Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 313 of 425
Found at i:97398611 original size:46 final size:46
Alignment explanation
Indices: 97398426--97398611 Score: 154
Period size: 46 Copynumber: 4.0 Consensus size: 46
97398416 GCCCATAAGC
** * *
97398426 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
97398472 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * * *
97398518 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
97398564 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
97398610 GA
1 GA
97398612 CATGTCACTT
Statistics
Matches: 114, Mismatches: 12, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 93 0.82
47 1 0.01
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:97409211 original size:93 final size:93
Alignment explanation
Indices: 97409103--97409274 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
97409093 CGCCCATAAG
* *
97409103 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
97409168 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
97409196 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
97409261 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
97409275 TCAACCATCC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:97409271 original size:46 final size:46
Alignment explanation
Indices: 97409096--97409271 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
97409086 TGTAACCCGC
* *
97409096 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
97409142 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
97409192 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
97409235 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
97409272 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:97414936 original size:28 final size:27
Alignment explanation
Indices: 97414870--97414939 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
97414860 ATAGTGAGTC
* *
97414870 CGCACACTTAGTGATATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAACT
* * *
97414897 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AACT
97414925 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
97414940 GTACAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAACT
Found at i:97415012 original size:42 final size:42
Alignment explanation
Indices: 97414948--97415054 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
97414938 CTGTACAAAT
*
97414948 TTTAAACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
97414990 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
97415032 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
97415055 GAAATCAACA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:97420646 original size:28 final size:27
Alignment explanation
Indices: 97420580--97420649 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
97420570 ATAGTGAGTC
* * *
97420580 CGCACACTTAGTGATATAAAATCAGCT
1 CGCACACTTAGTGCTAGAAAATCAACT
* * *
97420607 CGCACACATAGTGCTAGATAATCAAATT
1 CGCACACTTAGTGCTAGAAAATC-AACT
97420635 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
97420650 GTACAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
27 19 0.54
28 16 0.46
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTAGAAAATCAACT
Found at i:97420722 original size:42 final size:42
Alignment explanation
Indices: 97420658--97420764 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
97420648 CTGTACAAAT
*
97420658 TTTAAACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
97420700 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
97420742 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
97420765 GAAATCAACA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:97428671 original size:28 final size:27
Alignment explanation
Indices: 97428605--97428674 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
97428595 ATAGTGAGTC
* *
97428605 CGCACACTTAGTGATATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAACT
* * *
97428632 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AACT
97428660 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
97428675 GTACAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAACT
Found at i:97430205 original size:39 final size:39
Alignment explanation
Indices: 97430158--97430412 Score: 404
Period size: 39 Copynumber: 6.5 Consensus size: 39
97430148 GTGTGAGATA
*
97430158 TATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
97430197 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
97430236 TATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
97430275 TATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
97430314 TATACCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* * * *
97430353 TATATCTGGGCTAAGTCCTGAAGGC-TTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
97430391 TACATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
97430413 CATGCTTTGT
Statistics
Matches: 200, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
38 20 0.10
39 173 0.87
40 7 0.04
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:97435943 original size:50 final size:50
Alignment explanation
Indices: 97435815--97435943 Score: 204
Period size: 50 Copynumber: 2.6 Consensus size: 50
97435805 GTAGATGTAA
* * * * *
97435815 AGCCTATGGGCTTGTCACTTGGTTCCTAAATGTGTTTCTAGAGGGATGTT
1 AGCCTACGGGCTAGGCACTTGGTGCCTAGATGTGTTTCTAGAGGGATGTT
*
97435865 AGCCTACAGGCTAGGCACTTGGTGCCTAGATGTGTTTCTAGAGGGATGTT
1 AGCCTACGGGCTAGGCACTTGGTGCCTAGATGTGTTTCTAGAGGGATGTT
97435915 AGCCTACGGGCTAGGCACTTGGTGCCTAG
1 AGCCTACGGGCTAGGCACTTGGTGCCTAG
97435944 GCGTGTTAGG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (50 bp):
AGCCTACGGGCTAGGCACTTGGTGCCTAGATGTGTTTCTAGAGGGATGTT
Found at i:97439033 original size:45 final size:45
Alignment explanation
Indices: 97438967--97439133 Score: 218
Period size: 45 Copynumber: 3.8 Consensus size: 45
97438957 AGTACTATTT
*
97438967 GGGCCATT-GAGCCTAGGAGGCTATAATGCCGGTGAGATACAATTC
1 GGGCC-TTCGAGCCTAGCAGGCTATAATGCCGGTGAGATACAATTC
* *
97439012 GGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTC
1 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATACAATTC
**
97439057 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-ATGATATC
1 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATACAAT-TC
* *
97439101 GGG-CTTCGAGCCTAGCAGGCGA-AATGTCGGTGA
1 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
97439134 ATGAGTTCAG
Statistics
Matches: 113, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
42 10 0.09
43 21 0.19
44 8 0.07
45 74 0.65
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (45 bp):
GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATACAATTC
Found at i:97446163 original size:31 final size:31
Alignment explanation
Indices: 97446125--97446183 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
97446115 TTCATATTTC
*
97446125 ATATTTCATAACACTGGGCCGAAGCCTTTTA
1 ATATTTCATAACACTAGGCCGAAGCCTTTTA
**
97446156 ATATTTCATATTACTAGGCCGAAGCCTT
1 ATATTTCATAACACTAGGCCGAAGCCTT
97446184 CACTGTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (31 bp):
ATATTTCATAACACTAGGCCGAAGCCTTTTA
Found at i:97446463 original size:26 final size:25
Alignment explanation
Indices: 97446391--97446474 Score: 100
Period size: 26 Copynumber: 3.4 Consensus size: 25
97446381 CTGGAGGCCT
* *
97446391 AGCCTCTTTT-AATAACTAGGGC-AA
1 AGCC-CTTTTGAAAAACTGGGGCAAA
97446415 AGCCCTTTTGAAAAACTGGGGCAAA
1 AGCCCTTTTGAAAAACTGGGGCAAA
**
97446440 AGCCCTTTTCGGTAAACTGGGGCAAA
1 AGCCCTTTT-GAAAAACTGGGGCAAA
97446466 AGCCCTTTT
1 AGCCCTTTT
97446475 TGCACTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.09
24 14 0.26
25 11 0.21
26 23 0.43
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
AGCCCTTTTGAAAAACTGGGGCAAA
Found at i:97448021 original size:40 final size:40
Alignment explanation
Indices: 97447962--97448130 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
97447952 CGGGACTTTA
* * *
97447962 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
97448002 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
97448042 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
97448082 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
97448122 CCCGGATAT
1 CCCGGATAT
97448131 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:97456056 original size:40 final size:40
Alignment explanation
Indices: 97455997--97456165 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
97455987 CGGGACTTTA
* * *
97455997 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
97456037 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
97456077 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
97456117 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
97456157 CCCGGATAT
1 CCCGGATAT
97456166 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:97461063 original size:45 final size:45
Alignment explanation
Indices: 97460999--97461132 Score: 198
Period size: 46 Copynumber: 3.0 Consensus size: 45
97460989 TATCGTATAG
*
97460999 TACTATTCGGGCCTTTGAGCCCAGCAGGCTATAATGTCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGAGA
* *
97461044 TACTATTCGGGCCTTTGAGCCTAGTAGACTATTAAT-TCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTA-TAATGT-CGGTGAGA
* *
97461090 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGA
97461133 AATGATATCG
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
45 39 0.49
46 40 0.51
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGAGA
Found at i:97461102 original size:46 final size:45
Alignment explanation
Indices: 97460999--97461132 Score: 198
Period size: 45 Copynumber: 3.0 Consensus size: 45
97460989 TATCGTATAG
*
97460999 TACTATTCGGGCCTTTGAGCCCAGCAGGCTATAATGT-CGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAAT-TCCGGTGAGA
* *
97461044 TACTATTCGGGCCTTTGAGCCTAGTAGACTATTAATTCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTA-TAATTCCGGTGAGA
* *
97461090 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATTCCGGTGA
97461133 AATGATATCG
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 40 0.50
46 40 0.50
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATTCCGGTGAGA
Found at i:97471370 original size:27 final size:28
Alignment explanation
Indices: 97471340--97471394 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
97471330 CCAAATTGAT
97471340 AAATAACTATTATGTCCC-TATG-ATGTA
1 AAATAACTATTATG-CCCTTATGTATGTA
* *
97471367 AAATGACTGTTATGCCCTTATGTATGTA
1 AAATAACTATTATGCCCTTATGTATGTA
97471395 TGACTGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 16 0.67
28 5 0.21
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (28 bp):
AAATAACTATTATGCCCTTATGTATGTA
Found at i:97472381 original size:29 final size:29
Alignment explanation
Indices: 97472334--97472395 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
97472324 GGGGTATTAC
* *
97472334 AAAAGGGATGGTGATGACCATTAACTATG
1 AAAAGGGATGATGACGACCATTAACTATG
97472363 AAAAGGGATGATGACGACCATTAACTATG
1 AAAAGGGATGATGACGACCATTAACTATG
97472392 AAAA
1 AAAA
97472396 ACGATGGTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.21
Consensus pattern (29 bp):
AAAAGGGATGATGACGACCATTAACTATG
Found at i:97472401 original size:29 final size:29
Alignment explanation
Indices: 97472340--97472412 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
97472330 TTACAAAAGG
* **
97472340 GATGGTGATGACCATTAACTATGAAAAGG
1 GATGGTGACGACCATTAACTATGAAAAAC
*
97472369 GATGATGACGACCATTAACTATGAAAAAC
1 GATGGTGACGACCATTAACTATGAAAAAC
*
97472398 GATGGTGACAACCAT
1 GATGGTGACGACCAT
97472413 CGATTAATGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (29 bp):
GATGGTGACGACCATTAACTATGAAAAAC
Found at i:97472467 original size:28 final size:28
Alignment explanation
Indices: 97472398--97472499 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 28
97472388 TATGAAAAAC
97472398 GATGGTGACAACCATCGATTAATG-GAAAGG
1 GATGGTGACAACCATCG---AATGTGAAAGG
**
97472428 GATGGTTTCAACCATCGAATGTGAAAGG
1 GATGGTGACAACCATCGAATGTGAAAGG
* *
97472456 GATGGTGACAACCATCGAATATGAAAAGA
1 GATGGTGACAACCATCGAATGTG-AAAGG
* *
97472485 GACGGTTACAACCAT
1 GATGGTGACAACCAT
97472500 TGTTTAGCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
27 4 0.06
28 26 0.42
29 17 0.27
30 15 0.24
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (28 bp):
GATGGTGACAACCATCGAATGTGAAAGG
Found at i:97483417 original size:29 final size:29
Alignment explanation
Indices: 97483393--97483486 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
97483383 TCGCACACCC
*
97483393 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
97483422 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
97483451 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
97483480 AGTGCCA
1 AGTGCCA
97483487 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:97483418 original size:58 final size:58
Alignment explanation
Indices: 97483355--97483486 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 58
97483345 GATTTAAGCC
* * * *
97483355 CGCACACATAGTGCCACACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCACACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * * **
97483413 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCACACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
97483471 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
97483487 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
58 61 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (58 bp):
CGCACACTTAGTGCCACACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:97489944 original size:40 final size:40
Alignment explanation
Indices: 97489836--97490045 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
97489826 CGGGATTTAA
* * * * *
97489836 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
97489876 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
97489916 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
97489956 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
97489996 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
97490036 CCGGATATAT
1 CCGGATATAT
97490046 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:97501156 original size:27 final size:27
Alignment explanation
Indices: 97501088--97501158 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
97501078 CGACTTGTAA
* *
97501088 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
97501115 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
97501142 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
97501159 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:97501165 original size:27 final size:27
Alignment explanation
Indices: 97501142--97501265 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
97501132 CAATTTACAG
97501142 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
97501169 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
97501196 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
**
97501223 AATTACCAAAATACCAATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
97501250 AATTACTAAAATACCC
1 AATTACCAAAATACCC
97501266 CTGTAGGGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:97501184 original size:54 final size:53
Alignment explanation
Indices: 97501126--97501237 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 53
97501116 ATTACCGTTT
97501126 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
97501180 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
97501234 TACC
1 TACC
97501238 AATGGTTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.04
54 39 0.78
55 7 0.14
56 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:97501244 original size:54 final size:54
Alignment explanation
Indices: 97501142--97501265 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
97501132 CAATTTACAG
* ** *
97501142 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
* *
97501196 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
97501250 AATTACTAAAATACCC
1 AATTACTAAAATACCC
97501266 CTGTAGGGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
Found at i:97501278 original size:27 final size:27
Alignment explanation
Indices: 97501248--97501309 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
97501238 AATGGTTTGA
97501248 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
97501275 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
97501302 AAAATTAC
1 AAAATTAC
97501310 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:97501278 original size:54 final size:54
Alignment explanation
Indices: 97501142--97501291 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
97501132 CAATTTACAG
* ** * ** *
97501142 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
97501196 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
97501250 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACC
97501292 CTTGTGGGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 79 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
Found at i:97501294 original size:81 final size:81
Alignment explanation
Indices: 97501142--97501294 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
97501132 CAATTTACAG
** **
97501142 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
97501207 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
97501223 AATTACCAAAATACCAATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCAATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
97501286 AATACCCTT
64 AATACCCTT
97501295 GTGGGGTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:97501948 original size:41 final size:41
Alignment explanation
Indices: 97501900--97501983 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
97501890 ATAAAAATTA
97501900 CTGAATTAGCTTGTGTAGTAGCGTAGATCACGAAATTACCC
1 CTGAATTAGCTTGTGTAGTAGCGTAGATCACGAAATTACCC
*
97501941 CTGAATTAGCTTGTGTGGTAGCGTAGATCACGAAATTACCC
1 CTGAATTAGCTTGTGTAGTAGCGTAGATCACGAAATTACCC
97501982 CT
1 CT
97501984 AAAGAGCAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
CTGAATTAGCTTGTGTAGTAGCGTAGATCACGAAATTACCC
Found at i:97502004 original size:28 final size:28
Alignment explanation
Indices: 97501971--97502067 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
97501961 GCGTAGATCA
97501971 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
97501999 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
97502027 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
97502055 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
97502068 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:97505288 original size:27 final size:27
Alignment explanation
Indices: 97505220--97505290 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
97505210 CGACTTGTAA
* *
97505220 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
97505247 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
97505274 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
97505291 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:97505297 original size:27 final size:27
Alignment explanation
Indices: 97505274--97505397 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
97505264 CAATTTACAG
97505274 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
97505301 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
97505328 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
**
97505355 AATTACCAAAATACCAATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
97505382 AATTACTAAAATACCC
1 AATTACCAAAATACCC
97505398 CTGTAGGGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:97505316 original size:54 final size:53
Alignment explanation
Indices: 97505258--97505369 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 53
97505248 ATTACCGTTT
97505258 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
97505312 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
97505366 TACC
1 TACC
97505370 AATGGTTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.04
54 39 0.78
55 7 0.14
56 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:97505376 original size:54 final size:54
Alignment explanation
Indices: 97505274--97505397 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
97505264 CAATTTACAG
* ** *
97505274 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
* *
97505328 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
97505382 AATTACTAAAATACCC
1 AATTACTAAAATACCC
97505398 CTGTAGGGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
Found at i:97505410 original size:27 final size:27
Alignment explanation
Indices: 97505380--97505441 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
97505370 AATGGTTTGA
97505380 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
97505407 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
97505434 AAAATTAC
1 AAAATTAC
97505442 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:97505410 original size:54 final size:54
Alignment explanation
Indices: 97505274--97505423 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
97505264 CAATTTACAG
* ** * ** *
97505274 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
97505328 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
97505382 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACC
97505424 CTTGTGGGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 79 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
Found at i:97505426 original size:81 final size:81
Alignment explanation
Indices: 97505274--97505426 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
97505264 CAATTTACAG
** **
97505274 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
97505339 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
97505355 AATTACCAAAATACCAATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCAATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
97505418 AATACCCTT
64 AATACCCTT
97505427 GTGGGGTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:97506080 original size:41 final size:41
Alignment explanation
Indices: 97506032--97506115 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
97506022 ATAAAAATTA
97506032 CTGAATTAGCTTGTGTAGTAGCGTAGATCACGAAATTACCC
1 CTGAATTAGCTTGTGTAGTAGCGTAGATCACGAAATTACCC
97506073 CTGAATTAGCTTGTGTAGTAGCGTAGATCACGAAATTACCC
1 CTGAATTAGCTTGTGTAGTAGCGTAGATCACGAAATTACCC
97506114 CT
1 CT
97506116 AAAGAGCAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (41 bp):
CTGAATTAGCTTGTGTAGTAGCGTAGATCACGAAATTACCC
Found at i:97506136 original size:28 final size:28
Alignment explanation
Indices: 97506103--97506199 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
97506093 GCGTAGATCA
97506103 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
97506131 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
97506159 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
97506187 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
97506200 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:97507457 original size:29 final size:29
Alignment explanation
Indices: 97507433--97507526 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
97507423 TCGCACACCC
*
97507433 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
97507462 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
97507491 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
97507520 AGTGCCA
1 AGTGCCA
97507527 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:97507458 original size:58 final size:58
Alignment explanation
Indices: 97507395--97507526 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
97507385 GATTTAAGCC
* * * *
97507395 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
97507453 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
97507511 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
97507527 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:97512390 original size:43 final size:43
Alignment explanation
Indices: 97512328--97512413 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
97512318 TCATATTTCA
*
97512328 TTTCTCATCTAATAATCATTTCTCATATTTGCCATTTCAATAT
1 TTTCTAATCTAATAATCATTTCTCATATTTGCCATTTCAATAT
* * * *
97512371 TTTCTAATCTCATATTCATTTCTCATCTTTGTCATTTCAATAT
1 TTTCTAATCTAATAATCATTTCTCATATTTGCCATTTCAATAT
97512414 CAATCACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTCTAATCTAATAATCATTTCTCATATTTGCCATTTCAATAT
Found at i:97513621 original size:16 final size:18
Alignment explanation
Indices: 97513600--97513632 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
97513590 CATCTATTTT
97513600 TCTTTC-TTTT-ATTATA
1 TCTTTCATTTTAATTATA
97513616 TCTTTCATTTTAATTAT
1 TCTTTCATTTTAATTAT
97513633 TATAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTTCATTTTAATTATA
Found at i:97516532 original size:86 final size:88
Alignment explanation
Indices: 97516387--97516673 Score: 273
Period size: 88 Copynumber: 3.3 Consensus size: 88
97516377 GCATCGATTA
* * *
97516387 ATGAAAATGGAT-AGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATCAACTATGAGA
1 ATGAAAAAGGATGAGTTTCGACTATCAACTATGAAAAGGGATGGTGATGACCATCAACTATGAAA
* *
97516451 AGGGGT-GTGACGACCATCAAAT
66 AAGGATGGTGACGACCATCAAAT
* * *
97516473 ATGAAAAGGGATGA-TTTCTACTATCAACTATGAAAAGGGATGGTGATGACCATCGACTATGAAA
1 ATGAAAAAGGATGAGTTTCGACTATCAACTATGAAAAGGGATGGTGATGACCATCAACTATGAAA
*
97516537 AAGGATGGTGACGACCATCAACT
66 AAGGATGGTGACGACCATCAAAT
* ** * * * *
97516560 ATGAAAAAGGATG-CTGACGACCATCAATTAATGAAAAGGGATAGT-TTCGACCATCGAA-TATG
1 ATGAAAAAGGATGAGTTTCGACTATCAACT-ATGAAAAGGGATGGTGAT-GACCATC-AACTATG
* * * **
97516622 AAAATGGTTGGTGACAACCATTGAAT
63 AAAAAGGATGGTGACGACCATCAAAT
* * * *
97516648 ACGAAAAGGGATG-GTTACGACCATCA
1 ATGAAAAAGGATGAGTTTCGACTATCA
97516674 TGCAGCACAC
Statistics
Matches: 168, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
86 61 0.36
87 39 0.23
88 67 0.40
89 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (88 bp):
ATGAAAAAGGATGAGTTTCGACTATCAACTATGAAAAGGGATGGTGATGACCATCAACTATGAAA
AAGGATGGTGACGACCATCAAAT
Found at i:97516641 original size:29 final size:29
Alignment explanation
Indices: 97516372--97516672 Score: 234
Period size: 29 Copynumber: 10.3 Consensus size: 29
97516362 ACGAAGTATC
* * * *
97516372 GACGAGCATCGATTAATGAAAATGGATAGT
1 GACGACCATCGAAT-ATGAAAAGGGATGGT
** * *
97516402 TTCGACTATCGACTATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
* * *
97516431 GATGACCATC-AACTATGAGAAGGGGT-GT
1 GACGACCATCGAA-TATGAAAAGGGATGGT
* *
97516459 GACGACCATCAAATATGAAAAGGGATGAT
1 GACGACCATCGAATATGAAAAGGGATGGT
** * *
97516488 TTCTACTATC-AACTATGAAAAGGGATGGT
1 GACGACCATCGAA-TATGAAAAGGGATGGT
* * *
97516517 GATGACCATCGACTATGAAAAAGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
* *
97516546 GACGACCATC-AACTATGAAAAAGGATGCT
1 GACGACCATCGAA-TATGAAAAGGGATGGT
*
97516575 GACGACCATC-AATTAATGAAAAGGGATAGT
1 GACGACCATCGAA-T-ATGAAAAGGGATGGT
** * *
97516605 TTCGACCATCGAATATGAAAATGGTTGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
* * *
97516634 GACAACCATTGAATACGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
*
97516663 TACGACCATC
1 GACGACCATC
97516673 ATGCAGCACA
Statistics
Matches: 211, Mismatches: 52, Indels: 17
0.75 0.19 0.06
Matches are distributed among these distances:
28 26 0.12
29 152 0.72
30 31 0.15
31 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (29 bp):
GACGACCATCGAATATGAAAAGGGATGGT
Found at i:97520017 original size:27 final size:26
Alignment explanation
Indices: 97519970--97520020 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
97519960 CGAGGCTGCC
*
97519970 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
97519996 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
97520021 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:97528655 original size:47 final size:47
Alignment explanation
Indices: 97528558--97528680 Score: 151
Period size: 47 Copynumber: 2.6 Consensus size: 47
97528548 GTGCGAATAA
* * *
97528558 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTATCCAGAGAGAAGT
* *
97528605 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCCAG-GATAATT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTA-TCCAGAGAGAAGT
* * *
97528652 TACCTTGATTTTGCTA-TGGTCATGGTATA
1 TACCTTGATTTGGCTACAGGCCATGGTATA
97528681 AATACTTATC
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 11 0.16
47 52 0.78
48 4 0.06
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACAGGCCATGGTATAGGTATCCAGAGAGAAGT
Found at i:97530045 original size:22 final size:21
Alignment explanation
Indices: 97530017--97530075 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 21
97530007 AAGGCCTTAT
97530017 AATGGACAATATGAATGTGTTG
1 AATGGACAATATGAATGT-TTG
*
97530039 AATGGACTTTGATTATGAATGTTTG
1 AATGGAC----AATATGAATGTTTG
97530064 AATGGACAATAT
1 AATGGACAATAT
97530076 TATCGGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 4 0.13
22 7 0.23
25 10 0.32
26 10 0.32
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (21 bp):
AATGGACAATATGAATGTTTG
Found at i:97534875 original size:16 final size:17
Alignment explanation
Indices: 97534843--97534875 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
97534833 ACTTGCATAC
*
97534843 AAAATATCTCATTAACA
1 AAAATATCTCATAAACA
97534860 AAAATATCTC-TAAACA
1 AAAATATCTCATAAACA
97534876 TTCATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATATCTCATAAACA
Found at i:97536704 original size:42 final size:42
Alignment explanation
Indices: 97536644--97536761 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 42
97536634 ATGTTGGTGC
* * *
97536644 CGATGCCATGTCCCAGACATGGTCTTATACGGAACCTCATAT
1 CGATGCCATGTCCAAGACATGGTCTTACACGAAACCTCATAT
* *
97536686 CGATGCCATGTCCAAGACATGGTCTTACATGAAATCTCATAT
1 CGATGCCATGTCCAAGACATGGTCTTACACGAAACCTCATAT
* * * * * *
97536728 CAACGCCATATCCTAGATATGGTCTTACATGAAA
1 CGATGCCATGTCCAAGACATGGTCTTACACGAAA
97536762 TCACATACCG
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
CGATGCCATGTCCAAGACATGGTCTTACACGAAACCTCATAT
Found at i:97536815 original size:48 final size:48
Alignment explanation
Indices: 97536774--97536949 Score: 271
Period size: 48 Copynumber: 3.7 Consensus size: 48
97536764 ACATACCGGT
* *
97536774 GCCGATGCCATATCCCAGATATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* * * *
97536822 ACCGATGCCATGTCTCAAACATGGTCTTACACTGGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* * *
97536870 GCTGATGCAATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
97536918 GCCGATGCCATGTCCCAGACATGGTCTTACAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACAC
97536950 GGGATCTCAT
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 113 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
Found at i:97541293 original size:28 final size:28
Alignment explanation
Indices: 97541247--97541315 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
97541237 TTTAAAACCC
*
97541247 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
97541274 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
97541302 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
97541316 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:97542020 original size:54 final size:54
Alignment explanation
Indices: 97541953--97542103 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
97541943 TACCCTACAA
* *
97541953 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
97542007 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
97542061 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
97542104 CTGTAAATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:97542041 original size:81 final size:81
Alignment explanation
Indices: 97541950--97542110 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
97541940 TTCTACCCTA
* * *
97541950 CAAGGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
*
97542015 TGGTAATTTTGTAAAC
66 TGGTAATTCTGTAAAC
* * * * * *
97542031 CAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
97542096 TGGTAATTCTGTAAA
66 TGGTAATTCTGTAAA
97542111 TTGAAGGTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
TGGTAATTCTGTAAAC
Found at i:97542110 original size:27 final size:27
Alignment explanation
Indices: 97541950--97542103 Score: 209
Period size: 27 Copynumber: 5.7 Consensus size: 27
97541940 TTCTACCCTA
*
97541950 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
97541977 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
97542004 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
97542031 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
97542058 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
97542085 CAAGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
97542104 CTGTAAATTG
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:97542129 original size:81 final size:81
Alignment explanation
Indices: 97541961--97542130 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
97541951 AAGGGTATTT
* * *
97541961 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
***
97542026 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * * *
97542042 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
**
97542107 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
97542123 CGGTAATT
1 CGGTAATT
97542131 CTGTAAACTG
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
81 69 0.97
82 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
TAAACCAAGGGTAAAA
Found at i:97542468 original size:27 final size:27
Alignment explanation
Indices: 97542098--97542446 Score: 447
Period size: 27 Copynumber: 12.9 Consensus size: 27
97542088 GGGTATTTTG
* * *
97542098 GTAATTCTGTAAATTGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
97542125 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
* *
97542152 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
97542179 GTAATTCTGTAAA-CTGAGGGGAAAACA
1 GTAATTCTGTAAATC-GAGGGTAAAACA
* *
97542206 GTAATTCTGTAAATCGAGGATAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
97542233 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
*
97542260 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
97542287 GTAATTCTGTAAATTGAGGGGAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
97542314 GTAATTCTGTAAATCGAGGATAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
97542341 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
97542368 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
**
97542395 GTAATTCTGTAAA-CTGAGGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
97542422 GTAATTCTGTAAATCGAGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAA
97542447 TGGTAATTTT
Statistics
Matches: 281, Mismatches: 31, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.01
27 272 0.97
28 5 0.02
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:97542468 original size:54 final size:54
Alignment explanation
Indices: 97542097--97542454 Score: 572
Period size: 54 Copynumber: 6.6 Consensus size: 54
97542087 AGGGTATTTT
* * **
97542097 GGTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
97542151 GGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGGAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
97542205 AGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
97542259 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATTGAGGGGAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* * *
97542313 AGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTATAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
97542367 GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
*
97542421 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
97542455 TTACAAGTCG
Statistics
Matches: 278, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 278 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
Found at i:97550681 original size:15 final size:16
Alignment explanation
Indices: 97550663--97550693 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
97550653 TTAAAATGAA
97550663 TTATATTTTA-TAATT
1 TTATATTTTATTAATT
97550678 TTATATTTTATTAATT
1 TTATATTTTATTAATT
97550694 AATTTAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATATTTTATTAATT
Found at i:97552711 original size:40 final size:40
Alignment explanation
Indices: 97552656--97552861 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
97552646 GGACTAAGAT
* * *
97552656 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
97552696 CCGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
97552736 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
97552776 CCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
** *
97552816 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
97552855 CCGAAGG
1 CCGAAGG
97552862 TACTTGGGTT
Statistics
Matches: 156, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 15 0.10
40 141 0.90
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:97556093 original size:16 final size:16
Alignment explanation
Indices: 97556072--97556109 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
97556062 TTGGCAAATC
97556072 CCGAAATGCCAAAAAG
1 CCGAAATGCCAAAAAG
* *
97556088 CCGAAATGTCGAAAAG
1 CCGAAATGCCAAAAAG
97556104 CCGAAA
1 CCGAAA
97556110 GTTTGGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.24, G:0.21, T:0.08
Consensus pattern (16 bp):
CCGAAATGCCAAAAAG
Found at i:97556367 original size:29 final size:29
Alignment explanation
Indices: 97556326--97556444 Score: 129
Period size: 28 Copynumber: 4.2 Consensus size: 29
97556316 ACATGGCTTG
* *
97556326 GAAT-TGATTTGGGTC-AGATGGGTCATAT
1 GAATGTGATTTGGGCCTA-ATGGGCCATAT
97556354 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
* **
97556383 GAATGAGA-TTGGGCCTTGTGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
* *
97556411 GAATGAGA-TTGGGCCTAGTGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
*
97556439 GCATGT
1 GAATGT
97556445 ATGTAGACTT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
28 53 0.65
29 27 0.33
30 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.34, T:0.30
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAT
Found at i:97556404 original size:28 final size:28
Alignment explanation
Indices: 97556344--97556439 Score: 147
Period size: 28 Copynumber: 3.4 Consensus size: 28
97556334 TTGGGTCAGA
* * *
97556344 TGGGTCATATGAATGTGATTTGGGCCTAA
1 TGGGCCATATGAATGAGA-TTGGGCCTAG
*
97556373 TGGGCCATATGAATGAGATTGGGCCTTG
1 TGGGCCATATGAATGAGATTGGGCCTAG
97556401 TGGGCCATATGAATGAGATTGGGCCTAG
1 TGGGCCATATGAATGAGATTGGGCCTAG
97556429 TGGGCCATATG
1 TGGGCCATATG
97556440 CATGTATGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
28 46 0.74
29 16 0.26
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.29
Consensus pattern (28 bp):
TGGGCCATATGAATGAGATTGGGCCTAG
Found at i:97557134 original size:11 final size:11
Alignment explanation
Indices: 97557118--97557143 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
97557108 ATTGCATGTA
97557118 TGATATTATTG
1 TGATATTATTG
97557129 TGATATTATTG
1 TGATATTATTG
97557140 TGAT
1 TGAT
97557144 GTGGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:97560001 original size:13 final size:13
Alignment explanation
Indices: 97559983--97560010 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
97559973 AACTCACTTA
97559983 CTAGAATTGTGGT
1 CTAGAATTGTGGT
97559996 CTAGAATTGTGGT
1 CTAGAATTGTGGT
97560009 CT
1 CT
97560011 CGAAACCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (13 bp):
CTAGAATTGTGGT
Found at i:97566407 original size:39 final size:39
Alignment explanation
Indices: 97566363--97566556 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
97566353 TGTGTATGAA
*
97566363 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
97566402 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
97566441 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
97566480 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* * ** * *
97566520 TGTGTGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
97566557 GTTTGAACGA
Statistics
Matches: 136, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 96 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:97574389 original size:40 final size:39
Alignment explanation
Indices: 97574229--97574391 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
97574219 TGTGTATGAA
*
97574229 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
97574268 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
97574307 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
97574346 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
97574386 TGTGCG
1 TGTGCG
97574392 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:97574407 original size:40 final size:39
Alignment explanation
Indices: 97574229--97574422 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
97574219 TGTGTATGAA
* *
97574229 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
97574268 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
97574307 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
97574346 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
97574386 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
97574423 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:97576881 original size:46 final size:46
Alignment explanation
Indices: 97576831--97577006 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
97576821 TGGTTGAGCA
97576831 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
97576877 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
97576922 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
97576970 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
97577007 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:97576987 original size:93 final size:93
Alignment explanation
Indices: 97576828--97576999 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
97576818 GGATGGTTGA
* *
97576828 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
97576893 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
97576921 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
97576986 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
97577000 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:97584422 original size:46 final size:46
Alignment explanation
Indices: 97584372--97584547 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
97584362 TGGTTGAGCA
97584372 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
97584418 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
97584463 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
97584511 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
97584548 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:97584528 original size:93 final size:93
Alignment explanation
Indices: 97584369--97584540 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
97584359 GGATGGTTGA
* *
97584369 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
97584434 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
97584462 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
97584527 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
97584541 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:97593999 original size:24 final size:25
Alignment explanation
Indices: 97593952--97593999 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
97593942 TAAGTATATA
97593952 AACATAAAAAATTAATAATGTAAAC
1 AACATAAAAAATTAATAATGTAAAC
*
97593977 AACAT-AATAATTAACTAAT-TAAA
1 AACATAAAAAATTAA-TAATGTAAA
97594000 ATTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (25 bp):
AACATAAAAAATTAATAATGTAAAC
Found at i:97603083 original size:18 final size:17
Alignment explanation
Indices: 97603062--97603121 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
97603052 TTGACAACCA
97603062 TGATGATGAGCTTGTATC
1 TGATGATGA-CTTGTATC
*
97603080 TGATGA--ACTGGATGATC
1 TGATGATGACTTG-T-ATC
97603097 TGGATGATGAACTTGTATC
1 T-GATGATG-ACTTGTATC
97603116 TGATGA
1 TGATGA
97603122 ATTTGATGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
15 3 0.09
16 2 0.06
17 4 0.12
18 16 0.47
19 4 0.12
20 1 0.03
21 4 0.12
ACGTcount: A:0.27, C:0.10, G:0.28, T:0.35
Consensus pattern (17 bp):
TGATGATGACTTGTATC
Found at i:97603085 original size:36 final size:36
Alignment explanation
Indices: 97603038--97603143 Score: 124
Period size: 36 Copynumber: 2.9 Consensus size: 36
97603028 CATTGGAAAG
* **
97603038 TGTATCTGATGAAGTTGACAACCATGATGATGAGCT
1 TGTATCTGATGAACTTGATGACCATGATGATGAGCT
* * *
97603074 TGTATCTGATGAACTGGATGATC-TGGATGATGAACT
1 TGTATCTGATGAACTTGATGACCAT-GATGATGAGCT
* *
97603110 TGTATCTGATGAATTTGATGACCAAGATGATGAG
1 TGTATCTGATGAACTTGATGACCATGATGATGAG
97603144 TTTGATGAAG
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
35 1 0.02
36 56 0.98
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.32
Consensus pattern (36 bp):
TGTATCTGATGAACTTGATGACCATGATGATGAGCT
Found at i:97605322 original size:25 final size:25
Alignment explanation
Indices: 97605288--97605339 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
97605278 CATCAACATT
97605288 CAATCAAATTCAGTCCACCATGTTG
1 CAATCAAATTCAGTCCACCATGTTG
97605313 CAATCAAATTCAGTCCACCATGTTG
1 CAATCAAATTCAGTCCACCATGTTG
97605338 CA
1 CA
97605340 TAAATTAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (25 bp):
CAATCAAATTCAGTCCACCATGTTG
Found at i:97617633 original size:22 final size:20
Alignment explanation
Indices: 97617591--97617631 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
97617581 GAGATAGGGA
97617591 TAAATAAAGTGAATCAACTC
1 TAAATAAAGTGAATCAACTC
97617611 TAAATATAAGTG-ATCAACTC
1 TAAATA-AAGTGAATCAACTC
97617631 T
1 T
97617632 CTTCGACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (20 bp):
TAAATAAAGTGAATCAACTC
Found at i:97620942 original size:2 final size:2
Alignment explanation
Indices: 97620935--97620983 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
97620925 TTTGATGATG
*
97620935 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97620977 TA TA TA T
1 TA TA TA T
97620984 GTGCATATGG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:97622543 original size:27 final size:27
Alignment explanation
Indices: 97622513--97622608 Score: 133
Period size: 27 Copynumber: 3.5 Consensus size: 27
97622503 GGCTGCTAGA
* *
97622513 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
97622540 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
97622567 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
97622595 -CAGATAATTGTGGC
1 ACAGATAA-TGTGGC
97622609 CTAGCTACTA
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
26 1 0.02
27 45 0.71
28 17 0.27
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:97623058 original size:8 final size:8
Alignment explanation
Indices: 97623033--97623081 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
97623023 TCTCAAAATA
*
97623033 TCGGCATT
1 TCGGCTTT
* *
97623041 TCAGCATT
1 TCGGCTTT
97623049 TCGGCTTT
1 TCGGCTTT
*
97623057 TCGGCGTT
1 TCGGCTTT
97623065 TCGGCTTT
1 TCGGCTTT
97623073 TCGGCTTT
1 TCGGCTTT
97623081 T
1 T
97623082 GCCGATCTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.06, C:0.24, G:0.24, T:0.45
Consensus pattern (8 bp):
TCGGCTTT
Found at i:97623066 original size:24 final size:24
Alignment explanation
Indices: 97623033--97623081 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
97623023 TCTCAAAATA
97623033 TCGGCATTTCAGCATTTCGGCTTT
1 TCGGCATTTCAGCATTTCGGCTTT
* * *
97623057 TCGGCGTTTCGGCTTTTCGGCTTT
1 TCGGCATTTCAGCATTTCGGCTTT
97623081 T
1 T
97623082 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.06, C:0.24, G:0.24, T:0.45
Consensus pattern (24 bp):
TCGGCATTTCAGCATTTCGGCTTT
Found at i:97631382 original size:23 final size:23
Alignment explanation
Indices: 97631347--97631391 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
97631337 CACACTCACA
97631347 AACAACACAAATAGAACACGAAC
1 AACAACACAAATAGAACACGAAC
* * *
97631370 AACAACTCCAATAGAATACGAA
1 AACAACACAAATAGAACACGAA
97631392 GAAATAGGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.24, G:0.09, T:0.09
Consensus pattern (23 bp):
AACAACACAAATAGAACACGAAC
Found at i:97639399 original size:28 final size:29
Alignment explanation
Indices: 97639332--97639432 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
97639322 ATAGTGAATC
*
97639332 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
97639361 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
97639389 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
97639419 CGCACACTTAGTGC
1 CGCACACTTAGTGC
97639433 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:97647206 original size:28 final size:29
Alignment explanation
Indices: 97647139--97647239 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
97647129 ATAGTGAATC
*
97647139 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
97647168 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
97647196 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
97647226 CGCACACTTAGTGC
1 CGCACACTTAGTGC
97647240 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:97649050 original size:40 final size:40
Alignment explanation
Indices: 97648942--97649151 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
97648932 CGGGATTTAA
* * * * *
97648942 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
97648982 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
97649022 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
97649062 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
97649102 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
97649142 CCGGATATAT
1 CCGGATATAT
97649152 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:97654190 original size:17 final size:16
Alignment explanation
Indices: 97654168--97654203 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
97654158 TTAAAATTTT
*
97654168 AAACTAAAAATAAAGTA
1 AAACTAAAAAAAAAG-A
97654185 AAACTAAAAAAAAAGA
1 AAACTAAAAAAAAAGA
97654201 AAA
1 AAA
97654204 GAAAGAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.11
Consensus pattern (16 bp):
AAACTAAAAAAAAAGA
Found at i:97655092 original size:35 final size:35
Alignment explanation
Indices: 97655045--97655112 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
97655035 GTGCATATGG
*
97655045 TACATGATTAGTAATTGAATTTAACCAAACAAATT
1 TACATGAATAGTAATTGAATTTAACCAAACAAATT
*
97655080 TACATGAATAGTAATTGAATTTAACTAAACAAA
1 TACATGAATAGTAATTGAATTTAACCAAACAAA
97655113 ATTAACTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.32
Consensus pattern (35 bp):
TACATGAATAGTAATTGAATTTAACCAAACAAATT
Found at i:97662150 original size:134 final size:134
Alignment explanation
Indices: 97661910--97662176 Score: 473
Period size: 134 Copynumber: 2.0 Consensus size: 134
97661900 CAAACCCGAA
*
97661910 GTAAGTTCGTATGTGATAAATTTCATTATAAATGAATTTTAAATGCTTTGATACTGTATAAGTTG
1 GTAAGTTCGTATGTGATAAATTTCATTATAAATGAATTTAAAATGCTTTGATACTGTATAAGTTG
* *
97661975 TGAATACAAGACTTCGGATAAGTTTGACATTAACTCTATAGGAATTC-AGCATTCGAAATCCCGG
66 TGAATACAAGACTTCGGATAAGTTCGACATTAACTCGATAGGAATTCGA-CATTCGAAATCCCGG
97662039 TTGAT
130 TTGAT
97662044 GTAAGTTCGTATGTGATAAATTTCATTATAAATGAATTTAAAATGCTTTGATACTGTATAAGTTG
1 GTAAGTTCGTATGTGATAAATTTCATTATAAATGAATTTAAAATGCTTTGATACTGTATAAGTTG
* *
97662109 TGAATACAAGACTTCGGATAAGTTCGACATTGACTCGATAGGAATTCGACATTCGAAATCCTGGT
66 TGAATACAAGACTTCGGATAAGTTCGACATTAACTCGATAGGAATTCGACATTCGAAATCCCGGT
97662174 TGA
131 TGA
97662177 ACCAAAGGAA
Statistics
Matches: 127, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
134 126 0.99
135 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (134 bp):
GTAAGTTCGTATGTGATAAATTTCATTATAAATGAATTTAAAATGCTTTGATACTGTATAAGTTG
TGAATACAAGACTTCGGATAAGTTCGACATTAACTCGATAGGAATTCGACATTCGAAATCCCGGT
TGAT
Found at i:97664897 original size:25 final size:26
Alignment explanation
Indices: 97664867--97664923 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
97664857 CGGTTGAATG
97664867 AAAGGAAAATT-CGATGGATTTCTGA
1 AAAGGAAAATTACGATGGATTTCTGA
97664892 AAAGG--AATTGACGATGGATTTCTGA
1 AAAGGAAAATT-ACGATGGATTTCTGA
97664917 AAAGGAA
1 AAAGGAA
97664924 TTGACGGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.14
25 24 0.86
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.25
Consensus pattern (26 bp):
AAAGGAAAATTACGATGGATTTCTGA
Found at i:97664924 original size:25 final size:25
Alignment explanation
Indices: 97664878--97664929 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
97664868 AAGGAAAATT
97664878 CGATGGATTTCTGAAAAGGAATTGA
1 CGATGGATTTCTGAAAAGGAATTGA
97664903 CGATGGATTTCTGAAAAGGAATTGA
1 CGATGGATTTCTGAAAAGGAATTGA
97664928 CG
1 CG
97664930 GTAAAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.27
Consensus pattern (25 bp):
CGATGGATTTCTGAAAAGGAATTGA
Found at i:97665271 original size:38 final size:40
Alignment explanation
Indices: 97665220--97665431 Score: 196
Period size: 46 Copynumber: 4.9 Consensus size: 40
97665210 TATGAAATGC
97665220 GTAAGACCATGGTTGAAAGATACCATGGCAACC-TG-TGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCATGATGT
97665258 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACC----ATG--ATGT
97665304 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACC----AT--GATGT
* * * *
97665350 GTAAGACCATGATTGAAAGATACCATGGCAATGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAA----CCATG--ATGT
*
97665396 ATAAGACCATGGTTGAAAGATACCATGGCAA-CATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCATGA
97665432 CAGAAAATGA
Statistics
Matches: 152, Mismatches: 6, Indels: 31
0.80 0.03 0.16
Matches are distributed among these distances:
38 33 0.22
39 1 0.01
41 4 0.03
43 2 0.01
44 1 0.01
46 109 0.72
48 1 0.01
50 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (40 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACCATGATGT
Found at i:97665322 original size:46 final size:46
Alignment explanation
Indices: 97665255--97665471 Score: 292
Period size: 46 Copynumber: 4.7 Consensus size: 46
97665245 TGGCAACCTG
*
97665255 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
97665301 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* **
97665347 TGTGTAAGACCATGATTGAAAGATACCATGGCAATGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
97665393 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
97665439 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
97665472 TCACGTCAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 152 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:97665777 original size:23 final size:25
Alignment explanation
Indices: 97665732--97665778 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
97665722 AATAAATATA
*
97665732 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
97665757 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
97665779 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:97669932 original size:11 final size:11
Alignment explanation
Indices: 97669916--97669944 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
97669906 ATTTTGTCTT
97669916 TGAATTTTTGA
1 TGAATTTTTGA
97669927 TGAATTTTTGA
1 TGAATTTTTGA
97669938 TGAATTT
1 TGAATTT
97669945 GAGTAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (11 bp):
TGAATTTTTGA
Found at i:97670658 original size:43 final size:43
Alignment explanation
Indices: 97670501--97670661 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
97670491 TATGTGTTTT
* *
97670501 CGTGTAAGACCACGTCTGGGACGTTGGCATTGACT-TATGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATTGA-TATTTGA-TTA
* * * * ** ** * *
97670545 CGTGTAAAACCATGTTTAGGACATCAGCA-TCCTATTTAATTT
1 CGTGTAAGACCATGTCTGGGACGTTGGCATTGATATTTGATTA
* * *
97670587 TGTGTAAGACCCTGTCTGGGATAG-TGGCATTGATATTTGATTA
1 CGTGTAAGACCATGTCTGGGA-CGTTGGCATTGATATTTGATTA
*
97670630 CATGTAAGACCATGTCTGGGACGTTGGCATTG
1 CGTGTAAGACCATGTCTGGGACGTTGGCATTG
97670662 TACGAGCTTT
Statistics
Matches: 84, Mismatches: 29, Indels: 9
0.69 0.24 0.07
Matches are distributed among these distances:
42 23 0.27
43 39 0.46
44 22 0.26
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATTGATATTTGATTA
Found at i:97679392 original size:40 final size:40
Alignment explanation
Indices: 97679347--97679514 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
97679337 TCGGATATAA
97679347 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
97679387 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
97679427 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
97679467 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
*
97679507 CCTGATAT
1 CCGGATAT
97679515 CATTCAATTT
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 105 0.99
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:97683170 original size:21 final size:22
Alignment explanation
Indices: 97683141--97683181 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
97683131 GAGTGTATTG
*
97683141 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
97683163 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
97683182 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:97685356 original size:170 final size:170
Alignment explanation
Indices: 97685074--97685413 Score: 581
Period size: 170 Copynumber: 2.0 Consensus size: 170
97685064 GTATTGGTTG
*
97685074 TGAAATGGTTGAACATTTGGTACGCATTTGAAGCTTATTTGTTGCTTGTAGGGAGGACCCTTAAT
1 TGAAATGGTTGAACATTTGGTACGCATTTGAAGCTTATTTGTTGCTTGTAAGGAGGACCCTTAAT
*
97685139 GGGTGGAAATTTGGCCTTGTAAATGGCCTTTTTTTACCCACACGGGCAAAGACATGGGCGTGTGT
66 GGGTGGAAATTTGGCCTTGTAAATGGCCTATTTTTACCCACACGGGCAAAGACATGGGCGTGTGT
* * *
97685204 TTCAGCTATGTTGCTTGAGGGCCATTTCGAAATGGGCCTA
131 CTCAGCTATGTTGCTTGAGGGCCATTTCAAAATAGGCCTA
* *
97685244 TGAAATGGTTGAACATTTGGTATGCATTTGAAGCTTATTTGTTTCTTGTAAGGAGGACCCTTAAT
1 TGAAATGGTTGAACATTTGGTACGCATTTGAAGCTTATTTGTTGCTTGTAAGGAGGACCCTTAAT
* **
97685309 GGGTGGCAATTTGGCCTTGTAAATGGCCTATTTTTACCTTCACGGGCAAAGACATGGGCGTGTGT
66 GGGTGGAAATTTGGCCTTGTAAATGGCCTATTTTTACCCACACGGGCAAAGACATGGGCGTGTGT
*
97685374 CTCAGCTGTGTTGCTTGAGGGCCATTTCAAAATAGGCCTA
131 CTCAGCTATGTTGCTTGAGGGCCATTTCAAAATAGGCCTA
97685414 GGCAGACCAC
Statistics
Matches: 159, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
170 159 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (170 bp):
TGAAATGGTTGAACATTTGGTACGCATTTGAAGCTTATTTGTTGCTTGTAAGGAGGACCCTTAAT
GGGTGGAAATTTGGCCTTGTAAATGGCCTATTTTTACCCACACGGGCAAAGACATGGGCGTGTGT
CTCAGCTATGTTGCTTGAGGGCCATTTCAAAATAGGCCTA
Found at i:97690933 original size:49 final size:50
Alignment explanation
Indices: 97690857--97691075 Score: 262
Period size: 49 Copynumber: 4.4 Consensus size: 50
97690847 TTACATTTTT
*
97690857 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCATGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACATGTGTA
* * * * * *
97690906 GTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGGTCACATGTGTA
* * * * ** *
97690957 ATACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACATGTGTA
* * *
97691007 GTACTAAGTGCATGCTACTACGTGTACTGGATAATT-GGTCGCATGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACATGTGTA
97691056 GTACTAAGTGCAGGCTACTA
1 GTACTAAGTGCAGGCTACTA
97691076 TGCGTACTAA
Statistics
Matches: 142, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 61 0.43
50 45 0.32
51 36 0.25
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
GTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACATGTGTA
Found at i:97691040 original size:101 final size:98
Alignment explanation
Indices: 97690858--97691075 Score: 265
Period size: 101 Copynumber: 2.2 Consensus size: 98
97690848 TACATTTTTG
* *
97690858 TACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTA
1 TACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGCAGGCTA
* *
97690923 CTATGCGTACCCGATAACTTCGATCACGTGTGTAA
66 CTACGCGTACCCGATAA-TT-GATCACATGTGTAA
* * ** * *
97690958 TACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCATGCT
1 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTACTAAGTGCAGGCT
* ** * * *
97691023 ACTACGTGTACTGGATAATTGGTCGCATGTGTAG
65 ACTACGCGTACCCGATAATTGATCACATGTGTAA
97691057 TACTAAGTGCAGGCTACTA
1 TACTAAGTGCAGGCTACTA
97691076 TGCGTACTAA
Statistics
Matches: 100, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
99 28 0.28
100 32 0.32
101 40 0.40
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (98 bp):
TACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGCAGGCTA
CTACGCGTACCCGATAATTGATCACATGTGTAA
Found at i:97694152 original size:38 final size:38
Alignment explanation
Indices: 97694109--97694362 Score: 247
Period size: 38 Copynumber: 6.2 Consensus size: 38
97694099 TTTCAAATTA
*
97694109 ACATGTATAACCGTGGCATATCCACTTAGCACTACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
97694147 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
97694188 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTAAT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACG-T--T
*
97694235 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
97694279 ACATGTTTAACCGTGGCATATCCACTTAGCACCACATT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * **
97694317 ACATGTTTAACTGTGATATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
97694355 ACATGTAT
1 ACATGTAT
97694363 CAATATGTGT
Statistics
Matches: 193, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 104 0.54
39 1 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 1 0.01
47 75 0.39
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:97694208 original size:47 final size:46
Alignment explanation
Indices: 97694154--97694401 Score: 240
Period size: 47 Copynumber: 5.7 Consensus size: 46
97694144 GTTACATGTT
*
97694154 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATAT-TG
97694201 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATAT-TG
*
97694248 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGTT-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATTG
* *
97694286 TAACCGTGGCATATCCACTTAGCACCAC----AT-TA-C-ATGTT-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATTG
* ** *
97694324 TAACTGTGATATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATAT-TG
* * * *
97694372 TAATCGTCGTATATCCACGTAGCACCACGT
1 TAACCGTGGCATATCCACTTAGCACCACGT
97694402 CACACGTATA
Statistics
Matches: 178, Mismatches: 11, Indels: 23
0.84 0.05 0.11
Matches are distributed among these distances:
37 1 0.01
38 60 0.34
39 1 0.01
40 3 0.02
41 1 0.01
42 1 0.01
43 2 0.01
44 3 0.02
45 1 0.01
46 4 0.02
47 76 0.43
48 25 0.14
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (46 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATTG
Found at i:97694424 original size:124 final size:123
Alignment explanation
Indices: 97694211--97694437 Score: 346
Period size: 124 Copynumber: 1.8 Consensus size: 123
97694201 TAACCGTGGC
* *
97694211 ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCAC
1 ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTCGCATATCCACGTAGCACCAC
* * * *
97694276 GTTACATGTTTAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACTGTGAT
66 GTCACACGTATAACCATGGCATATCCACTTAGCACCACATTACATGTTTAACTGTGAT
* * * *
97694334 ATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTCGTATATCCACGTAGCACCA
1 ATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGTCGCATATCCACGTAGCACCA
*
97694399 CGTCACACGTATAACCATGGTATATCCACTTAGCACCAC
65 CGTCACACGTATAACCATGGCATATCCACTTAGCACCAC
97694438 GCTTTTTCAT
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
123 22 0.24
124 70 0.76
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (123 bp):
ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTCGCATATCCACGTAGCACCAC
GTCACACGTATAACCATGGCATATCCACTTAGCACCACATTACATGTTTAACTGTGAT
Found at i:97697179 original size:15 final size:15
Alignment explanation
Indices: 97697156--97697189 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
97697146 GAAGCCTAGA
*
97697156 ATAAGGAAATCCAAG
1 ATAAAGAAATCCAAG
*
97697171 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
97697186 ATAA
1 ATAA
97697190 GCAAATCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:97698996 original size:20 final size:20
Alignment explanation
Indices: 97698971--97699008 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
97698961 GTTTATTCGC
*
97698971 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
97698991 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
97699009 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:97700655 original size:28 final size:28
Alignment explanation
Indices: 97700623--97700691 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
97700613 GCGTAGATCA
97700623 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
97700651 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
97700679 CGATA-TACCCCTA
1 CGAAATTACCCCTA
97700692 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:97706931 original size:20 final size:20
Alignment explanation
Indices: 97706906--97706943 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
97706896 GTTTATTCGC
*
97706906 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
97706926 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
97706944 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:97709072 original size:22 final size:21
Alignment explanation
Indices: 97709033--97709129 Score: 97
Period size: 22 Copynumber: 4.5 Consensus size: 21
97709023 ACAATAAAAC
97709033 ACAACA-AAAAGCAGCAGCAAA
1 ACAACACAAAA-CAGCAGCAAA
97709054 ACAACACTAAAACAGCAGCAAA
1 ACAACAC-AAAACAGCAGCAAA
* * *
97709076 ACAGCAGCAAAACAACATCAAA
1 ACAACA-CAAAACAGCAGCAAA
* *
97709098 ACAACACCAAACAGCAACAAA
1 ACAACACAAAACAGCAGCAAA
* *
97709119 ATAGCACAAAA
1 ACAACACAAAA
97709130 AACAGCATCA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
21 26 0.41
22 32 0.51
23 5 0.08
ACGTcount: A:0.61, C:0.27, G:0.09, T:0.03
Consensus pattern (21 bp):
ACAACACAAAACAGCAGCAAA
Found at i:97709086 original size:33 final size:30
Alignment explanation
Indices: 97709015--97709119 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 30
97709005 ATAAATAGCT
*
97709015 GCAAAAGAACAATAAAACACAACAAAAAGCAGCA
1 GCAAAACAAC-ATAAAACAC-AC-AAAA-CAGCA
97709049 GCAAAACAACACTAAAACAGCAGCAAAACAGCA
1 GCAAAACAACA-TAAAACA-CA-CAAAACAGCA
*
97709082 GCAAAACAACATCAAAACAACACCAAACAGCA
1 GCAAAACAACAT-AAAAC-ACACAAAACAGCA
*
97709114 ACAAAA
1 GCAAAA
97709120 TAGCACAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
32 15 0.24
33 24 0.38
34 22 0.35
35 2 0.03
ACGTcount: A:0.62, C:0.26, G:0.10, T:0.03
Consensus pattern (30 bp):
GCAAAACAACATAAAACACACAAAACAGCA
Found at i:97709092 original size:14 final size:11
Alignment explanation
Indices: 97709039--97709129 Score: 80
Period size: 11 Copynumber: 8.4 Consensus size: 11
97709029 AAACACAACA
97709039 AAAAGCAGCAGC
1 AAAA-CAGCAGC
*
97709051 AAAACAACA-C
1 AAAACAGCAGC
97709061 TAAAACAGCAGC
1 -AAAACAGCAGC
97709073 AAAACAGCAGC
1 AAAACAGCAGC
* *
97709084 AAAACAACATC
1 AAAACAGCAGC
*
97709095 AAAACAACA-C
1 AAAACAGCAGC
* *
97709105 CAAACAGCAAC
1 AAAACAGCAGC
*
97709116 AAAATAGCA-C
1 AAAACAGCAGC
97709126 AAAA
1 AAAA
97709130 AACAGCATCA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
10 14 0.21
11 49 0.72
12 5 0.07
ACGTcount: A:0.60, C:0.26, G:0.10, T:0.03
Consensus pattern (11 bp):
AAAACAGCAGC
Found at i:97715038 original size:38 final size:38
Alignment explanation
Indices: 97714987--97715147 Score: 225
Period size: 38 Copynumber: 4.2 Consensus size: 38
97714977 TTGAAATATG
97714987 ATATCCGGGTTAAATCCCGCAGGCTTCGTGC-GCGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTG-GTATT
*
97715025 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
97715063 ATATCTGGGTTAAATCCTGCAGGTTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * * *
97715101 ATATTCGGGTTAAATGCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
97715139 ATATTCGGG
1 ATATCCGGG
97715148 CCTTTGAGCC
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
38 109 0.99
39 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:97715221 original size:46 final size:44
Alignment explanation
Indices: 97715140--97715268 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 44
97715130 GCTGGTATTA
* * *
97715140 TATTCGGGCCTTT-GAGCCTAACAGACTATTATGCCGGTGAGACAT
1 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-AT
97715185 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
1 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
* * * *
97715229 GATATCAGGCC--TCGAGCCTAGCAGG-AAAAATGCCGGTGAA
1 TAT-TCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
97715269 TGAATAAAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 13 0.17
43 14 0.19
44 4 0.05
45 20 0.27
46 24 0.32
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (44 bp):
TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
Found at i:97716369 original size:14 final size:15
Alignment explanation
Indices: 97716337--97716375 Score: 62
Period size: 14 Copynumber: 2.6 Consensus size: 15
97716327 AAGCTTATTG
97716337 TGAAGAAGACAACAAA
1 TGAAGAAG-CAACAAA
97716353 TGAAGAAGCAA-AAA
1 TGAAGAAGCAACAAA
97716367 TGAAGAAGC
1 TGAAGAAGC
97716376 TGTTGAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 12 0.52
15 3 0.13
16 8 0.35
ACGTcount: A:0.59, C:0.10, G:0.23, T:0.08
Consensus pattern (15 bp):
TGAAGAAGCAACAAA
Found at i:97717431 original size:38 final size:38
Alignment explanation
Indices: 97717388--97717462 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
97717378 TTTCAAATTA
*
97717388 ACATGTATAACTGTGGCATATCCACTTAGCACCACGTG
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTG
* *
97717426 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGT
97717463 TAATGAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTG
Found at i:97717613 original size:48 final size:47
Alignment explanation
Indices: 97717433--97717599 Score: 262
Period size: 47 Copynumber: 3.5 Consensus size: 47
97717423 GTGACATGTT
97717433 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
97717480 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
** * * *
97717527 TAACCGTGACATATCCATTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
**
97717575 TAATTGTGGTATATCCACTTAGCAC
1 TAACCGTGGTATATCCACTTAGCAC
97717600 TACATTACAT
Statistics
Matches: 109, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 76 0.70
48 33 0.30
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:97719155 original size:51 final size:51
Alignment explanation
Indices: 97719037--97719167 Score: 183
Period size: 51 Copynumber: 2.5 Consensus size: 51
97719027 ATCAGGATGT
* * *
97719037 TACAAGTGTGGTACTATGTGAAGGGCACTTTGTGAAGAAATATAGCTTTGG
1 TACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGC
*
97719088 TCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTTGAC
1 T-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTG-C
* *
97719140 TACAAGGGTGGTACTATGTGTAGGCCAC
1 TACAAGTGTGGTACTATGTGAAGGCCAC
97719168 CGGGTATCCG
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
51 36 0.50
52 36 0.50
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (51 bp):
TACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGC
Found at i:97729427 original size:25 final size:25
Alignment explanation
Indices: 97729393--97729444 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
97729383 CCAGCATGGA
97729393 GAAGAAAATGAGCTGATTTTAGCTT
1 GAAGAAAATGAGCTGATTTTAGCTT
*
97729418 GAAGAAAATGAGTTGATTTTAGCTT
1 GAAGAAAATGAGCTGATTTTAGCTT
97729443 GA
1 GA
97729445 TTTTTTCCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.33
Consensus pattern (25 bp):
GAAGAAAATGAGCTGATTTTAGCTT
Done.