Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 121 of 356
Found at i:38615216 original size:85 final size:85
Alignment explanation
Indices: 38615117--38615295 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
38615107 TATTTTATTG
*
38615117 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCTAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
38615182 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
38615202 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
38615267 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
38615287 CCCATGCTC
1 CCCATGCTC
38615296 ATGGCCGACC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:38621943 original size:47 final size:48
Alignment explanation
Indices: 38621873--38622185 Score: 203
Period size: 47 Copynumber: 6.7 Consensus size: 48
38621863 GGGTGTAATG
* *
38621873 CCGATGCCATGTCCCAGACATGGTCTTACGCTGGGTCATC-CAT-CAAGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATAC-AGT
*
38621921 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATA-CAGT
* ** * **
38621969 GCCAATGCCATGTCCCAGACATGGTCTTACACTAACACATGTCAT--AG-
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATACAGT
* * *
38622016 CCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-ACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAT-AC-AGT
* * *
38622062 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-C-CGTCTCGATGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAT-AC-A-GT
* * * * **
38622109 -CGTTTCCATGTCCCAGACATGGTCTTACACTGGTTCTCATAATATGGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CATACAGT
*
38622157 -CGATG-CATGTCCCAAACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
38622186 AGCGCACAAA
Statistics
Matches: 214, Mismatches: 32, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
41 3 0.01
42 1 0.00
44 11 0.05
45 15 0.07
46 59 0.28
47 65 0.30
48 21 0.10
49 2 0.01
50 32 0.15
51 5 0.02
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATACAGT
Found at i:38622074 original size:46 final size:47
Alignment explanation
Indices: 38621872--38622141 Score: 207
Period size: 46 Copynumber: 5.7 Consensus size: 47
38621862 AGGGTGTAAT
* * *
38621872 GCCGATGCCATGTCCCAGACATGGTCTTACGCTGG-GT-CATCCATC-AA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACAT-C-TCGAG
* * *
38621919 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCG-T
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CGAG
* ** * *
38621969 GCCAATGCCATGTCCCAGACATGGTCTTACACTAAC--ACATGTC-ATA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGA-G
*
38622015 GCCGATGCATGTCCCAAACAT-GTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
* ** * *
38622061 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCTCCCGTCTCGAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
* * *
38622107 GTCGTTTCCATGTCCCAGACATGGTCTTACACTGG
1 GCCG-ATGCATGTCCCAGACATGGTCTTACACTGG
38622142 TTCTCATAAT
Statistics
Matches: 183, Mismatches: 27, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.06
45 14 0.08
46 60 0.33
47 49 0.27
48 11 0.06
49 2 0.01
50 33 0.18
51 3 0.02
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
Found at i:38622134 original size:94 final size:94
Alignment explanation
Indices: 38621921--38622193 Score: 249
Period size: 94 Copynumber: 2.9 Consensus size: 94
38621911 TCCATCAAGT
* * * *
38621921 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCG-TGCCAATGCCATGTCCC
1 CGAT-CCATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCTACGAGGCCGATG-CATGTCCC
*
38621985 AGACATGGTCTTACACTA--ACACATGTCATAGC
62 AGACAT-GTCTTACACTAGCACACATCTCATAGC
* *
38622017 CGATGCATGTCCCAAACAT-GTCTTACACTGGCTTACATCT-CGAGGCCGATGCATGTCCCAGAC
1 CGATCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTACGAGGCCGATGCATGTCCCAGAC
* * * *
38622080 ATGTCTTACACTAGCTCCCGTCTCGAT-GT
66 ATGTCTTACACTAGCACACATCTC-ATAGC
* ** *
38622109 CGTTTCCATGTCCCAGACATGGTCTTACACTGG-TT-C-TCATAATATGGTCGATGCATGTCCCA
1 CG-ATCCATGTCCCAGACATGGTCTTACACTGGCTTACATC-TACGA-GGCCGATGCATGTCCCA
* *
38622171 AACATGTCTTACACTAGCGCACA
63 GACATGTCTTACACTAGCACACA
38622194 AATGACCCAA
Statistics
Matches: 148, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
90 11 0.07
91 18 0.12
92 21 0.14
93 20 0.14
94 61 0.41
95 13 0.09
96 4 0.03
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (94 bp):
CGATCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTACGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACACATCTCATAGC
Found at i:38622185 original size:46 final size:44
Alignment explanation
Indices: 38622017--38622185 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 44
38622007 ATGTCATAGC
* *
38622017 CGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGA-GGC
1 CGATGCATGTCCCAAACATGTCTTACACTGG-TT-C-TCTCTATGGT
* * * *
38622063 CGATGCATGTCCCAGACATGTCTTACACTAGCTCCCGTCTCGAT-GT
1 CGATGCATGTCCCAAACATGTCTTACACT-GGT-TC-TCTCTATGGT
* * * *
38622109 CGTTTCCATGTCCCAGACATGGTCTTACACTGGTTCTCATAATATGGT
1 CG-ATGCATGTCCCAAACAT-GTCTTACACTGGTTCTC-T-CTATGGT
38622157 CGATGCATGTCCCAAACATGTCTTACACT
1 CGATGCATGTCCCAAACATGTCTTACACT
38622186 AGCGCACAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 2 0.02
46 51 0.50
47 34 0.34
48 14 0.14
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (44 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGTTCTCTCTATGGT
Found at i:38629808 original size:79 final size:81
Alignment explanation
Indices: 38629699--38629881 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
38629689 TACTCGTTCA
* *
38629699 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* *
38629762 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
38629779 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
* *
38629842 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
38629858 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38629882 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:38629881 original size:40 final size:40
Alignment explanation
Indices: 38629697--38629881 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
38629687 GCTACTCGTT
* *
38629697 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-AGCA
* * *
38629737 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
38629777 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* * *
38629816 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
38629857 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38629882 CATCATTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:38631177 original size:85 final size:85
Alignment explanation
Indices: 38631048--38631226 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
38631038 TATTTTATTG
*
38631048 CCCATGCTCTTTATTTTATTAATCTTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
38631113 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
38631133 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
38631198 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
38631218 CCCATGCTC
1 CCCATGCTC
38631227 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:38632723 original size:38 final size:38
Alignment explanation
Indices: 38632672--38632790 Score: 177
Period size: 38 Copynumber: 3.1 Consensus size: 38
38632662 TTAAGCTCAA
*
38632672 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
38632710 ATATAGTACCAGCACGAAGCCTGCGGGATTTAACCCGA
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
38632748 ATATAATACCAGCACGAAGCCTGC-GGACCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGA--TTTAA-CCCGG
38632788 ATA
1 ATA
38632791 CACATCAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
37 3 0.04
38 58 0.79
39 5 0.07
40 7 0.10
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:38632760 original size:76 final size:79
Alignment explanation
Indices: 38632624--38632790 Score: 207
Period size: 76 Copynumber: 2.1 Consensus size: 79
38632614 TAGGTTTAAA
* * * * *
38632624 AACCCGAATCTAGTCACTAGCACAAAACCTGCGGGACTTTAAGCTCAAATATAATACCAGCACTA
1 AACCCGGATATAGTCACCAGCACAAAACCTGCGGGACTTTAAGCCCAAATATAATACCAGCACGA
38632689 AGCCTGCGGGA-TTT
66 AGCCTGC-GGACTTT
* * *
38632703 AACCCGGATATAGT-ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGAATATAATACCAGCACGA
1 AACCCGGATATAGTCACCAGCACAAAACCTGCGGGACTTTAAGCCCAAATATAATACCAGCACGA
38632765 AGCCTGCGGACCTTT
66 AGCCTGCGGA-CTTT
38632780 AAGCCCGGATA
1 AA-CCCGGATA
38632791 CACATCAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
75 3 0.04
76 26 0.34
77 10 0.13
78 26 0.34
79 12 0.16
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (79 bp):
AACCCGGATATAGTCACCAGCACAAAACCTGCGGGACTTTAAGCCCAAATATAATACCAGCACGA
AGCCTGCGGACTTT
Found at i:38644313 original size:40 final size:40
Alignment explanation
Indices: 38644258--38644335 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
38644248 ATGGAACTCT
38644258 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTAC
1 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTAC
38644298 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCT
1 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCT
38644336 GCAGTATAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (40 bp):
ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTAC
Found at i:38646812 original size:24 final size:24
Alignment explanation
Indices: 38646782--38646867 Score: 69
Period size: 24 Copynumber: 3.8 Consensus size: 24
38646772 AATAATAATT
38646782 TTATATTAA-AATTATTATTAAAAA
1 TTATATTAATAA-TATTATTAAAAA
*
38646806 TTATATTAATAATGTTATT--AAA
1 TTATATTAATAATATTATTAAAAA
* *
38646828 TTATA-T-ATTATTTTATT--AAA
1 TTATATTAATAATATTATTAAAAA
38646848 TTATATTTAATAATAATTAT
1 TTATA-TTAATAAT-ATTAT
38646868 GTTAAAATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
20 17 0.33
21 1 0.02
22 9 0.17
23 4 0.08
24 19 0.37
25 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (24 bp):
TTATATTAATAATATTATTAAAAA
Found at i:38647092 original size:44 final size:46
Alignment explanation
Indices: 38647023--38647108 Score: 131
Period size: 44 Copynumber: 1.9 Consensus size: 46
38647013 TTACAACATC
38647023 ATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTACTCT
1 ATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTCT
***
38647067 ATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTA
1 ATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTA
38647109 TTTCATTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 23 0.62
45 2 0.05
46 12 0.32
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTCT
Found at i:38647118 original size:16 final size:16
Alignment explanation
Indices: 38647097--38647151 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
38647087 TGAATTACTG
38647097 ATTACAGCTCTATTTC
1 ATTACAGCTCTATTTC
38647113 ATTACAGCTCTA-TTC
1 ATTACAGCTCTATTTC
* * *
38647128 AATTACAACCCTATTCC
1 -ATTACAGCTCTATTTC
38647145 ATTACAG
1 ATTACAG
38647152 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 3 0.09
16 28 0.85
17 2 0.06
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTTC
Found at i:38655132 original size:43 final size:44
Alignment explanation
Indices: 38655084--38655204 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 44
38655074 CATCGACTTA
* ** *
38655084 TGATTTACGTGTAAGACCATGTCTGAGACGTTGGCATTG-TTTT
1 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCACAGATATT
* *
38655127 TGATTT-CGTGTAAGACCCTGTCTGGGATAG-TGGCACAGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGA-CGTTGGCACAGATATT
* *
38655170 TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCA
38655205 ATGTATGAGC
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 28 0.44
43 36 0.56
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCACAGATATT
Found at i:38661508 original size:46 final size:46
Alignment explanation
Indices: 38661432--38661602 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 46
38661422 TAACCTGCCC
* * * *
38661432 ATAAGCGAACTCGGACTCAACGCAATGAGCTCAGGTGTTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGTGTTTGCATCT
*
38661478 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATGCCTAGTTACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-TG--T--TTGCATCT
* * * **
38661528 CA-CA---AACTTGGACTCAACTCAACGAGTTCAGACGTTTGCATCT
1 -ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGTGTTTGCATCT
* *
38661571 ATAAGTGAACTCGAACTCAAATCAACGAGCTC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC
38661603 GGATGCCTAG
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
45 3 0.03
46 52 0.53
47 24 0.24
48 2 0.02
50 7 0.07
51 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGTGTTTGCATCT
Found at i:38661544 original size:47 final size:47
Alignment explanation
Indices: 38661485--38661656 Score: 183
Period size: 47 Copynumber: 3.7 Consensus size: 47
38661475 TCTATAAGTG
38661485 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
* * * * * *
38661532 AACTTGGACTCAACTCAACGAGTTCAGA--CGT--TTGCATCT-ATAA
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA-CA
* * *
38661575 GTGAACTCGAACTCAAATCAACGAGCTCGGATGCCTAGTTACATCTCACG
1 ---AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
*
38661625 AACTCGGACTCAACTCAACGAGTTCGGATGCC
1 AACTCGGACTCAACTCAACGAGCTCGGATGCC
38661657 CAAATATCCG
Statistics
Matches: 98, Mismatches: 18, Indels: 18
0.73 0.13 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
45 2 0.02
46 23 0.23
47 54 0.55
48 2 0.02
50 7 0.07
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
Found at i:38661603 original size:93 final size:93
Alignment explanation
Indices: 38661439--38661649 Score: 332
Period size: 93 Copynumber: 2.3 Consensus size: 93
38661429 CCCATAAGCG
* * * ** * *
38661439 AACTCGGACTCAACGCAATGAGCTCAGGTGTTCGCATCTATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCTATAAGTGAACTCGAACTCAAATCAAC
38661504 GAGCTCGGATGCCTAGTTACATCTCACA
66 GAGCTCGGATGCCTAGTTACATCTCACA
* *
38661532 AACTTGGACTCAACTCAACGAGTTCAGACGTTTGCATCTATAAGTGAACTCGAACTCAAATCAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCTATAAGTGAACTCGAACTCAAATCAAC
*
38661597 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACA
38661625 AACTCGGACTCAACTCAACGAGTTC
1 AACTCGGACTCAACTCAACGAGTTC
38661650 GGATGCCCAA
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 107 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCTATAAGTGAACTCGAACTCAAATCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Found at i:38663754 original size:27 final size:28
Alignment explanation
Indices: 38663724--38663777 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
38663714 TGGCATTATA
38663724 GATCAA-GAAAAATGTGATACAGGTCTT
1 GATCAAGGAAAAATGTGATACAGGTCTT
* *
38663751 GATCAAGGGAAAAATTTGATAGAGGTC
1 GATCAA-GGAAAAATGTGATACAGGTC
38663778 ATTGTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
29 17 0.74
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (28 bp):
GATCAAGGAAAAATGTGATACAGGTCTT
Found at i:38665441 original size:40 final size:40
Alignment explanation
Indices: 38665404--38665709 Score: 415
Period size: 40 Copynumber: 7.7 Consensus size: 40
38665394 GCTACTCGTT
*
38665404 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38665444 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
38665484 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
38665524 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
*
38665564 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
38665604 CAAACGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
38665644 CAAATGCCTTC-GGATCTTAGCCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
38665685 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38665710 CATCATTCAA
Statistics
Matches: 241, Mismatches: 19, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
39 6 0.02
40 218 0.90
41 17 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38668274 original size:12 final size:12
Alignment explanation
Indices: 38668254--38668287 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
38668244 CTGATCGGTT
*
38668254 GGAGGGATTTTA
1 GGAGAGATTTTA
38668266 GGAGAGATTTTA
1 GGAGAGATTTTA
*
38668278 GGAGAAATTT
1 GGAGAGATTT
38668288 GTGGGGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (12 bp):
GGAGAGATTTTA
Found at i:38673318 original size:40 final size:39
Alignment explanation
Indices: 38673220--38673442 Score: 175
Period size: 40 Copynumber: 5.6 Consensus size: 39
38673210 TCCTCGTTCA
* * *
38673220 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACT-AGCAC
* * *
38673259 AATGCCTTCAGGACATAACCCGGATTTAATAACTAGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCAC
* * *
38673298 GAATGCCTTCGGGGCTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCAC
* * *
38673338 AAAGGCCTTCAGGG-CTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTC-GGGACTTAACCCGG-ATTTAGTAACTAGCAC
** * * *
38673378 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TAGCAC
* *
38673419 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38673443 CAACATTCAA
Statistics
Matches: 153, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
38 3 0.02
39 36 0.24
40 99 0.65
41 15 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCAC
Found at i:38673389 original size:80 final size:79
Alignment explanation
Indices: 38673218--38673389 Score: 202
Period size: 80 Copynumber: 2.2 Consensus size: 79
38673208 GCTCCTCGTT
* * *
38673218 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCAGGACATAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCAGGACATAACCCGGA
38673283 TTTAATAACTAGCA
66 TTTAATAACTAGCA
* * * * * * *
38673297 CGAATGCCTTCGGGGCTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCAGGGCTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCAGGACATAACCCGG
* * *
38673362 AATTT-GTATCTCGCA
65 -ATTTAATAACTAGCA
38673377 CAAATGCCTTCGG
1 CAAATGCCTTCGG
38673390 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 34 0.44
80 39 0.51
81 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCAGGACATAACCCGGA
TTTAATAACTAGCA
Found at i:38673451 original size:41 final size:41
Alignment explanation
Indices: 38673374--38673451 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38673364 TTTGTATCTC
* * *
38673374 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
38673415 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAACATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGA-AACATTCA
38673452 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 16 0.50
41 16 0.50
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
Found at i:38687676 original size:55 final size:55
Alignment explanation
Indices: 38687590--38687698 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 55
38687580 GCACTTAAAA
* *
38687590 TTTAAGTCAGTGTTGTACACGGGCAGTCCACACGGGCATGTGCCATGGTCGTGTT
1 TTTAAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTT
* **
38687645 TTTAAGTCAGTGTTGTACATGGGCAGGCCACACGGGGGTGTGCCATGGCCGTGT
1 TTTAAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGT
38687699 ACTAAAGTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.17, C:0.21, G:0.34, T:0.28
Consensus pattern (55 bp):
TTTAAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTT
Found at i:38687712 original size:55 final size:55
Alignment explanation
Indices: 38687593--38687714 Score: 163
Period size: 55 Copynumber: 2.2 Consensus size: 55
38687583 CTTAAAATTT
* * ** *
38687593 AAGTCAGTGTTGTACACGGGCAGTCCACACGGGCATGTGCCATGGTCGTGTTTTT
1 AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTACTA
* **
38687648 AAGTCAGTGTTGTACATGGGCAGGCCACACGGGGGTGTGCCATGGCCGTGTACTA
1 AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTACTA
*
38687703 AAGTTAGTGTTG
1 AAGTCAGTGTTG
38687715 CACAGGGACT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.27
Consensus pattern (55 bp):
AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTACTA
Found at i:38703993 original size:40 final size:40
Alignment explanation
Indices: 38703885--38704084 Score: 237
Period size: 40 Copynumber: 5.0 Consensus size: 40
38703875 ATGATAACCA
* * * *
38703885 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCG
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCG
* * *
38703925 GGCTAAG-CCTGAAGGCAATT-GTGCGAGTTATTATATCCA
1 GGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATATCCG
*
38703964 GGCTAAGTCCCGAAGGCATTCGTGAGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCG
* *
38704004 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCG
* *
38704044 GGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCCG
38704084 G
1 G
38704085 TTAAATTCTG
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 32 0.23
40 106 0.77
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCG
Found at i:38704057 original size:80 final size:79
Alignment explanation
Indices: 38703878--38704084 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 79
38703868 TATTCGGATG
* * * * *
38703878 ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAGCCTGAAGGCA
1 ATAACCAGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCGGGCTAAGCCCGAAGGCA
*
38703942 ATTGTGCGAGTTATT
65 ATTGTGCGAGTTACT
* *
38703957 ATATCCAGGCTAAGTCCCGAAGGCATTCGTGAGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCAGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCA
*
38704022 TTTGTGCGAGTTACT
65 ATTGTGCGAGTTACT
* * *
38704037 ATAACCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCGG
1 ATAACCAGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCCGG
38704085 TTAAATTCTG
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 48 0.43
80 63 0.57
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCAGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCGAAGGCAA
TTGTGCGAGTTACT
Found at i:38715481 original size:19 final size:17
Alignment explanation
Indices: 38715436--38715483 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
38715426 GAACAATAGA
38715436 ATAATAAGAAAAGTAAG
1 ATAATAAGAAAAGTAAG
* *
38715453 AAAAGGAAGATAAAGTAAG
1 ATAA-TAAGA-AAAGTAAG
38715472 ATAATAAAGAAA
1 ATAAT-AAGAAA
38715484 GTGGATTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.12
18 6 0.25
19 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (17 bp):
ATAATAAGAAAAGTAAG
Found at i:38717104 original size:291 final size:291
Alignment explanation
Indices: 38716580--38717153 Score: 1112
Period size: 291 Copynumber: 2.0 Consensus size: 291
38716570 ATAGATTCAA
*
38716580 TAAGATTTAATTCTATATCTCATTCATCATCTAATTCTATTTATACTATTCTTGGTGATTTTTCA
1 TAAGATTTAATTCTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCA
38716645 AGATCACGTCATTGCGGCTGTTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTT
66 AGATCACGTCATTGCGGCTGTTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTT
38716710 GTATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAATAGCT
131 GTATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAATAGCT
38716775 AATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTC
196 AATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTC
38716840 TAAGTCCCTATACATGCCATAAATATCTCAT
261 TAAGTCCCTATACATGCCATAAATATCTCAT
*
38716871 TAAGATTTAATTTTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCA
1 TAAGATTTAATTCTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCA
*
38716936 AGATCACGTCATTGTGGCTGTTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTT
66 AGATCACGTCATTGCGGCTGTTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTT
38717001 GTATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAATAGCT
131 GTATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAATAGCT
38717066 AATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTC
196 AATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTC
*
38717131 TAAGTCCCTATACATGTCATAAA
261 TAAGTCCCTATACATGCCATAAA
38717154 CTAGAACATT
Statistics
Matches: 279, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
291 279 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (291 bp):
TAAGATTTAATTCTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCA
AGATCACGTCATTGCGGCTGTTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTT
GTATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAATAGCT
AATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTC
TAAGTCCCTATACATGCCATAAATATCTCAT
Found at i:38717789 original size:53 final size:54
Alignment explanation
Indices: 38717708--38717907 Score: 204
Period size: 53 Copynumber: 3.7 Consensus size: 54
38717698 TTTCCATTTT
* * ** *
38717708 GAACTTACCATTGCCATATCTTGACATGGTCTTACGTGGTACCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTACCCTTGCCTTATA
* * *
38717761 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTACCCTTGCCTTATA
* * * * * ** *
38717815 GTAACTCATCAATTCCATGTCTTGATATGGTCTTACATGATTTCCTTACCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTACCCTTGCCTTATA
* * * *
38717870 GAACTTATCAATGCCATGCCTTGGCATGGTCTTCCATG
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATG
38717908 ATATCCTTAT
Statistics
Matches: 120, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 45 0.38
54 32 0.27
55 43 0.36
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTACCCTTGCCTTATA
Found at i:38717908 original size:54 final size:54
Alignment explanation
Indices: 38717727--38717921 Score: 205
Period size: 54 Copynumber: 3.6 Consensus size: 54
38717717 ATTGCCATAT
* * * * * *
38717727 CTTGACATGGTCTTACGTGGTACCCTTGCCTTAT-GAACTCACCAATGCCATGC
1 CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
** * * *
38717780 CTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATTCCATGT
1 CTTGGCATGGTCTTACATGATATCC-TTACCTTATAG-AACTCATCAATGCCATGC
** * *
38717835 CTTGATATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAATGCCATGC
1 CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
* *
38717889 CTTGGCATGGTCTTCCATGATATCCTTATCTTA
1 CTTGGCATGGTCTTACATGATATCCTTACCTTA
38717922 CCAAATGCCA
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 28 0.24
54 44 0.37
55 42 0.36
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
Found at i:38717960 original size:47 final size:47
Alignment explanation
Indices: 38717898--38718016 Score: 202
Period size: 47 Copynumber: 2.5 Consensus size: 47
38717888 CCTTGGCATG
* *
38717898 GTCTTCCATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATA
1 GTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
* *
38717945 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATG
1 GTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
38717992 GTCTTACATGATATCCTTGTCTTAC
1 GTCTTACATGATATCCTTGTCTTAC
38718017 ATGGTATCCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (47 bp):
GTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
Found at i:38718015 original size:18 final size:18
Alignment explanation
Indices: 38717992--38718033 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
38717982 TCCAAACATG
38717992 GTCTTACATGATATCCTT
1 GTCTTACATGATATCCTT
*
38718010 GTCTTACATGGTATCCTT
1 GTCTTACATGATATCCTT
38718028 GTCTTA
1 GTCTTA
38718034 GTTCCAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.45
Consensus pattern (18 bp):
GTCTTACATGATATCCTT
Found at i:38718220 original size:43 final size:43
Alignment explanation
Indices: 38718170--38718255 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
38718160 ATCTCCTTAA
* *
38718170 TCGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTT
1 TCGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTT
* *
38718213 TCGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
38718256 GAGATATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (43 bp):
TCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
Found at i:38718837 original size:30 final size:30
Alignment explanation
Indices: 38718794--38718850 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
38718784 CTAACTCAAA
38718794 CTTTGGCAAAATTACAATTTTACCCCTAAAC
1 CTTTGGCAAAATTACAATTTT-CCCCTAAAC
*
38718825 CTTT-GCAGAATTACAATTTTCCCCTA
1 CTTTGGCAAAATTACAATTTTCCCCTA
38718851 GGCTCGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 6 0.24
30 15 0.60
31 4 0.16
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (30 bp):
CTTTGGCAAAATTACAATTTTCCCCTAAAC
Found at i:38723664 original size:46 final size:46
Alignment explanation
Indices: 38723565--38723684 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
38723555 TTATTTGTAG
** * *
38723565 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGATAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCATCAAGACGATAGCCAA
* * *
38723613 CGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-TAAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCATCAAGACGAT-AGCCAA
38723659 TGTAAGACATGTCTGGGACATGCATC
1 TGTAAGACATGTCTGGGACATGCATC
38723685 AGTTATTAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 1 0.02
46 42 0.67
47 14 0.22
48 6 0.10
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATCAAGACGATAGCCAA
Found at i:38723696 original size:46 final size:43
Alignment explanation
Indices: 38723614--38723730 Score: 119
Period size: 46 Copynumber: 2.6 Consensus size: 43
38723604 GATAGCTAGC
*
38723614 GTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAAGCCAAT
1 GTAAGACATGTCTGGGACATGCATCAG-CTCAAGATGT--GCCAAT
* * *
38723660 GTAAGACATGTCTGGGACATGCATCAG-TTATTAGATGTGTCAGT
1 GTAAGACATGTCTGGGACATGCATCAGCTCA--AGATGTGCCAAT
*
38723704 GTAAGACCACGTCTGGGACATGGCATC
1 GTAAGA-CATGTCTGGGACAT-GCATC
38723731 GGCACGGATA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
44 12 0.19
45 13 0.21
46 37 0.60
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (43 bp):
GTAAGACATGTCTGGGACATGCATCAGCTCAAGATGTGCCAAT
Found at i:38723768 original size:50 final size:50
Alignment explanation
Indices: 38723705--38723931 Score: 220
Period size: 50 Copynumber: 4.6 Consensus size: 50
38723695 TGTGTCAGTG
* *
38723705 TAAGACCACGTCTGGGACATGGCATCGGCA-CGGATATGTGAGAGCTAGTA
1 TAAGACCATGTCTGGGACATGGCATCGACATC-GATATGTGAGAGCTAGTA
*
38723755 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGAGAGCTAGTA
* * * * * *
38723805 TAAGACCATGTCTAGGACATGGCATC-AGCCTCCACT-T-CGATAG-TCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGA-CATCGA-TATGTGAGAGCT-AGTA
* * *
38723854 TAAGACCATGTCTGGGACATGGCATCGAC-TTG--ATG-GATGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGA-GAGCTAGTA
* *
38723901 TAAGACCATGTCTAGGACATGGCATCAACAT
1 TAAGACCATGTCTGGGACATGGCATCGACAT
38723932 TATACCCTAT
Statistics
Matches: 152, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
46 3 0.02
47 33 0.22
48 3 0.02
49 35 0.23
50 76 0.50
51 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGAGAGCTAGTA
Found at i:38736404 original size:46 final size:46
Alignment explanation
Indices: 38736258--38736564 Score: 195
Period size: 46 Copynumber: 6.5 Consensus size: 46
38736248 TTTGTGTGCC
* *
38736258 AGTGTAAGATATGTCTGGGACATGCATCGACCA-C-ACTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CATCGA-GATGAGAGCT
* * * * *
38736304 AGTGTAACACCATGTCTGGGACATTGCATTGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGACATCGAGATGAGAGCT
* *
38736352 AGTGTAAGACATGTCTGGGACATGCATCGACGTCGAGATGTA-AGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATG-AGAGCT
* *
38736398 AGTGTAAGACATGTCTGGGACATGCATCGGCTAT-GAGAT--G-TCT
1 AGTGTAAGACATGTCTGGGACATGCATCGAC-ATCGAGATGAGAGCT
* * * * *
38736441 CAGTGTAAGACCAAGTCTTGGACATGGCATCGGCA-CG-TAT-AAAGCTGTT
1 -AGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGATGAGAGC---T
* * *
38736490 AGTGTAAAACCATGTTTGGGACATGGCATCGACAAT-GATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-ATCGAGA--TGAGAGCT
*
38736540 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
38736565 GCGTCGGCCT
Statistics
Matches: 207, Mismatches: 32, Indels: 41
0.74 0.11 0.15
Matches are distributed among these distances:
43 1 0.00
44 11 0.05
45 14 0.07
46 68 0.33
47 29 0.14
48 50 0.24
49 5 0.02
50 24 0.12
52 1 0.00
53 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATGAGAGCT
Found at i:38745872 original size:22 final size:24
Alignment explanation
Indices: 38745826--38745893 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
38745816 CATAACAGAT
* * * *
38745826 AAATTAGCATACGCCACAAATGCC
1 AAATTAGAATATGCCATAAAGGCC
*
38745850 ATATTAG-A-ATGCCATAAAGGCC
1 AAATTAGAATATGCCATAAAGGCC
38745872 AAATTAGAATATGCCATAAAGG
1 AAATTAGAATATGCCATAAAGG
38745894 TCATTGGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 17 0.46
23 2 0.05
24 18 0.49
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (24 bp):
AAATTAGAATATGCCATAAAGGCC
Found at i:38755604 original size:20 final size:20
Alignment explanation
Indices: 38755579--38755625 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
38755569 GTTTTGATAT
38755579 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
38755599 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38755619 ACATGAT
1 ACATGAT
38755626 GCATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38755750 original size:24 final size:25
Alignment explanation
Indices: 38755673--38755756 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
38755663 AGGAAGTGCA
* **
38755673 AAAAGGGC-TATGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTA-TT
38755698 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
*
38755723 AAAAGGGGTTTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
38755747 AAAAGAGGCT
1 AAAAG-GGCT
38755757 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
24 10 0.19
25 29 0.56
26 13 0.25
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATT
Found at i:38756001 original size:31 final size:31
Alignment explanation
Indices: 38755965--38756026 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
38755955 CGTTTACAGT
*
38755965 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
38755996 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38756027 GATATGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38763600 original size:20 final size:20
Alignment explanation
Indices: 38763575--38763618 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38763565 GTTTTGATAT
38763575 ACATGAT-TGATATGATACGC
1 ACATGATATG-TATGATACGC
*
38763595 ACATGATATGTATGATATGC
1 ACATGATATGTATGATACGC
38763615 ACAT
1 ACAT
38763619 TATGTACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATACGC
Found at i:38763751 original size:24 final size:25
Alignment explanation
Indices: 38763669--38763751 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
38763659 AGGAAGTGCA
* * *
38763669 AAAAGGGC-TATGCCCCAATTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
38763693 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
*
38763719 AAAAGGGCTTTT-CCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
38763742 AAAAGAGGCT
1 AAAAG-GGCT
38763752 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 9 0.17
24 10 0.19
25 20 0.38
26 13 0.25
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:38764030 original size:26 final size:26
Alignment explanation
Indices: 38763994--38764044 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
38763984 AATATGAAAA
38763994 GGCTTTGAAACAAGTGA-TCGTTTTTG
1 GGCTTTGAAACAAGTGACT-GTTTTTG
38764020 GGCTTTGAAACAAGTGACTGTTTTT
1 GGCTTTGAAACAAGTGACTGTTTTT
38764045 CTTTAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (26 bp):
GGCTTTGAAACAAGTGACTGTTTTTG
Found at i:38772909 original size:6 final size:6
Alignment explanation
Indices: 38772886--38772939 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
38772876 TATCAAAACT
* * *
38772886 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
38772935 AGAAT
1 AGAAT
38772940 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 1 0.03
6 34 0.87
7 3 0.08
8 1 0.03
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:38773094 original size:27 final size:27
Alignment explanation
Indices: 38773057--38773172 Score: 155
Period size: 27 Copynumber: 4.3 Consensus size: 27
38773047 AGCATGGCTG
*
38773057 CCAGAACAGATA-TTGTGACAGAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
38773083 CCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
38773110 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
* * *
38773137 CCAGAAATAGATATTTATGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
38773165 CCAGAACA
1 CCAGAACA
38773173 CTTCCTCCAT
Statistics
Matches: 82, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
26 12 0.15
27 45 0.55
28 25 0.30
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:38773404 original size:27 final size:27
Alignment explanation
Indices: 38773374--38773514 Score: 178
Period size: 27 Copynumber: 5.2 Consensus size: 27
38773364 GGGCAAAATG
* *
38773374 GTAATTTTATCCC-ACAAGGGTATCTCA
1 GTAATTCTA-CCCTACAAGGGTATTTCA
**
38773401 GTAATTCTACCCTAC-AGAGGTATTTTG
1 GTAATTCTACCCTACAAG-GGTATTTCA
*
38773428 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
38773455 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
38773482 GTAATTCTACCCTACAAGAGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
38773509 ATAATT
1 GTAATT
38773515 TTGTAAATCG
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.05
27 92 0.93
28 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:38778778 original size:29 final size:29
Alignment explanation
Indices: 38778743--38778816 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
38778733 GTTGTGAGAT
* *
38778743 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
38778772 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
38778801 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38778817 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:38788994 original size:522 final size:522
Alignment explanation
Indices: 38788010--38790670 Score: 5079
Period size: 522 Copynumber: 5.1 Consensus size: 522
38788000 ACCTTCAAAA
* *
38788010 ATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTCCATGCCAAACACATCAAA
1 ATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTTCATGCCAAACACATCAAA
38788075 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
66 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
*
38788140 ATTACCAAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
131 ATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
*
38788205 AGCATAATGATCAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
196 AGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
38788270 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
261 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
38788335 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
326 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
*
38788400 ACACGCACACACAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
391 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
* *
38788465 TTAACATTATAATATCACTTCGCCGAATTTAAACAATCACATGTATATATAAATCACCTTTTATA
456 TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
38788530 AC
521 AC
38788532 ATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTTCATGCCAAACACATCAAA
1 ATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTTCATGCCAAACACATCAAA
38788597 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
66 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
* *
38788662 AATAACGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
131 ATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
38788727 AGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
196 AGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
38788792 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
261 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
38788857 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
326 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
38788922 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
391 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
*
38788987 TTAACATTATATTATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
456 TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
38789052 AC
521 AC
*
38789054 ATGCATAATTTGTATAATCATTTCAGGTAATAAACTTACCTTAATTTCATGCCAAACACATCAAA
1 ATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTTCATGCCAAACACATCAAA
38789119 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
66 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
*
38789184 ATTACCGAATCACCAAAACCAAACACATCAACCATATTAACCATGAACATATAAAACCAAACTTA
131 ATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
38789249 AGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
196 AGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
*
38789314 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACTAAAATAATGATCGATAG
261 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
38789379 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
326 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
* * * *
38789444 AAACGCACACACAGTAAGCTTAAATAGCTTATTAAGTCATAAGAAAATATATCAACAAAAGAATA
391 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
38789509 TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
456 TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
38789574 AC
521 AC
*
38789576 ATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTTCATGCCAAACACAACAAA
1 ATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTTCATGCCAAACACATCAAA
38789641 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
66 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
38789706 ATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
131 ATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
38789771 AGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
196 AGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
*
38789836 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAGTACCAAAATAATGATCGATAG
261 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
38789901 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
326 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
*
38789966 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCTACAAATGAATA
391 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
38790031 TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
456 TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
38790096 AC
521 AC
38790098 ATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTTCATGCCAAACACATCAAA
1 ATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTTCATGCCAAACACATCAAA
38790163 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
66 GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
*
38790228 ATTAACGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
131 ATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
38790293 AGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
196 AGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
38790358 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
261 CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
* *
38790423 TTTGGCGAACTTCCTTGACGATCCCCGAGCTTGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
326 TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
38790488 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
391 ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
* *
38790553 TTAACATTATAATATCACTTGGCCAAATTTAAACAATCACATGTACATATAAATCACCTTCTATA
456 TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
38790618 AC
521 AC
**
38790620 ATGCATAATTTGTATAATCATTTCAATTACTAAACTTACCTTAATTTCATG
1 ATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTTCATG
38790671 AACATAACTT
Statistics
Matches: 2099, Mismatches: 40, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
522 2099 1.00
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (522 bp):
ATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTTCATGCCAAACACATCAAA
GAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTACTC
ATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAACTTA
AGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATATAA
CAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGATAG
TGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAATTA
ACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGAATA
TTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTTATA
AC
Found at i:38790862 original size:43 final size:43
Alignment explanation
Indices: 38790793--38790895 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 43
38790783 AACTCGTACA
* * *
38790793 ATGCCTAC-GTCCCAGAC-GAGGTCTTACATGTAATCA-ACTATCG
1 ATGCC-ACTGTCCCAGACAGAGGGCTTACACGAAATCATA-TA-CG
38790836 ATGCCACTGTCCCAGACAG-GGGCTTACACGAAATCATATACG
1 ATGCCACTGTCCCAGACAGAGGGCTTACACGAAATCATATACG
*
38790878 ATGCCAATGTCCCAGACA
1 ATGCCACTGTCCCAGACA
38790896 TGATCCTCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
42 21 0.40
43 30 0.57
44 2 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGAGGGCTTACACGAAATCATATACG
Found at i:38795814 original size:16 final size:16
Alignment explanation
Indices: 38795795--38795825 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38795785 CTTCTTCACT
38795795 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
38795811 TACTTACTTACTTAA
1 TACTCACTTACTTAA
38795826 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:38795831 original size:20 final size:20
Alignment explanation
Indices: 38795792--38795831 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
38795782 AAACTTCTTC
* *
38795792 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
38795812 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
38795832 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:38803912 original size:55 final size:53
Alignment explanation
Indices: 38803780--38803976 Score: 175
Period size: 55 Copynumber: 3.6 Consensus size: 53
38803770 ACTTACCATC
* *
38803780 GCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAAT
1 GCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAAT
* * * * *
38803833 GCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTTATCAAT
1 GCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAAT
* ** * *
38803888 TCCATGTCTTGACATGGTCTTACATGATATCCTTGCC-TAAGAAACCTTACCAATT
1 GCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-T
* * *
38803943 TCCAT-TCCTTGGCATGGTCTTACATGGTATCCTT
1 GCCATGT-CTTGACATGGTCTTACATGGGATCCTT
38803977 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 36 0.30
54 11 0.09
55 68 0.57
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (53 bp):
GCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAAT
Found at i:38804745 original size:14 final size:14
Alignment explanation
Indices: 38804726--38804753 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38804716 CTTACAATCG
38804726 AGCTATGTCTTCCT
1 AGCTATGTCTTCCT
38804740 AGCTATGTCTTCCT
1 AGCTATGTCTTCCT
38804754 CATGTGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (14 bp):
AGCTATGTCTTCCT
Found at i:38805248 original size:14 final size:14
Alignment explanation
Indices: 38805229--38805260 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
38805219 GTCTGAAAGG
38805229 CATAACCATAAACT
1 CATAACCATAAACT
38805243 CATAACCATAAACT
1 CATAACCATAAACT
38805257 CATA
1 CATA
38805261 GTGTCCGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (14 bp):
CATAACCATAAACT
Found at i:38809348 original size:43 final size:42
Alignment explanation
Indices: 38809281--38809392 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 42
38809271 ACTCATACAG
* * *
38809281 TGCCTATGTCCCAGACGA-GGTCTTACATGTACTGAACTAT-CCA
1 TGCCAATGTCCCAGAC-ATGGTCTTACATGAAAT-AA-TATACCA
* * *
38809324 TGCCACTGTCCCAGACATGGTCTTACATGAAATCATATACGA
1 TGCCAATGTCCCAGACATGGTCTTACATGAAATAATATACCA
*
38809366 TGCCAATGTCCCAGACATGGTTTTACA
1 TGCCAATGTCCCAGACATGGTCTTACA
38809393 CATAAATCTC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.05
42 29 0.49
43 27 0.46
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (42 bp):
TGCCAATGTCCCAGACATGGTCTTACATGAAATAATATACCA
Found at i:38809382 original size:42 final size:44
Alignment explanation
Indices: 38809281--38809444 Score: 135
Period size: 43 Copynumber: 3.8 Consensus size: 44
38809271 ACTCATACAG
* * * * *
38809281 TGCCTATGTCCCAGACGA-GGTCTTACATGTACTGA-ACT-ATCCA
1 TGCCAATGTCCCAGAC-ATGGTCTTACATGAAATCATA-TAATCGA
*
38809324 TGCCACTGTCCCAGACATGGTCTTACATGAAATCATAT-A-CGA
1 TGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAATCGA
* * *
38809366 TGCCAATGTCCCAGACATGGTTTTACACAT-AAATC-TCTAATTGA
1 TGCCAATGTCCCAGACATGGTCTT--ACATGAAATCATATAATCGA
* * *
38809410 TGCCAACGTCCCAGACGTGGTCTTACACGAAATCA
1 TGCCAATGTCCCAGACATGGTCTTACATGAAATCA
38809445 CATATCGTAA
Statistics
Matches: 99, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
42 30 0.30
43 41 0.41
44 28 0.28
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
TGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAATCGA
Found at i:38810369 original size:27 final size:27
Alignment explanation
Indices: 38810339--38810394 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
38810329 TTTTATTATT
38810339 ACATAATATTAAACATTTACAAATTTA
1 ACATAATATTAAACATTTACAAATTTA
38810366 ACATAATATTAAACATTTACAAATTTA
1 ACATAATATTAAACATTTACAAATTTA
38810393 AC
1 AC
38810395 TTTATTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (27 bp):
ACATAATATTAAACATTTACAAATTTA
Found at i:38813219 original size:37 final size:37
Alignment explanation
Indices: 38813169--38813244 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
38813159 GAAGCACGAG
38813169 AAGAAGCATGAAACAATCAAAGGAACCTGACTAAAAA
1 AAGAAGCATGAAACAATCAAAGGAACCTGACTAAAAA
38813206 AAGAAGCATGAAACAATCAAAGGAACCTGACTAAAAA
1 AAGAAGCATGAAACAATCAAAGGAACCTGACTAAAAA
38813243 AA
1 AA
38813245 ATAGTTGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.11
Consensus pattern (37 bp):
AAGAAGCATGAAACAATCAAAGGAACCTGACTAAAAA
Found at i:38817667 original size:29 final size:29
Alignment explanation
Indices: 38817633--38817692 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
38817623 TGTGAATTTT
*
38817633 TTAGTTTTGT-ATTGTGGTTTAATTTTCTG
1 TTAGTTTT-TCATTGTGATTTAATTTTCTG
*
38817662 TTAGTTTTTCATTTTGATTTAATTTTCTG
1 TTAGTTTTTCATTGTGATTTAATTTTCTG
38817691 TT
1 TT
38817693 TAAATTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.15, C:0.05, G:0.15, T:0.65
Consensus pattern (29 bp):
TTAGTTTTTCATTGTGATTTAATTTTCTG
Found at i:38828489 original size:31 final size:31
Alignment explanation
Indices: 38828449--38828512 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
38828439 TTACAAAATG
*
38828449 GTCACTGAACTGTTCA-AAAGTTTTCATTAAA
1 GTCACTGAACT-ATCAGAAAGTTTTCATTAAA
* * *
38828480 GTCATTGAACTATCAGAAAGTTTTTATTTAA
1 GTCACTGAACTATCAGAAAGTTTTCATTAAA
38828511 GT
1 GT
38828513 GAATGAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (31 bp):
GTCACTGAACTATCAGAAAGTTTTCATTAAA
Found at i:38829119 original size:18 final size:18
Alignment explanation
Indices: 38829096--38829138 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
38829086 ATTTTGTTCG
38829096 GTTTTTGATGATTTCTAT
1 GTTTTTGATGATTTCTAT
38829114 GTTTTTGATGATTTCTAT
1 GTTTTTGATGATTTCTAT
38829132 GTTTTTG
1 GTTTTTG
38829139 TAATCGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.05, G:0.19, T:0.63
Consensus pattern (18 bp):
GTTTTTGATGATTTCTAT
Found at i:38832292 original size:27 final size:27
Alignment explanation
Indices: 38832256--38832491 Score: 328
Period size: 27 Copynumber: 8.7 Consensus size: 27
38832246 TATTGAAATG
* * *
38832256 CCCTCAATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
38832283 CCCGCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
38832310 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
38832337 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
38832364 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
38832391 CCCTCGATTTATAGAATTACCGTGTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
38832418 CCCTCAATTTACAGAATTACCGTTATA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
38832445 CCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
38832472 CTCTCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
38832492 TTAAATAACA
Statistics
Matches: 191, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 191 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:38832545 original size:27 final size:27
Alignment explanation
Indices: 38832515--38832639 Score: 155
Period size: 27 Copynumber: 4.6 Consensus size: 27
38832505 GTTTACCAAC
* *
38832515 TTACCAAAATA-CCCTCGATCAGTAAAA
1 TTACCAAAATACCCCT-GGTCTGTAAAA
*
38832542 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTCTGTAAAA
* * *
38832569 TTACTAAAATACCCCTGGTTTGTGAAA
1 TTACCAAAATACCCCTGGTCTGTAAAA
*
38832596 TTACCAAAATACCCTTGG-CTTGTAAAA
1 TTACCAAAATACCCCTGGTC-TGTAAAA
38832623 TTACCAAAATACCCCTG
1 TTACCAAAATACCCCTG
38832640 ATTTTTGAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
27 82 0.95
28 4 0.05
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (27 bp):
TTACCAAAATACCCCTGGTCTGTAAAA
Found at i:38832569 original size:81 final size:81
Alignment explanation
Indices: 38832484--38832639 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 81
38832474 CTCGATTTAC
* * * *
38832484 AAAATTACTTAAATAACATTAGTTTACCAACTTACCAAAATACCCTC-GATCAGTAAAATTACCA
1 AAAATTACTAAAATAACACTAGTTTACCAAATTACCAAAATACCCTCGGCT-AGTAAAATTACCA
38832548 AAATACCCCTGGTTTGT
65 AAATACCCCTGGTTTGT
* * * *** * *
38832565 AAAATTACTAAAATACCCCTGGTTTGTGAAATTACCAAAATACCCTTGGCTTGTAAAATTACCAA
1 AAAATTACTAAAATAACACTAGTTTACCAAATTACCAAAATACCCTCGGCTAGTAAAATTACCAA
38832630 AATACCCCTG
66 AATACCCCTG
38832640 ATTTTTGAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
81 60 0.97
82 2 0.03
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATAACACTAGTTTACCAAATTACCAAAATACCCTCGGCTAGTAAAATTACCAA
AATACCCCTGGTTTGT
Found at i:38832649 original size:54 final size:54
Alignment explanation
Indices: 38832515--38832661 Score: 197
Period size: 54 Copynumber: 2.7 Consensus size: 54
38832505 GTTTACCAAC
** * *
38832515 TTACCAAAATA-CCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCT-GATTTGTGAAATTACCAAAATACCCCTGGCTTGTAAAA
* * *
38832569 TTACTAAAATACCCCTGGTTTGTGAAATTACCAAAATACCCTTGGCTTGTAAAA
1 TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCCTGGCTTGTAAAA
* *
38832623 TTACCAAAATACCCCTGATTTTTGAAATTATCAAAATAC
1 TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATAC
38832662 TCTCAATTTG
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 77 0.95
55 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCCTGGCTTGTAAAA
Found at i:38832650 original size:27 final size:27
Alignment explanation
Indices: 38832536--38832661 Score: 180
Period size: 27 Copynumber: 4.7 Consensus size: 27
38832526 CCCTCGATCA
38832536 GTAAAATTACCAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
*
38832563 GTAAAATTACTAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
* * *
38832590 GTGAAATTACCAAAATACCCTTGGCTT
1 GTAAAATTACCAAAATACCCCTGGTTT
*
38832617 GTAAAATTACCAAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCCTGGTTT
* * *
38832644 TTGAAATTATCAAAATAC
1 GTAAAATTACCAAAATAC
38832662 TCTCAATTTG
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGGTTT
Found at i:38832673 original size:54 final size:54
Alignment explanation
Indices: 38832515--38832692 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 54
38832505 GTTTACCAAC
** * **
38832515 TTACCAAAATA-CCCTCGATCAGTAAAATTACCAAAATACCC-CTGGTTTGTAAAA
1 TTACCAAAATACCCCT-GATTTGTGAAATTACCAAAATACCCTC-AATTTGTAAAA
* * ****
38832569 TTACTAAAATACCCCTGGTTTGTGAAATTACCAAAATACCCTTGGCTTGTAAAA
1 TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCTCAATTTGTAAAA
* * *
38832623 TTACCAAAATACCCCTGATTTTTGAAATTATCAAAATACTCTCAATTTGTAAAA
1 TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCTCAATTTGTAAAA
* *
38832677 -TATCGAAATACCCCTG
1 TTACCAAAATACCCCTG
38832693 TAGGGTAGAA
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
53 14 0.13
54 86 0.83
55 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
TTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCTCAATTTGTAAAA
Found at i:38832721 original size:27 final size:27
Alignment explanation
Indices: 38832680--38832894 Score: 191
Period size: 27 Copynumber: 8.0 Consensus size: 27
38832670 TGTAAAATAT
*
38832680 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAAAACCCCTGTAGGGTAGAATTAC
* *
38832707 CGAAAAACTCGTGTAGGGTAGAATTAC
1 CGAAAAACCCCTGTAGGGTAGAATTAC
* * *
38832734 TGAAATAA-CCCTGTAAGGTAGAATTAT
1 CGAAA-AACCCCTGTAGGGTAGAATTAC
* *
38832761 CGAAATACCCCTGTAGGGCAGAATTA-
1 CGAAAAACCCCTGTAGGGTAGAATTAC
* **
38832787 CTAAAATACCCCTGTAAAGTAGAATTAC
1 CGAAAA-ACCCCTGTAGGGTAGAATTAC
* * * * *
38832815 TGAAATACCCTTGTAGGGTAAAAATAC
1 CGAAAAACCCCTGTAGGGTAGAATTAC
* *
38832842 CGAAATACTCCTGTAGGGTAGAATTAC
1 CGAAAAACCCCTGTAGGGTAGAATTAC
* * * * *
38832869 CGAGATACCCTTGTGGGGTAAAATTA
1 CGAAAAACCCCTGTAGGGTAGAATTA
38832895 TCATTTTGCC
Statistics
Matches: 149, Mismatches: 35, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
26 5 0.03
27 139 0.93
28 5 0.03
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
CGAAAAACCCCTGTAGGGTAGAATTAC
Found at i:38832746 original size:54 final size:54
Alignment explanation
Indices: 38832681--38832894 Score: 232
Period size: 54 Copynumber: 4.0 Consensus size: 54
38832671 GTAAAATATC
* * * * *
38832681 GAAATACCCCTGTAGGGTAGAATTACCGAAAAACTCGTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACT
* *
38832735 GAAATAACCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGGGCAGAATTACT
1 GAAATAACCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACT
* * * * * * * *
38832789 AAAATACCCCTGTAAAGTAGAATTACTGAAATACCCTTGTAGGGTAAAAATACC
1 GAAATAACCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACT
* * * * *
38832843 GAAAT-ACTCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTA
1 GAAATAAC-CCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA
38832895 TCATTTTGCC
Statistics
Matches: 134, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
53 1 0.01
54 133 0.99
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (54 bp):
GAAATAACCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACT
Found at i:38832894 original size:81 final size:81
Alignment explanation
Indices: 38832673--38832894 Score: 275
Period size: 81 Copynumber: 2.7 Consensus size: 81
38832663 CTCAATTTGT
* * *
38832673 AAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAAAACTCGTGTAGGGTAGAATTACTGAA
1 AAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAA
38832738 ATAACCCTGTAAGGTA
66 ATAACCCTGTAAGGTA
* * * ** **
38832754 GAATTATCGAAATACCCCTGTAGGGCAGAATTACTAAAATACCCCTGTAAAGTAGAATTACTGAA
1 AAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAA
*
38832819 AT-ACCCTTGTAGGGTA
66 ATAACCC-TGTAAGGTA
* * * * * *
38832835 AAAATACCGAAATACTCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTA
1 AAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA
38832895 TCATTTTGCC
Statistics
Matches: 116, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
80 4 0.03
81 112 0.97
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (81 bp):
AAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAA
ATAACCCTGTAAGGTA
Found at i:38833137 original size:25 final size:25
Alignment explanation
Indices: 38833099--38833189 Score: 137
Period size: 25 Copynumber: 3.6 Consensus size: 25
38833089 AGGAAGTGCT
* *
38833099 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
38833124 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
38833149 AAAAAGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
38833174 AAAAGGGCTTTGCCCC
1 AAAAGGGCTTTGCCCC
38833190 TGTTGTTAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:38833217 original size:50 final size:49
Alignment explanation
Indices: 38833098--38833218 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 49
38833088 GAGGAAGTGC
*
38833098 TAAAAG-GGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCTAGTTTA
1 TAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCTAGTTTA
* * * *
38833146 CCAAAAAAGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCT-GTTGT-
1 -TAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTG-CCCTAGTT-TA
*
38833196 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAGAGGCTATGCC-CCAGTT
38833219 ATATGATAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
49 16 0.27
50 38 0.64
51 5 0.08
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (49 bp):
TAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCTAGTTTA
Found at i:38835608 original size:27 final size:27
Alignment explanation
Indices: 38835578--38835643 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
38835568 ATTATTGAAA
38835578 TGCCCTCAATTTGTAAAATCACCGTTT
1 TGCCCTCAATTTGTAAAATCACCGTTT
*
38835605 TGCCCTCAATTTGTAAAATTACCGTTT
1 TGCCCTCAATTTGTAAAATCACCGTTT
* *
38835632 TACCCTCGATTT
1 TGCCCTCAATTT
38835644 ACAGAATTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (27 bp):
TGCCCTCAATTTGTAAAATCACCGTTT
Found at i:38835651 original size:27 final size:27
Alignment explanation
Indices: 38835598--38835841 Score: 274
Period size: 27 Copynumber: 9.1 Consensus size: 27
38835588 TTGTAAAATC
* * ** *
38835598 ACCGTTTTGCCCTCAATTTGTAAAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
38835625 ACCGTTTTACCCTCGATTTACAGAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* *
38835652 ACTGTTTTACCCTCGATTTATAGAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* *
38835679 ACC-ATTTACCCTCAATTTACAGAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* * *
38835705 ACCATTTTACCCTTGATTTATAGAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* * *
38835732 ACCATTTTACCCTCGATTTATAAAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* * *
38835759 ACTGTGTTACCCTCGATTTACAAAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* *
38835786 ACCATTATACCCTCGATTTACAGAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
* * *
38835813 ATCGTTTTACACTCGATTTACAAAATT
1 ACCGTTTTACCCTCGATTTACAGAATT
38835840 AC
1 AC
38835842 TAAAATACCC
Statistics
Matches: 184, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 23 0.12
27 161 0.88
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
ACCGTTTTACCCTCGATTTACAGAATT
Found at i:38835659 original size:54 final size:54
Alignment explanation
Indices: 38835601--38835841 Score: 306
Period size: 54 Copynumber: 4.5 Consensus size: 54
38835591 TAAAATCACC
* * * *
38835601 GTTTTGCCCTCAATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACT
1 GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACT
* * *
38835655 GTTTTACCCTCGATTTATAGAATTACCA-TTTACCCTCAATTTACAGAATTACC
1 GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACT
* * * * *
38835708 ATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACT
1 GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACT
* * *
38835762 GTGTTACCCTCGATTTACAAAATTACCATTATACCCTCGATTTACAGAATTA-T
1 GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACT
* *
38835815 CGTTTTACACTCGATTTACAAAATTAC
1 -GTTTTACCCTCGATTTATAAAATTAC
38835842 TAAAATACCC
Statistics
Matches: 162, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 50 0.31
54 112 0.69
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACT
Found at i:38835804 original size:81 final size:80
Alignment explanation
Indices: 38835607--38835843 Score: 321
Period size: 81 Copynumber: 3.0 Consensus size: 80
38835597 CACCGTTTTG
** * *
38835607 CCCTCAATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
* *
38835672 TAGAATTACCATTTA
66 TAAAATTACTATTTA
* * * *
38835687 CCCTCAATTTACAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
*
38835752 TAAAATTACTGTGTTA
66 TAAAATTACTAT-TTA
* * * *
38835768 CCCTCGATTTACAAAATTACCATTATACCCTCGATTTACAGAATTATCGTTTTACACTCGATTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
*
38835833 CAAAATTACTA
66 TAAAATTACTA
38835844 AAATACCCTT
Statistics
Matches: 135, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 66 0.49
81 69 0.51
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (80 bp):
CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
TAAAATTACTATTTA
Found at i:38835851 original size:81 final size:80
Alignment explanation
Indices: 38835619--38835879 Score: 290
Period size: 81 Copynumber: 3.2 Consensus size: 80
38835609 CTCAATTTGT
* * * *
38835619 AAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTAC-CA
1 AAAATTACCATTATACCCTCGATTTACAGAATTAC-GTTTTACCCTCGATTTATAAAATTACTAA
* *
38835683 TTTACCCTCAATTTAC
65 ATTACCCTCGATTTAC
* * * * * **
38835699 AGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACTGT
1 AAAATTACCATTATACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTATAAAATTACTAA
*
38835764 GTTACCCTCGATTTAC
65 ATTACCCTCGATTTAC
* *
38835780 AAAATTACCATTATACCCTCGATTTACAGAATTATCGTTTTACACTCGATTTACAAAATTACTAA
1 AAAATTACCATTATACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTATAAAATTACTAA
* * *
38835845 AATACCCTTGGTTTAC
65 ATTACCCTCGATTTAC
* **
38835861 CAAATTACCAAAATACCCT
1 AAAATTACCATTATACCCT
38835880 GGTTTGTAAA
Statistics
Matches: 152, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
80 54 0.36
81 98 0.64
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (80 bp):
AAAATTACCATTATACCCTCGATTTACAGAATTACGTTTTACCCTCGATTTATAAAATTACTAAA
TTACCCTCGATTTAC
Found at i:38835859 original size:27 final size:27
Alignment explanation
Indices: 38835834--38836010 Score: 173
Period size: 27 Copynumber: 6.7 Consensus size: 27
38835824 CTCGATTTAC
* * **
38835834 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
*
38835861 CAAATTACCAAAATA-CCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
38835887 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
38835914 AAAATTACC-AAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
38835940 AAAATTACCAAAATACCCTTTATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
38835967 GAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
38835994 AAAA-TATCAAAATACCC
1 AAAATTACCAAAATACCC
38836011 TTGTAGGGTA
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 57 0.46
27 67 0.54
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:38835903 original size:53 final size:53
Alignment explanation
Indices: 38835834--38836013 Score: 195
Period size: 53 Copynumber: 3.4 Consensus size: 53
38835824 CTCGATTTAC
***
38835834 AAAATTACTAAAATACCCTTGGTTTACCAAATTACCAAAATACCCTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTGGTTTGT
* * *
38835887 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACC-AAATACCCCTGGCTTGT
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCTGGTTTGT
* ** * * * *
38835940 AAAATTACCAAAATACCCTTTATTTGTGAAATTATCAAAATACTCTCGATTTGT
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCT-GGTTTGT
38835994 AAAA-TA-TCAAAATACCCTTG
1 AAAATTACT-AAAATACCCTTG
38836014 TAGGGTAGAA
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 5 0.05
53 87 0.82
54 14 0.13
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTGGTTTGT
Found at i:38836044 original size:27 final size:27
Alignment explanation
Indices: 38836003--38836242 Score: 299
Period size: 27 Copynumber: 8.9 Consensus size: 27
38835993 TAAAATATCA
*
38836003 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
38836030 AAATACCCCTATAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
*
38836057 AAATACCTCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
38836084 AAATAACCCTGTAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
* *
38836111 AAATACCCCTGTAGAGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
38836138 AAATACCCCTGTAAGGG-AGAATTACTG
1 AAATACCCCTGT-AGGGTAGAATTACTG
* * **
38836165 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
*
38836192 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
38836219 AGATACCCTTGT-GGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
38836243 CATTTTGCCC
Statistics
Matches: 186, Mismatches: 21, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
26 17 0.09
27 164 0.88
28 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:38836527 original size:25 final size:25
Alignment explanation
Indices: 38836446--38836511 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
38836436 AGGAAGTGCT
* * *
38836446 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
38836471 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
38836496 AAAAGGGCTTTGCCCC
1 AAAAGGGCTTTGCCCC
38836512 TATTGTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:38860755 original size:43 final size:43
Alignment explanation
Indices: 38860694--38860860 Score: 237
Period size: 43 Copynumber: 3.9 Consensus size: 43
38860684 GCGTCGCTAA
* * *
38860694 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
38860737 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
* * *
38860780 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAAAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
*** *
38860822 CTTTAGCGGCGCTTTTTTTATAAACGCCGCTATAGATCA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCA
38860861 TGACTTTTAG
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 39 0.35
43 74 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
Found at i:38860824 original size:85 final size:85
Alignment explanation
Indices: 38860694--38860898 Score: 241
Period size: 85 Copynumber: 2.4 Consensus size: 85
38860684 GCGTCGCTAA
* * **
38860694 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCACTTTT-ACACAAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCCACA
38860759 AACGCCGCTATAGATCA-GAAC
65 AACGCCGCTATAGATCATG-AC
* * *** *
38860780 CTTTAGCGGCACTTTTACACAAACGCCGCTATAGATCAAAACCTTTAGCGGCGCTTTTTTTATAA
1 CTTTAGCGGCACTTTTACACAAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCCACAA
38860845 ACGCCGCTATAGATCATGAC
66 ACGCCGCTATAGATCATGAC
* * * * *
38860865 TTTTAGCGACATTTTTTTCGCAAACGCCGCTAAA
1 CTTTAGCGGCA-CTTTTACACAAACGCCGCTAAA
38860899 AGTGCCATTC
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
85 67 0.66
86 34 0.34
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (85 bp):
CTTTAGCGGCACTTTTACACAAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTCCCACAA
ACGCCGCTATAGATCATGAC
Found at i:38860881 original size:43 final size:41
Alignment explanation
Indices: 38860694--38860896 Score: 181
Period size: 43 Copynumber: 4.8 Consensus size: 41
38860684 GCGTCGCTAA
* ** * *
38860694 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCTATAGATCA-GAC
* **
38860737 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCTATAGATCAG-AC
* * *
38860780 CTTTAGCGGCACTTTTACACAAACGCCGCTATAGATCAAAAC
1 CTTTAGCGGCATTTTTTCACAAACGCCGCTATAGATC-AGAC
* * *
38860822 CTTTAGCGGCGCTTTTTTTATAAACGCCGCTATAGATCATGAC
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCTATAGATCA-GAC
* * *
38860865 TTTTAGCGACATTTTTTTCGCAAACGCCGCTA
1 CTTTAGCGGCA-TTTTTTCACAAACGCCGCTA
38860897 AAAGTGCCAT
Statistics
Matches: 136, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
42 37 0.27
43 99 0.73
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTTCACAAACGCCGCTATAGATCAGAC
Found at i:38865476 original size:21 final size:21
Alignment explanation
Indices: 38865452--38865492 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
38865442 AACCCTAAAT
38865452 CCCTAACTCTTAACCCCTAAC
1 CCCTAACTCTTAACCCCTAAC
*
38865473 CCCTAACTCTTAATCCCTAA
1 CCCTAACTCTTAACCCCTAA
38865493 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCTAACTCTTAACCCCTAAC
Found at i:38865721 original size:11 final size:11
Alignment explanation
Indices: 38865703--38865741 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
38865693 TTAATATATA
38865703 AATTAAAAAAT
1 AATTAAAAAAT
*
38865714 -ATTTAAAAAT
1 AATTAAAAAAT
38865724 AAATTAAAAAAT
1 -AATTAAAAAAT
38865736 AATTAA
1 AATTAA
38865742 TCTAAACCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 9 0.38
11 6 0.25
12 9 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AATTAAAAAAT
Found at i:38865728 original size:22 final size:23
Alignment explanation
Indices: 38865690--38865742 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
38865680 TATATGAAAT
*
38865690 TATTTAATATATAAATTAAAAAA
1 TATTTAATAAATAAATTAAAAAA
38865713 TATTTAA-AAATAAATTAAAAAA
1 TATTTAATAAATAAATTAAAAAA
*
38865735 TAATTAAT
1 TATTTAAT
38865743 CTAAACCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TATTTAATAAATAAATTAAAAAA
Found at i:38865807 original size:22 final size:22
Alignment explanation
Indices: 38865772--38865835 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
38865762 TTGACCCATG
* *
38865772 AACTCATAAACCCTAAATCCCT
1 AACTCATAACCCCTAAACCCCT
*
38865794 AACTCTTAACCCCTAAACCCCT
1 AACTCATAACCCCTAAACCCCT
* *
38865816 AACCCCTAACCCCCTAAACC
1 AACTCATAA-CCCCTAAACC
38865836 TTAAATCTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 26 0.72
23 10 0.28
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (22 bp):
AACTCATAACCCCTAAACCCCT
Found at i:38865819 original size:7 final size:7
Alignment explanation
Indices: 38865790--38865828 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
38865780 AACCCTAAAT
38865790 CCCTAAC
1 CCCTAAC
* *
38865797 TCTTAAC
1 CCCTAAC
38865804 CCCTAAAC
1 CCCT-AAC
38865812 CCCTAAC
1 CCCTAAC
38865819 CCCTAAC
1 CCCTAAC
38865826 CCC
1 CCC
38865829 CTAAACCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.28, C:0.54, G:0.00, T:0.18
Consensus pattern (7 bp):
CCCTAAC
Found at i:38865820 original size:15 final size:15
Alignment explanation
Indices: 38865800--38865832 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
38865790 CCCTAACTCT
38865800 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
*
38865815 TAACCCCTAACCCCC
1 TAACCCCTAAACCCC
38865830 TAA
1 TAA
38865833 ACCTTAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:38865884 original size:15 final size:15
Alignment explanation
Indices: 38865848--38865888 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
38865838 AAATCTCAAC
38865848 CCTTAAA-CCATAAT
1 CCTTAAATCCATAAT
*
38865862 CCCT-AATCCATAAT
1 CCTTAAATCCATAAT
38865876 CCTTAAATCCATA
1 CCTTAAATCCATA
38865889 CTCCATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:38865897 original size:15 final size:15
Alignment explanation
Indices: 38865851--38865897 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
38865841 TCTCAACCCT
*
38865851 TAAA-CCATAATCCC
1 TAAATCCATAATCCA
*
38865865 T-AATCCATAATCCT
1 TAAATCCATAATCCA
*
38865879 TAAATCCATACTCCA
1 TAAATCCATAATCCA
38865894 TAAA
1 TAAA
38865898 CCTTAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCA
Found at i:38866182 original size:41 final size:40
Alignment explanation
Indices: 38866122--38866237 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
38866112 TAAAATGTTT
38866122 TTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCCTA-CCA
1 TTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGCCCC-AGCCA
* *
38866163 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCAGGCA
1 TTAGCGGCGCTTTT-CAAAAACGCCGCTAAAGCCCCAGCCA
*
38866204 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCC
1 TTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGCC
38866238 ACGAAATGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
40 2 0.03
41 62 0.91
42 4 0.06
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCAAAAACGCCGCTAAAGCCCCAGCCA
Found at i:38866317 original size:40 final size:39
Alignment explanation
Indices: 38866273--38866351 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
38866263 TGGGCTAAGG
* * *
38866273 TTTTTTGCGGCGTTTTTTTGAAAAATGCCGCTAATGCTCA
1 TTTTTAGCGGCATTTTTTT-AAAAATGCCACTAATGCTCA
38866313 TTTTTAGCGGCATTTTTTTAAAAATGCCACTAATGCTCA
1 TTTTTAGCGGCATTTTTTTAAAAATGCCACTAATGCTCA
38866352 ATCTTTAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (39 bp):
TTTTTAGCGGCATTTTTTTAAAAATGCCACTAATGCTCA
Found at i:38866359 original size:40 final size:40
Alignment explanation
Indices: 38866279--38866368 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
38866269 AAGGTTTTTT
* * *
38866279 GCGGCGTTTTTTTGAAAAATGCCGCTAATGCTCATTTTTA
1 GCGGCATTTTTTTGAAAAATGCCACTAATGCTCATCTTTA
38866319 GCGGCATTTTTTT-AAAAATGCCACTAATGCTCAATCTTTA
1 GCGGCATTTTTTTGAAAAATGCCACTAATGCTC-ATCTTTA
*
38866359 GTGGCGATTT
1 GCGGC-ATTT
38866369 CCAGAAAGCG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 18 0.41
40 22 0.50
41 4 0.09
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (40 bp):
GCGGCATTTTTTTGAAAAATGCCACTAATGCTCATCTTTA
Found at i:38868627 original size:52 final size:52
Alignment explanation
Indices: 38868571--38868689 Score: 202
Period size: 52 Copynumber: 2.3 Consensus size: 52
38868561 GGGAAATTTC
38868571 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
* * * *
38868623 TCACTTAGCACATTGCCATGGACTTCTTTCACTTAGATGTCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
38868675 TCACTTAGCACAATG
1 TCACTTAGCACAATG
38868690 TCATATCCTA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
Found at i:38868652 original size:28 final size:27
Alignment explanation
Indices: 38868571--38868686 Score: 136
Period size: 24 Copynumber: 4.4 Consensus size: 27
38868561 GGGAAATTTC
38868571 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
38868599 TCACTTAG---ATGCCATGGGCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
*
38868623 TCACTTAGCACATTGCCATGGACTTCTT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
38868651 TCACTTAG---ATGTCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
38868675 TCACTTAGCACA
1 TCACTTAGCACA
38868687 ATGTCATATC
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
24 43 0.57
25 1 0.01
27 2 0.03
28 29 0.39
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:38874261 original size:51 final size:51
Alignment explanation
Indices: 38874177--38874375 Score: 278
Period size: 51 Copynumber: 3.9 Consensus size: 51
38874167 GGGATACACG
*
38874177 GTGGCCTTCACATAGTACCAC-CTT-TGTAGCCAAAGCTATTGTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGT--CCAAAGCTATTTTATTCACAAA
38874228 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * * *
38874279 GTGGCCTTCAAATAATTCCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * *
38874330 G-GGACCTTCACATAGTACCACACATCTGTCTAAAGCTATTTTATTC
1 GTGG-CCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
38874376 CTAAGGTTCA
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.02
51 125 0.94
52 3 0.02
53 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:38874455 original size:52 final size:52
Alignment explanation
Indices: 38874399--38874517 Score: 193
Period size: 52 Copynumber: 2.3 Consensus size: 52
38874389 GGGAAATTTC
**
38874399 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTCATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATAACATGGACTCATT
* * *
38874451 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATAACATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATAACATGGACTCATT
38874503 TCACTTAGCACAATG
1 TCACTTAGCACAATG
38874518 TCATATCCTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATAACATGGACTCATT
Found at i:38874479 original size:28 final size:27
Alignment explanation
Indices: 38874399--38874514 Score: 136
Period size: 24 Copynumber: 4.4 Consensus size: 27
38874389 GGGAAATTTC
38874399 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
38874427 TCACTTAG---ATGCCATGGACTCATT
1 TCACTTAGCACATGCCATGGACTTATT
38874451 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
** *
38874479 TCACTTAG---ATAACATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
38874503 TCACTTAGCACA
1 TCACTTAGCACA
38874515 ATGTCATATC
Statistics
Matches: 76, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
24 43 0.57
25 1 0.01
27 2 0.03
28 30 0.39
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:38881590 original size:13 final size:13
Alignment explanation
Indices: 38881572--38881615 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
38881562 AATGGCTATA
38881572 TCAAGTTTTATTG
1 TCAAGTTTTATTG
*
38881585 TCAAG-TTTA-TA
1 TCAAGTTTTATTG
38881596 TCAAGTTTTATTG
1 TCAAGTTTTATTG
38881609 TCAAGTT
1 TCAAGTT
38881616 AATTAGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 6 0.22
12 8 0.30
13 13 0.48
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (13 bp):
TCAAGTTTTATTG
Found at i:38881595 original size:24 final size:24
Alignment explanation
Indices: 38881568--38881615 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
38881558 TGGGAATGGC
38881568 TATATCAAGTTTTATTGTCAAGTT
1 TATATCAAGTTTTATTGTCAAGTT
38881592 TATATCAAGTTTTATTGTCAAGTT
1 TATATCAAGTTTTATTGTCAAGTT
38881616 AATTAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.50
Consensus pattern (24 bp):
TATATCAAGTTTTATTGTCAAGTT
Found at i:38881605 original size:12 final size:12
Alignment explanation
Indices: 38881568--38881606 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
38881558 TGGGAATGGC
38881568 TATATCAAGTTT
1 TATATCAAGTTT
*
38881580 TATTGTCAAG-TT
1 TA-TATCAAGTTT
38881592 TATATCAAGTTT
1 TATATCAAGTTT
38881604 TAT
1 TAT
38881607 TGTCAAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.26
12 11 0.48
13 6 0.26
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (12 bp):
TATATCAAGTTT
Found at i:38887590 original size:47 final size:47
Alignment explanation
Indices: 38887536--38887728 Score: 264
Period size: 47 Copynumber: 4.1 Consensus size: 47
38887526 TTAGGATTTT
* * *
38887536 ATGTGATGAATGTGAATATGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38887583 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
38887630 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
38887677 ATGTGATGAATATGAGATATGC--ATACGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
38887723 ATGTGA
1 ATGTGA
38887729 AATATATATA
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
46 25 0.19
47 103 0.78
48 4 0.03
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:38887636 original size:22 final size:22
Alignment explanation
Indices: 38887565--38887683 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
38887555 GTATATATGA
38887565 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
38887587 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
38887612 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
38887634 GATGAATGTG-AGCAT-G-CATATGTGT
1 GAT-AA-G-GCCGAATGGCCA-A--TGT
38887659 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
38887681 GAT
1 GAT
38887684 GAATATGAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 20 0.28
23 17 0.24
24 17 0.24
25 17 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:38887757 original size:50 final size:50
Alignment explanation
Indices: 38887686--38887782 Score: 142
Period size: 50 Copynumber: 1.9 Consensus size: 50
38887676 AATGTGATGA
*
38887686 ATATGAGATATGCATACGTGGTAAAGCCGAATGG-TCAATGTGAAATATAT
1 ATATGAGATATGCATACGTGGTAAAACCGAATGGCT-AATGTGAAATATAT
* * *
38887736 ATATGAGATATGTATATGTGGTAAAACCGAATGGCTAGTGTGAAATA
1 ATATGAGATATGCATACGTGGTAAAACCGAATGGCTAATGTGAAATA
38887783 CGTAGGCGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 41 0.98
51 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (50 bp):
ATATGAGATATGCATACGTGGTAAAACCGAATGGCTAATGTGAAATATAT
Found at i:38887991 original size:37 final size:37
Alignment explanation
Indices: 38887936--38888047 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
38887926 AATATATTCC
38887936 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
* *
38887973 GGGTGAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
* * *
38888010 GGGTAAGACCCGATAACTTCGTGTGGAGATTTCGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
38888047 G
1 G
38888048 AGCTAAAGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.29
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
Found at i:38889350 original size:23 final size:23
Alignment explanation
Indices: 38889318--38889430 Score: 61
Period size: 23 Copynumber: 5.4 Consensus size: 23
38889308 AGAGTGATAT
38889318 ATTCGGGCTAAGTCCCGAAGAGC
1 ATTCGGGCTAAGTCCCGAAGAGC
* * *
38889341 ATTCGTGCT-AGT---G-A-TGT
1 ATTCGGGCTAAGTCCCGAAGAGC
*
38889358 ATCCGGGCTAAGTCCCGAAGAGC
1 ATTCGGGCTAAGTCCCGAAGAGC
* * *
38889381 ATTCGTGCT-AGT---G-ATA-T
1 ATTCGGGCTAAGTCCCGAAGAGC
*
38889398 ATCCGGGCTAAGTCCCGAAGAGC
1 ATTCGGGCTAAGTCCCGAAGAGC
*
38889421 ATTCGTGCTA
1 ATTCGGGCTA
38889431 GTGATGTATC
Statistics
Matches: 61, Mismatches: 17, Indels: 24
0.60 0.17 0.24
Matches are distributed among these distances:
17 15 0.25
18 9 0.15
19 2 0.03
21 2 0.03
22 9 0.15
23 24 0.39
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (23 bp):
ATTCGGGCTAAGTCCCGAAGAGC
Found at i:38889593 original size:40 final size:40
Alignment explanation
Indices: 38889310--38889581 Score: 436
Period size: 40 Copynumber: 6.8 Consensus size: 40
38889300 GAGAATTGAG
*
38889310 AGTGATATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
38889350 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
38889390 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
38889430 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
38889470 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
38889510 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
38889550 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
38889582 ATCATGATGG
Statistics
Matches: 214, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:38892743 original size:47 final size:47
Alignment explanation
Indices: 38892689--38892832 Score: 202
Period size: 47 Copynumber: 3.1 Consensus size: 47
38892679 TGAGGATTTT
*
38892689 ATGTGATGAATGTGAATATGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGAGATAAGGCCGAATGGCCA
* *
38892736 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGAGATAAGGCCGAATGGCCA
** * *
38892783 ATGTGATGAATGTGAGATATGCATACGTG-G-TAAAGCCGAATGGTCA
1 ATGTGATGAATGTGA-ATATGCATATATGAGATAAGGCCGAATGGCCA
38892829 ATGT
1 ATGT
38892833 AAAATATATA
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
46 18 0.20
47 60 0.68
48 10 0.11
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAATATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:38892789 original size:22 final size:22
Alignment explanation
Indices: 38892718--38892789 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
38892708 GTATATATGA
38892718 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
38892740 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
38892765 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
38892787 GAT
1 GAT
38892790 GAATGTGAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:38893090 original size:37 final size:37
Alignment explanation
Indices: 38893039--38893110 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
38893029 GGAAATATAT
*
38893039 TCCGGGTAAAACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAAACCCGATAACTACGTGTGGAGATTTTG
* *
38893076 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAAACCCGATAACTACGTGTGGAGATTT
38893111 CGTCTGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAAACCCGATAACTACGTGTGGAGATTTTG
Found at i:38897610 original size:65 final size:65
Alignment explanation
Indices: 38897529--38897659 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
38897519 CAAATAATGC
*
38897529 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATTTCA
1 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATGTCA
38897594 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATGTCA
1 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATGTCA
38897659 T
1 T
38897660 ATGCTCAACC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (65 bp):
TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATGTCA
Found at i:38900661 original size:39 final size:40
Alignment explanation
Indices: 38900457--38900679 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
38900447 TTGAATGCTG
* * * * * *
38900457 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
38900497 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
38900537 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
38900577 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
38900617 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
38900656 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38900680 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:38900699 original size:79 final size:80
Alignment explanation
Indices: 38900532--38900714 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
38900522 GTGCGAGATA
* * *
38900532 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
38900597 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
38900612 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
38900676 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
38900691 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
38900715 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:38905689 original size:48 final size:47
Alignment explanation
Indices: 38905637--38905812 Score: 171
Period size: 46 Copynumber: 3.7 Consensus size: 47
38905627 CCACATTATG
* * *
38905637 AGAGCCAGTGTAATACCATGTTTGGGACATGGCATCGGCATTGAGGC-A
1 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGA
* * *
38905685 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACGT
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGA
* * * *
38905732 A-AGCCAGTCTAAGACATGTCTGGGACATGCATCGAC-TACGAGATG-
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-TGAGACGA
* *
38905777 ATAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
38905813 AACACTTTAC
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
45 2 0.02
46 62 0.56
47 28 0.25
48 18 0.16
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGA
Done.