Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 138 of 210
Found at i:45741004 original size:39 final size:39
Alignment explanation
Indices: 45740960--45741036 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
45740950 AGGGAAAAGG
* * *
45740960 TCGGAGTAGGGGGAGGGATGATGGGGGAGAGGGAGAGAA
1 TCGGAGTAGGGGGAAGGATGATAGGGAAGAGGGAGAGAA
*
45740999 TCGGAGTAGGGGGAAGGATGGTAGGGAAGAGGGAGAGA
1 TCGGAGTAGGGGGAAGGATGATAGGGAAGAGGGAGAGA
45741037 GGTAAGAGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.30, C:0.03, G:0.57, T:0.10
Consensus pattern (39 bp):
TCGGAGTAGGGGGAAGGATGATAGGGAAGAGGGAGAGAA
Found at i:45742170 original size:25 final size:25
Alignment explanation
Indices: 45742130--45742178 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
45742120 TCAATGATAT
45742130 TTTTTCAGTTGTTTTCTTGAGTATG
1 TTTTTCAGTTGTTTTCTTGAGTATG
45742155 TTTTTCGAGTTG-TTTCTTGAGTAT
1 TTTTTC-AGTTGTTTTCTTGAGTAT
45742179 TTTCTGACGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.12, C:0.08, G:0.20, T:0.59
Consensus pattern (25 bp):
TTTTTCAGTTGTTTTCTTGAGTATG
Found at i:45742182 original size:12 final size:13
Alignment explanation
Indices: 45742142--45742183 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
45742132 TTTCAGTTGT
45742142 TTTCTTGAGTATG
1 TTTCTTGAGTATG
45742155 TTT-TTCGAGT-TG
1 TTTCTT-GAGTATG
45742167 TTTCTTGAGTAT-
1 TTTCTTGAGTATG
45742179 TTTCT
1 TTTCT
45742184 GACGGTTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.12, C:0.10, G:0.19, T:0.60
Consensus pattern (13 bp):
TTTCTTGAGTATG
Found at i:45746632 original size:134 final size:134
Alignment explanation
Indices: 45746242--45746651 Score: 474
Period size: 133 Copynumber: 3.1 Consensus size: 134
45746232 GCGCTTCCCC
* * *
45746242 AAAAACGCCGCAAAAAATTGGAATATAGCGGCGTTTTCTGAGAAACGCCGGTAACGATAA-CGAA
1 AAAAACGCCGC-AAAAATTGGAATATAGCGGCGTTTTCGGAGAAACGCCGGTAAAGA-AATCTAA
*
45746306 TTTGAGGAAAAAATTTGAGCAAAACAGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGCGC
64 TTTGAGGAAAAAATTTGAGCAAAACGGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGCGC
*
45746371 ATTTTA
129 ATTGTA
* * * *
45746377 AAAAACGCCGGAAAAGAAT-GCAT-TAGCGGCGTTTTCAGG-GAAACGCCGGTAAAGATATCTAA
1 AAAAACGCCGCAAAA-ATTGGAATATAGCGGCGTTTTC-GGAGAAACGCCGGTAAAGAAATCTAA
* * * * *
45746439 TTTAAGGAAAAAATTTG-GACAAAACGCTACCGTTTTATTGCTTCATTTTATTTCCTTAGTGGCG
64 TTTGAGGAAAAAATTTGAG-CAAAACGGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGCG
45746503 CATTGTA
128 CATTGTA
* * * *
45746510 AAAAACGCCGCAAATATTGGGATATAGTGGCGTTATT-GGAGAAACGCCGGTAAAGAAATATAAT
1 AAAAACGCCGCAAAAATTGGAATATAGCGGCGTT-TTCGGAGAAACGCCGGTAAAGAAATCTAAT
* ** * * *
45746574 TTGAGGAAAAATTTTGAGCAAAACGGTACTATTTTGTTGTTTCCTTTT-TATGCTTTAGTGGCGA
65 TTGAGGAAAAAATTTGAGCAAAACGGTACCGTTTTGTTGTTTCATTTTAT-TTCTTTAGTGGCGC
*
45746638 AATGTTA
129 ATTG-TA
45746645 AAAAACG
1 AAAAACG
45746652 TCGGAAACGG
Statistics
Matches: 231, Mismatches: 33, Indels: 22
0.81 0.12 0.08
Matches are distributed among these distances:
132 4 0.02
133 112 0.48
134 91 0.39
135 24 0.10
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (134 bp):
AAAAACGCCGCAAAAATTGGAATATAGCGGCGTTTTCGGAGAAACGCCGGTAAAGAAATCTAATT
TGAGGAAAAAATTTGAGCAAAACGGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGCGCAT
TGTA
Found at i:45758060 original size:21 final size:21
Alignment explanation
Indices: 45758010--45758060 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
45758000 CTACAACTTA
* * *
45758010 AAGCAGACGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGAG
45758031 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
*
45758052 AAGCGGAGG
1 AAGCAGAGG
45758061 TTCAAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.47, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:45760698 original size:36 final size:36
Alignment explanation
Indices: 45760651--45760722 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
45760641 TAAAAATGGA
45760651 AAATTTATATATGTATAATCGATGCCCATGTGAACT
1 AAATTTATATATGTATAATCGATGCCCATGTGAACT
45760687 AAATTTATATATGTATAATCGATGCCCATGTGAACT
1 AAATTTATATATGTATAATCGATGCCCATGTGAACT
45760723 TAGTAAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (36 bp):
AAATTTATATATGTATAATCGATGCCCATGTGAACT
Found at i:45768760 original size:47 final size:47
Alignment explanation
Indices: 45768686--45768806 Score: 152
Period size: 47 Copynumber: 2.5 Consensus size: 47
45768676 GGAAGGGACT
45768686 AAGGCGAAAACCCACAAAGGGCACTTTGAGTCAAAAAAAAAAAGACC
1 AAGGCGAAAACCCACAAAGGGCACTTTGAGTCAAAAAAAAAAAGACC
** **
45768733 AAGGCGAAAACCTGCAAAGGGTGCTTTGAGTCCAAAAAAAAAAGGAGAGGCC
1 AAGGCGAAAACCCACAAAGGGCACTTTGAGT-CAAAAAAAAAA--AGA--CC
*
45768785 AAGGTGAAAACCCACAAAGGGC
1 AAGGCGAAAACCCACAAAGGGC
45768807 GCATTGAGAC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
47 27 0.44
48 11 0.18
50 3 0.05
52 20 0.33
ACGTcount: A:0.46, C:0.20, G:0.25, T:0.09
Consensus pattern (47 bp):
AAGGCGAAAACCCACAAAGGGCACTTTGAGTCAAAAAAAAAAAGACC
Found at i:45768796 original size:52 final size:48
Alignment explanation
Indices: 45768686--45768820 Score: 164
Period size: 52 Copynumber: 2.8 Consensus size: 48
45768676 GGAAGGGACT
*
45768686 AAGGCGAAAACCCACAAAGGGCACTTTGAGT-CAAAAAAAAAAAGACC
1 AAGGCGAAAACCCACAAAGGGCGCTTTGAGTCCAAAAAAAAAAAGACC
** *
45768733 AAGGCGAAAACCTGCAAAGGGTGCTTTGAGTCCAAAAAAAAAAGGAGAGGCC
1 AAGGCGAAAACCCACAAAGGGCGCTTTGAGTCCAAAAAAAAAA--AGA--CC
* * *
45768785 AAGGTGAAAACCCACAAAGGGCGCATTGAGACCAAA
1 AAGGCGAAAACCCACAAAGGGCGCTTTGAGTCCAAA
45768821 TGGGATTTGA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
47 27 0.37
48 11 0.15
50 3 0.04
52 32 0.44
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.10
Consensus pattern (48 bp):
AAGGCGAAAACCCACAAAGGGCGCTTTGAGTCCAAAAAAAAAAAGACC
Found at i:45770307 original size:143 final size:141
Alignment explanation
Indices: 45770087--45770403 Score: 474
Period size: 143 Copynumber: 2.2 Consensus size: 141
45770077 CTTCCAGAAG
* * *
45770087 TCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGGTGTTGCAGTGG
1 TCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGTGTTGCAGTGG
* ** * * * *
45770152 AACATATTAAAGCTACAAGTTATGCTGACTCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAA
66 AACAAATTAAAGCTAC-AGACA-GC-AAATCTTATCTCCCTAAAGTTGCAGAGGAGCAGATTGAA
* *
45770217 GCCACC-AGCCTTA
128 ACCACCAAACCTTA
45770230 TCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGTGTTGCAGTGG
1 TCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGTGTTGCAGTGG
*
45770295 AACAAATTAAAGCTACAGACAGCAAATCTTATCTCCCTCAAGTTGCAGAGGAGCAGATTGAAACC
66 AACAAATTAAAGCTACAGACAGCAAATCTTATCTCCCTAAAGTTGCAGAGGAGCAGATTGAAACC
45770360 ACCAAACCTTA
131 ACCAAACCTTA
*
45770371 TCTCTCTGAAGTTGCAGCGGAGCAGACTGAAGA
1 TCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGA
45770404 TAGCAAATCT
Statistics
Matches: 159, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
140 39 0.25
141 40 0.25
142 3 0.02
143 77 0.48
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (141 bp):
TCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGTGTTGCAGTGG
AACAAATTAAAGCTACAGACAGCAAATCTTATCTCCCTAAAGTTGCAGAGGAGCAGATTGAAACC
ACCAAACCTTA
Found at i:45770386 original size:45 final size:45
Alignment explanation
Indices: 45770182--45770445 Score: 160
Period size: 45 Copynumber: 5.8 Consensus size: 45
45770172 TATGCTGACT
* * * * *
45770182 CTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACC-AGC
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAACCACCAAAC
* * * *
45770226 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGA-CAACGAAT
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAA-ACCACCAAAC
* * * * * *
45770271 CTTATTTCCCT-AGTGTTGCAGTGGAACAAATT-AAAGCTACAGACAGCAAAT
1 CTTATCTCCCTGA-AGTTGCAGCGGAGCAGATTGAAA-C--C--AC--CAAAC
* *
45770322 CTTATCTCCCTCAAGTTGCAGAGGAGCAGATTGAAACCACCAAAC
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAACCACCAAAC
* * * * *
45770367 CTTATCTCTCTGAAGTTGCAGCGGAGCAGACTGAAGA-TAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAA-ACCACCAAAC
* * * **
45770412 CTTATCTCCTTCAGGTTGTGGCGGAGCAGATTGA
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGA
45770446 CGCTACAAGT
Statistics
Matches: 170, Mismatches: 36, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.01
44 37 0.22
45 92 0.54
46 1 0.01
47 3 0.02
49 2 0.01
51 30 0.18
52 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAACCACCAAAC
Found at i:45777604 original size:5 final size:5
Alignment explanation
Indices: 45777594--45777620 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45777584 TTAAGGACTT
45777594 AACTA AACTA AACTA AACTA AACTA AA
1 AACTA AACTA AACTA AACTA AACTA AA
45777621 ATAAGAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AACTA
Found at i:45791772 original size:15 final size:15
Alignment explanation
Indices: 45791752--45791781 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45791742 AATAGGCGGC
45791752 ACGTCGGGACAAGCA
1 ACGTCGGGACAAGCA
*
45791767 ACGTCGGGACTAGCA
1 ACGTCGGGACAAGCA
45791782 GAAGCAACCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.27, G:0.33, T:0.10
Consensus pattern (15 bp):
ACGTCGGGACAAGCA
Found at i:45792740 original size:8 final size:9
Alignment explanation
Indices: 45792715--45792740 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
45792705 TCGACATAGG
45792715 AAAATTTTT
1 AAAATTTTT
45792724 AAAATTTTT
1 AAAATTTTT
45792733 AAAATTTT
1 AAAATTTT
45792741 CTATTACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
AAAATTTTT
Found at i:45794832 original size:12 final size:12
Alignment explanation
Indices: 45794815--45794839 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45794805 TTTAGTAATT
45794815 TAATTATTTTAA
1 TAATTATTTTAA
45794827 TAATTATTTTAA
1 TAATTATTTTAA
45794839 T
1 T
45794840 TTGGATTAGC
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATTATTTTAA
Found at i:45796317 original size:16 final size:17
Alignment explanation
Indices: 45796296--45796330 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
45796286 AATTAATTTA
*
45796296 AATTAATTAA-TTTCTC
1 AATTAAATAATTTTCTC
45796312 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
45796329 AA
1 AA
45796331 CCTAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:45800231 original size:49 final size:49
Alignment explanation
Indices: 45800166--45800295 Score: 197
Period size: 49 Copynumber: 2.7 Consensus size: 49
45800156 ATTATGTAAT
*
45800166 TTCCGTGTAAGGCCATAGCTGGGCTATGGCATCAGTAAGTGATATGTGA
1 TTCCGTGTAAGACCATAGCTGGGCTATGGCATCAGTAAGTGATATGTGA
* * *
45800215 TTCCGTGTAAGACCATAGCTGGGCTATGGCGTCGGTATGTGATATGTGA
1 TTCCGTGTAAGACCATAGCTGGGCTATGGCATCAGTAAGTGATATGTGA
* * *
45800264 TTACGTGTAAGACCATAGTTGGACTATGGCAT
1 TTCCGTGTAAGACCATAGCTGGGCTATGGCAT
45800296 TGAGAAAATA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (49 bp):
TTCCGTGTAAGACCATAGCTGGGCTATGGCATCAGTAAGTGATATGTGA
Found at i:45805223 original size:18 final size:18
Alignment explanation
Indices: 45805200--45805236 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45805190 TGAATTTTTG
* *
45805200 AATTCAAATAACTCGAAT
1 AATTCAAACAAATCGAAT
45805218 AATTCAAACAAATCGAAT
1 AATTCAAACAAATCGAAT
45805236 A
1 A
45805237 CAAACTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.24
Consensus pattern (18 bp):
AATTCAAACAAATCGAAT
Found at i:45805259 original size:7 final size:7
Alignment explanation
Indices: 45805247--45805272 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45805237 CAAACTATAT
45805247 AATTTTA
1 AATTTTA
45805254 AATTTTA
1 AATTTTA
45805261 AATTTTA
1 AATTTTA
45805268 AATTT
1 AATTT
45805273 ATATTCCCCA
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:45809752 original size:12 final size:12
Alignment explanation
Indices: 45809724--45809761 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
45809714 AGTGTCTAAT
*
45809724 AAAA-ATATAAT
1 AAAATATATAAA
*
45809735 AAAATATGTAAA
1 AAAATATATAAA
45809747 AAAATATATAAA
1 AAAATATATAAA
45809759 AAA
1 AAA
45809762 GTACATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (12 bp):
AAAATATATAAA
Found at i:45813063 original size:51 final size:51
Alignment explanation
Indices: 45812891--45813122 Score: 253
Period size: 51 Copynumber: 4.7 Consensus size: 51
45812881 NNNNNNNNNN
* *
45812891 GTACACGTAGTAGCCTGCACATAGTACTACACACGTGATTGAAGCTATTCA
1 GTACACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCA
* * * * * ** *
45812942 GTACGCATAGTAGCCTGCACATAGTATTGCACATGCGA-CCTATC-ATTCCA
1 GTACACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATT-CA
*
45812992 GTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCA
1 GTACACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCA
** * * *
45813043 GTATGCATAGTAGCCTGCACATAGTACTATACA--TG-T-G-ACCTATCCA
1 GTACACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCA
*
45813089 GTACACGTAGTAGCCTGCACATAGTACTACACAC
1 GTACACATAGTAGCCTGCACATAGTACTACACAC
45813123 ATGACCTAGC
Statistics
Matches: 148, Mismatches: 29, Indels: 12
0.78 0.15 0.06
Matches are distributed among these distances:
46 36 0.24
47 1 0.01
48 1 0.01
49 5 0.03
50 36 0.24
51 66 0.45
52 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (51 bp):
GTACACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCA
Found at i:45813066 original size:101 final size:97
Alignment explanation
Indices: 45812891--45813122 Score: 374
Period size: 101 Copynumber: 2.4 Consensus size: 97
45812881 NNNNNNNNNN
*
45812891 GTACACGTAGTAGCCTGCACATAGTACTACACACGTGATTGAAGCTATTCAGTACGCATAGTAGC
1 GTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCAGTACGCATAGTAGC
* *
45812956 CTGCACATAGTATTGCACATGCGACCTATCATTCCA
66 CTGCACATAGTACTACACATGCGACC--T-A-TCCA
*
45812992 GTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCAGTATGCATAGTAGC
1 GTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCAGTACGCATAGTAGC
* *
45813057 CTGCACATAGTACTATACATGTGACCTATCCA
66 CTGCACATAGTACTACACATGCGACCTATCCA
45813089 GTACACGTAGTAGCCTGCACATAGTACTACACAC
1 GTACACGTAGTAGCCTGCACATAGTACTACACAC
45813123 ATGACCTAGC
Statistics
Matches: 125, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
97 38 0.30
98 1 0.01
99 1 0.01
101 85 0.68
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (97 bp):
GTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCAGTACGCATAGTAGC
CTGCACATAGTACTACACATGCGACCTATCCA
Found at i:45816907 original size:31 final size:30
Alignment explanation
Indices: 45816871--45816942 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
45816861 GATTAAATCA
*
45816871 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACAATTGAACC
* * * * *
45816901 ACAATTAGAGTTTCATGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGAACC
45816932 AAATTAAAGTT
1 AAATTAAAGTT
45816943 CATATAAACA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGAACC
Found at i:45818602 original size:22 final size:22
Alignment explanation
Indices: 45818559--45818609 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
45818549 TATCTTTGTC
*
45818559 TAAATTATTAATAATTTAAAAA
1 TAAATTATTAATAATATAAAAA
45818581 TAAATTATTTAA-ATATATAAAAA
1 TAAATTA-TTAATA-ATATAAAAA
*
45818604 TTAATT
1 TAAATT
45818610 TGAAGGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAATTATTAATAATATAAAAA
Found at i:45825357 original size:57 final size:56
Alignment explanation
Indices: 45825262--45825376 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 56
45825252 ATCACACTAT
* *
45825262 ATAGTTGATTCTTAGTAAATTAGTTACCTAAAACACTGATATTCTATATTAGTTAAG
1 ATAGATGATTCTTAGGAAATTAGTTACCTAAAACACTGATATTCTATA-TAGTTAAG
*
45825319 ATAGATGATTCTTAGGAAATTAGTTACCTAAAATACTGATATTCTATATAGTTAAG
1 ATAGATGATTCTTAGGAAATTAGTTACCTAAAACACTGATATTCTATATAGTTAAG
45825375 AT
1 AT
45825377 TTTGCATGTC
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 10 0.18
57 45 0.82
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (56 bp):
ATAGATGATTCTTAGGAAATTAGTTACCTAAAACACTGATATTCTATATAGTTAAG
Found at i:45827749 original size:22 final size:22
Alignment explanation
Indices: 45827723--45827767 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
45827713 ATTATGTGGA
45827723 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
45827745 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
45827767 T
1 T
45827768 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:45831602 original size:4 final size:4
Alignment explanation
Indices: 45831593--45831626 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
45831583 GAAAATAGGA
*
45831593 TAAC TAAC TAAC TAAC TAAC TAAC TAAC GAAC TA
1 TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC TA
45831627 CTGATTTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.24, G:0.03, T:0.24
Consensus pattern (4 bp):
TAAC
Found at i:45833735 original size:57 final size:56
Alignment explanation
Indices: 45833642--45833810 Score: 230
Period size: 57 Copynumber: 3.0 Consensus size: 56
45833632 CACTGTATAC
* * ** *
45833642 CTGATTCTTAGGAGATTAGTTACCTAAAATAATGATATTCTATACAAGTTAAGATAG
1 CTGATTCTTA-GAAATTAGTTACCTAAAATATTGATATTCTATATTAGTTAAGATAA
* * *
45833699 CTGATTCTTAGAATATTAATTACCTAAAATATTGATATTTTATATTAGTTAAGACAA
1 CTGATTCTTAGAA-ATTAGTTACCTAAAATATTGATATTCTATATTAGTTAAGATAA
*
45833756 CTGATTCTCAAGAAATTAGTTACCTAAAATATTGATATTCTATATTAGTTAAGAT
1 CTGATTCT-TAGAAATTAGTTACCTAAAATATTGATATTCTATATTAGTTAAGAT
45833811 TTTGTATTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
56 2 0.02
57 92 0.94
58 4 0.04
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (56 bp):
CTGATTCTTAGAAATTAGTTACCTAAAATATTGATATTCTATATTAGTTAAGATAA
Found at i:45845264 original size:104 final size:100
Alignment explanation
Indices: 45845145--45845333 Score: 279
Period size: 104 Copynumber: 1.9 Consensus size: 100
45845135 TAGTGCTATA
* * *
45845145 ACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCTAGCTATGGTCTTACATATTTATCTATAC
1 ACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCTAGCTATGGTCTTACAT-TTAAAC-AT--
45845210 TGCCATGGTACAACCATGGTCTTACATTCAAGGTGCCAT
62 TGCCATGGTACAACCATGGTCTTACATTCAAGGTGCCAT
* *
45845249 ACCCAGTTATGGTCTTTTCATTAAAATGTCATAGCCTAGCTATGGTCTTACATTTAAACATTGCC
1 ACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCTAGCTATGGTCTTACATTTAAACATTGCC
* *
45845314 ATGTTCCAACCATGGTCTTA
66 ATGGTACAACCATGGTCTTA
45845334 TCCGTCAATT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
100 22 0.28
102 2 0.03
103 4 0.05
104 50 0.64
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (100 bp):
ACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCTAGCTATGGTCTTACATTTAAACATTGCC
ATGGTACAACCATGGTCTTACATTCAAGGTGCCAT
Found at i:45845306 original size:33 final size:32
Alignment explanation
Indices: 45845225--45845315 Score: 76
Period size: 33 Copynumber: 2.8 Consensus size: 32
45845215 TGGTACAACC
* ** *
45845225 ATGGTCTTACATTCAAGGTGCCATACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATACCCAGCT
* * *
45845257 ATGGTCTTTTCA-TTAAAATGTCATAGCCTAGCT
1 ATGGTC-TTACATTTAAAATGCCATA-CCCAGCT
45845290 ATGGTCTTACATTTAAACATTGCCAT
1 ATGGTCTTACATTTAAA-A-TGCCAT
45845316 GTTCCAACCA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
32 19 0.42
33 20 0.44
34 1 0.02
35 5 0.11
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (32 bp):
ATGGTCTTACATTTAAAATGCCATACCCAGCT
Found at i:45849189 original size:59 final size:59
Alignment explanation
Indices: 45849111--45849230 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
45849101 ACCAAGTTCT
45849111 GAAAGCATTTTTCAGCACATCACACTCTTTAACCTTCAACTAATAATACCCAGATCTGA
1 GAAAGCATTTTTCAGCACATCACACTCTTTAACCTTCAACTAATAATACCCAGATCTGA
*
45849170 GAAAGCATTTTTCAGCACATCACACTCTTTAACCTTCAACTGATAATACCCAGATCTGA
1 GAAAGCATTTTTCAGCACATCACACTCTTTAACCTTCAACTAATAATACCCAGATCTGA
45849229 GA
1 GA
45849231 TCTATCTTCA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (59 bp):
GAAAGCATTTTTCAGCACATCACACTCTTTAACCTTCAACTAATAATACCCAGATCTGA
Found at i:45853071 original size:33 final size:35
Alignment explanation
Indices: 45853007--45853080 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 35
45852997 ACGTTCAAGG
*
45853007 TGCCATAACCCAGTTATGGTCTTTTCATTAAA-A-
1 TGCCATAACCCAGCTATGGTCTTTTCATTAAACAT
*
45853040 TGCCATAGCCCAGCTAT-GT-TTTTCCATTTAAACAT
1 TGCCATAACCCAGCTATGGTCTTTT-CA-TTAAACAT
45853075 TGCCAT
1 TGCCAT
45853081 GGTCTAACCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
31 4 0.11
32 4 0.11
33 20 0.57
34 1 0.03
35 6 0.17
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (35 bp):
TGCCATAACCCAGCTATGGTCTTTTCATTAAACAT
Found at i:45854224 original size:12 final size:12
Alignment explanation
Indices: 45854207--45854231 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45854197 ATGAAACTCC
45854207 AAAAATATTTAT
1 AAAAATATTTAT
45854219 AAAAATATTTAT
1 AAAAATATTTAT
45854231 A
1 A
45854232 GCTCGGTTTA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAATATTTAT
Found at i:45858879 original size:19 final size:19
Alignment explanation
Indices: 45858855--45858891 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
45858845 CATTTTAAGA
45858855 GATTGTTCCCTTTCTCTTC
1 GATTGTTCCCTTTCTCTTC
45858874 GATTGTTCCCTTTCTCTT
1 GATTGTTCCCTTTCTCTT
45858892 TTACTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.30, G:0.11, T:0.54
Consensus pattern (19 bp):
GATTGTTCCCTTTCTCTTC
Found at i:45865697 original size:18 final size:17
Alignment explanation
Indices: 45865660--45865700 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
45865650 AAATGGCTTC
45865660 AAAAATTGTGAAGTTAT
1 AAAAATTGTGAAGTTAT
45865677 AAAAATTGTGAAGTTAT
1 AAAAATTGTGAAGTTAT
*
45865694 TAAAATT
1 AAAAATT
45865701 AAATTAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.37
Consensus pattern (17 bp):
AAAAATTGTGAAGTTAT
Found at i:45865999 original size:6 final size:6
Alignment explanation
Indices: 45865988--45866020 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
45865978 AGATGAAACT
45865988 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAG
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAG
45866021 AACGATTCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:45868823 original size:25 final size:25
Alignment explanation
Indices: 45868771--45868824 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
45868761 AAGTACTTGA
* * **
45868771 ACTTGGCTTCTTGGTTCACATTGGT
1 ACTTGGCTTCTTGGTCCAAATTAAT
*
45868796 ACTTGGCTTTTTGGTCCAAATTAAT
1 ACTTGGCTTCTTGGTCCAAATTAAT
45868821 ACTT
1 ACTT
45868825 TTTGTGAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (25 bp):
ACTTGGCTTCTTGGTCCAAATTAAT
Found at i:45868916 original size:32 final size:31
Alignment explanation
Indices: 45868851--45868914 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
45868841 TTGAACCATG
* *
45868851 AAGCTAAGTTTAGGTACTAATTGGAATAAAA
1 AAGCCAAGTTCAGGTACTAATTGGAATAAAA
45868882 AAGCCAAGTTCAGGTACCTAATTGG-ATAAAA
1 AAGCCAAGTTCAGGTA-CTAATTGGAATAAAA
45868913 AA
1 AA
45868915 AGTTTAGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (31 bp):
AAGCCAAGTTCAGGTACTAATTGGAATAAAA
Found at i:45884149 original size:31 final size:29
Alignment explanation
Indices: 45884079--45884152 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
45884069 GGCTCAAGTT
* *
45884079 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
45884108 ACGTTTTAGTCACTTATGTTATCATGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
45884139 ACATTTTAGTCACT
1 ACATTTTAGTCACT
45884153 GAGCTGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:45886117 original size:15 final size:16
Alignment explanation
Indices: 45886097--45886126 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45886087 TAACAAAAAG
45886097 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
45886112 AACCCAATAACCCAC
1 AACCCAATAACCCAC
45886127 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:45887054 original size:8 final size:8
Alignment explanation
Indices: 45887041--45887074 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
45887031 CATAATATAT
45887041 ATATTTTC
1 ATATTTTC
45887049 ATATTTTC
1 ATATTTTC
45887057 ATATTTT-
1 ATATTTTC
45887064 ATGATTTTC
1 AT-ATTTTC
45887073 AT
1 AT
45887075 CTATTTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 2 0.08
8 20 0.83
9 2 0.08
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (8 bp):
ATATTTTC
Found at i:45887491 original size:108 final size:109
Alignment explanation
Indices: 45887292--45887594 Score: 527
Period size: 108 Copynumber: 2.8 Consensus size: 109
45887282 AAATATTTCT
* * *
45887292 AAATGAGGCAATGTTTTGCGTTTGGAAGTTCGAGAAAACATGTCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
45887357 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTT-AAATTTTTA
66 TTTCTCGTTCAACCAAATAGCATAATATCCTTTTAAAATTTTTA
*
45887400 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTTGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
45887465 TTTCTCGTTCAACCAAATGGCATAATATCCTTTTAAAATTTTTA
66 TTTCTCGTTCAACCAAATAGCATAATATCCTTTTAAAATTTTTA
* *
45887509 AAATAAGGCAATGTTTTACGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
45887574 TTTCTCGTTCAACCAAATAGC
66 TTTCTCGTTCAACCAAATAGC
45887595 TAAACATCCT
Statistics
Matches: 184, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
108 93 0.51
109 91 0.49
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCATAATATCCTTTTAAAATTTTTA
Found at i:45887604 original size:109 final size:108
Alignment explanation
Indices: 45887292--45887613 Score: 520
Period size: 109 Copynumber: 3.0 Consensus size: 108
45887282 AAATATTTCT
* * *
45887292 AAATGAGGCAATGTTTTGCGTTTGGAAGTTCGAGAAAACATGTCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
45887357 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAATTTTTA
*
45887400 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTTGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
45887465 TTTCTCGTTCAACCAAATGGC-ATAATATCCTTTTAAAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTA-AATATCCTTTT-AAATTTTTA
* *
45887509 AAATAAGGCAATGTTTTACGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * *
45887574 TTTCTCGTTCAACCAAATAGCTAAACATCCTCTTGAATTT
66 TTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAATTT
45887614 AAATTCATGC
Statistics
Matches: 198, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
108 97 0.49
109 100 0.51
110 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (108 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAATTTTTA
Found at i:45890307 original size:26 final size:27
Alignment explanation
Indices: 45890252--45890300 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
45890242 ATAAAATACA
*
45890252 TCTTTGCATTCCTTTTTGAGCTAATAT
1 TCTTTGCATTCCTTTTTGAGATAATAT
45890279 TCTTT-CATT-CTTTTTGA-ATAAT
1 TCTTTGCATTCCTTTTTGAGATAAT
45890301 TATTTCTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 4 0.19
27 5 0.24
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (27 bp):
TCTTTGCATTCCTTTTTGAGATAATAT
Found at i:45893031 original size:46 final size:45
Alignment explanation
Indices: 45892955--45893166 Score: 247
Period size: 46 Copynumber: 4.8 Consensus size: 45
45892945 ATAAAATAGA
*
45892955 ACATACAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
1 ACAT-CAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
* * * *
45893001 ACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG
1 AC-ATCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
* * * *
45893047 ACAT--GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---G
1 ACATCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
*
45893087 -CATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
1 ACATCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
* *
45893131 ACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAG
1 AC-ATCAGATCTTATCTCCCTGAGGTTACAGTGGAG
45893167 NNNNNNNNNN
Statistics
Matches: 139, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.02
40 1 0.01
41 30 0.22
43 30 0.22
44 1 0.01
45 2 0.01
46 71 0.51
47 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (45 bp):
ACATCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
Found at i:45893106 original size:84 final size:86
Alignment explanation
Indices: 45892964--45893161 Score: 229
Period size: 84 Copynumber: 2.3 Consensus size: 86
45892954 AACATACAGG
* * * *
45892964 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAAGTTACAGTAGAGTAGATC---G-C-ATCAGATCTTATCTCCCTGAGGTTA
*
45893029 CAGCGGAGCAGATCGAAGAC-AT-GA
61 CAGCGGAGCAGACCGAAGACTATAGA
* * *
45893053 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTG
1 TCTTATCTCCCTGAAGTTACAGTAGAGTAGATCGCATCAGATCTTATCTCCCTGAGGTTACAGCG
* *
45893118 GAGTAGACCGAAGACTTTCAGA
66 GAGCAGACCGAAGACTAT-AGA
*
45893140 TCTTATCTCCCTGAGGTTACAG
1 TCTTATCTCCCTGAAGTTACAG
45893162 CGGAGNNNNN
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
84 40 0.43
85 2 0.02
86 1 0.01
87 22 0.23
89 29 0.31
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (86 bp):
TCTTATCTCCCTGAAGTTACAGTAGAGTAGATCGCATCAGATCTTATCTCCCTGAGGTTACAGCG
GAGCAGACCGAAGACTATAGA
Found at i:45895451 original size:44 final size:44
Alignment explanation
Indices: 45895388--45895793 Score: 233
Period size: 43 Copynumber: 9.3 Consensus size: 44
45895378 GACATAATCC
* *
45895388 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGACCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCT
* * * *** *
45895432 TATCTCTCTGAAGTTACAGTAGAGTAGA-TCGCAT-CAGG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCT
* * * ** **
45895473 TATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTTCA-GATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA-TAAAGGATCT
* * * * * *
45895519 TATCTCCCTGAGGTTACAGCGGAGCAGATCAAAGACATA--ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ATAAAGGATCT
*
45895562 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCT
* * * * * *
45895606 TATCTCTCTGAAGTTACAGTAGAGTAGA-TCACAT-CAGG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCT
* * * * * ** **
45895647 TATTTCCCTGAGGTTATAGCGGAGTAGACCGAAGAATTGCA-GATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA-TAAAGGATCT
* * * * *
45895693 TATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACATA--ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ATAAAGGATCT
* * *
45895736 TATCTCCCTAAAGTTACAGTGGAGCGGATTAAAATAAAGAATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCT
*
45895780 TATCTCTCTGAAGT
1 TATCTCCCTGAAGT
45895794 GGCAGTAGAG
Statistics
Matches: 279, Mismatches: 65, Indels: 36
0.73 0.17 0.09
Matches are distributed among these distances:
41 51 0.18
42 12 0.04
43 72 0.26
44 72 0.26
45 10 0.04
46 62 0.22
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCT
Found at i:45895522 original size:46 final size:45
Alignment explanation
Indices: 45895465--45895716 Score: 207
Period size: 46 Copynumber: 5.7 Consensus size: 45
45895455 GTAGATCGCA
*
45895465 TCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAA-T
* * *
45895511 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCAAAGACA-
1 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGA-AT
* * * ** **
45895556 T-A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AAT
1 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAAT
** * * ** * *
45895597 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC--A-CA-
1 TCA-GATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAAT
* * *
45895639 TCAGGTCTTATTTCCCTGAGGTTATAGCGGAGTAGACCGAAGAAT
1 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAAT
45895684 TGCAGATCTTATCTCCCTGAGGTTACAGCGGAG
1 T-CAGATCTTATCTCCCTGAGGTTACAGCGGAG
45895717 CAGATTAAAG
Statistics
Matches: 163, Mismatches: 32, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
40 1 0.01
41 28 0.17
42 4 0.02
43 31 0.19
44 29 0.18
45 2 0.01
46 67 0.41
47 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (45 bp):
TCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAAT
Found at i:45895670 original size:174 final size:174
Alignment explanation
Indices: 45895376--45895844 Score: 776
Period size: 174 Copynumber: 2.7 Consensus size: 174
45895366 NNNNNNNNNN
*
45895376 AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGACCTTATCTCTCT
1 AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCT
*
45895441 GAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAA
66 GAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAA
*
45895506 GAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCA
131 GAATTGCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCA
45895550 AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCT
1 AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCT
* *
45895615 GAAGTTACAGTAGAGTAGATCACATCAGGTCTTATTTCCCTGAGGTTATAGCGGAGTAGACCGAA
66 GAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAA
*
45895680 GAATTGCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTA
131 GAATTGCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCA
* *
45895724 AAGACATAATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCT
1 AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCT
** * * * ** * *
45895789 GAAGTGGCAGTAGAGTAGATTACGTCCAAGTCAGATCTCCCTGAAGTTGCAGCGGA
66 GAAGTTACAGTAGAGTAGATCACAT-CAGGTCTTATCTCCCTGAGGTTACAGCGGA
45895845 ATGGATAGAA
Statistics
Matches: 275, Mismatches: 19, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
174 252 0.92
175 23 0.08
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (174 bp):
AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCT
GAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAA
GAATTGCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCA
Found at i:45895784 original size:87 final size:86
Alignment explanation
Indices: 45895376--45895793 Score: 353
Period size: 87 Copynumber: 4.8 Consensus size: 86
45895366 NNNNNNNNNN
*
45895376 AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGACCTTATCTCTCT
1 AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAA-GATCTTATCTCTCT
* *
45895441 GAAGTTACAGTAGAGTAGATC-
65 GAAGTTACAGCAGAGCAGATCA
* * * * ** ** **
45895462 --G-CATCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTTCAGATCTTATCT
1 AAGACAT-A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGATCTTATCT
* * *
45895524 CCCTGAGGTTACAGCGGAGCAGATCA
61 CTCTGAAGTTACAGCAGAGCAGATCA
45895550 AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCT
1 AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAA-GATCTTATCTCTCT
* *
45895615 GAAGTTACAGTAGAGTAGATCA
65 GAAGTTACAGCAGAGCAGATCA
* * ** * * * * * ** ** ** *
45895637 CA-TCA-GGTCTTATTTCCCTGAGGTTATAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCC
1 AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGATCTTATCTCT
* * *
45895700 CTGAGGTTACAGCGGAGCAGATTA
63 CTGAAGTTACAGCAGAGCAGATCA
*
45895724 AAGACATAATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCT
1 AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG-ATCTTATCTCTCT
45895789 GAAGT
65 GAAGT
45895794 GGCAGTAGAG
Statistics
Matches: 246, Mismatches: 70, Indels: 31
0.71 0.20 0.09
Matches are distributed among these distances:
83 3 0.01
84 2 0.01
85 50 0.20
86 11 0.04
87 116 0.47
88 10 0.04
89 49 0.20
90 2 0.01
91 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (86 bp):
AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGATCTTATCTCTCTG
AAGTTACAGCAGAGCAGATCA
Found at i:45896058 original size:15 final size:16
Alignment explanation
Indices: 45896038--45896067 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45896028 TAACAAAAAG
45896038 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
45896053 AACCCAATAACCCAC
1 AACCCAATAACCCAC
45896068 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:45897503 original size:8 final size:8
Alignment explanation
Indices: 45897490--45897523 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
45897480 CATAATATAT
45897490 ATATTTTC
1 ATATTTTC
45897498 ATATTTTC
1 ATATTTTC
45897506 ATATTTT-
1 ATATTTTC
45897513 ATGATTTTC
1 AT-ATTTTC
45897522 AT
1 AT
45897524 CTATTTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 2 0.08
8 20 0.83
9 2 0.08
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (8 bp):
ATATTTTC
Found at i:45897596 original size:16 final size:17
Alignment explanation
Indices: 45897563--45897612 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 17
45897553 CATGTGTATT
* *
45897563 TGTT-TATTTATTTATA
1 TGTTCTATTTTTTTTTA
45897579 TG-TCTATTTTTTTTTA
1 TGTTCTATTTTTTTTTA
* *
45897595 TGTTTTAGTTTTTTTTA
1 TGTTCTATTTTTTTTTA
45897612 T
1 T
45897613 TATTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 1 0.04
16 14 0.50
17 13 0.46
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.74
Consensus pattern (17 bp):
TGTTCTATTTTTTTTTA
Found at i:45897633 original size:18 final size:18
Alignment explanation
Indices: 45897586--45897624 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
45897576 ATATGTCTAT
*
45897586 TTTTTTTTA-TGTTTTAG
1 TTTTTTTTATTATTTTAG
45897603 TTTTTTTTATTATTTTA-
1 TTTTTTTTATTATTTTAG
45897620 TTTTT
1 TTTTT
45897625 ATTTGTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTTTTATTATTTTAG
Found at i:45897948 original size:108 final size:109
Alignment explanation
Indices: 45897752--45898064 Score: 529
Period size: 108 Copynumber: 2.9 Consensus size: 109
45897742 AAATATTTCT
* * *
45897752 AAATGAGGCAATGTTTTGCGTTTGGAAGTTCGAGAAAACATGCCCTAAGGTGTTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
45897817 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAA-TTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
*
45897860 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTTGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
45897925 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
* *
45897969 AAATAAGGCAATGTTTTACGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * *
45898034 TTTCTTGTTCAACCAAATAGCTAAACATCCT
66 TTTCTCGTTCAACCAAATAGCTTAATATCCT
45898065 CTTGAATTTA
Statistics
Matches: 192, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
108 98 0.51
109 94 0.49
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
Found at i:45900737 original size:25 final size:26
Alignment explanation
Indices: 45900626--45900737 Score: 163
Period size: 26 Copynumber: 4.3 Consensus size: 26
45900616 TTTACCTCAG
*
45900626 TAAAATTTTTGACAATTTTATCCCGGA
1 TAAAA-TTTTGACAATTTTATCCCGAA
45900653 TAAAATTTTGACAATTTTATCCCGAA
1 TAAAATTTTGACAATTTTATCCCGAA
*
45900679 TAAAATTTTGACAATTTTATCCTGAA
1 TAAAATTTTGACAATTTTATCCCGAA
** *
45900705 TAAAATTTTGATGATTTTA-CCCCAA
1 TAAAATTTTGACAATTTTATCCCGAA
45900730 TAAAATTT
1 TAAAATTT
45900738 CAAGAAAATT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 12 0.15
26 62 0.78
27 5 0.06
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (26 bp):
TAAAATTTTGACAATTTTATCCCGAA
Found at i:45900916 original size:18 final size:18
Alignment explanation
Indices: 45900882--45900915 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45900872 AGATTGGAAG
*
45900882 TTTCCATTTTCAATTTTA
1 TTTCCATTTCCAATTTTA
45900900 TTTCCATTTCC-ATTTT
1 TTTCCATTTCCAATTTT
45900916 TGGAAACCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTCCATTTCCAATTTTA
Found at i:45908933 original size:28 final size:28
Alignment explanation
Indices: 45908889--45908946 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
45908879 ATTATCACAT
* *
45908889 AAGTTTGCTGCATTAAAGTGATGTTTAG
1 AAGTATGCTGCAATAAAGTGATGTTTAG
45908917 AAGTATGCTGCAATAAAGTGATGTTTAG
1 AAGTATGCTGCAATAAAGTGATGTTTAG
45908945 AA
1 AA
45908947 CCAATTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (28 bp):
AAGTATGCTGCAATAAAGTGATGTTTAG
Found at i:45913869 original size:15 final size:15
Alignment explanation
Indices: 45913849--45913877 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45913839 TGTTGCTTTC
45913849 TTATTTTGTTTTATG
1 TTATTTTGTTTTATG
45913864 TTATTTTGTTTTAT
1 TTATTTTGTTTTAT
45913878 TATTAGTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (15 bp):
TTATTTTGTTTTATG
Found at i:45927747 original size:613 final size:613
Alignment explanation
Indices: 45926582--45927808 Score: 2454
Period size: 613 Copynumber: 2.0 Consensus size: 613
45926572 CTACACAATG
45926582 CTTCTCACACAAGCTGTCAAGTAACTGTAGCACATGCTGGAAACTCAGCCACTGGTAGGACGCAC
1 CTTCTCACACAAGCTGTCAAGTAACTGTAGCACATGCTGGAAACTCAGCCACTGGTAGGACGCAC
45926647 AAGACCAGCACCCGAAACACGGTAACCCCTAATGACATGTCATTTGTATCCTATATATTCCTAAG
66 AAGACCAGCACCCGAAACACGGTAACCCCTAATGACATGTCATTTGTATCCTATATATTCCTAAG
45926712 GTACAAACGAGATCCGAAAGTAGCCGAAACTTCGTTGAATATTGGTGTAGAGTCATAATACCAAG
131 GTACAAACGAGATCCGAAAGTAGCCGAAACTTCGTTGAATATTGGTGTAGAGTCATAATACCAAG
45926777 ACTATAACATAAAAGCATTTAAATCAAACATAATTCAATGCTAATTAAATATACGAACTTACCTA
196 ACTATAACATAAAAGCATTTAAATCAAACATAATTCAATGCTAATTAAATATACGAACTTACCTA
45926842 AACCACGAACAGAGAAATAAAACTCATTAATCCAATACTTTTTCTTTTCCCCGATCTAAATCTGT
261 AACCACGAACAGAGAAATAAAACTCATTAATCCAATACTTTTTCTTTTCCCCGATCTAAATCTGT
45926907 ACGTTGCTTTTCTTTATCTATATAATCAAATTTAACTAATTCAAACTTCACTCTATTCAATTTAA
326 ACGTTGCTTTTCTTTATCTATATAATCAAATTTAACTAATTCAAACTTCACTCTATTCAATTTAA
45926972 TCCAAAAATCATATTTTAAAAAAATTACGCTTTTGCCCATAAAATTTTGAATTCACTACAATTTA
391 TCCAAAAATCATATTTTAAAAAAATTACGCTTTTGCCCATAAAATTTTGAATTCACTACAATTTA
45927037 GTCCTTAGTTCATAAAACGAAAATTCATGAAATTCTCCATTAACCCTCCATAGCCGAATTTCATA
456 GTCCTTAGTTCATAAAACGAAAATTCATGAAATTCTCCATTAACCCTCCATAGCCGAATTTCATA
45927102 TAGGTCCCTAGCAAGCCCTACATTTCATTTATTTCACAATTTCACCATGAATATTTTTTATTTTT
521 TAGGTCCCTAGCAAGCCCTACATTTCATTTATTTCACAATTTCACCATGAATATTTTTTATTTTT
45927167 CAATTAAATCCCTAATTGACAATTTCAT
586 CAATTAAATCCCTAATTGACAATTTCAT
45927195 CTTCTCACACAAGCTGTCAAGTAACTGTAGCACATGCTGGAAACTCAGCCACTGGTAGGACGCAC
1 CTTCTCACACAAGCTGTCAAGTAACTGTAGCACATGCTGGAAACTCAGCCACTGGTAGGACGCAC
45927260 AAGACCAGCACCCGAAACACGGTAACCCCTAATGACATGTCATTTGTATCCTATATATTCCTAAG
66 AAGACCAGCACCCGAAACACGGTAACCCCTAATGACATGTCATTTGTATCCTATATATTCCTAAG
45927325 GTACAAACGAGATCCGAAAGTAGCCGAAACTTCGTTGAATATTGGTGTAGAGTCATAATACCAAG
131 GTACAAACGAGATCCGAAAGTAGCCGAAACTTCGTTGAATATTGGTGTAGAGTCATAATACCAAG
45927390 ACTATAACATAAAAGCATTTAAATCAAACATAATTCAATGCTAATTAAATATACGAACTTACCTA
196 ACTATAACATAAAAGCATTTAAATCAAACATAATTCAATGCTAATTAAATATACGAACTTACCTA
45927455 AACCACGAACAGAGAAATAAAACTCATTAATCCAATACTTTTTCTTTTCCCCGATCTAAATCTGT
261 AACCACGAACAGAGAAATAAAACTCATTAATCCAATACTTTTTCTTTTCCCCGATCTAAATCTGT
45927520 ACGTTGCTTTTCTTTATCTATATAATCAAATTTAACTAATTCAAACTTCACTCTATTCAATTTAA
326 ACGTTGCTTTTCTTTATCTATATAATCAAATTTAACTAATTCAAACTTCACTCTATTCAATTTAA
45927585 TCCAAAAATCATATTTTAAAAAAATTACGCTTTTGCCCATAAAATTTTGAATTCACTACAATTTA
391 TCCAAAAATCATATTTTAAAAAAATTACGCTTTTGCCCATAAAATTTTGAATTCACTACAATTTA
45927650 GTCCTTAGTTCATAAAACGAAAATTCATGAAATTCTCCATTAACCCTCCATAGCCGAATTTCATA
456 GTCCTTAGTTCATAAAACGAAAATTCATGAAATTCTCCATTAACCCTCCATAGCCGAATTTCATA
45927715 TAGGTCCCTAGCAAGCCCTACATTTCATTTATTTCACAATTTCACCATGAATATTTTTTATTTTT
521 TAGGTCCCTAGCAAGCCCTACATTTCATTTATTTCACAATTTCACCATGAATATTTTTTATTTTT
45927780 CAATTAAATCCCTAATTGACAATTTCAT
586 CAATTAAATCCCTAATTGACAATTTCAT
45927808 C
1 C
45927809 AAAAATTACT
Statistics
Matches: 614, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
613 614 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (613 bp):
CTTCTCACACAAGCTGTCAAGTAACTGTAGCACATGCTGGAAACTCAGCCACTGGTAGGACGCAC
AAGACCAGCACCCGAAACACGGTAACCCCTAATGACATGTCATTTGTATCCTATATATTCCTAAG
GTACAAACGAGATCCGAAAGTAGCCGAAACTTCGTTGAATATTGGTGTAGAGTCATAATACCAAG
ACTATAACATAAAAGCATTTAAATCAAACATAATTCAATGCTAATTAAATATACGAACTTACCTA
AACCACGAACAGAGAAATAAAACTCATTAATCCAATACTTTTTCTTTTCCCCGATCTAAATCTGT
ACGTTGCTTTTCTTTATCTATATAATCAAATTTAACTAATTCAAACTTCACTCTATTCAATTTAA
TCCAAAAATCATATTTTAAAAAAATTACGCTTTTGCCCATAAAATTTTGAATTCACTACAATTTA
GTCCTTAGTTCATAAAACGAAAATTCATGAAATTCTCCATTAACCCTCCATAGCCGAATTTCATA
TAGGTCCCTAGCAAGCCCTACATTTCATTTATTTCACAATTTCACCATGAATATTTTTTATTTTT
CAATTAAATCCCTAATTGACAATTTCAT
Found at i:45935403 original size:27 final size:27
Alignment explanation
Indices: 45935355--45935408 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
45935345 TATTTTCCAG
* *
45935355 TAGGCTTGGCGAGTTGATGTTCACCAA
1 TAGGCCTGGCGAGTAGATGTTCACCAA
*
45935382 TAGGCCTGGCGAGCTAGA-GTTCGCCAA
1 TAGGCCTGGCGAG-TAGATGTTCACCAA
45935409 AATGCCTGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.24
Consensus pattern (27 bp):
TAGGCCTGGCGAGTAGATGTTCACCAA
Found at i:45938699 original size:20 final size:20
Alignment explanation
Indices: 45938676--45938783 Score: 67
Period size: 20 Copynumber: 5.3 Consensus size: 20
45938666 AAAGTGTATT
45938676 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
45938696 CAGGGGCA-CGTATGTGCAATT
1 CAGGGGTACCG-AAGTACAA-A
*
45938717 CAAGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * *
45938737 TAGGGG-AACGTATGTGCAATT
1 CAGGGGTACCG-AAGTACAA-A
*
45938758 CAGGGGTATCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
45938778 CAGGGG
1 CAGGGG
45938784 CACGTATGTG
Statistics
Matches: 62, Mismatches: 20, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
19 5 0.08
20 29 0.47
21 23 0.37
22 5 0.08
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:45938727 original size:41 final size:41
Alignment explanation
Indices: 45938673--45938963 Score: 377
Period size: 41 Copynumber: 7.1 Consensus size: 41
45938663 ACAAAAGTGT
45938673 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* * *
45938714 ATTCAAGGGTACCGAAGTACAAATAGGGGAACGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
*
45938755 ATTCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* * * * * * *
45938796 ATTCAAGGGTACCAAAGTATAAACGGGGGCACATAGGTGAA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* *
45938837 ATTCAGGGGTACCGAAGTACAAATAGGGGCATGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* * * *
45938878 A-TCAGGGGTACCAAAGTACAAACGGGGGCATGTGTGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* * * * *
45938918 ATTTAGGGGTACTGAAGTACAAACGGGGGCACATAGGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
45938959 ATTCA
1 ATTCA
45938964 CAATAATCTT
Statistics
Matches: 213, Mismatches: 36, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 36 0.17
41 177 0.83
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.19
Consensus pattern (41 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
Found at i:45938942 original size:122 final size:123
Alignment explanation
Indices: 45938673--45938963 Score: 422
Period size: 122 Copynumber: 2.4 Consensus size: 123
45938663 ACAAAAGTGT
* * *
45938673 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAAT
1 ATTCAGGGGTACCGAAGTACAAACGGGGGCACATAGGTGCAATTCAAGGGTACCGAAGTACAAAT
* *
45938738 AGGGGAACGTATGTGCAATTCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCA
66 AGGGGAACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * * *
45938796 ATTCAAGGGTACCAAAGTATAAACGGGGGCACATAGGTGAAATTCAGGGGTACCGAAGTACAAAT
1 ATTCAGGGGTACCGAAGTACAAACGGGGGCACATAGGTGCAATTCAAGGGTACCGAAGTACAAAT
* * * * *
45938861 AGGGGCATGTATGTGCAA-TCAGGGGTACCAAAGTACAAACGGGGGCATGTGTGTGCA
66 AGGGGAACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* *
45938918 ATTTAGGGGTACTGAAGTACAAACGGGGGCACATAGGTGCAATTCA
1 ATTCAGGGGTACCGAAGTACAAACGGGGGCACATAGGTGCAATTCA
45938964 CAATAATCTT
Statistics
Matches: 147, Mismatches: 21, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
122 74 0.50
123 73 0.50
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.19
Consensus pattern (123 bp):
ATTCAGGGGTACCGAAGTACAAACGGGGGCACATAGGTGCAATTCAAGGGTACCGAAGTACAAAT
AGGGGAACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
Found at i:45941991 original size:5 final size:5
Alignment explanation
Indices: 45941981--45942006 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45941971 TAGTTTTATC
45941981 TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT T
45942007 CTATAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:45945236 original size:25 final size:25
Alignment explanation
Indices: 45945202--45945250 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
45945192 CTCAAATCAC
*
45945202 GAGCATTAAAGATGATAAAGCATTT
1 GAGCATTAAAGATGATAAAACATTT
45945227 GAGCATTAAAGATGATAAAACATT
1 GAGCATTAAAGATGATAAAACATT
45945251 CACCCTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (25 bp):
GAGCATTAAAGATGATAAAACATTT
Found at i:45945762 original size:43 final size:43
Alignment explanation
Indices: 45945714--45945800 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
45945704 GGATAAAATG
* *
45945714 TTAAGTTATCTTCCCGAAATTGCCATGACAATTCTGTTGGCAA
1 TTAAGTCATCTTCCCGAAATTGCCATGACAATTCTATTGGCAA
* *
45945757 TTAAGTCATCTTCTCGAAATTGCCATGGCAATTCTATTGGCAA
1 TTAAGTCATCTTCCCGAAATTGCCATGACAATTCTATTGGCAA
45945800 T
1 T
45945801 CAATCTCACC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (43 bp):
TTAAGTCATCTTCCCGAAATTGCCATGACAATTCTATTGGCAA
Found at i:45946733 original size:15 final size:15
Alignment explanation
Indices: 45946713--45946749 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
45946703 CACCCATTCA
45946713 ACCTACTATTGTGAC
1 ACCTACTATTGTGAC
*
45946728 ACCTACTGTTGTGAC
1 ACCTACTATTGTGAC
45946743 ACCTACT
1 ACCTACT
45946750 CAAACTGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (15 bp):
ACCTACTATTGTGAC
Found at i:45967002 original size:28 final size:26
Alignment explanation
Indices: 45966931--45967104 Score: 109
Period size: 27 Copynumber: 6.4 Consensus size: 26
45966921 TTTAGACTGC
*
45966931 GCCACAAAGGTCTTCCTTT-TCAGAGATA
1 GCCACAAAGG-C-TCCTTTAT-AGAGATT
* * * *
45966959 GTCATAAACGCTTCCTTTAATAGAGATC
1 GCCACAAAGGC-TCCTTT-ATAGAGATT
**
45966987 GCCACAAAGGCATCCTTTATAGATTTT
1 GCCACAAAGGC-TCCTTTATAGAGATT
*
45967014 GCCACAAAAGCTCCATTTATAGAGATT
1 GCCACAAAGGCTCC-TTTATAGAGATT
* * *
45967041 GTCACAAAGACTCCCTTT-TCAGATATT
1 GCCACAAAGGCT-CCTTTAT-AGAGATT
* * * *
45967068 GTCACAAAGGCTTCCTTTACAAAGACT
1 GCCACAAAGGC-TCCTTTATAGAGATT
45967095 GCCACAAAGG
1 GCCACAAAGG
45967105 TGTTTCTTCC
Statistics
Matches: 115, Mismatches: 24, Indels: 15
0.75 0.16 0.10
Matches are distributed among these distances:
26 4 0.03
27 80 0.70
28 30 0.26
29 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (26 bp):
GCCACAAAGGCTCCTTTATAGAGATT
Found at i:45968512 original size:15 final size:16
Alignment explanation
Indices: 45968479--45968509 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45968469 ATCTTGCATG
*
45968479 GATTAATTTTTTATTT
1 GATTAAGTTTTTATTT
45968495 GATTAAGTTTTTATT
1 GATTAAGTTTTTATT
45968510 GATATTCGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (16 bp):
GATTAAGTTTTTATTT
Found at i:45969027 original size:12 final size:12
Alignment explanation
Indices: 45969010--45969038 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
45969000 GCATGGTCAA
45969010 ATTGTTGGCACC
1 ATTGTTGGCACC
45969022 ATTGTTGGCACC
1 ATTGTTGGCACC
45969034 ATTGT
1 ATTGT
45969039 AACGATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (12 bp):
ATTGTTGGCACC
Found at i:45969112 original size:55 final size:56
Alignment explanation
Indices: 45969006--45969118 Score: 192
Period size: 55 Copynumber: 2.0 Consensus size: 56
45968996 CATAGCATGG
45969006 TCAAATTGTTGGCACCATTGTTGGCACCATTGTAACGATGTAAAAGAATTATTAAGT
1 TCAAATTGTTGGCACCATTGTTGG-ACCATTGTAACGATGTAAAAGAATTATTAAGT
**
45969063 TCAAATTGTTGGCACCATTGTTGG-GGATTGTAACGATGTAAAAGAATTATTAAGT
1 TCAAATTGTTGGCACCATTGTTGGACCATTGTAACGATGTAAAAGAATTATTAAGT
45969118 T
1 T
45969119 AATTTTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
55 30 0.56
57 24 0.44
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (56 bp):
TCAAATTGTTGGCACCATTGTTGGACCATTGTAACGATGTAAAAGAATTATTAAGT
Found at i:45978693 original size:36 final size:36
Alignment explanation
Indices: 45978653--45978723 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
45978643 GGCATTGGCC
* *
45978653 ATCTTGAAAATAAAAGAAGAGTTGTTATTAAAATTA
1 ATCTTGAAAAGAAAAGAAAAGTTGTTATTAAAATTA
45978689 ATCTTGAAAAGAAAAGAAAAGTTGTTATTAAAATT
1 ATCTTGAAAAGAAAAGAAAAGTTGTTATTAAAATT
45978724 CTAACGGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (36 bp):
ATCTTGAAAAGAAAAGAAAAGTTGTTATTAAAATTA
Found at i:45988042 original size:62 final size:61
Alignment explanation
Indices: 45987972--45988098 Score: 193
Period size: 62 Copynumber: 2.0 Consensus size: 61
45987962 TCGTATTACT
* *
45987972 AAATTCACATTAAAAAATAAAAAATA-AAAATAAAATAAAATTTGTTATAATTATACATTTAA
1 AAATTCACATT-AAAAATAAAAAA-ACAAAATAAAACAAAAATTGTTATAATTATACATTTAA
*
45988034 AAATTCACATTAAAAATAAAAAAACTAAATTAAAACAAAAATTGTTATAATTATACATTTAA
1 AAATTCACATTAAAAATAAAAAAAC-AAAATAAAACAAAAATTGTTATAATTATACATTTAA
45988096 AAA
1 AAA
45988099 AATTATAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
60 1 0.02
61 12 0.20
62 47 0.78
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (61 bp):
AAATTCACATTAAAAATAAAAAAACAAAATAAAACAAAAATTGTTATAATTATACATTTAA
Found at i:45988173 original size:18 final size:17
Alignment explanation
Indices: 45988122--45988178 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
45988112 TAGAAGCTGC
*
45988122 AATAATTATTTGTTTAAA
1 AATAATTATTAG-TTAAA
* *
45988140 AATAATTATAACTTAATA
1 AATAATTATTAGTTAA-A
*
45988158 TATAATTATTAGTTAAA
1 AATAATTATTAGTTAAA
45988175 AATA
1 AATA
45988179 TTGTGTTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 8 0.26
18 23 0.74
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (17 bp):
AATAATTATTAGTTAAA
Found at i:45992950 original size:4 final size:4
Alignment explanation
Indices: 45992941--45992967 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
45992931 TTGGATTAAA
45992941 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
45992968 AGAGAGAGAG
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:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:45999482 original size:25 final size:25
Alignment explanation
Indices: 45999468--45999561 Score: 125
Period size: 25 Copynumber: 3.8 Consensus size: 25
45999458 GTCTTGATAT
45999468 TTGGCTCTCACGAGCTTCCCAATAC
1 TTGGCTCTCACGAGCTTCCCAATAC
*
45999493 TTGGCACTCACGAGCTTCCCAATAC
1 TTGGCTCTCACGAGCTTCCCAATAC
* ** *
45999518 TTGGCTCTCACGAGCTTTCCGTTAT
1 TTGGCTCTCACGAGCTTCCCAATAC
* *
45999543 TTAGCTCTCATGAGCTTCC
1 TTGGCTCTCACGAGCTTCC
45999562 TGATTAATGA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.18, C:0.33, G:0.17, T:0.32
Consensus pattern (25 bp):
TTGGCTCTCACGAGCTTCCCAATAC
Found at i:46005330 original size:17 final size:17
Alignment explanation
Indices: 46005288--46005330 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
46005278 TTTCCAATTT
*
46005288 TTATAAATATTATATAA
1 TTATAAATATTATAAAA
*
46005305 TTAAAAATATTA-AAAA
1 TTATAAATATTATAAAA
46005321 TTATACAATA
1 TTATA-AATA
46005331 ATGCTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TTATAAATATTATAAAA
Found at i:46006205 original size:15 final size:15
Alignment explanation
Indices: 46006164--46006211 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
46006154 ATGACTTAAA
*
46006164 TTCAACACTTAATTT
1 TTCAATACTTAATTT
* *
46006179 TTTAATATTTAATTT
1 TTCAATACTTAATTT
*
46006194 TTCAGTACTTAATATT
1 TTCAATACTTAAT-TT
46006210 TT
1 TT
46006212 AGTTTATCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.56
Consensus pattern (15 bp):
TTCAATACTTAATTT
Found at i:46021983 original size:20 final size:19
Alignment explanation
Indices: 46021958--46022010 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
46021948 TTAATCATAT
*
46021958 TTAAAATGTAATTTCATTTA
1 TTAAAAT-TAATTTCACTTA
*
46021978 TTAAAAATTATTTTCACTTA
1 TT-AAAATTAATTTCACTTA
*
46021998 ATAAAATATAATT
1 TTAAAAT-TAATT
46022011 AATATTATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 5 0.19
20 17 0.63
21 5 0.19
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (19 bp):
TTAAAATTAATTTCACTTA
Found at i:46021984 original size:21 final size:20
Alignment explanation
Indices: 46021955--46022003 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
46021945 TCTTTAATCA
* *
46021955 TATTTAAAATGTAATTTCATT
1 TATTAAAAAT-TAATTTCACT
*
46021976 TATTAAAAATTATTTTCACT
1 TATTAAAAATTAATTTCACT
*
46021996 TAATAAAA
1 TATTAAAA
46022004 TATAATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (20 bp):
TATTAAAAATTAATTTCACT
Found at i:46024006 original size:46 final size:46
Alignment explanation
Indices: 46023939--46024064 Score: 161
Period size: 46 Copynumber: 2.8 Consensus size: 46
46023929 AGGGGGGTGT
46023939 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGA-ATCATAA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATATC-TAA
* * *
46023985 TAGGATATTATTATGGGATATTATCTCTTAACAATTTGATTTCTAA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATATCTAA
* * *
46024031 T-GG-GA-TATTATGAGATATTATTTTTTAGCAATTT
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTT
46024065 AATTCCTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
43 25 0.35
44 1 0.01
45 2 0.03
46 41 0.58
47 2 0.03
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (46 bp):
TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATATCTAA
Found at i:46034463 original size:46 final size:46
Alignment explanation
Indices: 46034407--46034620 Score: 243
Period size: 46 Copynumber: 4.5 Consensus size: 46
46034397 AGTGGAACAG
* * *
46034407 TAAAGCTGAAGGCAGCAAATATTATTTCCCTGGCGTTGCAGTAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTAGAT
* * *
46034453 TAAAGCTGAAGGCAGTGAATCTTTTTTTCCTTGGCATTGCAATGGAATAGAT
1 TAAAGCTGAAGGCAGCGAATC-TTATTTCCCTGGCATTGC-A--G--TAGAT
*
46034505 TAAAGTTGAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTAGAT
* * **
46034551 TAAAGCTGAAGGCAACGAATCTT-TTTCCCTAGTGTTGCAGTAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTAGAT
*
46034596 TAAAACTGAAGG-ACGCGAATCTTAT
1 TAAAGCTGAAGGCA-GCGAATCTTAT
46034621 CTTCTTGAAG
Statistics
Matches: 143, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
44 1 0.01
45 38 0.27
46 45 0.31
47 15 0.10
48 2 0.01
50 2 0.01
51 16 0.11
52 24 0.17
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (46 bp):
TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTAGAT
Found at i:46034519 original size:98 final size:96
Alignment explanation
Indices: 46034373--46034576 Score: 286
Period size: 98 Copynumber: 2.1 Consensus size: 96
46034363 GTCATTATGG
* *
46034373 CGAATCTTTCTTTT-C-GGGCATTGCAGTGGAACAGTAAAGCTGAAGGCAGCAAATATTATTTCC
1 CGAATCTTT-TTTTCCTTGGCATTGCAATGGAACAGTAAAGCTGAAGGCAGCAAATATTATTTCC
* *
46034436 CTGGCGTTGCAGTAGATTAAAGCTGAAGGCAG
65 CTGGCATTGCAGTAGATTAAAGCTGAAGGCAA
* * * * *
46034468 TGAATCTTTTTTTCCTTGGCATTGCAATGGAATAGATTAAAGTTGAAGGCAGCGAATCTTATTTC
1 CGAATCTTTTTTTCCTTGGCATTGCAATGGAACAG--TAAAGCTGAAGGCAGCAAATATTATTTC
46034533 CCTGGCATTGCAGTAGATTAAAGCTGAAGGCAA
64 CCTGGCATTGCAGTAGATTAAAGCTGAAGGCAA
46034566 CGAATCTTTTT
1 CGAATCTTTTT
46034577 CCCTAGTGTT
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
94 4 0.04
95 9 0.09
96 16 0.17
98 66 0.69
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (96 bp):
CGAATCTTTTTTTCCTTGGCATTGCAATGGAACAGTAAAGCTGAAGGCAGCAAATATTATTTCCC
TGGCATTGCAGTAGATTAAAGCTGAAGGCAA
Found at i:46038600 original size:25 final size:25
Alignment explanation
Indices: 46038567--46038618 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
46038557 GTAAGTAATG
*
46038567 AATGCTTAGTAAGCTCGTAAAAGGT
1 AATGCTTAGTAAGCTCGTAAAAAGT
* *
46038592 AATGGTTAGTAATCTCGTAAAAAGT
1 AATGCTTAGTAAGCTCGTAAAAAGT
46038617 AA
1 AA
46038619 ATTAACTGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (25 bp):
AATGCTTAGTAAGCTCGTAAAAAGT
Found at i:46039291 original size:20 final size:19
Alignment explanation
Indices: 46039264--46039321 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
46039254 ATGCATAACA
* *
46039264 AGGGCACCGTAGTACGAAC
1 AGGGCACCGAAGTACAAAC
*
46039283 AGGGACACCGAAGTGCAAAC
1 AGGG-CACCGAAGTACAAAC
* *
46039303 AGGGGCATCGAAGTGCAAA
1 A-GGGCACCGAAGTACAAA
46039322 TTCCGTAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 4 0.12
20 26 0.79
21 3 0.09
ACGTcount: A:0.36, C:0.22, G:0.33, T:0.09
Consensus pattern (19 bp):
AGGGCACCGAAGTACAAAC
Found at i:46043021 original size:30 final size:30
Alignment explanation
Indices: 46042987--46043043 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
46042977 AAATCTATTA
*
46042987 TTTTACCAAACGCAACTACTACCACTAATT
1 TTTTACCAAACACAACTACTACCACTAATT
*
46043017 TTTTACTAAACACAACTACTACCACTA
1 TTTTACCAAACACAACTACTACCACTA
46043044 CTCTGATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.30, G:0.02, T:0.30
Consensus pattern (30 bp):
TTTTACCAAACACAACTACTACCACTAATT
Found at i:46051435 original size:34 final size:34
Alignment explanation
Indices: 46051363--46051437 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
46051353 AACAATAAGG
*
46051363 TAGCAAACAATATGCTTATAACAGTTCAATACAG
1 TAGCAAACAATATGCTTATAACAGTTCAATACAA
*
46051397 TAGCAAATAATATGCTTATAACA-TATCAACT-CAA
1 TAGCAAACAATATGCTTATAACAGT-TCAA-TACAA
46051431 TAGCAAA
1 TAGCAAA
46051438 AGTCATGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
33 1 0.03
34 35 0.95
35 1 0.03
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.27
Consensus pattern (34 bp):
TAGCAAACAATATGCTTATAACAGTTCAATACAA
Found at i:46063812 original size:24 final size:25
Alignment explanation
Indices: 46063774--46063831 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
46063764 CAACTCGAAA
*
46063774 GAGCATCCCGTTA-TTAGCTCTCAT
1 GAGCATCCCGGTATTTAGCTCTCAT
* * *
46063798 GAGCATCCTGGTATTTGGCTCTTAT
1 GAGCATCCCGGTATTTAGCTCTCAT
*
46063823 GAGCTTCCC
1 GAGCATCCC
46063832 ATTATATGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.34
Consensus pattern (25 bp):
GAGCATCCCGGTATTTAGCTCTCAT
Found at i:46063875 original size:24 final size:25
Alignment explanation
Indices: 46063813--46063877 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
46063803 TCCTGGTATT
46063813 TGGCTCTTATGAGCTTCCCATTATA
1 TGGCTCTTATGAGCTTCCCATTATA
* ** * *
46063838 TGGTTCTTGCGAGCTTCCCGTT-TG
1 TGGCTCTTATGAGCTTCCCATTATA
46063862 TGGCTCTTATGAGCTT
1 TGGCTCTTATGAGCTT
46063878 TACGATTAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (25 bp):
TGGCTCTTATGAGCTTCCCATTATA
Found at i:46063925 original size:24 final size:24
Alignment explanation
Indices: 46063898--46063964 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
46063888 GGCTCTCTGA
46063898 AACTTCCCGATATTGGCTCGCT-TG
1 AACTTCCCGATATTGGCTCG-TATG
*
46063922 AACTTCCCGAAATTGGCTCGTATG
1 AACTTCCCGATATTGGCTCGTATG
* * *
46063946 AGCTTCCCGTTAATGGCTC
1 AACTTCCCGATATTGGCTC
46063965 TCCAGAGCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 1 0.03
24 36 0.97
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.31
Consensus pattern (24 bp):
AACTTCCCGATATTGGCTCGTATG
Found at i:46069839 original size:2 final size:2
Alignment explanation
Indices: 46069834--46069868 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
46069824 TTATACACAC
46069834 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46069869 ACATTGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46074408 original size:31 final size:31
Alignment explanation
Indices: 46074373--46074432 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
46074363 CTCATTAACT
** *
46074373 CTTTTTAAAAAAGGTTAATGACTAAATTTGA
1 CTTTTTAAAAAAAATTAAAGACTAAATTTGA
46074404 CTTTTTAAAAAAAATTAAAGACTAAATTT
1 CTTTTTAAAAAAAATTAAAGACTAAATTT
46074433 AACTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (31 bp):
CTTTTTAAAAAAAATTAAAGACTAAATTTGA
Found at i:46074448 original size:24 final size:26
Alignment explanation
Indices: 46074411--46074463 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 26
46074401 TGACTTTTTA
*
46074411 AAAAAAATTAAAGACT-AAATTTAACT
1 AAAAAAATTAAAGAATCAAA-TTAACT
46074437 AAAAAAA-T-AAGAATCAAATTAACT
1 AAAAAAATTAAAGAATCAAATTAACT
46074461 AAA
1 AAA
46074464 TATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 14 0.56
25 4 0.16
26 7 0.28
ACGTcount: A:0.66, C:0.08, G:0.04, T:0.23
Consensus pattern (26 bp):
AAAAAAATTAAAGAATCAAATTAACT
Found at i:46074470 original size:2 final size:2
Alignment explanation
Indices: 46074463--46074487 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46074453 AATTAACTAA
46074463 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
46074488 CACATTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46075007 original size:31 final size:31
Alignment explanation
Indices: 46074963--46075023 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
46074953 ATGTGCATAA
46074963 TTAAATCAAAATAAAAGTTTCATATATATAT
1 TTAAATCAAAATAAAAGTTTCATATATATAT
* * *
46074994 TTAAATTATAATAAAAGTTTCATGTATATA
1 TTAAATCAAAATAAAAGTTTCATATATATA
46075024 ATTATACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (31 bp):
TTAAATCAAAATAAAAGTTTCATATATATAT
Found at i:46084238 original size:12 final size:14
Alignment explanation
Indices: 46084203--46084251 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
46084193 GGTAGGCAAC
46084203 TTTTTTTTTGC-GCT
1 TTTTTTTTTGCTG-T
46084217 TTTTGCTTTTT-CT-T
1 TTTT--TTTTTGCTGT
46084231 TTTTTTTTTGCTGT
1 TTTTTTTTTGCTGT
46084245 TTTTTTT
1 TTTTTTT
46084252 AAGAATAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 5 0.17
13 2 0.07
14 17 0.57
15 1 0.03
16 5 0.17
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTGCTGT
Found at i:46084872 original size:3 final size:3
Alignment explanation
Indices: 46084864--46084895 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
46084854 GAATTAAGTA
46084864 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46084896 GATACATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46092646 original size:11 final size:10
Alignment explanation
Indices: 46092626--46092670 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
46092616 CTATACATGG
46092626 ATTTTTATAT
1 ATTTTTATAT
46092636 ATTTTTA-AT
1 ATTTTTATAT
*
46092645 A-TTTTAT-G
1 ATTTTTATAT
46092653 A-TTTTATAT
1 ATTTTTATAT
46092662 ATTTTTATA
1 ATTTTTATA
46092671 ATTACTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 12 0.40
9 4 0.13
10 14 0.47
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:46092961 original size:37 final size:39
Alignment explanation
Indices: 46092911--46093008 Score: 105
Period size: 37 Copynumber: 2.6 Consensus size: 39
46092901 NNNNNNNNTT
46092911 TTTAT-AGTTTATTATAATTTTATAA-GTATTTATAATA
1 TTTATAAGTTTATTATAATTTTATAATGTATTTATAATA
* * * * *
46092948 TTTATAAG-TTATTAT-TTTTTGTAATTTTTTTATAATT
1 TTTATAAGTTTATTATAATTTTATAATGTATTTATAATA
*
46092985 TTTATAAGTTTATATAAAATTTTA
1 TTTATAAGTTTAT-TATAATTTTA
46093009 ATATTTTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
36 7 0.15
37 29 0.60
38 6 0.12
39 2 0.04
40 4 0.08
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (39 bp):
TTTATAAGTTTATTATAATTTTATAATGTATTTATAATA
Found at i:46092986 original size:9 final size:9
Alignment explanation
Indices: 46092909--46093052 Score: 66
Period size: 9 Copynumber: 15.6 Consensus size: 9
46092899 NNNNNNNNNN
*
46092909 TTTTTATAG
1 TTTTTATAA
46092918 TTTATTATAA
1 TTT-TTATAA
46092928 -TTTTATAA
1 TTTTTATAA
*
46092936 GTATTTATAA
1 -TTTTTATAA
*
46092946 TATTTATAA
1 TTTTTATAA
*
46092955 GTTATTAT--
1 -TTTTTATAA
*
46092963 TTTTTGTAA
1 TTTTTATAA
46092972 TTTTTTTATAA
1 --TTTTTATAA
46092983 TTTTTATAA
1 TTTTTATAA
*
46092992 GTTTATATAAA
1 -TTTTTAT-AA
*
46093003 ATTTTA-ATA
1 TTTTTATA-A
*
46093012 TTTTAATAA
1 TTTTTATAA
*
46093021 TTTTAATAA
1 TTTTTATAA
46093030 TGTTTT-T-A
1 T-TTTTATAA
*
46093038 TTTTTTTACA
1 TTTTTATA-A
46093048 TTTTT
1 TTTTT
46093053 TATGTGAAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 31
0.71 0.09 0.21
Matches are distributed among these distances:
7 9 0.08
8 10 0.09
9 40 0.38
10 37 0.35
11 10 0.09
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:46093045 original size:37 final size:35
Alignment explanation
Indices: 46092942--46093054 Score: 100
Period size: 38 Copynumber: 3.0 Consensus size: 35
46092932 ATAAGTATTT
* *
46092942 ATAATATTTATAAGTTATTATTTTTTGTAATTTTTTT
1 ATAAT-TTTATAAGTTTTTATTTTTT-TAATTTTTTA
*** *
46092979 ATAATTTTTATAAGTTTATATAAAATTTTAATATTTTA
1 ATAA-TTTTATAAGTTT-T-TATTTTTTTAATTTTTTA
46093017 ATAATTTTAATAATGTTTTTATTTTTTTACATTTTTTA
1 ATAATTTT-ATAA-GTTTTTATTTTTTTA-ATTTTTTA
46093055 TGTGAAAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
37 25 0.42
38 26 0.43
39 9 0.15
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.62
Consensus pattern (35 bp):
ATAATTTTATAAGTTTTTATTTTTTTAATTTTTTA
Found at i:46093849 original size:22 final size:22
Alignment explanation
Indices: 46093821--46093862 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
46093811 TAAACTAATC
*
46093821 AGAGTTTGACTAGGAAAAGAGT
1 AGAGTTTCACTAGGAAAAGAGT
*
46093843 AGAGTTTCACTAGGAGAAGA
1 AGAGTTTCACTAGGAAAAGA
46093863 AACTCAGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.31, T:0.21
Consensus pattern (22 bp):
AGAGTTTCACTAGGAAAAGAGT
Found at i:46094204 original size:15 final size:15
Alignment explanation
Indices: 46094180--46094211 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46094170 ATTGAAGGAG
*
46094180 TTCTTCTAACTGGTA
1 TTCTTATAACTGGTA
46094195 TTCTTATAACTGGTA
1 TTCTTATAACTGGTA
46094210 TT
1 TT
46094212 GCTCAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (15 bp):
TTCTTATAACTGGTA
Found at i:46103281 original size:22 final size:22
Alignment explanation
Indices: 46103256--46103299 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
46103246 AAGCTCAATT
46103256 AAACTCATTAGTATTCAAGCTC
1 AAACTCATTAGTATTCAAGCTC
* *
46103278 AAACTCATTTGTATTTAAGCTC
1 AAACTCATTAGTATTCAAGCTC
46103300 TTTTTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (22 bp):
AAACTCATTAGTATTCAAGCTC
Found at i:46109795 original size:6 final size:6
Alignment explanation
Indices: 46109784--46109810 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46109774 AATCCAAAAG
46109784 TTTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTT
46109811 CACAATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:46114699 original size:17 final size:17
Alignment explanation
Indices: 46114679--46114711 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46114669 TCTGCCAATC
46114679 CCTAGAGCTT-GCCAAAA
1 CCTAGAG-TTCGCCAAAA
46114696 CCTAGAGTTCGCCAAA
1 CCTAGAGTTCGCCAAA
46114712 TGGCGAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (17 bp):
CCTAGAGTTCGCCAAAA
Found at i:46128968 original size:15 final size:18
Alignment explanation
Indices: 46128940--46128977 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
46128930 TATTTAAATG
46128940 TTTAAATAATAAA-TATT
1 TTTAAATAATAAATTATT
46128957 TTTAAA-AA-AAATTATT
1 TTTAAATAATAAATTATT
46128973 TTTAA
1 TTTAA
46128978 TTTTAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 11 0.55
17 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAAATAATAAATTATT
Found at i:46130047 original size:9 final size:9
Alignment explanation
Indices: 46130033--46130058 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
46130023 AAAAATTAAA
46130033 CCGAATTAC
1 CCGAATTAC
46130042 CCGAATTAC
1 CCGAATTAC
46130051 CCGAATTA
1 CCGAATTA
46130059 ACCAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.31, G:0.12, T:0.23
Consensus pattern (9 bp):
CCGAATTAC
Found at i:46130075 original size:18 final size:18
Alignment explanation
Indices: 46130025--46130075 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
46130015 TTTTTGTTAA
*
46130025 AAATTAAACCGAATTACCC
1 AAATT-AACCGAATTAACC
* *
46130044 GAATTACCCGAATTAACC
1 AAATTAACCGAATTAACC
*
46130062 AAATTAACCAAATT
1 AAATTAACCGAATT
46130076 GAATCACTAC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.24
Consensus pattern (18 bp):
AAATTAACCGAATTAACC
Found at i:46131953 original size:31 final size:31
Alignment explanation
Indices: 46131895--46131954 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
46131885 GTTGAGCTTC
* * *
46131895 AATTTTTTAATTATAGTTTTAATTATATTAT
1 AATTTTTTAATTAAAATTGTAATTATATTAT
46131926 AATTTTTT-ATTAAAATTGTAATATATATT
1 AATTTTTTAATTAAAATTGTAAT-TATATT
46131955 TATTAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (31 bp):
AATTTTTTAATTAAAATTGTAATTATATTAT
Found at i:46132377 original size:23 final size:23
Alignment explanation
Indices: 46132347--46132395 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
46132337 TGGATTCAAA
*
46132347 TTTAAAAAAATTCCTTAAATTGT
1 TTTAAAAAAATTCCTTAAATTCT
**
46132370 TTTAAAAATTTTCCTTAAATTCT
1 TTTAAAAAAATTCCTTAAATTCT
46132393 TTT
1 TTT
46132396 TTAGTACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTAAAAAAATTCCTTAAATTCT
Found at i:46133388 original size:23 final size:23
Alignment explanation
Indices: 46133345--46133393 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
46133335 TAAATTTTTT
* *
46133345 AAAGGTAAAAGAAATATTATTAA
1 AAAGGTAAAAGAAAAAATATTAA
*
46133368 AAAGG-AAAAGAAGAAAATATTGA
1 AAAGGTAAAAGAA-AAAATATTAA
46133391 AAA
1 AAA
46133394 TCAATAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.18
Consensus pattern (23 bp):
AAAGGTAAAAGAAAAAATATTAA
Found at i:46137773 original size:16 final size:16
Alignment explanation
Indices: 46137752--46137782 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46137742 CATATTAGAG
46137752 CACATAAATTTGAAAC
1 CACATAAATTTGAAAC
*
46137768 CACATATATTTGAAA
1 CACATAAATTTGAAA
46137783 AAAATTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.29
Consensus pattern (16 bp):
CACATAAATTTGAAAC
Found at i:46137986 original size:19 final size:19
Alignment explanation
Indices: 46137951--46138005 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
46137941 TTATTTAAAA
*
46137951 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
46137969 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
*
46137988 CA-AAATTATTTTGTAATT
1 TATAAA-TATTTTG-AATT
46138006 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 10 0.31
19 18 0.56
20 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:46138021 original size:9 final size:11
Alignment explanation
Indices: 46137991--46138016 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
46137981 GAATTTTCAA
46137991 AATTATTTTGT
1 AATTATTTTGT
46138002 AATTATTTTGT
1 AATTATTTTGT
46138013 AATT
1 AATT
46138017 TTTGTTGAGA
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (11 bp):
AATTATTTTGT
Found at i:46140594 original size:24 final size:24
Alignment explanation
Indices: 46140540--46140629 Score: 90
Period size: 24 Copynumber: 3.6 Consensus size: 24
46140530 TTAAAAATAC
*
46140540 TCTTTTATCATCATTTATTTTAAGT
1 TCTTTTAT-ATTATTTATTTTAAGT
* *
46140565 TTTTTTATATTATTTATTTTAAGC
1 TCTTTTATATTATTTATTTTAAGT
* * * *
46140589 TGTTTTACATATTTTTTATTTAAATT
1 TCTTTT--ATATTATTTATTTTAAGT
46140615 TCTTTTATATTATTT
1 TCTTTTATATTATTT
46140630 GTATTATTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
24 27 0.51
25 7 0.13
26 19 0.36
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (24 bp):
TCTTTTATATTATTTATTTTAAGT
Found at i:46140601 original size:26 final size:24
Alignment explanation
Indices: 46140552--46140609 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 24
46140542 TTTTATCATC
**
46140552 ATTTATTTTAAGTTTTTTTATATT
1 ATTTATTTTAAGTTTTTACATATT
46140576 ATTTATTTTAAGCTGTTTTACATATT
1 ATTTATTTTAAG-T-TTTTACATATT
*
46140602 TTTTATTT
1 ATTTATTT
46140610 AAATTTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 12 0.41
25 1 0.03
26 16 0.55
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.67
Consensus pattern (24 bp):
ATTTATTTTAAGTTTTTACATATT
Found at i:46143949 original size:15 final size:14
Alignment explanation
Indices: 46143929--46143997 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 14
46143919 TACTTCATTT
46143929 AAAAAAAAGAAAAAG
1 AAAAAAAAG-AAAAG
*
46143944 AAAAAAAAGGAAAG
1 AAAAAAAAGAAAAG
*
46143958 -AAAAAAGGAAAAGGG
1 AAAAAAAAGAAAA--G
**
46143973 AATGAAAAG-AAAG
1 AAAAAAAAGAAAAG
46143986 -AAAAAAAGAAAA
1 AAAAAAAAGAAAA
46143998 AGGAAAAGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
12 6 0.14
13 14 0.33
14 4 0.10
15 13 0.31
16 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.01
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:46143980 original size:29 final size:28
Alignment explanation
Indices: 46143930--46144002 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
46143920 ACTTCATTTA
**
46143930 AAAAAAAGAAAAA-GAAAAAAAAGGAAAG
1 AAAAAAAGAAAAAGGAATGAAAA-GAAAG
* *
46143958 AAAAAAGGAAAAGGGAATGAAAAGAAAG
1 AAAAAAAGAAAAAGGAATGAAAAGAAAG
46143986 AAAAAAAGAAAAAGGAA
1 AAAAAAAGAAAAAGGAA
46144003 AAGGAGAAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 31 0.82
29 7 0.18
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (28 bp):
AAAAAAAGAAAAAGGAATGAAAAGAAAG
Found at i:46145149 original size:143 final size:143
Alignment explanation
Indices: 46144880--46145419 Score: 755
Period size: 143 Copynumber: 3.8 Consensus size: 143
46144870 GATTGAGGTC
*
46144880 ATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCTCC
1 ATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * *
46144945 CTGAAGTTACAGCAAAGCAGACTGAAGACAGCGAATCTTAT-TTCCCTGGCGTTGCAATGGAACA
66 CTGAAGTTGCAGCGAAGCAGACTAAAGACAGCGAATCTTATCTTCCCT-GCATTACAGTGGAACA
*
46145009 GATTAAAGCTACAA
130 AATTAAAGCTACAA
* *
46145023 ATTATGACGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATC-CC
1 ATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * *
46145087 TCTAAAGTTGTAACGAAGCAGACTAAAGATAGTGAATCTTAT-TTCCCTAGCATTACAGTGGAAC
66 -CTGAAGTTGCAGCGAAGCAGACTAAAGACAGCGAATCTTATCTTCCCT-GCATTACAGTGGAAC
46145151 AAATTAAAGCTACAA
129 AAATTAAAGCTACAA
* * * *
46145166 ATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTGTCCCC
1 ATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * *
46145231 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATCTT-CCTGAAGTTACAGTAGAGCA
66 CTGAAGTTGCAGCGAAGCAGACTAAAGACAGCGAATCTTATCTTCCCTGCA-TTACAGTGGAACA
46145295 AATTAAAGCTACAA
130 AATTAAAGCTACAA
* *
46145309 ATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCTGATTGAAGCCACCAGCCTTGTCTCC
1 ATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * *
46145374 CTGAAGTTGCAGTGGAGCAGACTAAAGACAGTGAATCTTATCTTCC
66 CTGAAGTTGCAGCGAAGCAGACTAAAGACAGCGAATCTTATCTTCC
46145420 TAAAGTTGCA
Statistics
Matches: 356, Mismatches: 36, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
142 4 0.01
143 347 0.97
144 5 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (143 bp):
ATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTGAAGTTGCAGCGAAGCAGACTAAAGACAGCGAATCTTATCTTCCCTGCATTACAGTGGAACAA
ATTAAAGCTACAA
Done.