Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 133 of 328
Found at i:38667024 original size:40 final size:40
Alignment explanation
Indices: 38666968--38667150 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
38666958 TGGATGATAA
* * *
38666968 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
38667008 TCGGGCTACGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
38667048 CCGGGCTAAGTCCCTAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
38667088 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
38667128 TCGGGCTATGTTCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
38667151 CGAGCAAGTA
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
39 1 0.01
40 126 0.99
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:38669062 original size:15 final size:15
Alignment explanation
Indices: 38669042--38669110 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
38669032 ATATCTTGGG
38669042 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
38669057 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
38669072 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
38669087 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
38669102 TTTCTTTAT
1 TTTCTTTAT
38669111 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:38669111 original size:30 final size:30
Alignment explanation
Indices: 38669033--38669120 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
38669023 CATAGTATCA
* * * *
38669033 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
38669063 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
38669093 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
38669121 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:38669499 original size:26 final size:26
Alignment explanation
Indices: 38669463--38669515 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
38669453 TTTATTAGAA
38669463 AGAGTTGGATATTAGTTAAAGTCACC
1 AGAGTTGGATATTAGTTAAAGTCACC
38669489 AGAGTTGGATATTAGTTAAAGTCACC
1 AGAGTTGGATATTAGTTAAAGTCACC
38669515 A
1 A
38669516 CGAATGATAA
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:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (26 bp):
AGAGTTGGATATTAGTTAAAGTCACC
Found at i:38671591 original size:46 final size:46
Alignment explanation
Indices: 38671541--38671669 Score: 170
Period size: 46 Copynumber: 2.8 Consensus size: 46
38671531 TGGTTGAGCA
* * *
38671541 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGTAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
38671587 TCCGAACTCGTTGAGTTGAG-CCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCC-GAGTTCACTTATGGATGCAAACG
* * *
38671633 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38671670 GCGGGTTACA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
45 1 0.01
46 69 0.96
47 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:38676347 original size:2 final size:2
Alignment explanation
Indices: 38676340--38676366 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38676330 GAGACTAGTC
38676340 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
38676367 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38677625 original size:63 final size:64
Alignment explanation
Indices: 38677444--38677626 Score: 203
Period size: 63 Copynumber: 2.8 Consensus size: 64
38677434 ATATAGTTCG
* * * *
38677444 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACA-TATATCCCGT
38677506 A
64 A
* * * *
38677507 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCG
38677572 TA
63 TA
* *
38677574 GCT-TCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACAT
38677627 CATAATGTCT
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 46 0.46
66 39 0.39
67 12 0.12
68 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:38681978 original size:43 final size:43
Alignment explanation
Indices: 38681841--38682010 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 43
38681831 CATAAAGCTC
* * * *
38681841 ATACAATGTC-ATATCCCAGATATGGTCTTACAAGTTATCAC-
1 ATACAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACA
* * * * *
38681882 ATATCGATGCCACTGTCCCAAATAGGGTCTTACAC-TAAATC-GA
1 ATA-CAATGCCAATGTCCCAGATATGGTCTTACACGT-AATCACA
* *
38681925 ATAACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
1 AT-ACAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACA
* * *
38681969 ATACAATGCCAATGTCCCAGAGATGGTTTTACATG-AATCACA
1 ATACAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACA
38682011 TCTCGGTAAC
Statistics
Matches: 104, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
41 3 0.03
42 13 0.12
43 83 0.80
44 5 0.05
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACA
Found at i:38686416 original size:80 final size:80
Alignment explanation
Indices: 38686275--38686482 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 80
38686265 CAATTGAATG
* * ** * * * *
38686275 ACATCCGGGCTAAGTCCCGAAGACATTTATGCTAA-TAATTATATCTGGGTTAAGACCCGAAGGC
1 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-AAGTAGTTATATCCGGGCTAACACCCGAAGGC
* *
38686339 AATTGTGCTAGT-GACT
65 AATTGTGCAACTCG-CT
* *
38686355 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAACACCCGAAGGCA
1 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAACACCCGAAGGCA
* *
38686420 TTTGTGCAACTCGTT
66 ATTGTGCAACTCGCT
* * *
38686435 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
38686483 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 105 0.97
81 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (80 bp):
ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAACACCCGAAGGCA
ATTGTGCAACTCGCT
Found at i:38686476 original size:40 final size:40
Alignment explanation
Indices: 38686277--38686482 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
38686267 ATTGAATGAC
* * ** **
38686277 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAA-TAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC-AAGTGGTTAT
* * * ** *
38686317 ATCTGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGGTTAT
* *
38686357 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
* * * *
38686397 ATCCGGGCTAACACCCGAAGGCATTTGTGCAACTCGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
*
38686437 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
38686477 ATCCGG
1 ATCCGG
38686483 TTGTATTCCG
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 130 0.95
41 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
Found at i:38689199 original size:45 final size:45
Alignment explanation
Indices: 38689163--38689271 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
38689153 GTATTTTTGA
*
38689163 GTAAGACCACGTTTGGGACGTTGGCATCGATATATGTGTTTTCAT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTTCAT
* * * *
38689208 GTAAGACCACGTCTGGGACGTTGGGATCGATATATGTGGTTACGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTTCAT
* *
38689253 GTAATACCATGTCTGGGAC
1 GTAAGACCACGTCTGGGAC
38689272 ATCAATATCG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (45 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTTCAT
Found at i:38697274 original size:45 final size:45
Alignment explanation
Indices: 38697211--38697387 Score: 232
Period size: 45 Copynumber: 4.0 Consensus size: 45
38697201 TAGGACTTTG
* * *
38697211 ATATGTATTTTCGAGTAAGACCACGTCTGGGACGTTGTCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
*
38697256 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCG--
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
*
38697299 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * * ** * *
38697344 ATATGTGGTTACGTGTAAAACCATATCTGGGACATCGGCATCGA
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGA
38697388 ATTAGATTCG
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
43 41 0.35
45 75 0.65
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:38697317 original size:43 final size:43
Alignment explanation
Indices: 38697210--38697468 Score: 231
Period size: 45 Copynumber: 6.0 Consensus size: 43
38697200 ATAGGACTTT
* * *
38697210 GATATGTATTTTCGAGTAAGACCACGTCTGGGACGTTGTCATC
1 GATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
*
38697253 GATATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATC
1 G--ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
38697298 GATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * * ** * *
38697341 AATATATGTGGTTACGTGTAAAACCATATCTGGGACATCGGCATC
1 --GATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
38697386 GA-AT-TAG-ATTCGAGTAAGACC-CTGTCTGGGATAG-TGGCATC
1 GATATGT-GTTTTCGTGTAAGACCAC-GTCTGGGA-CGTTGGCATC
* * ** * *
38697427 GATATGAGATGGCATGTAAAACCACGTCTGGGACGTTGGCAT
1 GATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
38697469 TGTATGACAT
Statistics
Matches: 173, Mismatches: 31, Indels: 24
0.76 0.14 0.11
Matches are distributed among these distances:
41 26 0.15
42 7 0.04
43 65 0.38
44 1 0.01
45 74 0.43
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
GATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:38697359 original size:88 final size:88
Alignment explanation
Indices: 38697210--38697416 Score: 276
Period size: 88 Copynumber: 2.4 Consensus size: 88
38697200 ATAGGACTTT
* * * * *
38697210 GATATGTATTTTCGAGTAAGACCACGTCTGGGACGTTGTCATCGATATATGTGTTTTCGTGTAAG
1 GATATGTATTTTCGAGTAAGACCACGTCTGGGACGTTGGCATCAATATATGTGGTTACGTGTAAA
* * *
38697275 ACCATGTCTGGGACGTTGGCATC
66 ACCATATCTGGGACATCGGCATC
* *
38697298 GATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATATATGTGGTTACGTGTAAA
1 GATATGTATTTTCGAGTAAGACCACGTCTGGGACGTTGGCATCAATATATGTGGTTACGTGTAAA
38697363 ACCATATCTGGGACATCGGCATC
66 ACCATATCTGGGACATCGGCATC
**
38697386 GA-AT-TAGATTCGAGTAAGACC-CTGTCTGGGA
1 GATATGTATTTTCGAGTAAGACCAC-GTCTGGGA
38697417 TAGTGGCATC
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
85 1 0.01
86 21 0.20
87 2 0.02
88 80 0.77
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (88 bp):
GATATGTATTTTCGAGTAAGACCACGTCTGGGACGTTGGCATCAATATATGTGGTTACGTGTAAA
ACCATATCTGGGACATCGGCATC
Found at i:38700857 original size:27 final size:26
Alignment explanation
Indices: 38700827--38700888 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 26
38700817 TTTAAAACCC
38700827 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTC-T
*
38700854 TAGGGGTAATTTCGGTAATTTTGCTCT
1 TAGGGGT-ATATCGGTAATTTTGCTCT
38700881 TAGGGGTA
1 TAGGGGTA
38700889 ATTTCGTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 1 0.03
27 15 0.45
28 17 0.52
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (26 bp):
TAGGGGTATATCGGTAATTTTGCTCT
Found at i:38700891 original size:27 final size:28
Alignment explanation
Indices: 38700827--38700894 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
38700817 TTTAAAACCC
*
38700827 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
38700854 TAGGGGTAATTTCGGTAATTTTGCTC-T
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
38700881 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
38700895 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:38702728 original size:19 final size:18
Alignment explanation
Indices: 38702691--38702734 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
38702681 ATACATACAG
38702691 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
38702708 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
38702727 TACTAATT
1 TAATAATT
38702735 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:38703530 original size:33 final size:33
Alignment explanation
Indices: 38703488--38703559 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
38703478 ATACATAAGA
*
38703488 GTAACATCAACCATGACTACAAGGTAGTGCATT
1 GTAACATCAACCATGACTACAAGGTAGTCCATT
*
38703521 GTAACATCAACCATGACTACGAGGTAGTCCATT
1 GTAACATCAACCATGACTACAAGGTAGTCCATT
38703554 -TAACAT
1 GTAACAT
38703560 AGCTCTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
32 6 0.16
33 31 0.84
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (33 bp):
GTAACATCAACCATGACTACAAGGTAGTCCATT
Found at i:38705890 original size:26 final size:26
Alignment explanation
Indices: 38705840--38705891 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
38705830 ATTATTCAAT
*
38705840 CAAAAACCTTTTTAAAATTACATTTG
1 CAAAAACCTTTTTAAAATCACATTTG
*
38705866 CAAAAACCTTTTTAAAATCATATTTG
1 CAAAAACCTTTTTAAAATCACATTTG
38705892 ACTTATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (26 bp):
CAAAAACCTTTTTAAAATCACATTTG
Found at i:38711539 original size:27 final size:28
Alignment explanation
Indices: 38711509--38711578 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
38711499 ATAATAAGTC
*
38711509 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
38711536 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
38711564 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38711579 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38719464 original size:27 final size:28
Alignment explanation
Indices: 38719434--38719503 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
38719424 ATAATAAGTC
*
38719434 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
38719461 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
38719489 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38719504 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38727110 original size:24 final size:24
Alignment explanation
Indices: 38727054--38727189 Score: 137
Period size: 24 Copynumber: 5.7 Consensus size: 24
38727044 CATGTTTACT
* ** *
38727054 CGCACACATAGTGCCTTAGTAATT
1 CGCACACATAGTGCCATACAAATC
* * * * *
38727078 CACATACATATTGACATTCAAATC
1 CGCACACATAGTGCCATACAAATC
38727102 CGCACACATAGTGCCATACAAATC
1 CGCACACATAGTGCCATACAAATC
* * *
38727126 CGCACACATAGTGTCGTACAAATT
1 CGCACACATAGTGCCATACAAATC
** *
38727150 CGCACACATAGTGCCATTGAAATT
1 CGCACACATAGTGCCATACAAATC
38727174 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
38727190 AAGTCATTTC
Statistics
Matches: 91, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 91 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.24
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATC
Found at i:38727132 original size:72 final size:72
Alignment explanation
Indices: 38727054--38727189 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 72
38727044 CATGTTTACT
* ** * *
38727054 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
1 CGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCAT
38727119 ACAAATC
66 ACAAATC
* * * * *
38727126 CGCACACATAGTGTCGTACAAATTCGCACACATAGTGCCATTGAAATTCGCACACATAGTGCCA
1 CGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
38727190 AAGTCATTTC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.24
Consensus pattern (72 bp):
CGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCAT
ACAAATC
Found at i:38727135 original size:48 final size:48
Alignment explanation
Indices: 38727054--38727186 Score: 158
Period size: 48 Copynumber: 2.8 Consensus size: 48
38727044 CATGTTTACT
* * * * * *
38727054 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATC
1 CGCACACATAGTGCCATAGAAATTCGCACACATAGTGACATACAAATC
* * * * *
38727102 CGCACACATAGTGCCATACAAATCCGCACACATAGTGTCGTACAAATT
1 CGCACACATAGTGCCATAGAAATTCGCACACATAGTGACATACAAATC
*
38727150 CGCACACATAGTGCCATTGAAATTCGCACACATAGTG
1 CGCACACATAGTGCCATAGAAATTCGCACACATAGTG
38727187 CCAAAGTCAT
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (48 bp):
CGCACACATAGTGCCATAGAAATTCGCACACATAGTGACATACAAATC
Found at i:38728462 original size:15 final size:14
Alignment explanation
Indices: 38728436--38728471 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
38728426 CCTTTTCTTC
*
38728436 TTTTATTCATTCAT
1 TTTTATTAATTCAT
38728450 TTCTTATTAATTCAT
1 TT-TTATTAATTCAT
38728465 TTTTATT
1 TTTTATT
38728472 TGGATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATTAATTCAT
Found at i:38728915 original size:27 final size:26
Alignment explanation
Indices: 38728868--38728918 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
38728858 CGAGGCTGCA
*
38728868 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
38728894 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
38728919 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:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:38729547 original size:26 final size:27
Alignment explanation
Indices: 38729518--38729582 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
38729508 TTACACAAGT
*
38729518 TAGTCA-TTTACGCACGAGGGGCAAAA
1 TAGTCATTTTACACACGAGGGGCAAAA
* *
38729544 TAGTCATTTTACACCCTAGGGGCAAAA
1 TAGTCATTTTACACACGAGGGGCAAAA
* *
38729571 TGGTAATTTTAC
1 TAGTCATTTTAC
38729583 CCCAGAAGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (27 bp):
TAGTCATTTTACACACGAGGGGCAAAA
Found at i:38729618 original size:54 final size:54
Alignment explanation
Indices: 38729560--38729727 Score: 142
Period size: 54 Copynumber: 3.1 Consensus size: 54
38729550 TTTTACACCC
*
38729560 TAGGGGCAAAAT-GGTAATTT-TACCCCAGAAGGGTATCTCAGTAATTCTACCCTA
1 TAGGGG-AAAATCGGT-ATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTA
* ** * * *
38729614 TAGGGGTATTTCGGTATTTCTACCCGACAAGGGTATTTCAGTAATTCTATCCTA
1 TAGGGGAAAATCGGTATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTA
** ** * * * * * *
38729668 TAGGGTTATTTCGATAATTCTACCCGACAACGGTATTTCAATAATTCTACCCTA
1 TAGGGGAAAATCGGTATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTA
*
38729722 CAGGGG
1 TAGGGG
38729728 TATTTAAGTA
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 6 0.06
54 91 0.94
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (54 bp):
TAGGGGAAAATCGGTATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTA
Found at i:38729732 original size:54 final size:54
Alignment explanation
Indices: 38729591--38729771 Score: 213
Period size: 54 Copynumber: 3.4 Consensus size: 54
38729581 ACCCCAGAAG
* * * *
38729591 GGTATCTCAGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCGACAAG
1 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCGACAAC
* *
38729645 GGTATTTCAGTAATTCTATCCTATAGGGTTATTTCGATAATTCTACCCGACAAC
1 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCGACAAC
* * * ** *
38729699 GGTATTTCAATAATTCTACCCTACAGGGGTATTT-AAGTAATTCTACCTAAC-AG
1 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGA-TAATTCTACCCGACAAC
*
38729752 GAGTATTTCGGTAATTCTAC
1 G-GTATTTCAGTAATTCTAC
38729772 AACTTATCCA
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
53 3 0.03
54 106 0.97
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (54 bp):
GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCGACAAC
Found at i:38729768 original size:27 final size:25
Alignment explanation
Indices: 38729589--38729771 Score: 143
Period size: 27 Copynumber: 6.8 Consensus size: 25
38729579 TTACCCCAGA
* *
38729589 AGGGTATCTCAGTAATTCTACCCTAT
1 AGGGTATTTCAGTAATTCTA-CCTAC
* * *
38729615 AGGGGTATTTCGGTATTTCTACCCGAC
1 A-GGGTATTTCAGTAATTCTA-CCTAC
*
38729642 AAGGGTATTTCAGTAATTCTATCCTAT
1 -AGGGTATTTCAGTAATTCTA-CCTAC
*
38729669 AGGGTTATTTC-GATAATTCTACCCGAC
1 AGGG-TATTTCAG-TAATTCTA-CCTAC
* *
38729696 AACGGTATTTCAATAATTCTACCCTAC
1 -AGGGTATTTCAGTAATTCTA-CCTAC
*
38729723 AGGGGTATTTAAGTAATTCTACCTAAC
1 A-GGGTATTTCAGTAATTCTACCT-AC
*
38729750 AGGAGTATTTCGGTAATTCTAC
1 AGG-GTATTTCAGTAATTCTAC
38729772 AACTTATCCA
Statistics
Matches: 127, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
26 12 0.09
27 111 0.87
28 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (25 bp):
AGGGTATTTCAGTAATTCTACCTAC
Found at i:38736388 original size:27 final size:26
Alignment explanation
Indices: 38736340--38736399 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
38736330 CAGCGAGCTG
*
38736340 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
38736367 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
38736393 CAGATAT
1 CAGATAT
38736400 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:38736496 original size:27 final size:26
Alignment explanation
Indices: 38736448--38736499 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38736438 GCGAGGCTGC
*
38736448 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
38736474 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
38736500 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:38737175 original size:27 final size:27
Alignment explanation
Indices: 38737145--38737343 Score: 249
Period size: 27 Copynumber: 7.4 Consensus size: 27
38737135 CTAGGCAAAA
* * *
38737145 CGGTAATTTTACCCCACAAGGGTATCT
1 CGGTAATTCTACCCTACAAGGGTATTT
* *
38737172 CGGTATTTCTACCCTACACGGGTATTT
1 CGGTAATTCTACCCTACAAGGGTATTT
* *
38737199 CAGTATTTCTACCCTACAAGGGTATTT
1 CGGTAATTCTACCCTACAAGGGTATTT
*
38737226 CGGTAATTCTATCCTAC-AGGGTATTT
1 CGGTAATTCTACCCTACAAGGGTATTT
*
38737252 CGGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAAGGGTATTT
** *
38737279 CAATAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAAGGGTATTT
* *
38737306 C-GTAATTCTACCTTACAGGGGTATTT
1 CGGTAATTCTACCCTACAAGGGTATTT
*
38737332 CGATAATTCTAC
1 CGGTAATTCTAC
38737344 AACTTATCCA
Statistics
Matches: 153, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 49 0.32
27 104 0.68
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (27 bp):
CGGTAATTCTACCCTACAAGGGTATTT
Found at i:38737262 original size:80 final size:79
Alignment explanation
Indices: 38737145--38737343 Score: 265
Period size: 80 Copynumber: 2.5 Consensus size: 79
38737135 CTAGGCAAAA
* * * * * *
38737145 CGGTAATTTTACCCCACAAGGGTATCTCGGTATTTCTACCCTACACGGGTATTTCAGTATTTCTA
1 CGGTAATTCTA-CCTAC-AGGGTATTTCGGTAATTCTACCCTACACGGGTATTTCAATAATTCTA
38737210 CCCTACAAGGGTATTT
64 CCCTACAAGGGTATTT
*
38737226 CGGTAATTCTATCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAC
1 CGGTAATTCTA-CCTACAGGGTATTTCGGTAATTCTACCCTACACGGGTATTTCAATAATTCTAC
*
38737291 CCTACAGGGGTATTT
65 CCTACAAGGGTATTT
*
38737306 C-GTAATTCTACCTTACAGGGGTATTTCGATAATTCTAC
1 CGGTAATTCTACC-TACA-GGGTATTTCGGTAATTCTAC
38737344 AACTTATCCA
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
78 2 0.02
79 13 0.12
80 77 0.73
81 14 0.13
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (79 bp):
CGGTAATTCTACCTACAGGGTATTTCGGTAATTCTACCCTACACGGGTATTTCAATAATTCTACC
CTACAAGGGTATTT
Found at i:38737275 original size:53 final size:54
Alignment explanation
Indices: 38737145--38737343 Score: 258
Period size: 53 Copynumber: 3.7 Consensus size: 54
38737135 CTAGGCAAAA
* * * * *
38737145 CGGTAATTTTACCCCACAAGGGTATCTCGGTATTTCTACCCTACACGGGTATTT
1 CGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACACGGGTATTT
* * * *
38737199 CAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACA-GGGTATTT
1 CGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACACGGGTATTT
* * *
38737252 CGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACACGGGTATTT
* *
38737306 C-GTAATTCTACCTTACAGGGGTATTTCGATAATTCTAC
1 CGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTAC
38737344 AACTTATCCA
Statistics
Matches: 129, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
53 82 0.64
54 47 0.36
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (54 bp):
CGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACACGGGTATTT
Found at i:38737389 original size:18 final size:18
Alignment explanation
Indices: 38737363--38737408 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
38737353 ACTTGGGCCT
*
38737363 ATGGACCATTGGGACCAC
1 ATGGCCCATTGGGACCAC
38737381 ATGGCCCATTGGGACCAC
1 ATGGCCCATTGGGACCAC
38737399 ATGGCCCATT
1 ATGGCCCATT
38737409 TCACCCATCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (18 bp):
ATGGCCCATTGGGACCAC
Found at i:38740338 original size:50 final size:49
Alignment explanation
Indices: 38740099--38740335 Score: 207
Period size: 50 Copynumber: 4.9 Consensus size: 49
38740089 ACATCAAAGT
* * * *
38740099 CGATGCCATGTCCCAAACATGGTCTTACACT-GACTCTCGTATATTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATATCGA-CC
* * * * *
38740149 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCTATCGACGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAC-C
* * * * *
38740199 CGATGCCATGTTCCAGACATGGTCTTACACTA----ACACATATCAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGACC
* ** * *
38740244 TGAAT-CTGTGTCCCAGACATGGTGTTACACTAGCTCTCATATCTCGATCC
1 CG-ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGA-CC
*
38740294 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
38740336 CTCCCTAGCA
Statistics
Matches: 147, Mismatches: 31, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
45 24 0.16
46 8 0.05
49 9 0.06
50 105 0.71
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGACC
Found at i:38746287 original size:31 final size:31
Alignment explanation
Indices: 38746249--38746310 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
38746239 GATACCTTTA
38746249 GAAAAACTTTATCACCCACTTGGAACTCGAT
1 GAAAAACTTTATCACCCACTTGGAACTCGAT
38746280 GAAAAACTTTATCACCCACTTGGAACTCGAT
1 GAAAAACTTTATCACCCACTTGGAACTCGAT
38746311 CTCTTTTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (31 bp):
GAAAAACTTTATCACCCACTTGGAACTCGAT
Found at i:38751902 original size:50 final size:50
Alignment explanation
Indices: 38751784--38751913 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
38751774 CTGATAAGCA
* *
38751784 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCCGGTACACAT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCGATACACAT
* * * *
38751834 T-GTGGCCTACACTTAGTACTACACACGTGACC-TCATCATCTGATACAC-T
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACA--ATCCGATACACAT
38751883 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
38751914 TCGAAGTCAT
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 2 0.03
49 30 0.43
50 37 0.54
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCGATACACAT
Found at i:38751957 original size:51 final size:50
Alignment explanation
Indices: 38751773--38751959 Score: 166
Period size: 50 Copynumber: 3.7 Consensus size: 50
38751763 GTCGAAGCTG
* *
38751773 TCTGATA-AGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AA-CAA
1 TCTGATACA-CATAGTAGCCCGCACTTAGTACTACACACGTGACCGAATC-A
* * * * ** **
38751822 TCCGGTACACATTGTGGCCTACACTTAGTACTACACACGTGACCTCATCA
1 TCTGATACACATAGTAGCCCGCACTTAGTACTACACACGTGACCGAATCA
* * *
38751872 TCTGATACACTTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCA
1 TCTGATACACATAGTAGCCCGCACTTAGTACTACACACGTGACCGAA-TCA
** *
38751923 T-TGAGTATGCATAGTAGCCCGTACTTAGTACTACACA
1 TCTGA-TACACATAGTAGCCCGCACTTAGTACTACACA
38751960 GGCGACTTAA
Statistics
Matches: 112, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 36 0.32
50 44 0.39
51 32 0.29
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGATACACATAGTAGCCCGCACTTAGTACTACACACGTGACCGAATCA
Found at i:38756029 original size:22 final size:21
Alignment explanation
Indices: 38755999--38756039 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
38755989 GTTGAAATGT
*
38755999 CACACGGGCGTGTTGCCCTTCC
1 CACACGGGCCTG-TGCCCTTCC
*
38756021 CACATGGGCCTGTGCCCTT
1 CACACGGGCCTGTGCCCTT
38756040 GTGTTAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.10, C:0.39, G:0.27, T:0.24
Consensus pattern (21 bp):
CACACGGGCCTGTGCCCTTCC
Found at i:38758417 original size:41 final size:41
Alignment explanation
Indices: 38758279--38758418 Score: 155
Period size: 40 Copynumber: 3.5 Consensus size: 41
38758269 ACTCGATTGT
* *
38758279 CTTCGGGACA-TAGCCCGG-TTATAGTGA-TTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGATT-TAGTAACTTCGCACAAATGC
*
38758319 CTTCGGGAATTAGCCCGGATTTAGTAAC-TCGCACGAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTTCGCACAAATGC
* * *
38758359 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGTAACTTCGCACAAATGC
*
38758400 CTTCGGGACTTAGCCCGGA
1 CTTCGGGAATTAGCCCGGA
38758419 CACCATTCAA
Statistics
Matches: 86, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
39 2 0.02
40 56 0.65
41 27 0.31
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
CTTCGGGAATTAGCCCGGATTTAGTAACTTCGCACAAATGC
Found at i:38759875 original size:34 final size:34
Alignment explanation
Indices: 38759836--38759911 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
38759826 TTAACTCGTC
*
38759836 TTTCAGTAGCAATAGCAGTCTGGGCCTGAGCCCA
1 TTTCAGTAACAATAGCAGTCTGGGCCTGAGCCCA
* * * *
38759870 TTTCAGTAACAGTGGTAGTCTGGGCCTTAGCCCA
1 TTTCAGTAACAATAGCAGTCTGGGCCTGAGCCCA
*
38759904 TTTTAGTA
1 TTTCAGTA
38759912 CAGTATGCAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (34 bp):
TTTCAGTAACAATAGCAGTCTGGGCCTGAGCCCA
Found at i:38767737 original size:34 final size:34
Alignment explanation
Indices: 38767694--38767766 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
38767684 TTAACCCATC
*
38767694 TTTCAGTAACAGTAGCAGTTTAGGCCTGAGCCCA
1 TTTCAGTAACAGTAGCAGTCTAGGCCTGAGCCCA
* * * *
38767728 TTTCAGTAACAGTGGCAGTCTGGGCCTTAGTCCA
1 TTTCAGTAACAGTAGCAGTCTAGGCCTGAGCCCA
38767762 TTTCA
1 TTTCA
38767767 TTACACTATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (34 bp):
TTTCAGTAACAGTAGCAGTCTAGGCCTGAGCCCA
Found at i:38770083 original size:29 final size:29
Alignment explanation
Indices: 38770051--38770121 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
38770041 TTAAACTCGT
38770051 ACACTTAGTGCCATGCATTTCAAGCTCAC
1 ACACTTAGTGCCATGCATTTCAAGCTCAC
*
38770080 ACACTTAGTGCCATGCATTTCAAGCTCGC
1 ACACTTAGTGCCATGCATTTCAAGCTCAC
*
38770109 ACACTCAGTGCCA
1 ACACTTAGTGCCA
38770122 ATCTCTCAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
ACACTTAGTGCCATGCATTTCAAGCTCAC
Found at i:38777082 original size:9 final size:9
Alignment explanation
Indices: 38777068--38777093 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
38777058 TTGAGCACGC
38777068 ATTTCATGA
1 ATTTCATGA
38777077 ATTTCATGA
1 ATTTCATGA
38777086 ATTTCATG
1 ATTTCATG
38777094 TAAGTACCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (9 bp):
ATTTCATGA
Found at i:38777460 original size:50 final size:50
Alignment explanation
Indices: 38777217--38777462 Score: 216
Period size: 50 Copynumber: 5.0 Consensus size: 50
38777207 TAGGGTAAGG
*
38777217 GGCCGATGCCATGTCGCC-GACATGGTCTTACACT-G-GCTCATA-CATCAA
1 GGCCGATGCCATGTC-CCAGACATGGTCTTACACTAGCTCTCATATC-TCAA
* * * * * *
38777265 AGTCGATGCCATGTCCCAAACATGGTCTTACA-TTGACTCTCGTATATCAA
1 GGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATCTCAA
* ** * * * ***
38777315 GGCCAATGCCATGTCCCA-ACCATTATCTTACACTGGCTCTCATCTATTGC
1 GGCCGATGCCATGTCCCAGA-CATGGTCTTACACTAGCTCTCATATCTCAA
* * * * *
38777365 TGCCGATGCCATGTCCTAGACATAGTCTTACACTAGCTTTCATATCTCGA
1 GGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAA
*
38777415 GGCCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATATCTC
1 GGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
38777463 CCTAGCATTA
Statistics
Matches: 157, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
47 3 0.02
48 27 0.17
49 1 0.01
50 123 0.78
51 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (50 bp):
GGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAA
Found at i:38781345 original size:40 final size:39
Alignment explanation
Indices: 38781281--38781468 Score: 214
Period size: 39 Copynumber: 4.8 Consensus size: 39
38781271 GCTACTCGTT
* * * ** *
38781281 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
38781321 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
38781361 CAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * * * * *
38781400 CAATTACCTTCGGGCTTAGCCCGGATGTCACAATTTGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
38781439 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
38781469 CTCGAACATT
Statistics
Matches: 130, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 85 0.65
40 45 0.35
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:38781396 original size:39 final size:39
Alignment explanation
Indices: 38781317--38781469 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
38781307 TATGGTAACC
* *
38781317 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
38781357 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * *
38781396 CGCACAATTACCTTCGGGCTTAGCCCGGATGTCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
38781435 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
38781470 TCGAACATTT
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:38781445 original size:78 final size:79
Alignment explanation
Indices: 38781286--38781468 Score: 251
Period size: 78 Copynumber: 2.3 Consensus size: 79
38781276 TCGTTCAAAC
* * ** *
38781286 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAATACCTTCGGGACTTAACCCGGATATC
38781351 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * * *
38781366 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTACCTTCGGG-CTTAGCCCGGATGTCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATACCTTCGGGACTTAACCCGGATATCA
* *
38781430 CAATTTGCACAATT
66 CAACTCGCACAATT
38781444 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
38781469 CTCGAACATT
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 51 0.55
79 32 0.35
80 9 0.10
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATACCTTCGGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:38786981 original size:80 final size:79
Alignment explanation
Indices: 38786886--38787104 Score: 246
Period size: 80 Copynumber: 2.7 Consensus size: 79
38786876 CCAAGGCCAA
* * * *
38786886 CGGGACTTTACCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 CGGGTCTTAACCCGGATAT-ACAATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
*
38786951 TTGCACGAA-TGCCTT
65 TAGCAC-AATTGCCTT
* * * * * *
38786966 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCTAC
1 CGGGTCTTAACCCGGATAT-ACAATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
38787031 TAGCACAATTGCCTT
65 TAGCACAATTGCCTT
* *
38787046 CGGGTCTTAACCCGGATATA-AATTT-CAGCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 CGGGTCTTAACCCGGATATACAATTTGCA-CA-AA-TGCCTTCGGGTCTTAGCCCGGATAT
38787105 CATTCAATTT
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
77 2 0.02
78 5 0.04
79 5 0.04
80 105 0.90
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (79 bp):
CGGGTCTTAACCCGGATATACAATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACT
AGCACAATTGCCTT
Found at i:38787063 original size:40 final size:40
Alignment explanation
Indices: 38786896--38787066 Score: 236
Period size: 40 Copynumber: 4.3 Consensus size: 40
38786886 CGGGACTTTA
* * * *
38786896 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
*
38786936 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
*
38786976 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
* * * *
38787016 CCCGGATATAGCTACTAGCAC-AATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACGAA-TGCCTTCGGGTCTTAG
38787056 CCCGGATATAA
1 CCCGGATATAA
38787067 ATTTCAGCAT
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.02
40 117 0.98
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
Found at i:38787081 original size:40 final size:40
Alignment explanation
Indices: 38786913--38787104 Score: 210
Period size: 40 Copynumber: 4.8 Consensus size: 40
38786903 ATCACGATTT
* * * *
38786913 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
38786953 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
38786993 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
38787033 GCACAATTGCCTTCGGGTCTTAACCCGGATATAAAT-TTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACT-A
* * *
38787073 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
38787105 CATTCAATTT
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 132 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:38794971 original size:80 final size:80
Alignment explanation
Indices: 38794887--38795038 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
38794877 TATGGTAACC
* * * *
38794887 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
38794951 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
38794967 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
38795032 CCGGATA
66 CCGGATA
38795039 TAATTTCCAG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.02
80 59 0.98
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:38794977 original size:40 final size:39
Alignment explanation
Indices: 38794928--38795038 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 39
38794918 ATCACGATTT
*
38794928 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAA-GCACTA
*
38794968 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTA
*
38795008 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
38795039 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 58 0.92
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Found at i:38795056 original size:40 final size:38
Alignment explanation
Indices: 38794931--38795078 Score: 129
Period size: 40 Copynumber: 3.8 Consensus size: 38
38794921 ACGATTTGCA
* *
38794931 CAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-G
1 CAAATGCCTTCGGGTCTTAGCCCGGATATAATTAC-CAG
* *** *
38794969 CACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAG
1 CA--AATGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
* *
38795009 CACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAG
1 CA-AA-TGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
*
38795049 CATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 CA-AA-TGCCTTCGGGTCTTAGCCCGGATAT
38795079 CATTCAATTT
Statistics
Matches: 89, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
38 2 0.02
39 15 0.17
40 72 0.81
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (38 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
Found at i:38801702 original size:27 final size:27
Alignment explanation
Indices: 38801671--38801886 Score: 211
Period size: 27 Copynumber: 8.0 Consensus size: 27
38801661 AAACATACAT
* **
38801671 CACATAGGGGCAAAACAGTCATCCTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
38801698 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
** **
38801725 CTTATAAGGGCAAAATTGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
38801752 CACATAAGGACAAAACCGTCATTTTAA
1 CACATAAGGGCAAAACAGTCATTTTAC
*
38801779 CACATAAGGGCAAAACAGTCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
38801806 CACATAAGGACAAAA-TGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
** ** *
38801832 TGCATAAGGAAAAAATC-GTCATTTTAA
1 CACATAAGGGCAAAA-CAGTCATTTTAC
* *
38801859 CACTTAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
38801886 C
1 C
38801887 TTACAGGGGT
Statistics
Matches: 154, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
26 21 0.14
27 133 0.86
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:38801867 original size:80 final size:81
Alignment explanation
Indices: 38801698--38801886 Score: 263
Period size: 80 Copynumber: 2.3 Consensus size: 81
38801688 GTCATCCTAC
* ** * *
38801698 CACATAAGGGCAAAATAGTCATTTTACCTTATAAGGGCAAAATTGTCATTTTACCACATAAGGAC
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGACAAAATTGTCATTTTACCACATAAGGAA
38801763 AAAACCGTCATTTTAA
66 AAAACCGTCATTTTAA
* ***
38801779 CACATAAGGGCAAAACAGTCATTTTGCCACATAAGGACAAAA-TGTCATTTTATTGCATAAGGAA
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGACAAAATTGTCATTTTACCACATAAGGAA
*
38801843 AAAATCGTCATTTTAA
66 AAAACCGTCATTTTAA
* *
38801859 CACTTAAGGGCAAAACAATCATTTTACC
1 CACATAAGGGCAAAACAGTCATTTTACC
38801887 TTACAGGGGT
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 58 0.61
81 37 0.39
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (81 bp):
CACATAAGGGCAAAACAGTCATTTTACCACATAAGGACAAAATTGTCATTTTACCACATAAGGAA
AAAACCGTCATTTTAA
Found at i:38801907 original size:27 final size:27
Alignment explanation
Indices: 38801877--38802181 Score: 357
Period size: 27 Copynumber: 11.4 Consensus size: 27
38801867 GGCAAAACAA
* ** *
38801877 TCATTTTACCTTACAGGGGTATTACAG
1 TCATTTTACCCTATGGGGGTATTTCAG
* *
38801904 TCATTTTACCTTATAGGGGTATTAT-AG
1 TCATTTTACCCTATGGGGGTATT-TCAG
* *
38801931 TCATTTTACCCTATGGAGGTATTT-TG
1 TCATTTTACCCTATGGGGGTATTTCAG
** *
38801957 ATCATTTTACCCTATGCAGGTATTTCGG
1 -TCATTTTACCCTATGGGGGTATTTCAG
*
38801985 TCATTTTA-CCTACGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
* **
38802011 TCATTTTACCCTACGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
38802038 TAATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
38802065 TCATTTTA-CCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
** *
38802091 TCATTTTACCCTATTAGGGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
38802118 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
* *
38802145 TCATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
38802172 TCACTTTACC
1 TCATTTTACC
38802182 TTCCGGCCCA
Statistics
Matches: 245, Mismatches: 28, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
26 50 0.20
27 194 0.79
28 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCAG
Found at i:38802033 original size:80 final size:80
Alignment explanation
Indices: 38801876--38802181 Score: 391
Period size: 80 Copynumber: 3.8 Consensus size: 80
38801866 GGGCAAAACA
* ** * *
38801876 ATCATTTTACCTTACAGGGGTATTACAGTCATTTTACCTTATAGGGGTATTAT-AGTCATTTTAC
1 ATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC-TATGGGGGTATT-TCAGTCATTTTAC
*
38801940 CCTATGGAGGTATTTTG
64 CCTATGGGGGTATTTTG
** * *
38801957 ATCATTTTACCCTATGCAGGTATTTCGGTCATTTTACCTACGGGGGTATTTCAGTCATTTTACCC
1 ATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCTATGGGGGTATTTCAGTCATTTTACCC
*
38802022 TACGGGGGTATTTTG
66 TATGGGGGTATTTTG
* *
38802037 GTAATTTTACCCTATGGGGGTATTTCAGTCATTTTACCTATGGGGGTATTTCAGTCATTTTACCC
1 ATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCTATGGGGGTATTTCAGTCATTTTACCC
**
38802102 TATTAGGGTATTTT-
66 TATGGGGGTATTTTG
* * * *
38802116 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCACTTTAC
1 A-TCATTTTACCCTATGGGGGTATTTCAGTCATTTTA-CCTATGGGGGTATTTCAGTCATTTTAC
38802181 C
64 C
38802182 TTCCGGCCCA
Statistics
Matches: 196, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 139 0.71
81 56 0.29
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (80 bp):
ATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCTATGGGGGTATTTCAGTCATTTTACCC
TATGGGGGTATTTTG
Found at i:38802169 original size:107 final size:104
Alignment explanation
Indices: 38801877--38802182 Score: 355
Period size: 107 Copynumber: 2.9 Consensus size: 104
38801867 GGCAAAACAA
* * * *
38801877 TCATTTTACCTTAC-AGGGGTATTACAGTCATTTTACCTTATAGGGGTATTATAGTCATTTTACC
1 TCATTTTACC-TACGA-GGGTATTTCAGTCATTTTACCCTATGGGGGTATT-TGGTCATTTTACC
* *
38801941 CTATGGAGGTATTT-TGATCATTTTACCCTATGCAGGTATTTCGG
63 CTATGG-GGTATTTCAG-TCATTTTA-CCTATGCAGGTATTTCAG
* * *
38801985 TCATTTTACCTACGGGGGTATTTCAGTCATTTTACCCTACGGGGGTATTTTGGTAATTTTACCCT
1 TCATTTTACCTACGAGGGTATTTCAGTCATTTTACCCTATGGGGGTA-TTTGGTCATTTTACCCT
**
38802050 ATGGGGGTATTTCAGTCATTTTACCTATGGGGGTATTTCAG
65 AT-GGGGTATTTCAGTCATTTTACCTATGCAGGTATTTCAG
** *
38802091 TCATTTTACCCTATTAGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCC
1 TCATTTTA-CCTACGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTT-GGTCATTTTACCC
* *
38802156 TATGAGGGTATTTCGGTCACTTTACCT
64 TATG-GGGTATTTCAGTCATTTTACCT
38802183 TCCGGCCCAA
Statistics
Matches: 172, Mismatches: 19, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
106 27 0.16
107 130 0.76
108 15 0.09
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (104 bp):
TCATTTTACCTACGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTGGTCATTTTACCCTA
TGGGGTATTTCAGTCATTTTACCTATGCAGGTATTTCAG
Found at i:38819734 original size:46 final size:45
Alignment explanation
Indices: 38819684--38819856 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 45
38819674 TTGGGCATCT
38819684 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*** * *
38819730 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
* *
38819777 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*
38819823 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38819857 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:38819836 original size:93 final size:93
Alignment explanation
Indices: 38819677--38819848 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
38819667 AGGATGTTTG
* * *
38819677 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38819742 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
38819770 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38819835 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
38819849 ACTTATGGGC
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:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:38823668 original size:87 final size:87
Alignment explanation
Indices: 38823522--38823692 Score: 315
Period size: 87 Copynumber: 2.0 Consensus size: 87
38823512 AAACCCAAGA
*
38823522 TTGCCACTGTTTATCATCCACAGTCAAATGGGCAAGTTGAACAGGTAAATCATGAGATCAAAAGT
1 TTGCCACTGTTTATCATCCACAGTCAAATGGGCAAGTTGAACAGGTAAATCATAAGATCAAAAGT
38823587 ATCCTTGAGAAAGTAGTGCAAC
66 ATCCTTGAGAAAGTAGTGCAAC
* *
38823609 TTGCCACTGTTTATCATCCACAGTCAAATGGGCAAGTTGAACGGGTAAATCGTAAGATCAAAAGT
1 TTGCCACTGTTTATCATCCACAGTCAAATGGGCAAGTTGAACAGGTAAATCATAAGATCAAAAGT
38823674 ATCCTTGAGAAAGTAGTGC
66 ATCCTTGAGAAAGTAGTGC
38823693 TACCTAATAG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (87 bp):
TTGCCACTGTTTATCATCCACAGTCAAATGGGCAAGTTGAACAGGTAAATCATAAGATCAAAAGT
ATCCTTGAGAAAGTAGTGCAAC
Found at i:38826841 original size:34 final size:34
Alignment explanation
Indices: 38826794--38826869 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
38826784 CCTTGAGATA
*
38826794 ATATATATCATACCAACACATCATGTGTATAAAT
1 ATATATATCATACCAACACATCATGTGCATAAAT
*
38826828 ATATATATTATACCAACACATCATGTGCATAAAT
1 ATATATATCATACCAACACATCATGTGCATAAAT
38826862 ATATATAT
1 ATATATAT
38826870 GTGCAAGTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (34 bp):
ATATATATCATACCAACACATCATGTGCATAAAT
Found at i:38827865 original size:43 final size:43
Alignment explanation
Indices: 38827799--38828015 Score: 267
Period size: 43 Copynumber: 5.0 Consensus size: 43
38827789 ATATCATACA
* * * * * * *
38827799 ATGCCAACGTCCTAGATGTGGTCTTACATGTAACCTCCTATCG
1 ATGCCAATGTCCCAGAAGTGGTCTTACACGTAATCACATATCG
* * *
38827842 ATGCCACTGTCCCAGATAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAATGTCCCAGA-AGTGGTCTTACACGTAATCACATATCG
* *
38827885 ATGCCAATGTCCCA-AACATGGTCTTACACGTAATCACATATTG
1 ATGCCAATGTCCCAGAA-GTGGTCTTACACGTAATCACATATCG
* *
38827928 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGAAGTGGTCTTACACGTAATCACATATCG
*
38827971 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGAAGTGGTCTTACACGTAATCACATATCG
38828014 AT
1 AT
38828016 ATCACATATA
Statistics
Matches: 151, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 147 0.97
44 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGAAGTGGTCTTACACGTAATCACATATCG
Found at i:38829049 original size:32 final size:33
Alignment explanation
Indices: 38828989--38829053 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
38828979 CGAAACTAAG
38828989 AAAACTTTATTTCTTTTCTTTTCTTTTATGTTT
1 AAAACTTTATTTCTTTTCTTTTCTTTTATGTTT
38829022 AAAACTTTATTTCTTTTC-TTTCTTTTATGTTT
1 AAAACTTTATTTCTTTTCTTTTCTTTTATGTTT
38829054 CGGTCATAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.66
Consensus pattern (33 bp):
AAAACTTTATTTCTTTTCTTTTCTTTTATGTTT
Found at i:38829365 original size:14 final size:15
Alignment explanation
Indices: 38829348--38829376 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38829338 ACACAAAAAT
38829348 TTCACACA-TATAAA
1 TTCACACATTATAAA
38829362 TTCACACATTATAAA
1 TTCACACATTATAAA
38829377 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:38844811 original size:39 final size:39
Alignment explanation
Indices: 38844757--38844950 Score: 226
Period size: 40 Copynumber: 4.9 Consensus size: 39
38844747 TGTGTATGAA
*
38844757 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
38844796 TGTGCGAGTTGTGATATCCGGGCTAAGCCCAAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * * * *
38844835 TGTGTGAGCTATGATATCCGGGATAAACTCCCAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGC-CCGAAGGCAAT
* *
38844875 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
38844915 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
38844951 TGTTTGAACG
Statistics
Matches: 132, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 60 0.45
40 71 0.54
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:38844878 original size:79 final size:79
Alignment explanation
Indices: 38844768--38844918 Score: 232
Period size: 79 Copynumber: 1.9 Consensus size: 79
38844758 GTGCGAATTG
* * *
38844768 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCAAAGGC
1 TGATATCCGGGATAAACCCCAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCAAAGGC
38844832 AATTGTGTGAGCTA
66 AATTGTGTGAGCTA
* *
38844846 TGATATCCGGGATAAACTCCCAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGG
1 TGATATCCGGGATAAAC-CCCAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCAAAGG
*
38844911 CATTTGTG
65 CAATTGTG
38844919 CGGGTTATCA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 15 0.23
79 36 0.55
80 14 0.22
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (79 bp):
TGATATCCGGGATAAACCCCAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCAAAGGC
AATTGTGTGAGCTA
Found at i:38857157 original size:13 final size:13
Alignment explanation
Indices: 38857139--38857163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38857129 TAATGGTATA
38857139 TTGAATCCATGAT
1 TTGAATCCATGAT
38857152 TTGAATCCATGA
1 TTGAATCCATGA
38857164 AAATTTAGTG
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:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:38858731 original size:48 final size:48
Alignment explanation
Indices: 38858672--38859133 Score: 870
Period size: 48 Copynumber: 9.6 Consensus size: 48
38858662 AAAGTGTAAT
38858672 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
38858720 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
38858768 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
38858816 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
38858864 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
38858912 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
38858960 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATTTGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
38859008 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
* * *
38859056 TATGTGGTAAAGCAGAATGGCTAATGTGAAATATATGTGTGATATGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
38859104 TATGTGGTAAAGCCGAATGGCTAATGTGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAA
38859134 TGTTGTAACA
Statistics
Matches: 404, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 404 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
Found at i:38859219 original size:37 final size:37
Alignment explanation
Indices: 38859178--38859297 Score: 201
Period size: 37 Copynumber: 3.3 Consensus size: 37
38859168 GGAAATATAT
*
38859178 TCCGGGTAAGACCCGATGACTACTTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
38859215 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
38859252 TCCGGGTAAGA-CC--TGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
38859286 TCCGGGTAAGAC
1 TCCGGGTAAGAC
38859298 TTCGTAATAA
Statistics
Matches: 80, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
34 31 0.39
36 2 0.03
37 47 0.59
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:38860215 original size:40 final size:40
Alignment explanation
Indices: 38860169--38860429 Score: 203
Period size: 40 Copynumber: 6.5 Consensus size: 40
38860159 TGAATGATAC
**
38860169 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG-ATATAT
* * *
38860209 CCGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATA-
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AG-TGATATAT
* * * * *
38860248 CTCGGGTTAAGACCTGAAG-GCAATT-GTGCTTGTGGTTATAT
1 C-CGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGT-GATATAT
* * *
38860289 -CTGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* ** *
38860328 CCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * * **
38860368 CCAGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGCAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* *
38860408 CCGGGCTAGGTCTCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
38860430 ATCATGCTGG
Statistics
Matches: 186, Mismatches: 25, Indels: 20
0.81 0.11 0.09
Matches are distributed among these distances:
39 23 0.12
40 157 0.84
41 6 0.03
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:38864164 original size:48 final size:48
Alignment explanation
Indices: 38864105--38864662 Score: 1053
Period size: 48 Copynumber: 11.6 Consensus size: 48
38864095 AAAGTGTAAT
38864105 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
38864153 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
38864201 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
38864249 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
38864297 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
38864345 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
38864393 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
38864441 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
38864489 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
38864537 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
* * *
38864585 TATGTGGTAAAGCAGAATGGCTAATGTGAAATATATGTGTGATATGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
38864633 TATGTGGTAAAGCCGAATGGCTAATGTGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAA
38864663 TGTTGTAACA
Statistics
Matches: 500, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 500 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
Found at i:38864757 original size:37 final size:37
Alignment explanation
Indices: 38864707--38864829 Score: 237
Period size: 37 Copynumber: 3.3 Consensus size: 37
38864697 GGAAATATAT
38864707 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
38864744 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
38864781 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
38864818 TCCGGGTAAGAC
1 TCCGGGTAAGAC
38864830 TTCGTAATAA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 85 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:38871645 original size:45 final size:45
Alignment explanation
Indices: 38871579--38871754 Score: 237
Period size: 45 Copynumber: 3.9 Consensus size: 45
38871569 TATCGTACAG
** *
38871579 TACTATTC-AGGCCTTTAAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGA-GCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
38871624 TACTATTCGAGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGAGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
38871669 TACTATTTGGGCCTTCGAGCCTAGCAGGCTACAATGTCGGTGAGA
1 TACTATTCGAGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
38871714 TACTATTTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGT
1 TACTATTCGAGCCTTCGAGCCTAGCAGGCTATAATGCCGGT
38871755 AAAATGATAT
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 118 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (45 bp):
TACTATTCGAGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:38898264 original size:43 final size:43
Alignment explanation
Indices: 38898130--38898278 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
38898120 ATCAGGTTAT
* *
38898130 ATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTAT
1 ATGTAAGACCATGTCTGGGACATTGGCATCGATA-TGTGATTAC
* * *
38898173 GTGTAGGACCATGTCTGGGACATTGGCATC-ATTAAT-CGATTAC
1 ATGTAAGACCATGTCTGGGACATTGGCATCGA-T-ATGTGATTAC
* * *
38898216 GTGTAAGATCC-TGTCTGGGACAGTGGCATCGATATGTGATAAC
1 ATGTAAGA-CCATGTCTGGGACATTGGCATCGATATGTGATTAC
*
38898259 ATGTAAGACCATATCTGGGA
1 ATGTAAGACCATGTCTGGGA
38898279 TATGGCCTTG
Statistics
Matches: 88, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
42 4 0.05
43 78 0.89
44 5 0.06
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (43 bp):
ATGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAC
Found at i:38904875 original size:29 final size:29
Alignment explanation
Indices: 38904842--38904973 Score: 221
Period size: 29 Copynumber: 4.5 Consensus size: 29
38904832 ATAGTGAATC
38904842 CGCACACTTAGTGCTATATATTTTCAGCTT
1 CGCACACTTAGTGCTATATATTTTCAG-TT
*
38904872 -GCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGTT
38904901 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGTT
*
38904930 CGCACACTTAGTGCTATATATTTCCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGTT
38904959 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38904974 GTACAATTTT
Statistics
Matches: 97, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
29 71 0.73
30 26 0.27
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGTT
Found at i:38904983 original size:59 final size:59
Alignment explanation
Indices: 38904842--38904973 Score: 223
Period size: 59 Copynumber: 2.3 Consensus size: 59
38904832 ATAGTGAATC
*
38904842 CGCACACTTAGTGCTATATATTTTCAGCTTGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTTGCACACTTAGTGCTATATAATTTCCAGCT
*
38904901 CGCACACTTAGTGCTATATATTTTCAG-TTCGCACACTTAGTGCTATAT-ATTTCCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTT-GCACACTTAGTGCTATATAATTTCCAGCT
38904959 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38904974 GTACAATTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
58 25 0.36
59 45 0.64
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTTGCACACTTAGTGCTATATAATTTCCAGCT
Found at i:38905458 original size:2 final size:2
Alignment explanation
Indices: 38905451--38905479 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
38905441 CATACTTATG
38905451 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38905480 GTGCATCACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38906348 original size:19 final size:18
Alignment explanation
Indices: 38906324--38906359 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38906314 CCCCCTTTTT
*
38906324 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
38906343 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
38906360 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:38909251 original size:43 final size:44
Alignment explanation
Indices: 38909174--38909282 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 44
38909164 TATATGTAAA
* * * * *
38909174 ACCATGTCTGGGACATTGGCAT-TGTATTGTGATTATGTGTAGG
1 ACCATGTCTGGGACATTGGCATCTGTAATGCGATTACGTCTAAG
*
38909217 ACCATGTGTGGGACATTGGCATCAT-TAAT-CGATTACGTCTAAG
1 ACCATGTCTGGGACATTGGCATC-TGTAATGCGATTACGTCTAAG
* *
38909260 ACCCTGTCTGGGACAGTGGCATC
1 ACCATGTCTGGGACATTGGCATC
38909283 GATATGTGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 51 0.93
44 3 0.05
45 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (44 bp):
ACCATGTCTGGGACATTGGCATCTGTAATGCGATTACGTCTAAG
Found at i:38914687 original size:22 final size:20
Alignment explanation
Indices: 38914657--38914697 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
38914647 CACATTTTTC
38914657 ATTTAATCACACTTTTACACAT
1 ATTTAATCAC-CTTTT-CACAT
*
38914679 ATTTTATCACCTTTTCACA
1 ATTTAATCACCTTTTCACA
38914698 AATTGGTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTAATCACCTTTTCACAT
Found at i:38917051 original size:27 final size:27
Alignment explanation
Indices: 38917021--38917227 Score: 254
Period size: 27 Copynumber: 7.7 Consensus size: 27
38917011 ATAGTCATTT
* **
38917021 TACCCTCCAGGGGTAAATCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* * * *
38917048 TACCTTATAGGAGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
38917075 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* * *
38917102 TACCTTACAGGAGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* * *
38917129 CACCCTACAGGGGTATTTCAGAAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* * *
38917156 TACCTTACA-GGGTATTTTGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
38917182 TACCCTACAAGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
38917209 TACCCTACAGGGGTATTTC
1 TACCCTACAGGGGTATTTC
38917228 AATAATTTTG
Statistics
Matches: 151, Mismatches: 28, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
26 21 0.14
27 130 0.86
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGGTAATTC
Found at i:38917103 original size:54 final size:54
Alignment explanation
Indices: 38917021--38917234 Score: 295
Period size: 54 Copynumber: 4.0 Consensus size: 54
38917011 ATAGTCATTT
* ** *
38917021 TACCCTCCAGGGGTAAATCGGTAATTCTACCTTATAGGAGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTC
38917075 TACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTC
* * * ** *
38917129 CACCCTACAGGGGTATTTCAGAAATTCTACCTTACAGG-GTATTTTGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTC
* * * *
38917182 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATT
1 TACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATT
38917235 TTGTAAATCG
Statistics
Matches: 140, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 45 0.32
54 95 0.68
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
TACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTC
Found at i:38917264 original size:107 final size:108
Alignment explanation
Indices: 38917028--38917234 Score: 281
Period size: 107 Copynumber: 1.9 Consensus size: 108
38917018 TTTTACCCTC
* *
38917028 CAGGGGTAAATCGGTAATTCTACCTTATAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATTT
1 CAGGGGTAAATCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCTACAAGGGTATTT
* * **
38917093 CGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCCACCCTA
66 CGGTAATTCTACCCTACAGGAGTATTTCAATAATTCCACAATA
** * * ** *
38917136 CAGGGGTATTTCAGAAATTCTACCTTACAGG-GTATTTTGGTATTTCTACCCTACAAGGGTATTT
1 CAGGGGTAAATCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCTACAAGGGTATTT
*
38917200 CGGTAATTCTACCCTACAGGGGTATTTCAATAATT
66 CGGTAATTCTACCCTACAGGAGTATTTCAATAATT
38917235 TTGTAAATCG
Statistics
Matches: 87, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
107 61 0.70
108 26 0.30
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (108 bp):
CAGGGGTAAATCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCTACAAGGGTATTT
CGGTAATTCTACCCTACAGGAGTATTTCAATAATTCCACAATA
Found at i:38917314 original size:54 final size:55
Alignment explanation
Indices: 38917256--38917414 Score: 159
Period size: 54 Copynumber: 3.0 Consensus size: 55
38917246 GGGTAAAACG
** *
38917256 GTAATTCTATAAATCGGGGGTACTTTGGTAATTTTAG-AAGTTGAGGGTATTTTA
1 GTAATTCTATAAATCGGGGGTACTTTGGTAATTTTAGCAAACTGAGGGTATTTGA
* ** * *
38917310 GTAA-TCTTACAAATCAAGGGTA-TTTCAGTAATTTT-GCAAACTGAGGGTATTTGG
1 GTAATTC-TATAAATCGGGGGTACTTT-GGTAATTTTAGCAAACTGAGGGTATTTGA
* * *
38917364 GTAATTTTATAAACCGGGGGTACTTTGGTAATTTTA-C-AACTGGGGGTATTT
1 GTAATTCTATAAATCGGGGGTACTTTGGTAATTTTAGCAAACTGAGGGTATTT
38917415 CATTAATTTG
Statistics
Matches: 84, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
53 19 0.23
54 61 0.73
55 4 0.05
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (55 bp):
GTAATTCTATAAATCGGGGGTACTTTGGTAATTTTAGCAAACTGAGGGTATTTGA
Found at i:38917409 original size:27 final size:26
Alignment explanation
Indices: 38917255--38917414 Score: 92
Period size: 27 Copynumber: 6.0 Consensus size: 26
38917245 AGGGTAAAAC
* * * *
38917255 GGTAATTCTATAAATCGGGGGTACTTT
1 GGTAATTTTACAACTCGAGGGTA-TTT
* * *
38917282 GGTAATTTTAGAAGTTGAGGGTATTTT
1 GGTAATTTTACAACTCGAGGGTA-TTT
* * * *
38917309 AGTAATCTTACAAATCAAGGGTATTT
1 GGTAATTTTACAACTCGAGGGTATTT
* *
38917335 CAGTAATTTTGCAAACT-GAGGGTATTT
1 -GGTAATTTTAC-AACTCGAGGGTATTT
* *
38917362 GGGTAATTTTATAAAC-CGGGGGTACTTT
1 -GGTAATTTTA-CAACTCGAGGGTA-TTT
*
38917390 GGTAATTTTACAACT-GGGGGTATTT
1 GGTAATTTTACAACTCGAGGGTATTT
38917415 CATTAATTTG
Statistics
Matches: 105, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
25 3 0.03
26 13 0.12
27 83 0.79
28 6 0.06
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (26 bp):
GGTAATTTTACAACTCGAGGGTATTT
Found at i:38917431 original size:27 final size:27
Alignment explanation
Indices: 38917327--38917431 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
38917317 TACAAATCAA
* *
38917327 GGGTATTTCAGTAATTTTGCAAACTGA
1 GGGTATTTCAGTAATTTTGTAAACTGG
** * *
38917354 GGGTATTTGGGTAATTTTATAAACCGG
1 GGGTATTTCAGTAATTTTGTAAACTGG
*
38917381 GGGTACTTT-GGTAA-TTT-TACAACTGG
1 GGGTA-TTTCAGTAATTTTGTA-AACTGG
* *
38917407 GGGTATTTCATTAATTTGGTAAACT
1 GGGTATTTCAGTAATTTTGTAAACT
38917432 AAAGTATTCT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
25 5 0.08
26 16 0.25
27 37 0.59
28 5 0.08
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGTAAACTGG
Found at i:38922091 original size:29 final size:29
Alignment explanation
Indices: 38922049--38922105 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
38922039 TTCAACAAGT
38922049 AAGGTCGTGTAACTCGAATGTATACTTTA
1 AAGGTCGTGTAACTCGAATGTATACTTTA
38922078 AAGGTCGTGTAACTCGAATGTATACTTT
1 AAGGTCGTGTAACTCGAATGTATACTTT
38922106 TTAATACTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (29 bp):
AAGGTCGTGTAACTCGAATGTATACTTTA
Found at i:38924287 original size:28 final size:27
Alignment explanation
Indices: 38924246--38924358 Score: 149
Period size: 27 Copynumber: 4.1 Consensus size: 27
38924236 AGGAAGCGTC
*
38924246 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCTCTGCCAC-AATTATCTGTT
*
38924274 CTGGTGGCTCTGCCAC-ATATATCTATT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
38924301 CTGGTGGCTCTGCCACAATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGT-T
* *
38924329 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
38924355 CTGG
1 CTGG
38924359 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.49
28 32 0.42
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:38924332 original size:55 final size:54
Alignment explanation
Indices: 38924246--38924358 Score: 165
Period size: 55 Copynumber: 2.1 Consensus size: 54
38924236 AGGAAGCGTC
*
38924246 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGACTCTGCCACAT-TATCTATT
* * *
38924301 CTGGTGGCTCTGCCAC-AATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGT-TCTGGTGACTCTGCCACATTATCTATT
38924355 CTGG
1 CTGG
38924359 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 21 0.40
55 32 0.60
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGACTCTGCCACATTATCTATT
Found at i:38929149 original size:22 final size:22
Alignment explanation
Indices: 38929118--38929161 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
38929108 AATACAGGTA
38929118 TGTACAAAAATTGAGTATGCAT
1 TGTACAAAAATTGAGTATGCAT
*
38929140 TGTACGAAAATTGAGTATGCAT
1 TGTACAAAAATTGAGTATGCAT
38929162 CAAATATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (22 bp):
TGTACAAAAATTGAGTATGCAT
Found at i:38932733 original size:29 final size:29
Alignment explanation
Indices: 38932671--38932773 Score: 88
Period size: 29 Copynumber: 3.6 Consensus size: 29
38932661 GTGACGAGAT
* *
38932671 TGGCACTGAGTGTGCGAGCTTGTAATGC--A
1 TGGCACTAAGTGTGCGGGCTTG-AAT-CATA
* * *
38932700 CGGCACTAAGTGTG-GGAGTTTGGA-CTATA
1 TGGCACTAAGTGTGCGG-GCTTGAATC-ATA
*
38932729 TGGCACTATGTGTGCGGGCTTGAATCATA
1 TGGCACTAAGTGTGCGGGCTTGAATCATA
38932758 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38932774 TGATTGAGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
26 1 0.02
28 2 0.03
29 52 0.90
30 3 0.05
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGGGCTTGAATCATA
Found at i:38943039 original size:15 final size:15
Alignment explanation
Indices: 38943019--38943048 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38943009 AGAATTTTTT
38943019 ATAAAAATAGTAAAA
1 ATAAAAATAGTAAAA
*
38943034 ATAAAAATTGTAAAA
1 ATAAAAATAGTAAAA
38943049 TTTTATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
ATAAAAATAGTAAAA
Found at i:38944601 original size:20 final size:20
Alignment explanation
Indices: 38944576--38944613 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38944566 TGATAAATGA
* *
38944576 ATACATGTGTATTAATAAAT
1 ATACATATGTATAAATAAAT
38944596 ATACATATGTATAAATAA
1 ATACATATGTATAAATAA
38944614 TAAATATTAT
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:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (20 bp):
ATACATATGTATAAATAAAT
Found at i:38950190 original size:50 final size:50
Alignment explanation
Indices: 38950113--38950454 Score: 382
Period size: 50 Copynumber: 6.8 Consensus size: 50
38950103 GTTGTGAGAA
* *
38950113 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* * * *
38950163 CGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* * * * *
38950213 CACATGTGTAGTACTAAGTGCAGGCTACAATGTGTATCGGATTGATAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* * ** * * *
38950263 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACC-CA-TGAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-A--TAGGT
* * * * *
38950314 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* *
38950364 CACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* * * *
38950414 CGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
38950455 GAGCTTAGGT
Statistics
Matches: 244, Mismatches: 43, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
48 2 0.01
49 2 0.01
50 202 0.83
51 35 0.14
52 2 0.01
53 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
Found at i:38950388 original size:151 final size:151
Alignment explanation
Indices: 38950167--38950451 Score: 480
Period size: 151 Copynumber: 1.9 Consensus size: 151
38950157 TTAGGTCGCA
* * *
38950167 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGATAAGTCACATGTGTAGTACTAAGT
* * *
38950232 GCAGGCTACAATGTGTATCGGATTGATAGATCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
66 ACAGGCTACAACGTGTACCGGATTGATAGATCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
38950297 TACCCATGAACTTCGATCACG
131 TACCCATGAACTTCGATCACG
38950318 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGATAAGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGATAAGTCACATGTGTAGTACTAAGT
* * * *
38950383 ACAGGCTACTACGTGTACCGGATTGATAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCG
66 ACAGGCTACAACGTGTACCGGATTGATAGATCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
38950448 TACC
131 TACC
38950452 AGAGAGCTTA
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 124 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGATAAGTCACATGTGTAGTACTAAGT
ACAGGCTACAACGTGTACCGGATTGATAGATCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
TACCCATGAACTTCGATCACG
Found at i:38951328 original size:180 final size:180
Alignment explanation
Indices: 38951017--38951340 Score: 497
Period size: 180 Copynumber: 1.8 Consensus size: 180
38951007 AGAGCTGTAC
* * *
38951017 CATGAGATAAATAATTTTAAGTGAAGAGAGGTCAGAACTGTCGGACAGTGAAACAAGGGTATATT
1 CATGAAATAAATAATTTTAAGTGAAGAGAGGACAGAACTGTCAGACAGTGAAACAAGGGTATATT
* * * *
38951082 TAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTAAAAATTTTATGGTAAGAATATATA
66 TAATGAATAAAATGTACTAATTAGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAGATATA
38951147 TGAGTCTAGTTTCAGGTAAAATTAGTGGTTCTTAATTTGGAGTCCCATAA
131 TGAGTCTAGTTTCAGGTAAAATTAGTGGTTCTTAATTTGGAGTCCCATAA
* * * * *
38951197 CATGAAATAAATATTTTTTAGTGAAGAGAGGAC-GAAACTGTCAGACGGTGAAATAAGGGTATCT
1 CATGAAATAAATAATTTTAAGTGAAGAGAGGACAG-AACTGTCAGACAGTGAAACAAGGGTATAT
* *
38951261 TTAATGAATAAAATGTACTAATTAGCTAAACCAAAAATTTTGAAAATTTTATGGTAAGAAGATAT
65 TTAATGAATAAAATGTACTAATTAGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAGATAT
*
38951326 ATGAGTCTATTTTCA
130 ATGAGTCTAGTTTCA
38951341 AAGAAAATTA
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
179 1 0.01
180 127 0.99
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (180 bp):
CATGAAATAAATAATTTTAAGTGAAGAGAGGACAGAACTGTCAGACAGTGAAACAAGGGTATATT
TAATGAATAAAATGTACTAATTAGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAGATATA
TGAGTCTAGTTTCAGGTAAAATTAGTGGTTCTTAATTTGGAGTCCCATAA
Found at i:38954011 original size:2 final size:2
Alignment explanation
Indices: 38954004--38954028 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38953994 GCTTTGTTTG
38954004 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
38954029 CGGGAAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38956822 original size:18 final size:20
Alignment explanation
Indices: 38956786--38956832 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
38956776 AGTTTTAAGT
38956786 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
38956806 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
38956825 ATGATATA
1 AT-ATATA
38956833 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:38957264 original size:52 final size:50
Alignment explanation
Indices: 38957184--38957322 Score: 161
Period size: 50 Copynumber: 2.7 Consensus size: 50
38957174 GTTGTGAGAA
* ** *
38957184 CACATGTGTAGTACTATGTGCAGACTACTATGTGTTTAAGATAGTTTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACAAGAT--TCTTAGGT
* * *
38957236 CACATATGTAGTACTATGTGCAGGCTACTACGTGTACCAGATTCTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACAAGATTCTTAGGT
* * * *
38957286 CACATGTGTAGTACTAAGTGTAGGATACTATGCGTAC
1 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTAC
38957323 CCGATATTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 38 0.51
52 36 0.49
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (50 bp):
CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACAAGATTCTTAGGT
Found at i:38957384 original size:69 final size:69
Alignment explanation
Indices: 38957283--38957418 Score: 191
Period size: 69 Copynumber: 2.0 Consensus size: 69
38957273 CAGATTCTTA
* * **
38957283 GGTCACATGTGTAGTACTAAGTGTAGGATACTATGCGTACCCGATATTTTCGATCACGTGTGTAG
1 GGTCACATGTGTAGTACCAAGTGCAGGATACTATGCGTACCCGATAACTTCGATCACGTGTGTAG
38957348 TATC
66 TATC
* * * * *
38957352 GGTCGCATGTGTAGTACCATGTGCAGGCTACTATGCGTACCTGTTAACTTCGATCACGTGTGTAG
1 GGTCACATGTGTAGTACCAAGTGCAGGATACTATGCGTACCCGATAACTTCGATCACGTGTGTAG
38957417 TA
66 TA
38957419 CTAAGTGCAG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (69 bp):
GGTCACATGTGTAGTACCAAGTGCAGGATACTATGCGTACCCGATAACTTCGATCACGTGTGTAG
TATC
Found at i:38957470 original size:50 final size:50
Alignment explanation
Indices: 38957405--38957546 Score: 212
Period size: 50 Copynumber: 2.8 Consensus size: 50
38957395 TTAACTTCGA
*
38957405 TCACGTGTGTAGTACTAAGTGCAGGCTACTATATGTATCAGATGGATAAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATGGATAAG
* * *
38957455 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATGGATAAG
* * **
38957505 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGA
38957547 GAGCTTAGGT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 83 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATGGATAAG
Found at i:38957767 original size:16 final size:16
Alignment explanation
Indices: 38957746--38957777 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38957736 AGAATGGAGT
38957746 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
38957762 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
38957778 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:38958858 original size:43 final size:42
Alignment explanation
Indices: 38958803--38959043 Score: 311
Period size: 43 Copynumber: 5.6 Consensus size: 42
38958793 TTATGTGAAA
* ** *
38958803 AAACGCCTCTAAAGAACATGACCTTTATTGGCGCTTTCCCTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCC-AC
* * * *
38958846 AAATGCCACTAAAGAACATGACCTTTAGCGGCGCTTTCCTCAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCC-CAC
*
38958889 AAACGCCGCTAAAGAACATGACTTTTAGCGGCACTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCAC
* *
38958931 AAACGCCGCTAAAGAGCATAACCTTTAGCGGCACTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTT-CCCAC
* *
38958974 AAATGCCGCTAAAGAGCATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCAC-TTTCCCAC
* *
38959017 AAACGCTGCTAAAGAATATGACCTTTA
1 AAACGCCGCTAAAGAACATGACCTTTA
38959044 ATAAAAAATA
Statistics
Matches: 176, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
42 36 0.20
43 136 0.77
44 4 0.02
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCAC
Found at i:38958969 original size:85 final size:85
Alignment explanation
Indices: 38958801--38959043 Score: 315
Period size: 85 Copynumber: 2.8 Consensus size: 85
38958791 GTTTATGTGA
* ** * * * *
38958801 AAAAACGCCTCTAAAGAACATGACCTTTATTGGCGCTTTCCCTACAAATGCCACTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCC-ACAAACGCCGCTAAAGAACATA
* *
38958866 ACCTTTAGCGGCGCTTTCCTC
65 ACCTTTAGCGGCACTTTCCCC
* *
38958887 AAAAACGCCGCTAAAGAACATGACTTTTAGCGGCACTTTCCCACAAACGCCGCTAAAGAGCATAA
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCACAAACGCCGCTAAAGAACATAA
38958952 CCTTTAGCGGCACTTTCCCC
66 CCTTTAGCGGCACTTTCCCC
* * * * * *
38958972 ACAAATGCCGCTAAAGAGCATGACCTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGAATATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCAC-TTTCCCACAAACGCCGCTAAAGAACATA
38959037 ACCTTTA
65 ACCTTTA
38959044 ATAAAAAATA
Statistics
Matches: 137, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
85 69 0.50
86 68 0.50
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCACAAACGCCGCTAAAGAACATAA
CCTTTAGCGGCACTTTCCCC
Found at i:38958976 original size:128 final size:128
Alignment explanation
Indices: 38958803--38959043 Score: 340
Period size: 128 Copynumber: 1.9 Consensus size: 128
38958793 TTATGTGAAA
* * ** * *
38958803 AAACGCCTCTAAAGAACATGACCTTTATTGGCGCTTTCCCTACAAATGCCACTAAAGAACATGAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCACTTTCCCCACAAATGCCACTAAAGAACATGAC
* *
38958868 CTTTAGCGGCGC-TTTCCTCAAAAACGCCGCTAAAGAACATGACTTTTAGCGGCACTTTCCCAC
66 CTTTAGCGGCACTTTTCC-CAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCAC
* * *
38958931 AAACGCCGCTAAAGAGCATAACCTTTAGCGGCACTTTCCCCACAAATGCCGCTAAAGAGCATGAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCACTTTCCCCACAAATGCCACTAAAGAACATGAC
* * *
38958996 CTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGAATATGACCTTTA
66 CTTTAGCGGCACTTTTCCCAAAAACGCCGCTAAAGAACATGACCTTTA
38959044 ATAAAAAATA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 93 0.95
129 5 0.05
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (128 bp):
AAACGCCGCTAAAGAACATAACCTTTAGCGGCACTTTCCCCACAAATGCCACTAAAGAACATGAC
CTTTAGCGGCACTTTTCCCAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCAC
Found at i:38964526 original size:7 final size:7
Alignment explanation
Indices: 38964397--38964582 Score: 74
Period size: 7 Copynumber: 26.4 Consensus size: 7
38964387 CTTTATCCCC
*
38964397 TAAACCT
1 TAAACCA
*
38964404 TAAATCA
1 TAAACCA
38964411 TAAA-CA
1 TAAACCA
*
38964417 TAACCCA
1 TAAACCA
*
38964424 TAAACCC
1 TAAACCA
38964431 TAAATCCA
1 TAAA-CCA
*
38964439 TAACCCA
1 TAAACCA
*
38964446 TAACCCA
1 TAAACCA
* *
38964453 TAACCCT
1 TAAACCA
* *
38964460 TAACCCT
1 TAAACCA
* *
38964467 TAACCCT
1 TAAACCA
*
38964474 TAAACCT
1 TAAACCA
38964481 TAAACC-
1 TAAACCA
**
38964487 CCAACCA
1 TAAACCA
*
38964494 TAAAATCA
1 T-AAACCA
38964502 TAAACCA
1 TAAACCA
* *
38964509 TAATCCC
1 TAAACCA
*
38964516 TAAACCT
1 TAAACCA
38964523 TAAA--A
1 TAAACCA
*
38964528 TAGTAACTCT
1 TA--AAC-CA
*
38964538 TAAACCT
1 TAAACCA
*
38964545 TAAACCC
1 TAAACCA
38964552 TAAACCA
1 TAAACCA
*
38964559 TATACCA
1 TAAACCA
*
38964566 TAAACCC
1 TAAACCA
*
38964573 TAAACTA
1 TAAACCA
38964580 TAA
1 TAA
38964583 TGATAATTAA
Statistics
Matches: 142, Mismatches: 28, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
5 2 0.01
6 9 0.06
7 116 0.82
8 13 0.09
10 2 0.01
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:38964988 original size:154 final size:156
Alignment explanation
Indices: 38964758--38965120 Score: 446
Period size: 154 Copynumber: 2.3 Consensus size: 156
38964748 AATTTTTTTT
* ** * *
38964758 GCGGCGTTTTTGACAAAGCGCCACTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCGCT
1 GCGGCGTTTTTCACAAAGCGCTGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCT
* * **** * *
38964823 AATGCCACTAAAGCTCAACATAAAATGACGGTGTTGTGCTTA-ATTGTTTTGCGGCGTTTTTCAG
66 AATGCCACTAAAGCTAAACATAAAACGACAACATTGAGCTTATATTGTTTTGCAGCGTTTTTCA-
* *
38964887 AAA-GCACCGCTTATGGTCGACCTATA
130 AAAGGCACCGCTAATAGTCGACCTATA
* *
38964913 GCGGCATTTTTTA-AAAGCGCTGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCT
1 GCGGCGTTTTTCACAAAGCGCTGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCT
* * * * *
38964977 AGTGCCACTAAAGTTAAACATAAAACGACAACATTGAGTTTATTTTTTTTTGCAGCGTTTTTCAA
66 AATGCCACTAAAGCTAAACATAAAACGACAACATTGAGCTTATATTGTTTTGCAGCGTTTTTCAA
*
38965042 AAGGCGCCGCTAATAGTCGACCTATA
131 AAGGCACCGCTAATAGTCGACCTATA
* * *
38965068 GTGGCGTTTTTCAGAAA-CAGCTGCTAATGCTCGATCTATAGCGGTGTTTTTCA
1 GCGGCGTTTTTCACAAAGC-GCTGCTAATGCTCGATCTATAGCGGCGTTTTTCA
38965121 GGAAGTGCTG
Statistics
Matches: 178, Mismatches: 26, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
154 82 0.46
155 60 0.34
156 36 0.20
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (156 bp):
GCGGCGTTTTTCACAAAGCGCTGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCT
AATGCCACTAAAGCTAAACATAAAACGACAACATTGAGCTTATATTGTTTTGCAGCGTTTTTCAA
AAGGCACCGCTAATAGTCGACCTATA
Found at i:38965094 original size:40 final size:40
Alignment explanation
Indices: 38965050--38965158 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 40
38965040 AAAAGGCGCC
*
38965050 GCTAATAG-TCGACCTATAGTGGCGTTTTTCAGAAACAGCT
1 GCTAAT-GCTCGACCTATAGCGGCGTTTTTCAGAAACAGCT
* * * **
38965090 GCTAATGCTCGATCTATAGCGGTGTTTTTCAGGAAGTGCT
1 GCTAATGCTCGACCTATAGCGGCGTTTTTCAGAAACAGCT
* * * *
38965130 GCTAATGCTTGATCTCTACCGGCGTTTTT
1 GCTAATGCTCGACCTATAGCGGCGTTTTT
38965159 TATCCAAACG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.02
40 57 0.98
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (40 bp):
GCTAATGCTCGACCTATAGCGGCGTTTTTCAGAAACAGCT
Found at i:38967599 original size:2 final size:2
Alignment explanation
Indices: 38967592--38967633 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
38967582 GCTCTGTTCG
38967592 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38967634 GGGAAGGTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38967795 original size:15 final size:15
Alignment explanation
Indices: 38967775--38967818 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38967765 TATGATATTG
38967775 TATCTTGGATTTCTC
1 TATCTTGGATTTCTC
*
38967790 TATCTTGGACTTCTC
1 TATCTTGGATTTCTC
* * *
38967805 AATCCTGGGTTTCT
1 TATCTTGGATTTCT
38967819 TGTTATCTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:38970388 original size:18 final size:20
Alignment explanation
Indices: 38970352--38970398 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
38970342 AGTTGTAAGT
38970352 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
38970372 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
38970391 ATGATATA
1 AT-ATATA
38970399 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:38970870 original size:50 final size:50
Alignment explanation
Indices: 38970752--38971195 Score: 399
Period size: 50 Copynumber: 8.8 Consensus size: 50
38970742 TTGTGAGAAG
* *** *
38970752 ACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT--TGTTAGGTC
* *
38970804 ACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* * * * * *
38970854 GCATGTGTAGTACTAAGTGTAGGCTACAATGTGTACCCGATAGTTTCA-ATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TT-AGGTC
* * * *
38970905 ACATTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* * *
38970955 ACGTGTGTAGTACTAAGTGCAGGCTACTACT-TGTACCGGATTGATAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTA-TGTGTACCAGATTGTTAGGTC
* * ** * * * *
38971005 GCATGTGTAGTACCAAGTGCAGGCTACTATGCATACC-CATTAACTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATT--GTTAGGTC
* * ** ** * * *
38971056 ACGTGTGTAGTACTAAGTGCAGACTACTACATGTATTAGATGGATAAGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* * * ** * *
38971106 ACGTGTGTAGCACTAAGTGCAGGCTAGTACATGCACCAGATTGATAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
*
38971156 ACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
38971196 GAGCTTTGGT
Statistics
Matches: 311, Mismatches: 73, Indels: 18
0.77 0.18 0.04
Matches are distributed among these distances:
49 5 0.02
50 198 0.64
51 70 0.23
52 38 0.12
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
Found at i:38970951 original size:101 final size:102
Alignment explanation
Indices: 38970752--38971191 Score: 318
Period size: 101 Copynumber: 4.4 Consensus size: 102
38970742 TTGTGAGAAG
* * ** * * *
38970752 ACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACGTGTGTAGTAC
1 ACATGTGTAGTACTAAGTGCAGGCTACAATGTGTACAAGATAGTTTCAGATCACATGTGTAGTAC
* *
38970817 TAAGTGCAAGCTACTATGTGTACCAGATTGTTAGGTC
66 TAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTC
* * ** *
38970854 GCATGTGTAGTACTAAGTGTAGGCTACAATGTGTACCCGATAGTTTCA-ATCACATTTGTAGTAC
1 ACATGTGTAGTACTAAGTGCAGGCTACAATGTGTACAAGATAGTTTCAGATCACATGTGTAGTAC
* *
38970918 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTC
66 TAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTC
* * ** * * * *
38970955 ACGTGTGTAGTACTAAGTGCAGGCTACTACT-TGTACCGGATTG-AT-AGGTCGCATGTGTAGTA
1 ACATGTGTAGTACTAAGTGCAGGCTAC-AATGTGTACAAGATAGTTTCAGATCACATGTGTAGTA
* * * ** * ** * *
38971017 CCAAGTGCAGGCTACTATGCATACCCA-TTAACTTCGATC
65 CTAAGTGCAAGCTACTACGTGTA-CCAGAT-GGTTAGGTC
* * * ** ** ** * * *
38971056 ACGTGTGTAGTACTAAGTGCAGACTACTACATGTATTAGAT-GGATAAG-TCACGTGTGTAGCAC
1 ACATGTGTAGTACTAAGTGCAGGCTACAATGTGTACAAGATAGTTTCAGATCACATGTGTAGTAC
* * * * * *
38971119 TAAGTGCAGGCTAGTACATGCACCAGATTGATAGGTC
66 TAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTC
* *
38971156 ACATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 ACATGTGTAGTACTAAGTGCAGGCTACAATGTGTAC
38971192 CAGAGAGCTT
Statistics
Matches: 265, Mismatches: 65, Indels: 18
0.76 0.19 0.05
Matches are distributed among these distances:
99 1 0.00
100 71 0.27
101 150 0.57
102 43 0.16
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (102 bp):
ACATGTGTAGTACTAAGTGCAGGCTACAATGTGTACAAGATAGTTTCAGATCACATGTGTAGTAC
TAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTC
Found at i:38971042 original size:151 final size:151
Alignment explanation
Indices: 38970752--38971192 Score: 580
Period size: 151 Copynumber: 2.9 Consensus size: 151
38970742 TTGTGAGAAG
* * * *
38970752 ACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACGTGTGTAGTAC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGAT-G-GTTAGGTCACGTGTGTAGTAC
* * *
38970817 TAAGTGCAAGCTACTA-TGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGTAGGCTAC
64 TAAGTGCAGGCTACTACT-TGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
* * **
38970881 AATGTGTACCCGA-TAGTTTCAATC
128 TATGCGTACCC-ATTAACTTCAATC
* *
38970905 ACATTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTAGGTCACGTGTGTAGTACTA
* *
38970970 AGTGCAGGCTACTACTTGTACCGGATTGATAGGTCGCATGTGTAGTACCAAGTGCAGGCTACTAT
66 AGTGCAGGCTACTACTTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT
* *
38971035 GCATACCCATTAACTTCGATC
131 GCGTACCCATTAACTTCAATC
* * * * * * *
38971056 ACGTGTGTAGTACTAAGTGCAGACTACTACATGTATTAGATGGATAAGTCACGTGTGTAGCACTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTAGGTCACGTGTGTAGTACTA
* * * *
38971121 AGTGCAGGCTAGTACATGCACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTAT
66 AGTGCAGGCTACTACTTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT
38971186 GCGTACC
131 GCGTACC
38971193 AGAGAGCTTT
Statistics
Matches: 254, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
150 1 0.00
151 215 0.85
152 2 0.01
153 36 0.14
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (151 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTAGGTCACGTGTGTAGTACTA
AGTGCAGGCTACTACTTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT
GCGTACCCATTAACTTCAATC
Found at i:38971416 original size:16 final size:16
Alignment explanation
Indices: 38971395--38971426 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38971385 AGAATTGAGT
38971395 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
38971411 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
38971427 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:38972089 original size:180 final size:180
Alignment explanation
Indices: 38971758--38972090 Score: 481
Period size: 180 Copynumber: 1.9 Consensus size: 180
38971748 GAGCTGTACA
*
38971758 ATGAGATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGACAGTGAAACAGAGATATATTT
1 ATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGACAGTGAAACAGAGATATATTT
* * * * *
38971823 AATGAATAAATTGTACTAATTTGCTAAACTAAAAATTCTTAAATTTTTATGGTAAGAATATATGT
66 AATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTAAAATTTTTATGGTAAGAAGATATAT
* * *
38971888 GACTCTAGTTTCTCTTAAAATTAGTGGTTCTCAATTTGGAGTCCCATAAC
131 GACTCCAGTTTCACATAAAATTAGTGGTTCTCAATTTGGAGTCCCATAAC
* * * *
38971938 ATGAAATAAATAATTTTTAGTGAAGAGAGGTCGGAACTGTCAGACAGTGAAATAGGGGA-ATCTT
1 ATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGACAGTGAAACA-GAGATATATT
*
38972002 TAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAAAATTTTT-TGGTGAGAAGATAT
65 TAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCT-AAAATTTTTATGGTAAGAAGATAT
* * *
38972066 ATGAGTCCATTTTCAGATAAAATTA
129 ATGACTCCAGTTTCACATAAAATTA
38972091 ACTGATCTTA
Statistics
Matches: 134, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
180 123 0.92
181 11 0.08
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (180 bp):
ATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGACAGTGAAACAGAGATATATTT
AATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTAAAATTTTTATGGTAAGAAGATATAT
GACTCCAGTTTCACATAAAATTAGTGGTTCTCAATTTGGAGTCCCATAAC
Done.