Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 136 of 344
Found at i:45821146 original size:20 final size:18
Alignment explanation
Indices: 45821105--45821147 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
45821095 ATATATTTTT
* *
45821105 ATTTTTAATAAATATTAT
1 ATTTTTAATAAATATCAA
45821123 ATTTTTATATAAAATATCAA
1 ATTTTTA-AT-AAATATCAA
45821143 ATTTT
1 ATTTT
45821148 ATGTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 2 0.10
20 12 0.57
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTAATAAATATCAA
Found at i:45822047 original size:18 final size:18
Alignment explanation
Indices: 45822012--45822069 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
45822002 AGGTTTTTTT
45822012 TATTGATGAT-GT--CGA
1 TATTGATGATAGTGACGA
*
45822027 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
*
45822045 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
45822063 TATTGAT
1 TATTGAT
45822070 CGTGACCTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.24
16 2 0.05
18 26 0.70
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.38
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:45825265 original size:20 final size:20
Alignment explanation
Indices: 45825240--45825282 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
45825230 TCTTTTGCTA
*
45825240 TTTGAATCGATTCATTATTG
1 TTTGAATCAATTCATTATTG
* *
45825260 TTTGAATCAATTCTTTGTTG
1 TTTGAATCAATTCATTATTG
45825280 TTT
1 TTT
45825283 AACTTGATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.09, G:0.14, T:0.56
Consensus pattern (20 bp):
TTTGAATCAATTCATTATTG
Found at i:45827700 original size:21 final size:21
Alignment explanation
Indices: 45827676--45827719 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
45827666 ACTTTGAACA
* *
45827676 GATTGTTTTGTTGATTGACTC
1 GATTCTTTTGTTGATTGAATC
*
45827697 GATTCTTTTGTTGTTTGAATC
1 GATTCTTTTGTTGATTGAATC
45827718 GA
1 GA
45827720 CATTATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.09, G:0.23, T:0.52
Consensus pattern (21 bp):
GATTCTTTTGTTGATTGAATC
Found at i:45831940 original size:12 final size:12
Alignment explanation
Indices: 45831923--45831947 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45831913 AGAGACCCAA
45831923 GGAATGAGAAGT
1 GGAATGAGAAGT
45831935 GGAATGAGAAGT
1 GGAATGAGAAGT
45831947 G
1 G
45831948 ACAGCTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.44, T:0.16
Consensus pattern (12 bp):
GGAATGAGAAGT
Found at i:45833546 original size:24 final size:24
Alignment explanation
Indices: 45833519--45833574 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
45833509 TTGTTGTTGT
45833519 TGCTGCTGCAGCTG-GGAAAGCTGC
1 TGCTGCTGCAGCTGTGG-AAGCTGC
* *
45833543 TGCTGTTGCAGCTGTGGTAGCTGC
1 TGCTGCTGCAGCTGTGGAAGCTGC
45833567 TGCTGCTG
1 TGCTGCTG
45833575 TTGTTGTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.11, C:0.23, G:0.38, T:0.29
Consensus pattern (24 bp):
TGCTGCTGCAGCTGTGGAAGCTGC
Found at i:45835182 original size:7 final size:7
Alignment explanation
Indices: 45835157--45835189 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
45835147 GCAAGGCATT
45835157 AAAAAGA
1 AAAAAGA
45835164 ATAAAA-A
1 A-AAAAGA
45835171 AAAAAGA
1 AAAAAGA
45835178 AAAAAGA
1 AAAAAGA
45835185 AAAAA
1 AAAAA
45835190 AAAGGAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 4 0.17
7 16 0.67
8 4 0.17
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:45846397 original size:28 final size:28
Alignment explanation
Indices: 45846357--45846448 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
45846347 TGTACTAGAG
*
45846357 TACCCCTATGTATACAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
45846385 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
*
45846413 TACCCCTATGTATGCAAAATGACC-TCTA
1 TACCCCTATGTATGCAAAATTACCAT-TA
45846441 TACCCCTA
1 TACCCCTA
45846449 GGGTTAACTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 60 0.98
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:45846595 original size:28 final size:27
Alignment explanation
Indices: 45846554--45846643 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
45846544 AGGAAGCGTC
45846554 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* ** *
45846582 CTGGTGGCCCTGCCACGTATATCTATT
1 CTGGTGGCACTGCCACAAATATCTGTT
45846609 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
45846638 CTGGTG
1 CTGGTG
45846644 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:45846654 original size:29 final size:28
Alignment explanation
Indices: 45846564--45846654 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
45846554 CTGGTGGCTA
* * * *
45846564 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTATTCTGGTGACAC
** *
45846592 TGCCAC-GTATATCTATTCTGGTGGCAC
1 TGCCACAAAATATCTATTCTGGTGACAC
* *
45846619 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTAT-TCTGGTGACAC
*
45846648 TGTCACA
1 TGCCACA
45846655 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 22 0.44
28 13 0.26
29 15 0.30
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTATTCTGGTGACAC
Found at i:45847756 original size:11 final size:10
Alignment explanation
Indices: 45847728--45847761 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
45847718 AACCTGTAAG
45847728 TATTCTGAAT
1 TATTCTGAAT
*
45847738 TTTTCTGAAT
1 TATTCTGAAT
45847748 ATATTCTGAAT
1 -TATTCTGAAT
45847759 TAT
1 TAT
45847762 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:45849134 original size:6 final size:6
Alignment explanation
Indices: 45849123--45849150 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45849113 TAACGGTAGT
45849123 AGTAAC AGTAAC AGTAAC AGTAAC AGTA
1 AGTAAC AGTAAC AGTAAC AGTAAC AGTA
45849151 TTCAACATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
AGTAAC
Found at i:45849186 original size:6 final size:6
Alignment explanation
Indices: 45849175--45849207 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
45849165 TGCTGAATCT
45849175 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
45849208 TTCAACACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:45849240 original size:57 final size:58
Alignment explanation
Indices: 45849117--45849247 Score: 196
Period size: 57 Copynumber: 2.3 Consensus size: 58
45849107 TAATCATAAC
* *
45849117 GGTAGTAGTAACAGTAACAGTAACAGTAACAGTATTCAACATACAAAGTGCTGAATCT
1 GGTAGCAGTAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
* *
45849175 -GTAACAGTAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTG-TCGGAT-T
1 GGTAGCAGTAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCT-GAATCT
45849231 GGTAGCAGTAACAGTAA
1 GGTAGCAGTAACAGTAA
45849248 GTAGTCGGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
56 2 0.03
57 64 0.97
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (58 bp):
GGTAGCAGTAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
Found at i:45849496 original size:40 final size:40
Alignment explanation
Indices: 45849450--45849536 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
45849440 AATTCATTAC
* *
45849450 TTCAGTAA-TTTCACAGTTCAATGCAGTACGCATAACAATA
1 TTCAGTAACTTT-ACAATTCAATGCAGTACGCAAAACAATA
* *
45849490 TTCAGTAACTTTACAATTCAATTCAGTACTCAAAACAATA
1 TTCAGTAACTTTACAATTCAATGCAGTACGCAAAACAATA
45849530 TTCAGTA
1 TTCAGTA
45849537 TTCCACAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 39 0.93
41 3 0.07
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTTACAATTCAATGCAGTACGCAAAACAATA
Found at i:45849951 original size:20 final size:20
Alignment explanation
Indices: 45849926--45849974 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
45849916 ATATTTAGGT
45849926 TAATTAATAATTATAAAATA
1 TAATTAATAATTATAAAATA
*
45849946 TAATTAATAATTATAAAGTA
1 TAATTAATAATTATAAAATA
45849966 TAATTAATA
1 TAATTAATA
45849975 CATTTGTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TAATTAATAATTATAAAATA
Found at i:45850220 original size:25 final size:23
Alignment explanation
Indices: 45850176--45850236 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
45850166 ATTTTGATTT
*
45850176 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
45850200 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
45850224 ATATAAATTATAT
1 AT-TTAATTATAT
45850237 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:45850239 original size:35 final size:35
Alignment explanation
Indices: 45850184--45850263 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
45850174 TTATTTAATA
* *
45850184 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
45850218 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
45850253 ATATAAT-TAAA
1 ATATAATATAAA
45850264 ACAAATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:45851274 original size:48 final size:48
Alignment explanation
Indices: 45851218--45851350 Score: 167
Period size: 48 Copynumber: 2.8 Consensus size: 48
45851208 CATGATTAAT
* *
45851218 GAGATCCCGTGTAAGACCATGTTTGGGGTATGGCATCAGCATCGATAC
1 GAGATCCCGTGTAAGACCATGTCTGGGGTATGGCATCAGCATCGATAA
* * * *
45851266 GAGATCCCGTGTAAGACCATATCAGGGATATGGCTTCAGCATCGATAA
1 GAGATCCCGTGTAAGACCATGTCTGGGGTATGGCATCAGCATCGATAA
* ** * *
45851314 GTGATTTCGTATAAGACCATGTCTAGGGTATGGCATC
1 GAGATCCCGTGTAAGACCATGTCTGGGGTATGGCATC
45851351 GATATGAGGT
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (48 bp):
GAGATCCCGTGTAAGACCATGTCTGGGGTATGGCATCAGCATCGATAA
Found at i:45856908 original size:33 final size:33
Alignment explanation
Indices: 45856871--45856938 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
45856861 CCAGATGACA
45856871 TTGAAATAAATGATTCATTCCCTAAAGAACAAT
1 TTGAAATAAATGATTCATTCCCTAAAGAACAAT
*
45856904 TTGAAATAAATGATTCATTCCCTGAAGAACAAT
1 TTGAAATAAATGATTCATTCCCTAAAGAACAAT
45856937 TT
1 TT
45856939 TTTACTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (33 bp):
TTGAAATAAATGATTCATTCCCTAAAGAACAAT
Found at i:45859247 original size:16 final size:16
Alignment explanation
Indices: 45859222--45859260 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
45859212 TATCTTTCTT
45859222 TGTACATTGAGGGCAA
1 TGTACATTGAGGGCAA
*
45859238 TGTACCTTGAGGGCAA
1 TGTACATTGAGGGCAA
45859254 TGTACAT
1 TGTACAT
45859261 CTTAAGTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (16 bp):
TGTACATTGAGGGCAA
Found at i:45862991 original size:28 final size:29
Alignment explanation
Indices: 45862959--45863072 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
45862949 TACCTGTATC
* *
45862959 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
45862987 TGGCCCATTAGGCCCAAACCACCTAT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
45863016 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
45863045 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
45863073 CTCATGCTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 47 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:45863022 original size:57 final size:58
Alignment explanation
Indices: 45862950--45863060 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
45862940 AAATTCACAT
* * *
45862950 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAACC
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAACC
* * *
45863007 ACCTATATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCA
45863061 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 21 0.45
58 26 0.55
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (58 bp):
ACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAACC
Found at i:45863303 original size:8 final size:8
Alignment explanation
Indices: 45863292--45863332 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
45863282 ACTTTCAGCT
45863292 TTTCGGCA
1 TTTCGGCA
45863300 TTTCGGC-
1 TTTCGGCA
*
45863307 -GT-GGCA
1 TTTCGGCA
45863313 TTTCGGCA
1 TTTCGGCA
45863321 TTTCGGCA
1 TTTCGGCA
45863329 TTTC
1 TTTC
45863333 AGCTTTTGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
5 3 0.11
6 1 0.04
7 1 0.04
8 23 0.82
ACGTcount: A:0.10, C:0.24, G:0.27, T:0.39
Consensus pattern (8 bp):
TTTCGGCA
Found at i:45874493 original size:27 final size:27
Alignment explanation
Indices: 45874462--45874514 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
45874452 ACATGAATTG
*
45874462 ATTTCAATATT-CATATCCCATTTCATT
1 ATTTC-ATATTCCATATCCCATATCATT
*
45874489 ATTTCATATTCCATTTCCCATATCAT
1 ATTTCATATTCCATATCCCATATCAT
45874515 ATTCGTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTTCATATTCCATATCCCATATCATT
Found at i:45874496 original size:20 final size:19
Alignment explanation
Indices: 45874462--45874505 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
45874452 ACATGAATTG
45874462 ATTTCAATATTCATATCCC
1 ATTTCAATATTCATATCCC
* *
45874481 ATTTCATTATTTCATATTCC
1 ATTTCAATA-TTCATATCCC
45874501 ATTTC
1 ATTTC
45874506 CCATATCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTCAATATTCATATCCC
Found at i:45875667 original size:13 final size:12
Alignment explanation
Indices: 45875642--45875675 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
45875632 TTGTGCGTTC
45875642 TTTCTGTTCTTCT
1 TTTCT-TTCTTCT
45875655 TTTCTTTCTTTCT
1 TTTCTTTC-TTCT
45875668 TTTCTTTC
1 TTTCTTTC
45875676 AATTTTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTCTTTCTTCT
Found at i:45875773 original size:35 final size:35
Alignment explanation
Indices: 45875734--45875802 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
45875724 ATTTATTTGT
*
45875734 TTTCATTTTAATTCA-TTATTATATAATATATATAA
1 TTTCATTTT-ATTCATTTATTATAAAATATATATAA
*
45875769 TTTCATTTTATTTATTTATTATAAAATATATATA
1 TTTCATTTTATTCATTTATTATAAAATATATATA
45875803 TTAATTTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 4 0.13
35 27 0.87
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (35 bp):
TTTCATTTTATTCATTTATTATAAAATATATATAA
Found at i:45877237 original size:43 final size:43
Alignment explanation
Indices: 45877176--45877263 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
45877166 ATCCATCGTT
45877176 ATGCGTTCCCATTTCCACTCAAGAATTGAAATAGGCTGAAGTA
1 ATGCGTTCCCATTTCCACTCAAGAATTGAAATAGGCTGAAGTA
*
45877219 ATGCGTTCCCATTTCCACTCAGGAATTGAAATAGGCTGAAGTA
1 ATGCGTTCCCATTTCCACTCAAGAATTGAAATAGGCTGAAGTA
45877262 AT
1 AT
45877264 CTTGTGGGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (43 bp):
ATGCGTTCCCATTTCCACTCAAGAATTGAAATAGGCTGAAGTA
Found at i:45885436 original size:22 final size:21
Alignment explanation
Indices: 45885406--45885452 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
45885396 TACAAATTAA
45885406 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
45885428 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
45885449 ATCT
1 ATCT
45885453 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:45885458 original size:19 final size:19
Alignment explanation
Indices: 45885423--45885501 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
45885413 AGATTACAAG
45885423 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
45885444 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
45885461 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
45885480 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
45885499 ATC
1 ATC
45885502 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:45885478 original size:36 final size:38
Alignment explanation
Indices: 45885423--45885495 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
45885413 AGATTACAAG
45885423 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
45885461 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
45885496 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:45885510 original size:36 final size:35
Alignment explanation
Indices: 45885424--45885511 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 35
45885414 GATTACAAGA
45885424 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
45885460 TATCATATC-TAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
45885496 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
45885512 ATATTTCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 32 0.68
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:45887233 original size:79 final size:82
Alignment explanation
Indices: 45887110--45887294 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
45887100 GCTACTCGTT
* * * *
45887110 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
45887173 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
45887190 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
45887253 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
45887270 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45887295 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:45887294 original size:40 final size:40
Alignment explanation
Indices: 45887091--45887294 Score: 190
Period size: 40 Copynumber: 5.1 Consensus size: 40
45887081 TGGAATTTAA
** * *
45887091 CCGGATATAGCTAC-TCGTTCAAATGCCTTCGGGTCATAGC
1 CCGGATATAG-TACTTCGCACAAATGCCTTCGGGACTTAGC
* * *
45887131 CCGGTTATAGTAAC-TCGTACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
*
45887171 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
*
45887210 CCGGA-ATTAGTA-TCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTACT-TCGCACAAATGCCTTCGGGA-CTTAGC
* *
45887250 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
45887290 CCGGA
1 CCGGA
45887295 CATCATTCGA
Statistics
Matches: 140, Mismatches: 14, Indels: 20
0.80 0.08 0.11
Matches are distributed among these distances:
38 3 0.02
39 31 0.22
40 92 0.66
41 13 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTACTTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45904851 original size:27 final size:27
Alignment explanation
Indices: 45904821--45904971 Score: 239
Period size: 27 Copynumber: 5.6 Consensus size: 27
45904811 ATATTAAGTC
* *
45904821 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
45904848 CGCACACTTAGTGCTACATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
45904875 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
45904902 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
45904930 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
45904957 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45904972 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 92 0.78
28 26 0.22
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:45904880 original size:54 final size:55
Alignment explanation
Indices: 45904821--45904996 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
45904811 ATATTAAGTC
* *
45904821 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
45904875 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
45904930 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
45904986 CGCACACTTAG
1 CGCACACTTAG
45904997 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 46 0.42
55 47 0.43
56 16 0.15
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:45904945 original size:82 final size:81
Alignment explanation
Indices: 45904821--45904971 Score: 248
Period size: 82 Copynumber: 1.9 Consensus size: 81
45904811 ATATTAAGTC
*
45904821 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAACTCGCACACTTAG
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACTCGCACACTTAG
45904886 TGCTACATAGTCAACT
66 TGCTACATAGTCAACT
* * * *
45904902 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCAATTCGCACACTTA
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAACTCGCACACTTA
45904967 GTGCT
65 GTGCT
45904972 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
81 20 0.31
82 44 0.69
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACTCGCACACTTAG
TGCTACATAGTCAACT
Found at i:45915292 original size:22 final size:22
Alignment explanation
Indices: 45915243--45915294 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
45915233 AACCTTTGCT
* *
45915243 TCGAGACATTGTCTCTAGGATC
1 TCGAGACATGGTCTCAAGGATC
45915265 TCGAGACATGGTCTCCAAGG-TC
1 TCGAGACATGGTCT-CAAGGATC
*
45915287 TTGAGACA
1 TCGAGACA
45915295 AGATTTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (22 bp):
TCGAGACATGGTCTCAAGGATC
Found at i:45916168 original size:73 final size:71
Alignment explanation
Indices: 45916090--45916246 Score: 183
Period size: 73 Copynumber: 2.2 Consensus size: 71
45916080 TAATTTAGAA
* * * * *
45916090 TTAGAATTTAAAATTTTAGGATTTAATATGTTTAATTAGATTTTAA-TTTAGGTTAGATTCATTT
1 TTAGAATTTAAAATTTTAAGATTTAATAAGTTTAATTAGATTTTAACTTGAAGTTAGA--C-TTA
45916154 TTTTTAGTC
63 TTTTTAGTC
** *
45916163 TTAGAATATT-AAATTTTAAGATTTCTTAAGTTTCATTAGATTTTAACTTGAAGTTAGACTTATT
1 TTAGAAT-TTAAAATTTTAAGATTTAATAAGTTTAATTAGATTTTAACTTGAAGTTAGACTTATT
45916227 TTTAGTC
65 TTTAGTC
*
45916234 ATAGAATTTAAAA
1 TTAGAATTTAAAA
45916247 CTTAGAATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
70 2 0.03
71 20 0.28
72 1 0.01
73 38 0.53
74 11 0.15
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.50
Consensus pattern (71 bp):
TTAGAATTTAAAATTTTAAGATTTAATAAGTTTAATTAGATTTTAACTTGAAGTTAGACTTATTT
TTAGTC
Found at i:45916572 original size:54 final size:54
Alignment explanation
Indices: 45916507--45916615 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
45916497 AGCTTACGAG
45916507 CTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTCAGCT-AAGCTTTAGCT
1 CTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTCAGCTCAA-CTTTAGCT
45916561 CTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTTAGCT
1 CTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTTAGCT
45916615 C
1 C
45916616 ACGAGCTAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
54 52 0.96
55 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (54 bp):
CTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTTAGCT
Found at i:45916634 original size:30 final size:30
Alignment explanation
Indices: 45916561--45916635 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
45916551 AGCTTTAGCT
* *
45916561 CTAAACCTTAGCTCAACTTCAGCTTAGGAG
1 CTAAACCTTAGCTCAACTTCAGCTCACGAG
* * * * *
45916591 TTTAATCTCAGCTCAACTTTAGCTCACGAG
1 CTAAACCTTAGCTCAACTTCAGCTCACGAG
*
45916621 CTAAAGCTTAGCTCA
1 CTAAACCTTAGCTCA
45916636 TTTTAGTTTA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
CTAAACCTTAGCTCAACTTCAGCTCACGAG
Found at i:45917137 original size:13 final size:13
Alignment explanation
Indices: 45917119--45917143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45917109 GTATTGATCA
45917119 TGTGTTCACACCT
1 TGTGTTCACACCT
45917132 TGTGTTCACACC
1 TGTGTTCACACC
45917144 ATGATGACCA
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:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:45925641 original size:30 final size:30
Alignment explanation
Indices: 45925606--45925670 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
45925596 TGACTCAGTC
* *
45925606 GTGTGAGCCACATGGCCTAGCGACACAGCT
1 GTGTGAGCCACATGACCTAGCAACACAGCT
45925636 GTGTGAGCCACATGACCTAGCAACACAGCT
1 GTGTGAGCCACATGACCTAGCAACACAGCT
45925666 GTGTG
1 GTGTG
45925671 TCATTTGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.18
Consensus pattern (30 bp):
GTGTGAGCCACATGACCTAGCAACACAGCT
Found at i:45927468 original size:105 final size:105
Alignment explanation
Indices: 45927278--45927470 Score: 228
Period size: 105 Copynumber: 1.8 Consensus size: 105
45927268 TGTCAGCTCG
* * * *
45927278 TGTGAAAACTTCACCTATACTGTTTTGAAACACATTCAGGATACACGCCCGTGTGGGTTGCCTGT
1 TGTGAAAACTTCACCTATACTGTTTTGAAACACACTCAGGACACACGCCCATGTGGGTTGCCAGT
* *** *
45927343 GCGTATCACATGGCCGTGTGACAATCTATGTCTTAGGCCA
66 GCGCATCACACAACCATGTGACAATCTATGTCTTAGGCCA
* * * *
45927383 TGTGAAAA-TTGCATCTATACTGTTTTGAAACACGCTCAGTG-CACACGTCCATGTGTGTTGCCA
1 TGTGAAAACTT-CACCTATACTGTTTTGAAACACACTCAG-GACACACGCCCATGTGGGTTGCCA
*
45927446 GTGTGCATCACACAACCATGTGACA
64 GTGCGCATCACACAACCATGTGACA
45927471 GCCCGTGTCC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
104 2 0.03
105 69 0.96
106 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (105 bp):
TGTGAAAACTTCACCTATACTGTTTTGAAACACACTCAGGACACACGCCCATGTGGGTTGCCAGT
GCGCATCACACAACCATGTGACAATCTATGTCTTAGGCCA
Found at i:45928253 original size:39 final size:40
Alignment explanation
Indices: 45928191--45928300 Score: 172
Period size: 39 Copynumber: 2.8 Consensus size: 40
45928181 TTTGAGAAAC
*
45928191 TTTCAGTAGAA-CAAGTAGATATGGCTCGATAGAGCATA-T
1 TTTCAGTAGAATCAA-TAGGTATGGCTCGATAGAGCATACT
45928230 TTTCAGTAGAATCAATAGGTATGGCTCGATAGAGCATACT
1 TTTCAGTAGAATCAATAGGTATGGCTCGATAGAGCATACT
*
45928270 TTT-AGTAGAATCAGTAGGTATGGCTCGATAG
1 TTTCAGTAGAATCAATAGGTATGGCTCGATAG
45928301 TAGGTATCGT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
39 60 0.90
40 7 0.10
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (40 bp):
TTTCAGTAGAATCAATAGGTATGGCTCGATAGAGCATACT
Found at i:45934168 original size:91 final size:91
Alignment explanation
Indices: 45934017--45934190 Score: 242
Period size: 91 Copynumber: 1.9 Consensus size: 91
45934007 ACATTCACAT
* * * *
45934017 ATTATTTGGCAACTTTTATTTGCAAAAATGTTGTGTATTCACAATCATCTGGCAGCGTATTAACT
1 ATTATTTGGCAACTTTGATATGCAAAAATGTTGTGTATTCACAATCATCTAGCAGCGTATTAACC
45934082 TGCAACCTTTGGTGGTTTGCCCACCC
66 TGCAACCTTTGGTGGTTTGCCCACCC
** * *
45934108 ATTATTTGGCAACTTTGATATGCAATTATGTTGTGTATTCACAA-CTGTCTAGCAGTGTATTAAC
1 ATTATTTGGCAACTTTGATATGCAAAAATGTTGTGTATTCACAATC-ATCTAGCAGCGTATTAAC
* *
45934172 CTGCATCTTTTGGTGGTTT
65 CTGCAACCTTTGGTGGTTT
45934191 ATCCACAAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
90 1 0.01
91 71 0.99
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (91 bp):
ATTATTTGGCAACTTTGATATGCAAAAATGTTGTGTATTCACAATCATCTAGCAGCGTATTAACC
TGCAACCTTTGGTGGTTTGCCCACCC
Found at i:45935810 original size:12 final size:12
Alignment explanation
Indices: 45935793--45935818 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45935783 CATTCCAAAG
45935793 TATATATATACA
1 TATATATATACA
45935805 TATATATATACA
1 TATATATATACA
45935817 TA
1 TA
45935819 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:45936334 original size:27 final size:27
Alignment explanation
Indices: 45936303--45936480 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
45936293 TAAATTGTAC
45936303 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
45936330 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45936356 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
45936384 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
45936412 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45936439 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
45936466 AGCATTGAGTGTGCG
1 AGCACTAAGTGTGCG
45936481 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:45936417 original size:82 final size:81
Alignment explanation
Indices: 45936304--45936459 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45936294 AAATTGTACA
* *
45936304 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45936368 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45936385 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45936450 TGCGAGTTGA
65 TGCGAATTGA
45936460 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45939268 original size:12 final size:12
Alignment explanation
Indices: 45939251--45939275 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45939241 GCTCAAAGGG
45939251 CAAATAGGGTTC
1 CAAATAGGGTTC
45939263 CAAATAGGGTTC
1 CAAATAGGGTTC
45939275 C
1 C
45939276 TAACCTGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (12 bp):
CAAATAGGGTTC
Found at i:45944177 original size:34 final size:33
Alignment explanation
Indices: 45944139--45944319 Score: 263
Period size: 34 Copynumber: 5.3 Consensus size: 33
45944129 TATACTTGGT
* *
45944139 GTGCTGGATGGACTGGCTCATACGAGCATACGAG
1 GTGCTGGATGGATTGGCTCATACGAGCTTACG-G
45944173 GTGCTGGATGGATTGGCTCATACGAGCTTACGG
1 GTGCTGGATGGATTGGCTCATACGAGCTTACGG
*
45944206 TGTGCTGGATGGATTGGCTCATACGAGCTTACTGT
1 -GTGCTGGATGGATTGGCTCATACGAGCTTAC-GG
*
45944241 GTGCTGGATGGATTGGCTCATACGAGCTTACTGT
1 GTGCTGGATGGATTGGCTCATACGAGCTTAC-GG
* *
45944275 GTGCTGGATGGATTGGCTCATATGAGTTTACGG
1 GTGCTGGATGGATTGGCTCATACGAGCTTACGG
45944308 TGTGCTGGATGG
1 -GTGCTGGATGG
45944320 CTAATGGCAT
Statistics
Matches: 138, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
33 2 0.01
34 135 0.98
35 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.30
Consensus pattern (33 bp):
GTGCTGGATGGATTGGCTCATACGAGCTTACGG
Found at i:45945700 original size:46 final size:45
Alignment explanation
Indices: 45945647--45945962 Score: 165
Period size: 49 Copynumber: 6.6 Consensus size: 45
45945637 TATGTGTGCT
*
45945647 AGTGTAAGATATGTCTGGGACATGCATCAGCCACATATTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACATATTGAGAGCC
* * * * ***
45945693 AGTGTAAGACATGTTTGGGACAAGCATTGGCCTCGATATATTCCAGCC
1 AGTGTAAGACATGTCTGGGACATGCA-TCGCCAC-ATAT-TGAGAGCC
* * * * *
45945741 AGTGTAAGACATGTCTAGGACATGCATCGGCATTCAGA-CGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGCCA--CATATTGAGAGCC
* ** *
45945787 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATATACA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GCC---ACATATTGAGAGCC
* * *
45945835 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATGGA-TGAAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGCCA-C-AT--ATTGAGAGCC
* * ** *
45945884 AGTGTAAGACCTATCTGGGATGCA-GCATCGGCTTCGATATATG-GAAGTC
1 AGTGTAAGACATGTCTGGGA--CATGCATC-GCCAC-ATAT-TGAG-AGCC
*
45945933 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACATGTCTGGGACAT-GCATCG
45945963 ACTTTGATGT
Statistics
Matches: 207, Mismatches: 39, Indels: 46
0.71 0.13 0.16
Matches are distributed among these distances:
45 1 0.00
46 57 0.28
47 15 0.07
48 62 0.30
49 68 0.33
50 2 0.01
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCACATATTGAGAGCC
Found at i:45945808 original size:94 final size:93
Alignment explanation
Indices: 45945647--45945962 Score: 276
Period size: 94 Copynumber: 3.3 Consensus size: 93
45945637 TATGTGTGCT
* * * *
45945647 AGTGTAAGATATGTCTGGGACATGCATCAGCCACATATTGAGAGCCAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACAGATCGAGAGCCAGTGTAAGACATGTCTGGG
* * * * *
45945712 ACAAGCATTGGCCTCGATATATTCCAGCC
65 ACAAGCATCGGCCTCAAGATATACAAGCC
* * *
45945741 AGTGTAAGACATGTCTAGGACATGCATCGGCATTCAGA-CGAGAGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGCCA--CAGATCGAGAGCCAGTGTAAGACATGTCTGG
* * *
45945805 GACATGCATCGGCCTTAAGATATACAAGCT
64 GACAAGCATCGGCCTCAAGATATACAAGCC
* * * * * *
45945835 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATGGATGAAAGCCAGTGTAAGACCTATCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGCCACAGATCGA-G--AGCCAGTGTAAGACATGTCT
* * * ** *
45945900 GGGATGC-AGCATCGGCTTCGATATATGGAAGTC
62 GGGA--CAAGCATCGGCCTCAAGATATACAAGCC
*
45945933 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACATGTCTGGGACAT-GCATCG
45945963 ACTTTGATGT
Statistics
Matches: 181, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
93 6 0.03
94 94 0.52
95 12 0.07
97 21 0.12
98 47 0.26
99 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCACAGATCGAGAGCCAGTGTAAGACATGTCTGGGA
CAAGCATCGGCCTCAAGATATACAAGCC
Found at i:45948852 original size:42 final size:42
Alignment explanation
Indices: 45948805--45948939 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 42
45948795 TTGGCAATAA
*
45948805 GCCTGCTAGACCTTTAAGTCTGATATCATTTATCGGCATTAC
1 GCCTGCTAGACCTTTAAGTCTGATATCATTTATCAGCATTAC
* ** * * * * *
45948847 GCCTGCTAG-GCTCGAAGCCCGATAAT-ATTCACCAGC-TTAAA
1 GCCTGCTAGACCTTTAAGTCTGAT-ATCATTTATCAGCATT-AC
* *
45948888 GCTTGCTAGACCTTTAAGTCTGATATCATTTCATTAGCATTAC
1 GCCTGCTAGACCTTTAAGTCTGATATCATTT-ATCAGCATTAC
*
45948931 GCCTACTAG
1 GCCTGCTAG
45948940 GCTCAAAGCC
Statistics
Matches: 66, Mismatches: 21, Indels: 11
0.67 0.21 0.11
Matches are distributed among these distances:
40 2 0.03
41 27 0.41
42 23 0.35
43 12 0.18
44 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (42 bp):
GCCTGCTAGACCTTTAAGTCTGATATCATTTATCAGCATTAC
Found at i:45948979 original size:84 final size:83
Alignment explanation
Indices: 45948803--45948980 Score: 243
Period size: 84 Copynumber: 2.1 Consensus size: 83
45948793 CATTGGCAAT
* * *
45948803 AAGCCTGCTAGACCTTTAAGTCTGATATCATTTATCGGCATTACGCCTGCTAGGCTCGAAGCCCG
1 AAGCCTGCTAGACCTTTAAGTCTGATATCATTTATCAGCATTACGCCTACTAGGCTCAAAGCCCG
**
45948868 ATAATATTCACCAGCTTA
66 ATAATATTCACCAGCACA
* *
45948886 AAGCTTGCTAGACCTTTAAGTCTGATATCATTTCATTAGCATTACGCCTACTAGGCTCAAAGCCC
1 AAGCCTGCTAGACCTTTAAGTCTGATATCATTT-ATCAGCATTACGCCTACTAGGCTCAAAGCCC
45948951 GA-AAT-TCATCACCAGCACA
65 GATAATAT--TCACCAGCACA
*
45948970 AGGCCTGCTAG
1 AAGCCTGCTAG
45948981 GTTTGAACCC
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
82 1 0.01
83 35 0.42
84 47 0.57
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (83 bp):
AAGCCTGCTAGACCTTTAAGTCTGATATCATTTATCAGCATTACGCCTACTAGGCTCAAAGCCCG
ATAATATTCACCAGCACA
Found at i:45950855 original size:14 final size:15
Alignment explanation
Indices: 45950826--45950855 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45950816 CAAAATTAAG
45950826 ACATGATACTTTCAC
1 ACATGATACTTTCAC
45950841 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
45950855 A
1 A
45950856 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:45954056 original size:41 final size:41
Alignment explanation
Indices: 45953967--45954056 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
45953957 GCTGCGACAT
* *
45953967 GGGCGTGTCATGGCCGTGTAAGGGACATGGGATATAGATAC
1 GGGCGTGTCATGGCCATGTAAGGGACACGGGATATAGATAC
** * * * *
45954008 GTACGTGTTATGTCCATGTGAGGGACACGGGCTATAGATAC
1 GGGCGTGTCATGGCCATGTAAGGGACACGGGATATAGATAC
45954049 GGGCGTGT
1 GGGCGTGT
45954057 GCCCAGCTGT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (41 bp):
GGGCGTGTCATGGCCATGTAAGGGACACGGGATATAGATAC
Found at i:45955093 original size:24 final size:24
Alignment explanation
Indices: 45955061--45955109 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
45955051 CTTGAATTTG
45955061 GTCATTGTTGGGCCCACACGGCTT
1 GTCATTGTTGGGCCCACACGGCTT
*
45955085 GTCATTGTTGGGCCCACATGGCTT
1 GTCATTGTTGGGCCCACACGGCTT
45955109 G
1 G
45955110 GGACACGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.31
Consensus pattern (24 bp):
GTCATTGTTGGGCCCACACGGCTT
Found at i:45959043 original size:46 final size:46
Alignment explanation
Indices: 45958993--45959168 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
45958983 TGGTTGAGCA
45958993 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
45959039 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
45959084 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
45959132 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45959169 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.58
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45959149 original size:93 final size:93
Alignment explanation
Indices: 45958990--45959161 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
45958980 GGATGGTTGA
* * * *
45958990 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
45959055 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
45959083 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
45959148 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
45959162 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:45962131 original size:15 final size:15
Alignment explanation
Indices: 45962092--45962171 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
45962082 GTATCTTGGG
*
45962092 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
45962107 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
45962122 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
45962137 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
45962152 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
45962166 TTTCTT
1 TTTCTT
45962172 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:45962161 original size:30 final size:30
Alignment explanation
Indices: 45962083--45962170 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
45962073 CATAGTATCG
* * *
45962083 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
45962113 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
45962143 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
45962171 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:45964416 original size:28 final size:26
Alignment explanation
Indices: 45964361--45964448 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 26
45964351 AGCATGGCTG
* *
45964361 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
45964387 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
45964415 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
45964442 CCAGAAC
1 CCAGAAC
45964449 GCTTCCTCCA
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
26 5 0.09
27 35 0.61
28 17 0.30
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.14
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:45964578 original size:26 final size:27
Alignment explanation
Indices: 45964549--45964624 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
45964539 CAAAATTAAC
*
45964549 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTCCAA
45964575 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCA-A
* * *
45964603 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
45964625 AGCTACTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
28 20 0.45
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCCAA
Found at i:45966096 original size:26 final size:26
Alignment explanation
Indices: 45966067--45966150 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
45966057 CATGAAATTC
45966067 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
45966093 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
45966119 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
45966145 TTATCA
1 TTATCA
45966151 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:45966701 original size:68 final size:68
Alignment explanation
Indices: 45966616--45966772 Score: 185
Period size: 68 Copynumber: 2.3 Consensus size: 68
45966606 CTTAAAATTA
* * *
45966616 AGCTGT-TCGAATGTGTTAGATTCACTATTCAAAGCA-TCATCATTTATGCTGTTTTATTTGGTA
1 AGCTGTCT-GAATGTGTTAGATTCACTATTCAAAGCACT-ACCATATATGCTGTTTTATTTAGTA
45966679 AATGT
64 AATGT
* * * * *
45966684 AGCTGTCTGAATGTGTTAAATTCATTGTTCGATGCACTACCATATATGCTGTTTTATTTAGTAAA
1 AGCTGTCTGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAA
45966749 TGT
66 TGT
* *
45966752 AGCTGTCCGAATCTGTT-GATT
1 AGCTGTCTGAATGTGTTAGATT
45966773 TCACAATTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
67 3 0.04
68 71 0.93
69 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (68 bp):
AGCTGTCTGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAA
TGT
Found at i:45970772 original size:39 final size:40
Alignment explanation
Indices: 45970559--45970781 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 40
45970549 TTGAATGCTG
* * * * * *
45970559 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
45970599 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
45970639 TCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
45970679 GCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * *
45970719 TCTGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
45970758 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45970782 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
39 32 0.21
40 112 0.74
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:45978678 original size:39 final size:40
Alignment explanation
Indices: 45978474--45978696 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
45978464 TTGAATGCTG
* * * * * *
45978474 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
45978514 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
45978554 TCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
45978594 GCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
45978634 TCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
45978673 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45978697 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
39 33 0.21
40 113 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:45978716 original size:79 final size:80
Alignment explanation
Indices: 45978549--45978731 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
45978539 GTGCGAGATA
* * * *
45978549 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
45978614 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
45978629 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
45978693 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
45978708 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
45978732 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:45990659 original size:22 final size:22
Alignment explanation
Indices: 45990634--45990686 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
45990624 TGGCACACAA
*
45990634 CCATAATCAGGTTGCCACAGAG
1 CCATAATCAGGTTGCCACAAAG
* * *
45990656 CCAT-ATGTAGGTTGGCTCAAAG
1 CCATAAT-CAGGTTGCCACAAAG
45990678 CCATAATCA
1 CCATAATCA
45990687 TAATAATTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
21 2 0.08
22 20 0.83
23 2 0.08
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (22 bp):
CCATAATCAGGTTGCCACAAAG
Found at i:45990894 original size:41 final size:41
Alignment explanation
Indices: 45990829--45990951 Score: 183
Period size: 41 Copynumber: 3.0 Consensus size: 41
45990819 TAAAAGCCAC
* * *
45990829 CGGTGGATCCACGATCGTCTAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* *
45990870 CGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAGT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* *
45990911 TGGTGGATCCACGGTTGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
45990952 TTCTTCCTCC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
Found at i:45991241 original size:27 final size:27
Alignment explanation
Indices: 45991197--45991414 Score: 181
Period size: 27 Copynumber: 8.1 Consensus size: 27
45991187 TACAATGGTG
* * *
45991197 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
* * *
45991224 TTTTGGTAATTTTTCAAA-TTAGATGTA
1 TTTTGGTAATTTTACAAACTAAG-GGTA
* * * *
45991251 TTTTGTTAATTTTAAAAATTGAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
* * **
45991278 TTTCGATAATTTTACAAGTTAAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
* * *
45991305 TTTCGGTAATTTCACAAA-TCAATGGTA
1 TTTTGGTAATTTTACAAACT-AAGGGTA
*
45991332 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
* *
45991359 TTTTGGTAATTTTTCTAA-TCAAGGGTA
1 TTTTGGTAATTTTACAAACT-AAGGGTA
* **
45991386 TTCTGGTAATTTTGTAAACTAAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
45991413 TT
1 TT
45991415 CAGTAATTTT
Statistics
Matches: 154, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.03
27 145 0.94
28 5 0.03
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACTAAGGGTA
Found at i:45991315 original size:81 final size:81
Alignment explanation
Indices: 45991216--45991398 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 81
45991206 ATCTACAAAC
* * * * *
45991216 CAAGGGTATTTTGGTAATTTTTCAAATTAGAT-GTATTTTGTTAATTTTAAAAA-TTGAGGGTAT
1 CAAGGGTATTTCGGTAATTTTACAAATCA-ATGGTATTTTGGTAATTTTAAAAACTAG-GGGTAT
45991279 TTCGATAATTTTAC-AAGT
64 TTCGATAATTTTACTAA-T
* * *
45991297 TAAGGGTATTTCGGTAATTTCACAAATCAATGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 CAAGGGTATTTCGGTAATTTTACAAATCAATGGTATTTTGGTAATTTTAAAAACTAGGGGTATTT
* * *
45991362 TGGTAATTTTTCTAAT
66 CGATAATTTTACTAAT
45991378 CAAGGGTA-TTCTGGTAATTTT
1 CAAGGGTATTTC-GGTAATTTT
45991399 GTAAACTAAG
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
80 5 0.06
81 76 0.89
82 4 0.05
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (81 bp):
CAAGGGTATTTCGGTAATTTTACAAATCAATGGTATTTTGGTAATTTTAAAAACTAGGGGTATTT
CGATAATTTTACTAAT
Found at i:45991415 original size:27 final size:27
Alignment explanation
Indices: 45991328--45991437 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
45991318 ACAAATCAAT
* ** *
45991328 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTCTGGTAATTTTGTAAACTAAG
* * *
45991355 GGTATTTTGGTAATTTTTCTAATC-AAG
1 GGTATTCTGGTAA-TTTTGTAAACTAAG
45991382 GGTATTCTGGTAATTTTGTAAACTAAG
1 GGTATTCTGGTAATTTTGTAAACTAAG
* *
45991409 GGTATTC-AGTAATTTTGTAAACCAAG
1 GGTATTCTGGTAATTTTGTAAACTAAG
45991435 GGT
1 GGT
45991438 CTTTCGGTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 28 0.39
27 37 0.51
28 7 0.10
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTATTCTGGTAATTTTGTAAACTAAG
Found at i:45991420 original size:26 final size:27
Alignment explanation
Indices: 45991378--45991437 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
45991368 TTTTTCTAAT
*
45991378 CAAGGGTATTCTGGTAATTTTGTAAAC
1 CAAGGGTATTCTAGTAATTTTGTAAAC
*
45991405 TAAGGGTATTC-AGTAATTTTGTAAAC
1 CAAGGGTATTCTAGTAATTTTGTAAAC
45991431 CAAGGGT
1 CAAGGGT
45991438 CTTTCGGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTCTAGTAATTTTGTAAAC
Found at i:45992890 original size:41 final size:41
Alignment explanation
Indices: 45992798--45992940 Score: 211
Period size: 41 Copynumber: 3.5 Consensus size: 41
45992788 ACCCAAGTAA
* *
45992798 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCAC-AAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAATGC
* *
45992837 CTTCGGGTCTTAGCCTGGATATAGTCACTAGCACAAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGC
45992878 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGC
*
45992919 CTTCGGGTCTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
45992941 CATCCGAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
39 11 0.12
40 16 0.17
41 67 0.71
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGC
Found at i:45998087 original size:19 final size:19
Alignment explanation
Indices: 45998052--45998089 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
45998042 TCCAAAATCC
45998052 CACCATTTCGCACACTTAT
1 CACCATTTCGCACACTTAT
*
45998071 CACCTATTTTGCA-ACTTAT
1 CACC-ATTTCGCACACTTAT
45998090 GAAAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (19 bp):
CACCATTTCGCACACTTAT
Found at i:46005530 original size:93 final size:94
Alignment explanation
Indices: 46005367--46005587 Score: 222
Period size: 93 Copynumber: 2.4 Consensus size: 94
46005357 TTGTGTGTGG
* * * *
46005367 GCCAATGTAAGACCATGTCTAGG-ACATGGCATCG-GTAAT-GA-GACGAGTGCTAGTGTAAGAC
1 GCCAGTGTAAGACCATGTCT-GGAACATGGCATCGACTACTAGATGA-TAGT-C-AGTGTAAGAC
* * *
46005428 ATGTCTGGGACAT-GCATCGGCCTCAAAACGTAA
62 ATATATGGGACATGGCATC-GACTCAAAACGTAA
* *
46005461 TCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACTAGATGATAGTCAGTGTAAGACCATA
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGACTACTAGATGATAGTCAGTGTAAGA-CATA
** * *
46005524 TATGGGACATGGCATCGACTTGAGATGTAA
65 TATGGGACATGGCATCGACTCAAAACGTAA
46005554 GCCAGTGTAAGACCATGTCTGGAACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCG
46005588 GCACCATACC
Statistics
Matches: 105, Mismatches: 14, Indels: 15
0.78 0.10 0.11
Matches are distributed among these distances:
92 17 0.16
93 47 0.45
94 33 0.31
95 8 0.08
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (94 bp):
GCCAGTGTAAGACCATGTCTGGAACATGGCATCGACTACTAGATGATAGTCAGTGTAAGACATAT
ATGGGACATGGCATCGACTCAAAACGTAA
Found at i:46005550 original size:47 final size:47
Alignment explanation
Indices: 46005367--46005587 Score: 181
Period size: 47 Copynumber: 4.7 Consensus size: 47
46005357 TTGTGTGTGG
* * * * *
46005367 GCCAATGTAAGACCATGTCTAGGACATGGCATCG-GTAATGAGACG-AGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-AT-AGATGTA-A
* * * *
46005415 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCA-AAACGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACT-ATAGATGTAA
*
46005461 TCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACTAGATG-ATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTA-TAGATGTA-A
* * *
46005507 GTCAGTGTAAGACCATATATGGGACATGGCATCGACT-TGAGATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTAT-AGATGTAA
*
46005554 GCCAGTGTAAGACCATGTCTGGAACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
46005588 GCACCATACC
Statistics
Matches: 143, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 53 0.37
47 63 0.44
48 22 0.15
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTATAGATGTAA
Found at i:46006593 original size:126 final size:126
Alignment explanation
Indices: 46006427--46006679 Score: 366
Period size: 126 Copynumber: 2.0 Consensus size: 126
46006417 AAAGCACATA
*
46006427 GGCGTGTGCCTTGGCCATGTGACATCTTGAGCATGATGACGTCAAAAATAGAATGTCCA-TGTTT
1 GGCGTGTGCCTTGGCCATGTGACATCTTGAGCATGATGACGTCAAAAACAGAATGT-CATTGTTT
* * * ** *
46006491 TTTCACACTGGCT-AGTACACGGGCGTGTTGTGGCCGTGTGAGGGACACGGGCCATTGACACG
65 TTGCACACGGGCTGAG-ACACGAGCGTGTCATGGCCGTGTGAGAGACACGGGCCATTGACACG
* * *
46006553 GGCGTGTGCCTTGGCCGTTTGACATCTTGAGCATGCTGACGTCAAAAACAGAATGTCATTGTTTT
1 GGCGTGTGCCTTGGCCATGTGACATCTTGAGCATGATGACGTCAAAAACAGAATGTCATTGTTTT
* *
46006618 TGCACACGGGCTGAGACACGAGCGTGTCATGGCTGTGTGAGAGACATGGGCCATTGACACG
66 TGCACACGGGCTGAGACACGAGCGTGTCATGGCCGTGTGAGAGACACGGGCCATTGACACG
46006679 G
1 G
46006680 ACATGTGACT
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
125 2 0.02
126 109 0.96
127 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (126 bp):
GGCGTGTGCCTTGGCCATGTGACATCTTGAGCATGATGACGTCAAAAACAGAATGTCATTGTTTT
TGCACACGGGCTGAGACACGAGCGTGTCATGGCCGTGTGAGAGACACGGGCCATTGACACG
Found at i:46011485 original size:27 final size:27
Alignment explanation
Indices: 46011445--46011524 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
46011435 AGGAAGCTTC
*
46011445 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
*
46011472 CTGGTGGCTCTGCCATGATTATCTGTAT
1 CTGGTGGCTCTGCCA-CATTATCTGTAT
* *
46011500 CTGGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
46011525 TCGGGTAGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 31 0.67
28 15 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:46018599 original size:27 final size:27
Alignment explanation
Indices: 46018559--46018671 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
46018549 AGGAAGCGTC
*
46018559 CTGGTGGCTGTGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
46018586 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
46018613 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
46018641 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
46018667 CTGGT
1 CTGGT
46018672 AGCCATGCTG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 9 0.12
27 49 0.64
28 18 0.24
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:46018665 original size:54 final size:54
Alignment explanation
Indices: 46018559--46018671 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
46018549 AGGAAGCGTC
* * *
46018559 CTGGTGGCTGTGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* *
46018613 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
46018667 CTGGT
1 CTGGT
46018672 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:46022844 original size:67 final size:70
Alignment explanation
Indices: 46022736--46022877 Score: 209
Period size: 67 Copynumber: 2.1 Consensus size: 70
46022726 GAGGAAGCGT
* * *
46022736 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC-ATATAT-T-TGTTCTGGTGACTTAGTCA
1 TCTGGCAGCCTCGCTGCAATCTAGTGGCCTCGCCACAATATATATCTGTTCTGGTGACCTAGCCA
46022798 CAATA
66 CAATA
* *
46022803 TCTGGCAGCCTCGCTGCAATCTAGTGGCTTCGCCACATATATATATCTGTTCTGGTGGCCTAGCC
1 TCTGGCAGCCTCGCTGCAATCTAGTGGCCTCGCCACA-ATATATATCTGTTCTGGTGACCTAGCC
46022868 ACAATA
65 ACAATA
46022874 TCTG
1 TCTG
46022878 TATCTGGTGA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
67 34 0.52
69 6 0.09
70 1 0.02
71 25 0.38
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (70 bp):
TCTGGCAGCCTCGCTGCAATCTAGTGGCCTCGCCACAATATATATCTGTTCTGGTGACCTAGCCA
CAATA
Found at i:46022874 original size:26 final size:27
Alignment explanation
Indices: 46022845--46022904 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
46022835 CCACATATAT
*
46022845 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
46022871 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
46022898 ATATCTG
1 ATATCTG
46022905 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:46025253 original size:39 final size:39
Alignment explanation
Indices: 46025210--46025287 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
46025200 TTAAACGTTG
*
46025210 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
* *
46025249 AGGTTAGCATTTGGGTTGTTCAATGTGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
46025288 TTAGGGAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:46027153 original size:47 final size:47
Alignment explanation
Indices: 46027066--46027657 Score: 855
Period size: 47 Copynumber: 12.6 Consensus size: 47
46027056 TAATTGAATA
*
46027066 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATG
* *
46027114 AATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
46027161 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
46027208 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
46027255 AATGTGAACATGCATATATGGGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
46027302 AATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
46027349 AATGTGAACCTGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
46027396 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
46027443 AATGTGAACATGCATATATGGGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
46027490 AATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGCGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
46027537 AAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * * *
46027584 AATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
**
46027631 AATGTGAA-AGTGTATAAATGTGATAAG
1 AATGTGAACA-TGTATATGTGTGATAAG
46027658 TTCTGAAGGG
Statistics
Matches: 487, Mismatches: 55, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
46 1 0.00
47 467 0.96
48 18 0.04
49 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:46027410 original size:188 final size:188
Alignment explanation
Indices: 46027093--46027638 Score: 966
Period size: 188 Copynumber: 2.9 Consensus size: 188
46027083 GTGTGAATAG
46027093 GGCCGAATGGCCAATGTGATGAATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTG
1 GGCCGAATGGCCAATGTGATGAATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTG
46027158 ATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTAT
66 ATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTAT
46027223 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGGGATAA
131 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGGGATAA
46027281 GGCCGAATGGCCAATGTGATGAATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTG
1 GGCCGAATGGCCAATGTGATGAATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTG
*
46027346 ATGAATGTGAACCTGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTAT
66 ATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTAT
46027411 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGGGATAA
131 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGGGATAA
*
46027469 GGCCGAATGGCCAATGTGATGAATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGCG
1 GGCCGAATGGCCAATGTGATGAATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTG
* * ** * * * * *
46027534 ATGAAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCATGTGT
66 ATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTAT
* * *
46027599 ATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
131 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
46027639 AGTGTATAAA
Statistics
Matches: 343, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
188 343 1.00
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.25
Consensus pattern (188 bp):
GGCCGAATGGCCAATGTGATGAATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTG
ATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTAT
ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGGGATAA
Found at i:46027832 original size:37 final size:37
Alignment explanation
Indices: 46027776--46027855 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
46027766 CCGGGCTCTA
* * *
46027776 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
46027813 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
46027850 AAGACT
1 AAGACT
46027856 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:46033600 original size:21 final size:21
Alignment explanation
Indices: 46033576--46033616 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46033566 TTAAAACAAG
46033576 TGAAGAAAAAG-AAAAAGAGAA
1 TGAA-AAAAAGCAAAAAGAGAA
*
46033597 TGAAAAAGAGCAAAAAGAGA
1 TGAAAAAAAGCAAAAAGAGA
46033617 TTGAGAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.68, C:0.02, G:0.24, T:0.05
Consensus pattern (21 bp):
TGAAAAAAAGCAAAAAGAGAA
Found at i:46040991 original size:42 final size:42
Alignment explanation
Indices: 46040889--46040979 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
46040879 GGACAAATGA
*
46040889 CCCGTGTTCAAGCCTGTGTCAACCACACGGCTGAGACACACG
1 CCCGTGTTCAAGCCCGTGTCAACCACACGGCTGAGACACACG
*
46040931 CCCGTGTTCAAGCCCGTGTCAACCACATGGCTGAGACACACG
1 CCCGTGTTCAAGCCCGTGTCAACCACACGGCTGAGACACACG
46040973 CCCGTGT
1 CCCGTGT
46040980 CTCTATCCGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.22, C:0.36, G:0.24, T:0.18
Consensus pattern (42 bp):
CCCGTGTTCAAGCCCGTGTCAACCACACGGCTGAGACACACG
Found at i:46044767 original size:27 final size:27
Alignment explanation
Indices: 46044737--46044971 Score: 178
Period size: 27 Copynumber: 8.7 Consensus size: 27
46044727 TGTAGGGTAG
* *
46044737 AATTACTGAAATACCCTTGGTTTATAA
1 AATTACAGAAATACCCTTGATTTATAA
* * *
46044764 AATTACAAAAATACCCCT-AGTTTGTAA
1 AATTACAGAAATACCCTTGA-TTTATAA
* * *
46044791 ACTTATC-GAAATACCCTCGAATTATAA
1 AATTA-CAGAAATACCCTTGATTTATAA
*
46044818 AATTACCA-AAATACCCTTGATTTGTAA
1 AATTA-CAGAAATACCCTTGATTTATAA
46044845 AATTACAGAAATACCAC-TGATTTGA-AA
1 AATTACAGAAATACC-CTTGATTT-ATAA
* * * **
46044872 AATTACCGAAATGCCCTTAATTTGGAA
1 AATTACAGAAATACCCTTGATTTATAA
* * * *
46044899 AATTATAAAAATACCCCTGATTTACAA
1 AATTACAGAAATACCCTTGATTTATAA
*
46044926 AATTACAGAAATACCATT-AGTTT-TCAA
1 AATTACAGAAATACCCTTGA-TTTAT-AA
*
46044953 AATTACCGAAATACCCTTG
1 AATTACAGAAATACCCTTG
46044972 GTTTGCAGAT
Statistics
Matches: 160, Mismatches: 36, Indels: 23
0.73 0.16 0.11
Matches are distributed among these distances:
26 4 0.03
27 153 0.96
28 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACAGAAATACCCTTGATTTATAA
Found at i:46044781 original size:54 final size:54
Alignment explanation
Indices: 46044711--46044833 Score: 126
Period size: 54 Copynumber: 2.3 Consensus size: 54
46044701 GTAGGCTAAT
* * * **
46044711 ATTACTAAAATGCCCCT-GTAGGGTAGAA-TTA-CTGAAATACCCTTGGTTTATAAA
1 ATTACAAAAATACCCCTAGT-GGGTA-AACTTATC-GAAATACCCTCGAATTATAAA
**
46044765 ATTACAAAAATACCCCTAGTTTGTAAACTTATCGAAATACCCTCGAATTATAAA
1 ATTACAAAAATACCCCTAGTGGGTAAACTTATCGAAATACCCTCGAATTATAAA
*
46044819 ATTACCAAAATACCC
1 ATTACAAAAATACCC
46044834 TTGATTTGTA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
53 2 0.03
54 53 0.91
55 3 0.05
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (54 bp):
ATTACAAAAATACCCCTAGTGGGTAAACTTATCGAAATACCCTCGAATTATAAA
Found at i:46044882 original size:81 final size:80
Alignment explanation
Indices: 46044745--46044969 Score: 256
Period size: 81 Copynumber: 2.8 Consensus size: 80
46044735 AGAATTACTG
* * * * * *
46044745 AAATACCCTTGGTTTATAAAATTACAAAAATACCCCTAGTTTGTAAACTTATCGAAATACCCTCG
1 AAATACCCTTGATTTATAAAATTACAGAAATACCACTAGTTTGAAAAATTACCGAAATACCCT-G
*
46044810 AATTAT-AAAATTACCA
65 AATT-TGAAAATTACAA
* * *
46044826 AAATACCCTTGATTTGTAAAATTACAGAAATACCACT-GATTTGAAAAATTACCGAAATGCCCTT
1 AAATACCCTTGATTTATAAAATTACAGAAATACCACTAG-TTTGAAAAATTACCGAAATACCCTG
*
46044890 AATTTGGAAAATTATAA
65 AATTT-GAAAATTACAA
* * * **
46044907 AAATACCCCTGATTTACAAAATTACAGAAATACCATTAGTTTTCAAAATTACCGAAATACCCT
1 AAATACCCTTGATTTATAAAATTACAGAAATACCACTAGTTTGAAAAATTACCGAAATACCCT
46044970 TGGTTTGCAG
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 5 0.04
81 115 0.94
82 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (80 bp):
AAATACCCTTGATTTATAAAATTACAGAAATACCACTAGTTTGAAAAATTACCGAAATACCCTGA
ATTTGAAAATTACAA
Found at i:46044985 original size:27 final size:27
Alignment explanation
Indices: 46044737--46044998 Score: 157
Period size: 27 Copynumber: 9.7 Consensus size: 27
46044727 TGTAGGGTAG
* **
46044737 AATTACTGAAATACCCTTGGTTTATAA
1 AATTACCGAAATACCCTTGGTTTGCAA
** * * *
46044764 AATTACAAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * * ** **
46044791 ACTTATCGAAATACCCTCGAATTATAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * *
46044818 AATTACCAAAATACCCTTGATTTGTAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * *
46044845 AATTACAGAAATACCAC-TGATTTGAAA
1 AATTACCGAAATACC-CTTGGTTTGCAA
* ** *
46044872 AATTACCGAAATGCCCTTAATTTGGAA
1 AATTACCGAAATACCCTTGGTTTGCAA
*** * * *
46044899 AATTATAAAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * * *
46044926 AATTACAGAAATACCATTAGTTTTCAA
1 AATTACCGAAATACCCTTGGTTTGCAA
*
46044953 AATTACCGAAATACCCTTGGTTTGCAG
1 AATTACCGAAATACCCTTGGTTTGCAA
* * *
46044980 ATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTG
46044999 TAGGGTGAAA
Statistics
Matches: 182, Mismatches: 51, Indels: 4
0.77 0.22 0.02
Matches are distributed among these distances:
26 1 0.01
27 180 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGGTTTGCAA
Found at i:46045311 original size:41 final size:41
Alignment explanation
Indices: 46045247--46045356 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
46045237 TTAAGAATCG
* * * * *
46045247 CATGGTCGCTTGACGACCATGGATTCA-TCGATTGAGGATCA
1 CATGGTTGCTTGACGACCGTGGATCCACT-GATTAAGGACCA
* * *
46045288 CATGGTTGCTTGACAATCGTGGATCCACTGATTAAGGACCG
1 CATGGTTGCTTGACGACCGTGGATCCACTGATTAAGGACCA
46045329 CATGGTTGCTTGACGACCGTGGATCCAC
1 CATGGTTGCTTGACGACCGTGGATCCAC
46045357 CGGTGGCTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 57 0.98
42 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (41 bp):
CATGGTTGCTTGACGACCGTGGATCCACTGATTAAGGACCA
Found at i:46045552 original size:22 final size:22
Alignment explanation
Indices: 46045500--46045561 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
46045490 GCCAATTATT
* * *
46045500 CTGATTATGGTTTTGGGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
46045522 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
46045544 CTGATTATGGCTGTGTGC
1 CTGATTATGGCTCTGTGC
46045562 AAAACGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:46050056 original size:26 final size:27
Alignment explanation
Indices: 46049954--46050086 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
46049944 ATCACTTGCC
* *
46049954 CTACAGGGGTATTTCGATAATTTTACA
1 CTACAAGGGTATTTCGGTAATTTTACA
*
46049981 CCACAAGGGTATTTCGGTAATTTTACA
1 CTACAAGGGTATTTCGGTAATTTTACA
* *
46050008 CTACAAGGGTATTTTGGTAATTTTATA
1 CTACAAGGGTATTTCGGTAATTTTACA
*
46050035 CTATAAGGGTATTT-GGTAA-TTTACA
1 CTACAAGGGTATTTCGGTAATTTTACA
* **
46050060 -AATCGGGGGTATTTCGGTAATTTTACA
1 CTA-CAAGGGTATTTCGGTAATTTTACA
46050087 ATCTGAGGGT
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.01
25 13 0.14
26 10 0.11
27 67 0.74
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.38
Consensus pattern (27 bp):
CTACAAGGGTATTTCGGTAATTTTACA
Found at i:46057037 original size:43 final size:41
Alignment explanation
Indices: 46056937--46057067 Score: 147
Period size: 43 Copynumber: 3.1 Consensus size: 41
46056927 ATATCGATTA
* * *
46056937 ATCGATGCCACTGTCCCAAATAAGGTCTTACACGAATCAAAT
1 ATCGATGCCAC-GTCCCAAACATGGTCTTACACGAATCACAT
* *
46056979 AT-GATGCCGATGTCCCAGACATGGTCTTACACGTAATCACAT
1 ATCGATGCC-ACGTCCCAAACATGGTCTTACACG-AATCACAT
* *
46057021 ATCGATGCCAACGTCCCAAACGTGGTCTTACACGAGAACACAT
1 ATCGATGCC-ACGTCCCAAACATGGTCTTACACGA-ATCACAT
46057064 ATCG
1 ATCG
46057068 GAAATCCTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
41 25 0.33
42 13 0.17
43 37 0.49
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (41 bp):
ATCGATGCCACGTCCCAAACATGGTCTTACACGAATCACAT
Found at i:46058206 original size:14 final size:15
Alignment explanation
Indices: 46058189--46058217 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46058179 ACACAAAAAT
46058189 TTCACACA-TATAAA
1 TTCACACATTATAAA
46058203 TTCACACATTATAAA
1 TTCACACATTATAAA
46058218 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:46058738 original size:16 final size:18
Alignment explanation
Indices: 46058707--46058739 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
46058697 TTAATTATAA
46058707 TTAATTAAGCTTTAATCC
1 TTAATTAAGCTTTAATCC
46058725 TTAATT-AG-TTTAATC
1 TTAATTAAGCTTTAATC
46058740 TAATGACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (18 bp):
TTAATTAAGCTTTAATCC
Found at i:46059831 original size:22 final size:22
Alignment explanation
Indices: 46059789--46059831 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
46059779 AAAAATATTT
**
46059789 TATCTTCTCTTTTTTTTTTTAC
1 TATCTTCTCTTTTTTCCTTTAC
46059811 TATCTTC-CTCTTTTTCCTTTA
1 TATCTTCTCT-TTTTTCCTTTA
46059832 TTTTTTTTCT
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:0.09, C:0.23, G:0.00, T:0.67
Consensus pattern (22 bp):
TATCTTCTCTTTTTTCCTTTAC
Found at i:46065623 original size:39 final size:39
Alignment explanation
Indices: 46065577--46065705 Score: 177
Period size: 39 Copynumber: 3.1 Consensus size: 39
46065567 GCTCTGATGA
46065577 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
46065616 GCTTCAGTTAGCCTTCGGGCTTCCGGGCTTTCGTCTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCC--G---T--T-TAGCACTTATGT
46065663 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
46065702 GCTT
1 GCTT
46065706 TAGCTAGATT
Statistics
Matches: 80, Mismatches: 2, Indels: 16
0.82 0.02 0.16
Matches are distributed among these distances:
39 39 0.49
40 1 0.01
41 1 0.01
42 1 0.01
44 1 0.01
45 1 0.01
46 1 0.01
47 35 0.44
ACGTcount: A:0.12, C:0.28, G:0.24, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:46065659 original size:47 final size:47
Alignment explanation
Indices: 46065590--46065687 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
46065580 TCAGTTAGCC
* *
46065590 TCCGGGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCT
1 TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCT
*
46065637 TCCGGGCTTTCGTCTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCT
1 TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCT
46065684 TCCG
1 TCCG
46065688 TTTAGCACTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.10, C:0.30, G:0.26, T:0.35
Consensus pattern (47 bp):
TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCT
Found at i:46065721 original size:39 final size:39
Alignment explanation
Indices: 46065637--46065724 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 39
46065627 CCTTCGGGCT
* * *
46065637 TCCGGGCTTTCGTCTAGCACTTATGTGCTTCAGTTAGCC
1 TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGCTAGAC
* * *
46065676 TCCGGGCTTCCGTTTAGCACTTATGTGCTTTAGCTAGAT
1 TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGCTAGAC
*
46065715 TTCGGGCTTC
1 TCCGGGCTTC
46065725 AGATCACGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (39 bp):
TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGCTAGAC
Found at i:46073398 original size:6 final size:6
Alignment explanation
Indices: 46073387--46073444 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
46073377 ACTAAAGCGA
* ** *
46073387 TCTCTT TCTCTT TCTCTT TCTCTA TCTCGC TCTCTA TCTCGTT T-TCTT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTC-TT TCTCTT
*
46073435 TCCCTT TCTC
1 TCTCTT TCTC
46073445 GATCTCGATC
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 3 0.07
6 37 0.88
7 2 0.05
ACGTcount: A:0.03, C:0.36, G:0.03, T:0.57
Consensus pattern (6 bp):
TCTCTT
Found at i:46073404 original size:12 final size:12
Alignment explanation
Indices: 46073386--46073450 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
46073376 TACTAAAGCG
46073386 ATCTCTTTCTCT
1 ATCTCTTTCTCT
*
46073398 TTCTCTTTCTCT
1 ATCTCTTTCTCT
**
46073410 ATCTCGCTCTCT
1 ATCTCTTTCTCT
46073422 ATCTCGTTT-TCT
1 ATCTC-TTTCTCT
* * *
46073434 TTCCCTTTCTCG
1 ATCTCTTTCTCT
46073446 ATCTC
1 ATCTC
46073451 GATCCTTCTT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 3 0.08
12 36 0.90
13 1 0.03
ACGTcount: A:0.06, C:0.35, G:0.05, T:0.54
Consensus pattern (12 bp):
ATCTCTTTCTCT
Found at i:46073435 original size:30 final size:30
Alignment explanation
Indices: 46073384--46073450 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
46073374 TCTACTAAAG
* *
46073384 CGATCTCTTTCTCTTTCTCTTTCTCTATCT
1 CGATCTCTATCTCTTTCTCTTTCCCTATCT
* *
46073414 CGCTCTCTATCTCGTTT-TCTTTCCCTTTCT
1 CGATCTCTATCTC-TTTCTCTTTCCCTATCT
46073444 CGATCTC
1 CGATCTC
46073451 GATCCTTCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.06, C:0.36, G:0.06, T:0.52
Consensus pattern (30 bp):
CGATCTCTATCTCTTTCTCTTTCCCTATCT
Found at i:46076467 original size:22 final size:22
Alignment explanation
Indices: 46076442--46076497 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
46076432 TCAAAGTCAA
*
46076442 TGTCTTGACATCCACACCTTGG
1 TGTCGTGACATCCACACCTTGG
*
46076464 TGTCGTGACATCTACACCTTGG
1 TGTCGTGACATCCACACCTTGG
*
46076486 TGTCGCGACATC
1 TGTCGTGACATC
46076498 AGCAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.30
Consensus pattern (22 bp):
TGTCGTGACATCCACACCTTGG
Found at i:46079225 original size:21 final size:21
Alignment explanation
Indices: 46079200--46079249 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
46079190 GCCTAAGTGT
46079200 AAAAGTGATTCATATGTGTTA
1 AAAAGTGATTCATATGTGTTA
46079221 AAAAGTGATTCATATGTGTTA
1 AAAAGTGATTCATATGTGTTA
46079242 AAAAGTGA
1 AAAAGTGA
46079250 AATTACCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (21 bp):
AAAAGTGATTCATATGTGTTA
Found at i:46079914 original size:40 final size:40
Alignment explanation
Indices: 46079859--46079938 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
46079849 TTGATTTCCA
46079859 AATGGTAATGAAGGATCTTCATCAAAATTTTCAAAATTAT
1 AATGGTAATGAAGGATCTTCATCAAAATTTTCAAAATTAT
46079899 AATGGTAATGAAGGATCTTCATCAAAATTTTCAAAATTAT
1 AATGGTAATGAAGGATCTTCATCAAAATTTTCAAAATTAT
46079939 TCTCATCGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (40 bp):
AATGGTAATGAAGGATCTTCATCAAAATTTTCAAAATTAT
Found at i:46083871 original size:40 final size:40
Alignment explanation
Indices: 46083808--46084028 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
46083798 ATTCGGATTG
*
46083808 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
46083847 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
46083887 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
46083927 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
46083967 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
46084007 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
46084029 TACTTGGTTT
Statistics
Matches: 169, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 29 0.17
40 140 0.83
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:46086782 original size:26 final size:25
Alignment explanation
Indices: 46086748--46086801 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
46086738 CTTTCTCCTT
* * * *
46086748 TTTCTTTTCTTTTCTTCTTTCTTTC
1 TTTCTTTTCGTTCCTTCTCTATTTC
46086773 TTTCTATTTCGTTCCTTCTCTATTTC
1 TTTCT-TTTCGTTCCTTCTCTATTTC
46086799 TTT
1 TTT
46086802 TTCTTGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTCTTTTCGTTCCTTCTCTATTTC
Found at i:46086981 original size:3 final size:3
Alignment explanation
Indices: 46086973--46087018 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
46086963 TTGATAAAAT
46086973 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
46087019 GTAAATATCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46094245 original size:12 final size:13
Alignment explanation
Indices: 46094223--46094282 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 13
46094213 ATTTCTCCTT
46094223 TTTCTTTTCTTTTC
1 TTTC-TTTCTTTTC
46094237 -TTCTTTC-TTTC
1 TTTCTTTCTTTTC
46094248 TTTCTTTCTATTTC
1 TTTCTTTCT-TTTC
46094262 GTTTCTTCTCTGTTTC
1 -TTTCTT-TCT-TTTC
46094278 TTTCT
1 TTTCT
46094283 CTTGTTTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
11 4 0.10
12 11 0.28
13 3 0.08
14 4 0.10
15 11 0.28
16 7 0.17
ACGTcount: A:0.02, C:0.23, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:46094248 original size:30 final size:30
Alignment explanation
Indices: 46094223--46094282 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
46094213 ATTTCTCCTT
*
46094223 TTTCT-TTTCTTTTCTTCTTTCTTTCTTTC
1 TTTCTATTTCGTTTCTTCTTTCTTTCTTTC
* *
46094252 TTTCTATTTCGTTTCTTCTCTGTTTCTTTC
1 TTTCTATTTCGTTTCTTCTTTCTTTCTTTC
46094282 T
1 T
46094283 CTTGTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.02, C:0.23, G:0.03, T:0.72
Consensus pattern (30 bp):
TTTCTATTTCGTTTCTTCTTTCTTTCTTTC
Found at i:46094478 original size:3 final size:3
Alignment explanation
Indices: 46094466--46094498 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
46094456 CAATTAATTG
46094466 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
46094499 GTAAATATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:46094952 original size:104 final size:104
Alignment explanation
Indices: 46094770--46094972 Score: 397
Period size: 104 Copynumber: 2.0 Consensus size: 104
46094760 ATTTTTTTCT
46094770 AAATATTTACGAACTCATTTTCCTAAGACGGAAGCCCTAAACTCACTTTTCCGGTGCCCGTGAAA
1 AAATATTTACGAACTCATTTTCCTAAGACGGAAGCCCTAAACTCACTTTTCCGGTGCCCGTGAAA
*
46094835 GATGGGTCGTTACATTGTCACTTTCAAGATTGCTGAAAA
66 GATGGGTCATTACATTGTCACTTTCAAGATTGCTGAAAA
46094874 AAATATTTACGAACTCATTTTCCTAAGACGGAAGCCCTAAACTCACTTTTCCGGTGCCCGTGAAA
1 AAATATTTACGAACTCATTTTCCTAAGACGGAAGCCCTAAACTCACTTTTCCGGTGCCCGTGAAA
46094939 GATGGGTCATTACATTGTCACTTTCAAGATTGCT
66 GATGGGTCATTACATTGTCACTTTCAAGATTGCT
46094973 TGTAAGTGTA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 98 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (104 bp):
AAATATTTACGAACTCATTTTCCTAAGACGGAAGCCCTAAACTCACTTTTCCGGTGCCCGTGAAA
GATGGGTCATTACATTGTCACTTTCAAGATTGCTGAAAA
Found at i:46095786 original size:42 final size:42
Alignment explanation
Indices: 46095698--46095804 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 42
46095688 ACATTAGAGT
* **
46095698 TATGAG-TTTATGTGTAAGACCATATCTGAGATATGACATCGT
1 TATGAGATTT-TGTGTAAGACCATATCTGAGACATGACATCAA
* * **
46095740 TATGAGATTTTGTGTAAGACCATGTCTGGGACATTCCATCAA
1 TATGAGATTTTGTGTAAGACCATATCTGAGACATGACATCAA
* *
46095782 TATGAGA-ATCGTGTAAGACCATA
1 TATGAGATTTTGTGTAAGACCATA
46095805 GCTGGACTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 13 0.24
42 38 0.70
43 3 0.06
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
TATGAGATTTTGTGTAAGACCATATCTGAGACATGACATCAA
Done.