Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 81 of 187
Found at i:24135671 original size:44 final size:44
Alignment explanation
Indices: 24135623--24136071 Score: 191
Period size: 44 Copynumber: 10.2 Consensus size: 44
24135613 TATCTTGGAA
* * *
24135623 AGATATGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * *
24135667 AGATAAGATCTACAATCTTCAACCTACTCCGCTCCTGCTCAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
24135711 AGACAAGGCTTGGTGGCTTAAATCTGCTTTCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC--TCCACTACTGCTTAGG-G
* * *
24135755 AGATAAGATTT-TTCGTCTTCGATCTGCTCCACTACTTCTTAGGG
1 AGATAAGATTTGCT-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
24135799 AGATAAGATCT-ATAATCTTCAACCTTCTTCGCTGCTGCTCAGGG
1 AGATAAGATTTGCT-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
24135843 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * *
24135887 AGATATGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * *
24135931 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * ** * *
24135975 AGACAAGGCTTGGTGGGTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCTGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
24136019 AGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
24136063 AGATAAGAT
1 AGATAAGAT
24136072 CTACAATCTT
Statistics
Matches: 276, Mismatches: 109, Indels: 40
0.65 0.26 0.09
Matches are distributed among these distances:
42 19 0.07
43 12 0.04
44 221 0.80
45 12 0.04
46 12 0.04
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCTGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:24135788 original size:132 final size:132
Alignment explanation
Indices: 24135599--24136121 Score: 929
Period size: 132 Copynumber: 4.0 Consensus size: 132
24135589 ATCGGCTTTT
*
24135599 AATCTGCTTCCCACTATCTTGGAAAGATATGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
*
24135664 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTCCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
24135729 TA
131 TA
* ** *
24135731 AATCTGCTTTCCACTATCTTGGAAAGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTTCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
* * *
24135796 GGGAGATAAGATCTATAATCTTCAACCTTCTTCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
24135861 TA
131 TA
*
24135863 AATCTGCTTCCCACTATCTTGGAAAGATATGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
*
24135928 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGGT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
24135993 TA
131 TA
*
24135995 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
*
24136060 GGGAGATAAGATCTACAATCTTTAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
24136122 TTTCACCGGT
Statistics
Matches: 370, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 370 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (132 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
TA
Found at i:24144146 original size:24 final size:24
Alignment explanation
Indices: 24144118--24144163 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24144108 ATCATTTTTT
* *
24144118 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
24144142 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
24144164 GGACTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:24146770 original size:11 final size:11
Alignment explanation
Indices: 24146754--24146785 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
24146744 TTGATCTTCA
24146754 CCCATTATAGG
1 CCCATTATAGG
24146765 CCCATTATA--
1 CCCATTATAGG
24146774 CCCATTATAGG
1 CCCATTATAGG
24146785 C
1 C
24146786 TCATATAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.47
11 10 0.53
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.28
Consensus pattern (11 bp):
CCCATTATAGG
Found at i:24148448 original size:3 final size:3
Alignment explanation
Indices: 24148440--24148470 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
24148430 AAAATATATA
24148440 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
24148471 TAAAAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24149520 original size:44 final size:44
Alignment explanation
Indices: 24149457--24149545 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
24149447 TCCAAATATT
*
24149457 TGATTTTGTTTCCTTTCTTGCGTTTGCTCCTTGCAGGTGAAGAC
1 TGATTTTGTTTCCTTTCTTGCGTTTCCTCCTTGCAGGTGAAGAC
24149501 TGATTTTGTTTCCTTTCTTGCGTTTCCTCCTTGCAGGTGAAGAC
1 TGATTTTGTTTCCTTTCTTGCGTTTCCTCCTTGCAGGTGAAGAC
24149545 T
1 T
24149546 CGTCTCTTGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (44 bp):
TGATTTTGTTTCCTTTCTTGCGTTTCCTCCTTGCAGGTGAAGAC
Found at i:24155803 original size:22 final size:22
Alignment explanation
Indices: 24155755--24155805 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
24155745 AAAAATTGAA
*
24155755 TAATTTAAATAATAGTAAAAGTG
1 TAATTTAAATAATAG-AAAAGTC
*
24155778 TAATTTAACATGATAG-AAAGTC
1 TAATTTAA-ATAATAGAAAAGTC
24155800 TAATTT
1 TAATTT
24155806 TAGCTTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 8 0.32
24 6 0.24
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (22 bp):
TAATTTAAATAATAGAAAAGTC
Found at i:24182362 original size:21 final size:22
Alignment explanation
Indices: 24182338--24182379 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24182328 GTTCTCCCCA
*
24182338 GCCACGTGCA-CCTCCGTACGT
1 GCCACGTCCACCCTCCGTACGT
*
24182359 GCCACGTCCACCCTCTGTACG
1 GCCACGTCCACCCTCCGTACG
24182380 CCGTACCTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.14, C:0.45, G:0.21, T:0.19
Consensus pattern (22 bp):
GCCACGTCCACCCTCCGTACGT
Found at i:24187506 original size:25 final size:25
Alignment explanation
Indices: 24187454--24187520 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
24187444 ATAAAATACA
*
24187454 TCTTTACATTCATTTTTGAGTCAATAT
1 TCTTT-CATTC-TTTTTGAATCAATAT
24187481 TCTTTCATTCTTTTTGAAT-AATTAT
1 TCTTTCATTCTTTTTGAATCAA-TAT
**
24187506 TAGTTCATTCTTTTT
1 TCTTTCATTCTTTTT
24187521 TATTTTCTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 2 0.06
25 24 0.67
26 5 0.14
27 5 0.14
ACGTcount: A:0.22, C:0.13, G:0.06, T:0.58
Consensus pattern (25 bp):
TCTTTCATTCTTTTTGAATCAATAT
Found at i:24188305 original size:12 final size:12
Alignment explanation
Indices: 24188288--24188341 Score: 81
Period size: 12 Copynumber: 4.4 Consensus size: 12
24188278 AAAAAAAGAA
*
24188288 AAAAATAAAAAT
1 AAAAATAAAAAC
24188300 AAAAATAAAAAC
1 AAAAATAAAAAC
24188312 AAAAATCAAAAAC
1 AAAAAT-AAAAAC
*
24188325 AAAAACAAAAAC
1 AAAAATAAAAAC
24188337 AAAAA
1 AAAAA
24188342 AGAAGAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
12 28 0.72
13 11 0.28
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAATAAAAAC
Found at i:24188363 original size:6 final size:6
Alignment explanation
Indices: 24188288--24188341 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
24188278 AAAAAAAGAA
* * *
24188288 AAAAAT AAAAAT AAAAAT AAAAAC AAAAATC AAAAAC AAAAAC AAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAA-C AAAAAC AAAAAC AAAAAC
24188337 AAAAA
1 AAAAA
24188342 AGAAGAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
6 40 0.87
7 6 0.13
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.07
Consensus pattern (6 bp):
AAAAAC
Found at i:24189330 original size:8 final size:7
Alignment explanation
Indices: 24189317--24189360 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
24189307 CAGAAAAATG
24189317 TGAAAAA
1 TGAAAAA
24189324 TGAAAAAA
1 TG-AAAAA
24189332 TG-AAAA
1 TGAAAAA
24189338 TGAAAAA
1 TGAAAAA
24189345 TGAAAAA
1 TGAAAAA
24189352 -GTAAAAA
1 TG-AAAAA
24189359 TG
1 TG
24189361 GAGAGGCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 7 0.21
7 18 0.55
8 8 0.24
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:24189343 original size:21 final size:21
Alignment explanation
Indices: 24189317--24189360 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
24189307 CAGAAAAATG
*
24189317 TGAAAAATGAAAAAATGAAAA
1 TGAAAAATGAAAAAATAAAAA
*
24189338 TGAAAAATGAAAAAGTAAAAA
1 TGAAAAATGAAAAAATAAAAA
24189359 TG
1 TG
24189361 GAGAGGCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (21 bp):
TGAAAAATGAAAAAATAAAAA
Found at i:24190748 original size:87 final size:87
Alignment explanation
Indices: 24190595--24190817 Score: 304
Period size: 87 Copynumber: 2.6 Consensus size: 87
24190585 TAGATCAGTG
* * * * *
24190595 AAGATAGCAGATCTTGTCTTCCTGCATCGACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCC
1 AAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACAAAACCTCGCCTCCC
* *
24190660 TCGGTTGCAGTGGAGCAGGTTA
66 TCAGTTGCAGTGGAGCAGGGTA
* * **
24190682 AATATAACAGATCTTGCCTTTCTGCAT-GACAGCAAAGCAGATCGAAGACAACAACCTCGCCTCC
1 AAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACAA-AACCTCGCCTCC
24190746 CTCAGTTGCAGTGGAGCAGGGTA
65 CTCAGTTGCAGTGGAGCAGGGTA
* * *
24190769 AAGATGATAGATCTTGCCTTCCTGCATCGACAGTGAAGCAAATCGAAGA
1 AAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGA
24190818 TGGTGGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
86 21 0.18
87 77 0.66
88 18 0.16
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (87 bp):
AAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACAAAACCTCGCCTCCC
TCAGTTGCAGTGGAGCAGGGTA
Found at i:24191104 original size:128 final size:128
Alignment explanation
Indices: 24190876--24191393 Score: 750
Period size: 128 Copynumber: 4.0 Consensus size: 128
24190866 TAATTCTACT
* * * * *
24190876 TCCCTGGGCAGCAGTAGAATAGATTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGTA
1 TCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
* * *
24190941 GATCGAATACGGCGAATCTTATCTTCAAGATTAAGGAAGCAGATTTAAGTCACAAGTCCTATC
66 GATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATC
* * * *
24191004 TCCCTGGTCAGTAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGAAGCA
1 TCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
* *
24191069 GATCGAAGACGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGGCCTATC
66 GATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATC
* * * * * *
24191132 TCCCTGGTCAGCATTGCAATAGGTTGGAAATTATAAATCTTGTCTCCCTAAGCAGTAACGGAGCA
1 TCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
* *
24191197 GATCGAATACGGCGAATCTTATCTTCAAGAGTAAGAAAGCAGATTTAAGCCACAAGTCCTATC
66 GATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATC
* * *
24191260 TCCCTGGTCAGCAGTGGAATAGGTTGGAAATCATAGATCTTATCTTCCTAAGCAGTAGCGGAGCA
1 TCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
* * * * *
24191325 GATCAGAAG-CGGCGAATCTTATCTTCAAGAGTAGGGAAGCAAATTGAAGCCACAAATCCTTTC
66 GATC-GAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATC
24191388 TCCCTG
1 TCCCTG
24191394 ATGTTGCGGT
Statistics
Matches: 349, Mismatches: 40, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
128 346 0.99
129 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (128 bp):
TCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
GATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATC
Found at i:24194322 original size:4 final size:4
Alignment explanation
Indices: 24194301--24194368 Score: 57
Period size: 4 Copynumber: 16.0 Consensus size: 4
24194291 TGATTTACCG
* * *
24194301 ATTT AATT AGTTT GTTT ATTT ATCGTT ATTT ATTT CCTTT -TGTT ATTT
1 ATTT ATTT A-TTT ATTT ATTT AT--TT ATTT ATTT -ATTT AT-TT ATTT
24194349 ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT
24194369 TTATTCCTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
3 1 0.02
4 42 0.79
5 6 0.11
6 4 0.08
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:24197877 original size:25 final size:25
Alignment explanation
Indices: 24197849--24198024 Score: 108
Period size: 25 Copynumber: 7.1 Consensus size: 25
24197839 TTCACTTTAC
*
24197849 AGGCTTTCCAAATAACTCACCACAA
1 AGGCTTTCCAAATAATTCACCACAA
* * * *
24197874 AGGCTTCCCAAACAATAT-GCCACAT
1 AGGCTTTCCAAATAAT-TCACCACAA
* *
24197899 AGG-TTCTTCAAATAATTCACCATAA
1 AGGCTT-TCCAAATAATTCACCACAA
* * * *
24197924 AGGCTTTACAGATAATTCACTAGAA
1 AGGCTTTCCAAATAATTCACCACAA
* * * *
24197949 AGGC-TTCCTAAACAATACGCCACAT
1 AGGCTTTCC-AAATAATTCACCACAA
* *
24197974 AGGCTTT-TAAATAATTCGCCACAA
1 AGGCTTTCCAAATAATTCACCACAA
* * * *
24197998 AGGATTTACAAATAACTCGCCACAA
1 AGGCTTTCCAAATAATTCACCACAA
24198023 AG
1 AG
24198025 ATTTAGTTTG
Statistics
Matches: 114, Mismatches: 30, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
24 25 0.22
25 84 0.74
26 5 0.04
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (25 bp):
AGGCTTTCCAAATAATTCACCACAA
Found at i:24197928 original size:75 final size:74
Alignment explanation
Indices: 24197849--24198024 Score: 228
Period size: 75 Copynumber: 2.4 Consensus size: 74
24197839 TTCACTTTAC
* *
24197849 AGGCTTTCCAAATAACTCACCACAAAGGCTTCCCAAACAATATGCCACATAGG-TTCTTCAAATA
1 AGGCTTTACAAATAACTCACCACAAAGGCTTCCCAAACAATACGCCACATAGGCTT-TT-AAATA
*
24197913 ATTCACCATAA
64 ATTCACCACAA
* * * * *
24197924 AGGCTTTACAGATAATTCACTAGAAAGGCTTCCTAAACAATACGCCACATAGGCTTTTAAATAAT
1 AGGCTTTACAAATAACTCACCACAAAGGCTTCCCAAACAATACGCCACATAGGCTTTTAAATAAT
*
24197989 TCGCCACAA
66 TCACCACAA
* *
24197998 AGGATTTACAAATAACTCGCCACAAAG
1 AGGCTTTACAAATAACTCACCACAAAG
24198025 ATTTAGTTTG
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
74 35 0.41
75 48 0.56
76 2 0.02
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (74 bp):
AGGCTTTACAAATAACTCACCACAAAGGCTTCCCAAACAATACGCCACATAGGCTTTTAAATAAT
TCACCACAA
Found at i:24197993 original size:24 final size:25
Alignment explanation
Indices: 24197957--24198029 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 25
24197947 AAAGGCTTCC
* * * *
24197957 TAAACAATACGCCACATAGGCTTT-
1 TAAATAATTCGCCACAAAGGATTTA
24197981 TAAATAATTCGCCACAAAGGATTTA
1 TAAATAATTCGCCACAAAGGATTTA
* *
24198006 CAAATAACTCGCCACAAA-GATTTA
1 TAAATAATTCGCCACAAAGGATTTA
24198030 GTTTGGTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 26 0.62
25 16 0.38
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (25 bp):
TAAATAATTCGCCACAAAGGATTTA
Found at i:24204478 original size:8 final size:8
Alignment explanation
Indices: 24204465--24204489 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24204455 AATATTATGT
24204465 ATGAATTG
1 ATGAATTG
24204473 ATGAATTG
1 ATGAATTG
24204481 ATGAATTG
1 ATGAATTG
24204489 A
1 A
24204490 AAATTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (8 bp):
ATGAATTG
Found at i:24207170 original size:87 final size:87
Alignment explanation
Indices: 24207077--24207253 Score: 354
Period size: 87 Copynumber: 2.0 Consensus size: 87
24207067 AAGGGTTTTC
24207077 CATTACAAATATATGTGTGTGTGTATGTGTATGTCAAGAAGGGTATATGTTACAATGATCTATAA
1 CATTACAAATATATGTGTGTGTGTATGTGTATGTCAAGAAGGGTATATGTTACAATGATCTATAA
24207142 GTATGAAAAGTAAGAGATATCG
66 GTATGAAAAGTAAGAGATATCG
24207164 CATTACAAATATATGTGTGTGTGTATGTGTATGTCAAGAAGGGTATATGTTACAATGATCTATAA
1 CATTACAAATATATGTGTGTGTGTATGTGTATGTCAAGAAGGGTATATGTTACAATGATCTATAA
24207229 GTATGAAAAGTAAGAGATATCG
66 GTATGAAAAGTAAGAGATATCG
24207251 CAT
1 CAT
24207254 CTTCTTCTAA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (87 bp):
CATTACAAATATATGTGTGTGTGTATGTGTATGTCAAGAAGGGTATATGTTACAATGATCTATAA
GTATGAAAAGTAAGAGATATCG
Found at i:24207944 original size:36 final size:36
Alignment explanation
Indices: 24207904--24207978 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
24207894 TGTGGCACAG
* *
24207904 TCTTGAACATGCCCTTGAGTTTGTCTTGAAATAGTT
1 TCTTGAACATGCCATTGAGTCTGTCTTGAAATAGTT
24207940 TCTTGAACATGCCATTGAGTCTGTCTTGAAATAGTT
1 TCTTGAACATGCCATTGAGTCTGTCTTGAAATAGTT
24207976 TCT
1 TCT
24207979 AACTTGTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (36 bp):
TCTTGAACATGCCATTGAGTCTGTCTTGAAATAGTT
Found at i:24210722 original size:18 final size:17
Alignment explanation
Indices: 24210682--24210722 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
24210672 ATTTCTTTTC
24210682 CTTTTTCCTTTTTCCTT
1 CTTTTTCCTTTTTCCTT
24210699 -TATTTTCTCTTTTTCCTT
1 CT-TTTTC-CTTTTTCCTT
24210717 CTTTTT
1 CTTTTT
24210723 TGTTCATTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.05
17 5 0.24
18 14 0.67
19 1 0.05
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (17 bp):
CTTTTTCCTTTTTCCTT
Found at i:24218256 original size:48 final size:48
Alignment explanation
Indices: 24218181--24218275 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
24218171 GAACCACTGT
*
24218181 AATACATTGTGGATGAACCACTAGTCGTGCAAATAGACTGCCGACTAA
1 AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTAA
* * * * *
24218229 AATACGTTGTGGATGAAGCATTGGTCGTGCAAATAAATTGCCGACTA
1 AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTA
24218276 CTTCCTCGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (48 bp):
AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTAA
Found at i:24218411 original size:34 final size:32
Alignment explanation
Indices: 24218318--24218429 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 32
24218308 ATGTAACATG
24218318 ACATGTTTATAACAGATCAATACGGTAGCAA-TA
1 ACATGTTTAT-A-AGATCAATACGGTAGCAATTA
*
24218351 ACAT-TCTTATAACGAGTCAATTCGGTAGCAATTA
1 ACATGT-TTATAA-GA-TCAATACGGTAGCAATTA
*
24218385 TCATGTTTATGATAGATCAATACGGTAGCAA-TA
1 ACATGTTTAT-A-AGATCAATACGGTAGCAATTA
* *
24218418 AAATGCTTATAA
1 ACATGTTTATAA
24218430 CAAATCGATA
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
31 2 0.03
32 5 0.08
33 31 0.47
34 23 0.35
35 4 0.06
36 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (32 bp):
ACATGTTTATAAGATCAATACGGTAGCAATTA
Found at i:24218427 original size:67 final size:67
Alignment explanation
Indices: 24218319--24218558 Score: 288
Period size: 67 Copynumber: 3.6 Consensus size: 67
24218309 TGTAACATGA
* * * * * * *
24218319 CATGTTTATAACAGATCAATACGGTAGCAATAACATTCTTATAACGAGTCAATTCGGTAGCAATT
1 CATGTTTATAATAGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGATTCAGTAGCATTT
24218384 AT
66 AT
* *
24218386 CATGTTTATGATAGATCAATACGGTAGCAATAAAATGCTTATAACAAATCGATAT-AGTAGCATT
1 CATGTTTATAATAGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGAT-TCAGTAGCATT
*
24218450 TGT
65 TAT
* * * * *
24218453 CATGCTTATAGTAGATCAGTACGGT-G-AATAACATGCTTATAACAAGTCGATACAGTAGCATTT
1 CATGTTTATAATAGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGATTCAGTAGCATTT
24218516 AT
66 AT
* *
24218518 CATGTTTGTAATAGATCAATATGGTAGCAATAAACATGCTT
1 CATGTTTATAATAGATCAATACGGTAGCAATAAA-ATGCTT
24218559 GGCATGTATT
Statistics
Matches: 144, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
65 54 0.38
66 2 0.01
67 81 0.56
68 7 0.05
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (67 bp):
CATGTTTATAATAGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGATTCAGTAGCATTT
AT
Found at i:24220097 original size:20 final size:21
Alignment explanation
Indices: 24220057--24220097 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
24220047 GTTTGGGATG
**
24220057 GTTATATTTAAAAATTTTAAA
1 GTTATATTTAAAAATCCTAAA
24220078 GTTATA-TTAAAAATCCTAAA
1 GTTATATTTAAAAATCCTAAA
24220098 AAATTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTATATTTAAAAATCCTAAA
Found at i:24223424 original size:23 final size:23
Alignment explanation
Indices: 24223393--24223438 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
24223383 TTTAGATTAA
* *
24223393 TCATTATTT-TTTTAAAAATATT
1 TCATTATTTATATAAAAAATATT
24223415 TCATATATTTATATAAAAAATATT
1 TCAT-TATTTATATAAAAAATATT
24223439 ATAAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 11 0.55
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
TCATTATTTATATAAAAAATATT
Found at i:24223472 original size:11 final size:11
Alignment explanation
Indices: 24223428--24223476 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
24223418 TATATTTATA
24223428 TAAA-AAATAT
1 TAAATAAATAT
24223438 T--ATAAATAT
1 TAAATAAATAT
*
24223447 TAAATAATGAGAT
1 TAAATAA--ATAT
24223460 TAAATAAATAT
1 TAAATAAATAT
24223471 TAAATA
1 TAAATA
24223477 TAAAATACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
8 1 0.03
9 7 0.22
10 1 0.03
11 13 0.41
13 10 0.31
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:24232927 original size:21 final size:23
Alignment explanation
Indices: 24232903--24232950 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
24232893 TTGAAATGAA
24232903 AAATATTAA-AT-ATTTTTAAAT
1 AAATATTAATATCATTTTTAAAT
24232924 AAATA--AATATCATTTTTAAAT
1 AAATATTAATATCATTTTTAAAT
24232945 -AATATT
1 AAATATT
24232951 GTAATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 2 0.09
20 6 0.26
21 15 0.65
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATATTAATATCATTTTTAAAT
Found at i:24236999 original size:24 final size:23
Alignment explanation
Indices: 24236972--24237079 Score: 63
Period size: 19 Copynumber: 4.8 Consensus size: 23
24236962 AGAATAATTT
24236972 TATTAAGAATTTTATTAAATTATA
1 TATTAA-AATTTTATTAAATTATA
24236996 TATT----TTTTATTAAATTATA
1 TATTAAAATTTTATTAAATTATA
*
24237015 T-TTAATAATAATTATTTTAAATTAT-
1 TATTAA-AAT--TT-TATTAAATTATA
*
24237040 TATTAAATTATTTATT--ATT-TA
1 TATTAAAAT-TTTATTAAATTATA
*
24237061 TATTAATAATCTTATTAAA
1 TATTAA-AATTTTATTAAA
24237080 ATTTAATAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 27
0.67 0.05 0.28
Matches are distributed among these distances:
18 2 0.03
19 16 0.24
20 1 0.02
21 14 0.21
22 2 0.03
23 5 0.08
24 7 0.11
25 5 0.08
26 14 0.21
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (23 bp):
TATTAAAATTTTATTAAATTATA
Found at i:24237043 original size:56 final size:57
Alignment explanation
Indices: 24236934--24237066 Score: 148
Period size: 56 Copynumber: 2.3 Consensus size: 57
24236924 TATATTATTA
* *
24236934 TATATTATGATTTTAGTAAATTAATATAAGAATAATTTTATTAAGAATTTTATTAAAT
1 TATA-TATTATTTTATTAAATTAATATAAGAATAATTTTATTAAGAATTTTATTAAAT
* *
24236992 TATATATT-TTTTATTAAATTATATTTAATAATAATTATT-TT-A-AATTATTATTAAAT
1 TATATATTATTTTATTAAATTA-ATATAAGAATAATT-TTATTAAGAATT-TTATTAAAT
*
24237048 TATTTATTATTTATATTAA
1 TATATATTATTT-TATTAA
24237067 TAATCTTATT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
55 4 0.06
56 29 0.45
57 20 0.31
58 12 0.18
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTAATATAAGAATAATTTTATTAAGAATTTTATTAAAT
Found at i:24237051 original size:11 final size:11
Alignment explanation
Indices: 24237024--24237056 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
24237014 ATTTAATAAT
24237024 AATTATT-TTA
1 AATTATTATTA
24237034 AATTATTATTA
1 AATTATTATTA
24237045 AATTATTTATTA
1 AATTA-TTATTA
24237057 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 8 0.38
12 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTATTATTA
Found at i:24237274 original size:16 final size:16
Alignment explanation
Indices: 24237249--24237286 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
24237239 TTGAATTGCT
24237249 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
24237265 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
24237281 ATTACA
1 ATTACA
24237287 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:24243605 original size:108 final size:106
Alignment explanation
Indices: 24243418--24243611 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 106
24243408 GAGATTTAAG
*
24243418 AGGATATTTGGATATTTAGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
1 AGGATATTTGGATATTTAGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAA
* *
24243483 ATTTTCAAACGCAAAATATTGTCTTATTTCGAAATTTGAAA
66 ATCTTCAAACGCAAAACATTGTCTTATTTCGAAATTTGAAA
* *
24243524 AGGATATTTGGCTATTT-GATCAAACGAGAAAAATCGAAACTCAGCACATTAGGGCACGTTTTCT
1 AGGATATTTGGATATTTAG-TCAAACGAG--AAATCGAAACCCAGCACATTAGGGCACGTTTTCT
24243588 CAAATCTTCAAACGCAAAACATTG
63 CAAATCTTCAAACGCAAAACATTG
24243612 CCTTTATTAT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
105 1 0.01
106 25 0.31
108 54 0.68
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (106 bp):
AGGATATTTGGATATTTAGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAA
ATCTTCAAACGCAAAACATTGTCTTATTTCGAAATTTGAAA
Found at i:24246071 original size:44 final size:44
Alignment explanation
Indices: 24245978--24246334 Score: 212
Period size: 44 Copynumber: 8.2 Consensus size: 44
24245968 TAATGTGATA
* * *
24245978 TGCTCTACTGCAACTTCAGAGAGATAAGATCTAT-TACTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCTACTTCAATC
* * * * *
24246022 CGCTCCACTACAAATTCAGGGAGATAGGATTATCGACTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATC
* * * *
24246066 TGCTCCACTGGAACCTCAGGGAGATAAGATT-TGCTTCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTAT-CTACTTCAATC
** * * * *
24246110 TGCTCCACTGTGACTTCAGGGGGATAAGACTTGTTTTC-TCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTATCTACTTCAATC
* * * * *
24246154 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTC-TCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTATCTACTTCAATC
* * * * * * * *
24246198 TGCTCCGCTGCAACTTCAAGAAGATAA-A--ACCCAATGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATC
* ** ** *
24246239 TGCTCCACTACTGCTT-AGGGAGATAAGATCTAT-TGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCTACTTCAATC
* * * **
24246282 CGCTCCACTGCAACTTCAGGGAGATAGGATTGAT-TTCTTCTGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT-ATCTACTTCAATC
24246326 TGCTCCACT
1 TGCTCCACT
24246335 ACTGCTTAGG
Statistics
Matches: 239, Mismatches: 63, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
40 8 0.03
41 16 0.07
43 22 0.09
44 187 0.78
45 5 0.02
46 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATC
Found at i:24246288 original size:43 final size:43
Alignment explanation
Indices: 24246240--24246353 Score: 108
Period size: 44 Copynumber: 2.6 Consensus size: 43
24246230 AATGCGATCT
24246240 GCTCCACTACTGCTTAGGGAGATAAGATCT-ATTGT-TT-TAATCC
1 GCTCCACTACTGCTTAGGGAGATAAGAT-TGATT-TCTTCT-ATCC
* ** * * *
24246283 GCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCT
1 GCTCCACTACTGCTT-AGGGAGATAAGATTGATTTCTTCTATCC
*
24246327 GCTCCACTACTGCTTAGGAAGATAAGA
1 GCTCCACTACTGCTTAGGGAGATAAGA
24246354 CTTGTAATTT
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
43 24 0.43
44 31 0.55
45 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (43 bp):
GCTCCACTACTGCTTAGGGAGATAAGATTGATTTCTTCTATCC
Found at i:24246525 original size:44 final size:43
Alignment explanation
Indices: 24246477--24246701 Score: 126
Period size: 44 Copynumber: 5.2 Consensus size: 43
24246467 GTGCTTAGGA
24246477 AGGCAAGATCTGCTATCTTTAATCAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGCTAT-TTTAATCAGCTCCACTGCAACCGATGG
* * * * * * * *
24246521 AGGCAAG-TCT-TTGTTTTCGATCTGCTTCGCCGTTAACAC-A-GG
1 AGGCAAGATCTGCTATTTT-AATCAGCTCCACTG-CAAC-CGATGG
*
24246563 AAGGCAAGATCTGCTATTTTTAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGCTA-TTTTAATCAGCTCCACTGCAACCGATGG
* ** * * *
24246608 AGGCAAGACTTTG-T-TTTCGAT-ATGCTTCGCTGTTAA-CGCA-GG
1 AGGCAAGA-TCTGCTATTTTAATCA-GCTCCACTG-CAACCG-ATGG
* *
24246650 AAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCGATGG
1 -AGGCAAGATCTGCTAT-TTTAATCAGCTCCACTGCAACCGATGG
24246695 AGGCAAG
1 AGGCAAG
24246702 CCTTTGTTTT
Statistics
Matches: 130, Mismatches: 31, Indels: 40
0.65 0.15 0.20
Matches are distributed among these distances:
41 4 0.03
42 31 0.24
43 27 0.21
44 35 0.27
45 28 0.22
46 5 0.04
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (43 bp):
AGGCAAGATCTGCTATTTTAATCAGCTCCACTGCAACCGATGG
Found at i:24246595 original size:87 final size:87
Alignment explanation
Indices: 24246473--24246788 Score: 515
Period size: 87 Copynumber: 3.6 Consensus size: 87
24246463 GCTAGTGCTT
* *
24246473 AGGAAGGCAAGATCTGCTATCTTTAATCAGCTCCACTGCAACCGATGGAGGCAAGTCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTT
* *
24246538 CGATCTGCTTCGCCGTTAACAC
66 CGATCTGCTTCGCTGTTAACGC
*
24246560 AGGAAGGCAAGATCTGCTATTTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTT
*
24246625 CGATATGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* *
24246647 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCGATGGAGGCAAGCCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTT
* *
24246712 CGGTCTGCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAACGC
* * *
24246734 AGGAAGGTAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAG
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
24246789 GCTTGATGTG
Statistics
Matches: 213, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 213 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:24246871 original size:44 final size:43
Alignment explanation
Indices: 24246799--24247357 Score: 233
Period size: 44 Copynumber: 12.8 Consensus size: 43
24246789 GCTTGATGTG
* * * *
24246799 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGATTTCA
* * * ** *
24246843 ATCCGCTCCACTGCAAATTCAGGGAGATAGGATTATCGGCTACA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GATTTCA
* * **
24246887 ATATGCTCCACTGTAAAC-TCAGGGAGATAAGATTCACCATCTTCA
1 ATCTGCTCCACTG-CAACTTCAGGGAGATAAGATT-ATGAT-TTCA
* * * * *
24246932 GTCTGCCCCACTGCAACTTCA-GGAGGATAAGACT-TGCTTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGATTATG-AT-TTCA
* * * * ** * *
24246976 GTCTGCTCCGCTGTAACCTCAGGGAGATAAGA-CCTGATGT-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGATTTCA
* * * * *
24247017 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGATTTCA
* * * ** *
24247061 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACCGGCTACA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-TGATTTCA
**
24247105 ATCTGCTCCACTGCAAAC-TCAGGGAGATAAGATTCAACATCTTCA
1 ATCTGCTCCACTGC-AACTTCAGGGAGATAAGATT-ATGAT-TTCA
* * * * * *
24247150 GTCTGCCCCACTGCAACTTCAGGGGGATAAGACT-TGCTTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATG-AT-TTCA
* * * * * * ** * *
24247194 GTCCGCTCCGCTGCAACCTCAAGGTGATAAGA-CCTGATGT-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGATTTCA
* ** * * *
24247235 ATCTACTTTACTGTAAAC-TCAGAGAGATAAGATCTATTATTTCA
1 ATCTGCTCCACTG-CAACTTCAGGGAGATAAGAT-TATGATTTCA
* * * * *
24247279 ATCCGTTCCACTGCAACTTCAAGGAGATAGGATTATCG-TCTACA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GAT-TTCA
*
24247323 ATCTGCTCCACTGCAA-TCTCAGGGAAAGTAAGATT
1 ATCTGCTCCACTGCAACT-TCAGGGAGA-TAAGATT
24247358 CGCCGTTGTG
Statistics
Matches: 374, Mismatches: 113, Indels: 55
0.69 0.21 0.10
Matches are distributed among these distances:
41 45 0.12
42 5 0.01
43 23 0.06
44 232 0.62
45 69 0.18
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGATTTCA
Found at i:24247170 original size:218 final size:218
Alignment explanation
Indices: 24246792--24247358 Score: 947
Period size: 218 Copynumber: 2.6 Consensus size: 218
24246782 AGGCAAGGCT
24246792 TGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGC
1 TGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGC
* * *
24246857 AAATTCAGGGAGATAGGATTATCGGCTACAATATGCTCCACTGTAAACTCAGGGAGATAAGATTC
66 AACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGAGATAAGATTC
* *
24246922 ACCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTCTTCGGTCTGCTCCGC
131 AACATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTCTTCGGTCCGCTCCGC
* *
24246987 TGTAACCTCAGGGAGATAAGACC
196 TGCAACCTCAAGGAGATAAGACC
*
24247010 TGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCGATCCGCTCCACTGC
1 TGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGC
*
24247075 AACTTCAGGGAGATAGGATTACCGGCTACAATCTGCTCCACTGCAAACTCAGGGAGATAAGATTC
66 AACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGAGATAAGATTC
*
24247140 AACATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGGTCCGCTCCGC
131 AACATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTCTTCGGTCCGCTCCGC
*
24247205 TGCAACCTCAAGGTGATAAGACC
196 TGCAACCTCAAGGAGATAAGACC
* * *
24247228 TGATGTGATCTACTTTACTGTAAAC-TCAGAGAGATAAGATCTATTATTTCAATCCGTTCCACTG
1 TGATGTGATCTACTCTACTG-CAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTG
* * * *
24247292 CAACTTCAAGGAGATAGGATTATCGTCTACAATCTGCTCCACTGCAATCTCAGGGAAAGTAAGAT
65 CAACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGAGA-TAAGAT
24247357 TC
129 TC
24247359 GCCGTTGTGG
Statistics
Matches: 327, Mismatches: 20, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
218 316 0.97
219 11 0.03
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (218 bp):
TGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGC
AACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGAGATAAGATTC
AACATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTCTTCGGTCCGCTCCGC
TGCAACCTCAAGGAGATAAGACC
Found at i:24247518 original size:100 final size:100
Alignment explanation
Indices: 24247345--24247525 Score: 263
Period size: 100 Copynumber: 1.8 Consensus size: 100
24247335 GCAATCTCAG
* * ** * *
24247345 GGAAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAATTACAATGTCAGGGAAATAAGATTCG
1 GGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTACAAAATCAGGGAAACAAGATTCA
24247410 CCGTCGTAGATTTAATTTGTTTCACTATATTTCCA
66 CCGTCGTAGATTTAATTTGTTTCACTATATTTCCA
* * * *
24247445 GGAAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTAAATTGCAAAATCAGGGAAGCAAGATTCA
1 GGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTACAAAATCAGGGAAACAAGATTCA
*
24247510 CCGTCGTAGCTTTAAT
66 CCGTCGTAGATTTAAT
24247526 CTGCTCCACT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 70 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (100 bp):
GGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTACAAAATCAGGGAAACAAGATTCA
CCGTCGTAGATTTAATTTGTTTCACTATATTTCCA
Found at i:24247546 original size:100 final size:99
Alignment explanation
Indices: 24247322--24247538 Score: 254
Period size: 100 Copynumber: 2.2 Consensus size: 99
24247312 TATCGTCTAC
* *
24247322 AATCTGCTCCACTGCAATCTCAGGGAAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAATTA
1 AATCTGCTCCACTGCAATC-CA-GGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTA
** * *
24247387 CAATGTCAGGGAAATAAGATTCGCCGTCGTAGATTT
64 CAAAATCAGGGAAACAAGATTCACCGTCGTAGATTT
* * * ** * * * *
24247423 AATTTGTTTCACTATATTTCCAGGAAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTAAATTGC
1 AATCTGCTCCACTGCA-ATCCAGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTAC
* *
24247488 AAAATCAGGGAAGCAAGATTCACCGTCGTAGCTTT
65 AAAATCAGGGAAACAAGATTCACCGTCGTAGATTT
24247523 AATCTGCTCCACTGCA
1 AATCTGCTCCACTGCA
24247539 CTGCCAGGCA
Statistics
Matches: 93, Mismatches: 22, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
100 78 0.84
101 13 0.14
102 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (99 bp):
AATCTGCTCCACTGCAATCCAGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTACA
AAATCAGGGAAACAAGATTCACCGTCGTAGATTT
Found at i:24248712 original size:7 final size:7
Alignment explanation
Indices: 24248693--24248759 Score: 81
Period size: 7 Copynumber: 10.0 Consensus size: 7
24248683 TTAGCCTCTC
24248693 CATTTTT
1 CATTTTT
24248700 -ACTTTTT
1 CA-TTTTT
24248707 CA-TTTT
1 CATTTTT
24248713 --TTTTT
1 CATTTTT
24248718 CATTTTT
1 CATTTTT
24248725 CATTTTT
1 CATTTTT
24248732 CATTTTAT
1 CATTTT-T
24248740 CATTTTT
1 CATTTTT
24248747 CA-TTTT
1 CATTTTT
24248753 CATTTTT
1 CATTTTT
24248760 TTGACTCAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
5 4 0.08
6 11 0.21
7 30 0.57
8 8 0.15
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (7 bp):
CATTTTT
Found at i:24248760 original size:15 final size:15
Alignment explanation
Indices: 24248711--24248761 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
24248701 CTTTTTCATT
24248711 TTTTTTTCATTTTTCA
1 TTTTTTTCA-TTTTCA
24248727 --TTTTTCATTTT-A
1 TTTTTTTCATTTTCA
*
24248739 TCATTTTTCATTTTCA
1 T-TTTTTTCATTTTCA
24248755 TTTTTTT
1 TTTTTTT
24248762 GACTCAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
12 1 0.03
13 4 0.13
14 7 0.23
15 16 0.53
16 2 0.07
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTTTCATTTTCA
Found at i:24253253 original size:106 final size:107
Alignment explanation
Indices: 24253112--24253311 Score: 312
Period size: 108 Copynumber: 1.9 Consensus size: 107
24253102 TGGATTGAGA
* * *
24253112 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAG-AAATCGAAACCCAGCACATTAGGGCATGTT
1 TTTAAAAGGATATTTGGCTATTTGATCAAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
* * *
24253176 TCCTCGAATTTCCAAACGTAAAATATTGTCTTACTTCAAAAT
66 TCCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCAAAAT
*
24253218 TTTAAAAGGATATTTGGCTATTTGATCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGATCAAACGAG-AAAATCGAAACCCAGCACATTAGGGCACGT
*
24253283 TTTCTCGAATCTCCAAACGCAAAACATTG
65 TTCCTCGAATCTCCAAACGCAAAACATTG
24253312 CCTTTATTAT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 31 0.37
108 53 0.63
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (107 bp):
TTTAAAAGGATATTTGGCTATTTGATCAAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
TCCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCAAAAT
Found at i:24255433 original size:21 final size:20
Alignment explanation
Indices: 24255409--24255498 Score: 57
Period size: 22 Copynumber: 4.5 Consensus size: 20
24255399 TGCTTATAGC
24255409 TAATCTTAAAAAAATTATGTA
1 TAAT-TTAAAAAAATTATGTA
* *
24255430 TAA--TAATAATATTA--TA
1 TAATTTAAAAAAATTATGTA
24255446 -AATCTT-AAAAAATTATGTA
1 TAAT-TTAAAAAAATTATGTA
*
24255465 TATATTATAAAAAATTTATGTA
1 TA-ATT-TAAAAAAATTATGTA
24255487 TATATTATAAAA
1 TA-ATT-TAAAA
24255499 TTATAAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
15 2 0.04
16 2 0.04
17 7 0.13
18 10 0.18
19 2 0.04
20 2 0.04
21 6 0.11
22 24 0.44
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (20 bp):
TAATTTAAAAAAATTATGTA
Found at i:24255483 original size:22 final size:21
Alignment explanation
Indices: 24255451--24255498 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 21
24255441 TTATAAATCT
24255451 TAAAAAATTATGTATATATTA
1 TAAAAAATTATGTATATATTA
24255472 TAAAAAATTTATGTATATATTA
1 TAAAAAA-TTATGTATATATTA
24255494 TAAAA
1 TAAAA
24255499 TTATAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
TAAAAAATTATGTATATATTA
Found at i:24258984 original size:66 final size:66
Alignment explanation
Indices: 24258904--24259036 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
24258894 ATTAAAGATA
24258904 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
1 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
24258969 T
66 T
* * * * **
24258970 TCCTATGAGGGTAATGTTGGGAAACGTGTTCATATTGTAGTAAACATGTAATTATTTTCTATGTA
1 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
24259035 T
66 T
24259036 T
1 T
24259037 TGAACGATGC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (66 bp):
TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
T
Found at i:24264608 original size:12 final size:12
Alignment explanation
Indices: 24264593--24264617 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24264583 AAACAAAATT
24264593 ATAAAATAAAAA
1 ATAAAATAAAAA
24264605 ATAAAATAAAAA
1 ATAAAATAAAAA
24264617 A
1 A
24264618 ATAGAATATA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:24264629 original size:15 final size:13
Alignment explanation
Indices: 24264593--24264625 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24264583 AAACAAAATT
24264593 ATAAAAT-AAAAA
1 ATAAAATAAAAAA
24264605 ATAAAATAAAAAA
1 ATAAAATAAAAAA
*
24264618 ATAGAATA
1 ATAAAATA
24264626 TAAAGTGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
ATAAAATAAAAAA
Found at i:24265044 original size:42 final size:43
Alignment explanation
Indices: 24264988--24265097 Score: 159
Period size: 48 Copynumber: 2.5 Consensus size: 43
24264978 TGTACATGAG
*
24264988 AAAAATATTAATTAGAAACATA-TGCATATATATATAAATATA
1 AAAAATATTCATTAGAAACATAGTGCATATATATATAAATATA
24265030 AAAAATATTCATTAGAAACATACATATGTGCATATATATATAAATATA
1 AAAAATATTCATTAG--A-A-ACATA-GTGCATATATATATAAATATA
24265078 AAAAATATTCATTAGAAACA
1 AAAAATATTCATTAGAAACA
24265098 ATATACGAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
42 14 0.23
44 4 0.07
45 2 0.03
46 6 0.10
48 35 0.57
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.32
Consensus pattern (43 bp):
AAAAATATTCATTAGAAACATAGTGCATATATATATAAATATA
Found at i:24265384 original size:19 final size:19
Alignment explanation
Indices: 24265360--24265449 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
24265350 TCATATCTTT
24265360 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
24265379 TAAGATTTCATATCATATC
1 TAAGATTGCATATCATATC
*
24265398 TAAGATTGCATAACATATC
1 TAAGATTGCATATCATATC
*
24265417 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
24265436 TAAGATTGCATATC
1 TAAGATTGCATATC
24265450 CTTGAAGATT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:24266055 original size:45 final size:45
Alignment explanation
Indices: 24265960--24266337 Score: 264
Period size: 45 Copynumber: 8.6 Consensus size: 45
24265950 TTCTAATCCA
* * * * * *
24265960 CTCCACTACAACTTTAGGGAGATGAGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * *
24266004 CCCCACTGCAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * *
24266049 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * * * *
24266094 CTCCATTGCAACTTCAGGAAGATAAGACCTGA-TGC--GA-TCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * * **
24266135 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-AATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTGAGTCTG
* * * *
24266178 CTCCACTGCAACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TCTTGAGTCTG
* * * * *
24266222 TTACACTGCAACTTCAGGGAGATAAGA-TTCGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GATTTCTTGAGTCTG
* * * * *
24266267 C-CTTACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTGAGTCTG
*
24266311 CTCCACTGTAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
24266338 TTAGATGCGA
Statistics
Matches: 261, Mismatches: 55, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
40 21 0.08
41 8 0.03
42 7 0.03
43 7 0.03
44 103 0.39
45 112 0.43
46 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
Found at i:24266391 original size:217 final size:217
Alignment explanation
Indices: 24266007--24266482 Score: 620
Period size: 217 Copynumber: 2.2 Consensus size: 217
24265997 TAGTCTGCCC
* * * * *
24266007 CACTGCAATTTCAGGGGGATAAGACTT-GATTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGA
1 CACTGCAACTTCAGGGAGATAAGA-TTCG-TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGA
* * *
24266071 TAAGACTCGCTTTCTTGGGTCTGCTCCATTGCAACTTCAGGAAGATAAGACCTGATGCGATCTAC
64 TAAGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACCTGATGCGATCTAC
* * *
24266136 TCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGAT
129 TCTCTACAACTTCAGAGAGATAAGATCTGCGATTTTAATCCACTCCACTGCAACTTCAGAGAGAT
*
24266201 AGGATTATTGGCTTTAATCTGTTA
194 AGGATTATTGGCTTTAATCTGCTA
*
24266225 CACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGC-CTTACTACAACTTCA-GGAGG
1 CACTGCAACTTCAGGGAGATAAGATTCG-TATCTTCAGTCTGCTC-CACTACAACTTCAGGGA-G
* * * * *
24266288 ATAAGGCTTGCTTACTT-AGTCTGCTCCACTGTAACTTCAGGGAGATAAGA-TTAGATGCGATCT
63 ATAAGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACCT-GATGCGATCT
* * * * * *
24266351 GCTCTCTATAACTTCTGAGAGATAAGATCTGCGATTTTAATCCGCTCCACTGCGACTTTAGAGAG
127 ACTCTCTACAACTTCAGAGAGATAAGATCTGCGATTTTAATCCACTCCACTGCAACTTCAGAGAG
*
24266416 ATAGGATTATTGGCTTTAATCTGCTC
192 ATAGGATTATTGGCTTTAATCTGCTA
*
24266442 CACTGCAACTTTAGGGAGATAAGATTCGTCATCTTCAGTCT
1 CACTGCAACTTCAGGGAGATAAGATTCGT-ATCTTCAGTCT
24266483 TTTAAATTGC
Statistics
Matches: 226, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
216 2 0.01
217 163 0.72
218 61 0.27
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (217 bp):
CACTGCAACTTCAGGGAGATAAGATTCGTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATA
AGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACCTGATGCGATCTACTC
TCTACAACTTCAGAGAGATAAGATCTGCGATTTTAATCCACTCCACTGCAACTTCAGAGAGATAG
GATTATTGGCTTTAATCTGCTA
Found at i:24266882 original size:44 final size:44
Alignment explanation
Indices: 24266831--24266952 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 44
24266821 ATATGCTATT
*
24266831 TTCAACCTACTT-CACTGTTG-CTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTA-TTCCACTGCTGAC-CAGGGAGATAGGACTT-ACAATC
24266875 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
* * * *
24266919 TTCAATCTATTCCACTACTGTCTAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
24266953 GCTGGGGTCA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
43 2 0.03
44 65 0.93
45 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
Found at i:24267089 original size:88 final size:88
Alignment explanation
Indices: 24266952--24267528 Score: 739
Period size: 88 Copynumber: 6.6 Consensus size: 88
24266942 AGGGAGATAG
* * * * * *
24266952 GGCTGGGGTCATCAATCTGCTTCGCTGTCGATGCAGGAAGGCAATATCTGATATTTTTAATCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGATATTTTTAACCTGC
* * * *
24267017 TTCGTTGCAACCCATGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * *
24267040 GACTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGATATTTTTAACCTGC
24267105 TCCGCTACAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * * *
24267128 GGTTGGTGTCTTCGATCTGCTTCGCTATCAGTGTAGGAAGGCAAGATCT-ACTA-TTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGA-TATTTTTAACCTG
** *
24267191 CTCCATTACAACCTAGGGAGGCAA
65 CTCCGCTACAACCCAGGGAGGCAA
* * *
24267215 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTG-TAATTTTTAACTTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGAT-ATTTTTAACCTG
* * **
24267279 CTCCACTGCAACCCAGAAAGGCAA
65 CTCCGCTACAACCCAGGGAGGCAA
* *
24267303 GACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT-ACTATTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGA-TATTTTTAACCTG
* * *
24267367 CTTCGCTGCAACCCAGGGAGGCAT
65 CTCCGCTACAACCCAGGGAGGCAA
* * *
24267391 GGCTAGTGTCTTCTATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGATATTTTTAACCTGC
* *
24267456 TCTGCTACAACCCAGGGAAGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * *
24267479 TGTTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
24267529 TTATCTTCAC
Statistics
Matches: 426, Mismatches: 56, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
86 1 0.00
87 77 0.18
88 347 0.81
89 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGATATTTTTAACCTGC
TCCGCTACAACCCAGGGAGGCAA
Found at i:24267293 original size:263 final size:265
Alignment explanation
Indices: 24266952--24267529 Score: 824
Period size: 263 Copynumber: 2.2 Consensus size: 265
24266942 AGGGAGATAG
* * * *
24266952 GGCTGGGGTCATCAATCTGCTTCGCTGTCGATGCAGGAAGGCAATATCTG-ATATTTTTAATCTG
1 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTATATTTTTAATCTG
* ** * * *
24267016 CTTCGTTGCAACCCATG-GAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAG
66 CTCCACTGCAACCCA-GAAAGGCAAGACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAG
* * *
24267080 GCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATC
130 GCAAGATCTACTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTAGTGTCTTCGATC
* * *
24267145 TGCTTCGCTATCAGTGTAGGAAGGCAAGATCTACTA-TTTTAACCTGCTCCATTACAACCTAGGG
195 TGCTTCGCTATCAGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCACTACAACCCAGGG
*
24267209 AGGCAA
260 AAGCAA
*
24267215 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGTA-ATTTTTAA-CTT
1 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTATATTTTTAATC-T
24267278 GCTCCACTGCAACCCAGAAAGGCAAGACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAG
65 GCTCCACTGCAACCCAGAAAGGCAAGACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAG
* * * *
24267343 GCAAGATCTACTATTTTTAACCTGCTTCGCTGCAACCCAGGGAGGCATGGCTAGTGTCTTCTATC
130 GCAAGATCTACTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTAGTGTCTTCGATC
* * * **
24267408 TGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTACAACCCAGGG
195 TGCTTCGCTATCAGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCACTACAACCCAGGG
24267473 AAGCAA
260 AAGCAA
* * * *
24267479 TGTTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGT
1 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGT
24267530 TATCTTCACT
Statistics
Matches: 279, Mismatches: 32, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
262 2 0.01
263 201 0.72
264 76 0.27
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (265 bp):
GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTATATTTTTAATCTG
CTCCACTGCAACCCAGAAAGGCAAGACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGG
CAAGATCTACTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCT
GCTTCGCTATCAGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCACTACAACCCAGGGA
AGCAA
Found at i:24267344 original size:44 final size:44
Alignment explanation
Indices: 24267209--24267436 Score: 149
Period size: 44 Copynumber: 5.2 Consensus size: 44
24267199 CAACCTAGGG
* * *
24267209 AGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGTAGGA
1 AGGCAAGACTAGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
* * * * * **** *
24267253 AGGCAAGATCT-GTAATTTTTAA-CTTGCTCCACTG-CAACCCAGAA
1 AGGCAAGA-CTAGT-GTCTTCAATC-TGCTTCGCTGTCGGTGCAGGA
*
24267297 AGGCAAGACTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGACTAGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
* * * * * **** *
24267341 AGGCAAGATCTACTATTTTTAACCTGCTTCGCTG-CAACCCAGGG
1 AGGCAAGA-CTAGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
* * *
24267385 AGGCATGGCTAGTGTCTTCTATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGACTAGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
24267429 AGGCAAGA
1 AGGCAAGA
24267437 TCTGCTATTT
Statistics
Matches: 127, Mismatches: 49, Indels: 16
0.66 0.26 0.08
Matches are distributed among these distances:
43 33 0.26
44 60 0.47
45 34 0.27
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (44 bp):
AGGCAAGACTAGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
Found at i:24272217 original size:19 final size:19
Alignment explanation
Indices: 24272193--24272279 Score: 147
Period size: 19 Copynumber: 4.6 Consensus size: 19
24272183 TCATATATTT
24272193 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
24272212 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
*
24272231 TAAGATTGCATATTATATC
1 TAAGATTGCATATCATATC
*
24272250 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
24272269 TAAGATTGCAT
1 TAAGATTGCAT
24272280 TTCCTTGAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 62 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:24272241 original size:38 final size:38
Alignment explanation
Indices: 24272193--24272279 Score: 165
Period size: 38 Copynumber: 2.3 Consensus size: 38
24272183 TCATATATTT
24272193 TAAGATTGCATATCATATCTAAGATTACATATCATATC
1 TAAGATTGCATATCATATCTAAGATTACATATCATATC
*
24272231 TAAGATTGCATATTATATCTAAGATTACATATCATATC
1 TAAGATTGCATATCATATCTAAGATTACATATCATATC
24272269 TAAGATTGCAT
1 TAAGATTGCAT
24272280 TTCCTTGAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (38 bp):
TAAGATTGCATATCATATCTAAGATTACATATCATATC
Found at i:24272914 original size:86 final size:86
Alignment explanation
Indices: 24272730--24272902 Score: 337
Period size: 86 Copynumber: 2.0 Consensus size: 86
24272720 CAAGAAAAAG
24272730 CAAGAAAATTAAAGAGAAGAAGACAGACTCCATGGGATGGGGGGTGGTCATGCAACAAGTTGATG
1 CAAGAAAATTAAAGAGAAGAAGACAGACTCCATGGGATGGGGGGTGGTCATGCAACAAGTTGATG
24272795 GAGATGAGTTTTTCATTTTTT
66 GAGATGAGTTTTTCATTTTTT
24272816 CAAGAAAATTAAAGAGAAGAAGACAGACTCCATGGGATGGGGGGTGGTCATGCAACAAGTTGATG
1 CAAGAAAATTAAAGAGAAGAAGACAGACTCCATGGGATGGGGGGTGGTCATGCAACAAGTTGATG
*
24272881 GGGATGAGTTTTTCATTTTTT
66 GAGATGAGTTTTTCATTTTTT
24272902 C
1 C
24272903 CCACTTTTTA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (86 bp):
CAAGAAAATTAAAGAGAAGAAGACAGACTCCATGGGATGGGGGGTGGTCATGCAACAAGTTGATG
GAGATGAGTTTTTCATTTTTT
Found at i:24274622 original size:20 final size:19
Alignment explanation
Indices: 24274595--24274634 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
24274585 CATACAATTG
24274595 ATGAAATAAAAAAATGTAC
1 ATGAAATAAAAAAATGTAC
**
24274614 ATGACAATATTAAAATGTAC
1 ATGA-AATAAAAAAATGTAC
24274634 A
1 A
24274635 AAACATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.25
Consensus pattern (19 bp):
ATGAAATAAAAAAATGTAC
Found at i:24276913 original size:14 final size:14
Alignment explanation
Indices: 24276894--24276940 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
24276884 TGAGTTGCAG
24276894 AGAAATAGAAAGAA
1 AGAAATAGAAAGAA
24276908 AGAAATCA-AAAGAA
1 AGAAAT-AGAAAGAA
* * *
24276922 ATAAAGAGAGAGAA
1 AGAAATAGAAAGAA
24276936 AGAAA
1 AGAAA
24276941 GTGCAATGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.21, T:0.06
Consensus pattern (14 bp):
AGAAATAGAAAGAA
Found at i:24279891 original size:16 final size:16
Alignment explanation
Indices: 24279859--24279908 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
24279849 AATGTTAAAT
*
24279859 AATATTCTAATATTTTA
1 AATATTTTAA-ATTTTA
* *
24279876 AATTTTTTAGATTTTA
1 AATATTTTAAATTTTA
*
24279892 TATATTTTAAATTTTA
1 AATATTTTAAATTTTA
24279908 A
1 A
24279909 GACAATAATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (16 bp):
AATATTTTAAATTTTA
Found at i:24280678 original size:19 final size:20
Alignment explanation
Indices: 24280638--24280678 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
24280628 TCACACCAAT
*
24280638 AAATAATTAAAAAATTAGAA
1 AAATAATTAAAAAATTACAA
*
24280658 AAAT-ATTAAAAAATTTCAA
1 AAATAATTAAAAAATTACAA
24280677 AA
1 AA
24280679 CTCGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATAATTAAAAAATTACAA
Found at i:24284432 original size:28 final size:28
Alignment explanation
Indices: 24284392--24284451 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
24284382 GCAGATTCAT
* *
24284392 ACTTGTAAGACAGTCTTGACGGACTCTC
1 ACTTATAAGACAGTCCTGACGGACTCTC
*
24284420 ACTTATAAGACAGTCCTGATGGACTCTC
1 ACTTATAAGACAGTCCTGACGGACTCTC
24284448 ACTT
1 ACTT
24284452 GAAAGATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (28 bp):
ACTTATAAGACAGTCCTGACGGACTCTC
Found at i:24284715 original size:9 final size:9
Alignment explanation
Indices: 24284698--24284734 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
24284688 TAAGTTTTCG
24284698 AATTCGAAT
1 AATTCGAAT
*
24284707 AACTCGAAT
1 AATTCGAAT
24284716 AATTCGAAT
1 AATTCGAAT
24284725 AATTCGAAT
1 AATTCGAAT
24284734 A
1 A
24284735 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24285824 original size:22 final size:23
Alignment explanation
Indices: 24285796--24285845 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
24285786 CCTCAGACTC
* *
24285796 TCATACTACCT-TTAAAGGGCTT
1 TCATACTACCTATAAAAAGGCTT
24285818 TCATACTACCTATAAAAAGGCTT
1 TCATACTACCTATAAAAAGGCTT
24285841 TCATA
1 TCATA
24285846 TCTATGTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (23 bp):
TCATACTACCTATAAAAAGGCTT
Found at i:24287133 original size:16 final size:16
Alignment explanation
Indices: 24287112--24287145 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24287102 TTACTCAAGA
24287112 AGAATAAATGGAAATG
1 AGAATAAATGGAAATG
24287128 AGAATAAATGGAAATG
1 AGAATAAATGGAAATG
24287144 AG
1 AG
24287146 CTGAGTAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (16 bp):
AGAATAAATGGAAATG
Found at i:24290016 original size:4 final size:4
Alignment explanation
Indices: 24290007--24290039 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
24289997 CCACCATGAT
24290007 CAGA CAGA CAGA CAGA CAGA CAGA CAGA CAGA C
1 CAGA CAGA CAGA CAGA CAGA CAGA CAGA CAGA C
24290040 GGTACCAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.48, C:0.27, G:0.24, T:0.00
Consensus pattern (4 bp):
CAGA
Found at i:24294815 original size:15 final size:15
Alignment explanation
Indices: 24294795--24294823 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24294785 CCTGAGCCAC
24294795 TGCTGTTGTTGTTGA
1 TGCTGTTGTTGTTGA
24294810 TGCTGTTGTTGTTG
1 TGCTGTTGTTGTTG
24294824 TTGAAAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.07, G:0.34, T:0.55
Consensus pattern (15 bp):
TGCTGTTGTTGTTGA
Found at i:24294833 original size:21 final size:21
Alignment explanation
Indices: 24294794--24294862 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 21
24294784 GCCTGAGCCA
24294794 CTGCTGTTGTTGTTG---ATG
1 CTGCTGTTGTTGTTGAAAATG
*
24294812 CTGTTGTTGTTGTTGAAAATG
1 CTGCTGTTGTTGTTGAAAATG
24294833 CTGCTGATTGTGTTGTTGAAAATG
1 CTGCTG--T-TGTTGTTGAAAATG
24294857 CTGCTG
1 CTGCTG
24294863 ATTATGAACC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 14 0.33
21 8 0.19
23 1 0.02
24 20 0.47
ACGTcount: A:0.14, C:0.10, G:0.30, T:0.45
Consensus pattern (21 bp):
CTGCTGTTGTTGTTGAAAATG
Found at i:24294837 original size:24 final size:24
Alignment explanation
Indices: 24294810--24294865 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 24
24294800 TTGTTGTTGA
24294810 TGCTG-TTGTTGTTGTTGAAAATGC
1 TGCTGATTG-TGTTGTTGAAAATGC
24294834 TGCTGATTGTGTTGTTGAAAATGC
1 TGCTGATTGTGTTGTTGAAAATGC
24294858 TGCTGATT
1 TGCTGATT
24294866 ATGAACCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.18, C:0.09, G:0.29, T:0.45
Consensus pattern (24 bp):
TGCTGATTGTGTTGTTGAAAATGC
Found at i:24296130 original size:12 final size:12
Alignment explanation
Indices: 24296113--24296145 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
24296103 ACTTAATCTT
24296113 TTTAATATTAAA
1 TTTAATATTAAA
24296125 TTTAATATT-AA
1 TTTAATATTAAA
*
24296136 TCTAATATTA
1 TTTAATATTA
24296146 TATTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:24298151 original size:21 final size:23
Alignment explanation
Indices: 24298127--24298169 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
24298117 TTAATTTTTT
*
24298127 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
24298148 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
24298170 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:24302431 original size:13 final size:13
Alignment explanation
Indices: 24302398--24302435 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
24302388 GATATATTTG
*
24302398 TAATTTGAAAACT
1 TAATTTGAAAAAT
24302411 TAAATTTGAAAAAT
1 T-AATTTGAAAAAT
24302425 TAATTTGAAAA
1 TAATTTGAAAA
24302436 TTTGTAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAAAT
Found at i:24302716 original size:35 final size:35
Alignment explanation
Indices: 24302672--24302778 Score: 162
Period size: 35 Copynumber: 3.1 Consensus size: 35
24302662 TTCACTTGTC
* *
24302672 TTTTCTTGCAGGGAATCTTTCCTGTTCACGCATTA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
*
24302707 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATCA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
* *
24302742 -TTTCTTGCAGGGAATCTCTCCTGTTCATACATCA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
24302776 TTT
1 TTT
24302779 CTGGTATTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
34 31 0.48
35 34 0.52
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (35 bp):
TTTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
Found at i:24302755 original size:34 final size:34
Alignment explanation
Indices: 24302673--24302780 Score: 162
Period size: 34 Copynumber: 3.1 Consensus size: 34
24302663 TCACTTGTCT
* *
24302673 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
*
24302707 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATCA
1 -TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
* *
24302742 TTTCTTGCAGGGAATCTCTCCTGTTCATACATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
24302776 TTTCT
1 TTTCT
24302781 GGTATTATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
34 36 0.54
35 31 0.46
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.42
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
Found at i:24303875 original size:37 final size:39
Alignment explanation
Indices: 24303781--24303883 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 39
24303771 GTAGATAAAC
24303781 ATTAAATTTAAT-TT-AA-TATTAAGATAACCACTTTAAT
1 ATTAAATTTAATATTAAACTATTAAGATAACCAC-TTAAT
* **
24303818 ATTAAA-TTAATA-AAATACTATTAAGATAAGTA-TTAA-
1 ATTAAATTTAATATTAA-ACTATTAAGATAACCACTTAAT
*
24303854 ATTAAATTTAATATTAAACTATTAAAATAA
1 ATTAAATTTAATATTAAACTATTAAGATAA
24303884 TAATATTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
36 11 0.20
37 29 0.53
38 3 0.05
39 12 0.22
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (39 bp):
ATTAAATTTAATATTAAACTATTAAGATAACCACTTAAT
Found at i:24305956 original size:23 final size:23
Alignment explanation
Indices: 24305926--24305974 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
24305916 TATGGAAGCA
24305926 TCTATAGGTAAACCTTTTCTTTT
1 TCTATAGGTAAACCTTTTCTTTT
24305949 TCTATAGGTAAACCTTTTCTTTT
1 TCTATAGGTAAACCTTTTCTTTT
24305972 TCT
1 TCT
24305975 CCCAGCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.53
Consensus pattern (23 bp):
TCTATAGGTAAACCTTTTCTTTT
Found at i:24311249 original size:10 final size:10
Alignment explanation
Indices: 24311234--24311314 Score: 53
Period size: 10 Copynumber: 8.1 Consensus size: 10
24311224 CTAAAGTTAA
24311234 AATATATTAT
1 AATATATTAT
24311244 AATATA--AT
1 AATATATTAT
*
24311252 AATATTACTTAA
1 AATA-TA-TTAT
*
24311264 AAGT-TAAGTAT
1 AA-TAT-ATTAT
24311275 A-TATATTAT
1 AATATATTAT
*
24311284 ATTATATTAT
1 AATATATTAT
*
24311294 ATTATATTAT
1 AATATATTAT
*
24311304 ATTATATTAT
1 AATATATTAT
24311314 A
1 A
24311315 TTAAANNNNN
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
8 6 0.10
9 8 0.14
10 36 0.61
11 4 0.07
12 4 0.07
13 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (10 bp):
AATATATTAT
Found at i:24311284 original size:5 final size:5
Alignment explanation
Indices: 24311272--24311317 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
24311262 AAAAGTTAAG
24311272 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
24311318 AANNNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.10
5 37 0.90
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:24312393 original size:22 final size:23
Alignment explanation
Indices: 24312340--24312396 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
24312330 CTAGCACGAC
* *
24312340 AGTGTTCTCCGTTTAGCACATTT
1 AGTGCTCTCTGTTTAGCACATTT
24312363 -GTGCTCTCTGTTTAGCAC-TTT
1 AGTGCTCTCTGTTTAGCACATTT
24312384 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
24312397 CATTAGTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 3 0.10
22 28 0.90
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (23 bp):
AGTGCTCTCTGTTTAGCACATTT
Found at i:24319584 original size:18 final size:19
Alignment explanation
Indices: 24319548--24319602 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
24319538 ATCAATTTTA
* *
24319548 ATTAAATAAATTATTAAAT
1 ATTAAAAAAATTATAAAAT
* *
24319567 ATTTATAAAATT-TAAAAT
1 ATTAAAAAAATTATAAAAT
24319585 ATTAAAAAAATTATAAAA
1 ATTAAAAAAATTATAAAA
24319603 GTGTTATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAAAAAAATTATAAAAT
Found at i:24320406 original size:8 final size:8
Alignment explanation
Indices: 24320393--24320458 Score: 60
Period size: 8 Copynumber: 8.0 Consensus size: 8
24320383 TTATTATTAT
*
24320393 TATAAATA
1 TATAAAAA
24320401 TATAAAAAA
1 TAT-AAAAA
**
24320410 TATAAATT
1 TATAAAAA
24320418 TATAAAAA
1 TATAAAAA
*
24320426 TAGAAAAA
1 TATAAAAA
*
24320434 TATATACAA
1 TATA-AAAA
*
24320443 TAAAAAAA
1 TATAAAAA
24320451 TATAAAAA
1 TATAAAAA
24320459 GCGTATAATA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
8 32 0.71
9 13 0.29
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (8 bp):
TATAAAAA
Found at i:24320415 original size:17 final size:17
Alignment explanation
Indices: 24320393--24320458 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
24320383 TTATTATTAT
*
24320393 TATAAATATATAAAAAA
1 TATAAAAATATAAAAAA
**
24320410 TATAAATTTAT-AAAAA
1 TATAAAAATATAAAAAA
* * *
24320426 TAGAAAAATATATACAA
1 TATAAAAATATAAAAAA
*
24320443 TAAAAAAATATAAAAA
1 TATAAAAATATAAAAA
24320459 GCGTATAATA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
16 13 0.33
17 26 0.67
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
TATAAAAATATAAAAAA
Found at i:24324452 original size:8 final size:8
Alignment explanation
Indices: 24324422--24324457 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
24324412 CTGGACATTG
*
24324422 TTTATTGT
1 TTTATTTT
24324430 TTTATTTT
1 TTTATTTT
24324438 TTTATTTT
1 TTTATTTT
*
24324446 TTTATTTA
1 TTTATTTT
24324454 TTTA
1 TTTA
24324458 ATCTGCATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (8 bp):
TTTATTTT
Found at i:24324921 original size:9 final size:9
Alignment explanation
Indices: 24324905--24325041 Score: 157
Period size: 9 Copynumber: 14.6 Consensus size: 9
24324895 TTTGGTTAAA
24324905 AATTACCCG
1 AATTACCCG
*
24324914 ACTTACCCG
1 AATTACCCG
*
24324923 ACTTACCCG
1 AATTACCCG
24324932 AATTACCCG
1 AATTACCCG
*
24324941 ACTTACCCG
1 AATTACCCG
*
24324950 AATTACCTG
1 AATTACCCG
24324959 AAAATTACCCG
1 --AATTACCCG
24324970 AATTACCCG
1 AATTACCCG
*
24324979 AAAATTACCCA
1 --AATTACCCG
*
24324990 AATTACCTG
1 AATTACCCG
24324999 AATTACCCG
1 AATTACCCG
*
24325008 AAAATTACCCA
1 --AATTACCCG
24325019 AATTACCCG
1 AATTACCCG
24325028 AATTACCCG
1 AATTACCCG
24325037 AATTA
1 AATTA
24325042 AATCACTACA
Statistics
Matches: 110, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
9 86 0.78
11 24 0.22
ACGTcount: A:0.36, C:0.31, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:24324968 original size:20 final size:19
Alignment explanation
Indices: 24324904--24325038 Score: 152
Period size: 20 Copynumber: 7.1 Consensus size: 19
24324894 TTTTGGTTAA
*
24324904 AAATTACCCGACTTACCCG
1 AAATTACCCGAATTACCCG
*
24324923 -ACTTACCCGAATTACCCG
1 AAATTACCCGAATTACCCG
* *
24324941 -ACTTACCCGAATTACCTG
1 AAATTACCCGAATTACCCG
24324959 AAAATTACCCGAATTACCCG
1 -AAATTACCCGAATTACCCG
* *
24324979 AAAATTACCCAAATTACCTG
1 -AAATTACCCGAATTACCCG
24324999 -AATTACCCGAAAATTACCC-
1 AAATTACCCG--AATTACCCG
24325018 AAATTACCCGAATTACCCG
1 AAATTACCCGAATTACCCG
24325037 AA
1 AA
24325039 TTAAATCACT
Statistics
Matches: 101, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
18 49 0.49
19 2 0.02
20 50 0.50
ACGTcount: A:0.37, C:0.32, G:0.09, T:0.22
Consensus pattern (19 bp):
AAATTACCCGAATTACCCG
Found at i:24324975 original size:29 final size:28
Alignment explanation
Indices: 24324904--24325038 Score: 166
Period size: 29 Copynumber: 4.8 Consensus size: 28
24324894 TTTTGGTTAA
* *
24324904 AAATTACCCGACTTACCCG-ACTTACCC
1 AAATTACCCGAATTACCCGAAATTACCC
* * *
24324931 GAATTACCCGACTTACCCG-AATTACCTGA
1 AAATTACCCGAATTACCCGAAATTACC--C
24324960 AAATTACCCGAATTACCCGAAAATTACCC
1 AAATTACCCGAATTACCCG-AAATTACCC
*
24324989 AAATTACCTGAATTACCCGAAAATTACCC
1 AAATTACCCGAATTACCCG-AAATTACCC
24325018 AAATTACCCGAATTACCCGAA
1 AAATTACCCGAATTACCCGAA
24325039 TTAAATCACT
Statistics
Matches: 96, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
27 24 0.25
28 2 0.02
29 63 0.66
31 7 0.07
ACGTcount: A:0.37, C:0.32, G:0.09, T:0.22
Consensus pattern (28 bp):
AAATTACCCGAATTACCCGAAATTACCC
Found at i:24325070 original size:17 final size:17
Alignment explanation
Indices: 24325048--24325108 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
24325038 ATTAAATCAC
24325048 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
24325065 TACATAAATATTTGAATCAC
1 TACAT--A-ATTAAAAACAT
*
24325085 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
24325102 TACATAA
1 TACATAA
24325109 GTCTTTGAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 18 0.56
18 1 0.03
19 1 0.03
20 12 0.38
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:24325146 original size:37 final size:37
Alignment explanation
Indices: 24325042--24325154 Score: 183
Period size: 37 Copynumber: 3.1 Consensus size: 37
24325032 ACCCGAATTA
* * *
24325042 AATCACTACATAATTAAAAACATTACATAAATATTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
24325079 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
24325116 AATCACTATATAATTAAAAATATTACATAAGTC-TTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
24325152 AAT
1 AAT
24325155 TAACACATAA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 6 0.08
37 66 0.92
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:24325222 original size:24 final size:24
Alignment explanation
Indices: 24325195--24325253 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
24325185 ATTCTCCATT
*
24325195 TATATCCATTTCATCTTTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
24325219 TATATCCATTTCATCTCTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
24325243 TATCTCCATTT
1 TATATCCATTT
24325254 GCATTAAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (24 bp):
TATATCCATTTCATCTCTCCAAAA
Found at i:24327977 original size:17 final size:17
Alignment explanation
Indices: 24327955--24327990 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24327945 TGAATTAAGG
24327955 TATGAAAAATAATCTTA
1 TATGAAAAATAATCTTA
24327972 TATGAAAAATAATCTTA
1 TATGAAAAATAATCTTA
24327989 TA
1 TA
24327991 CGACTGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
TATGAAAAATAATCTTA
Found at i:24328209 original size:8 final size:8
Alignment explanation
Indices: 24328196--24328220 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24328186 AAATGTTCGC
24328196 ATTTAATT
1 ATTTAATT
24328204 ATTTAATT
1 ATTTAATT
24328212 ATTTAATT
1 ATTTAATT
24328220 A
1 A
24328221 ACAATATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTAATT
Found at i:24328355 original size:27 final size:27
Alignment explanation
Indices: 24328325--24328404 Score: 160
Period size: 27 Copynumber: 3.0 Consensus size: 27
24328315 AAAGATGAAA
24328325 GAAAAAATTAAGACAATAGTATACAAT
1 GAAAAAATTAAGACAATAGTATACAAT
24328352 GAAAAAATTAAGACAATAGTATACAAT
1 GAAAAAATTAAGACAATAGTATACAAT
24328379 GAAAAAATTAAGACAATAGTATACAA
1 GAAAAAATTAAGACAATAGTATACAA
24328405 CGACATAGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.21
Consensus pattern (27 bp):
GAAAAAATTAAGACAATAGTATACAAT
Found at i:24342755 original size:16 final size:16
Alignment explanation
Indices: 24342734--24342765 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24342724 GTACATATCA
24342734 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
24342750 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
24342766 GCATAATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:24342818 original size:45 final size:44
Alignment explanation
Indices: 24342751--24342846 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
24342741 GGAATAGAGC
24342751 TGTAATGGAATAGAGGCATAATAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAATAGT-ATTC-ATGTGTTTGGTTGAA
* *
24342796 TGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAATAGTATTCATGTGTTTGGTTGAA
*
24342840 TGGAATG
1 TGTAATG
24342847 ATGTTGTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.31, C:0.04, G:0.28, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCATAATAGTATTCATGTGTTTGGTTGAA
Found at i:24343099 original size:61 final size:61
Alignment explanation
Indices: 24343019--24343206 Score: 215
Period size: 61 Copynumber: 3.1 Consensus size: 61
24343009 ATTTAATAAA
24343019 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
* * * * * ** * *
24343080 AATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAA
1 AATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTAATAAAATCAT
* *
24343139 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
24343200 AATATAT
1 AATATAT
24343207 TTAAAATAAT
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
58 3 0.03
59 36 0.36
60 15 0.15
61 42 0.42
62 3 0.03
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
Found at i:24343121 original size:120 final size:120
Alignment explanation
Indices: 24342984--24343206 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
24342974 TTAATCATAT
*
24342984 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
24343049 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
24343104 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
24343169 AAATATTCTTAAATGAATTTACTAAAATCATAATATAT
66 AAATATTCTTAAATGAATTTAATAAAATCATAATATAT
24343207 TTAAAATAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
Found at i:24343156 original size:59 final size:60
Alignment explanation
Indices: 24342976--24343158 Score: 203
Period size: 59 Copynumber: 3.0 Consensus size: 60
24342966 TAAATAATTT
* *
24342976 AATCATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
1 AATCATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
* * * * ** * * *
24343036 AATTCTTAATATT-AAAT-ATTCTTATATGAATTTAATAAAATCATAATATATAATACT-ATAA
1 AA-TCATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAAAATATATAAT-TTAATAA
24343097 AAT-ATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
1 AATCATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
24343156 AAT
1 AAT
24343159 TCTTAATATT
Statistics
Matches: 96, Mismatches: 20, Indels: 15
0.73 0.15 0.11
Matches are distributed among these distances:
58 3 0.03
59 37 0.39
60 17 0.18
61 36 0.38
62 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (60 bp):
AATCATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
Found at i:24343161 original size:104 final size:104
Alignment explanation
Indices: 24343022--24343384 Score: 343
Period size: 104 Copynumber: 3.4 Consensus size: 104
24343012 TAATAAAAAT
* * *
24343022 ATATAATTTAATAAAATTCT-TAATATT-A-AATATTCTTATATGAATTTAATAAAATCATAATA
1 ATATAATTTAATAAAAATATATAAT-TTAATAAAATTCTTATATGAATTTAATAAAATCATAATA
24343084 TATAATACTATAAAATATAATTTAAAATAATTATTATTAA
65 TATAATACTATAAAATATAATTTAAAATAATTATTATTAA
* * *
24343124 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA-AT--A-TTAA-ATATTCTTAA-AT
1 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTATATGAATTTAATAAAATCATAATAT
*
24343183 GA-ATTTACTA-AAATCATAATATATTTAAAATAATTATTATTAAAA
66 -ATA-ATACTATAAA--AT-ATA-ATTTAAAATAATTATTATT--AA
* * *
24343228 ATATAATTTAGTAAAAATATATAATTTAATAAAATTTTTAATATTAAATATTCTTAGAATTTACT
1 ATATAATTTAATAAAAATATATAATTTAATAAAA----T--TCTT--ATA----T-GAATTTAAT
* *
24343293 AAAATCATAATATATAATACTATAAAATATAATTTAAATTAATTATTTTTAA
53 AAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAA
24343345 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
1 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
24343385 ATATTAAATA
Statistics
Matches: 211, Mismatches: 18, Indels: 57
0.74 0.06 0.20
Matches are distributed among these distances:
98 6 0.03
99 13 0.06
100 6 0.03
101 4 0.02
102 39 0.18
103 7 0.03
104 44 0.21
108 1 0.00
109 1 0.00
110 3 0.01
111 3 0.01
112 1 0.00
113 2 0.01
117 36 0.17
119 17 0.08
120 4 0.02
121 5 0.02
122 13 0.06
123 6 0.03
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (104 bp):
ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTATATGAATTTAATAAAATCATAATAT
ATAATACTATAAAATATAATTTAAAATAATTATTATTAA
Found at i:24343249 original size:18 final size:17
Alignment explanation
Indices: 24343224--24343261 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
24343214 AATTATTATT
*
24343224 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
24343241 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
24343259 AAA
1 AAA
24343262 TTTTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:24343281 original size:120 final size:121
Alignment explanation
Indices: 24343004--24343378 Score: 375
Period size: 120 Copynumber: 3.1 Consensus size: 121
24342994 TTATTATTAA
*
24343004 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTT
1 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTT
* * ** * * * **
24343069 AATAAAATCATAATATATAATACTATAAAATATAATTTAAA-ATAA-TTATTATTAA-
66 ACTAAAATCATAATATAT-TTAAAAT-AATTATTATTTAAATATAATTTAATAAAAAT
24343124 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTT
1 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTT
* *
24343189 ACTAAAATCATAATATATTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAAT
66 ACTAAAATCATAATATATTTAAAATAATTATTATT-TAAATATAATTTAATAAAAAT
* * * * *
24343246 ATATAATTTAAT-AAAATTTTTAATATT-A-AATATTCTTAGA-ATTTACTAA-AATCAT-AAT-
1 ATATAATTTAATAAAAATATATAAT-TTAATAAAATTCTTA-ATA-TTA--AATATTCTTAAATG
* *
24343304 ATATAATACTATAAA--AT-ATA-ATTTAAATTAATTATT-TTTAAATATAATTTAATAAAAAT
61 A-AT-TTACTA-AAATCATAATATATTTAAAATAATTATTATTTAAATATAATTTAATAAAAAT
24343363 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
24343379 TTCTTAATAT
Statistics
Matches: 222, Mismatches: 20, Indels: 28
0.82 0.07 0.10
Matches are distributed among these distances:
117 31 0.14
118 13 0.06
119 22 0.10
120 99 0.45
121 29 0.13
122 23 0.10
123 5 0.02
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (121 bp):
ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTT
ACTAAAATCATAATATATTTAAAATAATTATTATTTAAATATAATTTAATAAAAAT
Found at i:24343364 original size:117 final size:122
Alignment explanation
Indices: 24343200--24343455 Score: 434
Period size: 117 Copynumber: 2.1 Consensus size: 122
24343190 CTAAAATCAT
*
24343200 AATAT-ATTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATT
1 AATATAATTTAAAATAATTATTATTAAAAATATAATTTAATAAAAATATATAATTTAATAAAATT
*
24343264 TTTAATATTAAATATTC-T-TA-GAATTTACTAAAATCATAATATATAATACTATAA
66 CTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAA
* *
24343318 AATATAATTTAAATTAATTATT-TT-TAAATATAATTTAATAAAAATATATAATTTAATAAAATT
1 AATATAATTTAAAATAATTATTATTAAAAATATAATTTAATAAAAATATATAATTTAATAAAATT
24343381 CTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAA
66 CTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAA
24343438 AATATAATTTAAAATAAT
1 AATATAATTTAAAATAAT
24343456 AAAATTTGAA
Statistics
Matches: 129, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
117 53 0.41
118 8 0.06
119 17 0.13
120 51 0.40
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (122 bp):
AATATAATTTAAAATAATTATTATTAAAAATATAATTTAATAAAAATATATAATTTAATAAAATT
CTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAA
Found at i:24343388 original size:221 final size:222
Alignment explanation
Indices: 24342980--24343427 Score: 787
Period size: 221 Copynumber: 2.0 Consensus size: 222
24342970 TAATTTAATC
*
24342980 ATAT-TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
1 ATATATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
24343044 ATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAA
66 ATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAA
24343109 AATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATA
131 AATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATA
24343174 TTCTTAAATGAATTTACTAAAATCATA
196 TTCTTAAATGAATTTACTAAAATCATA
* *
24343201 ATATATTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTTT
1 ATATATTTAAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAAATTCT
*
24343266 TAATATTAAATATTC-T-TA-GAATTTACTAAAATCATAATATATAATACTATAAAATATAATTT
64 TAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATTT
* *
24343328 AAATTAATTATTTTTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
129 AAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
*
24343393 TATTCTTATATGAATTTACTAAAATCATA
194 TATTCTTAAATGAATTTACTAAAATCATA
24343422 ATATAT
1 ATATAT
24343428 AATACTATAA
Statistics
Matches: 217, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
221 144 0.66
222 19 0.09
223 1 0.00
224 53 0.24
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (222 bp):
ATATATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
ATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAA
AATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATA
TTCTTAAATGAATTTACTAAAATCATA
Found at i:24343500 original size:20 final size:20
Alignment explanation
Indices: 24343453--24343491 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24343443 AATTTAAAAT
*
24343453 AATAAAATTTGAATCGATTA
1 AATAATATTTGAATCGATTA
* *
24343473 AATGATATTTGAATTGATT
1 AATAATATTTGAATCGATT
24343492 TGATAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
AATAATATTTGAATCGATTA
Found at i:24344700 original size:19 final size:19
Alignment explanation
Indices: 24344676--24344750 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
24344666 AATTTTTGAG
24344676 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24344695 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24344714 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
* *
24344735 GATATGTAATATTAGA
1 GATATGCAATCTTAGA
24344751 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 33 0.63
21 19 0.37
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24344722 original size:21 final size:21
Alignment explanation
Indices: 24344677--24344739 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
24344667 ATTTTTGAGG
24344677 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
24344696 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
24344717 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
24344738 AT
1 AT
24344740 GTAATATTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:24344757 original size:22 final size:23
Alignment explanation
Indices: 24344729--24344773 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24344719 ATGCAATCTT
24344729 AGATATGA-TATGTAATATTAGA
1 AGATATGATTATGTAATATTAGA
* *
24344751 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATATTAGA
24344774 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATATTAGA
Found at i:24344783 original size:22 final size:23
Alignment explanation
Indices: 24344739--24344783 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24344729 AGATATGATA
*
24344739 TGTAATATTAGAAGATATGATTT
1 TGTAATATTAGAAGATATAATTT
* *
24344762 TGTAATCTTAG-AGATTTAATTT
1 TGTAATATTAGAAGATATAATTT
24344784 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATATTAGAAGATATAATTT
Found at i:24346191 original size:98 final size:98
Alignment explanation
Indices: 24346085--24346279 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
24346075 TTTAAATAAT
* * *
24346085 AAAGGAAATATTTCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCT
1 AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
24346150 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGA
66 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGA
*
24346183 AAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
1 AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
24346248 TAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TAAATCTTGGATAAGTGGATGTTCTTTTAAAG
24346280 TTTTATTGTA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (98 bp):
AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
TAAATCTTGGATAAGTGGATGTTCTTTTAAAGA
Found at i:24349028 original size:50 final size:50
Alignment explanation
Indices: 24348913--24349161 Score: 282
Period size: 50 Copynumber: 4.8 Consensus size: 50
24348903 GATAATAACA
* * ** * *
24348913 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
24348964 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * **
24349014 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
24349064 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* * *
24349119 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
24349162 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
50 92 0.55
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:24349099 original size:100 final size:102
Alignment explanation
Indices: 24348912--24349162 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 102
24348902 TGATAATAAC
*
24348912 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA---TCTCTTGTTGGTGCCCATGCCATG
* *
24348977 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
63 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
24349014 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTGT-T-GGTGCCCATGCCATGT
24349078 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
64 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
**
24349119 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCTCTT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTT
24349163 TACCCAAATG
Statistics
Matches: 133, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
98 6 0.05
99 1 0.01
100 44 0.33
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (102 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTGTTGGTGCCCATGCCATGTCC
CAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:24353018 original size:1 final size:1
Alignment explanation
Indices: 24353012--24353059 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
24353002 GTTTAGATTC
* * * * *
24353012 AAAAAAAAAAAAAAAAACAAAACACAAAACAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24353060 GGAAAAGTGG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:24353065 original size:10 final size:10
Alignment explanation
Indices: 24353012--24353059 Score: 71
Period size: 10 Copynumber: 4.7 Consensus size: 10
24353002 GTTTAGATTC
24353012 AAAAAAAA-A
1 AAAAAAAACA
24353021 AAAAAAAACA
1 AAAAAAAACA
24353031 AAACACAAAACA
1 AAA-A-AAAACA
24353043 AAAAAAAACA
1 AAAAAAAACA
24353053 AAAAAAA
1 AAAAAAA
24353060 GGAAAAGTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.22
10 17 0.47
11 2 0.06
12 9 0.25
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:24354585 original size:132 final size:131
Alignment explanation
Indices: 24354406--24355185 Score: 1232
Period size: 132 Copynumber: 5.9 Consensus size: 131
24354396 CTGCATTGAC
* *
24354406 AGTGGAGCAGATCGAAGATAGCGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
24354471 GTAATTCTACTTCCCTAGGTAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
24354536 GT
130 GT
24354538 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
24354603 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAACA
66 GTAATTCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
24354668 GT
130 GT
24354670 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
24354735 GTAATTCTACTTCCCTGGGCAACAGT-G----GATTGAAGATTTCAGATCTTATTTCCCTAAGCA
66 GTAATTCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
24354795 GT
130 GT
* * *
24354797 ACTGGAGCAGATTGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
24354862 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
24354927 GT
130 GT
24354929 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
24354994 GTAATTCTACTTCCCTGGGCAACAATGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGCA
66 GTAATTCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
*
24355059 AT
130 GT
* * * * *
24355061 AGTGGAGTAGATCGAAGATTGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGTCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * * * * *
24355126 ATAATCCTA-TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 GTAATTCTACT-TCCCT-GGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
24355186 GCAGTTGCAG
Statistics
Matches: 605, Mismatches: 32, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
126 2 0.00
127 117 0.19
128 1 0.00
131 4 0.01
132 474 0.78
133 7 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (131 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
T
Found at i:24354870 original size:259 final size:259
Alignment explanation
Indices: 24354406--24355185 Score: 1222
Period size: 259 Copynumber: 3.0 Consensus size: 259
24354396 CTGCATTGAC
* *
24354406 AGTGGAGCAGATCGAAGATAGCGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
24354471 GTAATTCTACTTCCCTAGGTAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGT-G----GATTGAAGATTTCAGATCTTATCTCCCTAAGCA
*
24354536 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
126 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
*
24354601 CAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAA
191 CAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAA
24354666 CAGT
256 CAGT
24354670 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
24354735 GTAATTCTACTTCCCTGGGCAACAGTGGATTGAAGATTTCAGATCTTATTTCCCTAAGCAGTACT
66 GTAATTCTACTTCCCTGGGCAACAGTGGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
24354800 GGAGCAGATTGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
131 GGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
*
24354865 ATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
196 ATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACAGT
24354929 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
24354994 GTAATTCTACTTCCCTGGGCAACAATGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGCA
66 GTAATTCTACTTCCCTGGGCAAC-A--G--TGGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
* * * * *
24355059 ATAGTGGAGTAGATCGAAGATTGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGT
126 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* * * * * * *
24355124 CAATAATCCTA-TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
191 CAGTAATTCTACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
24355186 GCAGTTGCAG
Statistics
Matches: 482, Mismatches: 27, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
259 249 0.52
260 1 0.00
262 1 0.00
263 2 0.00
264 226 0.47
265 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (259 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGGCAACAGTGGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
ATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACAGT
Found at i:24355154 original size:391 final size:391
Alignment explanation
Indices: 24354408--24355154 Score: 1275
Period size: 391 Copynumber: 1.9 Consensus size: 391
24354398 GCATTGACAG
*
24354408 TGGAGCAGATCGAAGATAGCGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGT
1 TGGAGCAGATCGAAGATAGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
*
24354473 AATTCTACTTCCCTAGGTAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
66 AATTCTACTTCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
24354538 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
131 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
24354603 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAACA
196 GTAATTCTACTTCCCTGGACAACAATGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAACA
* *
24354668 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
261 ATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* * *
24354733 CAGTAATTCTACTTCCCTGGGCAACAGTGGATTGAAGATTTCAGATCTTATTTCCCTAAGCAGTA
326 CAATAATCCTACTTCCCTAGGCAACAGTGGATTGAAGATTTCAGATCTTATTTCCCTAAGCAGTA
24354798 C
391 C
* * *
24354799 TGGAGCAGATTGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
1 TGGAGCAGATCGAAGATAGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
24354864 AATTCTACTTCCCT-GGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
66 AATTCTACTTCCCTAGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
24354928 TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCC
130 TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCC
* *
24354993 AGTAATTCTACTTCCCTGGGCAACAATGGAATAGATTGAAGATTTCAGATCTTATCTCCC-AAAG
195 AGTAATTCTACTTCCCTGGACAACAATGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAA-
* * *
24355057 CAATAGTGGAGTAGATCGAAGATTGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
259 CAATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
* * *
24355122 GTCAATAATCCTA-TCTCCCTAGTCAGCAGTGGA
324 GCCAATAATCCTACT-TCCCTAGGCAACAGTGGA
24355155 ATAGGTTGAA
Statistics
Matches: 334, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
390 6 0.02
391 328 0.98
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (391 bp):
TGGAGCAGATCGAAGATAGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
AATTCTACTTCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGACAACAATGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAACA
ATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
CAATAATCCTACTTCCCTAGGCAACAGTGGATTGAAGATTTCAGATCTTATTTCCCTAAGCAGTA
C
Done.