241122 CGTATCACATATATACACTTTCACATTCATTACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94241169 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94241216 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94241263 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94241312 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94241359 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94241408 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
94241455 CTTATCACATATATATACACTTTCACATTCACCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94241504 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94241551 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94241600 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94241647 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94241694 CTTATCACATATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94241745 CTTATCACATATA
1 CTTATCACATATA
94241758 CTATCATGTA
Statistics
Matches: 875, Mismatches: 31, Indels: 28
0.94 0.03 0.03
Matches are distributed among these distances:
47 600 0.69
49 229 0.26
51 46 0.05
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:94241115 original size:96 final size:96
Alignment explanation
Indices: 94240791--94241757 Score: 1648
Period size: 96 Copynumber: 10.1 Consensus size: 96
94240781 CCCTTCGGGA
* * * * * * *
94240791 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
94240854 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
94240885 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
94240948 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
94240979 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
*
94241042 ACTTTCACATTCACCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
94241073 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCGTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
* *
94241138 ACTTTCACATTCATTACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
94241169 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
*
94241232 ACTTTCACATTCACCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
94241263 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
94241328 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
94241359 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
*
94241424 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
94241455 CTTATCACATATATATACACTTTCACATTCACCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
94241520 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
94241551 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
*
94241616 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
94241647 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC----ATAT
*
94241710 ATACACTTTCACATTCACCACATCGGCCATTAGGC
62 ATACACTTTCACATTCATCACATCGGCCATTAGGC
94241745 CTTATCACATATA
1 CTTATCACATATA
94241758 CTATCATGTA
Statistics
Matches: 834, Mismatches: 27, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
93 1 0.00
94 321 0.38
96 464 0.56
98 45 0.05
100 3 0.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:94241134 original size:143 final size:141
Alignment explanation
Indices: 94240791--94241757 Score: 1619
Period size: 143 Copynumber: 6.8 Consensus size: 141
94240781 CCCTTCGGGA
* * * * * * *
94240791 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
94240856 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
94240921 GGCCATTAGGC
131 GGCCATTAGGC
94240932 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
94240997 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCACCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
94241062 GGCCATTAGGC
131 GGCCATTAGGC
* *
94241073 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCGTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
94241138 ACTTTCACATTCATTACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
94241203 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
94241216 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
94241281 ACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
94241346 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
94241359 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
94241424 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCACCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
94241489 CATTGGCCATTAGGC
127 CATCGGCCATTAGGC
94241504 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
94241569 ACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
94241634 TCGGCTATTAGGC
129 TCGGCCATTAGGC
94241647 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATAT
*
94241712 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATA
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
94241758 CTATCATGTA
Statistics
Matches: 787, Mismatches: 27, Indels: 20
0.94 0.03 0.02
Matches are distributed among these distances:
141 187 0.24
143 409 0.52
145 191 0.24
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:94245441 original size:25 final size:25
Alignment explanation
Indices: 94245404--94245455 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
94245394 AAGGAATTCG
94245404 CACACACACAGTGC-CTCTAATCATT
1 CACACACACAGTGCTCT-TAATCATT
* *
94245429 CACACACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTTAATCATT
94245454 CA
1 CA
94245456 TTATTACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (25 bp):
CACACACACAGTGCTCTTAATCATT
Found at i:94245663 original size:40 final size:40
Alignment explanation
Indices: 94245631--94245981 Score: 551
Period size: 40 Copynumber: 8.8 Consensus size: 40
94245621 CCAGCATGAT
* * * *
94245631 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** ** * *
94245671 TGCTCTTCGGGGTTTAGGACAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
94245711 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
94245750 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
94245790 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
94245830 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
94245870 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
94245910 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
94245950 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
94245982 CTCAATTCTC
Statistics
Matches: 288, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 33 0.11
40 255 0.89
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:94247453 original size:47 final size:47
Alignment explanation
Indices: 94247382--94248196 Score: 1322
Period size: 47 Copynumber: 17.3 Consensus size: 47
94247372 CCCTTCGGGA
* * * * * *
94247382 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
94247429 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94247476 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94247523 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94247570 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94247617 CTTATCACATATATATACACTTTCACATTCA-CACATCGG-CATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94247664 C-TATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94247709 CTTATCA-ATATATACACTTTCACATTCACCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94247754 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94247803 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94247850 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94247899 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94247946 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94247995 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94248042 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94248091 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
94248137 CTTATCACATATATATAACTTTCACATTCATCACATC-GCCATTAGTC
1 CTTATCACATATATA-CACTTTCACATTCATCACATCGGCCATTAGGC
94248184 CTTATCACATATA
1 CTTATCACATATA
94248197 CTATCATGTC
Statistics
Matches: 731, Mismatches: 19, Indels: 36
0.93 0.02 0.05
Matches are distributed among these distances:
43 10 0.01
44 18 0.02
45 26 0.04
46 61 0.08
47 403 0.55
48 46 0.06
49 167 0.23
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:94247460 original size:25 final size:25
Alignment explanation
Indices: 94247432--94247510 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
94247422 ACTCGGCCCT
94247432 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
94247457 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
94247479 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
94247504 ATCACAT
1 ATCACAT
94247511 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:94247887 original size:96 final size:96
Alignment explanation
Indices: 94247382--94248196 Score: 1367
Period size: 96 Copynumber: 8.6 Consensus size: 96
94247372 CCCTTCGGGA
* * * * * * *
94247382 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
* *
94247445 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
94247476 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
94247539 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
94247570 CTTATCAC--ATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC--ATATAT
94247633 ACACTTTCACATTCA-CACATCGG-CATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
94247664 C-TATCAC--ATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCA-ATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
*
94247724 ACTTTCACATTCACCACATCGGCCATTAGG-
66 ACTTTCACATTCATCACATCGGCCATTAGGC
94247754 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
94247819 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
94247850 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
94247915 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
94247946 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
94248011 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
94248042 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
94248107 ACTTTCACATTCATCACATCGGCCATTA-GC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
94248137 CTTATCACATATATATA-ACTTTCACATTCATCACATC-GCCATTAGTCCTTATCACATATA
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATA
94248197 CTATCATGTC
Statistics
Matches: 695, Mismatches: 14, Indels: 25
0.95 0.02 0.03
Matches are distributed among these distances:
89 21 0.03
90 9 0.01
91 13 0.02
92 34 0.05
93 49 0.07
94 199 0.29
95 64 0.09
96 306 0.44
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:94251645 original size:42 final size:43
Alignment explanation
Indices: 94251584--94251711 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
94251574 CATAGGATTC
* * * *
94251584 CGATATGTGATTTCATGTAATACCACGTCTAGGACATTAGCAT
1 CGATATATGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
* * *
94251627 C-ATATATGATTTCGTGTAAGACC-CTATCTGGGACAGTGGCAT
1 CGATATATGATTTCATGTAAGACCAC-GTCTGGGACATTGGCAT
* *
94251669 CGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATATGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
94251712 TGTACGAACT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 33 0.47
43 35 0.50
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (43 bp):
CGATATATGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
Found at i:94268608 original size:30 final size:30
Alignment explanation
Indices: 94268572--94268634 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
94268562 CAGTCCTTAA
94268572 CTAAACTTTGGCAAAATTACAATTTTGCCC
1 CTAAACTTTGGCAAAATTACAATTTTGCCC
* * * *
94268602 CTAAACTTTTGCATATTTACACTTTTGCCC
1 CTAAACTTTGGCAAAATTACAATTTTGCCC
94268632 CTA
1 CTA
94268635 GGCTCGAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
CTAAACTTTGGCAAAATTACAATTTTGCCC
Found at i:94275047 original size:37 final size:37
Alignment explanation
Indices: 94274997--94275112 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
94274987 TTATTACGAA
*
94274997 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTTATCGG
94275034 GTCTTACCCGGACAAAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTTATCGG
* * *
94275071 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTTATCGG
94275108 GTCTT
1 GTCTT
94275113 TAGAGCTCGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTTATCGG
Found at i:94275304 original size:47 final size:47
Alignment explanation
Indices: 94275231--94275728 Score: 732
Period size: 47 Copynumber: 10.7 Consensus size: 47
94275221 CCCTTCGGGA
* * * * * *
94275231 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
94275278 CCTGTCACATATAT--A----CAC-TTC--CACATCGG-CA-TAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94275314 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94275361 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94275408 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94275455 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94275502 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
94275551 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94275600 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
94275647 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
94275694 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
94275729 AGAATCCTAA
Statistics
Matches: 418, Mismatches: 19, Indels: 28
0.90 0.04 0.06
Matches are distributed among these distances:
36 16 0.04
37 2 0.00
38 7 0.02
40 2 0.00
41 3 0.01
42 3 0.01
43 3 0.01
45 9 0.02
46 3 0.01
47 275 0.66
49 95 0.23
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:94275632 original size:192 final size:190
Alignment explanation
Indices: 94275299--94275707 Score: 727
Period size: 192 Copynumber: 2.2 Consensus size: 190
94275289 TATACACTTC
94275299 CACATCGG-CA-TAGGCCTTATCAC--ATATATACAATTTCACATTCATCACATCGGCCATTAGG
1 CACATCGGCCATTAGGCCTTATCACATATATATACAATTTCACATTCATCACATCGGCCATTAGG
* *
94275360 CCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
66 CCTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACA
94275425 CTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCAT
131 CTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCAT
*
94275485 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 CACATCGGCCATTAGGCCTTATCACATATATATACAATTTCACATTCATCACATCGGCCATTAGG
94275550 CCTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATA
66 CCTTATCAC--ATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATA
*
94275615 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
129 CACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCAT
*
94275677 CACATCGGCCATTAGGCCTTATCTCATATAT
1 CACATCGGCCATTAGGCCTTATCACATATAT
94275708 GCATGTTCAC
Statistics
Matches: 212, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
186 8 0.04
187 2 0.01
188 13 0.06
190 46 0.22
192 143 0.67
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (190 bp):
CACATCGGCCATTAGGCCTTATCACATATATATACAATTTCACATTCATCACATCGGCCATTAGG
CCTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCAT
Found at i:94275768 original size:239 final size:233
Alignment explanation
Indices: 94275299--94275728 Score: 700
Period size: 239 Copynumber: 1.8 Consensus size: 233
94275289 TATACACTTC
*
94275299 CACATCGGCATAGGCCTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTT
1 CACATCGGCATAGGCCTTATCACATATATACAATTTCACATTCATCACATCGACCATTAGGCCTT
*
94275364 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTT
66 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
* *
94275429 CACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGC
131 CACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATCCATCACATCAG-
* *
94275494 CATTAGGCCTTATCACATATATATACACTTTCACATTCAT
195 CA-TAGGCCTAATCAAATATATATACACTTTCACATTCAT
*
94275534 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGG
1 CACATCGG-CA-TAGGCCTTATCAC--ATATATACAATTTCACATTCATCACATCGACCATTAGG
94275599 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
62 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* * *
94275664 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACA
127 CTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACT-TTCACATCCATCACA
94275728 T
191 T
94275729 AGAATCCTAA
Statistics
Matches: 183, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
235 8 0.04
236 2 0.01
237 13 0.07
238 1 0.01
239 159 0.87
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (233 bp):
CACATCGGCATAGGCCTTATCACATATATACAATTTCACATTCATCACATCGACCATTAGGCCTT
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATCCATCACATCAGC
ATAGGCCTAATCAAATATATATACACTTTCACATTCAT
Found at i:94280443 original size:24 final size:24
Alignment explanation
Indices: 94280411--94280470 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
94280401 AAATCCAATA
* * *
94280411 CACTATGTGTGCG-GTTTACTATGG
1 CACTATGTGTGCGAGTGTAATA-AG
94280435 CACTATGTGTGCGAGTGTAATAAG
1 CACTATGTGTGCGAGTGTAATAAG
94280459 CACTATGTGTGC
1 CACTATGTGTGC
94280471 AAATTCGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 26 0.81
25 6 0.19
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (24 bp):
CACTATGTGTGCGAGTGTAATAAG
Found at i:94282613 original size:18 final size:18
Alignment explanation
Indices: 94282574--94282615 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
94282564 TGCACTCTTT
*
94282574 TTTTCTTCACTCTTTTTG
1 TTTTCTTCACTCTTTTTC
*
94282592 TTTTCTTGA-TCTTTATTC
1 TTTTCTTCACTCTTT-TTC
94282610 TTTTCT
1 TTTTCT
94282616 CTCATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.07, C:0.19, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTCTTCACTCTTTTTC
Found at i:94285972 original size:42 final size:42
Alignment explanation
Indices: 94285912--94286004 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
94285902 TGGCCCATAG
*
94285912 GCCCATTTCAATAACACATGAAATATCAATAAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATAAATGTATGCAA
* *
94285954 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATAAATGTATGCAA
94285996 GCCCATTTC
1 GCCCATTTC
94286005 GGGAGACTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATAAATGTATGCAA
Found at i:94286218 original size:26 final size:26
Alignment explanation
Indices: 94286148--94286244 Score: 117
Period size: 26 Copynumber: 3.8 Consensus size: 26
94286138 CCTCTTTAAT
*
94286148 AACTGGGGGA-AAGCCCTTTTCGGTA
1 AACTGGGGTATAAGCCCTTTTCGGTA
* **
94286173 AGCTGGGGTA-AAGCCCTTTTCAATA
1 AACTGGGGTATAAGCCCTTTTCGGTA
* *
94286198 AACTAGGGTATAAGCCCTTTTCGGTG
1 AACTGGGGTATAAGCCCTTTTCGGTA
*
94286224 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGTATAAGCCCTTTT
94286245 GCACTTCCTC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
25 29 0.48
26 31 0.52
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (26 bp):
AACTGGGGTATAAGCCCTTTTCGGTA
Found at i:94286337 original size:20 final size:21
Alignment explanation
Indices: 94286294--94286350 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
94286284 TTATGAATTC
*
94286294 ATCATGTGCATTTCATA-CAT
1 ATCATGTGCATATCATATCAT
94286314 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATATCAT
*
94286334 ATCATCT--ATATCATATC
1 ATCATGTGCATATCATATC
94286351 CCACGTATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.65
21 2 0.06
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAT
Found at i:94287146 original size:27 final size:27
Alignment explanation
Indices: 94287046--94287129 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
94287036 GGGCATATTC
* *
94287046 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
94287073 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
94287100 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
94287127 GTC
1 GTC
94287130 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:94287221 original size:27 final size:27
Alignment explanation
Indices: 94287188--94287410 Score: 130
Period size: 27 Copynumber: 8.2 Consensus size: 27
94287178 TTGGTAAATC
94287188 TACAAACTAAGGGTATTTCAGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
** * *
94287215 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACTAAGGGTATTTC-AGTAA-TTT
* * *
94287243 TAGAAAGTCAAGGGTATTTCTGTAACTTT
1 TACAAACT-AAGGGTATTTCAGTAA-TTT
* * **
94287272 GTA-AATC-AGGGGTATTTTGGTAATTT
1 -TACAAACTAAGGGTATTTCAGTAATTT
* * *
94287298 TACAAATTAAAGGTATTTCAGTAATTC
1 TACAAACTAAGGGTATTTCAGTAATTT
* * **
94287325 CACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
* ** *
94287352 TACAAACTAGGGGTATTTTGGTAATTC
1 TACAAACTAAGGGTATTTCAGTAATTT
** *
94287379 TATCCTAC-AGGGGTATTTCAGTAATTT
1 TA-CAAACTAAGGGTATTTCAGTAATTT
*
94287406 CACAA
1 TACAA
94287411 TCGAGGGTAA
Statistics
Matches: 148, Mismatches: 40, Indels: 17
0.72 0.20 0.08
Matches are distributed among these distances:
25 2 0.01
26 6 0.04
27 109 0.74
28 11 0.07
29 18 0.12
30 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
TACAAACTAAGGGTATTTCAGTAATTT
Found at i:94287391 original size:54 final size:53
Alignment explanation
Indices: 94287278--94287410 Score: 149
Period size: 54 Copynumber: 2.5 Consensus size: 53
94287268 CTTTGTAAAT
*
94287278 CAGGGGTATTTTGGTAATTTTACAAATTAAAGGTATTTCAGTAATTCCACAAA
1 CAGGGGTATTTTGGTAATTTTACAAACTAAAGGTATTTCAGTAATTCCACAAA
** ** * **
94287331 CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTA
1 C-AGGGGTATTTTGGTAATTTTACAAACTAAAGGTATTTCAGTAATTCCA-CAAA
** *
94287386 CAGGGGTATTTCAGTAATTTCACAA
1 CAGGGGTATTTTGGTAATTTTACAA
94287411 TCGAGGGTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 63 0.94
55 3 0.04
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (53 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAAAGGTATTTCAGTAATTCCACAAA
Found at i:94287443 original size:27 final size:27
Alignment explanation
Indices: 94287409--94287771 Score: 246
Period size: 27 Copynumber: 13.4 Consensus size: 27
94287399 GTAATTTCAC
*
94287409 AATCGAGGGTAAAACGATAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * * *
94287436 AA-CTGAGGTTAAAATGGTAATGTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTATA
* *
94287463 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
94287490 AATCGATGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
94287517 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
94287544 AATCGAGAGT-AAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
**** *
94287570 AATCGAGGGTACTTTGGTAAATTTTACA
1 AATCGAGGGTAAAACGGT-AATTTTATA
* ***** *
94287598 AGTCGAGGGTATTTTAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
* ***** *
94287625 AATCAGGGGGTATTTTAGTAATTTTACA
1 AATC-GAGGGTAAAACGGTAATTTTATA
* ***** *
94287653 AA-CCAGGGGTATTTTAGTAATTTTGTA
1 AATCGA-GGGTAAAACGGTAATTTTATA
*
94287680 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
94287707 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
94287734 AATCGAGGGTAGAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
94287761 AATCGGGGGTA
1 AATCGAGGGTA
94287772 CTTTGGTAAT
Statistics
Matches: 277, Mismatches: 52, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
26 23 0.08
27 205 0.74
28 49 0.18
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:94287603 original size:28 final size:27
Alignment explanation
Indices: 94287558--94287690 Score: 151
Period size: 28 Copynumber: 4.9 Consensus size: 27
94287548 GAGAGTAAAC
* * *
94287558 AGTAATTCTATAAATCGAGGGTACTTT
1 AGTAATTTTACAAATCGAGGGTATTTT
* *
94287585 GGTAAATTTTACAAGTCGAGGGTATTTT
1 AGT-AATTTTACAAATCGAGGGTATTTT
*
94287613 AGTAATTTTACAAATCAGGGGGTATTTT
1 AGTAATTTTACAAATC-GAGGGTATTTT
*
94287641 AGTAATTTTACAAA-CCAGGGGTATTTT
1 AGTAATTTTACAAATCGA-GGGTATTTT
**
94287668 AGTAATTTTGTAAATCGAGGGTA
1 AGTAATTTTACAAATCGAGGGTA
94287691 AAACGGTAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
27 41 0.46
28 48 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (27 bp):
AGTAATTTTACAAATCGAGGGTATTTT
Found at i:94287648 original size:55 final size:55
Alignment explanation
Indices: 94287558--94287690 Score: 153
Period size: 55 Copynumber: 2.4 Consensus size: 55
94287548 GAGAGTAAAC
* * * **
94287558 AGTAATTCTATAAATCGAGGGTACTTTGGTAAATTTTACAAGTC-GAGGGTATTTT
1 AGTAATTTTACAAATCGAGGGTACTTTAGTAAATTTTACAAACCAG-GGGTATTTT
* *
94287613 AGTAATTTTACAAATCAGGGGGTATTTTAGT-AATTTTACAAACCAGGGGTATTTT
1 AGTAATTTTACAAATC-GAGGGTACTTTAGTAAATTTTACAAACCAGGGGTATTTT
**
94287668 AGTAATTTTGTAAATCGAGGGTA
1 AGTAATTTTACAAATCGAGGGTA
94287691 AAACGGTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
54 6 0.09
55 48 0.73
56 12 0.18
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (55 bp):
AGTAATTTTACAAATCGAGGGTACTTTAGTAAATTTTACAAACCAGGGGTATTTT
Found at i:94287771 original size:54 final size:54
Alignment explanation
Indices: 94287409--94287771 Score: 277
Period size: 54 Copynumber: 6.7 Consensus size: 54
94287399 GTAATTTCAC
* * * *
94287409 AATCGAGGGTAAAACGATAATTTTATAAA-CTGAGGTTAAAATGGTAATGT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAATGGTAAT-TCTATA
* *
94287463 AATCGAGGGTAAAACAGTAATTCTATAAATCGATGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
* * *
94287517 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGAGTAAACA--GTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAA-ATGGTAATTCTATA
**** * * * *** * * *
94287570 AATCGAGGGTACTTTGGTAAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACA
1 AATCGAGGGTAAAACGGT-AATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
* ***** * * * *** * * *
94287625 AATCAGGGGGTATTTTAGTAATTTTACAAA-CCAGGGGTATTTTAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATAAATCGA-GGGTAAAATGGTAATTCTATA
94287680 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
* * *
94287734 AATCGAGGGTAGAACGGTAATTCTGTAAATCGGGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
94287772 CTTTGGTAAT
Statistics
Matches: 251, Mismatches: 49, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
53 26 0.10
54 164 0.65
55 50 0.20
56 11 0.04
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:94290078 original size:30 final size:30
Alignment explanation
Indices: 94290044--94290100 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
94290034 AGCTATAATC
* *
94290044 GAGCTAAGTCCGAGCTTGTGAGCTGAAAGT
1 GAGCTAAGTCCGAGCTCGAGAGCTGAAAGT
* *
94290074 GAGCTGAGTCTGAGCTCGAGAGCTGAA
1 GAGCTAAGTCCGAGCTCGAGAGCTGAA
94290101 GTTGAGTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.35, T:0.21
Consensus pattern (30 bp):
GAGCTAAGTCCGAGCTCGAGAGCTGAAAGT
Found at i:94292658 original size:27 final size:27
Alignment explanation
Indices: 94292628--94292805 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
94292618 ATATTGAGCC
* * * *
94292628 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
94292655 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
94292682 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* * * *
94292710 TGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
94292737 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
94292764 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
94292791 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
94292806 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 105 0.81
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:94292767 original size:82 final size:81
Alignment explanation
Indices: 94292649--94292804 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
94292639 TGCTATATAA
* * *
94292649 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTTGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
94292714 CACTTAGTGCCACATGG
65 CACTTAGTGCCACATGG
* * **
94292731 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
94292795 CACTTAGTGC
65 CACTTAGTGC
94292805 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCACATGG
Found at i:94293383 original size:13 final size:13
Alignment explanation
Indices: 94293365--94293389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94293355 TACTAAATTT
94293365 TCATGGATTCAAG
1 TCATGGATTCAAG
94293378 TCATGGATTCAA
1 TCATGGATTCAA
94293390 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:94294891 original size:20 final size:20
Alignment explanation
Indices: 94294866--94294916 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
94294856 TTTACCCCGA
*
94294866 GTATCGATACCCGTGGTATG
1 GTATCGATACCCGTGGTAAG
94294886 GTATCGATACCCGTGGTAAG
1 GTATCGATACCCGTGGTAAG
94294906 GTATCGATACC
1 GTATCGATACC
94294917 AAATTACGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (20 bp):
GTATCGATACCCGTGGTAAG
Found at i:94298518 original size:16 final size:17
Alignment explanation
Indices: 94298488--94298523 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
94298478 GGCACACAGT
94298488 TGTTCTCTCTATCTCTC
1 TGTTCTCTCTATCTCTC
*
94298505 TGTT-TCTCTCTCTCTC
1 TGTTCTCTCTATCTCTC
94298521 TGT
1 TGT
94298524 CGTAATGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.03, C:0.33, G:0.08, T:0.56
Consensus pattern (17 bp):
TGTTCTCTCTATCTCTC
Found at i:94302743 original size:38 final size:38
Alignment explanation
Indices: 94302671--94302945 Score: 370
Period size: 38 Copynumber: 7.2 Consensus size: 38
94302661 GGCTCAAAGG
* * * * *
94302671 CCCGAATATAATACCAGTACTAGGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
94302709 CCTGGATATAATACCATCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
94302747 CCCGGATATATTACCAGCACGAAGCTTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
94302785 CCCGAATATAATACTAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * * *
94302823 CCCAGATATATTACCAACACGAATCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
94302861 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
94302899 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
94302937 CCCAGATAT
1 CCCGGATAT
94302946 CATATTTCGA
Statistics
Matches: 204, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 204 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:94309125 original size:44 final size:44
Alignment explanation
Indices: 94309067--94309153 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
94309057 AGATTAAACC
* *
94309067 GAAGTAACAGTAACAGTACGACACACATGGTGCCTCATTGACTT
1 GAAGTAACAGTAACAGTACGACACACATAGTGCCTCATCGACTT
**
94309111 GAAGTCAA-AGTAACAGTACGACACTTATAGTGCCTCATCGACT
1 GAAGT-AACAGTAACAGTACGACACACATAGTGCCTCATCGACT
94309154 CAAGGTCGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 36 0.95
45 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (44 bp):
GAAGTAACAGTAACAGTACGACACACATAGTGCCTCATCGACTT
Found at i:94310355 original size:3 final size:3
Alignment explanation
Indices: 94310342--94310408 Score: 84
Period size: 3 Copynumber: 22.3 Consensus size: 3
94310332 AATTTATTCC
*
94310342 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATAA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
*
94310386 ATA ATTA ATA ATT ATA ATA ATA A
1 ATA A-TA ATA ATA ATA ATA ATA A
94310409 GCATCTATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.07
3 48 0.86
4 4 0.07
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:94311483 original size:45 final size:45
Alignment explanation
Indices: 94311414--94311578 Score: 240
Period size: 45 Copynumber: 3.7 Consensus size: 45
94311404 TGGCTTGAAA
* *
94311414 AAATGAATAAGACCATAGTGGAAAGACACTGTAACACTATACCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTGTGACACTATACCAG
* *
94311459 AAATGAATAAGACCATAGTTGAAAGACATTGTGGCACTATACCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTGTGACACTATACCAG
* * ***
94311504 AAATGAATAAAACCATAGTTGAAAGACACTATGACACTATAAGGG
1 AAATGAATAAGACCATAGTTGAAAGACACTGTGACACTATACCAG
*
94311549 AAATGAATAAGACCTTAGTTGAAAGACACT
1 AAATGAATAAGACCATAGTTGAAAGACACT
94311579 ATGGCAACAT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 107 1.00
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTGTGACACTATACCAG
Found at i:94311579 original size:45 final size:45
Alignment explanation
Indices: 94311414--94311619 Score: 236
Period size: 45 Copynumber: 4.6 Consensus size: 45
94311404 TGGCTTGAAA
* * * *
94311414 AAATGAATAAGACCATAGTGGAAAGACACTGTAACACTATACCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATAACAG
* * * *
94311459 AAATGAATAAGACCATAGTTGAAAGACATTGTGGCACTATACCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATAACAG
* **
94311504 AAATGAATAAAACCATAGTTGAAAGACACTATGACACTATAAGGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATAACAG
* * *
94311549 AAATGAATAAGACCTTAGTTGAAAGACACTATGGCAAC-ATGAA-GG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGAC-ACTAT-AACAG
**
94311594 AAATGAATAAGACCATTTTTGAAAGA
1 AAATGAATAAGACCATAGTTGAAAGA
94311620 TCCAATGCCT
Statistics
Matches: 142, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
45 138 0.97
46 4 0.03
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATAACAG
Found at i:94313409 original size:93 final size:93
Alignment explanation
Indices: 94313250--94313421 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
94313240 GGATGGTTGA
* * *
94313250 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
94313315 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
94313343 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
94313408 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
94313422 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:94313426 original size:46 final size:46
Alignment explanation
Indices: 94313254--94313428 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
94313244 GGTTGAGCAT
* * *
94313254 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
94313300 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
94313345 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
94313393 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94313429 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 61 0.57
47 27 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:94322681 original size:38 final size:38
Alignment explanation
Indices: 94322588--94322681 Score: 152
Period size: 38 Copynumber: 2.5 Consensus size: 38
94322578 CTCCTTTTTT
* *
94322588 TTTTTAAATTCTCTTTTAAACAATCCAAGATTATCTTC
1 TTTTTAAATTCTTTTTTCAACAATCCAAGATTATCTTC
* *
94322626 TTTTTAAATTCTTTTTTCAACAATTCAAGGTTATCTTC
1 TTTTTAAATTCTTTTTTCAACAATCCAAGATTATCTTC
94322664 TTTTTAAATTCTTTTTTC
1 TTTTTAAATTCTTTTTTC
94322682 TAGGATAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.27, C:0.16, G:0.03, T:0.54
Consensus pattern (38 bp):
TTTTTAAATTCTTTTTTCAACAATCCAAGATTATCTTC
Found at i:94323274 original size:41 final size:39
Alignment explanation
Indices: 94323229--94323337 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 39
94323219 TAAACACATC
*
94323229 CCTTTTCATTTGTTATCTTTTCTGGATCATATCCTTTTCAG
1 CCTTTTCATTTGTTATCTTTTC-GGAT-ATATCCTTTTCAA
* *
94323270 CCTTTTCATTTGATATCATTTTCGAATATATCCTTTTCAA
1 CCTTTTCATTTGTTATC-TTTTCGGATATATCCTTTTCAA
* *
94323310 CCTTTTTATGTGTTATCCTTTTCGGATA
1 CCTTTTCATTTGTTAT-CTTTTCGGATA
94323338 ACTTTCTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
40 34 0.58
41 20 0.34
42 5 0.08
ACGTcount: A:0.18, C:0.20, G:0.09, T:0.52
Consensus pattern (39 bp):
CCTTTTCATTTGTTATCTTTTCGGATATATCCTTTTCAA
Found at i:94323308 original size:40 final size:40
Alignment explanation
Indices: 94323229--94323377 Score: 131
Period size: 41 Copynumber: 3.6 Consensus size: 40
94323219 TAAACACATC
* *
94323229 CCTTTTCATTTGTTATCTTTTCTGGATCATATCCTTTTCAG
1 CCTTTTCATTTGTTATCTTTTC-GAATCATATCCTTTTCAA
*
94323270 CCTTTTCATTTGATATCATTTTCGAAT-ATATCCTTTTCAA
1 CCTTTTCATTTGTTATC-TTTTCGAATCATATCCTTTTCAA
* * * * * *
94323310 CCTTTTTATGTGTTATCCTTTTCGGATAACT-TTCTTTTTAA
1 CCTTTTCATTTGTTAT-CTTTTCGAATCA-TATCCTTTTCAA
* **
94323351 CATTTTCAAGTGTTATCCTTTTCGAAT
1 CCTTTTCATTTGTTAT-CTTTTCGAAT
94323378 AGCTTCCTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 33 0.36
41 52 0.57
42 6 0.07
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.52
Consensus pattern (40 bp):
CCTTTTCATTTGTTATCTTTTCGAATCATATCCTTTTCAA
Found at i:94323396 original size:41 final size:40
Alignment explanation
Indices: 94323283--94323396 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 40
94323273 TTTCATTTGA
* * *
94323283 TATCATTTTCGAATA-TATCCTTTTCAACC-TTTTTATGTGT
1 TATCCTTTTCGAATACT-TCC-TTTCAACCATTTTCAAGTGT
* * *
94323323 TATCCTTTTCGGATAACTTTCTTTTTAA-CATTTTCAAGTGT
1 TATCCTTTTCGAAT-AC-TTCCTTTCAACCATTTTCAAGTGT
94323364 TATCCTTTTCGAATAGCTTCCTTTCAACCATTT
1 TATCCTTTTCGAATA-CTTCCTTTCAACCATTT
94323397 CATGGATTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
40 22 0.37
41 34 0.58
42 2 0.03
43 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.50
Consensus pattern (40 bp):
TATCCTTTTCGAATACTTCCTTTCAACCATTTTCAAGTGT
Found at i:94334718 original size:51 final size:49
Alignment explanation
Indices: 94334592--94334776 Score: 180
Period size: 49 Copynumber: 3.7 Consensus size: 49
94334582 TGAATACACG
* * *
94334592 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AT-ACTGTTAATTAGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAATGAC--TTGATCA-CA
* *
94334642 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTAC-CAATGACTT-GATCACA
* * * *
94334693 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTG--TTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACC--AATGACTTGATCACA
* *
94334742 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCA
94334777 GATAGCTTCG
Statistics
Matches: 115, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
47 1 0.01
49 35 0.30
50 34 0.30
51 35 0.30
52 8 0.07
53 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAATGACTTGATCACA
Found at i:94334765 original size:49 final size:48
Alignment explanation
Indices: 94334592--94334767 Score: 194
Period size: 51 Copynumber: 3.5 Consensus size: 48
94334582 TGAATACACG
*
94334592 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTA-ATTAGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-A-TGTTAGA-TCGCA
* * * * *
94334642 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAATG--TTAGATCGCA
* *
94334693 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC--AATGTTAGATCGCA
94334742 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
94334768 TGCATACCAG
Statistics
Matches: 108, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
49 32 0.30
50 35 0.32
51 37 0.34
52 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATGTTAGATCGCA
Found at i:94350169 original size:48 final size:48
Alignment explanation
Indices: 94350098--94350192 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
94350088 TATCAAGTTC
94350098 ACTCACGGCCATGTTGCACGGCCGTGGGGATTTATCGCATCCTGTGTA
1 ACTCACGGCCATGTTGCACGGCCGTGGGGATTTATCGCATCCTGTGTA
94350146 ACTCACGGCCATGTTGCACGGCCGTGGGGATTTATCGCATCCTGTGT
1 ACTCACGGCCATGTTGCACGGCCGTGGGGATTTATCGCATCCTGTGT
94350193 TTTAGGGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.27
Consensus pattern (48 bp):
ACTCACGGCCATGTTGCACGGCCGTGGGGATTTATCGCATCCTGTGTA
Found at i:94351173 original size:42 final size:42
Alignment explanation
Indices: 94351114--94351198 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
94351104 CTTTCACTAG
94351114 TACATCTTCAATAATACCCCTAGGAAATCTTATAGTTTTATC
1 TACATCTTCAATAATACCCCTAGGAAATCTTATAGTTTTATC
94351156 TACATCTTCAATAATACCCCTAGGAAATCTTATAGTTTTATC
1 TACATCTTCAATAATACCCCTAGGAAATCTTATAGTTTTATC
94351198 T
1 T
94351199 GCCAATTGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (42 bp):
TACATCTTCAATAATACCCCTAGGAAATCTTATAGTTTTATC
Found at i:94355021 original size:27 final size:27
Alignment explanation
Indices: 94354991--94355131 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
94354981 GTGACGAAGT
*
94354991 CACCAGATACAGATATTGTGGTAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
94355018 CACCATA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
94355045 CACCAGAT-TAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
94355072 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
94355099 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
94355126 CACCAG
1 CACCAG
94355132 GACGCTTCCT
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 10 0.10
27 83 0.86
28 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:94355132 original size:54 final size:54
Alignment explanation
Indices: 94354991--94355134 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
94354981 GTGACGAAGT
* * **
94354991 CACCAGATACAGAT-ATTGTGGTAGAGCCACCATAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
94355045 CACCAGATTAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
94355099 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
94355135 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 4 0.05
54 79 0.95
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:94360451 original size:45 final size:44
Alignment explanation
Indices: 94360400--94360489 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 44
94360390 TTAAAGGGAA
94360400 GAAAAATAATATTGAGACAAATTTTATATCCAAAAATGATGAAAT
1 GAAAAATAATATTGAGACAAATTTTATATCCAAAAA-GATGAAAT
94360445 GAAAAATAATATTGAGACAAATTTTATATCCAAAAAGATGAAAT
1 GAAAAATAATATTGAGACAAATTTTATATCCAAAAAGATGAAAT
94360489 G
1 G
94360490 GAGGCAAAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 9 0.20
45 36 0.80
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (44 bp):
GAAAAATAATATTGAGACAAATTTTATATCCAAAAAGATGAAAT
Found at i:94372140 original size:27 final size:27
Alignment explanation
Indices: 94372110--94372171 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
94372100 TTGTGCAAAA
* **
94372110 ATAAAGTAAAAAATGAAGTTGTAAGAT
1 ATAAAGCAAAAAATGAAGTCATAAGAT
*
94372137 ATAAAGCAAAAACTGAAGTCATAAGAT
1 ATAAAGCAAAAAATGAAGTCATAAGAT
94372164 ATAAAGCA
1 ATAAAGCA
94372172 CGACTTGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.21
Consensus pattern (27 bp):
ATAAAGCAAAAAATGAAGTCATAAGAT
Found at i:94373055 original size:25 final size:25
Alignment explanation
Indices: 94373026--94373083 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
94373016 CCAAATACCT
94373026 ATTTAACATCATGTATAATCCATTC
1 ATTTAACATCATGTATAATCCATTC
94373051 ATTTAACATCATGTATAATCCATTC
1 ATTTAACATCATGTATAATCCATTC
94373076 ATTTAACA
1 ATTTAACA
94373084 ACTACATATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (25 bp):
ATTTAACATCATGTATAATCCATTC
Found at i:94385960 original size:14 final size:15
Alignment explanation
Indices: 94385941--94385970 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
94385931 ATATTTAACT
94385941 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
94385955 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
94385970 T
1 T
94385971 TTTGATAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:94388972 original size:28 final size:27
Alignment explanation
Indices: 94388912--94389060 Score: 217
Period size: 27 Copynumber: 5.4 Consensus size: 27
94388902 TAAATTGTGC
* *
94388912 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
94388939 ACCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
94388967 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
94388994 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
94389022 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
94389049 AGCACTGAGTGT
1 AGCACTAAGTGT
94389061 CCGGACTTAA
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 62 0.55
28 51 0.45
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:94388977 original size:55 final size:55
Alignment explanation
Indices: 94388912--94389060 Score: 226
Period size: 55 Copynumber: 2.7 Consensus size: 55
94388902 TAAATTGTGC
* * *
94388912 AGCACTAAGTGTGCGAATTGAATATGTACCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
94388967 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
94389022 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGT
94389061 CCGGACTTAA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 86 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:94412126 original size:40 final size:40
Alignment explanation
Indices: 94412082--94412342 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
94412072 GCTCCTCGTT
* *
94412082 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
94412122 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
94412162 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
94412201 CAAATGCCTT-GGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
94412239 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
94412278 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
94412319 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
94412343 CATCATTCAA
Statistics
Matches: 202, Mismatches: 10, Indels: 19
0.87 0.04 0.08
Matches are distributed among these distances:
38 40 0.20
39 87 0.43
40 64 0.32
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:94412248 original size:77 final size:78
Alignment explanation
Indices: 94412082--94412342 Score: 313
Period size: 77 Copynumber: 3.3 Consensus size: 78
94412072 GCTCCTCGTT
* * *
94412082 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCC
*
94412145 GGATTTAGTAACTCGCA
63 GGAATTAGT-ACTCGCA
94412162 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTT-GGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
94412225 ATTAGTATCTCGCA
66 ATTAGTA-CTCGCA
* * *
94412239 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG-GCTTAGCCCGG
*
94412303 ATATT-GTCACTTAGCA
65 A-ATTAGT-AC-TCGCA
94412319 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
94412343 CATCATTCAA
Statistics
Matches: 163, Mismatches: 9, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
76 1 0.01
77 69 0.42
78 15 0.09
79 54 0.33
80 24 0.15
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
ATTAGTACTCGCA
Found at i:94420149 original size:40 final size:40
Alignment explanation
Indices: 94420105--94420364 Score: 319
Period size: 38 Copynumber: 6.7 Consensus size: 40
94420095 GCTCCTCGTT
* *
94420105 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
94420145 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
94420185 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
94420224 CAAATGCCTT-GGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
94420262 CAAATGCCTTC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
94420300 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
94420341 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
94420365 CATCATTCAA
Statistics
Matches: 202, Mismatches: 9, Indels: 19
0.88 0.04 0.08
Matches are distributed among these distances:
38 78 0.39
39 49 0.24
40 64 0.32
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:94420303 original size:76 final size:79
Alignment explanation
Indices: 94420105--94420364 Score: 313
Period size: 79 Copynumber: 3.3 Consensus size: 79
94420095 GCTCCTCGTT
* *
94420105 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
*
94420168 GGATTTAGTAACTCGCA
63 GGAATTAGTAACTCGCA
*
94420185 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTT-GGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
94420248 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
**
94420262 CAAATGCCTTC-GGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
94420325 ATATT-GTCACTTAGCA
65 A-ATTAGTAAC-TCGCA
94420341 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
94420365 CATCATTCAA
Statistics
Matches: 162, Mismatches: 9, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
76 39 0.24
77 39 0.24
78 22 0.14
79 47 0.29
80 15 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTAACTCGCA
Found at i:94433380 original size:21 final size:21
Alignment explanation
Indices: 94433356--94433398 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
94433346 CTATAGGTAA
94433356 GCATATTGATGGCTTTATCTT
1 GCATATTGATGGCTTTATCTT
94433377 GCATATTGATGGCTTTATCTT
1 GCATATTGATGGCTTTATCTT
94433398 G
1 G
94433399 ACTTAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.47
Consensus pattern (21 bp):
GCATATTGATGGCTTTATCTT
Found at i:94434022 original size:40 final size:40
Alignment explanation
Indices: 94433950--94434132 Score: 246
Period size: 40 Copynumber: 4.6 Consensus size: 40
94433940 TATTCGAATG
*
94433950 ATATCCGGGCTAAG-TCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
94433989 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
94434029 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
94434069 ATATCCGGGATAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
94434109 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
94434133 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 14 0.11
40 110 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:94435438 original size:4 final size:4
Alignment explanation
Indices: 94435429--94435456 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
94435419 GCTTGTCTGG
94435429 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
94435457 GAACTGTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:94437795 original size:42 final size:43
Alignment explanation
Indices: 94437689--94437837 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 43
94437679 TGTGTTGTCC
* * * *
94437689 TGTAAGACCACGTCTAGGAC-GTTGGCATCGAT-TTGAGATTTACA
1 TGTAAGACCATGTCTGGGACAG-TAGCATCGATATT-TGA-TTACA
* * * * * *
94437733 TATAAGACCATGTTTAGGACA-TCGGCATC-ATATTTGATTTCG
1 TGTAAGACCATGTCTGGGACAGT-AGCATCGATATTTGATTACA
*
94437775 TGTAAGACCTTGTCTGGGACAGTAGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTAGCATCGATATTTGATTACA
*
94437818 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
94437838 GTTGGCATTG
Statistics
Matches: 85, Mismatches: 15, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
42 25 0.29
43 35 0.41
44 25 0.29
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTAGCATCGATATTTGATTACA
Done.