Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 163 of 352
Found at i:53361597 original size:101 final size:98
Alignment explanation
Indices: 53361424--53361651 Score: 287
Period size: 100 Copynumber: 2.3 Consensus size: 98
53361414 TACGCATAGT
* * * **
53361424 AGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACATGTAGTAGCCTGCACTTAGTAC
1 AGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAGTAC
*
53361489 TACACATGTGACCTAACCAACT-GATACACGTAGC
66 TACACATGCGA-CTAA-CAACTCGATACACGTAGC
* * * *
53361523 AGCCTGTACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCTTGCACTTAGT
1 AGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACTTAGT
* * * *
53361588 ACTACACATGCGACTAATAATTCGGTACACGTAGT
64 ACTACACATGCGACTAACAACTCGATACACGTAGC
53361623 AGCCTGCACTTAGTACTACACACGTGACC
1 AGCCTGCACTTAGTACTACACACGTGACC
53361652 TAACAATAGA
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
99 28 0.25
100 43 0.39
101 39 0.35
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (98 bp):
AGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAGTAC
TACACATGCGACTAACAACTCGATACACGTAGC
Found at i:53363076 original size:11 final size:11
Alignment explanation
Indices: 53363060--53363085 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53363050 AATTAACCTT
53363060 TTCTATTTCCA
1 TTCTATTTCCA
53363071 TTCTATTTCCA
1 TTCTATTTCCA
53363082 TTCT
1 TTCT
53363086 TATGATTCTT
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:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (11 bp):
TTCTATTTCCA
Found at i:53366470 original size:49 final size:50
Alignment explanation
Indices: 53366417--53366641 Score: 258
Period size: 49 Copynumber: 4.5 Consensus size: 50
53366407 CTGGTACGCA
*
53366417 TAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACTAATCCGGTACACG
* * * * * *
53366466 TAGTAACCTGCACTTAGTACTACACATGTGACCTAACCAAT-TGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACTAATCCGGTACACG
* * * * * * * *
53366516 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAACTAATCCGGTACACG
* *
53366567 TAGTAGCCTGCACTTAGTACTACACATGCGACCCA-TAATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACTAATCCGGTACACG
53366616 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
53366642 CGTGACCTAA
Statistics
Matches: 145, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
49 66 0.46
50 43 0.30
51 36 0.25
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACTAATCCGGTACACG
Found at i:53366590 original size:101 final size:98
Alignment explanation
Indices: 53366417--53366648 Score: 313
Period size: 101 Copynumber: 2.3 Consensus size: 98
53366407 CTGGTACGCA
* * *
53366417 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAACCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAACCTGCACTTA
* *
53366482 GTACTACACATGTGACCTAACCAATT-GATACATG
66 GTACTACACATGCGACC-AA-CAATTCGATACACG
* * * *
53366516 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAACCTGCACT
* * *
53366581 TAGTACTACACATGCGACCCATAATTCGGTACACG
64 TAGTACTACACATGCGACCAACAATTCGATACACG
53366616 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
53366649 TAACAATAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
99 34 0.29
100 41 0.35
101 42 0.36
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAACCTGCACTTA
GTACTACACATGCGACCAACAATTCGATACACG
Found at i:53379800 original size:54 final size:54
Alignment explanation
Indices: 53379731--53379919 Score: 204
Period size: 54 Copynumber: 3.4 Consensus size: 54
53379721 CACTATAAGA
*
53379731 GATTTAGCCTAGACTGGTAATCTCGACATCACCTTACGAGTTCTTGATATGTGG
1 GATTTAGCCTGGACTGGTAATCTCGACATCACCTTACGAGTTCTTGATATGTGG
* * * * ** *
53379785 GATTTAGCCTGGACTGGTAAT-TC-AGATCCGAGCTCATTAAGGGTGT-TGTCACTATAAGA
1 GATTTAGCCTGGACTGGTAATCTCGACAT-C-A-C-C-TTACGAGT-TCT-TGA-TATGTGG
*
53379844 GATTTAGCCTGGACTGGTAATCTCGACATCACTTTACGAGTTCTTGATATGTGG
1 GATTTAGCCTGGACTGGTAATCTCGACATCACCTTACGAGTTCTTGATATGTGG
53379898 GATTTAGCCTGGACTGGTAATC
1 GATTTAGCCTGGACTGGTAATC
53379920 CTGCTATATG
Statistics
Matches: 108, Mismatches: 16, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
52 3 0.03
53 3 0.03
54 47 0.44
55 4 0.04
56 8 0.07
57 7 0.06
58 4 0.04
59 26 0.24
60 3 0.03
61 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (54 bp):
GATTTAGCCTGGACTGGTAATCTCGACATCACCTTACGAGTTCTTGATATGTGG
Found at i:53379853 original size:59 final size:59
Alignment explanation
Indices: 53379673--53379864 Score: 229
Period size: 59 Copynumber: 3.3 Consensus size: 59
53379663 TAGGGTCTGA
53379673 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTGTCACTATAAGAG
1 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTGTCACTATAAGAG
* * * * * ** *
53379732 ATTTAGCCTAGACTGGTAATCTCGACAT-C-A-C-C-TTACGAGT-TCT-TGA-TATGTGGG
1 ATTTAGCCTGGACTGGTAAT-TC-AGATCCGAGCTCATTAAGGGTGT-TGTCACTATAAGAG
53379786 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTGTCACTATAAGAG
1 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTGTCACTATAAGAG
53379845 ATTTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
53379865 CTCGACATCA
Statistics
Matches: 106, Mismatches: 16, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
52 3 0.03
53 3 0.03
54 25 0.24
55 4 0.04
56 8 0.08
57 8 0.08
58 4 0.04
59 45 0.42
60 3 0.03
61 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (59 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTGTCACTATAAGAG
Found at i:53379871 original size:113 final size:113
Alignment explanation
Indices: 53379673--53379918 Score: 474
Period size: 113 Copynumber: 2.2 Consensus size: 113
53379663 TAGGGTCTGA
53379673 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTGTCACTATAAGAGATTTAG
1 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTGTCACTATAAGAGATTTAG
53379738 CCTAGACTGGTAATCTCGACATCACCTTACGAGTTCTTGATATGTGGG
66 CCTAGACTGGTAATCTCGACATCACCTTACGAGTTCTTGATATGTGGG
53379786 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTGTCACTATAAGAGATTTAG
1 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTGTCACTATAAGAGATTTAG
* *
53379851 CCTGGACTGGTAATCTCGACATCACTTTACGAGTTCTTGATATGTGGG
66 CCTAGACTGGTAATCTCGACATCACCTTACGAGTTCTTGATATGTGGG
53379899 ATTTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
53379919 CCTGCTATAT
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 131 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (113 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTGTCACTATAAGAGATTTAG
CCTAGACTGGTAATCTCGACATCACCTTACGAGTTCTTGATATGTGGG
Found at i:53391817 original size:15 final size:15
Alignment explanation
Indices: 53391797--53391826 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
53391787 TAAAGTATAA
53391797 GCCCTTAGTGAGATC
1 GCCCTTAGTGAGATC
53391812 GCCCTTAGTGAGATC
1 GCCCTTAGTGAGATC
53391827 CTCTTTCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (15 bp):
GCCCTTAGTGAGATC
Found at i:53402148 original size:17 final size:17
Alignment explanation
Indices: 53402101--53402149 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
53402091 ATGCAAAATA
53402101 AATAA-AAATAAAAAGG
1 AATAATAAATAAAAAGG
*
53402117 AATAATAAA-AGAAAA-T
1 AATAATAAATA-AAAAGG
53402133 AATAAATAAATAAAAAG
1 AAT-AATAAATAAAAAG
53402150 AATGTGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 9 0.33
17 17 0.63
18 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (17 bp):
AATAATAAATAAAAAGG
Found at i:53403757 original size:44 final size:44
Alignment explanation
Indices: 53403693--53403815 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 44
53403683 CCACTGCAAA
* * * * *
53403693 TTCATGGAGATAAGACTTGTAGCTTCGATTTATTCCAATGTAAT
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTCCAATGTAAT
* * *
53403737 TTTAGGGAGAAAAGATTTGTAGCTTCAATCTACTCCAATGTAAT
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTCCAATGTAAT
* * *
53403781 TTCAAAGAGAAGAGGTTTGTAGCTTCGATCTACTC
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTC
53403816 TGCTGGAACT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (44 bp):
TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTCCAATGTAAT
Found at i:53403832 original size:44 final size:44
Alignment explanation
Indices: 53403743--53403839 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
53403733 TAATTTTAGG
* * *
53403743 GAGAAAAGATTTGTAGCTTCAATCTACTCCAATGTAATTTCAAA
1 GAGAAAAGATTTGTAGCTTCAATCTACTCCAATGGAACTTAAAA
* * * ***
53403787 GAGAAGAGGTTTGTAGCTTCGATCTACTCTGCTGGAACTTAAAA
1 GAGAAAAGATTTGTAGCTTCAATCTACTCCAATGGAACTTAAAA
*
53403831 GAGATAAGA
1 GAGAAAAGA
53403840 ATTGGTAATT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (44 bp):
GAGAAAAGATTTGTAGCTTCAATCTACTCCAATGGAACTTAAAA
Found at i:53403986 original size:45 final size:45
Alignment explanation
Indices: 53403902--53404302 Score: 310
Period size: 45 Copynumber: 8.8 Consensus size: 45
53403892 TTGTAGCTTA
* * *
53403902 AATCTGTTTCACTGCAACTTCAGGG-GAATAAGATCTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAG-ATAAGATTTGCTATCTTC
* * *
53403947 AACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCTATCCTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT-CTTC
* * * * * * *
53403992 AGTCTACTCCACTGTAACTTCAAGGAGATAAGACTTG-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * *
53404036 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCTTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-C-T-A----T--CTTC
* * * * * * *
53404090 AATCCG-TACCATTGCAACGTCAGAGAAACAAGATTTGCCATCTTC
1 AATCTGCT-CCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * *
53404135 AATCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTG-TAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * * * *
53404179 CACCTGCTCTACTGCAACTTCAGGGAGATGAGGTTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * * * *
53404224 AATCTGCTCCACTGCGACTTTAGGGAGATAAGACTTG-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* *
53404268 AATCTGCTCCAATGCAACTTCAGGGAGACAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
53404303 AGCCAGGGTG
Statistics
Matches: 274, Mismatches: 66, Indels: 33
0.73 0.18 0.09
Matches are distributed among these distances:
43 3 0.01
44 102 0.37
45 127 0.46
46 5 0.02
47 2 0.01
48 1 0.00
51 1 0.00
53 2 0.01
54 31 0.11
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
Found at i:53404230 original size:188 final size:185
Alignment explanation
Indices: 53403822--53404256 Score: 419
Period size: 188 Copynumber: 2.3 Consensus size: 185
53403812 ACTCTGCTGG
* * * ** * * *
53403822 AACTTAAAAGAGATAAGAATTGGTAATTTCAA-CTGCTTCGCTGCAACTTCAGGGAGATAGGATT
1 AACTTCAAGGAGATAAGACTT-GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * * ** * * * * *
53403886 TGTAATTTGTAGCTTAAATCTGTTTCACTGCAACTTCAGGGGAATAAGATCTGCTATCTTCAACC
65 CGTAACTTGTAGCTTAAATCCGTACCACTGCAACGTCAGAGAAACAAGATCTGCCATCTTCAACC
** * * *
53403951 TGCTCCACTACAACTTCAGGGAGATAAGGTTTGCTATCCTTAGTCTACTCCACTGT
130 TGCTCCACTACAACTTCAGGGAGATAAGACTTGCTATACTTAGCCTACTCCACTGC
* *
53404007 AACTTCAAGGAGATAAGACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTC
1 AACTTCAAGGAGATAAGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC
* * *
53404072 GCCTTAACTTGTAGCTTTAATCCGTACCATTGCAACGTCAGAGAAACAAGATTTGCCATCTTCAA
66 G---TAACTTGTAGCTTAAATCCGTACCACTGCAACGTCAGAGAAACAAGATCTGCCATCTTCAA
* * * * *
53404137 TCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTG-TA-ACTTCCA-CCTGCTCTACTGC
128 CCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCTATACTT--AGCCTACTCCACTGC
* * ** * * *
53404194 AACTTCAGGGAGATGAGGTTTGCTATCTTCAATCTGCTCCACTGCGACTTTAGGGAGATAAGA
1 AACTTCAAGGAGATAAGACTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
53404257 CTTGTAGCTT
Statistics
Matches: 201, Mismatches: 42, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
184 7 0.03
185 47 0.23
186 3 0.01
187 29 0.14
188 115 0.57
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (185 bp):
AACTTCAAGGAGATAAGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC
GTAACTTGTAGCTTAAATCCGTACCACTGCAACGTCAGAGAAACAAGATCTGCCATCTTCAACCT
GCTCCACTACAACTTCAGGGAGATAAGACTTGCTATACTTAGCCTACTCCACTGC
Found at i:53404232 original size:89 final size:89
Alignment explanation
Indices: 53404123--53404295 Score: 256
Period size: 89 Copynumber: 1.9 Consensus size: 89
53404113 AGAAACAAGA
* *
53404123 TTTGCCATCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTAACTTCCACCTGCTC
1 TTTGCCATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTC
* *
53404188 TACTGCAACTTCAGGGAGATGAGG
66 CAATGCAACTTCAGGGAGATGAGG
* * * * * *
53404212 TTTGCTATCTTCAATCTGCTCCACTGCGACTTTAGGGAGATAAGACTTGTAGCTTTAATCTGCTC
1 TTTGCCATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTC
53404277 CAATGCAACTTCAGGGAGA
66 CAATGCAACTTCAGGGAGA
53404296 CAAGATTAGC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (89 bp):
TTTGCCATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTC
CAATGCAACTTCAGGGAGATGAGG
Found at i:53410564 original size:18 final size:18
Alignment explanation
Indices: 53410541--53410577 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
53410531 AACCAAACTA
53410541 AAAGATCCAGGAAGTTTT
1 AAAGATCCAGGAAGTTTT
53410559 AAAGATCCAGGAAGTTTT
1 AAAGATCCAGGAAGTTTT
53410577 A
1 A
53410578 CTATTCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (18 bp):
AAAGATCCAGGAAGTTTT
Found at i:53424016 original size:13 final size:13
Alignment explanation
Indices: 53423998--53424022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53423988 TAATGGTATA
53423998 TTGAATCCATGAT
1 TTGAATCCATGAT
53424011 TTGAATCCATGA
1 TTGAATCCATGA
53424023 AAACTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:53425591 original size:47 final size:47
Alignment explanation
Indices: 53425537--53426035 Score: 813
Period size: 47 Copynumber: 10.6 Consensus size: 47
53425527 TATTTGAATA
53425537 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53425584 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53425631 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53425678 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53425727 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53425774 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
53425821 AATGTGAAAGTGTATATATGTGATAAGGTCTAATAGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
** *
53425868 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTAATATGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
53425917 AATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
53425962 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53426009 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53426036 TCCCGAAGGG
Statistics
Matches: 424, Mismatches: 22, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
45 41 0.10
47 296 0.70
49 87 0.21
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53425866 original size:190 final size:190
Alignment explanation
Indices: 53425537--53426035 Score: 849
Period size: 190 Copynumber: 2.6 Consensus size: 190
53425527 TATTTGAATA
53425537 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
53425602 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
* * *
53425667 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 CCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATATGATG
*
53425727 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
53425792 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCTAATAG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
*
53425857 CCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTAATATGATG
131 CCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATATGATG
53425917 AATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
53425980 TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
53426036 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
188 101 0.34
190 192 0.66
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
CCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATATGATG
Found at i:53428851 original size:3 final size:3
Alignment explanation
Indices: 53428843--53428899 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
53428833 AATATAGGGG
* * * **
53428843 ATA ATA ATA ATA ATA ATA ATA ATA ACA CA-A GTA ACA ACC ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
53428888 ATA ATA ATA ATA
1 ATA ATA ATA ATA
53428900 TTGAAATCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
3 44 0.98
4 1 0.02
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:53430344 original size:21 final size:23
Alignment explanation
Indices: 53430313--53430358 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
53430303 ATTGTAAAAT
*
53430313 TTGGCTTGTAATTGGGTTT-TAA
1 TTGGCTTGTAAATGGGTTTGTAA
53430335 TTGG-TTGTAAATGGGTTTGTAA
1 TTGGCTTGTAAATGGGTTTGTAA
53430357 TT
1 TT
53430359 TGTTTGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (23 bp):
TTGGCTTGTAAATGGGTTTGTAA
Found at i:53436872 original size:76 final size:75
Alignment explanation
Indices: 53436774--53436975 Score: 188
Period size: 76 Copynumber: 2.7 Consensus size: 75
53436764 ACAACAGGTT
** ** ** * * *
53436774 TGCCTTGTACTAGTCAGATAAACTGACAATGTTTTGCGCCCAGTGCTAGTCAAATAAACTGACTA
1 TGCC-TGTACTAGTTGGATAAACCAACAATGAGTTGCGCCCAGAGCTAGTCAAATAAACCGACGA
**
53436839 TATCAAATGTG
65 TATCAAAAATG
* * * *
53436850 TGCCTAGTACTAGTTGGATAAACCAACAATGAGTTGTGCCCAGAGCTAGTCGAGTACACCGACGA
1 TGCCT-GTACTAGTTGGATAAACCAACAATGAGTTGCGCCCAGAGCTAGTCAAATAAACCGACGA
53436915 TATCAAAAATG
65 TATCAAAAATG
* ** * * *
53436926 TGCCCTGCACTAGTTGGATGTACCAATAATGAGTTGCGTCCAGTGCTAGT
1 TG-CCTGTACTAGTTGGATAAACCAACAATGAGTTGCGCCCAGAGCTAGT
53436976 TGGGTAAACT
Statistics
Matches: 102, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
75 1 0.01
76 98 0.96
77 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (75 bp):
TGCCTGTACTAGTTGGATAAACCAACAATGAGTTGCGCCCAGAGCTAGTCAAATAAACCGACGAT
ATCAAAAATG
Found at i:53436993 original size:76 final size:76
Alignment explanation
Indices: 53436828--53437063 Score: 235
Period size: 76 Copynumber: 3.1 Consensus size: 76
53436818 GCTAGTCAAA
* ** * * *
53436828 TAAACTGACT-ATATCAAATGTGTG-CCTAGTACTAGTTGGATAAACCAACAATGAGTTGTGCCC
1 TAAACTGA-TGATATCAAATGTGTGCCCT-GCACTAGTTGGATGTACCAATAATGAGTTGCGACC
* * *
53436891 AGAGCTAGTCGAG
64 AGTGCTAGTTGGG
* * * ** *
53436904 TACACCGACGATATCAAAAATGTGCCCTGCACTAGTTGGATGTACCAATAATGAGTTGCGTCCAG
1 TAAACTGATGATATCAAATGTGTGCCCTGCACTAGTTGGATGTACCAATAATGAGTTGCGACCAG
53436969 TGCTAGTTGGG
66 TGCTAGTTGGG
* ** * *
53436980 TAAACTGATGATATCGAATGTGTGCCCAACACTAGTTTGATGTACCAATAATGAGTTGC-ACCCG
1 TAAACTGATGATATCAAATGTGTGCCCTGCACTAGTTGGATGTACCAATAATGAGTTGCGACCAG
*
53437044 ATGCTAGTTGGA
66 -TGCTAGTTGGG
53437056 TAAACTGA
1 TAAACTGA
53437064 CAAATACATA
Statistics
Matches: 131, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
75 3 0.02
76 125 0.95
77 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (76 bp):
TAAACTGATGATATCAAATGTGTGCCCTGCACTAGTTGGATGTACCAATAATGAGTTGCGACCAG
TGCTAGTTGGG
Found at i:53440677 original size:150 final size:150
Alignment explanation
Indices: 53440478--53440780 Score: 597
Period size: 150 Copynumber: 2.0 Consensus size: 150
53440468 TGGAAATAAC
53440478 ATAAATTTAGTAAGAAAATCATAGCTCTAAATCTTTTGTAGATACTGTTGCAATTCAGGTCATTC
1 ATAAATTTAGTAAGAAAATCATAGCTCTAAATCTTTTGTAGATACTGTTGCAATTCAGGTCATTC
53440543 ATCAATTAATTCAACTAATATTCTTTTGTATTATTCACATTGTGCATATATATAAATGTCTCAAG
66 ATCAATTAATTCAACTAATATTCTTTTGTATTATTCACATTGTGCATATATATAAATGTCTCAAG
53440608 CCAGAAAACAATTAATGCAT
131 CCAGAAAACAATTAATGCAT
*
53440628 ATAAATTTAGTAAGAAAATCATAGCTCTAAATCTTTTGTAGATATTGTTGCAATTCAGGTCATTC
1 ATAAATTTAGTAAGAAAATCATAGCTCTAAATCTTTTGTAGATACTGTTGCAATTCAGGTCATTC
53440693 ATCAATTAATTCAACTAATATTCTTTTGTATTATTCACATTGTGCATATATATAAATGTCTCAAG
66 ATCAATTAATTCAACTAATATTCTTTTGTATTATTCACATTGTGCATATATATAAATGTCTCAAG
53440758 CCAGAAAACAATTAATGCAT
131 CCAGAAAACAATTAATGCAT
53440778 ATA
1 ATA
53440781 CTGTAATATC
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 152 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (150 bp):
ATAAATTTAGTAAGAAAATCATAGCTCTAAATCTTTTGTAGATACTGTTGCAATTCAGGTCATTC
ATCAATTAATTCAACTAATATTCTTTTGTATTATTCACATTGTGCATATATATAAATGTCTCAAG
CCAGAAAACAATTAATGCAT
Found at i:53455523 original size:76 final size:76
Alignment explanation
Indices: 53455420--53455632 Score: 266
Period size: 76 Copynumber: 2.8 Consensus size: 76
53455410 ACAATTTTTT
* **
53455420 TGTGCCCAGCACTAGTTAGATAAACCAATAAT-AGGTTGCGCCTAGTGCTAGTCGGATAAACTGA
1 TGTGCCCAGCACTAGTTGGATGTACCAATAATGA-GTTGCGCCTAGTGCTAGTCGGATAAACTGA
*
53455484 CGATATCATATG
65 CGATATCAAATG
* * ** * * *
53455496 TGTGTCGAGCACTAGTTGGATGTACCAACGATGAGTTGCTCCTAGTGCTAGTCGGGTAAATTGAC
1 TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGCGCCTAGTGCTAGTCGGATAAACTGAC
53455561 GATATCAAATG
66 GATATCAAATG
** * * *
53455572 TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGATCCCAGCGCTTGTCGGATAAAC
1 TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGCGCCTAGTGCTAGTCGGATAAAC
53455633 CGAAAAATAC
Statistics
Matches: 115, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
76 114 0.99
77 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (76 bp):
TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGCGCCTAGTGCTAGTCGGATAAACTGAC
GATATCAAATG
Found at i:53465046 original size:20 final size:21
Alignment explanation
Indices: 53465013--53465051 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
53465003 ATTAAATATC
53465013 TAAAATTCTAAAAA-AATCCT
1 TAAAATTCTAAAAACAATCCT
53465033 TAAAATT-TAGAAAACAATC
1 TAAAATTCTA-AAAACAATC
53465052 TAATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 11 0.65
21 4 0.24
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (21 bp):
TAAAATTCTAAAAACAATCCT
Found at i:53470796 original size:47 final size:47
Alignment explanation
Indices: 53470730--53471348 Score: 1004
Period size: 47 Copynumber: 13.1 Consensus size: 47
53470720 GAAATGATAG
*
53470730 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
53470777 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53470824 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53470871 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA--TGTGA
*
53470920 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53470967 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53471014 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * *
53471063 TAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53471110 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53471157 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53471204 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53471251 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * * *
53471298 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53471345 TAAG
1 TAAG
53471349 TCCCGAAGGG
Statistics
Matches: 541, Mismatches: 27, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
47 450 0.83
49 91 0.17
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:53470986 original size:143 final size:141
Alignment explanation
Indices: 53470730--53471348 Score: 1040
Period size: 143 Copynumber: 4.4 Consensus size: 141
53470720 GAAATGATAG
*
53470730 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
53470795 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
53470860 TATATATGTGA
131 TATATATGTGA
*
53470871 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGATAAGGCCTAATAGCCG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCG
53470936 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
53471001 TGTATATATGTGA
129 TGTATATATGTGA
*
53471014 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
53471079 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
*
53471144 TGTATATGTGTGA
129 TGTATATATGTGA
*
53471157 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
53471222 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
53471287 TATATATGTGA
131 TATATATGTGA
*** * * * * * * * *
53471298 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
53471349 TCCCGAAGGG
Statistics
Matches: 452, Mismatches: 22, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
141 180 0.40
143 266 0.59
145 6 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATGTGA
Found at i:53471053 original size:190 final size:190
Alignment explanation
Indices: 53470730--53471296 Score: 1030
Period size: 190 Copynumber: 3.0 Consensus size: 190
53470720 GAAATGATAG
* * *
53470730 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
*
53470795 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
*
53470860 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGA
131 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGA
53470920 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
53470985 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
*
53471050 TATATATATGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
131 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGA
53471110 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
* *
53471175 GTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
53471240 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
131 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
53471297 ACGGGGCCGA
Statistics
Matches: 364, Mismatches: 9, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
188 46 0.13
190 273 0.75
192 45 0.12
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (190 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGA
Found at i:53471536 original size:37 final size:37
Alignment explanation
Indices: 53471467--53471545 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
53471457 CCGAGCTCTA
* * *
53471467 AAGACCCGATGACTACGTGTGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGAGTGGGAATTATGTCCGGGT
*
53471504 AAGACCCGATAACTTCGAGT-GGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGAGTGGGA-ATTATGTCCGGGT
53471541 AAGAC
1 AAGAC
53471546 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 3 0.08
37 34 0.92
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGAGTGGGAATTATGTCCGGGT
Found at i:53479260 original size:22 final size:22
Alignment explanation
Indices: 53479227--53479269 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
53479217 GATAAAAATT
**
53479227 ATTATGATTTTTTTAATTTTTA
1 ATTATGATTTTTAGAATTTTTA
53479249 ATTAT-ATATTTTAGAATTTTT
1 ATTATGAT-TTTTAGAATTTTT
53479270 TAATATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (22 bp):
ATTATGATTTTTAGAATTTTTA
Found at i:53493186 original size:23 final size:23
Alignment explanation
Indices: 53493154--53493200 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
53493144 AGAGTTAAAC
*
53493154 AAAATGTTAAATTTTTTATTTTT
1 AAAATGTTAAAATTTTTATTTTT
*
53493177 AAAATTTTAAAATTTTTATTTTT
1 AAAATGTTAAAATTTTTATTTTT
53493200 A
1 A
53493201 GCTTATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AAAATGTTAAAATTTTTATTTTT
Found at i:53493271 original size:28 final size:26
Alignment explanation
Indices: 53493232--53493299 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 26
53493222 AAGTTTCTAG
53493232 ATTTTTAAAATTT-ACCAAGTTTTTTA
1 ATTTTTAAAATTTAACCAA-TTTTTTA
*
53493258 ATTTTCTAGAAATTTAACTAATTTTTT-
1 ATTTT-TA-AAATTTAACCAATTTTTTA
*
53493285 ATTTTTGAATATTTA
1 ATTTTT-AAAATTTA
53493300 TTTATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 12 0.33
27 8 0.22
28 12 0.33
29 4 0.11
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (26 bp):
ATTTTTAAAATTTAACCAATTTTTTA
Found at i:53500869 original size:19 final size:20
Alignment explanation
Indices: 53500830--53500867 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53500820 TCAAATAAAA
53500830 AGTTTTTTACTTTCATTTTG
1 AGTTTTTTACTTTCATTTTG
53500850 AGTTTTTT-CTTTTCATTT
1 AGTTTTTTAC-TTTCATTT
53500868 GATTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.13, C:0.11, G:0.08, T:0.68
Consensus pattern (20 bp):
AGTTTTTTACTTTCATTTTG
Found at i:53502510 original size:31 final size:31
Alignment explanation
Indices: 53502470--53502538 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
53502460 CATGTGGTGG
*
53502470 TGTGCGTGTGACCCTGTGGGCCACACGAGCA
1 TGTGGGTGTGACCCTGTGGGCCACACGAGCA
**
53502501 TGTGGGTGTGACCCTGTGGGCCACACGAGTG
1 TGTGGGTGTGACCCTGTGGGCCACACGAGCA
53502532 TGTGGGT
1 TGTGGGT
53502539 TTTGGGCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.13, C:0.23, G:0.41, T:0.23
Consensus pattern (31 bp):
TGTGGGTGTGACCCTGTGGGCCACACGAGCA
Found at i:53503021 original size:13 final size:14
Alignment explanation
Indices: 53502997--53503030 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
53502987 ATGGGGTTAG
*
53502997 GATTCTGTATATCT
1 GATTCTGCATATCT
53503011 G-TTCTGCATATCT
1 GATTCTGCATATCT
53503024 GATTCTG
1 GATTCTG
53503031 TTATTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (14 bp):
GATTCTGCATATCT
Found at i:53511752 original size:27 final size:27
Alignment explanation
Indices: 53511722--53511926 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
53511712 ATATTGAGTC
* * * *
53511722 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
53511749 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53511776 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53511804 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53511831 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53511858 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53511885 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53511912 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53511927 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53519714 original size:27 final size:27
Alignment explanation
Indices: 53519684--53519888 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
53519674 ATATTGAGTC
* * * *
53519684 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
53519711 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53519738 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53519766 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53519793 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53519820 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53519847 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53519874 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53519889 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53527515 original size:2 final size:2
Alignment explanation
Indices: 53527508--53527534 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
53527498 AGTGTTCTGG
53527508 GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT G
53527535 AGGTCTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:53532309 original size:48 final size:48
Alignment explanation
Indices: 53532179--53532365 Score: 241
Period size: 48 Copynumber: 3.9 Consensus size: 48
53532169 AAAAAGTGTA
* *
53532179 AGATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
1 AGATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
*
53532227 ATCGATCTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
1 A--GATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
* * * * *
53532277 AAATGTCGGTGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT
1 AGATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
* * *
53532325 CGA-GGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
1 AGATGTC-GATGCCATGTCCCAAACATGGTCTTACACTAGCT
53532366 TGTCATGCAT
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
47 2 0.02
48 73 0.61
50 45 0.38
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
AGATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
Found at i:53532354 original size:96 final size:98
Alignment explanation
Indices: 53532188--53532365 Score: 272
Period size: 96 Copynumber: 1.8 Consensus size: 98
53532178 AAGATGCCGA
* * * *
53532188 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGATCTCGATGCCATGTCCCAAAC
1 TGCCATGTCCCAAACATGGTCTTACACTAGCGCTCACATATCGAGCTCGATGCCATGTCCCAAAC
53532253 ATGGTCTTACACTAGCTCTCATATAAATGTCGG
66 ATGGTCTTACACTAGCTCTCATATAAATGTCGG
* *
53532286 TGCCATGTTCCAAACATGGTCTTACACT-G-GCTCACATATCGAGGCT-GATGCCATGTCCCAGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCGCTCACATATCGA-GCTCGATGCCATGTCCCAAA
53532348 CATGGTCTTACACTAGCT
65 CATGGTCTTACACTAGCT
53532366 TGTCATGCAT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
96 44 0.60
97 3 0.04
98 26 0.36
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (98 bp):
TGCCATGTCCCAAACATGGTCTTACACTAGCGCTCACATATCGAGCTCGATGCCATGTCCCAAAC
ATGGTCTTACACTAGCTCTCATATAAATGTCGG
Found at i:53549524 original size:18 final size:18
Alignment explanation
Indices: 53549496--53549548 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
53549486 TTTTGGGCTG
*
53549496 TATGGGT-CACACGGGCG
1 TATGGGTCCACACGGGCA
*
53549513 TGTGGGTCCACACGGGCA
1 TATGGGTCCACACGGGCA
*
53549531 TATGGGCCCACACGGGCA
1 TATGGGTCCACACGGGCA
53549549 GGCCACATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 6 0.19
18 25 0.81
ACGTcount: A:0.19, C:0.28, G:0.38, T:0.15
Consensus pattern (18 bp):
TATGGGTCCACACGGGCA
Found at i:53550061 original size:41 final size:41
Alignment explanation
Indices: 53549989--53550070 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
53549979 TATTATTGAT
* *** ** *
53549989 TAATGTATATCTGATACTGTTACTGTGATGGGCTTAGGCCC
1 TAATGCATATCTGATACTAAAACTGAAATGGGCTAAGGCCC
53550030 TAATGCATATCTGATACTAAAACTGAAATGGGCTAAGGCCC
1 TAATGCATATCTGATACTAAAACTGAAATGGGCTAAGGCCC
53550071 AAACTGATAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (41 bp):
TAATGCATATCTGATACTAAAACTGAAATGGGCTAAGGCCC
Found at i:53552305 original size:30 final size:30
Alignment explanation
Indices: 53552269--53552329 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
53552259 CTCGTATAAT
53552269 CCAATTCACATGATCTTTCACTTATTAAAG
1 CCAATTCACATGATCTTTCACTTATTAAAG
*
53552299 CCAATTCACATGGTCTTTCACTTATTAAAG
1 CCAATTCACATGATCTTTCACTTATTAAAG
53552329 C
1 C
53552330 TAATAACAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
CCAATTCACATGATCTTTCACTTATTAAAG
Found at i:53557503 original size:22 final size:22
Alignment explanation
Indices: 53557473--53557515 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
53557463 GAATAACATA
*
53557473 AAACCATTTAAAATAAATAATG
1 AAACAATTTAAAATAAATAATG
* *
53557495 AAACAATTTTAAATAAGTAAT
1 AAACAATTTAAAATAAATAAT
53557516 ACATAAAAAA
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:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
AAACAATTTAAAATAAATAATG
Found at i:53557788 original size:22 final size:24
Alignment explanation
Indices: 53557741--53557790 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
53557731 GAAATCTTAA
* *
53557741 AATAAATAATAACAAGAGGTTTAC
1 AATAAATAAGAACAAGAGATTTAC
53557765 AATAAATAAGAA-AAGA-ATTTAC
1 AATAAATAAGAACAAGAGATTTAC
53557787 AATA
1 AATA
53557791 GTTTGCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 4 0.17
24 11 0.46
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.24
Consensus pattern (24 bp):
AATAAATAAGAACAAGAGATTTAC
Found at i:53558766 original size:27 final size:27
Alignment explanation
Indices: 53558721--53558797 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
53558711 AAATAGATTT
* *
53558721 TAAAAAAAAGAAAAGAAAT-GAATAAACA
1 TAAAAAAAA-AAGAGAAATAGAACAAA-A
* *
53558749 TAAAAAAAAAAGATAAATAGAACGAAA
1 TAAAAAAAAAAGAGAAATAGAACAAAA
* *
53558776 GAAAAAAAAAAGA-AAAAAGAAC
1 TAAAAAAAAAAGAGAAATAGAAC
53558798 GTAGCAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 8 0.19
27 20 0.48
28 14 0.33
ACGTcount: A:0.77, C:0.04, G:0.12, T:0.08
Consensus pattern (27 bp):
TAAAAAAAAAAGAGAAATAGAACAAAA
Found at i:53559348 original size:18 final size:18
Alignment explanation
Indices: 53559321--53559358 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
53559311 TTCCTCAATA
* *
53559321 TTATATTCTATAACTAAT
1 TTATACTCTATAAATAAT
53559339 TTATACTCTATAAATAAT
1 TTATACTCTATAAATAAT
53559357 TT
1 TT
53559359 TAAGAAGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATACTCTATAAATAAT
Found at i:53566628 original size:2 final size:2
Alignment explanation
Indices: 53566623--53566657 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
53566613 TAAAAAAAAA
53566623 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
53566658 GCTTTGAAAA
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:53566804 original size:31 final size:31
Alignment explanation
Indices: 53566769--53566828 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
53566759 TCATATCTTA
53566769 TTTATATTATATTCAAATATTTGTTTTACTT
1 TTTATATTATATTCAAATATTTGTTTTACTT
53566800 TTTATATTATATTCAAATATTTGTTTTAC
1 TTTATATTATATTCAAATATTTGTTTTAC
53566829 ATTTCATCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (31 bp):
TTTATATTATATTCAAATATTTGTTTTACTT
Found at i:53567714 original size:19 final size:19
Alignment explanation
Indices: 53567690--53567728 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53567680 TCACCACAAA
53567690 AAAAAATCA-AAATATTTAT
1 AAAAAATCATAAA-ATTTAT
*
53567709 AAAAAATTATAAAATTTAT
1 AAAAAATCATAAAATTTAT
53567728 A
1 A
53567729 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATCATAAAATTTAT
Found at i:53567722 original size:27 final size:27
Alignment explanation
Indices: 53567692--53567774 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
53567682 ACCACAAAAA
*
53567692 AAAATCAAAATATTTATAAAAAATTAT
1 AAAATTAAAATATTTATAAAAAATTAT
* * * *
53567719 AAAATTTATATTTTTAAAAAAAATTAT
1 AAAATTAAAATATTTATAAAAAATTAT
* *
53567746 AAAAATTAAAA-AATTCTAAAAAATT-T
1 -AAAATTAAAATATTTATAAAAAATTAT
53567772 AAA
1 AAA
53567775 GAACATATAA
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
25 3 0.07
26 1 0.02
27 32 0.73
28 8 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
AAAATTAAAATATTTATAAAAAATTAT
Found at i:53571551 original size:17 final size:18
Alignment explanation
Indices: 53571529--53571562 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53571519 ATAATTTTAC
*
53571529 TTTAAAT-TTTAATTATT
1 TTTAAATGTATAATTATT
53571546 TTTAAATGTATAATTAT
1 TTTAAATGTATAATTAT
53571563 CACAAAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTAAATGTATAATTATT
Found at i:53575408 original size:43 final size:43
Alignment explanation
Indices: 53575374--53575458 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
53575364 TGTGTCTGCT
* *
53575374 CATGTGAATATTTGAAATAGGGCCACACGACCGTGTGTCAAAC
1 CATGTGAATATTCGAAATAGAGCCACACGACCGTGTGTCAAAC
* *
53575417 CATGTGTATATTCGAAATAGAGCCACACGACCGTGTGCCAAA
1 CATGTGAATATTCGAAATAGAGCCACACGACCGTGTGTCAAA
53575459 GTGTGCCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (43 bp):
CATGTGAATATTCGAAATAGAGCCACACGACCGTGTGTCAAAC
Found at i:53575520 original size:43 final size:43
Alignment explanation
Indices: 53575459--53575540 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
53575449 GTGTGCCAAA
* *
53575459 GTGTGCCAAACCGTGTGTATATTTGAATTTTGGACACATGGCT
1 GTGTGCCAAACCGTGTGTATATTCGAATTGTGGACACATGGCT
*
53575502 GTGTGCCAAACTGTGTGTATATTCGAATTGTGGACACAT
1 GTGTGCCAAACCGTGTGTATATTCGAATTGTGGACACAT
53575541 TGCCGTGACG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
GTGTGCCAAACCGTGTGTATATTCGAATTGTGGACACATGGCT
Found at i:53579938 original size:25 final size:25
Alignment explanation
Indices: 53579910--53579962 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
53579900 GATAAATGTG
53579910 ATTGCCTTATAAAATGAGATCTTAC
1 ATTGCCTTATAAAATGAGATCTTAC
53579935 ATTGCCTTATAAAATGAGATCTTAC
1 ATTGCCTTATAAAATGAGATCTTAC
53579960 ATT
1 ATT
53579963 TGTTGCTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (25 bp):
ATTGCCTTATAAAATGAGATCTTAC
Found at i:53583755 original size:47 final size:47
Alignment explanation
Indices: 53583703--53584394 Score: 1114
Period size: 47 Copynumber: 14.6 Consensus size: 47
53583693 GATAATTGTG
* * *
53583703 ATGTGAATGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53583750 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53583797 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53583844 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53583891 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53583940 ATGTGAAAGTGTATATATGTGATAAGGCCTAGTGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53583987 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53584034 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53584083 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53584132 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53584179 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53584228 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53584275 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
53584322 ATGTGAAAGTGTATATATGTGACAGGGTCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53584369 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
53584395 TCCCGAAGGG
Statistics
Matches: 609, Mismatches: 30, Indels: 12
0.94 0.05 0.02
Matches are distributed among these distances:
47 424 0.70
49 185 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:53583810 original size:96 final size:96
Alignment explanation
Indices: 53583703--53584394 Score: 1125
Period size: 96 Copynumber: 7.3 Consensus size: 96
53583693 GATAATTGTG
*
53583703 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
53583766 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53583797 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
53583860 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
53583891 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
53583956 ATGTGATAAGGCCTAGTGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53583987 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
53584050 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53584083 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
53584148 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
53584179 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
53584244 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53584275 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * * *
53584338 ATGTGACAGGGTCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
53584369 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
53584395 TCCCGAAGGG
Statistics
Matches: 564, Mismatches: 24, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
94 234 0.41
95 3 0.01
96 281 0.50
98 46 0.08
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:53583857 original size:143 final size:142
Alignment explanation
Indices: 53583703--53584394 Score: 1127
Period size: 143 Copynumber: 4.9 Consensus size: 142
53583693 GATAATTGTG
* * *
53583703 ATGTGAATGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
*
53583767 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
53583832 CCGATGTGATGA
131 CCGATGTGATGA
* *
53583844 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATAT
* *
53583909 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAGTG
65 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
53583974 GCCGATGTGATGA
130 GCCGATGTGATGA
* *
53583987 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATAT
53584052 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAA
* *
53584117 TGGCCAATGTGATGA
128 TAGCCGATGTGATGA
53584132 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATAT
53584197 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
53584262 GCCGATGTGATGA
130 GCCGATGTGATGA
*
53584275 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
* * * * * * * * *
53584339 TGTGACAGGGTCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
53584395 TCCCGAAGGG
Statistics
Matches: 523, Mismatches: 24, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
141 106 0.20
143 278 0.53
145 139 0.27
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (142 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
CCGATGTGATGA
Found at i:53595111 original size:91 final size:91
Alignment explanation
Indices: 53594916--53595142 Score: 319
Period size: 91 Copynumber: 2.5 Consensus size: 91
53594906 TCTGTCATGT
** *
53594916 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GCTGCCATGGTATCTTTCAAC
*** * * * *
53594981 CATGGTCTTATTTATTTCCCGTCATGT
65 CATGGTCTTACACATTTCACATCAGGC
* *
53595008 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTGCCATGGTATCTTTCAACC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGCTGCCATGGTATCTTTCAACC
* *
53595073 ATGGTCTTACACGTTTCATATCAGGC
66 ATGGTCTTACACATTTCACATCAGGC
53595099 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
53595143 AGAGCACACT
Statistics
Matches: 120, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 81 0.68
92 39 0.32
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGCTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCACATCAGGC
Found at i:53595136 original size:46 final size:46
Alignment explanation
Indices: 53594870--53595142 Score: 325
Period size: 46 Copynumber: 6.0 Consensus size: 46
53594860 TTTGACATGA
* * * * * * * *
53594870 TGCCATAGTGTCTTTCAACTACGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
53594916 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
53594962 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
53595008 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
53595053 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
53595099 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
53595143 AGAGCACACT
Statistics
Matches: 204, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 49 0.24
46 155 0.76
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:53603489 original size:17 final size:18
Alignment explanation
Indices: 53603467--53603504 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
53603457 AGACCGAATT
*
53603467 GGGTGT-GTGGGCCACAC
1 GGGTGTAGTGGCCCACAC
*
53603484 GGGTGTATTGGCCCACAC
1 GGGTGTAGTGGCCCACAC
53603502 GGG
1 GGG
53603505 CATGCCACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (18 bp):
GGGTGTAGTGGCCCACAC
Found at i:53617223 original size:35 final size:35
Alignment explanation
Indices: 53617133--53617224 Score: 91
Period size: 35 Copynumber: 2.6 Consensus size: 35
53617123 ACCTATAGTT
* **
53617133 CAAATTCAATAGAACATCACATATAGCCGAATATG
1 CAAATTCAATATAACATCACATATAGCCGAATACA
* *
53617168 CACATTCAAGT-TAACTTCACATAT-GACCGAATACA
1 CAAATTCAA-TATAACATCACATATAG-CCGAATACA
53617203 CAAATTCAATATAA-ACTCACAT
1 CAAATTCAATATAACA-TCACAT
53617225 GTAATTGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
34 2 0.04
35 43 0.93
36 1 0.02
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.25
Consensus pattern (35 bp):
CAAATTCAATATAACATCACATATAGCCGAATACA
Found at i:53618373 original size:17 final size:16
Alignment explanation
Indices: 53618346--53618378 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
53618336 AATACCTTGT
53618346 TTCTTTTTTATTTTCG
1 TTCTTTTTTATTTTCG
53618362 TTCTTCTTTTATTTTCG
1 TTCTT-TTTTATTTTCG
53618379 GTAATAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.73
Consensus pattern (16 bp):
TTCTTTTTTATTTTCG
Found at i:53624934 original size:35 final size:35
Alignment explanation
Indices: 53624844--53624974 Score: 92
Period size: 35 Copynumber: 3.8 Consensus size: 35
53624834 ACCTATAGTT
* *
53624844 CAAATTCAATA-GAACATCACATATAGCCGAATATG
1 CAAATTCAATATAAACATCACATATA-CCGAATATA
* * *
53624879 CACATTCAAGT-T-AACTTCACATATGACCGAATACA
1 CAAATTCAA-TATAAACATCACATAT-ACCGAATATA
* * *
53624914 CAAATTCAATATAAAC-TCACATGTAATCGAATATT
1 CAAATTCAATATAAACATCACATAT-ACCGAATATA
* * *
53624949 CAAGTTAAATATAAGC-TCACATATAC
1 CAAATTCAATATAAACATCACATATAC
53624975 TTACCTATAT
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
34 2 0.03
35 69 0.91
36 5 0.07
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (35 bp):
CAAATTCAATATAAACATCACATATACCGAATATA
Found at i:53631188 original size:5 final size:5
Alignment explanation
Indices: 53631178--53631209 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
53631168 TTGTGTGTTC
53631178 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
53631210 TCACATGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:53631197 original size:14 final size:14
Alignment explanation
Indices: 53631178--53631208 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
53631168 TTGTGTGTTC
53631178 TTTATTTTATTTTA
1 TTTATTTTATTTTA
53631192 TTTATTTTATTTTA
1 TTTATTTTATTTTA
53631206 TTT
1 TTT
53631209 TTCACATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:53633569 original size:27 final size:27
Alignment explanation
Indices: 53633538--53633654 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
53633528 CCAAAATAGC
53633538 TAAAATGACCGTAATACCCCTATAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
* * * *
53633565 TAAAATGACCGTAACACTCTTGTAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
* *
53633592 TAAAATGATCGTAATGCCCCTATAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
* *
53633619 TAAAATGACCGTGATACCCCTATATGG
1 TAAAATGACCGTAATACCCCTATAGGG
*
53633646 CAAAATGAC
1 TAAAATGAC
53633655 GAGTAACCCT
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCCTATAGGG
Found at i:53633882 original size:27 final size:27
Alignment explanation
Indices: 53633791--53633891 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 27
53633781 ATGGAGGAAG
* *
53633791 TACTG-TACTGGTGACTATGTCACATT
1 TACTGTTACTGGTGGCTATGCCACATT
* *
53633817 CACTGTTACTGGTGGCTATGCCACAAT
1 TACTGTTACTGGTGGCTATGCCACATT
* *
53633844 TACTGATACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGGCTATGCCACATT
* * **
53633871 TAGTGTTTCTGGAAGCTATGC
1 TACTGTTACTGGTGGCTATGC
53633892 TGCATTATTA
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
26 4 0.07
27 56 0.93
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTATGCCACATT
Found at i:53634097 original size:32 final size:33
Alignment explanation
Indices: 53634055--53634119 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
53634045 CCCACACTAT
* *
53634055 TACTGTATAGGGCTAAGGCCCGGACTG-TACTG
1 TACTGAATAGGGCTAAGGCCCAGACTGTTACTG
*
53634087 TACTGAATAGGGCTCAGGCCCAGACTGTTACTG
1 TACTGAATAGGGCTAAGGCCCAGACTGTTACTG
53634120 CATGCACTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 24 0.83
33 5 0.17
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (33 bp):
TACTGAATAGGGCTAAGGCCCAGACTGTTACTG
Found at i:53637495 original size:9 final size:9
Alignment explanation
Indices: 53637481--53637558 Score: 86
Period size: 9 Copynumber: 8.7 Consensus size: 9
53637471 ATAAGTATAA
53637481 AATTAACCG
1 AATTAACCG
53637490 AATTAACCG
1 AATTAACCG
**
53637499 AATTAGTCG
1 AATTAACCG
53637508 AATT-ACTCG
1 AATTAAC-CG
*
53637517 AATTATCCG
1 AATTAACCG
*
53637526 AATTACCCG
1 AATTAACCG
* *
53637535 AATTAGCCA
1 AATTAACCG
53637544 AATTAACCG
1 AATTAACCG
53637553 AATTAA
1 AATTAA
53637559 ACAAATTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
9 56 0.98
10 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:53637601 original size:5 final size:6
Alignment explanation
Indices: 53637586--53637632 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
53637576 AATTATATGT
*
53637586 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTAAA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
53637633 ATTAAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 28 0.76
7 8 0.22
8 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:53637620 original size:20 final size:21
Alignment explanation
Indices: 53637597--53637640 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
53637587 TTTTATTTTT
53637597 ATTTTTATTTTTAGTT-TTAA
1 ATTTTTATTTTTAGTTATTAA
*
53637617 ATTTTTATTTTTATTTATTAA
1 ATTTTTATTTTTAGTTATTAA
53637638 ATT
1 ATT
53637641 ATTTGTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTTATTTTTAGTTATTAA
Found at i:53637654 original size:31 final size:31
Alignment explanation
Indices: 53637564--53637655 Score: 84
Period size: 32 Copynumber: 2.9 Consensus size: 31
53637554 ATTAAACAAA
*
53637564 TTATTTATATAAAATTATATGT--TTTTTATTT
1 TTATTTAT-T-AAATTATTTGTAATTTTTATTT
**
53637595 TTATTT-TTATTTTTAGTTT-TAAATTTTTATTT
1 TTATTTATTA-AATTA-TTTGT-AATTTTTATTT
53637627 TTATTTATTAAATTATTTGTAATTTTTAT
1 TTATTTATTAAATTATTTGTAATTTTTAT
53637656 GATTGGGTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
28 1 0.02
29 5 0.10
30 3 0.06
31 18 0.37
32 19 0.39
33 3 0.06
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (31 bp):
TTATTTATTAAATTATTTGTAATTTTTATTT
Found at i:53639467 original size:6 final size:6
Alignment explanation
Indices: 53639456--53639517 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
53639446 GTTAGCGAAC
* * * *
53639456 AAATAT AAATAT AAATAC AAATAT AAATATT AAATAT AAGATTT GAATAA
1 AAATAT AAATAT AAATAT AAATAT AAATA-T AAATAT AA-ATAT AAATAT
53639506 ATAATAT AAATA
1 A-AATAT AAATA
53639518 AATATTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
6 30 0.67
7 15 0.33
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:53639477 original size:12 final size:12
Alignment explanation
Indices: 53639456--53639517 Score: 61
Period size: 13 Copynumber: 4.9 Consensus size: 12
53639446 GTTAGCGAAC
53639456 AAATATAAATAT
1 AAATATAAATAT
*
53639468 AAATACAAATAT
1 AAATATAAATAT
53639480 AAATATTAAATAT
1 AAATA-TAAATAT
* * *
53639493 AAGATTTGAATAA
1 AA-ATATAAATAT
53639506 ATAATATAAATA
1 A-AATATAAATA
53639518 AATATTTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
12 16 0.40
13 21 0.52
14 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (12 bp):
AAATATAAATAT
Found at i:53639477 original size:18 final size:19
Alignment explanation
Indices: 53639454--53639491 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
53639444 ATGTTAGCGA
53639454 ACAAATATAAATA-TAAAT
1 ACAAATATAAATATTAAAT
53639472 ACAAATATAAATATTAAAT
1 ACAAATATAAATATTAAAT
53639491 A
1 A
53639492 TAAGATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
ACAAATATAAATATTAAAT
Found at i:53651432 original size:28 final size:28
Alignment explanation
Indices: 53651390--53651444 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
53651380 GCCAAAATAC
*
53651390 GAAATCAACATCGCCTGGACCTCCTCAT
1 GAAATCAACACCGCCTGGACCTCCTCAT
53651418 GAAATCAACACCGCCTGGACCTCCTCA
1 GAAATCAACACCGCCTGGACCTCCTCA
53651445 CACGGGCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.38, G:0.15, T:0.18
Consensus pattern (28 bp):
GAAATCAACACCGCCTGGACCTCCTCAT
Found at i:53653198 original size:28 final size:28
Alignment explanation
Indices: 53653160--53653338 Score: 288
Period size: 28 Copynumber: 6.4 Consensus size: 28
53653150 ATTGTACAGA
53653160 ACTAAGTGTGCGAGCTTGATTATGTAGC
1 ACTAAGTGTGCGAGCTTGATTATGTAGC
53653188 ACTAAGTGTGCGAGCTTGATTATGTAGC
1 ACTAAGTGTGCGAGCTTGATTATGTAGC
53653216 ACTAAGTGTGCGAGCTTGATTATGTAGC
1 ACTAAGTGTGCGAGCTTGATTATGTAGC
* *
53653244 ACTAAGTGTGCGAGTTTGATTATATAGC
1 ACTAAGTGTGCGAGCTTGATTATGTAGC
* *
53653272 ACTAAGTGTGCAAGTTTGATTATGTAGC
1 ACTAAGTGTGCGAGCTTGATTATGTAGC
* *
53653300 ACTAAGTGTGCAAG-TTGATTATATAGC
1 ACTAAGTGTGCGAGCTTGATTATGTAGC
*
53653327 ACTGAGTGTGCG
1 ACTAAGTGTGCG
53653339 GACTTAATAT
Statistics
Matches: 144, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
27 22 0.15
28 122 0.85
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
ACTAAGTGTGCGAGCTTGATTATGTAGC
Found at i:53659853 original size:5 final size:5
Alignment explanation
Indices: 53659839--53659874 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
53659829 TTTTATTTAG
53659839 ATTAT A-TAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
53659875 AATTGATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:53659885 original size:15 final size:14
Alignment explanation
Indices: 53659839--53659888 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 14
53659829 TTTTATTTAG
53659839 ATTATATATATTAT
1 ATTATATATATTAT
53659853 ATTATATTATATTAT
1 ATTATA-TATATTAT
53659868 ATTATATA-ATTGATT
1 ATTATATATATT-A-T
53659883 ATTATA
1 ATTATA
53659889 ATTATTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.09
14 9 0.27
15 21 0.64
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
ATTATATATATTAT
Found at i:53659885 original size:20 final size:20
Alignment explanation
Indices: 53659838--53659903 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
53659828 ATTTTATTTA
53659838 GATTATATATATTATATTATATT
1 GATTAT-TATATTATA-TA-ATT
53659861 -A-TATTATATTATATAATT
1 GATTATTATATTATATAATT
53659879 GATTATTATAATTAT-TAATT
1 GATTATTAT-ATTATATAATT
53659899 G-TTAT
1 GATTAT
53659904 GGTTTTATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.08
19 7 0.17
20 21 0.52
21 8 0.20
22 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
GATTATTATATTATATAATT
Found at i:53660383 original size:24 final size:25
Alignment explanation
Indices: 53660352--53660400 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
53660342 ATTTATTTAC
53660352 TTATTATTTAAG-AA-ATAATAATAA
1 TTATTA-TTAAGTAATATAATAATAA
53660376 TTATTATTAAGTTAATATAATAATA
1 TTATTATTAAG-TAATATAATAATA
53660401 TAATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.23
24 6 0.27
25 2 0.09
26 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
TTATTATTAAGTAATATAATAATAA
Found at i:53661561 original size:45 final size:45
Alignment explanation
Indices: 53661497--53661603 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
53661487 CAACTACTGT
*
53661497 TACTGTTACCGTTACTGTTACGGATTC-GACACTTTGTGTGTCAAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCAAA
**
53661542 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCAAA
**
53661587 TACTGTTATTGTTACTG
1 TACTGTTACCGTTACTG
53661604 CTACTGCTAC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 55 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCAAA
Found at i:53669267 original size:84 final size:84
Alignment explanation
Indices: 53669167--53669329 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 84
53669157 TCACACGCCT
* * * * *
53669167 ATGTTTATCGCGTAATTTTATTGCCCAATCGTCACACGACTTGAGGACACACCCGTGTGTCTAGG
1 ATGTTTATCGAGTAATTTTATTGCCCAATCGTCACACAACCTGAAGACACACCCGTGTGTCCAGG
*
53669232 CCATGTGGTGCACAGGGCC
66 CCATGTGGTACACAGGGCC
* *
53669251 ATGTTTATCGATTAATTTTATTGCCCAATCGTCACACAACCTGAAGACACGCCCGTGTGTCCAGG
1 ATGTTTATCGAGTAATTTTATTGCCCAATCGTCACACAACCTGAAGACACACCCGTGTGTCCAGG
*
53669316 CCGTGTGGTACACA
66 CCATGTGGTACACA
53669330 CGGTCGCATC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (84 bp):
ATGTTTATCGAGTAATTTTATTGCCCAATCGTCACACAACCTGAAGACACACCCGTGTGTCCAGG
CCATGTGGTACACAGGGCC
Found at i:53672933 original size:64 final size:64
Alignment explanation
Indices: 53672853--53673036 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
53672843 AGACATTATG
* * *
53672853 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * *
53672917 ATGTAGCTAGGTCGCATGCATGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53672982 AA
63 AA
* *
53672984 AT-TAGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
53673037 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 24 0.24
66 21 0.21
67 33 0.34
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53679092 original size:42 final size:42
Alignment explanation
Indices: 53679033--53679196 Score: 204
Period size: 42 Copynumber: 3.9 Consensus size: 42
53679023 TTAAGGTTAT
*
53679033 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCTATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
* * * *
53679075 TGAGATTTCGTGTAAGACTATATCTGGGATATGACATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
* * *
53679117 TGAGACTT-CGTGTAAGACCATAGCTGTGCTATTGGCATCAATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCAATA
** *
53679160 CAAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
53679197 TGGTACGATA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 70 0.68
43 33 0.32
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:53679176 original size:85 final size:84
Alignment explanation
Indices: 53679033--53679192 Score: 214
Period size: 85 Copynumber: 1.9 Consensus size: 84
53679023 TTAAGGTTAT
* * ** * * *
53679033 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCTATATGAGATTTCGTGTAAGACTATAT
1 TGAGATTACGTGTAAGACCATAGCTGGGATATGGCATCAATACAAGATTACATGTAAGACCATAT
53679098 CTGGGATATGACATCGATA
66 CTGGGATATGACATCGATA
* *
53679117 TGAGACTT-CGTGTAAGACCATAGCTGTGCTATTGGCATCAATACAAGATTACATGTAAGACCAT
1 TGAGA-TTACGTGTAAGACCATAGCTGGGATA-TGGCATCAATACAAGATTACATGTAAGACCAT
53679181 ATCTGGGATATG
64 ATCTGGGATATG
53679193 GCATTGGTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
84 25 0.38
85 40 0.62
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATAGCTGGGATATGGCATCAATACAAGATTACATGTAAGACCATAT
CTGGGATATGACATCGATA
Found at i:53679215 original size:85 final size:84
Alignment explanation
Indices: 53679042--53679215 Score: 195
Period size: 85 Copynumber: 2.1 Consensus size: 84
53679032 TTGAGATTAC
* * ** * * *
53679042 GTGTAAGACCATATCTGGGATATGGCATCTATATGAGATTTCGTGTAAGACTATATCTGGGATAT
1 GTGTAAGACCATAGCTGGGATATGGCATCAATACAAGATTACATGTAAGACCATATCTGGGATAT
* **
53679107 GACATCGATATGAGACTTC
66 GACATCGATACGAGACTGA
* *
53679126 GTGTAAGACCATAGCTGTGCTATTGGCATCAATACAAGATTACATGTAAGACCATATCTGGGATA
1 GTGTAAGACCATAGCTGGGATA-TGGCATCAATACAAGATTACATGTAAGACCATATCTGGGATA
* * * *
53679191 TGGCATTGGTACGATACTGA
65 TGACATCGATACGAGACTGA
53679211 GTGTA
1 GTGTA
53679216 TGAGATTCTC
Statistics
Matches: 73, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
84 19 0.26
85 54 0.74
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATATGGCATCAATACAAGATTACATGTAAGACCATATCTGGGATAT
GACATCGATACGAGACTGA
Found at i:53688887 original size:48 final size:48
Alignment explanation
Indices: 53688770--53689003 Score: 263
Period size: 48 Copynumber: 4.8 Consensus size: 48
53688760 GTAAGATGCA
* * **
53688770 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATATC-AGTGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGG--CTCACATATCGAG-GCC
* * * * * *
53688820 GATGCCATGTTCCAAACATGGTTTTACACTAGCCCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
*
53688868 GATGCCATGTCCCAGACATGGTTTTACACTGGCTCACATATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * ** * * * *
53688916 GATGTCATGTCCCAGAGATGGTCTTACACCAGCTCTCATATCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
53688964 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA
53689004 ACCCTAGTAT
Statistics
Matches: 154, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
48 125 0.81
49 2 0.01
50 27 0.18
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
Found at i:53700005 original size:29 final size:29
Alignment explanation
Indices: 53699965--53700020 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
53699955 ATACAACAAG
53699965 AAAGAAACTGTAAACTGAAGAGAAAATGA
1 AAAGAAACTGTAAACTGAAGAGAAAATGA
*
53699994 AAAGAAGCTGTAAACTGAAGAGAAAAT
1 AAAGAAACTGTAAACTGAAGAGAAAAT
53700021 AAACTTCATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (29 bp):
AAAGAAACTGTAAACTGAAGAGAAAATGA
Found at i:53701584 original size:17 final size:17
Alignment explanation
Indices: 53701562--53701594 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
53701552 TCCCTTTTCC
53701562 AAGTTGATATATTATTA
1 AAGTTGATATATTATTA
53701579 AAGTTGATATATTATT
1 AAGTTGATATATTATT
53701595 TTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (17 bp):
AAGTTGATATATTATTA
Found at i:53702682 original size:40 final size:40
Alignment explanation
Indices: 53702610--53702734 Score: 144
Period size: 40 Copynumber: 3.1 Consensus size: 40
53702600 AAGGAGGAAA
* * * * *
53702610 TACTAGCAGCTTGTCTGCAATTCTT-GTCGCTTGTCCATAT
1 TACTGGCAACTTGTTTGCAATT-TTGGTGGCTTGTCCACAT
*
53702650 TACTGGCAACTTGTTTGCAATTTTGGTGGCTTGTCCACAA
1 TACTGGCAACTTGTTTGCAATTTTGGTGGCTTGTCCACAT
* * **
53702690 TATTGGCAATTTGTTTGCAATCCTGGTGGCTTGTCCACAT
1 TACTGGCAACTTGTTTGCAATTTTGGTGGCTTGTCCACAT
53702730 TACTG
1 TACTG
53702735 ATAGTTTATA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.03
40 70 0.97
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (40 bp):
TACTGGCAACTTGTTTGCAATTTTGGTGGCTTGTCCACAT
Found at i:53702749 original size:40 final size:40
Alignment explanation
Indices: 53702673--53702769 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
53702663 TTTGCAATTT
* * * * *
53702673 TGGTGGCTTGTCCACAATATTGGCAATTTGTTTGCAATCC
1 TGGTGGCTTGTCCACAATACTGACAATTTATATGCAATAC
* * *
53702713 TGGTGGCTTGTCCACATTACTGATAGTTTATATGCAATAC
1 TGGTGGCTTGTCCACAATACTGACAATTTATATGCAATAC
* *
53702753 TAGTCGCTTGTCCACAA
1 TGGTGGCTTGTCCACAA
53702770 ACTAGTGTGT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (40 bp):
TGGTGGCTTGTCCACAATACTGACAATTTATATGCAATAC
Found at i:53709988 original size:26 final size:27
Alignment explanation
Indices: 53709965--53710015 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
53709955 TTCCTTTTGA
* *
53709965 ATTTTTTTATTTTCTAA-AATTTTTAT
1 ATTTTTTAATTTTCAAACAATTTTTAT
53709991 ATTTTTTAATTTTCAAACAATTTTT
1 ATTTTTTAATTTTCAAACAATTTTT
53710016 TAGATTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTTTAATTTTCAAACAATTTTTAT
Found at i:53712476 original size:19 final size:20
Alignment explanation
Indices: 53712439--53712482 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
53712429 CCTTAAATTG
53712439 TTTTATTTGTAAGATTATTA
1 TTTTATTTGTAAGATTATTA
53712459 TTTTATTATG-AA-ATTATTA
1 TTTTATT-TGTAAGATTATTA
53712478 TTTTA
1 TTTTA
53712483 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTTATTTGTAAGATTATTA
Found at i:53716022 original size:34 final size:33
Alignment explanation
Indices: 53715984--53716049 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
53715974 TCTTTTCTTT
*
53715984 TCTTTCATTTTTCTCTTGTGTTTTTACCTCATTC
1 TCTTT-ATTTTTCTCTTGTGTTTTTAACTCATTC
* *
53716018 TCTTTGTTTTTCTCTTTTGTTTTTAACTCATT
1 TCTTTATTTTTCTCTTGTGTTTTTAACTCATT
53716050 ATTTACTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.09, C:0.20, G:0.06, T:0.65
Consensus pattern (33 bp):
TCTTTATTTTTCTCTTGTGTTTTTAACTCATTC
Found at i:53717198 original size:14 final size:14
Alignment explanation
Indices: 53717181--53717212 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
53717171 CAAAGAGGTA
*
53717181 AAAATAAAATAAAG
1 AAAAGAAAATAAAG
53717195 AAAAGAAAATAAAG
1 AAAAGAAAATAAAG
53717209 AAAA
1 AAAA
53717213 AAATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (14 bp):
AAAAGAAAATAAAG
Found at i:53734254 original size:27 final size:27
Alignment explanation
Indices: 53734224--53734292 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
53734214 TGCAACACAT
* *
53734224 TGCATCAAATGTATGGGTTGCATGGAA
1 TGCATCAAATGCATGGGTTGCATAGAA
* **
53734251 TGCATGAAATGCATGTTTTGCATAGAA
1 TGCATCAAATGCATGGGTTGCATAGAA
* *
53734278 TGCATGAAGTGCATG
1 TGCATCAAATGCATG
53734293 CCCAAAATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (27 bp):
TGCATCAAATGCATGGGTTGCATAGAA
Found at i:53741784 original size:13 final size:13
Alignment explanation
Indices: 53741768--53741797 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
53741758 TTTTTACCTT
*
53741768 TTAATTTTCTTAG
1 TTAATCTTCTTAG
53741781 TTAATCTTCTTAG
1 TTAATCTTCTTAG
53741794 TTAA
1 TTAA
53741798 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATCTTCTTAG
Found at i:53743956 original size:25 final size:25
Alignment explanation
Indices: 53743927--53743988 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
53743917 ACACCATAGA
* *
53743927 TCGCATGAGCTTCTTGATATTTAGC
1 TCGCATGAGCTTCTCGATACTTAGC
*
53743952 TCGCATGAGCTT-TCGCTACTTAGC
1 TCGCATGAGCTTCTCGATACTTAGC
*
53743976 TCACATGAGCTTC
1 TCGCATGAGCTTC
53743989 CTATTATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 20 0.62
25 12 0.38
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
TCGCATGAGCTTCTCGATACTTAGC
Found at i:53744633 original size:25 final size:26
Alignment explanation
Indices: 53744587--53744638 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
53744577 GGTCAATGTT
*
53744587 GGTATATAAATGTTTTTTTGAAACTA
1 GGTATATAAATGTTTTGTTGAAACTA
53744613 GGTATATAAAT-TTTTGTTGAAACTA
1 GGTATATAAATGTTTTGTTGAAACTA
53744638 G
1 G
53744639 CCATTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (26 bp):
GGTATATAAATGTTTTGTTGAAACTA
Found at i:53744647 original size:25 final size:26
Alignment explanation
Indices: 53744590--53744649 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
53744580 CAATGTTGGT
* **
53744590 ATATAAATGTTTTTTTGAAACTAGGT
1 ATATAAATGTTTTGTTGAAACTAGCC
53744616 ATATAAAT-TTTTGTTGAAACTAGCC
1 ATATAAATGTTTTGTTGAAACTAGCC
*
53744641 ATTTAAATG
1 ATATAAATG
53744650 GCTTGTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 21 0.72
26 8 0.28
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (26 bp):
ATATAAATGTTTTGTTGAAACTAGCC
Found at i:53747349 original size:18 final size:18
Alignment explanation
Indices: 53747310--53747349 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
53747300 TATGATATGC
53747310 AAAAAATAATTGAAAATA
1 AAAAAATAATTGAAAATA
* *
53747328 AAAAATATATTTGTAAATA
1 AAAAA-ATAATTGAAAATA
53747347 AAA
1 AAA
53747350 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAAATAATTGAAAATA
Found at i:53747441 original size:16 final size:17
Alignment explanation
Indices: 53747412--53747443 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
53747402 GAAAATAATA
53747412 TATAAAATTTAAAAAAC
1 TATAAAATTTAAAAAAC
53747429 TATAAAA-TTAAAAAA
1 TATAAAATTTAAAAAA
53747444 AAGTATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
TATAAAATTTAAAAAAC
Found at i:53747444 original size:17 final size:17
Alignment explanation
Indices: 53747412--53747444 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53747402 GAAAATAATA
*
53747412 TATAAAATTTAAAAAAC
1 TATAAAATTAAAAAAAC
53747429 TATAAAATTAAAAAAA
1 TATAAAATTAAAAAAA
53747445 AGTATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TATAAAATTAAAAAAAC
Found at i:53748530 original size:20 final size:19
Alignment explanation
Indices: 53748493--53748535 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
53748483 TAGATTTTTT
*
53748493 TAAAAATTTTATAAATTTG
1 TAAAAATTTTATAAATTTA
53748512 TAAAACATTATTA-AAATTTA
1 TAAAA-ATT-TTATAAATTTA
53748532 TAAA
1 TAAA
53748536 TATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 13 0.62
21 3 0.14
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAAAATTTTATAAATTTA
Found at i:53753367 original size:55 final size:53
Alignment explanation
Indices: 53753280--53753534 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
53753270 ATTAGGGTTT
* *
53753280 AAGGATACGATGTAAGACCATG-CTAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * *
53753335 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
53753390 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * *
53753443 AAGGATACCATGTAAGACCATGTCAAGACATGGTAATGGTAACTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
** * * *
53753492 AAGGATACCACATAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
53753535 GTACCCATGT
Statistics
Matches: 166, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
49 37 0.22
52 7 0.04
53 40 0.24
54 11 0.07
55 66 0.40
56 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:53753747 original size:16 final size:16
Alignment explanation
Indices: 53753726--53753756 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53753716 ATAAATTTGA
53753726 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
53753742 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
53753757 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:53759351 original size:54 final size:53
Alignment explanation
Indices: 53759213--53759419 Score: 195
Period size: 54 Copynumber: 3.8 Consensus size: 53
53759203 ATCCTTTTGA
* * *
53759213 AACTTACCATTGCCATGTCTTGATATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * * *
53759266 AACTCACCAATGCCATGCCTCGGCATGGTCTTACATGGGA-CTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
* * ***
53759319 TAACTTATCAATGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
53759372 AAACCTTACCAATTTCCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGGATCCTT
53759420 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
52 10 0.08
53 37 0.30
54 39 0.32
55 37 0.30
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:53759364 original size:107 final size:109
Alignment explanation
Indices: 53759213--53759412 Score: 280
Period size: 107 Copynumber: 1.9 Consensus size: 109
53759203 ATCCTTTTGA
* * *
53759213 AACTTACCATTGCCATGTCTTGATATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
53759276 -TGCCATGCCTCGGCATGGTCTTACATGGGACTTTGCCTTATAGT
65 TTGCCATGCCTCAGCATGGTCTTACATGGGACTTTGCCTTATAGT
* * * *
53759320 AACTTATCAATGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
* *
53759385 TTCCATGCCTTAGCATGGTCTTACATGG
66 TGCCATGCCTCAGCATGGTCTTACATGG
53759413 TATCCTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
106 1 0.01
107 47 0.59
108 7 0.09
109 25 0.31
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTCAGCATGGTCTTACATGGGACTTTGCCTTATAGT
Found at i:53762678 original size:37 final size:37
Alignment explanation
Indices: 53762626--53762704 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
53762616 ACTATGCACA
53762626 ATTTA-TTATTTCCGTAAGTTGTACCTATATACTATT
1 ATTTACTTATTTCCGTAAGTTGTACCTATATACTATT
*
53762662 ATTTACTTATTTCCGTAAGTTGTATCTATATACTATT
1 ATTTACTTATTTCCGTAAGTTGTACCTATATACTATT
53762699 ATTTAC
1 ATTTAC
53762705 ACTTTTGATT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 5 0.12
37 36 0.88
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.51
Consensus pattern (37 bp):
ATTTACTTATTTCCGTAAGTTGTACCTATATACTATT
Found at i:53765779 original size:64 final size:64
Alignment explanation
Indices: 53765698--53765881 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
53765688 AGACATTATG
* *
53765698 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
53765762 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGTTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53765827 AA
63 AA
* * * *
53765829 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
53765882 GAACTATATG
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53769365 original size:15 final size:14
Alignment explanation
Indices: 53769331--53769375 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 14
53769321 AAATAAATCA
*
53769331 AAATAATAA-AAAT
1 AAATAATAATATAT
53769344 AAA-AATAATATAT
1 AAATAATAATATAT
53769357 GAAATAATAATATAT
1 -AAATAATAATATAT
53769372 AAAT
1 AAAT
53769376 GATATTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 7 0.25
15 10 0.36
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
AAATAATAATATAT
Found at i:53771354 original size:177 final size:177
Alignment explanation
Indices: 53771148--53771543 Score: 668
Period size: 177 Copynumber: 2.2 Consensus size: 177
53771138 GGCTTAAATA
* *
53771148 TGCTCCATAGCCGATACATGGAGATAAGATCTGCAATTTTCAGTCTGCTT-TCTGCAACTTCAGG
1 TGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCT-TGCAACTTCAGG
53771212 AAGACAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAA
65 AAGACAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAA
*
53771277 ATATGCTCCATAGCTGATACATGGAGATAAGACTCGCCATTTTCGATC
130 ATATGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATC
*
53771325 TGCTCCATAGCCGATACATGGATATAAGATCTGTAATTTTCAGTCTACTTCTTGCAACTTCAGGA
1 TGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCTTGCAACTTCAGGA
* * * * *
53771390 AGATAAGACTTGTATCTTCAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGTTGGTGGCTAAAA
66 AGACAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAA
*
53771455 TCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATC
131 TATGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATC
* *
53771502 TGCTCCATAGCCGATACATAGAGATAAGATCTGTAACTTTCA
1 TGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCA
53771544 CCGATGTCGC
Statistics
Matches: 205, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
177 204 1.00
178 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (177 bp):
TGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCTTGCAACTTCAGGA
AGACAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAA
TATGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATC
Found at i:53783546 original size:18 final size:19
Alignment explanation
Indices: 53783525--53783565 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
53783515 AAAATAATAA
*
53783525 AAATAAAAATA-ATATATG
1 AAATAAAAATATATAAATG
*
53783543 AAATAATAATATATAAATG
1 AAATAAAAATATATAAATG
53783562 AAAT
1 AAAT
53783566 TTCAAAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
AAATAAAAATATATAAATG
Found at i:53783550 original size:15 final size:14
Alignment explanation
Indices: 53783516--53783560 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 14
53783506 AAATAAATCA
*
53783516 AAATAATAA-AAAT
1 AAATAATAATATAT
53783529 AAA-AATAATATAT
1 AAATAATAATATAT
53783542 GAAATAATAATATAT
1 -AAATAATAATATAT
53783557 AAAT
1 AAAT
53783561 GAAATTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 7 0.25
15 10 0.36
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
AAATAATAATATAT
Found at i:53783564 original size:19 final size:18
Alignment explanation
Indices: 53783506--53783565 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 18
53783496 TGAAAATTAG
*
53783506 AAAT-AAATCAAAATAAT
1 AAATGAAATAAAAATAAT
53783523 -AA--AAATAAAAATAAT
1 AAATGAAATAAAAATAAT
* *
53783538 ATATGAAATAATAATATAT
1 AAATGAAATAAAAATA-AT
53783557 AAATGAAAT
1 AAATGAAAT
53783566 TTCAAAATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 12 0.34
16 3 0.09
18 10 0.29
19 10 0.29
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (18 bp):
AAATGAAATAAAAATAAT
Found at i:53784443 original size:25 final size:27
Alignment explanation
Indices: 53784404--53784454 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
53784394 TTAAAAACCC
* *
53784404 TTTGTTTTTTGCTTTT-ACAGAAAACT
1 TTTGTTCTTTGCTTTTAAAAGAAAACT
53784430 TTTGTTCTTT-CTTTTAAAAGAAAAC
1 TTTGTTCTTTGCTTTTAAAAGAAAAC
53784455 CCTTAATGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (27 bp):
TTTGTTCTTTGCTTTTAAAAGAAAACT
Found at i:53787726 original size:21 final size:21
Alignment explanation
Indices: 53787693--53787732 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53787683 TTAATGAATA
* * *
53787693 ATAGCTCATACTTATCATAAT
1 ATAGATCACACTTAACATAAT
53787714 ATAGATCACACTTAACATA
1 ATAGATCACACTTAACATA
53787733 TAACATATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (21 bp):
ATAGATCACACTTAACATAAT
Found at i:53789833 original size:5 final size:5
Alignment explanation
Indices: 53789825--53789854 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
53789815 AGGAAATAAG
53789825 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
53789855 TGTTGGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Done.