Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 119 of 318
Found at i:37556155 original size:27 final size:27
Alignment explanation
Indices: 37556078--37556262 Score: 237
Period size: 27 Copynumber: 6.9 Consensus size: 27
37556068 GGGGTATTTT
*
37556078 GGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
37556105 AGTAATTCTATAAATCAAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
*
37556132 GGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* * *
37556159 GGTAATTCTATAAGTCGAGGGGAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
*
37556186 GGTAATTATGTAAATC-AGGGGTAAAAC
1 GGTAATTCTGTAAATCGA-GGGTAAAAC
* *
37556213 GGTAATTATGTAAATCGGGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
*
37556240 GGTAATTCTGTAAATCGGGGGTA
1 GGTAATTCTGTAAATCGAGGGTA
37556263 CTTTCATAAT
Statistics
Matches: 136, Mismatches: 20, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 135 0.99
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (27 bp):
GGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:37556289 original size:54 final size:53
Alignment explanation
Indices: 37556078--37556289 Score: 166
Period size: 54 Copynumber: 3.9 Consensus size: 53
37556068 GGGGTATTTT
* * *
37556078 GGTAATTTTGTAAATC-GAGGGTAAAAC-AGTAATTCTATAAA-TCAAGGGTAAAAT
1 GGTAATTATGTAAATCAG-GGGTAAAACGA-TAATT-T-TAAAGTCGAGGGTAAAAC
* * * *
37556132 GGTAATTTTGTAAATC-GAGGGTAAAACGGTAATTCTATAAGTCGAGGGGAAAAC
1 GGTAATTATGTAAATCAG-GGGTAAAACGATAATTTTA-AAGTCGAGGGTAAAAC
* *
37556186 GGTAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAA-TCGGGGGTAAAAC
1 GGTAATTATGTAAATCAGGGGTAAAACGATAATT-T-TAAAGTCGAGGGTAAAAC
* * ***
37556240 GGTAATTCTGTAAATCGGGGGTACTTTC-ATAATTTTACAAGTCGAGGGTA
1 GGTAATTATGTAAATCAGGGGTA-AAACGATAATTTTA-AAGTCGAGGGTA
37556290 TTTCAGTAAT
Statistics
Matches: 133, Mismatches: 16, Indels: 18
0.80 0.10 0.11
Matches are distributed among these distances:
52 4 0.03
53 5 0.04
54 118 0.89
55 4 0.03
56 2 0.02
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (53 bp):
GGTAATTATGTAAATCAGGGGTAAAACGATAATTTTAAAGTCGAGGGTAAAAC
Found at i:37557949 original size:18 final size:18
Alignment explanation
Indices: 37557926--37557961 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37557916 AACAGAAACG
*
37557926 TCAAAATAGAAGAAAATA
1 TCAAAATAAAAGAAAATA
*
37557944 TCAAAATAAAATAAAATA
1 TCAAAATAAAAGAAAATA
37557962 AAAACCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (18 bp):
TCAAAATAAAAGAAAATA
Found at i:37562959 original size:42 final size:42
Alignment explanation
Indices: 37562888--37563041 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 42
37562878 ATAAGTTTCC
* * * * *
37562888 ATTTAACCCTAATGGGTTTTAGTTCAGCTCTCTCGAGCTTCA
1 ATTTAACCCTTATGGGTTTCAATTTAGCTCTCTTGAGCTTCA
* *
37562930 ATTTAACCCTTCTGGGTTTCAATTTAGCTCGT-TTGAGCTTTA
1 ATTTAACCCTTATGGGTTTCAATTTAGCTC-TCTTGAGCTTCA
** * *
37562972 GA-TTAACCCTTATGGGTTTCTGTTTAGCTC-CTATTAGCTTCC
1 -ATTTAACCCTTATGGGTTTCAATTTAGCTCTCT-TGAGCTTCA
*
37563014 ATTTAACCCTTACGGGTTTTC-ATTTAGC
1 ATTTAACCCTTATGGG-TTTCAATTTAGC
37563042 ACTTATATGC
Statistics
Matches: 91, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.02
42 83 0.91
43 6 0.07
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.42
Consensus pattern (42 bp):
ATTTAACCCTTATGGGTTTCAATTTAGCTCTCTTGAGCTTCA
Found at i:37571554 original size:30 final size:31
Alignment explanation
Indices: 37571520--37571579 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
37571510 AAACTTTTCA
37571520 TTTTCCCCCT-AAATTTTTACTCCC-TCCCAC
1 TTTT-CCCCTAAAATTTTTACTCCCTTCCCAC
37571550 TTTTCCCCTAAAATTTTTACTCCCTTCCCA
1 TTTTCCCCTAAAATTTTTACTCCCTTCCCA
37571580 TCCCATCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 5 0.18
30 18 0.64
31 5 0.18
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAATTTTTACTCCCTTCCCAC
Found at i:37571583 original size:5 final size:5
Alignment explanation
Indices: 37571570--37571610 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
37571560 AAATTTTTAC
*
37571570 TCCCT TCCCA TCCCA TCCCA TCCCA TCCCA -CCC- TCCCA TCC
1 TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCC
37571611 AACCCCCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
4 6 0.18
5 27 0.82
ACGTcount: A:0.15, C:0.63, G:0.00, T:0.22
Consensus pattern (5 bp):
TCCCA
Found at i:37571621 original size:12 final size:13
Alignment explanation
Indices: 37571575--37571621 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
37571565 TTTACTCCCT
*
37571575 TCCCATCCCATCCC
1 TCCCAT-CCAACCC
*
37571589 ATCCCATCCCACCC
1 -TCCCATCCAACCC
37571603 TCCCATCCAACCC
1 TCCCATCCAACCC
37571616 -CCCATC
1 TCCCATC
37571622 TACCCCAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 6 0.21
13 12 0.41
14 5 0.17
15 6 0.21
ACGTcount: A:0.19, C:0.64, G:0.00, T:0.17
Consensus pattern (13 bp):
TCCCATCCAACCC
Found at i:37572021 original size:38 final size:38
Alignment explanation
Indices: 37571970--37572046 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
37571960 ATACATAATT
37571970 AGAAGATAATTGAAGTGACTAAGTAAGCAAAGAAGCTA
1 AGAAGATAATTGAAGTGACTAAGTAAGCAAAGAAGCTA
37572008 AGAAGATAATTGAAGTGACTAAGTAAGCAAAGAAGCTA
1 AGAAGATAATTGAAGTGACTAAGTAAGCAAAGAAGCTA
37572046 A
1 A
37572047 CTCATATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.51, C:0.08, G:0.23, T:0.18
Consensus pattern (38 bp):
AGAAGATAATTGAAGTGACTAAGTAAGCAAAGAAGCTA
Found at i:37573176 original size:10 final size:10
Alignment explanation
Indices: 37573161--37573210 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
37573151 TAATTTTAGG
37573161 ATTTAT-TTT
1 ATTTATCTTT
37573170 CATTTATCTTT
1 -ATTTATCTTT
*
37573181 AATTATCTTT
1 ATTTATCTTT
37573191 ATTTAT-TTAT
1 ATTTATCTT-T
37573201 ATTTATCTTT
1 ATTTATCTTT
37573211 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:37576965 original size:19 final size:19
Alignment explanation
Indices: 37576914--37576968 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
37576904 GAAACCCAAT
37576914 TTTTATTTATTTTTATTATTA
1 TTTTA-TTA-TTTTATTATTA
37576935 TTCTT-TCT-TTTTATTATTA
1 TT-TTAT-TATTTTATTATTA
37576954 TTTTATTATTTTATT
1 TTTTATTATTTTATT
37576969 TTTTAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
18 3 0.10
19 21 0.70
20 1 0.03
21 3 0.10
22 2 0.07
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATTATTTTATTATTA
Found at i:37578173 original size:96 final size:97
Alignment explanation
Indices: 37578047--37578229 Score: 262
Period size: 96 Copynumber: 1.9 Consensus size: 97
37578037 TTTTTAAGAA
* * *
37578047 TATGTCGGCCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCCCGTCAAAAGGTTCG
1 TATGTCGGCCTGAGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCCCGTCAAAAGGTTCA
*
37578112 ATATGTTCTTAAG-AAAAATAAAAATTAGGAG
66 ATATATTCTTAAGCAAAAATAAAAATTAGGAG
* * * *
37578143 TATGTTGGGCTGAGTAATCGAGGT-AGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTC
1 TATGTCGGCCTGAGTAACCGAGGTGA-GGTGCTTGGCTATCATCTCTCTTCCCGTCAAAAGGTTC
*
37578207 AATATATTCTTAAGCAACAATAA
65 AATATATTCTTAAGCAAAAATAA
37578230 GTAAATAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
95 1 0.01
96 68 0.89
97 7 0.09
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (97 bp):
TATGTCGGCCTGAGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCCCGTCAAAAGGTTCA
ATATATTCTTAAGCAAAAATAAAAATTAGGAG
Found at i:37579650 original size:31 final size:31
Alignment explanation
Indices: 37579578--37579651 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
37579568 CATACTAGGT
* *
37579578 CGAAGCCTTTACATTTTTCATATCACTGGGC
1 CGAAGCCTTTTCATTATTCATATCACTGGGC
37579609 CGAAGCCTTTTCATTATTCATATCACTGGGC
1 CGAAGCCTTTTCATTATTCATATCACTGGGC
37579640 CGAAGCCTTTTC
1 CGAAGCCTTTTC
37579652 TGTAGCAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (31 bp):
CGAAGCCTTTTCATTATTCATATCACTGGGC
Found at i:37579844 original size:24 final size:25
Alignment explanation
Indices: 37579806--37579913 Score: 112
Period size: 24 Copynumber: 4.4 Consensus size: 25
37579796 CTGGAGGCCT
* *
37579806 AGCCTTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
* **
37579830 ATCCCTTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTCAATAAACTGGGGC-AA
37579856 AGCCCTTTTCAATAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
** * *
37579881 AGCCCTTTTCGGT-AATTGGGGCAT
1 AGCCCTTTTCAATAAACTGGGGCAA
37579905 AGCCCTTTT
1 AGCCCTTTT
37579914 GCACTTCCTC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
24 28 0.39
25 22 0.31
26 22 0.31
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:37579861 original size:26 final size:25
Alignment explanation
Indices: 37579806--37579889 Score: 116
Period size: 26 Copynumber: 3.4 Consensus size: 25
37579796 CTGGAGGCCT
*
37579806 AGCCTTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTTAATAAACTGGGGCAA
* *
37579830 ATCCCTTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTTAATAAACTGGGGC-AA
*
37579856 AGCCCTTTTCAATAAACTGGGGCAA
1 AGCCCTTTTTAATAAACTGGGGCAA
37579881 AGCCCTTTT
1 AGCCCTTTT
37579890 CGGTAATTGG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
24 10 0.19
25 20 0.38
26 22 0.42
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (25 bp):
AGCCCTTTTTAATAAACTGGGGCAA
Found at i:37579890 original size:25 final size:24
Alignment explanation
Indices: 37579783--37579913 Score: 109
Period size: 24 Copynumber: 5.2 Consensus size: 24
37579773 AGCATAACTG
**
37579783 CTTTATCATATAACTGGAGGCCTAGCC
1 CTTT-TCA-ATAACTGG-GGCAAAGCC
* * *
37579810 TTTTTTAATAACTGGGGCAAATCC
1 CTTTTCAATAACTGGGGCAAAGCC
**
37579834 CTTTTTGATAAACTGGGGCAAAAGCC
1 CTTTTCAAT-AACTGGGGC-AAAGCC
37579860 CTTTTCAATAAACTGGGGCAAAGCC
1 CTTTTCAAT-AACTGGGGCAAAGCC
** * *
37579885 CTTTTCGGTAATTGGGGCATAGCC
1 CTTTTCAATAACTGGGGCAAAGCC
37579909 CTTTT
1 CTTTT
37579914 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
24 31 0.35
25 30 0.34
26 24 0.27
27 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (24 bp):
CTTTTCAATAACTGGGGCAAAGCC
Found at i:37579977 original size:11 final size:11
Alignment explanation
Indices: 37579961--37580008 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
37579951 TATATGAATT
37579961 TATCATGTGCA
1 TATCATGTGCA
*
37579972 TATCA--TACA
1 TATCATGTGCA
37579981 TATCATGTGCA
1 TATCATGTGCA
37579992 TATCATGT-CA
1 TATCATGTGCA
*
37580002 AATCATG
1 TATCATG
37580009 CATATCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 8 0.25
11 16 0.50
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:37580092 original size:25 final size:25
Alignment explanation
Indices: 37580046--37580093 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
37580036 ATAATTAAAC
* * * *
37580046 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
37580071 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
37580094 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:37583766 original size:51 final size:49
Alignment explanation
Indices: 37583706--37583895 Score: 227
Period size: 51 Copynumber: 3.8 Consensus size: 49
37583696 CTAGGTCGCA
* *
37583706 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT-GGTCACG
* * * *
37583757 TGTGTAGTACTAAGTGCAGACTACTATGTGTATCAAGATAGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCAGATAATT-GGTCACG
* * * * * *
37583808 TGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACG
*
37583857 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
37583896 GTTTGGCTAC
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 39 0.33
50 7 0.06
51 67 0.57
52 5 0.04
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACG
Found at i:37609335 original size:17 final size:17
Alignment explanation
Indices: 37609313--37609373 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
37609303 ACAATAATAT
37609313 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
37609330 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
37609347 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
37609361 AAAATATATATAT
1 AAAATATATATAT
37609374 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:37610492 original size:30 final size:30
Alignment explanation
Indices: 37610427--37610543 Score: 132
Period size: 30 Copynumber: 3.9 Consensus size: 30
37610417 TGTAATTTTT
* *
37610427 AGAAAATTTA-GGGTTAAAATGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
37610456 TA-AAAGTTTAGGGGTCTAAGTGAAATTTAA
1 -AGAAAGTTTAGGGGTCAAAATGAAATTTAA
*
37610486 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
37610515 GGAAAAGTTTAGGGGTCAAAATGTAATTT
1 AG-AAAGTTTAGGGGTCAAAATGAAATTT
37610544 TTATTTTTAA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
29 10 0.14
30 64 0.86
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:37610543 original size:60 final size:59
Alignment explanation
Indices: 37610414--37610543 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 59
37610404 TTCTGGGGAT
** * * *
37610414 AAATGTAATTTTTAGAAAATTTAGGGTTAAAATGAAATTTAATAAAAGTTTAGGGGTCT
1 AAATGTAATTTAAAGAAAATTTAGGGTCAAAATGAAATTTAAGAAAAGTTTAGGGGTCA
* * * *
37610473 AAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTTAGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAAGAAAATTT-AGGGTCAAAATGAAATTTAAGAAAAGTTTAGGGGTCA
37610533 AAATGTAATTT
1 AAATGTAATTT
37610544 TTATTTTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
59 17 0.29
60 42 0.71
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (59 bp):
AAATGTAATTTAAAGAAAATTTAGGGTCAAAATGAAATTTAAGAAAAGTTTAGGGGTCA
Found at i:37612131 original size:106 final size:106
Alignment explanation
Indices: 37611961--37612161 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
37611951 AAGCTTTAAG
*
37611961 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
37612026 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
* *
37612067 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
37612132 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
37612162 GAAAAATTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:37616746 original size:10 final size:10
Alignment explanation
Indices: 37616733--37616766 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
37616723 AATGGATTAT
37616733 AAAAAATTTAA
1 AAAAAATTT-A
37616744 AAAAAATTTA
1 AAAAAATTTA
*
37616754 AAAAATTTTA
1 AAAAAATTTA
37616764 AAA
1 AAA
37616767 GATTAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:37616749 original size:11 final size:11
Alignment explanation
Indices: 37616733--37616758 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37616723 AATGGATTAT
37616733 AAAAAATTTAA
1 AAAAAATTTAA
37616744 AAAAAATTTAA
1 AAAAAATTTAA
37616755 AAAA
1 AAAA
37616759 TTTTAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAAATTTAA
Found at i:37618972 original size:19 final size:20
Alignment explanation
Indices: 37618934--37618974 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
37618924 TAATATATTT
37618934 ATAAATTTAGAAACAATTAA
1 ATAAATTTAGAAACAATTAA
37618954 ATAATATTTA-AAA-AATTAA
1 ATAA-ATTTAGAAACAATTAA
37618973 AT
1 AT
37618975 TTTAAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 7 0.35
21 5 0.25
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
ATAAATTTAGAAACAATTAA
Found at i:37619083 original size:13 final size:14
Alignment explanation
Indices: 37619050--37619083 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
37619040 CTTATATATT
37619050 AAATT-AATTTATA
1 AAATTAAATTTATA
37619063 AAATTAAATTT-TA
1 AAATTAAATTTATA
37619076 AAATTAAA
1 AAATTAAA
37619084 AAAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATTAAATTTATA
Found at i:37619090 original size:17 final size:18
Alignment explanation
Indices: 37619068--37619111 Score: 72
Period size: 17 Copynumber: 2.4 Consensus size: 18
37619058 TTATAAAATT
37619068 AAATTTTAAAAT-TAAAA
1 AAATTTTAAAATATAAAA
37619085 AAATTTTAAAATATAAAA
1 AAATTTTAAAATATAAAA
37619103 ATAATTTTA
1 A-AATTTTA
37619112 TATTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 12 0.48
18 6 0.24
19 7 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTTAAAATATAAAA
Found at i:37619120 original size:19 final size:18
Alignment explanation
Indices: 37619068--37619121 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 18
37619058 TTATAAAATT
37619068 AAATTTTAAAA-TTAAAA
1 AAATTTTAAAATTTAAAA
*
37619085 AAATTTTAAAATATAAAA
1 AAATTTTAAAATTTAAAA
* *
37619103 ATAATTTTATATTTTAAAA
1 A-AATTTTAAAATTTAAAA
37619122 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 11 0.35
18 6 0.19
19 14 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTTTAAAATTTAAAA
Found at i:37619121 original size:26 final size:27
Alignment explanation
Indices: 37619087--37619140 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
37619077 AATTAAAAAA
37619087 ATTTTAAAATATAAAA-ATAATTTTAT
1 ATTTTAAAATATAAAATATAATTTTAT
* *
37619113 ATTTTAAAATTTAAAATTTAATTTTAT
1 ATTTTAAAATATAAAATATAATTTTAT
37619140 A
1 A
37619141 AATTAATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTTAAAATATAAAATATAATTTTAT
Found at i:37619146 original size:27 final size:26
Alignment explanation
Indices: 37619090--37619146 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
37619080 TAAAAAAATT
**
37619090 TTAAAATATAAAAATAATTTTATATT
1 TTAAAATATAAAAATAATTTTATAAA
* *
37619116 TTAAAATTTAAAATTTAATTTTATAAA
1 TTAAAATATAAAA-ATAATTTTATAAA
37619143 TTAA
1 TTAA
37619147 TGTAATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TTAAAATATAAAAATAATTTTATAAA
Found at i:37627912 original size:16 final size:18
Alignment explanation
Indices: 37627876--37627913 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37627866 GACAGATCTA
37627876 AAAATAGAAGAAAGTAAC
1 AAAATAGAAGAAAGTAAC
*
37627894 AAAATAGATG-AAG-AAC
1 AAAATAGAAGAAAGTAAC
37627910 AAAA
1 AAAA
37627914 GAACAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 9 0.47
ACGTcount: A:0.68, C:0.05, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAATAGAAGAAAGTAAC
Found at i:37637850 original size:28 final size:27
Alignment explanation
Indices: 37637818--37637884 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
37637808 ATTTTTTTCT
*
37637818 TTTCTTTTTCCTTCTCTTTTTTTCTCCC
1 TTTCTTTTTCCTTAT-TTTTTTTCTCCC
* ***
37637846 TTTCTTTCTTCTTTATTTTTTTTCTTTT
1 TTTCTTT-TTCCTTATTTTTTTTCTCCC
37637874 TTTCTTTTTCC
1 TTTCTTTTTCC
37637885 CTCTTTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 3 0.09
28 23 0.72
29 6 0.19
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTCTTTTTCCTTATTTTTTTTCTCCC
Found at i:37637872 original size:13 final size:14
Alignment explanation
Indices: 37637846--37637883 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
37637836 TTTTTCTCCC
37637846 TTTCTTTCTTCTTTA
1 TTTCTTT-TTCTTTA
*
37637861 TTT-TTTTTCTTTT
1 TTTCTTTTTCTTTA
37637874 TTTCTTTTTC
1 TTTCTTTTTC
37637884 CCTCTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 9 0.43
14 9 0.43
15 3 0.14
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTCTTTTTCTTTA
Found at i:37647068 original size:17 final size:17
Alignment explanation
Indices: 37647046--37647086 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
37647036 CAGAAAAATG
37647046 GGCCCACATGCCCATGT
1 GGCCCACATGCCCATGT
37647063 GGCCCACATGCCCATGT
1 GGCCCACATGCCCATGT
37647080 GGCCCAC
1 GGCCCAC
37647087 GAGCCTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.44, G:0.24, T:0.15
Consensus pattern (17 bp):
GGCCCACATGCCCATGT
Found at i:37648569 original size:27 final size:26
Alignment explanation
Indices: 37648539--37648600 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
37648529 AGATAATTAA
37648539 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
37648566 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
37648593 AATAAAAT
1 AATAAAAT
37648601 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:37649842 original size:13 final size:13
Alignment explanation
Indices: 37649824--37649850 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37649814 GAAGCTATCG
37649824 CACATGGGCGTGT
1 CACATGGGCGTGT
37649837 CACATGGGCGTGT
1 CACATGGGCGTGT
37649850 C
1 C
37649851 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (13 bp):
CACATGGGCGTGT
Found at i:37657141 original size:22 final size:22
Alignment explanation
Indices: 37657116--37657158 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
37657106 TATCCAAACA
37657116 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
37657138 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
37657159 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:37659448 original size:18 final size:18
Alignment explanation
Indices: 37659425--37659459 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37659415 AAATGAGAAA
37659425 AATTAAT-GGATAATAAAT
1 AATTAATAGGA-AATAAAT
37659443 AATTAATAGGAAATAAA
1 AATTAATAGGAAATAAA
37659460 AATCATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
AATTAATAGGAAATAAAT
Found at i:37666163 original size:21 final size:21
Alignment explanation
Indices: 37666139--37666193 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
37666129 ATAGCCTGTG
37666139 ACACGGGCATGTGCCTTGACC
1 ACACGGGCATGTGCCTTGACC
37666160 ACACGGGCATGTGCCTTGACC
1 ACACGGGCATGTGCCTTGACC
*
37666181 ACACGGGCGTGTG
1 ACACGGGCATGTG
37666194 TGCCCTGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (21 bp):
ACACGGGCATGTGCCTTGACC
Found at i:37677947 original size:13 final size:13
Alignment explanation
Indices: 37677929--37677954 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37677919 AATAAAGAAT
37677929 GTGGAGGTGTTTG
1 GTGGAGGTGTTTG
37677942 GTGGAGGTGTTTG
1 GTGGAGGTGTTTG
37677955 AATTCCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.54, T:0.38
Consensus pattern (13 bp):
GTGGAGGTGTTTG
Found at i:37678241 original size:30 final size:30
Alignment explanation
Indices: 37678207--37678265 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
37678197 TTGAGCCTAG
*
37678207 TGATTGTGTGGGTACTGTTGATGGGCCCGA
1 TGATTGTGTAGGTACTGTTGATGGGCCCGA
**
37678237 TGATTGTGTAGGTGTTGTTGATGGGCCCG
1 TGATTGTGTAGGTACTGTTGATGGGCCCG
37678266 TCCCATCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.12, G:0.41, T:0.36
Consensus pattern (30 bp):
TGATTGTGTAGGTACTGTTGATGGGCCCGA
Found at i:37678772 original size:7 final size:7
Alignment explanation
Indices: 37678762--37678793 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
37678752 TTATATACAT
37678762 AATACTA
1 AATACTA
37678769 AATACTA
1 AATACTA
37678776 AATACTA
1 AATACTA
*
37678783 AGTACTA
1 AATACTA
37678790 AATA
1 AATA
37678794 TGAAACGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:37695831 original size:3 final size:3
Alignment explanation
Indices: 37695785--37695819 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
37695775 AACATAAACA
37695785 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
37695820 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:37697447 original size:44 final size:44
Alignment explanation
Indices: 37697397--37697546 Score: 149
Period size: 44 Copynumber: 3.4 Consensus size: 44
37697387 ACCTACTCTG
*
37697397 CTGTAACCTCAGAGAGATAAGCTCCTTTATTTTAATCCATTCCA
1 CTGTAACCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCA
* * * ** * * ** *** *
37697441 CTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCA
*
37697484 CTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCA
1 CTGTAACCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCA
*
37697528 CTGTAACTTCAGGGAGATA
1 CTGTAACCTCAGGGAGATA
37697547 GGATAGTGTC
Statistics
Matches: 75, Mismatches: 30, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
43 29 0.39
44 46 0.61
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (44 bp):
CTGTAACCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCA
Found at i:37697502 original size:87 final size:87
Alignment explanation
Indices: 37697396--37697588 Score: 368
Period size: 87 Copynumber: 2.2 Consensus size: 87
37697386 GACCTACTCT
* *
37697396 GCTGTAACCTCAGAGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
37697461 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
37697483 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
37697548 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
37697570 GCTGTAATCTCAGGGAGAT
1 GCTGTAATCTCAGGGAGAT
37697589 GAGATCTCTG
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 104 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (87 bp):
GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
GATAGTGTCTTCGATCTGCTCC
Found at i:37697615 original size:87 final size:87
Alignment explanation
Indices: 37697396--37697682 Score: 308
Period size: 87 Copynumber: 3.3 Consensus size: 87
37697386 GACCTACTCT
* * * * * * *
37697396 GCTGTAACCTCAGAGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGATCCTTGACTTCAATCCACTCCACTGTAACTTCAGGGAGATAG
37697461 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
* * * * *
37697483 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGATCCTTGACTTCAATCCACTCCACTGTAACTTCAGGGAGATAG
37697548 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
* * ** *
37697570 GCTGTAATCTCAGGGAGATGAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCCT-TGACTTCAATCCACTCCACTGTAACTTCAGGGAGATA
* * * * *
37697634 AGAT-CTGAAATTCTTTGGTCTGTTCC
65 GGATAGTG----TCTTCGATCTGCTCC
*
37697660 ACTGTAATCTCAGGGAGATAAGA
1 GCTGTAATCTCAGGGAGATAAGA
37697683 CCTGATGTGA
Statistics
Matches: 176, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
86 4 0.02
87 139 0.79
90 33 0.19
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (87 bp):
GCTGTAATCTCAGGGAGATAAGATCCTTGACTTCAATCCACTCCACTGTAACTTCAGGGAGATAG
GATAGTGTCTTCGATCTGCTCC
Found at i:37697674 original size:46 final size:45
Alignment explanation
Indices: 37697468--37697852 Score: 227
Period size: 44 Copynumber: 8.8 Consensus size: 45
37697458 TAGGATAGTG
* * * **
37697468 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGCTCCTTTA-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAT
* *** * *
37697513 T-TTTAATCCATTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * *
37697554 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATGAGATCT--CT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
37697598 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
37697645 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
37697688 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGAT---A-C-G-AT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * * *
37697725 CCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
*
37697768 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
37697815 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
37697853 CCTGTAGATA
Statistics
Matches: 257, Mismatches: 58, Indels: 49
0.71 0.16 0.13
Matches are distributed among these distances:
36 2 0.01
37 1 0.00
38 1 0.00
39 22 0.09
40 2 0.01
41 25 0.10
42 2 0.01
43 28 0.11
44 98 0.38
45 3 0.01
46 70 0.27
47 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:37699161 original size:682 final size:682
Alignment explanation
Indices: 37697856--37699910 Score: 4065
Period size: 682 Copynumber: 3.0 Consensus size: 682
37697846 GATAAGACCT
37697856 GTAGATATGTTGGCGAGATCCACACACGAACTGCCTACAATTGGATTACTACCACATCAATCTAA
1 GTAGATATGTTGGCGAGATCCACACACGAACTGCCTACAATTGGATTACTACCACATCAATCTAA
37697921 ATATCAAAAACAAACTACTTATTTAACCTCTTACCATACTCGTCCAACACAGCCTTAGATCCCAG
66 ATATCAAAAACAAACTACTTATTTAACCTCTTACCATACTCGTCCAACACAGCCTTAGATCCCAG
37697986 AGTTTTTTTTTTACCTTTTGCCGAAATATGGGTTAGATCTGAAGAGCCAACCGAATTAGTCTTCA
131 AGTTTTTTTTTTACCTTTTGCCGAAATATGGGTTAGATCTGAAGAGCCAACCGAATTAGTCTTCA
*
37698051 AGCCCTTCGTTGTACGTCCTCTTGTCCTCTTGTCTATGCTAACTCTTACAGAATCAAAAGAAAAA
196 AGCCCTTCGTTGTACGTCCTCTTGTCCTCTTGTCTATGCTAACTCTTACACAATCAAAAGAAAAA
37698116 AAACACCAACACCCTTAGTCCAAACGTTAGCCACCCTTAAGGGGTTTCGGCTTTTATCTTAAACC
261 AAACACCAACACCCTTAGTCCAAACGTTAGCCACCCTTAAGGGGTTTCGGCTTTTATCTTAAACC
*
37698181 ATGAATAACTAACACAAGTGATTCGAATACTTACCAATCGTTGTTCTACCCAAGAGAGTGCTCTT
326 ATGAATAACTAACACAAGTGATTCGAATACTTACCAATCGTTGTTCTGCCCAAGAGAGTGCTCTT
37698246 ATCTATGATTCTAATCCCGATCTACCATAGTCAGAAGAGACAAGTTCAAGTAGCCAATGATTCGG
391 ATCTATGATTCTAATCCCGATCTACCATAGTCAGAAGAGACAAGTTCAAGTAGCCAATGATTCGG
37698311 CTTCCTACACCCCAGATATGAAGGTTTTCGGCTTTTGAAAGAAAAAGAGAAAAGGATAGAGATTC
456 CTTCCTACACCCCAGATATGAAGGTTTTCGGCTTTTGAAAGAAAAAGAGAAAAGGATAGAGATTC
37698376 GGCTATAGCAAGATTCAGCTTTTTGAGAAATAATGAAGAAAGGAAAATAAGGGAAAAGATAGAAA
521 GGCTATAGCAAGATTCAGCTTTTTGAGAAATAATGAAGAAAGGAAAATAAGGGAAAAGATAGAAA
*
37698441 GAAAGTAGTATGGGTTTGGCTATGGAGAAAAGAAAATATGAATGCAAGAGAGGGGAGAAGAGAGG
586 GAAAGGAGTATGGGTTTGGCTATGGAGAAAAGAAAATATGAATGCAAGAGAGGGGAGAAGAGAGG
37698506 AGAAACAATGAAGGTCGATCTCAAAAATAACC
651 AGAAACAATGAAGGTCGATCTCAAAAATAACC
37698538 GTAGATATGTTGGCGAGATCCACACACGAACTGCCTACAATTGGATTACTACCACATCAATCTAA
1 GTAGATATGTTGGCGAGATCCACACACGAACTGCCTACAATTGGATTACTACCACATCAATCTAA
37698603 ATATCAAAAACAAACTACTTATTTAACCTCTTACCATACTCGTCCAACACAGCCTTAGATCCCAG
66 ATATCAAAAACAAACTACTTATTTAACCTCTTACCATACTCGTCCAACACAGCCTTAGATCCCAG
37698668 AGTTTTTTTTTTACCTTTTGCCGAAATATGGGTTAGATCTGAAGAGCCAACCGAATTAGTCTTCA
131 AGTTTTTTTTTTACCTTTTGCCGAAATATGGGTTAGATCTGAAGAGCCAACCGAATTAGTCTTCA
37698733 AGCCCTTCGTTGTACGTCCTCTTGTCCTCTTGTCTATGCTAACTCTTACACAATCAAAAGAAAAA
196 AGCCCTTCGTTGTACGTCCTCTTGTCCTCTTGTCTATGCTAACTCTTACACAATCAAAAGAAAAA
37698798 AAACACCAACACCCTTAGTCCAAACGTTAGCCACCCTTAAGGGGTTTCGGCTTTTATCTTAAACC
261 AAACACCAACACCCTTAGTCCAAACGTTAGCCACCCTTAAGGGGTTTCGGCTTTTATCTTAAACC
37698863 ATGAATAACTAACACAAGTGATTCGAATACTTACCAATCGTTGTTCTGCCCAAGAGAGTGCTCTT
326 ATGAATAACTAACACAAGTGATTCGAATACTTACCAATCGTTGTTCTGCCCAAGAGAGTGCTCTT
37698928 ATCTATGATTCTAATCCCGATCTACCATAGTCAGAAGAGACAAGTTCAAGTAGCCAATGATTCGG
391 ATCTATGATTCTAATCCCGATCTACCATAGTCAGAAGAGACAAGTTCAAGTAGCCAATGATTCGG
37698993 CTTCCTACACCCCAGATATGAAGGTTTTCGGCTTTTGAAAGAAAAAGAGAAAAGGATAGAGATTC
456 CTTCCTACACCCCAGATATGAAGGTTTTCGGCTTTTGAAAGAAAAAGAGAAAAGGATAGAGATTC
37699058 GGCTATAGCAAGATTCAGCTTTTTGAGAAATAATGAAGAAAGGAAAATAAGGGAAAAGATAGAAA
521 GGCTATAGCAAGATTCAGCTTTTTGAGAAATAATGAAGAAAGGAAAATAAGGGAAAAGATAGAAA
37699123 GAAAGGAGTATGGGTTTGGCTATGGAGAAAAGAAAATATGAATGCAAGAGAGGGGAGAAGAGAGG
586 GAAAGGAGTATGGGTTTGGCTATGGAGAAAAGAAAATATGAATGCAAGAGAGGGGAGAAGAGAGG
37699188 AGAAACAATGAAGGTCGATCTCAAAAATAACC
651 AGAAACAATGAAGGTCGATCTCAAAAATAACC
37699220 GTAGATATGTTGGCGAGATCCACACACGAACTGCCTACAATTGGATTACTACCACATCAATCTAA
1 GTAGATATGTTGGCGAGATCCACACACGAACTGCCTACAATTGGATTACTACCACATCAATCTAA
*
37699285 ATATAAAAAACAAACTACTTATTTAACCTCTTACCATACTCGTCCAACACAGCCTTAGATCCCAG
66 ATATCAAAAACAAACTACTTATTTAACCTCTTACCATACTCGTCCAACACAGCCTTAGATCCCAG
37699350 AGTTTTTTTTTTACCTTTTGCCGAAATATGGGTTAGATCTGAAGAGCCAACCGAATTAGTCTTCA
131 AGTTTTTTTTTTACCTTTTGCCGAAATATGGGTTAGATCTGAAGAGCCAACCGAATTAGTCTTCA
37699415 AGCCCTTCGTTGTACGTCCTCTTGTCCTCTTGTCTATGCTAACTCTTACACAATCAAAAGAAAAA
196 AGCCCTTCGTTGTACGTCCTCTTGTCCTCTTGTCTATGCTAACTCTTACACAATCAAAAGAAAAA
37699480 AAACACCAACACCCTTAGTCCAAACGTTAGCCACCCTTAAGGGGTTTCGGCTTTTATCTTAAACC
261 AAACACCAACACCCTTAGTCCAAACGTTAGCCACCCTTAAGGGGTTTCGGCTTTTATCTTAAACC
37699545 ATGAATAACTAACACAAGTGATTCGAATACTTACCAATCGTTGTTCTGCCCAAGAGAGTGCTCTT
326 ATGAATAACTAACACAAGTGATTCGAATACTTACCAATCGTTGTTCTGCCCAAGAGAGTGCTCTT
37699610 ATCTATGATTCTAATCCCGATCTACCATAGTCAGAAGAGACAAGTTCAAGTAGCCAATGATTCGG
391 ATCTATGATTCTAATCCCGATCTACCATAGTCAGAAGAGACAAGTTCAAGTAGCCAATGATTCGG
*
37699675 CTTCCTACACCCCAGATATGAAGGTTTTCGGCTTTTGAAAGAAAAAGGGAAAAGGATAGAGATTC
456 CTTCCTACACCCCAGATATGAAGGTTTTCGGCTTTTGAAAGAAAAAGAGAAAAGGATAGAGATTC
37699740 GGCTATAGCAAGATTCAGCTTTTTGAGAAATAATGAAGAAAGGAAAATAAGGGAAAAGATAGAAA
521 GGCTATAGCAAGATTCAGCTTTTTGAGAAATAATGAAGAAAGGAAAATAAGGGAAAAGATAGAAA
37699805 GAAAGGAGTATGGGTTTGGCTATGGAGAAAAGAAAATATGAATGCAAGAGAGGGGAGAAGAGAGG
586 GAAAGGAGTATGGGTTTGGCTATGGAGAAAAGAAAATATGAATGCAAGAGAGGGGAGAAGAGAGG
37699870 AGAAACAATGAAGGTCGATCTCAAAAATAACC
651 AGAAACAATGAAGGTCGATCTCAAAAATAACC
37699902 GTAGATATG
1 GTAGATATG
37699911 AATGGCCCCA
Statistics
Matches: 1368, Mismatches: 5, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
682 1368 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (682 bp):
GTAGATATGTTGGCGAGATCCACACACGAACTGCCTACAATTGGATTACTACCACATCAATCTAA
ATATCAAAAACAAACTACTTATTTAACCTCTTACCATACTCGTCCAACACAGCCTTAGATCCCAG
AGTTTTTTTTTTACCTTTTGCCGAAATATGGGTTAGATCTGAAGAGCCAACCGAATTAGTCTTCA
AGCCCTTCGTTGTACGTCCTCTTGTCCTCTTGTCTATGCTAACTCTTACACAATCAAAAGAAAAA
AAACACCAACACCCTTAGTCCAAACGTTAGCCACCCTTAAGGGGTTTCGGCTTTTATCTTAAACC
ATGAATAACTAACACAAGTGATTCGAATACTTACCAATCGTTGTTCTGCCCAAGAGAGTGCTCTT
ATCTATGATTCTAATCCCGATCTACCATAGTCAGAAGAGACAAGTTCAAGTAGCCAATGATTCGG
CTTCCTACACCCCAGATATGAAGGTTTTCGGCTTTTGAAAGAAAAAGAGAAAAGGATAGAGATTC
GGCTATAGCAAGATTCAGCTTTTTGAGAAATAATGAAGAAAGGAAAATAAGGGAAAAGATAGAAA
GAAAGGAGTATGGGTTTGGCTATGGAGAAAAGAAAATATGAATGCAAGAGAGGGGAGAAGAGAGG
AGAAACAATGAAGGTCGATCTCAAAAATAACC
Found at i:37703250 original size:10 final size:10
Alignment explanation
Indices: 37703237--37703281 Score: 63
Period size: 11 Copynumber: 4.3 Consensus size: 10
37703227 ATTTTTATGT
37703237 AAAATTATAA
1 AAAATTATAA
*
37703247 AAAATTCAAAA
1 AAAATT-ATAA
37703258 AAAATTATTAA
1 AAAATTA-TAA
37703269 AAAATTATAA
1 AAAATTATAA
37703279 AAA
1 AAA
37703282 TACAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 13 0.42
11 18 0.58
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATTATAA
Found at i:37703261 original size:11 final size:10
Alignment explanation
Indices: 37703237--37703301 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 10
37703227 ATTTTTATGT
*
37703237 AAAATTATAA
1 AAAATTAAAA
37703247 AAAATTCAAAA
1 AAAATT-AAAA
*
37703258 AAAATTATTAA
1 AAAATTA-AAA
*
37703269 AAAATT-ATA
1 AAAATTAAAA
*
37703278 AAAATACAAAA
1 AAAAT-TAAAA
37703289 AAAAGTTAAAA
1 AAAA-TTAAAA
37703300 AA
1 AA
37703302 TTAAAAACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 6 0.14
10 7 0.16
11 29 0.67
12 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:37703394 original size:6 final size:7
Alignment explanation
Indices: 37703375--37703400 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37703365 CATACTAAAG
37703375 TATTTTT
1 TATTTTT
37703382 TATTTTT
1 TATTTTT
37703389 TATTTTT
1 TATTTTT
37703396 TATTT
1 TATTT
37703401 CTTCTTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:37707967 original size:3 final size:3
Alignment explanation
Indices: 37707950--37708048 Score: 119
Period size: 3 Copynumber: 32.7 Consensus size: 3
37707940 TGCAAAAGCA
* *
37707950 AAG AGAG AA- AAG AAG AAG AAG AAG AAG AAA AAA AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * *
37707995 AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG GAG AAG GAG GAG AAAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AAG
37708044 AAG AA
1 AAG AA
37708049 AAAAATGTTA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.02
3 78 0.92
4 5 0.06
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37707984 original size:24 final size:24
Alignment explanation
Indices: 37707957--37708026 Score: 131
Period size: 24 Copynumber: 2.9 Consensus size: 24
37707947 GCAAAGAGAG
37707957 AAAAGAAGAAGAAGAAGAAGAAAA
1 AAAAGAAGAAGAAGAAGAAGAAAA
37707981 AAAAGAAGAAGAAGAAGAAGAAAA
1 AAAAGAAGAAGAAGAAGAAGAAAA
*
37708005 AGAAGAAGAAGAAGAAGAAGAA
1 AAAAGAAGAAGAAGAAGAAGAA
37708027 GGAGAAGGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (24 bp):
AAAAGAAGAAGAAGAAGAAGAAAA
Found at i:37709137 original size:11 final size:11
Alignment explanation
Indices: 37709102--37709129 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
37709092 GAGAGTAAGA
37709102 AATTTTAATGT
1 AATTTTAATGT
37709113 AATTTTAATGT
1 AATTTTAATGT
37709124 AATTTT
1 AATTTT
37709130 GATATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
AATTTTAATGT
Found at i:37710753 original size:6 final size:6
Alignment explanation
Indices: 37710742--37710771 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
37710732 TGCACCAACT
37710742 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
37710772 GCAGTGCCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:37714268 original size:19 final size:18
Alignment explanation
Indices: 37714246--37714285 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
37714236 AAAATATAAT
37714246 AAAATAATAATATTTAAAA
1 AAAATAATAATA-TTAAAA
* *
37714265 AAAATTATATTATTAAAA
1 AAAATAATAATATTAAAA
37714283 AAA
1 AAA
37714286 TGGGTCGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATAATAATATTAAAA
Found at i:37715341 original size:3 final size:3
Alignment explanation
Indices: 37715333--37715358 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37715323 ATTCAATACC
37715333 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
37715359 GATGATGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:37716005 original size:17 final size:19
Alignment explanation
Indices: 37715971--37716008 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
37715961 AAACCTTTAA
37715971 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
37715990 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
37716007 TT
1 TT
37716009 CCTTCCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:37718493 original size:42 final size:41
Alignment explanation
Indices: 37718415--37718558 Score: 166
Period size: 42 Copynumber: 3.4 Consensus size: 41
37718405 CCAGACGTAA
*
37718415 TCTTACATGTAATCAAATAACGATGCCACTGTCCCAGACAGGG
1 TCTTACATGAAATCAAAT-ACGATGCCA-TGTCCCAGACAGGG
*
37718458 TCTTACATGAAATCAAATACGATGCCGATGTCCCAGACACGG
1 TCTTACATGAAATCAAATACGATGCC-ATGTCCCAGACAGGG
* *
37718500 TCTTACACGTAAATTTCAAAT-CGATGCCAACGTCCCAGAC-GTGG
1 TCTTACATG-AAA--TCAAATACGATGCC-ATGTCCCAGACAG-GG
37718544 TCTTACATGAAATCA
1 TCTTACATGAAATCA
37718559 CATATCAGAA
Statistics
Matches: 89, Mismatches: 7, Indels: 12
0.82 0.06 0.11
Matches are distributed among these distances:
41 3 0.03
42 29 0.33
43 24 0.27
44 27 0.30
45 6 0.07
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (41 bp):
TCTTACATGAAATCAAATACGATGCCATGTCCCAGACAGGG
Found at i:37724341 original size:3 final size:3
Alignment explanation
Indices: 37724333--37724357 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37724323 GCGCAAGACA
37724333 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
37724358 TATTCGTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37724591 original size:13 final size:13
Alignment explanation
Indices: 37724575--37724600 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37724565 ATTTTCCTTA
37724575 ATATTTATTTATT
1 ATATTTATTTATT
37724588 ATATTTATTTATT
1 ATATTTATTTATT
37724601 TATCCCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTATTTATT
Found at i:37731361 original size:42 final size:42
Alignment explanation
Indices: 37731302--37731450 Score: 181
Period size: 42 Copynumber: 3.5 Consensus size: 42
37731292 GCGAATCTTG
37731302 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
* ** * ** * * *
37731344 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCAC-CATCCTA
*
37731388 TCTCCCTAAGCAGTAATGGAGCAGATTTAAGCCACCATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
*
37731430 TCTCCTTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAG
37731451 TAGGCTGAAG
Statistics
Matches: 84, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
42 50 0.60
43 4 0.05
44 30 0.36
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (42 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
Found at i:37731364 original size:86 final size:86
Alignment explanation
Indices: 37731262--37731540 Score: 371
Period size: 86 Copynumber: 3.2 Consensus size: 86
37731252 ATCATGTCTT
* * **
37731262 CTTAAGCAGTAGTGGAGCAGGTTGAATACGGC-GAATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
1 CTTAAGCAGTAGTGGAGCAGGCTGAAGATTGCAG-ATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
37731326 ATTTAAGCCACCATCCTATCTC
65 ATTTAAGCCACCATCCTATCTC
* * * *
37731348 CCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAATGGAGCAGA
1 CTTAAGCAGTAGTGGAGCAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
37731413 TTTAAGCCACCATCCTATCTC
66 TTTAAGCCACCATCCTATCTC
* * * * *
37731434 CTTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCTCTAAGCAGTAGTAGAGCAGG
1 CTTAAGCAGTAGTGGAGCAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
** *
37731499 TTTAAGCCACGGTCCTATCTT
66 TTTAAGCCACCATCCTATCTC
* * *
37731520 CTTGAGTAGCAGTGGAGCAGG
1 CTTAAGCAGTAGTGGAGCAGG
37731541 TTAAAATCAA
Statistics
Matches: 170, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 169 0.99
87 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (86 bp):
CTTAAGCAGTAGTGGAGCAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
TTTAAGCCACCATCCTATCTC
Found at i:37731408 original size:44 final size:44
Alignment explanation
Indices: 37731344--37731490 Score: 154
Period size: 44 Copynumber: 3.4 Consensus size: 44
37731334 CACCATCCTA
37731344 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
* * ** * ** * * *
37731388 TCTCCCTAAGCAGTAATGGAGCAGATTTAAG-CCAC-CATCCTA
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
* **
37731430 TCTCCTTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
*
37731474 TCTCTCTAAGCAGTAGT
1 TCTCCCTAAGCAGTAGT
37731491 AGAGCAGGTT
Statistics
Matches: 76, Mismatches: 25, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
42 29 0.38
43 2 0.03
44 45 0.59
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
Found at i:37731709 original size:88 final size:88
Alignment explanation
Indices: 37731550--37731966 Score: 557
Period size: 88 Copynumber: 4.8 Consensus size: 88
37731540 GTTAAAATCA
* * * * *
37731550 ACAATTCTTATCTCCTTGAAATTCTAGCGGAGTAGGTCGAAGTTACAAATCTCTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * * *
37731615 TTGTATTGGATCAGCTCGAAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
* * * * *
37731638 ACAATTCGTCTCTCCTTGAAGTTCCAGCGGAGTAGATTGAAGTTACAAATCTCTTATCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
37731703 TGGTATTGGAGCGGCTCAAAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
*
37731726 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCTCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
37731791 TGGCAATGGAGCGGCTCGAAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
* * * * * * *
37731814 ATAATTCATATCTCTTTGAAGTTCCAGCGAAGTAGATCGAAACTACAAATCTCTTCCCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
37731879 TGGCATTGAAGCGGCTCGTAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
* * *
37731902 ACAATTCGTATCTCCTTGAAGTTTTAGC-GAGTAGATCGAAGCTAGAAATCTCTTCTTCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
37731966 T
66 T
37731967 TACAATGGAA
Statistics
Matches: 287, Mismatches: 42, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
87 32 0.11
88 255 0.89
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (88 bp):
ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGGCATTGGAGCGGCTCGAAGCC
Found at i:37734297 original size:3 final size:3
Alignment explanation
Indices: 37734289--37734313 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37734279 GCGCAAGACA
37734289 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
37734314 TATTCGTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37734406 original size:3 final size:3
Alignment explanation
Indices: 37734398--37734429 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
37734388 TTTATTTCTC
*
37734398 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
37734430 CATTGTCGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:37734551 original size:13 final size:13
Alignment explanation
Indices: 37734535--37734560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37734525 ATTTTCCTTA
37734535 ATATTTATTTATT
1 ATATTTATTTATT
37734548 ATATTTATTTATT
1 ATATTTATTTATT
37734561 TATCCCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTATTTATT
Found at i:37734590 original size:3 final size:3
Alignment explanation
Indices: 37734582--37734612 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
37734572 TCACATACAC
37734582 ATT ATT ATT ATT ATT ATT ATT ATT AATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
37734613 TGTTTACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:37746065 original size:59 final size:59
Alignment explanation
Indices: 37745973--37746092 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
37745963 GTGGAGGAGA
* * *
37745973 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTTAAAACAGGCTTGTTGCTTTAAGC
1 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTCAAAACACGCTTATTGCTTTAAGC
37746032 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTCAAAACACGCTTATTGCTTTAAGC
1 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTCAAAACACGCTTATTGCTTTAAGC
37746091 CT
1 CT
37746093 AGAAGCAACA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (59 bp):
CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTCAAAACACGCTTATTGCTTTAAGC
Found at i:37747094 original size:6 final size:6
Alignment explanation
Indices: 37747078--37747112 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
37747068 GCGCTATATT
* *
37747078 GCAAAG CCAAAG GCAAAG GCAAAG CCAAAG GCAAA
1 GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG GCAAA
37747113 AAAAAAAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.51, C:0.23, G:0.26, T:0.00
Consensus pattern (6 bp):
GCAAAG
Found at i:37747101 original size:18 final size:18
Alignment explanation
Indices: 37747078--37747112 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
37747068 GCGCTATATT
37747078 GCAAAGCCAAAGGCAAAG
1 GCAAAGCCAAAGGCAAAG
37747096 GCAAAGCCAAAGGCAAA
1 GCAAAGCCAAAGGCAAA
37747113 AAAAAAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.23, G:0.26, T:0.00
Consensus pattern (18 bp):
GCAAAGCCAAAGGCAAAG
Found at i:37748873 original size:64 final size:64
Alignment explanation
Indices: 37748800--37748927 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
37748790 CCATTCATAA
* * *
37748800 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAAGAACATTTGATTCATGTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * *
37748864 CACATCTAGTTAAGAACATTTGATTCATGTCGATCATAGTATCTTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAAGAACATTTGATTCATGTCGATCATAGCATCCTAATTATTTGACATAAGCAT
37748928 AGGCCTATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAAGAACATTTGATTCATGTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:37749276 original size:45 final size:45
Alignment explanation
Indices: 37748952--37749427 Score: 192
Period size: 45 Copynumber: 10.8 Consensus size: 45
37748942 GATTCTACAG
* * *
37748952 ATCTTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGACGGCGA
1 ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * ** ** *
37748997 ATCTAGTCTTCCTGAAGTTGCAGTGAAACAGATTTTAG-CCAC-C
1 ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * ** * ** *
37749040 ATCCTA-TCTCCCT-AAGTCGTAGTGGAGTAGGCTGAAAATTG-TA
1 AT-CTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * *
37749083 GATCTTGTCTCCCTGAAGTTACAGTGGAGCA-AGTCGAAGATGGCGA
1 -ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGACGGCGA
* * * * ** *
37749129 ATCCT-GCCTTCCTGAAGTTGCAGTGAAGCAGATTTAAG-CCAC-C
1 AT-CTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * ** * ** *
37749172 ATCCTA-TCTCCCTG-AGTCGTAGTGGAGTAGGCTAAAGATTG-TA
1 AT-CTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * *
37749215 GACCTTGTCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGACGGCGA
1 -ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * ** *
37749261 ATCTAGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAG-CCAC-C
1 ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * * * ** *
37749304 ATCCTAG-CTCCCTAAAGTTGTAGTGGAGTAGACTGAAAATTG-TA
1 AT-CTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * *
37749348 GACCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* *
37749394 ATCTAGTCTTCCTGAAGTTGCAGTGAAGCAGATT
1 ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATT
37749428 TAAACCACCA
Statistics
Matches: 297, Mismatches: 111, Indels: 46
0.65 0.24 0.10
Matches are distributed among these distances:
42 30 0.10
43 48 0.16
44 33 0.11
45 180 0.61
46 6 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (45 bp):
ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
Found at i:37749395 original size:133 final size:132
Alignment explanation
Indices: 37748954--37749781 Score: 1187
Period size: 133 Copynumber: 6.2 Consensus size: 132
37748944 TTCTACAGAT
*
37748954 CTTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
* * *
37749019 GTGAAACAGATTTTAGCCACCATCCTATCTCCCTAAGTCGTAGTGGAGTAGGCTGAAAATTGTAG
66 GTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTGAAAATTGTAG
*
37749084 AT
131 AC
* * *
37749086 CTTGTCTCCCTGAAGTTACAGTGGAGCA-AGTCGAAGATGGCGAATCCT-GCCTTCCTGAAGTTG
1 CTTGTCTCCCTGAAGTTGCAGTGGAGCAGA-TCGAAGACGGCGAAT-CTAGTCTTCCTGAAGTTG
* *
37749149 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTGAGTCGTAGTGGAGTAGGCT-AAAGATTG
64 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTGAAA-ATTG
37749213 TAGAC
128 TAGAC
* * *
37749218 CTTGTCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
* *
37749283 GTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGACTGAAAATTGTA
66 GTGAAGCAGATTTAAGCCACCATCCTATCTCCCT-AAGTTGTAGTGGAGTAGGCTGAAAATTGTA
37749348 GAC
130 GAC
*
37749351 CTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
* * * *
37749416 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
66 GTGAAGCAGATTTAAGCCACCATCCTATCTCCCT-AAGTTGTAGTGGAGTAGGCTGAAAATTGTA
37749481 GAC
130 GAC
* * * *
37749484 CTTCTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGTGAATCTAGTCTTCCTAAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
* * *
37749549 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGTGGAGTAGGCTGAAAATTGTA
66 GTGAAGCAGATTTAAGCCACCATCCTATCTCCCT-AAGTTGTAGTGGAGTAGGCTGAAAATTGTA
*
37749614 GAT
130 GAC
* * * * *
37749617 CTTGTCTCCCTGAAGTTGTAGTGGAGCAGATCAAAGACAGCGAATCTTGTCTTCTTGAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
* * ** * *
37749682 GTGAAGCAGATTTAAGCTACCATCCTATCTCCCTAAGTTGTAGTGGAATAGTTTAAAAAATTATA
66 GTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCT-GAAAATTGTA
37749747 GATC
130 GA-C
* *
37749751 C-TGTCTCTCTGAAGTTGCAGTAGAGCAGATC
1 CTTGTCTCCCTGAAGTTGCAGTGGAGCAGATC
37749782 AAAACACACC
Statistics
Matches: 630, Mismatches: 57, Indels: 17
0.89 0.08 0.02
Matches are distributed among these distances:
131 6 0.01
132 218 0.35
133 402 0.64
134 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (132 bp):
CTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
GTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTGAAAATTGTAG
AC
Found at i:37751266 original size:23 final size:23
Alignment explanation
Indices: 37751223--37751266 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
37751213 TAATACGTTG
* *
37751223 TTTTATTTATTATCTATTTTAGA
1 TTTTATATATTATCTAATTTAGA
37751246 TTTTATATATTAAT-TAATTTA
1 TTTTATATATT-ATCTAATTTA
37751267 AATTATATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTTATATATTATCTAATTTAGA
Found at i:37751735 original size:20 final size:21
Alignment explanation
Indices: 37751687--37751729 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
37751677 ATTATTTGTT
*
37751687 TTATTATTATTATTATTATAC
1 TTATTTTTATTATTATTATAC
*
37751708 TTATTTTTATT-TTATTGTAC
1 TTATTTTTATTATTATTATAC
37751728 TT
1 TT
37751730 TCTTTTTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTTTATTATTATTATAC
Found at i:37751758 original size:13 final size:13
Alignment explanation
Indices: 37751740--37751782 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
37751730 TCTTTTTACC
*
37751740 ATTTACTATTATT
1 ATTTACTATTTTT
37751753 ATTTACATATTTTT
1 ATTTAC-TATTTTT
37751767 ATTGTA-TATTTTT
1 ATT-TACTATTTTT
37751780 ATT
1 ATT
37751783 ATTATTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 16 0.59
14 9 0.33
15 2 0.07
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (13 bp):
ATTTACTATTTTT
Found at i:37758670 original size:25 final size:25
Alignment explanation
Indices: 37758636--37758685 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
37758626 CACAAACTCA
*
37758636 TAATTCAGGTAGATGTCTATTTAGT
1 TAATTCAGGTAGATGCCTATTTAGT
37758661 TAATTCAGGTAGATGCCTATTTAGT
1 TAATTCAGGTAGATGCCTATTTAGT
37758686 ATTGAACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (25 bp):
TAATTCAGGTAGATGCCTATTTAGT
Found at i:37767703 original size:97 final size:94
Alignment explanation
Indices: 37767580--37767808 Score: 229
Period size: 90 Copynumber: 2.4 Consensus size: 94
37767570 GTGGCGAATG
* * * *
37767580 AAAGTATGGTTGTGATTAGCTG-TATTGTTTAGAAGTATGATTGTGA-TTAGGGCTTGAATTTTG
1 AAAGTATGATTGTGATTAG-TGATATTGTTTA-AAGTA-GATTGTGATTTA-GAC-TCAAATTTG
* * * *
37767643 ATTGTGATAATAGT-GGCAATGTGTTCATTGTTTA
61 ATTGTGACAATAGTAGGAAAT-TGTGCAGTGTTTA
37767677 AAAGTATGATTGTGATTAGTGATATTGTTTAAA--A-A-TGTGATTTAGACTCAAATTTGATTGT
1 AAAGTATGATTGTGATTAGTGATATTGTTTAAAGTAGATTGTGATTTAGACTCAAATTTGATTGT
* *
37767738 GACAATGGTAGTAAATTGTGCAGTGTTTA
66 GACAATAGTAGGAAATTGTGCAGTGTTTA
* *
37767767 AAAGTGTGATTGTGATTAGTTATATTGTTTAAAAGTACGATT
1 AAAGTATGATTGTGATTAGTGATATTGTTT-AAAGTA-GATT
37767809 TGGGATTGAA
Statistics
Matches: 111, Mismatches: 12, Indels: 19
0.78 0.08 0.13
Matches are distributed among these distances:
90 58 0.52
91 14 0.13
92 4 0.04
93 1 0.01
94 1 0.01
95 1 0.01
96 5 0.05
97 27 0.24
ACGTcount: A:0.30, C:0.04, G:0.24, T:0.42
Consensus pattern (94 bp):
AAAGTATGATTGTGATTAGTGATATTGTTTAAAGTAGATTGTGATTTAGACTCAAATTTGATTGT
GACAATAGTAGGAAATTGTGCAGTGTTTA
Found at i:37767835 original size:90 final size:90
Alignment explanation
Indices: 37767668--37768025 Score: 328
Period size: 90 Copynumber: 4.1 Consensus size: 90
37767658 GCAATGTGTT
* * ** * ** *
37767668 CATTGTTTAAAAGTATGATTGTGATTAGTGATATTGTTTAAAAATGTGATTT-AGACTCAAATTT
1 CATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGA-TTGAATTC
** *
37767732 GATTGTGACAATGGTAGTAAATTGTG
65 GATCATGATAATGGTAGTAAATTGTG
* *
37767758 CAGTGTTTAAAAGTGTGATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGATTGAATTCG
1 CATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGATTGAATTCG
*
37767823 ATCATGATAATGGTAGTGAATTGTG
66 ATCATGATAATGGTAGTAAATTGTG
* * * * *
37767848 CATTATTTAAAGGTATAGA-TGCGAATAG-T-GATTG-------GTACGATTTGGGATTGAATTC
1 CATTGTTTAAAAGTAT-GATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGATTGAATTC
* *
37767903 GATCATGATAATGGTAGCAAATTATG
65 GATCATGATAATGGTAGTAAATTGTG
* * * * *
37767929 CATTGTTTGAAGGCATGGTTGTGATTAGTTATATTGTTTAAAAGTAAGATTTGGGATTGAATAT-
1 CATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGATTGAAT-TC
* **
37767993 GATCATTGATAA-GGTGGCGAATTGTG
65 GATCA-TGATAATGGTAGTAAATTGTG
37768019 CATTGTT
1 CATTGTT
37768026 GATTCGTTAT
Statistics
Matches: 219, Mismatches: 35, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
80 1 0.00
81 64 0.29
82 1 0.00
83 4 0.02
88 4 0.02
89 1 0.00
90 133 0.61
91 11 0.05
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.39
Consensus pattern (90 bp):
CATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGATTGAATTCG
ATCATGATAATGGTAGTAAATTGTG
Found at i:37772675 original size:31 final size:30
Alignment explanation
Indices: 37772648--37772733 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 30
37772638 TATTGTTACT
* *
37772648 TTTTTTTATTATTTTAAAGGTATTTGTTAA
1 TTTTTTTATTATTTTAGAGGCATTTGTTAA
*
37772678 ATTTTTTATTATTTTAGAGGCATTTGTTAAA
1 TTTTTTTATTATTTTAGAGGCATTTGTT-AA
37772709 TTTTTTTATTATTTTAGAGGCATTT
1 TTTTTTTATTATTTTAGAGGCATTT
37772734 ACTTATTAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 25 0.49
31 26 0.51
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (30 bp):
TTTTTTTATTATTTTAGAGGCATTTGTTAA
Found at i:37772685 original size:30 final size:31
Alignment explanation
Indices: 37772648--37772733 Score: 147
Period size: 30 Copynumber: 2.8 Consensus size: 31
37772638 TATTGTTACT
* *
37772648 TTTTTTTATTATTTTAAAGGTATTTGTTAAA
1 TTTTTTTATTATTTTAGAGGCATTTGTTAAA
37772679 -TTTTTTATTATTTTAGAGGCATTTGTTAAA
1 TTTTTTTATTATTTTAGAGGCATTTGTTAAA
37772709 TTTTTTTATTATTTTAGAGGCATTT
1 TTTTTTTATTATTTTAGAGGCATTT
37772734 ACTTATTAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 28 0.54
31 24 0.46
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (31 bp):
TTTTTTTATTATTTTAGAGGCATTTGTTAAA
Found at i:37777341 original size:26 final size:26
Alignment explanation
Indices: 37777312--37777418 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
37777302 TGGTACAAAT
*
37777312 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
37777338 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
37777364 TGATAATGGGTTAGGTAAATG-TCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
37777389 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
37777415 TGAT
1 TGAT
37777419 GGGCATTTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 24 0.33
26 48 0.67
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:37777414 original size:51 final size:52
Alignment explanation
Indices: 37777312--37777418 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 52
37777302 TGGTACAAAT
*
37777312 TGATAATGGGTTAGGTAAATGTTTCATGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
* * *
37777364 TGATAATGGGTTAGGTAAATG-TCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
37777415 TGAT
1 TGAT
37777419 GGGCATTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 30 0.59
52 21 0.41
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
Found at i:37778868 original size:27 final size:28
Alignment explanation
Indices: 37778838--37778890 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
37778828 AGAATATGCA
37778838 TGAAAAACC-TTAAAA-TAGATAAATTAC
1 TGAAAAACCTTTAAAAGTAGA-AAATTAC
*
37778865 TGAAATACCTTTAAAAGTAGAAAATT
1 TGAAAAACCTTTAAAAGTAGAAAATT
37778891 TACAGTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 11 0.48
29 4 0.17
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (28 bp):
TGAAAAACCTTTAAAAGTAGAAAATTAC
Found at i:37778928 original size:26 final size:26
Alignment explanation
Indices: 37778853--37778933 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
37778843 AACCTTAAAA
*
37778853 TAGATAAATTACTGAAATACCTTTAAAAG
1 TAGATAAATTACTGAAATACCTCT---AG
* ***
37778882 TAGA-AAATTTACAGTTTTACCTCTAG
1 TAGATAAA-TTACTGAAATACCTCTAG
*
37778908 TAGATAAATTACTGAAATACCCCTAG
1 TAGATAAATTACTGAAATACCTCTAG
37778934 GGTTAAATTG
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
26 19 0.47
27 3 0.08
28 3 0.08
29 15 0.38
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (26 bp):
TAGATAAATTACTGAAATACCTCTAG
Found at i:37791403 original size:26 final size:27
Alignment explanation
Indices: 37791373--37791425 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 27
37791363 GTAAACATAT
37791373 AATTT-TA-TAATATATGAGAATGACTC
1 AATTTATATTAAT-TATGAGAATGACTC
37791399 AATTTCAATATTAATTATGAGAATGAC
1 AATTT--ATATTAATTATGAGAATGAC
37791426 CTGAAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 5 0.22
29 14 0.61
30 4 0.17
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (27 bp):
AATTTATATTAATTATGAGAATGACTC
Found at i:37791662 original size:38 final size:38
Alignment explanation
Indices: 37791620--37791695 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
37791610 GTAGAAAGAA
37791620 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
1 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
37791658 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
1 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
37791696 GGCACTAGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (38 bp):
AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
Found at i:37791832 original size:2 final size:2
Alignment explanation
Indices: 37791825--37791850 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37791815 GGCGGCACCA
37791825 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
37791851 TACTTTTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37794240 original size:41 final size:42
Alignment explanation
Indices: 37794156--37794352 Score: 213
Period size: 41 Copynumber: 4.7 Consensus size: 42
37794146 CGTGTTTTAC
* * * * *
37794156 TTTCTGTTTAGCTCTTATGAA-CTTCTGTTTAACTCATACGAG
1 TTTCTGTTCAGCTCTTA-CAAGCTTCTGTTCAACTCTTATGAG
* * *
37794198 TTTTTGTTCAGTTC-TACGAGCTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTACAAGCTTCTGTTCAACTCTTATGAG
* * *
37794239 TTTCTATTCAGCTC-TACAAGCTTTTGTTCAACTCCTATGAG
1 TTTCTGTTCAGCTCTTACAAGCTTCTGTTCAACTCTTATGAG
* * *
37794280 TTTCTACTT-AGCTCTTATAAGCTTCTGTTCAACTCTTAAGAG
1 TTTCT-GTTCAGCTCTTACAAGCTTCTGTTCAACTCTTATGAG
*
37794322 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCA
1 TTTCTGTTCAGCTCTTACAAGCTTCTGTTCA
37794353 GCTTTCGAGC
Statistics
Matches: 129, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.01
41 67 0.52
42 61 0.47
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTACAAGCTTCTGTTCAACTCTTATGAG
Found at i:37794363 original size:19 final size:21
Alignment explanation
Indices: 37794157--37794369 Score: 148
Period size: 21 Copynumber: 10.3 Consensus size: 21
37794147 GTGTTTTACT
* * *
37794157 TTCTGTTTAGCTCTTATGAAC
1 TTCTGTTCAGCTCTTACGAGC
* * * *
37794178 TTCTGTTTAACTCATACGAGT
1 TTCTGTTCAGCTCTTACGAGC
* *
37794199 TTTTGTTCAGTTC-TACGAGC
1 TTCTGTTCAGCTCTTACGAGC
* * *
37794219 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
* *
37794240 TTCTATTCAGCTC-TACAAGC
1 TTCTGTTCAGCTCTTACGAGC
* * * * *
37794260 TTTTGTTCAACTCCTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
* **
37794281 TTCTACTT-AGCTCTTATAAGC
1 TTCT-GTTCAGCTCTTACGAGC
* * *
37794302 TTCTGTTCAACTCTTAAGAGT
1 TTCTGTTCAGCTCTTACGAGC
37794323 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
37794344 TTCTGTTCAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTACGAGC
*
37794363 TCCTGTT
1 TTCTGTT
37794370 AATGATGTAC
Statistics
Matches: 147, Mismatches: 41, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
19 11 0.07
20 34 0.23
21 100 0.68
22 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTACGAGC
Found at i:37795920 original size:19 final size:18
Alignment explanation
Indices: 37795885--37795933 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
37795875 ACAATAGTAA
*
37795885 AGTATAATAA-TAGTGAT
1 AGTATAATAACAAGTGAT
37795902 GAGTATAATAACAAGTGAT
1 -AGTATAATAACAAGTGAT
*
37795921 AATAATAATAACA
1 AGT-ATAATAACA
37795934 GTAACAATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (18 bp):
AGTATAATAACAAGTGAT
Found at i:37796135 original size:3 final size:3
Alignment explanation
Indices: 37796129--37796215 Score: 50
Period size: 3 Copynumber: 28.3 Consensus size: 3
37796119 TTAAACAACA
* * * * * *
37796129 AAT AAT AAT AAT AAT AAT AATT AA- AAA AAT GAT GAT AGT AAA AAA
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
37796174 AAT AAA AAT AAT AGT AAT GAT AAT ACATT AAG AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT A
37796216 TGTTAATAAC
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
2 2 0.03
3 56 0.86
4 5 0.08
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:37801401 original size:24 final size:21
Alignment explanation
Indices: 37801385--37801429 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
37801375 ATTGAAAGTG
37801385 ATTGTCGAATGGCTATTG--A
1 ATTGTCGAATGGCTATTGAAA
37801404 ATTGTCGAATGGCTATTGAAA
1 ATTGTCGAATGGCTATTGAAA
37801425 TATTG
1 -ATTG
37801430 AAGGAGACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 18 0.78
21 1 0.04
22 4 0.17
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (21 bp):
ATTGTCGAATGGCTATTGAAA
Found at i:37801409 original size:19 final size:19
Alignment explanation
Indices: 37801385--37801423 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
37801375 ATTGAAAGTG
37801385 ATTGTCGAATGGCTATTGA
1 ATTGTCGAATGGCTATTGA
37801404 ATTGTCGAATGGCTATTGA
1 ATTGTCGAATGGCTATTGA
37801423 A
1 A
37801424 ATATTGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (19 bp):
ATTGTCGAATGGCTATTGA
Found at i:37803193 original size:90 final size:90
Alignment explanation
Indices: 37803040--37803204 Score: 208
Period size: 90 Copynumber: 1.8 Consensus size: 90
37803030 GGTGGGAATT
* ** * *
37803040 AGTTATATTGTTTAAAAGTGTGATTTAAATTCGATTTTGATATTGATAATGGTAATAAATTGTGT
1 AGTTATATTGTTTAAAAGTGTAATTTAAATTCGATTCAGATATTCATAATGGTAACAAATTGTGT
37803105 AGTGTTTAAAAATACAATTGTGATA
66 AGTGTTTAAAAATACAATTGTGATA
* * * *
37803130 AGTTATATTGTTTAAAAGTGTAATTTGAGATT-GAATTCAG-TCTTCATAATGGTAGCGAATTGT
1 AGTTATATTGTTTAAAAGTGTAATTT-AAATTCG-ATTCAGATATTCATAATGGTAACAAATTGT
*
37803193 GTATTGTTTAAA
64 GTAGTGTTTAAA
37803205 GGTATGGATG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
90 55 0.87
91 8 0.13
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.43
Consensus pattern (90 bp):
AGTTATATTGTTTAAAAGTGTAATTTAAATTCGATTCAGATATTCATAATGGTAACAAATTGTGT
AGTGTTTAAAAATACAATTGTGATA
Found at i:37809989 original size:3 final size:3
Alignment explanation
Indices: 37809981--37810015 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
37809971 ACTAAAATAA
37809981 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
37810016 AAGAGTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:37811155 original size:34 final size:34
Alignment explanation
Indices: 37811081--37811176 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 34
37811071 ACATGCACTT
* *
37811081 ATACAAATATCATATCAGAATGTCACATTACCAA
1 ATACATATATCATATCAGAATGTCATATTACCAA
* * * * *
37811115 AAACATATATCATATCAGAATATCATATTTCTAG
1 ATACATATATCATATCAGAATGTCATATTACCAA
* * *
37811149 ATACATAAATCAGATCAGGATGTCATAT
1 ATACATATATCATATCAGAATGTCATAT
37811177 CAAATTAAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (34 bp):
ATACATATATCATATCAGAATGTCATATTACCAA
Found at i:37811641 original size:17 final size:17
Alignment explanation
Indices: 37811605--37811655 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
37811595 ATAATTTTTT
* *
37811605 TCACATACTTTAACCATA
1 TCACATACTGTCA-CATA
37811623 TCACATACTGTCACATA
1 TCACATACTGTCACATA
*
37811640 TCGACAGA-TGTCACAT
1 TC-ACATACTGTCACAT
37811656 TTCGAGTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.29
Consensus pattern (17 bp):
TCACATACTGTCACATA
Found at i:37811857 original size:17 final size:19
Alignment explanation
Indices: 37811822--37811862 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
37811812 TACCCAATTT
37811822 ACCTGTGTAATCGCACACG
1 ACCTGTGTAATCGCACACG
*
37811841 -CCTGTGTACTC-CACACG
1 ACCTGTGTAATCGCACACG
37811858 ACCTG
1 ACCTG
37811863 GCACACGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.22
Consensus pattern (19 bp):
ACCTGTGTAATCGCACACG
Found at i:37814641 original size:94 final size:93
Alignment explanation
Indices: 37814466--37814676 Score: 246
Period size: 94 Copynumber: 2.2 Consensus size: 93
37814456 TAGACCAACC
* * *
37814466 ACAAATCTTATACCCCTGAAGTCTTAGTGGGACAGATTGAATCTACCATAGCGAATCTTATTTCC
1 ACAAATCTTATACCCCTGAAGT-TTAGTGGGACAGATTGAATCTACCATAGCAAATCATATCTCC
* *
37814531 ATGAACTTGCAATGGAGCAGATTGAAATT
65 ATGAACTTGCAATGGAGCAGACTGAAACT
* * * *
37814560 ACAAATCCTATACCCCTGAAGTTATAGTGGGTCGGATTGAAGT-TATCATAGCAAATCATATCTC
1 ACAAATCTTATACCCCTGAAGTT-TAGTGGGACAGATTGAA-TCTACCATAGCAAATCATATCTC
* * * * *
37814624 CCTGAAGTTGTAGTGGAGCAGACTGAAGCT
64 CATGAACTTGCAATGGAGCAGACTGAAACT
37814654 ACAAATCTTAT-CTCCCTGAAGTT
1 ACAAATCTTATAC-CCCTGAAGTT
37814677 GCGATAAAGC
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
93 2 0.02
94 96 0.97
95 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (93 bp):
ACAAATCTTATACCCCTGAAGTTTAGTGGGACAGATTGAATCTACCATAGCAAATCATATCTCCA
TGAACTTGCAATGGAGCAGACTGAAACT
Found at i:37814674 original size:44 final size:44
Alignment explanation
Indices: 37814519--37814966 Score: 255
Period size: 44 Copynumber: 10.0 Consensus size: 44
37814509 TACCATAGCG
* * * * * **
37814519 AATCTTATTTCCATGAACTTGCAATGGAGCAGATTGAAATTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * *
37814563 AATCCTATAC-CCCTGAAGTTATAGTGG-GTCGGATTGAAGTTATCATAGCA
1 AATCTTAT-CTCCCTGAAGTTGTAGTGGAG-CAGATTGAAG----C-TA-CA
* *
37814613 AATCATATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* **
37814657 AATCTTATCTCCCTGAAGTTG-CGATAAAGCAGATTGAA---ACA
1 AATCTTATCTCCCTGAAGTTGTAG-TGGAGCAGATTGAAGCTACA
* * * * * * *
37814698 AATCTTATCTTCCTGAAGTTGCAGTGAAGCAAATTGAAACGAAA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * * *
37814742 AATCTTATAC-CTCTGAAGTTGTAGTAGG-TCGGATTAAATCTACCA
1 AATCTTAT-CTCCCTGAAGTTGTAGT-GGAGCAGATTGAAGCTA-CA
* * * * * * *
37814787 TAGCGAGTCTCATTTCCTTAAATTTGTAGTGGAGTAAATTGAAGCTACA
1 -A---A-TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * * *
37814836 AATCTTATCGCCCTGAAATTGTAGTAGCGCAGATTGAAGCTAAA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * **
37814880 AATCTTATCCCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTATG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* ** * *
37814924 AATCTCATCTCCCTGAAGTTGCGGTGGAGTAGATTGAAACTAC
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTAC
37814967 CTTTGAAGTT
Statistics
Matches: 306, Mismatches: 73, Indels: 50
0.71 0.17 0.12
Matches are distributed among these distances:
41 35 0.11
42 1 0.00
43 2 0.01
44 193 0.63
45 6 0.02
46 2 0.01
48 1 0.00
49 8 0.03
50 57 0.19
51 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
Found at i:37814713 original size:41 final size:41
Alignment explanation
Indices: 37814611--37814737 Score: 130
Period size: 41 Copynumber: 3.0 Consensus size: 41
37814601 GTTATCATAG
* * ** * *
37814611 CAAATCATATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTAAAGCAAATTGAA---A
*
37814655 CAAATCTTATCTCCCTGAAGTTGC-GATAAAGCAGATTGAAA
1 CAAATCTTATCTCCCTGAAGTTGCAG-TAAAGCAAATTGAAA
* *
37814696 CAAATCTTATCTTCCTGAAGTTGCAGTGAAGCAAATTGAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTAAAGCAAATTGAAA
37814737 C
1 C
37814738 GAAAAATCTT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
41 38 0.52
42 1 0.01
43 1 0.01
44 33 0.45
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (41 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTAAAGCAAATTGAAA
Found at i:37814870 original size:179 final size:180
Alignment explanation
Indices: 37814519--37814910 Score: 416
Period size: 179 Copynumber: 2.2 Consensus size: 180
37814509 TACCATAGCG
* * * ** *
37814519 AATCTTAT-TTCCATGAACTTGCAATGGAGCAGATTGAAATTACAAATCCTATACCCCTGAAGTT
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAAATTGAAACGAAAAATCCTATACCCCTGAAGTT
* * * * *
37814583 ATAGTGGGTCGGATTGAAGTTATCATAGCAAATCATATCTCCCTGAAGTTGTAGTGGAGCAGACT
65 ATAGTAGGTCGGATTGAAATTACCATAGCAAATCATATCTCCCTAAAGTTGTAGTGGAGCAAACT
* * * *
37814648 GAAGCTACAAATCTTATCTCCCTGAAGTTGCGATAAAGCAGATTGAA-ACA
130 GAAGCTACAAATCTTATCGCCCTGAAATTGAGATAAAGCAGATTGAACAAA
* * * *
37814698 AATCTTATCTTCCTGAAGTTGCAGTGAAGCAAATTGAAACGAAAAATCTTATACCTCTGAAGTTG
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAACGAAAAATCCTATACCCCTGAAGTTA
* * * * * * *
37814763 TAGTAGGTCGGATT-AAATCTACCATAGCGAGTC-TCATTTCCTTAAATTTGTAGTGGAGTAAAT
66 TAGTAGGTCGGATTGAAAT-TACCATAGCAAATCAT-ATCTCCCTAAAGTTGTAGTGGAGCAAAC
**
37814826 TGAAGCTACAAATCTTATCGCCCTGAAATTGTAG-TAGCGCAGATTGAAGCTAAA
129 TGAAGCTACAAATCTTATCGCCCTGAAATTG-AGATAAAGCAGATTGAA-C-AAA
** *
37814880 AATCTTATCCCCCTGAAGTTGTAGTGGAGCA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCA
37814911 GATTAAAGCT
Statistics
Matches: 174, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
178 4 0.02
179 136 0.78
180 5 0.03
182 29 0.17
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (180 bp):
AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAACGAAAAATCCTATACCCCTGAAGTTA
TAGTAGGTCGGATTGAAATTACCATAGCAAATCATATCTCCCTAAAGTTGTAGTGGAGCAAACTG
AAGCTACAAATCTTATCGCCCTGAAATTGAGATAAAGCAGATTGAACAAA
Found at i:37815474 original size:12 final size:12
Alignment explanation
Indices: 37815459--37815483 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37815449 CAGAAACAAT
37815459 AGCAGAAATAGC
1 AGCAGAAATAGC
37815471 AGCAGAAATAGC
1 AGCAGAAATAGC
37815483 A
1 A
37815484 AAAAAAGGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.24, T:0.08
Consensus pattern (12 bp):
AGCAGAAATAGC
Found at i:37818554 original size:27 final size:28
Alignment explanation
Indices: 37818487--37818555 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 28
37818477 TTTTTCTCAT
37818487 ATATTATATATTTTAAATTGTTTTATTAC
1 ATATTAT-TATTTTAAATTGTTTTATTAC
*
37818516 -TA-T-TTATTTTAAGTT-TTTT-TTAC
1 ATATTATTATTTTAAATTGTTTTATTAC
37818539 ATATTATGTATTTTAAA
1 ATATTAT-TATTTTAAA
37818556 CTATTATCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
23 4 0.12
24 6 0.18
25 11 0.32
26 2 0.06
27 9 0.26
28 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (28 bp):
ATATTATTATTTTAAATTGTTTTATTAC
Found at i:37818584 original size:24 final size:24
Alignment explanation
Indices: 37818557--37818610 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
37818547 TATTTTAAAC
* * *
37818557 TATTATCCGTTTTAAATTTTTATA
1 TATTATCCATTTTAAAATCTTATA
**
37818581 TATTATTTATTTTAAAATCTTATA
1 TATTATCCATTTTAAAATCTTATA
37818605 TATTAT
1 TATTAT
37818611 TTATTTTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (24 bp):
TATTATCCATTTTAAAATCTTATA
Found at i:37818748 original size:26 final size:25
Alignment explanation
Indices: 37818566--37819029 Score: 176
Period size: 26 Copynumber: 18.0 Consensus size: 25
37818556 CTATTATCCG
37818566 TTTTAAAT-T-TTTATATATTATTTA
1 TTTTAAATGTCTTT-TATATTATTTA
* *
37818590 TTTTAAA-ATCTTATATATTATTTA
1 TTTTAAATGTCTTTTATATTATTTA
*
37818614 TTTTGAATTAT-TTTTTTATATATATCTTTTA
1 TTTT-AA--ATGTCTTTTATAT-TA---TTTA
*
37818645 TTTTTAAACCGT-TTTGTATATTATTTA
1 -TTTTAAA-TGTCTTT-TATATTATTTA
*
37818672 TTTTAAATTTCTTTTTACATATTATTTA
1 TTTTAAATGTC-TTTT--ATATTATTTA
** * *
37818700 CCTTAAA-GTCTTTTACA-T-GTTA
1 TTTTAAATGTCTTTTATATTATTTA
37818722 TTTTAAAGTGTCTTTTATATTATTTA
1 TTTTAAA-TGTCTTTTATATTATTTA
37818748 TTTTAAAT-TGCTTTGTATATTATTTA
1 TTTTAAATGT-CTTT-TATATTATTTA
* *
37818774 TTTTAAATATTTTTTATATATTATTTA
1 TTTTAAAT-GTCTTT-TATATTATTTA
* * *
37818801 TTTAAAAT-TATTTTATATATCATCTA
1 TTTTAAATGTCTTTTATAT-T-ATTTA
* * *** * *
37818827 TCTTAAATTTTCACATATAATATTCA
1 TTTTAAA-TGTCTTTTATATTATTTA
* * * *
37818853 ATGTAAACTGT-TTTATATGTTATTCA
1 TTTTAAA-TGTCTTT-TATATTATTTA
37818879 TTTTAAAT-T-TTTTATATTATTTA
1 TTTTAAATGTCTTTTATATTATTTA
*
37818902 TTTTAAGT-TGC-TTTATTATTATTTA
1 TTTTAAATGT-CTTTTA-TATTATTTA
* *
37818927 TTTTAAGT-TTTTTTATACATTATTTA
1 TTTTAAATGTCTTTTAT--ATTATTTA
* *
37818953 TTTGAAACTGTTTTTTATATACTATTTA
1 TTTTAAA-TGTCTTTTATAT--TATTTA
* * *
37818981 CTTGAAGTTGT-TTCATT-TATTATTTA
1 TTTTAA-ATGTCTT--TTATATTATTTA
*
37819007 TTTTAAA--CCTTTTATATTATTTA
1 TTTTAAATGTCTTTTATATTATTTA
37819030 CCCTAAATTA
Statistics
Matches: 341, Mismatches: 53, Indels: 93
0.70 0.11 0.19
Matches are distributed among these distances:
22 10 0.03
23 27 0.08
24 51 0.15
25 39 0.11
26 98 0.29
27 44 0.13
28 48 0.14
29 3 0.01
30 5 0.01
31 12 0.04
32 4 0.01
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTTAAATGTCTTTTATATTATTTA
Found at i:37818809 original size:53 final size:52
Alignment explanation
Indices: 37818566--37819029 Score: 294
Period size: 53 Copynumber: 9.0 Consensus size: 52
37818556 CTATTATCCG
*
37818566 TTTTAAA--TTTTTATATATTATTTATTTTAAAAT-C-TTATATATTATTTA
1 TTTTAAATTTTTTTATATATTATTTATTTTAAATTGCTTTATATATTATTTA
* ** * *
37818614 TTTTGAATTATTTTTTTATATATATCTTTTATTTTTAAACCGTTTTGTATATTATTTA
1 TTTT-AA--ATTTTTTTATATAT-T-ATTTA-TTTTAAATTGCTTTATATATTATTTA
* ** * * *
37818672 TTTTAAATTTCTTTTTACATATTATTTACCTTAAAGT-CTTT-TACA-T-GTTA
1 TTTTAAA-TT-TTTTTATATATTATTTATTTTAAATTGCTTTATATATTATTTA
* * *
37818722 TTTTAAAGTGTCTTT-TATATTATTTATTTTAAATTGCTTTGTATATTATTTA
1 TTTTAAA-TTTTTTTATATATTATTTATTTTAAATTGCTTTATATATTATTTA
* ** * *
37818774 TTTTAAATATTTTTTATATATTATTTATTTAAAATTATTTTATATATCATCTA
1 TTTTAAAT-TTTTTTATATATTATTTATTTTAAATTGCTTTATATATTATTTA
* *** * * * * * * * *
37818827 TCTTAAATTTTCACATATAATATTCAATGTAAACTGTTTTATATGTTATTCA
1 TTTTAAATTTTTTTATATATTATTTATTTTAAATTGCTTTATATATTATTTA
*
37818879 TTTTAAA--TTTTT-TATATTATTTATTTTAAGTTGCTTTAT-TATTATTTA
1 TTTTAAATTTTTTTATATATTATTTATTTTAAATTGCTTTATATATTATTTA
* * * ** *
37818927 TTTTAAGTTTTTTTATACATTATTTATTTGAAACTGTTTTTTATATACTATTTA
1 TTTTAAATTTTTTTATATATTATTTATTTTAAA-T-TGCTTTATATATTATTTA
* * * * * * *
37818981 CTTGAAGTTGTTTCATTTATTATTTATTTTAAA--CCTTT-TATATTATTTA
1 TTTTAAATTTTTTTATATATTATTTATTTTAAATTGCTTTATATATTATTTA
37819030 CCCTAAATTA
Statistics
Matches: 316, Mismatches: 76, Indels: 47
0.72 0.17 0.11
Matches are distributed among these distances:
48 33 0.10
49 40 0.13
50 24 0.08
51 19 0.06
52 54 0.17
53 58 0.18
54 40 0.13
55 9 0.03
56 10 0.03
57 12 0.04
58 17 0.05
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (52 bp):
TTTTAAATTTTTTTATATATTATTTATTTTAAATTGCTTTATATATTATTTA
Found at i:37818810 original size:14 final size:14
Alignment explanation
Indices: 37818766--37818813 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
37818756 TGCTTTGTAT
*
37818766 ATTATTTATTTTAA
1 ATTATTTATTTAAA
*
37818780 A-TATTT-TTTATAT
1 ATTATTTATTTA-AA
37818793 ATTATTTATTTAAA
1 ATTATTTATTTAAA
37818807 ATTATTT
1 ATTATTT
37818814 TATATATCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 3 0.11
13 7 0.25
14 14 0.50
15 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTATTTATTTAAA
Found at i:37818989 original size:54 final size:53
Alignment explanation
Indices: 37818913--37819014 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
37818903 TTTAAGTTGC
* * * * *
37818913 TTTATTATTATTTATTTTAAGTTTTTTTATACATTATTTATTTGAAACTGTTT
1 TTTATTACTATTTACTTGAAGTTGTTTCATACATTATTTATTTGAAACTGTTT
** *
37818966 TTTATATACTATTTACTTGAAGTTGTTTCATTTATTATTTATTTTAAAC
1 TTTAT-TACTATTTACTTGAAGTTGTTTCATACATTATTTATTTGAAAC
37819015 CTTTTATATT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 5 0.12
54 35 0.88
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (53 bp):
TTTATTACTATTTACTTGAAGTTGTTTCATACATTATTTATTTGAAACTGTTT
Found at i:37819020 original size:79 final size:75
Alignment explanation
Indices: 37818886--37819029 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 75
37818876 TCATTTTAAA
* * ***
37818886 TTTTTTATATTATTTATTTTAAGTTGCTTTATTATTATTTATTTTAAGTTTTTTTATACATTATT
1 TTTTTTATATTATTTACTTGAAGTTGCTTTATTATTATTTATTTTAAGACCTTTTAT--ATTATT
37818951 TATTTGAAACTG
64 TATTTGAAACTG
37818963 TTTTTTATATACTATTTACTTGAAGTTG-TTTCATTTATTATTTATTTTAA-ACCTTTTATATTA
1 TTTTTTATAT--TATTTACTTGAAGTTGCTTT-A-TTATTATTTATTTTAAGACCTTTTATATTA
37819026 TTTA
62 TTTA
37819030 CCCTAAATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
77 18 0.31
78 3 0.05
79 21 0.36
80 16 0.28
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (75 bp):
TTTTTTATATTATTTACTTGAAGTTGCTTTATTATTATTTATTTTAAGACCTTTTATATTATTTA
TTTGAAACTG
Found at i:37827940 original size:36 final size:36
Alignment explanation
Indices: 37827893--37827965 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
37827883 CAATCTCGGA
*
37827893 TGAAGTGATCTAGCGAACCTGATAAACATATTAATT
1 TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
37827929 TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
1 TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
37827965 T
1 T
37827966 ACATGATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (36 bp):
TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
Found at i:37828202 original size:5 final size:5
Alignment explanation
Indices: 37828186--37828244 Score: 73
Period size: 5 Copynumber: 11.0 Consensus size: 5
37828176 TAAGAAGATA
*
37828186 TTATT TTGTT TTATT TTATT TTATTAT TTATTT TTATTT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTA-T-T TTA-TT TTA-TT TTATT TTATT
37828235 TTATT TTATT
1 TTATT TTATT
37828245 AATTTAGGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
5 33 0.66
6 11 0.22
7 6 0.12
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:37828213 original size:23 final size:24
Alignment explanation
Indices: 37828184--37828241 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
37828174 AATAAGAAGA
37828184 TATTATTT-TGTTTTA-TTTTATTT
1 TATTATTTAT-TTTTATTTTTATTT
37828207 TATTATTTATTTTTATTTTTATTT
1 TATTATTTATTTTTATTTTTATTT
37828231 TA-T-TTTATTTT
1 TATTATTTATTTT
37828242 ATTAATTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.24
23 14 0.42
24 11 0.33
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (24 bp):
TATTATTTATTTTTATTTTTATTT
Found at i:37832704 original size:4 final size:4
Alignment explanation
Indices: 37832695--37832721 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
37832685 TTTACACAAA
37832695 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
37832722 AGATTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:37833330 original size:5 final size:5
Alignment explanation
Indices: 37833314--37833373 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
37833304 TAGGAAGATA
* * * *
37833314 TTATT TTGTT TTATT TTATT TTATT ATT-TA TTA-T TTATTT TTAAT TTAAT
1 TTATT TTATT TTATT TTATT TTATT -TTATT TTATT TTA-TT TTATT TTATT
37833364 TTATT TTATT
1 TTATT TTATT
37833374 AATTTAGGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 5 0.11
5 34 0.76
6 6 0.13
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:37833346 original size:30 final size:30
Alignment explanation
Indices: 37833312--37833368 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37833302 AATAGGAAGA
* *
37833312 TATTATTT-TGTTTTATTTTATTTTATTATT
1 TATTATTTAT-TTTTAATTTAATTTATTATT
37833342 TATTATTTATTTTTAATTTAATTTATT
1 TATTATTTATTTTTAATTTAATTTATT
37833369 TTATTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (30 bp):
TATTATTTATTTTTAATTTAATTTATTATT
Found at i:37840790 original size:19 final size:19
Alignment explanation
Indices: 37840751--37840790 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
37840741 GCTGTCCAAT
*
37840751 TTTAAAATAATAATCACAA
1 TTTAAAATAAAAATCACAA
37840770 TTTAAAATAAAATATCA-AA
1 TTTAAAATAAAA-ATCACAA
37840789 TT
1 TT
37840791 CAAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAAAATAAAAATCACAA
Done.