Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 136 of 203
Found at i:43333185 original size:18 final size:18
Alignment explanation
Indices: 43333162--43333198 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
43333152 CTGATTTGCT
43333162 TATGTGTGAAGAGACTGC
1 TATGTGTGAAGAGACTGC
43333180 TATGTGTGAAGAGACTGC
1 TATGTGTGAAGAGACTGC
43333198 T
1 T
43333199 CGTAAACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (18 bp):
TATGTGTGAAGAGACTGC
Found at i:43334816 original size:20 final size:20
Alignment explanation
Indices: 43334791--43334917 Score: 121
Period size: 20 Copynumber: 6.3 Consensus size: 20
43334781 TTGTAAAGGA
*
43334791 TTTGCACTTCGGTGCCCTTG
1 TTTGCACTTCGGTGCCCCTG
43334811 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* * * **
43334831 TATACACTTTGGTGTTCCTG
1 TTTGCACTTCGGTGCCCCTG
* * *
43334851 TTCGCACTACGGTGCCCCTA
1 TTTGCACTTCGGTGCCCCTG
*
43334871 TTTGCACATT-TGTGCCCCTG
1 TTTGCAC-TTCGGTGCCCCTG
* *
43334891 TCTACACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
43334911 TTATGCA
1 TT-TGCA
43334918 TCTATGATGC
Statistics
Matches: 81, Mismatches: 23, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
19 2 0.02
20 75 0.93
21 4 0.05
ACGTcount: A:0.11, C:0.31, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:43334911 original size:60 final size:60
Alignment explanation
Indices: 43334794--43334912 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
43334784 TAAAGGATTT
* * * * **
43334794 GCACTTCGGTGCCCTTGTTTGCACTTCGGTGCCCCTGTATACACTTTGGTGTTCCTGTTC
1 GCACTACGGTGCCCCTATTTGCACTTCGGTGCCCCTGTATACACTTCGGTGCCCCTGTTC
* *
43334854 GCACTACGGTGCCCCTATTTGCACATT-TGTGCCCCTGTCTACACTTCGGTGCCCCTGTT
1 GCACTACGGTGCCCCTATTTGCAC-TTCGGTGCCCCTGTATACACTTCGGTGCCCCTGTT
43334913 ATGCATCTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
60 48 0.96
61 2 0.04
ACGTcount: A:0.10, C:0.33, G:0.22, T:0.35
Consensus pattern (60 bp):
GCACTACGGTGCCCCTATTTGCACTTCGGTGCCCCTGTATACACTTCGGTGCCCCTGTTC
Found at i:43337264 original size:50 final size:50
Alignment explanation
Indices: 43337153--43337338 Score: 202
Period size: 50 Copynumber: 3.7 Consensus size: 50
43337143 GAGCATGAGG
* * * *
43337153 TCCCATGTAAGACAATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGA--AC
* * *
43337205 TCCCA--TAAGACCATTTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC
* * *
43337253 TCCCATGTAAGACCATATCTTGGATATGGCATTGGCA--GTACATGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATGAGAAC
*
43337301 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
43337339 TGTTATTATC
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
48 10 0.09
49 38 0.33
50 62 0.54
52 5 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC
Found at i:43340226 original size:25 final size:25
Alignment explanation
Indices: 43340172--43340226 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
43340162 TTGCATGAGT
* *
43340172 TTCCCGTTATTTAGCTCACATGATC
1 TTCCCGTTATTTAGCTCACACGAGC
*
43340197 CTCCCGTTATTTAGAC-CACACGAGC
1 TTCCCGTTATTTAG-CTCACACGAGC
43340222 TTCCC
1 TTCCC
43340227 ATTTACAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.33
Consensus pattern (25 bp):
TTCCCGTTATTTAGCTCACACGAGC
Found at i:43343114 original size:13 final size:14
Alignment explanation
Indices: 43343077--43343105 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43343067 AATTTTTATT
43343077 AATGAATTATTAAA
1 AATGAATTATTAAA
43343091 AATGAATTATTAAA
1 AATGAATTATTAAA
43343105 A
1 A
43343106 TATAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:43344787 original size:16 final size:16
Alignment explanation
Indices: 43344763--43344796 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43344753 ATTAAATCCT
*
43344763 AATTGCTAAAGAACTA
1 AATTCCTAAAGAACTA
*
43344779 AATTCCTAAAGACCTA
1 AATTCCTAAAGAACTA
43344795 AA
1 AA
43344797 AAAACAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.24
Consensus pattern (16 bp):
AATTCCTAAAGAACTA
Found at i:43351935 original size:25 final size:25
Alignment explanation
Indices: 43351907--43351962 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
43351897 AAGTATTATA
*
43351907 CAGAGAACATAAATGTGCTAATAAT
1 CAGAGAACACAAATGTGCTAATAAT
* * *
43351932 CAGATAGCACCAATGTGCTAATAAT
1 CAGAGAACACAAATGTGCTAATAAT
43351957 CAGAGA
1 CAGAGA
43351963 GCACGCTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (25 bp):
CAGAGAACACAAATGTGCTAATAAT
Found at i:43351965 original size:25 final size:25
Alignment explanation
Indices: 43351918--43351966 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
43351908 AGAGAACATA
*
43351918 AATGTGCTAATAATCAGATAGCACC
1 AATGTGCTAATAATCAGAGAGCACC
43351943 AATGTGCTAATAATCAGAGAGCAC
1 AATGTGCTAATAATCAGAGAGCAC
43351967 GCTAAACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.22
Consensus pattern (25 bp):
AATGTGCTAATAATCAGAGAGCACC
Found at i:43352987 original size:50 final size:50
Alignment explanation
Indices: 43352871--43353206 Score: 286
Period size: 50 Copynumber: 6.6 Consensus size: 50
43352861 CACAATAACA
* * * * * * *
43352871 TGCCAAAGCCATGTCCCAGACATTGTCTTA-ATGGGA-TGTTTCCTGT-AC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACT-TCTCATATCAG
* * * *
43352919 TGCTAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATCAG
* * ** * *
43352969 TGCCCATGCTATGTCCCAAACATGGTCTTACGGGGGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATCAG
** *
43353019 TGCCAACACCATGTCCCAAACATGGTCTTACATGAGACTTCTCA-ACTCAG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATA-TCAG
* * * *
43353069 TGCCAATGCCATGT-CCAAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAA-ACATGGTCTTACATGGGACTTCTCATATCAG
* * * *
43353119 TGCCAATGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATAA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCAT-A--TC---AG
* *
43353175 TGCCAATGCCATGTCCCAGACATAGTCTTACA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACA
43353207 CTGGCTCACA
Statistics
Matches: 233, Mismatches: 42, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
48 24 0.10
49 15 0.06
50 159 0.68
51 3 0.01
53 2 0.01
56 30 0.13
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATCAG
Found at i:43353189 original size:56 final size:50
Alignment explanation
Indices: 43352870--43353252 Score: 254
Period size: 50 Copynumber: 7.6 Consensus size: 50
43352860 TCACAATAAC
* * * ** * * *
43352870 ATGCCAAAGCCATGTCCCAGACATTGTCTTA-ATGGGATGTTTCCTGT-A
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* * * * * * ** *
43352918 CTGCTAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* * * * ** * * *
43352968 GTGCCCATGCTATGTCCCAAACATGGTCTTACGGGGGACTTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* ** * * *
43353018 GTGCCAACACCATGTCCCAAACATGGTCTTACATGAGACTTCTCAACTCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* * *
43353068 GTGCCAATGCCATGTCCAAGACATGGTCTTACATGAGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* * * *
43353118 GTGCCAATGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTC---ATCTC---A
* * *
43353174 ATGCCAATGCCATGTCCCAGACATAGTCTTACACTG-G--CTCACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACA-TGAGACCTCTCATCTCA
* * * *
43353222 ATGTCGATGCCAAGTCCCAGATATGGTCTTA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTA
43353253 TACGAGATCG
Statistics
Matches: 272, Mismatches: 54, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
48 51 0.19
49 11 0.04
50 165 0.61
51 4 0.01
53 4 0.01
54 4 0.01
56 31 0.11
57 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
Found at i:43357345 original size:50 final size:49
Alignment explanation
Indices: 43357291--43357408 Score: 123
Period size: 49 Copynumber: 2.4 Consensus size: 49
43357281 GTCCCCCGTC
* * *
43357291 AGACCATGTCTGGGACATGGGATGGGCACCG-ATATGATAAC-TCCCATGTA
1 AGACCATGTCTGGGACATGGCATGGGCA--GTACAGGA-AACATCCCATGTA
* * * *
43357341 AGACCATTTCTGGGATATGGCATTGGCAGTACAGGAAACATCCTATGTA
1 AGACCATGTCTGGGACATGGCATGGGCAGTACAGGAAACATCCCATGTA
*
43357390 AGACCATGTATGGGACATG
1 AGACCATGTCTGGGACATG
43357409 CCTTTGGCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
48 4 0.07
49 28 0.50
50 24 0.43
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (49 bp):
AGACCATGTCTGGGACATGGCATGGGCAGTACAGGAAACATCCCATGTA
Found at i:43357645 original size:20 final size:20
Alignment explanation
Indices: 43357620--43357658 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
43357610 TGAGTTATTT
43357620 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
43357640 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
43357659 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:43361059 original size:50 final size:50
Alignment explanation
Indices: 43361005--43361149 Score: 193
Period size: 50 Copynumber: 2.9 Consensus size: 50
43360995 TATTGAGATT
*
43361005 ATGAGAGGTCCCACATAAGACCATGTTTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
* * *
43361055 ATGAGAGGTCCCTCGTAAGACCATGTTTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
** * * *
43361105 ATGAGAACTCCCATGTAAGACCAT-TTATGGGATATGACATTGGCA
1 ATGAGAGGTCCCACGTAAGACCATGTT-TGGGACATGGCATTGGCA
43361150 GTACAGAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
49 2 0.02
50 81 0.98
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
Found at i:43361177 original size:49 final size:49
Alignment explanation
Indices: 43361113--43361247 Score: 198
Period size: 49 Copynumber: 2.8 Consensus size: 49
43361103 ATATGAGAAC
* * * *
43361113 TCCCATGTAAGACCATTTATGGGATATGACATTGGCAGTACAGAAAACA
1 TCCCATGTAAAACCATATCTGGGATATGGCATTGGCAGTACAGAAAACA
* *
43361162 TCCCATGTAAAACCATATCTAGGATATGGCATTGGTAGTACAGAAAACA
1 TCCCATGTAAAACCATATCTGGGATATGGCATTGGCAGTACAGAAAACA
* *
43361211 TCCCATGTAAAACCATGTCTGGGATATGGCTTTGGCA
1 TCCCATGTAAAACCATATCTGGGATATGGCATTGGCA
43361248 TGTTATTATC
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (49 bp):
TCCCATGTAAAACCATATCTGGGATATGGCATTGGCAGTACAGAAAACA
Found at i:43361462 original size:20 final size:20
Alignment explanation
Indices: 43361437--43361476 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
43361427 ATGAGTTATT
43361437 CAAGTAAG-GAAGTAAGTAAA
1 CAAGTAAGAG-AGTAAGTAAA
43361457 CAAGTAAGAGAGTAAGTAAA
1 CAAGTAAGAGAGTAAGTAAA
43361477 GAATAAGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.25, T:0.15
Consensus pattern (20 bp):
CAAGTAAGAGAGTAAGTAAA
Found at i:43369054 original size:20 final size:20
Alignment explanation
Indices: 43369029--43369067 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
43369019 TGAGTTATTT
43369029 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
43369049 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
43369068 GAAGAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:43372054 original size:54 final size:54
Alignment explanation
Indices: 43371991--43372167 Score: 248
Period size: 54 Copynumber: 3.3 Consensus size: 54
43371981 ACATTAAAAT
* * * * * *
43371991 TTTAATCCAGCAAC-TAAGTGAACTAAGTTGAACTTAATTAACGAAGATTAGTAA
1 TTTATTCCAGCAACTTAA-TTAACTAAGATGAACTCAATTAACCAAGATGAGTAA
43372045 TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACCAAGATGAGTAA
1 TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACCAAGATGAGTAA
* * *
43372099 TTTATTCCGGCAACTTAATTAACTAAGATGAACCCAATTAACTAAGATGAGTAA
1 TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACCAAGATGAGTAA
*
43372153 TTTATTCCAGTAACT
1 TTTATTCCAGCAACT
43372168 AAATACTTAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
54 108 0.97
55 3 0.03
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (54 bp):
TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACCAAGATGAGTAA
Found at i:43372083 original size:19 final size:19
Alignment explanation
Indices: 43372056--43372148 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
43372046 TTATTCCAGC
*
43372056 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
*
43372075 AACTCAATTAACCAAGATG
1 AACTCAATTAACTAAGATG
* * * **
43372094 -AGT-AATTTATTCCG--G
1 AACTCAATTAACTAAGATG
*
43372109 CAACTTAATTAACTAAGATG
1 -AACTCAATTAACTAAGATG
*
43372129 AACCCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
43372148 A
1 A
43372149 GTAATTTATT
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
15 1 0.02
17 8 0.15
18 9 0.17
19 35 0.65
20 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:43377081 original size:25 final size:25
Alignment explanation
Indices: 43376968--43377075 Score: 153
Period size: 25 Copynumber: 4.3 Consensus size: 25
43376958 TTCAACTCTT
* *
43376968 ATGAGCTTCCCAATACTCAGCTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
*
43376993 ATGAGCTTCCCATTATTCAGGTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
* *
43377018 ATGAGCTTTCCATTATTCAGCTGAC
1 ATGAGCTTCCCATTATTCAGCTCAC
* *
43377043 ATGAGCTTCCCGTTATTCAACTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
43377068 ATGAGCTT
1 ATGAGCTT
43377076 TTCGTTTACA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 73 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCATTATTCAGCTCAC
Found at i:43385620 original size:41 final size:41
Alignment explanation
Indices: 43385563--43385644 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
43385553 TTAGTTTAAA
43385563 ATCTTAGTTTTTAATCACCCTCTTTAAACAAAATATTTTTT
1 ATCTTAGTTTTTAATCACCCTCTTTAAACAAAATATTTTTT
43385604 ATCTTAGTTTTTAATCACCCTCTTTAAACAAAATATTTTTT
1 ATCTTAGTTTTTAATCACCCTCTTTAAACAAAATATTTTTT
43385645 CTTCACCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (41 bp):
ATCTTAGTTTTTAATCACCCTCTTTAAACAAAATATTTTTT
Found at i:43393548 original size:17 final size:18
Alignment explanation
Indices: 43393526--43393563 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43393516 TTTGGGCCAA
*
43393526 GTGGG-CCACACGGGTGT
1 GTGGGCCCACACGGGCGT
*
43393543 GTGGGCCCACATGGGCGT
1 GTGGGCCCACACGGGCGT
43393561 GTG
1 GTG
43393564 AGCTTTCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (18 bp):
GTGGGCCCACACGGGCGT
Found at i:43401973 original size:22 final size:21
Alignment explanation
Indices: 43401926--43401973 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
43401916 AATAATATAG
*
43401926 TTTTAATAAATGCAGAAAAATC
1 TTTTAATAAATGAAGAAAAA-C
43401948 TTTTAATAAATGGAAAGAAAAA-
1 TTTTAATAAAT-G-AAGAAAAAC
43401970 TTTT
1 TTTT
43401974 GAACTGCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 15 0.65
23 1 0.04
24 7 0.30
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.35
Consensus pattern (21 bp):
TTTTAATAAATGAAGAAAAAC
Found at i:43421588 original size:23 final size:23
Alignment explanation
Indices: 43421558--43421632 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
43421548 TCAGGCAAGT
*
43421558 TATTCTGTGGACCCTTTGTGCCA
1 TATTCTGTGGAGCCTTTGTGCCA
*
43421581 TATTCTGTGGAGCCTTTGTGTCA
1 TATTCTGTGGAGCCTTTGTGCCA
* *
43421604 TATACTGTGGAGCCTTTGTGGCA
1 TATTCTGTGGAGCCTTTGTGCCA
43421627 TATTCT
1 TATTCT
43421633 ATAATGCCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (23 bp):
TATTCTGTGGAGCCTTTGTGCCA
Found at i:43428484 original size:20 final size:20
Alignment explanation
Indices: 43428459--43428536 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
43428449 TTGTACGGGA
*
43428459 TTGCACTTCGGTGCCTCTAT
1 TTGCACTTCAGTGCCTCTAT
* * *
43428479 TTGCACTTTAATGCCTCTAA
1 TTGCACTTCAGTGCCTCTAT
*
43428499 TTGCACATT-TGTGCCTCT-T
1 TTGCAC-TTCAGTGCCTCTAT
43428518 TCTGCACTTCAGTGCCTCT
1 T-TGCACTTCAGTGCCTCT
43428537 GTTACACATT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.06
20 42 0.89
21 2 0.04
ACGTcount: A:0.14, C:0.29, G:0.15, T:0.41
Consensus pattern (20 bp):
TTGCACTTCAGTGCCTCTAT
Found at i:43435657 original size:24 final size:24
Alignment explanation
Indices: 43435629--43435727 Score: 135
Period size: 24 Copynumber: 4.1 Consensus size: 24
43435619 AGGCATCCTC
* * *
43435629 GAATACGCCACGAAGGCACTTGCA
1 GAATATGCCACAAAGGCACTTACA
43435653 GAATATGCCACAAAGGCACTTACA
1 GAATATGCCACAAAGGCACTTACA
* ** *
43435677 AAATATGCCACAAACACACTTATA
1 GAATATGCCACAAAGGCACTTACA
43435701 GAATATGCCACAAAGGCACTTACA
1 GAATATGCCACAAAGGCACTTACA
43435725 GAA
1 GAA
43435728 CACGTGTTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.42, C:0.25, G:0.16, T:0.16
Consensus pattern (24 bp):
GAATATGCCACAAAGGCACTTACA
Found at i:43438630 original size:34 final size:33
Alignment explanation
Indices: 43438560--43438623 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
43438550 AATAACTGTT
* **
43438560 CAGT-TCAGTTGGGCCTTAGCCTATTTTAGTAC
1 CAGTATCAGTTGGGCCTTAGCCCATTACAGTAC
43438592 CAGTATCAGTGTGGGCCTTAGCCCATTACAGT
1 CAGTATCAGT-TGGGCCTTAGCCCATTACAGT
43438624 GGCAGTAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 4 0.15
33 5 0.19
34 18 0.67
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (33 bp):
CAGTATCAGTTGGGCCTTAGCCCATTACAGTAC
Found at i:43438702 original size:22 final size:23
Alignment explanation
Indices: 43438661--43438703 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43438651 AAAATCCTAC
*
43438661 CCATCCAGCCTCTACACTCCACT
1 CCATCCAGCCTCAACACTCCACT
43438684 CCATCCAGCCT-AACACTCCA
1 CCATCCAGCCTCAACACTCCA
43438704 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.19
Consensus pattern (23 bp):
CCATCCAGCCTCAACACTCCACT
Found at i:43438940 original size:27 final size:27
Alignment explanation
Indices: 43438909--43439083 Score: 190
Period size: 27 Copynumber: 6.5 Consensus size: 27
43438899 AAGCATACAT
* **
43438909 TCATTTTATAATATAGACGCATAATAG
1 TCATTTTATAACATAGGGGCATAATAG
* **
43438936 TCATTTTACAACATAGGGGCATAACCG
1 TCATTTTATAACATAGGGGCATAATAG
*
43438963 TCATTTTATAATATAGGGGCATAATAG
1 TCATTTTATAACATAGGGGCATAATAG
* * *
43438990 TCATTTTACAACATAGGGGTATAACCA-
1 TCATTTTATAACATAGGGGCATAA-TAG
43439017 TCATTTTATAACATAGGGGCATAATAG
1 TCATTTTATAACATAGGGGCATAATAG
** * * *
43439044 TCATTTTACCACGTAAGGGCATAACAG
1 TCATTTTATAACATAGGGGCATAATAG
*
43439071 TTATTTTATAACA
1 TCATTTTATAACA
43439084 ATTTGGGGGT
Statistics
Matches: 120, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 118 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
TCATTTTATAACATAGGGGCATAATAG
Found at i:43438973 original size:54 final size:54
Alignment explanation
Indices: 43438909--43439081 Score: 256
Period size: 54 Copynumber: 3.2 Consensus size: 54
43438899 AAGCATACAT
**
43438909 TCATTTTATAATATAGACGCATAATAGTCATTTTACAACATAGGGGCATAACCG
1 TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
* *
43438963 TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGTATAACCA
1 TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
* * * * *
43439017 TCATTTTATAACATAGGGGCATAATAGTCATTTTACCACGTAAGGGCATAACAG
1 TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
*
43439071 TTATTTTATAA
1 TCATTTTATAA
43439082 CAATTTGGGG
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 107 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (54 bp):
TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
Found at i:43439201 original size:20 final size:21
Alignment explanation
Indices: 43439176--43439249 Score: 60
Period size: 23 Copynumber: 3.4 Consensus size: 21
43439166 TAGTATAGTT
43439176 GGGCCCA-AGGCCCATAATAC
1 GGGCCCATAGGCCCATAATAC
* *
43439196 GGGCCCATGTGGGCCTATAATAC
1 GGGCCCA--TAGGCCCATAATAC
* *
43439219 GGGCCCATGTGGGCCCATAATGC
1 GGGCCCA--TAGGCCCATAATAC
*
43439242 GAGCCCAT
1 GGGCCCAT
43439250 GTGAGCCCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.15
21 1 0.02
23 38 0.83
ACGTcount: A:0.23, C:0.31, G:0.30, T:0.16
Consensus pattern (21 bp):
GGGCCCATAGGCCCATAATAC
Found at i:43439215 original size:23 final size:23
Alignment explanation
Indices: 43439184--43439258 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
43439174 TTGGGCCCAA
43439184 GGCCCATAATACGGGCCCATGTG
1 GGCCCATAATACGGGCCCATGTG
*
43439207 GGCCTATAATACGGGCCCATGTG
1 GGCCCATAATACGGGCCCATGTG
* *
43439230 GGCCCATAATGCGAGCCCATGTG
1 GGCCCATAATACGGGCCCATGTG
*
43439253 AGCCCA
1 GGCCCA
43439259 CATAGCCCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (23 bp):
GGCCCATAATACGGGCCCATGTG
Found at i:43440189 original size:26 final size:26
Alignment explanation
Indices: 43440137--43440189 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
43440127 CACCAATATC
* * *
43440137 GCAGCATAGCTGCCAGTAGTAATAAT
1 GCAGCAGAGCTGCAAGTAGTAAGAAT
* *
43440163 GCAGCAGAGCTGCAAGTGGTCAGAAT
1 GCAGCAGAGCTGCAAGTAGTAAGAAT
43440189 G
1 G
43440190 GCTAAGAGCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (26 bp):
GCAGCAGAGCTGCAAGTAGTAAGAAT
Found at i:43440721 original size:27 final size:27
Alignment explanation
Indices: 43440681--43441025 Score: 254
Period size: 27 Copynumber: 12.6 Consensus size: 27
43440671 CCACCAGGGC
43440681 ATTACGGTCATTTTACCCTACAGGGTT
1 ATTACGGTCATTTTACCCTACAGGGTT
* *
43440708 ACTACGGTCATTTTACCCTGCAGAGG-T
1 ATTACGGTCATTTTACCCTACAG-GGTT
*
43440735 ATTACGGTCATTTTACCCTAAAGGGGTATAT
1 ATTACGGTCATTTTACCCTACA-GGG--T-T
**
43440766 GCATTACGGTCATTTTACCCTACAGGGGC
1 --ATTACGGTCATTTTACCCTACAGGGTT
43440795 ATTACGGTCATTTTACCCTACAAGGG-T
1 ATTACGGTCATTTTACCCTAC-AGGGTT
* * **
43440822 ATTACGATCATTTTACCCTATAGCGCCT
1 ATTACGGTCATTTTACCCTACAG-GGTT
* * *
43440850 -TTACGGTCATTTTATCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGTT
* ** *
43440876 ATTACAGTCATTTTACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGTT
* * * *
43440903 ATTTCGAT-ATTCTACCCTACGGGGTT
1 ATTACGGTCATTTTACCCTACAGGGTT
* ** **
43440929 ATTTCGGTCATTTTACCCTATGGGGGC
1 ATTACGGTCATTTTACCCTACAGGGTT
* *
43440956 ATTTCAGTCATTTTACCC-ATCAAGGG-T
1 ATTACGGTCATTTTACCCTA-C-AGGGTT
** *
43440983 ATTTTGGTCATTTTACCCTTCAAGGG-T
1 ATTACGGTCATTTTACCCTAC-AGGGTT
*
43441010 ATTTCGGTCATTTTAC
1 ATTACGGTCATTTTAC
43441026 ACATCGAGGG
Statistics
Matches: 264, Mismatches: 38, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
26 27 0.10
27 201 0.76
28 11 0.04
31 1 0.00
32 3 0.01
33 21 0.08
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGTT
Found at i:43440742 original size:54 final size:54
Alignment explanation
Indices: 43440681--43441025 Score: 295
Period size: 54 Copynumber: 6.3 Consensus size: 54
43440671 CCACCAGGGC
* * *
43440681 ATTACGGTCATTTTACCCTACAGGGTTACTACGGTCATTTTACCCTGCAGAGGT
1 ATTACGGTCATTTTACCCTACAGGGTTATTACGGTCATTTTACCCTACAGGGGT
* *
43440735 ATTACGGTCATTTTACCCTAAAGGGGTATATGCATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACA-GGG--T-T--ATTACGGTCATTTTACCCTACAGGGGT
* * **
43440795 ATTACGGTCATTTTACCCTACAAGGG-TATTACGATCATTTTACCCTATAGCGCCT
1 ATTACGGTCATTTTACCCTAC-AGGGTTATTACGGTCATTTTACCCTACAG-GGGT
* * * * **
43440850 -TTACGGTCATTTTATCCTATAGGGGTATTACAGTCATTTTACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGTTATTACGGTCATTTTACCCTACAGGGGT
* * * * * ** *
43440903 ATTTCGAT-ATTCTACCCTACGGGGTTATTTCGGTCATTTTACCCTATGGGGGC
1 ATTACGGTCATTTTACCCTACAGGGTTATTACGGTCATTTTACCCTACAGGGGT
* * ** * *
43440956 ATTTCAGTCATTTTACCC-ATCAAGGG-TATTTTGGTCATTTTACCCTTCAAGGGT
1 ATTACGGTCATTTTACCCTA-C-AGGGTTATTACGGTCATTTTACCCTACAGGGGT
*
43441010 ATTTCGGTCATTTTAC
1 ATTACGGTCATTTTAC
43441026 ACATCGAGGG
Statistics
Matches: 239, Mismatches: 39, Indels: 26
0.79 0.13 0.09
Matches are distributed among these distances:
53 50 0.21
54 132 0.55
55 7 0.03
56 1 0.00
57 1 0.00
58 1 0.00
60 46 0.19
61 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (54 bp):
ATTACGGTCATTTTACCCTACAGGGTTATTACGGTCATTTTACCCTACAGGGGT
Found at i:43440877 original size:114 final size:112
Alignment explanation
Indices: 43440662--43440877 Score: 294
Period size: 114 Copynumber: 1.9 Consensus size: 112
43440652 GGCAAAAATA
*
43440662 GTCATTTACCCACCAGGGCATTACGGTCATTTTACCCTACAGGGTTACTACGGTCATTTTACCCT
1 GTCATTTACCCACCAGGGCATTACGGTCATTTTACCCTACAGGGTTACTACGATCATTTTACCCT
* *
43440727 GCAGAGGTATTACGGTCATTTTACCCTAAAGGGGTATATGCATTACG
66 ACAGAGCTATTACGGTCATTTTACCCTAAAGGGGTATATGCATTACG
*
43440774 GTCATTTTACCCTA-CAGGGGCATTACGGTCATTTTACCCTACAAGGG-TATTACGATCATTTTA
1 GTCA-TTTACCC-ACCA-GGGCATTACGGTCATTTTACCCTAC-AGGGTTACTACGATCATTTTA
* * * *
43440837 CCCTATAGCGCCT-TTACGGTCATTTTATCCTATAGGGGTAT
62 CCCTACAGAG-CTATTACGGTCATTTTACCCTAAAGGGGTAT
43440878 TACAGTCATT
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
112 4 0.04
113 9 0.10
114 73 0.80
115 5 0.05
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (112 bp):
GTCATTTACCCACCAGGGCATTACGGTCATTTTACCCTACAGGGTTACTACGATCATTTTACCCT
ACAGAGCTATTACGGTCATTTTACCCTAAAGGGGTATATGCATTACG
Found at i:43440903 original size:81 final size:80
Alignment explanation
Indices: 43440768--43440985 Score: 251
Period size: 80 Copynumber: 2.7 Consensus size: 80
43440758 GGGTATATGC
* *
43440768 ATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGTATTACGATCAT
1 ATTACGGTCATTTTACCCTATAGGGGCATTACAGTCATTTTACCCTACAAGGGTATTACGAT-AT
*
43440833 TTTACCCTATAGCGCCT
65 TCTACCCTA-AGCGCCT
* * *** *
43440850 -TTACGGTCATTTTATCCTATAGGGGTATTACAGTCATTTTACCCTATGGGGGTATTTCGATATT
1 ATTACGGTCATTTTACCCTATAGGGGCATTACAGTCATTTTACCCTACAAGGGTATTACGATATT
* * **
43440914 CTACCCTACGGGGTT
66 CTACCCTAAGCGCCT
* * *
43440929 ATTTCGGTCATTTTACCCTATGGGGGCATTTCAGTCATTTTACCC-ATCAAGGGTATT
1 ATTACGGTCATTTTACCCTATAGGGGCATTACAGTCATTTTACCCTA-CAAGGGTATT
43440986 TTGGTCATTT
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
79 4 0.04
80 56 0.50
81 53 0.47
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (80 bp):
ATTACGGTCATTTTACCCTATAGGGGCATTACAGTCATTTTACCCTACAAGGGTATTACGATATT
CTACCCTAAGCGCCT
Found at i:43448832 original size:28 final size:28
Alignment explanation
Indices: 43448800--43448862 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
43448790 ACAGTAACAT
* *
43448800 ACAGTGTAGGCCTTAGCCCAATACAGAA
1 ACAGTATAGGCCTAAGCCCAATACAGAA
* * *
43448828 ACAGTATGGGCCTAAGCCCGATACAGTA
1 ACAGTATAGGCCTAAGCCCAATACAGAA
*
43448856 TCAGTAT
1 ACAGTAT
43448863 GGTGCAAGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (28 bp):
ACAGTATAGGCCTAAGCCCAATACAGAA
Found at i:43448863 original size:28 final size:28
Alignment explanation
Indices: 43448808--43448864 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
43448798 ATACAGTGTA
*
43448808 GGCCTTAGCCCAATACAGAAACAGTATG
1 GGCCTAAGCCCAATACAGAAACAGTATG
* * *
43448836 GGCCTAAGCCCGATACAGTATCAGTATG
1 GGCCTAAGCCCAATACAGAAACAGTATG
43448864 G
1 G
43448865 TGCAAGTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (28 bp):
GGCCTAAGCCCAATACAGAAACAGTATG
Found at i:43449069 original size:22 final size:22
Alignment explanation
Indices: 43449017--43449079 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
43449007 CTAGTAGTGA
43449017 GAATGGCTAAGAGCCATAAACAG
1 GAATGGCTAA-AGCCATAAACAG
* *
43449040 G-ATAGCTATAAGCTATAAAC-G
1 GAATGGCTA-AAGCCATAAACAG
43449061 GAATGGCTACAAGCCATAA
1 GAATGGCTA-AAGCCATAA
43449080 GTACAGTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (22 bp):
GAATGGCTAAAGCCATAAACAG
Found at i:43449141 original size:32 final size:31
Alignment explanation
Indices: 43449071--43449336 Score: 151
Period size: 32 Copynumber: 8.4 Consensus size: 31
43449061 GAATGGCTAC
* * *
43449071 AAGCCATAAGTACAGTAATGTGATTGGCACA
1 AAGCCATCAGTACAGTAATATGATCGGCACA
*
43449102 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTA-CAGTAATATGATCGGCACA
* * * * * * *
43449134 CATCCATCAGTAACGGTAACATGATTGGTACG
1 AAGCCATCAGT-ACAGTAATATGATCGGCACA
* * **
43449166 AAGCCATCAGTGACGGTGATATGATCAACACA
1 AAGCCATCAGT-ACAGTAATATGATCGGCACA
* * *
43449198 CAGCCATCAGTAACAGTAA-ATGATTGGCATA
1 AAGCCATCAGT-ACAGTAATATGATCGGCACA
* * *
43449229 CAA-CCA-CTGGTAATAGTAATATGATCGGTACA
1 -AAGCCATC-AGT-ACAGTAATATGATCGGCACA
* * * *** *
43449261 AAGCCATCAGTAACGGTACTATAATTAACATA
1 AAGCCATCAGT-ACAGTAATATGATCGGCACA
* **
43449293 AAGCCATCAGTAACAGTACTATGATCAACACA
1 AAGCCATCAGT-ACAGTAATATGATCGGCACA
43449325 AAGCCATCAGTA
1 AAGCCATCAGTA
43449337 GCATCGTGGC
Statistics
Matches: 178, Mismatches: 50, Indels: 14
0.74 0.21 0.06
Matches are distributed among these distances:
30 1 0.01
31 34 0.19
32 141 0.79
33 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (31 bp):
AAGCCATCAGTACAGTAATATGATCGGCACA
Found at i:43449198 original size:64 final size:63
Alignment explanation
Indices: 43449072--43449336 Score: 198
Period size: 64 Copynumber: 4.2 Consensus size: 63
43449062 AATGGCTACA
* * **
43449072 AGCCATAAGT-ACAGTAATGTGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
1 AGCCATCAGTAACAGTAA-ATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCAACACAC
* * * * *
43449135 ATCCATCAGTAACGGTAACATGATTGGTACGAAGCCATCAGT-GACGGTGATATGATCAACACAC
1 AGCCATCAGTAACAGTAA-ATGATTGGCACAAAGCCATCAGTAG-CAGTGATATGATCAACACAC
* * ** * *** *
43449199 AGCCATCAGTAACAGTAAATGATTGGCATACAA-CCA-CTGGTAATAGTAATATGATCGGTACAA
1 AGCCATCAGTAACAGTAAATGATTGGCACA-AAGCCATC-AGTAGCAGTGATATGATCAACACAC
* * * ** * * *
43449262 AGCCATCAGTAACGGTACTATAATTAACATAAAGCCATCAGTAACAGT-ACTATGATCAACACAA
1 AGCCATCAGTAACAGTA-AATGATTGGCACAAAGCCATCAGTAGCAGTGA-TATGATCAACACAC
43449326 AGCCATCAGTA
1 AGCCATCAGTA
43449337 GCATCGTGGC
Statistics
Matches: 159, Mismatches: 34, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
62 1 0.01
63 55 0.35
64 102 0.64
65 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (63 bp):
AGCCATCAGTAACAGTAAATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCAACACAC
Found at i:43449415 original size:27 final size:27
Alignment explanation
Indices: 43449377--43449540 Score: 131
Period size: 27 Copynumber: 6.1 Consensus size: 27
43449367 CGAGGCAAAG
*
43449377 CCTATAGGGGTATTACGGTCATTTTAC
1 CCTACAGGGGTATTACGGTCATTTTAC
* *
43449404 CCTACAGGGGTATTACGATTATTTTAC
1 CCTACAGGGGTATTACGGTCATTTTAC
* ** *
43449431 TCTACAGAAGCATTACGGTCATTTTAC
1 CCTACAGGGGTATTACGGTCATTTTAC
* * *
43449458 CCTATAGGGGCATTACGATCATTTTAC
1 CCTACAGGGGTATTACGGTCATTTTAC
* * *
43449485 CC-ATC-GAGGGTATTTCGTTTATTTTA-
1 CCTA-CAG-GGGTATTACGGTCATTTTAC
43449511 CCTA-ACGAGGGTATCT-CGGTCATTTTAC
1 CCTACA-G-GGGTAT-TACGGTCATTTTAC
43449539 CC
1 CC
43449541 ATCGAGGGTA
Statistics
Matches: 109, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
26 4 0.04
27 102 0.94
28 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
CCTACAGGGGTATTACGGTCATTTTAC
Found at i:43449546 original size:27 final size:26
Alignment explanation
Indices: 43449446--43449552 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
43449436 AGAAGCATTA
* *
43449446 CGGTCATTTTACCCTATAG-GGGCATT
1 CGGTCATTTTACCC-ATCGAGGGTATT
*
43449472 ACGATCATTTTACCCATCGAGGGTATTT
1 -CGGTCATTTTACCCATCGAGGGTA-TT
* * * *
43449500 CGTTTATTTTACCTAACGAGGGTATCT
1 CGGTCATTTTACCCATCGAGGGTAT-T
43449527 CGGTCATTTTACCCATCGAGGGTATT
1 CGGTCATTTTACCCATCGAGGGTATT
43449553 TTAATCCAGA
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.08
27 59 0.89
28 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
CGGTCATTTTACCCATCGAGGGTATT
Found at i:43451013 original size:17 final size:17
Alignment explanation
Indices: 43450991--43451024 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43450981 CACAAAACCG
*
43450991 AAATGAAGAGTATACCA
1 AAATGAAGAGCATACCA
*
43451008 AAATGAGGAGCATACCA
1 AAATGAAGAGCATACCA
43451025 CTCTAGCCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.15, G:0.21, T:0.15
Consensus pattern (17 bp):
AAATGAAGAGCATACCA
Found at i:43451881 original size:100 final size:100
Alignment explanation
Indices: 43451708--43451909 Score: 350
Period size: 100 Copynumber: 2.0 Consensus size: 100
43451698 ATTGGTGAGA
* * *
43451708 ATGCTAATAGTCTGTTTCAATTGGTGGATTTAGAATTTTGCGATTACTATCGTGATTTCAAACGT
1 ATGCTAATAGTATGTTTCAATTGGTGGATTCAGAATTTTGCGATTACTATCGTGATTTAAAACGT
*
43451773 TACTTAACTTACTCTTTGACAGATGTCAAATTTAT
66 TACTTAACTTACTCTTTGACAAATGTCAAATTTAT
* *
43451808 ATGCTAATAGTATGTTTCAATTGGTGGATTCAGAATTTTGCGATTACTCTCGTGATTTAAAATGT
1 ATGCTAATAGTATGTTTCAATTGGTGGATTCAGAATTTTGCGATTACTATCGTGATTTAAAACGT
43451873 TACTTAACTTACTCTTTGACAAATGTCAAATTTAT
66 TACTTAACTTACTCTTTGACAAATGTCAAATTTAT
43451908 AT
1 AT
43451910 TTGATAAGCC
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (100 bp):
ATGCTAATAGTATGTTTCAATTGGTGGATTCAGAATTTTGCGATTACTATCGTGATTTAAAACGT
TACTTAACTTACTCTTTGACAAATGTCAAATTTAT
Found at i:43463567 original size:28 final size:28
Alignment explanation
Indices: 43463531--43463587 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
43463521 ATTGCACTGT
* * *
43463531 ACTGATACTGCGTTGGGCTAAGGCCCAC
1 ACTGATACTACATTGGGCTAAGACCCAC
* *
43463559 ACTGTTACTATATTGGGCTAAGACCCAC
1 ACTGATACTACATTGGGCTAAGACCCAC
43463587 A
1 A
43463588 TTGTACCGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (28 bp):
ACTGATACTACATTGGGCTAAGACCCAC
Found at i:43474099 original size:6 final size:6
Alignment explanation
Indices: 43474081--43474110 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
43474071 ATGCAATACT
43474081 TATTTA TATTTTA TATTTA TATTTA TATTT
1 TATTTA TA-TTTA TATTTA TATTTA TATTT
43474111 GGTTGGACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TATTTA
Found at i:43482197 original size:27 final size:27
Alignment explanation
Indices: 43482107--43482199 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
43482097 CACGATAGCT
43482107 AAGGATAGCCTTTGTGGCGAACTCTAA
1 AAGGATAGCCTTTGTGGCGAACTCTAA
* *
43482134 AAGAATAGCCTTTGTGGTGAACTCTGAA
1 AAGGATAGCCTTTGTGGCGAACTCT-AA
* * *
43482162 AGGGAT-GCCTTTGTGGCAAATTCTAA
1 AAGGATAGCCTTTGTGGCGAACTCTAA
* *
43482188 ATGGATTGCCTT
1 AAGGATAGCCTT
43482200 ACTGGTGTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.12
27 43 0.77
28 6 0.11
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AAGGATAGCCTTTGTGGCGAACTCTAA
Found at i:43484055 original size:20 final size:21
Alignment explanation
Indices: 43484003--43484056 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
43483993 AGTAGTGCAG
43484003 AGCTGCTAATAATGCAGATAA
1 AGCTGCTAATAATGCAGATAA
* *
43484024 A-CTGCCAGTAATGCAGA-AA
1 AGCTGCTAATAATGCAGATAA
*
43484043 AGCTGCTGATAATG
1 AGCTGCTAATAATG
43484057 TGGACAAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.11
20 23 0.85
21 1 0.04
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (21 bp):
AGCTGCTAATAATGCAGATAA
Found at i:43488183 original size:21 final size:21
Alignment explanation
Indices: 43488159--43488201 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
43488149 TCCCTAGATG
*
43488159 AACCACCTACC-TTAGAGTTAA
1 AACC-CCTACCTTTAAAGTTAA
*
43488180 AACCTCTACCTTTAAAGTTAA
1 AACCCCTACCTTTAAAGTTAA
43488201 A
1 A
43488202 GTACGCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.28
Consensus pattern (21 bp):
AACCCCTACCTTTAAAGTTAA
Found at i:43494274 original size:87 final size:86
Alignment explanation
Indices: 43494128--43494300 Score: 328
Period size: 87 Copynumber: 2.0 Consensus size: 86
43494118 CTCATATGGC
43494128 GTCTTTTGAACCAATTTAGATGGAACACGATTTAGTGTGAAAGCAGCTGTCTCAAGTGCATGTCC
1 GTCTTTTGAACCAATTTAGATGGAACACGATTTAGTGTGAAAGCAGCTGTCTCAAGTGCATGTCC
43494193 CCAAAAAGAAGTCGATAGATT
66 CCAAAAAGAAGTCGATAGATT
*
43494214 NGTCTTTTGAACCGATTTAGATGGAACACGATTTAGTGTGAAAGCAGCTGTCTCAAGTGCATGTC
1 -GTCTTTTGAACCAATTTAGATGGAACACGATTTAGTGTGAAAGCAGCTGTCTCAAGTGCATGTC
43494279 CCCAAAAAGAAGTCGATAGATT
65 CCCAAAAAGAAGTCGATAGATT
43494301 AGCATGACTC
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (86 bp):
GTCTTTTGAACCAATTTAGATGGAACACGATTTAGTGTGAAAGCAGCTGTCTCAAGTGCATGTCC
CCAAAAAGAAGTCGATAGATT
Found at i:43501875 original size:33 final size:33
Alignment explanation
Indices: 43501824--43501925 Score: 145
Period size: 33 Copynumber: 3.1 Consensus size: 33
43501814 TTATGGCTTA
*
43501824 AAGGA-GTAAATTATATGAAATACAATTTGGCC
1 AAGGAGGTGAATTATATGAAATACAATTTGGCC
* *
43501856 AAGGAGGTGAATTGTATGAAATACAATTTAGCC
1 AAGGAGGTGAATTATATGAAATACAATTTGGCC
*
43501889 AAAGG-GGTGAATTATATGAAATACAATTTGGCT
1 -AAGGAGGTGAATTATATGAAATACAATTTGGCC
43501922 AAGG
1 AAGG
43501926 GGACGAATGT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
32 9 0.15
33 49 0.79
34 4 0.06
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (33 bp):
AAGGAGGTGAATTATATGAAATACAATTTGGCC
Found at i:43508337 original size:114 final size:114
Alignment explanation
Indices: 43508176--43508443 Score: 312
Period size: 114 Copynumber: 2.4 Consensus size: 114
43508166 GGAATCATTT
* * * * * * * *
43508176 TCACCATCACGAATTCTATCTCTTTCATGCCTTCTATCCCTAAAGGAAGGCTTGTCATCTTCTTC
1 TCACCGTCATGAATTCTCTCTCTTTTACGCCTTCTATCTCTATAGGAAGGCTTGCCATCTTCTTC
* *
43508241 ATCAGAAGATCTTGAACCTTCTTCTCTCC-GCCTATCCTTACCATCATCA
66 ATCAGAAGATCTAGAACCTTCTTCTC-CCTGCCTATCCTTACCACCATCA
*
43508290 TCACCGTCATGAATTCTCTCTCTTTTACGCCTTCTATCTCTATAGGAATGCTTGCCATCTTCTTC
1 TCACCGTCATGAATTCTCTCTCTTTTACGCCTTCTATCTCTATAGGAAGGCTTGCCATCTTCTTC
* * * * *
43508355 ATCAGAGGATCTAGGACGTTTTTCTCCCTGCCTATCCTTACCACCATTA
66 ATCAGAAGATCTAGAACCTTCTTCTCCCTGCCTATCCTTACCACCATCA
* * *
43508404 TCA--G-CATGAATTCTCTCACTTTCTTCG-CTCCTATCTCTAT
1 TCACCGTCATGAATTCTCTCTCTTT-TACGCCTTCTATCTCTAT
43508444 TAGCACGCTT
Statistics
Matches: 133, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
111 29 0.22
112 4 0.03
113 2 0.02
114 98 0.74
ACGTcount: A:0.21, C:0.32, G:0.10, T:0.37
Consensus pattern (114 bp):
TCACCGTCATGAATTCTCTCTCTTTTACGCCTTCTATCTCTATAGGAAGGCTTGCCATCTTCTTC
ATCAGAAGATCTAGAACCTTCTTCTCCCTGCCTATCCTTACCACCATCA
Found at i:43512149 original size:61 final size:61
Alignment explanation
Indices: 43512011--43512149 Score: 167
Period size: 63 Copynumber: 2.2 Consensus size: 61
43512001 ATTTATTCAC
* * *
43512011 ATGTGGTTCGAATGTATGTTCAAATTCTTTGAGCTGAAATTTATGTATGAATCTTATACATAT
1 ATGTGGTTCGAATATAGGTTCAAATTCCTTGAGCTGAAATTTATGTATGAA-CTTATACA-AT
* *
43512074 ATGTGGTTCGAATATAGGTTACAAATTCCTTGAGCTG-TATTTAATGTTGTGAA-TTATAC-AT
1 ATGTGGTTCGAATATAGGTT-CAAATTCCTTGAGCTGAAATTT-ATG-TATGAACTTATACAAT
43512135 ATGTGGTTCGAATAT
1 ATGTGGTTCGAATAT
43512150 GTGTTTACTA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
61 17 0.25
63 28 0.41
64 18 0.26
65 5 0.07
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (61 bp):
ATGTGGTTCGAATATAGGTTCAAATTCCTTGAGCTGAAATTTATGTATGAACTTATACAAT
Found at i:43517219 original size:39 final size:38
Alignment explanation
Indices: 43517171--43517257 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
43517161 TGTAATTGCC
* *
43517171 ATAACTATAATAATGTTTGACCA-AAAAATTACAATTACA
1 ATAATTATAATAATATTTGA--ATAAAAATTACAATTACA
** *
43517210 ATAATTATAATAATATTTGAATGTAAATTATAATTACA
1 ATAATTATAATAATATTTGAATAAAAATTACAATTACA
43517248 ATAATTATAA
1 ATAATTATAA
43517258 CAAAGATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.02
38 23 0.55
39 18 0.43
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.37
Consensus pattern (38 bp):
ATAATTATAATAATATTTGAATAAAAATTACAATTACA
Found at i:43519135 original size:42 final size:42
Alignment explanation
Indices: 43519076--43519158 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
43519066 AAATTCAATA
43519076 GGATAAGAACAAAAGTTCAAATGTTTGAATTTCAAACGTTTT
1 GGATAAGAACAAAAGTTCAAATGTTTGAATTTCAAACGTTTT
*
43519118 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
1 GGATAAGAACAAAAGTTCAAATGTTTGAATTTCAAACGTTT
43519159 CACACATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.33
Consensus pattern (42 bp):
GGATAAGAACAAAAGTTCAAATGTTTGAATTTCAAACGTTTT
Found at i:43523330 original size:61 final size:61
Alignment explanation
Indices: 43523193--43523331 Score: 158
Period size: 63 Copynumber: 2.2 Consensus size: 61
43523183 ATTTATTCAC
* * *
43523193 ATGTGGTTCGAATGTATGTTCAAATTCTTTGAGCTGAAATTTATGTATGAATCTTATACATAT
1 ATGTGGTTCGAATATAGGTTCAAATTCCTTGAGCTGAAATTTATGTATGAA-CTTATACA-AT
* * *
43523256 ATGTGGTTTGAATATAGGTTACAAATTCCTTGAGCTG-TATTTAATGTTGTGAA-TTATAC-AT
1 ATGTGGTTCGAATATAGGTT-CAAATTCCTTGAGCTGAAATTT-ATG-TATGAACTTATACAAT
43523317 ATGTGGTTCGAATAT
1 ATGTGGTTCGAATAT
43523332 GTGTTTACTA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
61 16 0.24
63 27 0.41
64 18 0.27
65 5 0.08
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (61 bp):
ATGTGGTTCGAATATAGGTTCAAATTCCTTGAGCTGAAATTTATGTATGAACTTATACAAT
Found at i:43524121 original size:18 final size:18
Alignment explanation
Indices: 43524100--43524146 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
43524090 TATAAAATCG
*
43524100 GGAAA-AATGAAAAAACCA
1 GGAAAGAATGAAAAAA-AA
43524118 GGAAAGAAT-AAAAAAAA
1 GGAAAGAATGAAAAAAAA
43524135 GGAAAGAATGAA
1 GGAAAGAATGAA
43524147 GAAAGAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 13 0.50
19 3 0.12
ACGTcount: A:0.68, C:0.04, G:0.21, T:0.06
Consensus pattern (18 bp):
GGAAAGAATGAAAAAAAA
Found at i:43527853 original size:40 final size:40
Alignment explanation
Indices: 43527809--43527999 Score: 292
Period size: 40 Copynumber: 4.8 Consensus size: 40
43527799 GATCAAAGGC
* * *
43527809 ACCGAAGTGCAAAGAAGGGCACGTAAGTGCAATCAGGGGT
1 ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGT
* *
43527849 ACCGAAGTACAAACAGGGGCACATAAGTGTAATCAGGGGT
1 ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGT
*
43527889 ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGTT
1 ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGT
* * * *
43527929 ACTGAAGTACAAACAAGGGCACATAAGTGCAATTAGGGGT
1 ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGT
43527969 ACCGAAGTACAAACAGGGGCACGTAAGTGCA
1 ACCGAAGTACAAACAGGGGCACGTAAGTGCA
43528000 GTCATTCAAT
Statistics
Matches: 135, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.14
Consensus pattern (40 bp):
ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGT
Found at i:43527996 original size:20 final size:20
Alignment explanation
Indices: 43527825--43527996 Score: 118
Period size: 20 Copynumber: 8.6 Consensus size: 20
43527815 GTGCAAAGAA
* *
43527825 GGGCACGTAAGTGCAATCAG
1 GGGCACGTAAGTACAAACAG
*
43527845 GGGTACCG-AAGTACAAACAG
1 GGGCA-CGTAAGTACAAACAG
* ** *
43527865 GGGCACATAAGTGTAATCAG
1 GGGCACGTAAGTACAAACAG
*
43527885 GGGTACCG-AAGTACAAACAG
1 GGGCA-CGTAAGTACAAACAG
* *
43527905 GGGCACGTAAGTGCAATCAG
1 GGGCACGTAAGTACAAACAG
** *
43527925 GGTTAC-TGAAGTACAAACAA
1 GGGCACGT-AAGTACAAACAG
* * **
43527945 GGGCACATAAGTGCAATTAG
1 GGGCACGTAAGTACAAACAG
*
43527965 GGGTACCG-AAGTACAAACAG
1 GGGCA-CGTAAGTACAAACAG
43527985 GGGCACGTAAGT
1 GGGCACGTAAGT
43527997 GCAGTCATTC
Statistics
Matches: 111, Mismatches: 33, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
19 6 0.05
20 100 0.90
21 5 0.05
ACGTcount: A:0.36, C:0.18, G:0.31, T:0.15
Consensus pattern (20 bp):
GGGCACGTAAGTACAAACAG
Found at i:43529336 original size:43 final size:43
Alignment explanation
Indices: 43529269--43529845 Score: 496
Period size: 43 Copynumber: 13.3 Consensus size: 43
43529259 TTGGCACATG
* * **
43529269 AGTGCATCA-CTGGGTAAACTGAAGCAACTATACTGGCACACGT
1 AGTGCATCATC-GGATAAACCGAAGCAACTATACTGGCACACAC
*
43529312 AGTGCATCATCGGATAATCCGAAGCAACTATACTGGCACAC-C
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* * ** * * * * *
43529354 AATGCATTATTAGATAAACAGAAGCAACTATATTAGCGCAC-G
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
** * * *
43529396 AGTGCATCATCAAATAAACTGAAGCAATTATACTAGCACACTGGCAC
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACA----CAC
* * * *
43529443 ACGCGGTGCATCATCGGATAAACTGAAACAAGTATACTGACACACAC
1 A----GTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* * * *
43529490 AGTACATCATCAGATAAATCGAAGTAACTATACTGGCACACAC
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* ** * *
43529533 AGTGCATCA-CTAGATAAGTCGAAGCAACTATATTGGCACACAT
1 AGTGCATCATC-GGATAAACCGAAGCAACTATACTGGCACACAC
* * * * *
43529576 AGTGCATCATCGAATAAACCGAAGTAACCATACTAGCATACAC
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* * * *
43529619 AGTGCATCATCGGATAAACCAAAGGAACTATATTGGCACACAT
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* * * * *
43529662 AATGCATCGTTGGATAAACCGAAGTAACTATATTGGCACACAC
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* * * * ** *
43529705 AATGCATCATCGAATAAACCGAGGTAACTATACTAACACACAT
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
*
43529748 AGTGCATCATCGGATAAACAGAAGCAACTATACTGGCACACAC
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* ** * * *
43529791 AGTGCATCATCGAATAAACTAAAGTAACTGTACTGGCACACAT
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
43529834 AGTGCATCATCG
1 AGTGCATCATCG
43529846 AAGATACCAA
Statistics
Matches: 434, Mismatches: 88, Indels: 24
0.79 0.16 0.04
Matches are distributed among these distances:
42 65 0.15
43 328 0.76
44 2 0.00
46 1 0.00
47 5 0.01
51 33 0.08
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (43 bp):
AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
Found at i:43532151 original size:115 final size:117
Alignment explanation
Indices: 43531937--43532172 Score: 431
Period size: 115 Copynumber: 2.0 Consensus size: 117
43531927 TTTTCTGTTG
43531937 AATGCTAATAACAATGGGTGCACACGACTGAACTTAACCTGCACCAAAAAAAAAACAAATTGAAC
1 AATGCTAATAACAATGGGTGCACACGACTGAACTTAACCTGCACC-AAAAAAAAACAAATTGAAC
43532002 GTTGAGCAATCAAATCAATGGCTTTTTTATAACTAATATTATAACATAACA-A
65 GTTGAGCAATCAAATCAATGGCTTTTTTATAACTAATATTATAACATAACAGA
*
43532054 AATGCTAATAACAATGGGTGCACACGACTGGACTTAACCTGCACC-AAAAAAAACAAATTGAACG
1 AATGCTAATAACAATGGGTGCACACGACTGAACTTAACCTGCACCAAAAAAAAACAAATTGAACG
*
43532118 TTGAGCAATCAAATCAGTGGCTTTTTTATAACTAATATTATAACATAACAGA
66 TTGAGCAATCAAATCAATGGCTTTTTTATAACTAATATTATAACATAACAGA
43532170 AAT
1 AAT
43532173 TATGTAGGGA
Statistics
Matches: 116, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
115 68 0.59
116 4 0.03
117 44 0.38
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (117 bp):
AATGCTAATAACAATGGGTGCACACGACTGAACTTAACCTGCACCAAAAAAAAACAAATTGAACG
TTGAGCAATCAAATCAATGGCTTTTTTATAACTAATATTATAACATAACAGA
Found at i:43534392 original size:23 final size:23
Alignment explanation
Indices: 43534366--43534498 Score: 194
Period size: 23 Copynumber: 5.8 Consensus size: 23
43534356 ACTAATATGA
* *
43534366 AGCCGAAGCTACCACTGACACGT
1 AGCCGAAGCTACCACTGAAATGT
*
43534389 AGCCGTAGCTACCACTGAAATGT
1 AGCCGAAGCTACCACTGAAATGT
*
43534412 AGCTGAAGCTACCACTGAAATGT
1 AGCCGAAGCTACCACTGAAATGT
*
43534435 AGCCGAAGCTACCACTGATATGT
1 AGCCGAAGCTACCACTGAAATGT
*
43534458 AGCCGTAGCTACCACTGAAATGT
1 AGCCGAAGCTACCACTGAAATGT
* *
43534481 AACCGAAGCTGCCACTGA
1 AGCCGAAGCTACCACTGA
43534499 TCAATAACAC
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 98 1.00
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.19
Consensus pattern (23 bp):
AGCCGAAGCTACCACTGAAATGT
Found at i:43534477 original size:69 final size:69
Alignment explanation
Indices: 43534366--43534498 Score: 221
Period size: 69 Copynumber: 1.9 Consensus size: 69
43534356 ACTAATATGA
* *
43534366 AGCCGAAGCTACCACTGACACGTAGCCGTAGCTACCACTGAAATGTAGCTGAAGCTACCACTGAA
1 AGCCGAAGCTACCACTGACACGTAGCCGTAGCTACCACTGAAATGTAACCGAAGCTACCACTGAA
43534431 ATGT
66 ATGT
* * *
43534435 AGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGTAACCGAAGCTGCCACTGA
1 AGCCGAAGCTACCACTGACACGTAGCCGTAGCTACCACTGAAATGTAACCGAAGCTACCACTGA
43534499 TCAATAACAC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.19
Consensus pattern (69 bp):
AGCCGAAGCTACCACTGACACGTAGCCGTAGCTACCACTGAAATGTAACCGAAGCTACCACTGAA
ATGT
Found at i:43536338 original size:38 final size:38
Alignment explanation
Indices: 43536287--43536366 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
43536277 TTCTAACAGC
*
43536287 TTAATTAACTAAATAAAACAACATAAATGACAAAATGT
1 TTAATTAACTAAATAAAACAACATAAATGACAAAATAT
43536325 TTAATTAACTAAATAAAACAACATAAATGACAAAATAT
1 TTAATTAACTAAATAAAACAACATAAATGACAAAATAT
43536363 TTAA
1 TTAA
43536367 ACAATCTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.59, C:0.10, G:0.04, T:0.28
Consensus pattern (38 bp):
TTAATTAACTAAATAAAACAACATAAATGACAAAATAT
Found at i:43541661 original size:24 final size:26
Alignment explanation
Indices: 43541614--43541671 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
43541604 TGTAGCTACA
*
43541614 ATGTATTATTAGCATTATAAATTTCTC
1 ATGTATTATTAGCA-TATAAATTTATC
* *
43541641 ATGTATTATTAGC-T-TAGATTTATT
1 ATGTATTATTAGCATATAAATTTATC
43541665 ATGTATT
1 ATGTATT
43541672 TGTTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 14 0.50
25 1 0.04
27 13 0.46
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (26 bp):
ATGTATTATTAGCATATAAATTTATC
Found at i:43546573 original size:9 final size:9
Alignment explanation
Indices: 43546556--43546592 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
43546546 TGAGTTTTTG
43546556 AATTCGAAT
1 AATTCGAAT
*
43546565 AATTTGAAT
1 AATTCGAAT
43546574 AATTCGAAT
1 AATTCGAAT
43546583 AATTCGAAT
1 AATTCGAAT
43546592 A
1 A
43546593 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (9 bp):
AATTCGAAT
Found at i:43546638 original size:29 final size:30
Alignment explanation
Indices: 43546605--43546661 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
43546595 AAACTATAAT
* *
43546605 ATTTTATATTTTTACC-CAAAAGTTTTAAA
1 ATTTTATACTTTTACCTCAAAACTTTTAAA
* *
43546634 ATTTTTTACTTTTCCCTCAAAACTTTTA
1 ATTTTATACTTTTACCTCAAAACTTTTA
43546662 TTCCTTTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 13 0.57
30 10 0.43
ACGTcount: A:0.32, C:0.16, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTTTATACTTTTACCTCAAAACTTTTAAA
Found at i:43548665 original size:16 final size:17
Alignment explanation
Indices: 43548644--43548675 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43548634 TATTATATTA
43548644 TATTATA-TTATTAAAG
1 TATTATATTTATTAAAG
43548660 TATTATATTTATTAAA
1 TATTATATTTATTAAA
43548676 TAATAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTATATTTATTAAAG
Found at i:43548668 original size:5 final size:5
Alignment explanation
Indices: 43548608--43548654 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
43548598 ATATAAGAAA
43548608 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
43548655 TAAAGTATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:43548740 original size:17 final size:17
Alignment explanation
Indices: 43548691--43548730 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
43548681 AACAAAACAT
*
43548691 AAACTAAAAGAATAAAAG
1 AAAC-AAAAGAAGAAAAG
43548709 AAACAAAAGAAGAAAAG
1 AAACAAAAGAAGAAAAG
43548726 AAACA
1 AAACA
43548731 GAATAGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.75, C:0.07, G:0.12, T:0.05
Consensus pattern (17 bp):
AAACAAAAGAAGAAAAG
Found at i:43549153 original size:24 final size:23
Alignment explanation
Indices: 43549120--43549166 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
43549110 ATTTGAATAG
43549120 AAATAGAGTGTGAATTGAGTTAGGA
1 AAATAGA--GTGAATTGAGTTAGGA
*
43549145 AAATA-AGTGAATTTAGTTAGGA
1 AAATAGAGTGAATTGAGTTAGGA
43549167 TTAAATTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 15 0.71
24 1 0.05
25 5 0.24
ACGTcount: A:0.43, C:0.00, G:0.28, T:0.30
Consensus pattern (23 bp):
AAATAGAGTGAATTGAGTTAGGA
Found at i:43549441 original size:18 final size:18
Alignment explanation
Indices: 43549420--43549456 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
43549410 ATGTGAGGTA
43549420 AGTATGAATATTAGTATT
1 AGTATGAATATTAGTATT
* *
43549438 AGTATTAGTATTAGTATT
1 AGTATGAATATTAGTATT
43549456 A
1 A
43549457 CTATTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (18 bp):
AGTATGAATATTAGTATT
Found at i:43549472 original size:6 final size:6
Alignment explanation
Indices: 43549428--43549468 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
43549418 TAAGTATGAA
* *
43549428 TATTAG TATTAG TATTAG TATTAG TATTAC TATTAT TATTA
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTA
43549469 TTATCATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (6 bp):
TATTAG
Found at i:43549477 original size:6 final size:6
Alignment explanation
Indices: 43549428--43549483 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
43549418 TAAGTATGAA
* * * * * *
43549428 TATTAG TATTAG TATTAG TATTAG TATTAC TATTAT TATTAT TATCAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
43549476 TATTAT TA
1 TATTAT TA
43549484 AAATGAGTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (6 bp):
TATTAT
Found at i:43549624 original size:17 final size:18
Alignment explanation
Indices: 43549592--43549625 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43549582 AATTGAATGG
*
43549592 AAATGTATTGAGTTGTGA
1 AAATGTATTGAATTGTGA
43549610 AAATGTA-TGAATTGTG
1 AAATGTATTGAATTGTG
43549626 GATTAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.38
Consensus pattern (18 bp):
AAATGTATTGAATTGTGA
Found at i:43551148 original size:22 final size:22
Alignment explanation
Indices: 43551103--43551158 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
43551093 GACGGAAAGC
* * *
43551103 AAAAACAAGATAAAAACTTTAA
1 AAAAACAAGAGAAAAACCTAAA
*
43551125 AAAAACAAGAGAAAACCCTAAA
1 AAAAACAAGAGAAAAACCTAAA
**
43551147 AACTACAAGAGA
1 AAAAACAAGAGA
43551159 GACAAAGGCG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.66, C:0.14, G:0.09, T:0.11
Consensus pattern (22 bp):
AAAAACAAGAGAAAAACCTAAA
Found at i:43563921 original size:14 final size:14
Alignment explanation
Indices: 43563902--43563941 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
43563892 TTGATTGCCA
43563902 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
43563916 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
43563930 GGAAAATGTTTT
1 GTAAAATGTTTT
43563942 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:43563950 original size:20 final size:20
Alignment explanation
Indices: 43563925--43563964 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43563915 CGTAAAATGA
*
43563925 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
43563945 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
43563965 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:43563954 original size:34 final size:35
Alignment explanation
Indices: 43563910--43563976 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
43563900 CAGTAAAATG
*
43563910 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
43563944 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
43563977 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:43563980 original size:14 final size:15
Alignment explanation
Indices: 43563904--43563980 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
43563894 GATTGCCAGT
* *
43563904 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
43563918 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
43563932 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
43563952 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
43563967 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
43563981 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:43564984 original size:14 final size:14
Alignment explanation
Indices: 43564965--43565004 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
43564955 TTGATTGCCA
43564965 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
43564979 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
43564993 GGAAAATGTTTT
1 GTAAAATGTTTT
43565005 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:43565013 original size:20 final size:20
Alignment explanation
Indices: 43564988--43565027 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43564978 CGTAAAATGA
*
43564988 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGGTTTACT
*
43565008 TTTCTGTAAAATGGTTTACT
1 TTTCTGGAAAATGGTTTACT
43565028 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGGTTTACT
Found at i:43565017 original size:34 final size:35
Alignment explanation
Indices: 43564973--43565039 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43564963 CAGTAAAATG
*
43564973 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
43565007 TTTTCTGTAAAATGGTTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
43565040 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:43573758 original size:12 final size:12
Alignment explanation
Indices: 43573741--43573768 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43573731 TATATGATCT
43573741 TCATACTTGAGA
1 TCATACTTGAGA
43573753 TCATACTTGAGA
1 TCATACTTGAGA
43573765 TCAT
1 TCAT
43573769 CATTGTCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (12 bp):
TCATACTTGAGA
Found at i:43574590 original size:138 final size:139
Alignment explanation
Indices: 43574418--43574702 Score: 473
Period size: 139 Copynumber: 2.1 Consensus size: 139
43574408 GAGAACATAG
*
43574418 ATATAATTAATATATGATTTTGATTCATAAAAAATATTAATTGTATATATTTTACCGAA-TTTAT
1 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCGAATTTTAT
* * * *
43574482 TAATATAAAAATTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAGTATTCTT
66 TAATATAAAAAGTTATATTAATTAATCTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
43574547 TTGAAAAGA
131 TTGAAAAGA
* *
43574556 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTTGT
1 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCGAATTTTAT
* *
43574621 TAATATAAATAGTTATATTAATTAATCTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
66 TAATATAAAAAGTTATATTAATTAATCTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
*
43574686 TTGGAAAGA
131 TTGAAAAGA
43574695 ATATAATT
1 ATATAATT
43574703 TCTTTTTCTA
Statistics
Matches: 136, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
138 57 0.42
139 79 0.58
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (139 bp):
ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCGAATTTTAT
TAATATAAAAAGTTATATTAATTAATCTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
TTGAAAAGA
Found at i:43574804 original size:74 final size:75
Alignment explanation
Indices: 43574678--43574826 Score: 239
Period size: 74 Copynumber: 2.0 Consensus size: 75
43574668 ATGGAAATTA
* * *
43574678 ATATTCTTTTGGAAAGAATATAATTTCTTTTTCTAACTTTCCATTTGTCTTCTTTATTAATAAGG
1 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
43574743 GAATAATCCT
66 GAATAATCCT
*
43574753 ATATT-TTTTTGAAAGAATATAATTCCTTTTTC-AGACTTTCCATTTGCCTTCTCTATTAATAAG
1 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTA-ACTTTCCATTTGCCTTCTCTATTAATAAG
43574816 GGAATAATCCT
65 GGAATAATCCT
43574827 GGTTTTCCTT
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
73 1 0.01
74 63 0.91
75 5 0.07
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
GAATAATCCT
Found at i:43575474 original size:27 final size:27
Alignment explanation
Indices: 43575436--43575493 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
43575426 CGTGCCACTA
43575436 CATTCAACATTAGGATACCAATTCTTT
1 CATTCAACATTAGGATACCAATTCTTT
43575463 CATTCAACATTAGGATACCAATTCTTT
1 CATTCAACATTAGGATACCAATTCTTT
43575490 CATT
1 CATT
43575494 TATAGCCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (27 bp):
CATTCAACATTAGGATACCAATTCTTT
Found at i:43580567 original size:17 final size:17
Alignment explanation
Indices: 43580545--43580578 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
43580535 ATATATGATT
43580545 AATTGAAGATGA-AATGA
1 AATTGAA-ATGAGAATGA
43580562 AATTGAAATGAGAATGA
1 AATTGAAATGAGAATGA
43580579 TATGAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (17 bp):
AATTGAAATGAGAATGA
Found at i:43582800 original size:14 final size:14
Alignment explanation
Indices: 43582781--43582811 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43582771 GGCATGTTAA
*
43582781 TATATATGTATATG
1 TATATATATATATG
43582795 TATATATATATATG
1 TATATATATATATG
43582809 TAT
1 TAT
43582812 TTGAATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
TATATATATATATG
Found at i:43584117 original size:10 final size:10
Alignment explanation
Indices: 43584099--43584128 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
43584089 ATCTAGGCAA
43584099 TGGTATGTTT
1 TGGTATGTTT
*
43584109 TGTTATGTTT
1 TGGTATGTTT
43584119 TGGTATGTTT
1 TGGTATGTTT
43584129 GAGTAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.10, C:0.00, G:0.27, T:0.63
Consensus pattern (10 bp):
TGGTATGTTT
Found at i:43584407 original size:20 final size:20
Alignment explanation
Indices: 43584382--43584419 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
43584372 GTATCAGTGC
43584382 TTTTTATAAATATCGATAAA
1 TTTTTATAAATATCGATAAA
43584402 TTTTTATAAATATCGATA
1 TTTTTATAAATATCGATA
43584420 CCTCCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTTATAAATATCGATAAA
Found at i:43588445 original size:40 final size:40
Alignment explanation
Indices: 43588326--43588458 Score: 110
Period size: 40 Copynumber: 3.4 Consensus size: 40
43588316 CTTCGAGTCA
* * * * *
43588326 ATGAGACACTAGGTGTCAATTTACTACTTCAAATTAATTCG
1 ATGAGACAATGGGTGTCAATTTATTACTTCGAATT-ATCCG
* * * ** *
43588367 ATGAGGCACTGGGTGCCAA--T-TTACTTCGGTTTAGCCG
1 ATGAGACAATGGGTGTCAATTTATTACTTCGAATTATCCG
*
43588404 ATGAGACAATGTGTGTCAATTTATTACTTCGAATTATCCG
1 ATGAGACAATGGGTGTCAATTTATTACTTCGAATTATCCG
* *
43588444 ATGAGGCACTGGGTG
1 ATGAGACAATGGGTG
43588459 CCAAACTGGT
Statistics
Matches: 70, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
37 18 0.26
38 8 0.11
39 2 0.03
40 26 0.37
41 16 0.23
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (40 bp):
ATGAGACAATGGGTGTCAATTTATTACTTCGAATTATCCG
Found at i:43594522 original size:10 final size:10
Alignment explanation
Indices: 43594504--43594533 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
43594494 ATCTAGGAAA
43594504 TGGTATGTTT
1 TGGTATGTTT
*
43594514 TGTTATGTTT
1 TGGTATGTTT
43594524 TGGTATGTTT
1 TGGTATGTTT
43594534 GAGTAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.10, C:0.00, G:0.27, T:0.63
Consensus pattern (10 bp):
TGGTATGTTT
Found at i:43597552 original size:27 final size:27
Alignment explanation
Indices: 43597538--43597788 Score: 305
Period size: 27 Copynumber: 9.4 Consensus size: 27
43597528 TATAACAGTT
43597538 ATTTTACCCTATA-GGGTATTTCGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* *
43597564 ATTTTATCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
*
43597590 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
*
43597617 ATTTTACCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* *
43597643 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* **
43597670 ATTTTACCCTATAAGGGTATTTTAGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* *
43597697 ATTTTACCCAAT-GAGGGTATTTCAGTC
1 ATTTTACCCTATAG-GGGTATTTCGGTC
* **
43597724 ATTTTACCCTATAAGGGTATTTTAGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* * *
43597751 ATTTTATCCTA-CGGGGTATTTCGATC
1 ATTTTACCCTATAGGGGTATTTCGGTC
43597777 ATTTTACCCTAT
1 ATTTTACCCTAT
43597789 TTTAGGGACT
Statistics
Matches: 194, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
26 79 0.41
27 115 0.59
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCGGTC
Found at i:43597613 original size:53 final size:54
Alignment explanation
Indices: 43597538--43597788 Score: 357
Period size: 53 Copynumber: 4.7 Consensus size: 54
43597528 TATAACAGTT
* * * *
43597538 ATTTTACCCTAT-AGGGTATTTCGGTCATTTTATCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTAGTC
* *
43597590 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTAGTC
*
43597643 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTTAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTAGTC
* * *
43597697 ATTTTACCCAATGAGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTTAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTAGTC
* * *
43597751 ATTTTATCCTA-CGGGGTATTTCGATCATTTTACCCTAT
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT
43597789 TTTAGGGACT
Statistics
Matches: 182, Mismatches: 15, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
52 12 0.07
53 99 0.54
54 71 0.39
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTAGTC
Found at i:43601589 original size:17 final size:19
Alignment explanation
Indices: 43601543--43601591 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
43601533 TAAGTATTAA
43601543 ATTAAATATAATATTAAATTT
1 ATTAAA-ATAATATT-AATTT
43601564 ATTAAAATAATATT-ATTT
1 ATTAAAATAATATTAATTT
*
43601582 -TTAGAATAAT
1 ATTAAAATAAT
43601592 TAACTTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 9 0.33
18 4 0.15
20 8 0.30
21 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTAAAATAATATTAATTT
Found at i:43604148 original size:12 final size:13
Alignment explanation
Indices: 43604124--43604152 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
43604114 GGGCTATAAC
43604124 TATTGCATTTATT
1 TATTGCATTTATT
43604137 TATTGC-TTTATT
1 TATTGCATTTATT
43604149 TATT
1 TATT
43604153 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:43612713 original size:42 final size:43
Alignment explanation
Indices: 43612606--43612721 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
43612596 CTCGTACAAT
* * *
43612606 GCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATAACGAT
1 GCCAATGTCCTAGACATGGTCTTACATGTAATCAAATAACGAA
* * * *
43612649 GTCACTGTCCTAGACAGGGTCTTACATGTAATCATAT-ACGAA
1 GCCAATGTCCTAGACATGGTCTTACATGTAATCAAATAACGAA
* *
43612691 GCCAATGTCCCAGACATGGTCTTACACGTAA
1 GCCAATGTCCTAGACATGGTCTTACATGTAA
43612722 ATCTCAAATC
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 30 0.49
43 31 0.51
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
GCCAATGTCCTAGACATGGTCTTACATGTAATCAAATAACGAA
Found at i:43618632 original size:41 final size:42
Alignment explanation
Indices: 43618530--43618682 Score: 132
Period size: 41 Copynumber: 3.7 Consensus size: 42
43618520 TGTGGTTTCG
* * * * **
43618530 TGTAAGACCATGTCTGGAACATTGGCATCGATATAAGATTGTG
1 TGTAAGACCATATCTGGGACATTGGCACCGATATATGATT-CA
* *
43618573 TGTAAGACCATGTTTGGGACATTGGCACCG-TATATGATTCA
1 TGTAAGACCATATCTGGGACATTGGCACCGATATATGATTCA
* ** * * *
43618614 TGTAAGACCCTATCTGGGACAAAGGCA-TGATATGTGATAACA
1 TGTAAGACCATATCTGGGACATTGGCACCGATATATGAT-TCA
*
43618656 TGTAAGACCATATCTGGGATA-TGGCAC
1 TGTAAGACCATATCTGGGACATTGGCAC
43618683 TGTATGTGAT
Statistics
Matches: 90, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
40 1 0.01
41 33 0.37
42 29 0.32
43 27 0.30
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATTGGCACCGATATATGATTCA
Found at i:43621095 original size:23 final size:23
Alignment explanation
Indices: 43621058--43621111 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
43621048 AGATTAAGCA
*
43621058 CAAACATTATCTGCATTCAACAC
1 CAAACACTATCTGCATTCAACAC
* *
43621081 CAAACACTATTTGCATTCATCAC
1 CAAACACTATCTGCATTCAACAC
43621104 CAAACACT
1 CAAACACT
43621112 TCCACAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.39, C:0.31, G:0.04, T:0.26
Consensus pattern (23 bp):
CAAACACTATCTGCATTCAACAC
Found at i:43628787 original size:22 final size:24
Alignment explanation
Indices: 43628762--43628811 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
43628752 GACCTATCGG
43628762 ATAATTTA-C-AAT-TAATATACAA
1 ATAATTTATCAAATATAATATA-AA
43628784 ATAA-TTATCAAATATAATATAAA
1 ATAATTTATCAAATATAATATAAA
43628807 ATAAT
1 ATAAT
43628812 CTTAAAGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 9 0.38
24 7 0.29
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (24 bp):
ATAATTTATCAAATATAATATAAA
Found at i:43630189 original size:31 final size:31
Alignment explanation
Indices: 43630147--43630444 Score: 424
Period size: 31 Copynumber: 9.7 Consensus size: 31
43630137 ATCTAATGCT
*
43630147 CAAATC-AATTCGGCAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
43630177 CGAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
43630208 CAAATC-AATTCGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
43630238 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
43630269 CAAATC-AACTCGGCAATGTATATTCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
43630299 AAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
43630330 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
43630360 CAAATCAAATTTGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
43630391 CAAATCAAATTCGACAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
43630422 CAATTCAAATTCGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
43630445 AAACATATAC
Statistics
Matches: 238, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
30 88 0.37
31 150 0.63
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:43630244 original size:61 final size:61
Alignment explanation
Indices: 43630147--43630455 Score: 465
Period size: 61 Copynumber: 5.0 Consensus size: 61
43630137 ATCTAATGCT
* * * *
43630147 CAAATCAATTCGGCAATATATATCCATATACGAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
*
43630208 CAAATCAATTCGGCAATGAATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
* * *
43630269 CAAATCAACTCGGCAATGTATATTCATATAAAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
* *
43630330 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTTGACAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
* * * * *
43630391 CAAATCAAATTCGACAATGTATATCTATAAACAATTCAAATTCGGCAATGTATAAAACATATA
1 CAAATC-AATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTAT-AACCATATA
43630454 CA
1 CA
43630456 TTTAAATTCA
Statistics
Matches: 225, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
61 175 0.78
62 40 0.18
63 10 0.04
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.28
Consensus pattern (61 bp):
CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
Found at i:43636513 original size:7 final size:7
Alignment explanation
Indices: 43636501--43636538 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
43636491 CTCGGGGAAA
43636501 TTTATTT
1 TTTATTT
43636508 TTTATTT
1 TTTATTT
43636515 TTTATTT
1 TTTATTT
43636522 TTTATTT
1 TTTATTT
43636529 TTTATTT
1 TTTATTT
43636536 TTT
1 TTT
43636539 TGTGTGAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:43637837 original size:61 final size:61
Alignment explanation
Indices: 43637740--43638231 Score: 842
Period size: 61 Copynumber: 8.0 Consensus size: 61
43637730 ATACAATGCT
* * * *
43637740 CAAATCAATTCGGCAATATATATCCATATACGAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
* *
43637801 CAAATCAATTCAGCAATGAATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
*
43637862 CAAATCAATTCGGCAATGTATATCCATATACAAATAAAATTCGGCAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
43637923 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
43637984 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
*
43638045 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCCGCAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
43638106 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
* * * *
43638167 CAAATCAAATTTGGCAATGTATATCTATA-AAAAATTCAAATTCGGCAATGTATAAAACATATA
1 CAAATC-AATTCGGCAATGTATATCCATATACAAA-TCAAATTCGGCAATGTAT-AACCATATA
43638230 CA
1 CA
43638232 TTTAAATTCA
Statistics
Matches: 412, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
61 364 0.88
62 38 0.09
63 10 0.02
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (61 bp):
CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
Found at i:43638196 original size:37 final size:31
Alignment explanation
Indices: 43637740--43638231 Score: 730
Period size: 31 Copynumber: 16.1 Consensus size: 31
43637730 ATACAATGCT
* *
43637740 CAAATC-AATTCGGCAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
* * *
43637770 CGAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
* * *
43637801 CAAATC-AATTCAGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
43637831 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
*
43637862 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
*
43637892 CAAATAAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
*
43637923 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
43637953 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
*
43637984 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
43638014 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
*
43638045 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
*
43638075 CAAATCAAATTCCGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
*
43638106 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
43638136 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
* * *
43638167 CAAATCAAATTTGGCAATGTATATCTATA-A
1 CAAATCAAATTCGGCAATGTATAACCATATA
* *
43638197 AAAATTCAAATTCGGCAATGTATAAAACATATA
1 CAAA-TCAAATTCGGCAATGTAT-AACCATATA
43638230 CA
1 CA
43638232 TTTAAATTCA
Statistics
Matches: 419, Mismatches: 33, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
30 179 0.43
31 234 0.56
32 4 0.01
33 2 0.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATAACCATATA
Found at i:43640563 original size:42 final size:43
Alignment explanation
Indices: 43640506--43640607 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 43
43640496 TGAGATTTAT
* * *
43640506 GTGTAAGACCATGTCTTGGACATTGGCGTCG-TATATGATTAC
1 GTGTAAGACCATGTCTGGGACAATGGCATCGTTATATGATTAC
* * *
43640548 GTGTAAGACCCTGTCTGGGACAATGGTATCGTTATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAATGGCATCGTTATATGATTAC
* *
43640591 ATGTAAGACCACGTCTG
1 GTGTAAGACCATGTCTG
43640608 AGACGTTGGC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 26 0.52
43 24 0.48
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAATGGCATCGTTATATGATTAC
Found at i:43645463 original size:14 final size:15
Alignment explanation
Indices: 43645443--43645483 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
43645433 TTTGTTTGGC
43645443 AGTAAAATGTTTTC-
1 AGTAAAATGTTTTCT
* *
43645457 CGTAAAATGATTTCT
1 AGTAAAATGTTTTCT
43645472 AG-AAAATGTTTT
1 AGTAAAATGTTTT
43645484 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 21 0.95
15 1 0.05
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (15 bp):
AGTAAAATGTTTTCT
Found at i:43645496 original size:34 final size:35
Alignment explanation
Indices: 43645452--43645518 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43645442 CAGTAAAATG
*
43645452 TTTTCCGTAAAATGATTT-CTAGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
* *
43645486 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
43645519 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:43645577 original size:32 final size:31
Alignment explanation
Indices: 43645499--43645583 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 31
43645489 TCTGTAAAAT
* *
43645499 GATTTACTGGAAAATATTTTCTGGTGTTTGGTA
1 GATTT-CT-GAAAATATTTTCTGCTGTTTGGCA
* * *
43645532 AATCTGTGTAAAATATTTTCTGCTGTTTGGCA
1 GATTTCTG-AAAATATTTTCTGCTGTTTGGCA
43645564 GATTTCCTGAAAATATTTTC
1 GATTT-CTGAAAATATTTTC
43645584 CGGAAAAGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
31 1 0.02
32 36 0.86
33 5 0.12
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (31 bp):
GATTTCTGAAAATATTTTCTGCTGTTTGGCA
Found at i:43645635 original size:14 final size:14
Alignment explanation
Indices: 43645616--43645643 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43645606 ATTTTACATA
43645616 TATTAATATATATT
1 TATTAATATATATT
43645630 TATTAATATATATT
1 TATTAATATATATT
43645644 AATAAATTGT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTAATATATATT
Found at i:43645905 original size:39 final size:39
Alignment explanation
Indices: 43645856--43645977 Score: 116
Period size: 39 Copynumber: 3.3 Consensus size: 39
43645846 TAATTAATGG
43645856 TACACCACATAGTAACAACATTGTCCAAGTGCATAATAT
1 TACACCACATAGTAACAACATTGTCCAAGTGCATAATAT
* * * **
43645895 TACACCACATA-TATCCAA-A---TAC-A-T-AATTAATGG
1 TACACCACATAGTA-ACAACATTGTCCAAGTGCA-TAATAT
*
43645928 TACACCACATAGTAAGAACATTGTCCAAGTGCATAATAT
1 TACACCACATAGTAACAACATTGTCCAAGTGCATAATAT
43645967 TACACCACATA
1 TACACCACATA
43645978 AATGTATCAA
Statistics
Matches: 62, Mismatches: 11, Indels: 20
0.67 0.12 0.22
Matches are distributed among these distances:
32 1 0.02
33 18 0.29
34 4 0.06
35 2 0.03
37 2 0.03
38 4 0.06
39 30 0.48
40 1 0.02
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.25
Consensus pattern (39 bp):
TACACCACATAGTAACAACATTGTCCAAGTGCATAATAT
Found at i:43645951 original size:72 final size:72
Alignment explanation
Indices: 43645834--43645977 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
43645824 ATAATAATAT
43645834 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTGCATAATATTACA
1 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTGCATAATATTACA
43645899 CCACATA
66 CCACATA
*
43645906 TATCCAAATACATAATTAATGGTACACCACATAGTAAGAACATTGTCCAAGTGCATAATATTACA
1 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTGCATAATATTACA
43645971 CCACATA
66 CCACATA
43645978 AATGTATCAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (72 bp):
TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTGCATAATATTACA
CCACATA
Found at i:43648243 original size:17 final size:17
Alignment explanation
Indices: 43648188--43648243 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
43648178 ACTACAAAAA
43648188 GATGCCTGTAATTAGTT
1 GATGCCTGTAATTAGTT
* *
43648205 GATGCGTTTTCAATGCTAGTT
1 GATGC-CTGT-AAT--TAGTT
43648226 GATGCCTGTAATTAGTT
1 GATGCCTGTAATTAGTT
43648243 G
1 G
43648244 GATCTGCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
17 11 0.35
18 2 0.06
19 6 0.19
20 2 0.06
21 10 0.32
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.41
Consensus pattern (17 bp):
GATGCCTGTAATTAGTT
Found at i:43650498 original size:25 final size:25
Alignment explanation
Indices: 43650457--43650554 Score: 80
Period size: 25 Copynumber: 4.1 Consensus size: 25
43650447 AAAATGTCTG
* *
43650457 CTGCTTAGAAG-AGAATGGAAAATGT
1 CTGCTTA-AAGAAAAATGAAAAATGT
43650482 CTGCTTAAAGAAAAATGAAAAATG-
1 CTGCTTAAAGAAAAATGAAAAATGT
** *** *
43650506 -T-CTT-ACCAATTTTGGAAAATGT
1 CTGCTTAAAGAAAAATGAAAAATGT
43650528 CTGCTTAAAGAAAAATGAAAAATGT
1 CTGCTTAAAGAAAAATGAAAAATGT
43650553 CT
1 CT
43650555 TACCAATTTT
Statistics
Matches: 54, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
21 11 0.20
22 3 0.06
23 2 0.04
24 6 0.11
25 32 0.59
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (25 bp):
CTGCTTAAAGAAAAATGAAAAATGT
Found at i:43650522 original size:46 final size:46
Alignment explanation
Indices: 43650472--43650565 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
43650462 TAGAAGAGAA
43650472 TGGAAAATGTCTGCTTAAAGAAAAATGAAAAATGTCTTACCAATTT
1 TGGAAAATGTCTGCTTAAAGAAAAATGAAAAATGTCTTACCAATTT
43650518 TGGAAAATGTCTGCTTAAAGAAAAATGAAAAATGTCTTACCAATTT
1 TGGAAAATGTCTGCTTAAAGAAAAATGAAAAATGTCTTACCAATTT
43650564 TG
1 TG
43650566 AAGCCGTAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.31
Consensus pattern (46 bp):
TGGAAAATGTCTGCTTAAAGAAAAATGAAAAATGTCTTACCAATTT
Found at i:43655765 original size:17 final size:17
Alignment explanation
Indices: 43655743--43655776 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
43655733 GTTAAATAAC
43655743 TTTACACACTTATTTAA
1 TTTACACACTTATTTAA
43655760 TTTACACACTTATTTAA
1 TTTACACACTTATTTAA
43655777 ATATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTACACACTTATTTAA
Found at i:43656526 original size:13 final size:13
Alignment explanation
Indices: 43656508--43656540 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
43656498 ATTGATAAAT
43656508 CCGAAACGGTACA
1 CCGAAACGGTACA
43656521 CCGAAACGGTACA
1 CCGAAACGGTACA
43656534 CCGAAAC
1 CCGAAAC
43656541 AAACAGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.33, G:0.21, T:0.06
Consensus pattern (13 bp):
CCGAAACGGTACA
Done.